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The TSZ and Jerad Thread, III — 900+ and almost 800 comments in, needing a new thread . . .

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Okay, the thread of discussion needs to pick up from here on.

To motivate discussion, let me clip here comment no 795 in the continuation thread, which I have marked up:

_________

>> 795Jerad October 23, 2012 at 1:18 am

KF (783):

At this point, with all due respect, you look like someone making stuff up to fit your predetermined conclusion.

I know you think so.

[a –> Jerad, I will pause to mark up. I would further with all due respect suggest that I have some warrant for my remark, especially given how glaringly you mishandled the design inference framework in your remark I responded to earlier.]

{Let me add a diagram of the per aspect explanatory filter, using the more elaborated form this time}

The ID Inference Explanatory Filter. Note in particular the sequence of decision nodes

 

You have for sure seen the per apsect design filter and know that the first default explanaiton is that something is caused by law of necessity, for good reason; that is the bulk of the cosmos. You know similarly that highly contingent outcomes have two empirically warrantged causal sources: chance and choice.

You kinow full well that he reason chance is teh default is to give the plain benefit of the doubnt to chance, even at the expense of false negatives.

I suppose. Again, I don’t think of it like that. I take each case and consider it’s context before I think the most likely explanation to be.

[b –> You have already had adequate summary on how scientific investigations evaluate items we cannot directly observe based on traces and causal patterns and signs we can directly establish as reliable, and comparison. This is the exact procedure used in design inference, a pattern that famously traces to Newton’s uniformity principle of reasoning in science.]

I think SETI signals are a good example of really having no idea what’s being looked at.

[c –> There are no, zip, zilch, nada, SETI signals of consequence. And certainly no coded messages. But it is beyond dispute that if such a signal were received, it would be taken very seriously indeed. In the case of dFSCI, we are examining patterns relevant to coded signals. And, we have a highly relevant case in point in the living cell, which points to the origin of life. Which of course is an area that has been highlighted as pivotal on the whole issue of origins, but which is one where you have determined not to tread any more than you have to.]

I suppose, in that case, they do go through something like you’re steps . . . first thing: seeing if the new signals is similar to known and explained stuff.

[d –> If you take off materialist blinkers for the moment and look at what the design filter does, you will see that it is saying, what is it that we are doing in an empirically based, scientific explanation, and how does this relate to the empirical fact that design exists and affects the world leaving evident traces? We see that the first thing that is looked for is natural regularities, tracing to laws of mechanical necessity. Second — and my home discipline pioneered in this in C19 — we look at stochastically distributed patterns of behaviour that credibly trace to chance processes. Then it asks, what happens if we look for distinguishing characteristics of the other cause of high contingency, design? And in so doing, we see that there are indeed empirically reliable signs of design, which have considerable relevance to how we look at among other things, origins. But more broadly, it grounds the intuition that there are markers of design as opposed to chance.]

And you know the stringency of the criterion of specificity (especially functional) JOINED TO complexity beyond 500 or 1,000 bits worth, as a pivot to show cases where the only reasonable, empirically warranted explanation is design.

I still think you’re calling design too early.

[e –> Give a false positive, or show warrant for the dismissal. Remember, just on the solar system scope, we are talking about a result that identifies that by using the entire resources of the solar system for its typically estimated lifespan to date, we could only sample something like 1 straw to a cubical haystack 1,000 light years across. If you think that he sampling theory result that a small but significant random sample will typically capture the bulk of a distribution is unsound, kindly show us why, and how that affects sampling theory in light of the issue of fluctuations. Failing that, I have every epistemic right to suggest that what we are seeing instead is your a priori commitment to not infer design peeking through.]

And, to be honest, the only things I’ve seen the design community call design on is DNA and, in a very different way, the cosmos.

[f –> Not so. What happens is that design is most contentious on these, but in fact the design inference is used all the time in all sorts of fields, often on an intuitive or semi intuitive basis. As just one example, consider how fires are explained as arson vs accident. Similarly, how a particular effect in our bodies is explained as a signature of drug intervention vs chance behaviour or natural mechanism. And of course there is the whole world of hypothesis testing by examining whether we are in the bulk or the far skirt and whether it is reasonable to expect such on the particularities of the situation.]

The real problem, with all respect, as already highlighted is obviously that this filter will point out cell based life as designed. Which — even though you do not have an empirically well warranted causal explanation for otherwise, you do not wish to accept.

I don’t think you’ve made the case yet.

[f –> On the evidence it is plain that there is a controlling a priori commitment at work, so the case will never be perceived as made, as there will always be a selectively hyperskeptical objection that demands an increment of warrant that is calculated or by unreflective assertion, unreasonable to demand, by comparison with essentially similar situations. Notice, how ever so many swallow a timeline model of the past without batting an eye, but strain at a design inference that is much more empirically reliable on the causal patterns and signs that we have. That’s a case of straining at a gnat while swallowing a camel.]

I don’t think the design inference has been rigorously established as an objective measure.

[g –> Dismissive assertion, in a context where “rigorous’ is often a signature of selective hyperskepticism at work, cf, the above. The inference on algorithmic digital code that has been the subject of Nobel Prize awards should be plain enough.]

I think you’ve decided that only intelligence can create stuff like DNA.

[h –> Rubbish, and I do not appreciate your putting words in my mouth or thoughts in my head that do not belong there, to justify a turnabout assertion. You know or full well should know, that — as is true for any significant science — a single well documented case of FSCO/I reliably coming about by blind chance and/or mechanical necessity would suffice to break the empirical reliability of the inference that eh only observed — billions of cases — cause of FSCO/I is design. That you are objecting on projecting question-begging (that is exactly what your assertion means) instead of putting forth clear counter-examples, is strong evidence in itself that the observation is quite correct. That observation is backed by the needle in the haystack analysis that shows why beyond a certain level of complexity joined to the sort of specificity that makes relevant cases come from narrow zones T in large config spaces W, it is utterly unlikely to observe cases E from T based on blind chance and mechanical necessity.]

I haven’t seen any objective way to determine that except to say: it’s over so many bits long so it’s designed.

[i –> Strawman caricature. You know better, a lot better. You full well know that we are looking at complexity AND specificity that confines us to narrow zones T in wide spaces of possibilities W such that the atomic resources of our solar system or the observed cosmos will be swamped by the amount of haystack to be searched. Where you have been given the reasoning on sampling theory as to why we would only expect blind samples comparable to 1 straw to a hay bale 1,000 light years across (as thick as our galaxy) will reliably only pick up the bulk, even if the haystack were superposed on our galaxy near earth. Indeed, just above you had opportunity to see a concrete example of a text string in English and how easily it passes the specificity-complexity criterion.]

And I just don’t think that’s good enough.

[j –> Knocking over a strawman. Kindly, deal with the real issue that has been put to you over and over, in more than adequate details.]

But that inference is based on what we do know, the reliable cause of FSCO/I and the related needle in the haystack analysis. (As was just shown for a concrete case.)

But you don’t know that there was an intelligence around when one needed to be around which means you’re assuming a cause.

[k –> Really! You have repeatedly been advised that we are addressing inference on empirically reliable sign per patterns we investigate in the present. Surely, that we see that reliably, where there is a sign, we have confirmed the presence of the associated cause, is an empirical base of fact that shows something that is at least a good candidate for being a uniform pattern. We back it up with an analysis that shows on well accepted and uncontroversial statistical principles, why this is so. Then we look at cases where we see traces from the past that are comparable to the signs we just confirmed to be reliable indices. Such signs, to any reasonable person not ideologically committed to a contrary position, will count as evidence of similar causes acting in the past. But more tellingly, we can point to other cases such as the reconstructed timeline of the earth’s past where on much weaker correlations between effects and putative causes, those who object to the design inference make highly confident conclusions about the past and in so doing, even go so far as to present them as though they were indisputable facts. The inconsistency is glaringly obvious, save to the true believers in the evo mat scheme.]

And you’re not addressing all the evidence which points to universal common descent with modification.

[l –> I have started form the evidence at the root of the tree of life and find that there is no credible reason to infer that chemistry and physics in some still warm pond or the like will assemble at once or incre4mentally, a gated, encapsulated, metabolising entity using a von Neumann, code based self replicator, based on highly endothermic and information rich macromolecules. So, I see there is no root to the alleged tree of life, on Darwinist premises. I look at the dFSCI in the living cell, a trace form the past, note that it is a case of FSCO/I and on the pattern of causal investigations and inductions already outlined I see I have excellent reason to conclude that the living cell is a work of skilled ART, not blind chance and mechanical necessity. thereafter, ay evidence of common descent or the like is to be viewed in that pivotal light. And I find that common design rather than descent is superior, given the systematic pattern of — too often papered over — islands of molecular function (try protein fold domains) ranging up to suddenness, stasis and the scope of fresh FSCO/I involved in novel body plans and reflected in the 1/4 million plus fossil species, plus mosaic animals etc that point to libraries of reusable parts, and more, give me high confidence that I am seeing a pattern of common design rather than common descent. This is reinforced when I see that ideological a prioris are heavily involved in forcing the Darwinist blind watchmaker thesis model of the past.]

We’re going around in circles here.

[m –> On the contrary, what is coming out loud and clear is the ideological a priori that drives circularity in the evolutionary materialist reconstruction of the deep past of origins. KF]>>

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GP at 796, and following,  is also a good pick-up point:

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>>796

  1. Joe:

    If a string for which we have correctly assesses dFSCI is proved to have historically emerged without any design intervention, that would be a false positive. dFSCI has been correctly assessed, but it does not correspond empirically to a design origin.

    It is important to remind that no such example is empirically known. That’s why we say that dFSCI has 100% specificity as an indicator of design.

    If a few examples of that kind were found, the specificity of the tool would be lower. We could still keep some use for it, but I admit that its relevance for a design inference in such a fundamental issue like the interpretation of biological information woudl be heavily compromised.

  2. If you received an electromagnetic burst from space that occurred at precisely equal intervals and kept to sidereal time would that be a candidate for SCI?

  3. Are homing beacons SCI?

  4. Jerad:

    As you should know, the first default is look for mechanical necessity. The neutron star model of pulsars suffices to explain what we see.

    Homing beacons come in networks — I here look at DECCA, LORAN and the like up to today’s GPS, and are highly complex nodes. They are parts of communication networks with highly complex and functionally specific communication systems. Where encoders, modulators, transmitters, receivers, demodulators and decoders have to be precisely and exactly matched.

    Just take an antenna tower if you don’t want to look at anything more complex.

    KF>>

__________

I am fairly sure that this discussion, now in excess of 1,500 comments, lets us all see what is really going on in the debate over the design inference. END

Comments
petrushka:
Gpuccio is arguing that because no one has completed the painstaking research to find the history of protein domains, such histories cannot exist.
Mung:
That is incorrect. The painstaking research is in. That’s what allows us to identify the protein superfamilies. It is that same painstaking research which allows us to say that the intermediates are missing.
http://theskepticalzone.com/wp/?p=1450&cpage=6#comment-19021 Mung
If biology was asked to avoid these implicitly semiotic terms it would have a hard - and probably impossible - job of explaining function. The theoretical issue at stake here is that in biology empirical facts are always contextually constrained.
It is an accepted truth in biology that structure and function are interdependent, e.g., a biological explanation is incomplete even if you have exhaustively described the production and the structure of a macromolecule in a cell. There is still a missing feature of the explanation - we still need an answer to the question: "what is it for?" Answering this question is part of the functional contextualization that all biological facts require.
Most of the predictive power of biology is lost if semio-functional analysis is excluded.
Towards A Semiotic Biology: Life is the Action of Signs Mung
LOL :D Genomicus
Reductionism has the ability to lose sight of our important biological context.
Context? What context? We don't need no stinking context. Mung
Mike Gene criticizes Keefe and Szostak for using evolutionary modelling to concentrate functionality. Not convincing! Mike says “The function uncovered by this paper is very weak ATP-binding”. Sounds like and, in fact, is “what good is half an eye”.
Let's look at this a bit closer. Mike Gene suggests that there are two fundamental flaws with the study which would invalidate Keefe and Szostak's conclusions. Firstly: "The experiment starts out fine. They generate 6 x 10^12 random proteins, incubate with an ATP-agarose affinity matrix, wash off the unbound material, retrieve the bound material, and then use the bound material to start the cycle over again. Basically, they are purifying this random population such that only those sequences that bind ATP remain. After eight rounds of this cycle, the fraction of ATP binders rose from 0.1 to 6.2%. At this point, the researchers decided to take a look at the sequences that were binding and found the binders to be dominated by four distinct families of proteins (none show similarity to each other or any other biological protein). This, however, is not all that impressive, because it basically means that these four classes of ATP-binders bound ATP very weakly (in other words, the binders were about 20 times more likely to exist in an unbound state than bound to ATP). In fact, the researchers themselves noted, "One possible explanation for this low level of ATP-binding is conformational heterogeneity, possibly reflecting inefficient folding of these primordial protein sequences." At this point, the researchers switched gears. They used PCR to introduce point mutations into the binders for 3 consecutive rounds, at a mutagenic rate of 3.7% per amino acid for each round. After these three cycles of mutagenesis [3], the researchers went back to the original procedure. But in my opinion, this is cheating the "entirely stochastic means." When point mutants are introduced, most of the protein sequence is held constant so that we can then sample in the nearby area. Furthermore, because of the nature of the genetic code, the search was no longer truly random." In other words, in the second stage of the study, the researchers were not following a strictly Darwinian model. Now, you say that:
Mike says “The function uncovered by this paper is very weak ATP-binding”. Sounds like and, in fact, is “what good is half an eye”.
Yet you ignore the rest of his paragraph, and for a very good reason. It very succinctly demonstrates that this study is hardly relevant to biological reality: "In biology, a function usually looks like this: X is modified by Y such that X now modifies Z. In other words, there is a consequence entailed by function. Yet there is no consequence in the proteins described in this paper - they simply weakly bind ATP. Reductionism has the ability to lose sight of our important biological context. Of course, at the core, all proteins basically do is bind things. Even enzyme catalysis is about the binding of transitional states. But to view proteins as mere binders is like viewing carpentry as merely nailing boards together. In biology, what matters is not merely binding, but how things bind, where things bind, and when they bind. What matters is the context of binding. And it is not surprising that Nature paper does not describe ATP hydrolysis activity of these proteins. That would entail not just binding ATP, but also the specificity required to position the substrate so that it could bind another network of amino acids that position themselves to stabilize the transitional state. Thus, to bring this paper into a position where it is relevant to "living organisms", we have to go back to the drawing board and demonstrate the following: Starting with a random pool of polypeptides, isolate proteins that both specifically bind and hydrolyze ATP. But even this would not be sufficient, as ATP hydrolysis by itself is not important to biology (in fact, it is simply an energy sink)." And he goes on. You need to confront the actual arguments instead of hand-waving them away. Genomicus
F/N: When we suggest a particular cause of a trace from ther unobserved deep past, it is a minimum requirement, that the suggested cause be observed to be able to cause the effect, for it to be acandidate. Absent such, we are really just dealing with just so stories. FSCO/I has been -- routinely -- observed produced by design, and ONLY been obsereved as produced by design. In addition, we see good reason to observe that it is all but impossible for chance to explain such a contingent object when the info content is beyond 500 - 1,0000 bits. Against that, we are in effect told that [macro-] evolutuion as the explanation for the world of life is a "FACT,' to the point where we are told by a leading spokesman, Dawkins, that if you question such, you are tantamount to being equivalent to a holocaust denier. All in a context where this outrageous ad hominem by invidious association is being used to cover up a basic, blatant fact: we do not see FSCO/I coming from blind chance and mechanical necessity. When things go to this level, it is patent that this is materialist ideology we are dealing with not science. KF kairosfocus
Alan Fox: this is getting repetitive. Indeed! Like in: Points I have repeatedly made and you have repeatedly avoided to comment upon: 1) The Szostak paper is a lie. He finds weak chemical affinities for ATP in a random library (which could never be considered functional in any context) and without analyzing the original sequences in the random library, he enters those sequences into cycles of mutations and intelligent selection for ATP binding. Then he analyzes the final, engineered protein (which, however, is still not functional in any context, but now has strong linking to ATP and some folding), and concludes with the amazing lie that functional sequences can be found in a random library. That darwinists still quote this shameful paper in support of their views is a clear sign of how little they respect truth. 2) The McLaughlin paper, instead, is fair and interesting. But its results are in complete accord with the ID views, and certainly do not support in any way the idea that bridges exist between functional islands. 3) That protein superfamilies are completely isolated at sequence level is a very well known fact. That no functional bridge has ever been found between them is a very well known fact. How do you feel about these facts. Can you honestly say that we know nothing about protein functional space? Do you approve of simply ignoring what is known, because it is not in support of what you desire? However, Merry Christmas and Happy New Year to you from my heart. You are a fair interlocutor, and I appreciate your contributions. gpuccio
Alan Fox:
You know, that is simply a version of “evolutionary theory is wrong about X so ID wins”.
And you know that your position has nothing so you are forced to lash out at ID with your ignorance. Merry Christmas and Happy New Year, indeed... Joe
SF: I forgot, you suggest: "evolutionary theory is wrong about X so ID wins." Strawman, and in the teeth of the often presented summary of inference on observed and reliable signs. The design inference is not simply a dismissal of the claimed powers of evolutionary mechanisms -- BTW, how do such Darwinist mechanisms operate in the warm little pond or the like chemical-physical system BEFORE there is reproducing life (where hypothetical self-replicating molecules do not count) -- but a positive inductive inference on the identified, reliably known cause of FSCO/I. Something that is as common as writing posts in this thread. The insistence on strawman caricatures in the teeth of evidence and reasoning to the contrary inadvertently supports the point that there is no evo mat observational base for spontaneous origin of life, and that there is no base for the chance variation and differential reproductive success based origin of novel body plans, beyond the eye of darwinist faith and huge extrapolation. KF kairosfocus
"Change one letter in a sentence and it usually still means something. Therefore you should get similar results by just typing out random gibberish. Or at least, you can't argue you wouldn't because we haven't studied that yet." englishmaninistanbul
AF: With all due respect, what part of "In the natural proteome, superfamilies are completely separated at sequence level" is it that is so hard to see for what it says? As in, OBSERVED large and unbridged Hamming distances between clusters of somewhat sequence-similar AA chains that occur in nature. Those are observed islands in the space of possible AA sequences, and in significant numbers. The issue being that while one may argue for incremental changes within the island, in the gaps we are looking at large zones with no observed function and no possibility of incremental heightened success or performance to appeal to; thus the isolation challenge surfaces. In addition, the recent paper is about incremental changes in and around such islands of observed function, and with so many cases where one-step changes destroy function, that is revealing already. Where also, this is not a survey of the abundance of function in the space of AA chain possibilities as a whole. In answer you are being dismissive of and resistant to observed facts, which is absolutely telling. KF kairosfocus
We know quite well how rare they are in the space we know. In the natural proteome, superfamilies are completely separated at sequence level. And nobody has ever shown any connection. These are facts, and ignoring them only because they are uncomfortable for your dogmas is not a good scientific attitude at all.
You know, that is simply a version of "evolutionary theory is wrong about X so ID wins". We should wait for further data as this is getting repetitive. Merry Christmas and Happy New Year. Alan Fox
Mike Gene criticizes Keefe and Szostak for using evolutionary modelling to concentrate functionality. Not copnvincing! Mike says "The function uncovered by this paper is very weak ATP-binding". Sounds like and, in fact, is "what good is half an eye". Alan Fox
Keefe and Szostak only looked at ATP binding, so, yes, their approach was limited but it was certainly not worthless.
Yes, but their study was hardly relevant to biological reality. See Mike Gene's critique of that study here: http://web.archive.org/web/20080517131415/http://www.idthink.net/biot/ranprot/index.html Genomicus
Alan Fox: They took a protein and varied each amino acid using the twenty coded residues. They found quite a lot of functionality. Let's say things as they are. They explored the space one step distant from the functional protein. Of course they found a lot of functionality. What did you expect? And, even so close to the original protein, for 20 sites even one substitution was essentially fatal to function. And this would be an argument against the "islands of functions" model? Sometimes I really wonder how much darwinists have lost any connection with reality! Keefe and Szostak only looked at ATP binding, so, yes, their approach was limited but it was certainly not worthless. It was simply a lie. They used intelligent selection (various runs of mutagenic PCR followed by selection of ATP binding variants) and considered the results as indicators of what randomness can do. The usual trick. The usual lie. Absolutely unforgivable, in a scientific paper. And your side still uses that lie for its propaganda. You too. It’s a signpost that points away from “islands of function”. It's simply a signpost of what should never be done in a scientific paper. It is a signpost of ideology in science. Nothing else. It would be currently correct to say we don’t know how rare potentialy biologically active proteins are in sequence space We know quite well how rare they are in the space we know. In the natural proteome, superfamilies are completely separated at sequence level. And nobody has ever shown any connection. These are facts, and ignoring them only because they are uncomfortable for your dogmas is not a good scientific attitude at all. but Keefe and Szostak and McLaughlin et al are providing insights. All of them in favor of the ID scenario, when they do not lie. And you forgot Axe and Behe, strangely. More will follow, no doubt. They will, they will. And the truth will become so clear that not even darwinists will be able to deny it. gpuccio
Joe: It seems OT has missed a few points: 1 --> There now are cell based living things, but we are confident on many lines of evidence that the cosmos and planet on which we observe such has not always existed. Therefore there was -- on evidence -- a first cell based living organism. 2 --> Cell based life forms exhibit metabolism and replicate using coded information and molecular nanomachines. This being the only observed form of fully functional biological life, we have good reason to infer on observed life forms and fossils that such have characterised the world of life from its beginning on this planet. Again, on evidence. 3 --> We did not and cannot directly observe the actual origin of cell based life forms, as it is in the unobserved remote past. This constrains all investigations, so it is unfair to imagine or suggest that it applies ot only one approach, to use it to try to dismiss it. 4 --> In scientific reconstructions of unobserved events, we normally examine traces in the present and compare such to known causal factors that we can see may or do leave similar consequences. Where some of these -- say, S -- are characteristic of a given cause of type X, we are entitled to infer that S is a sign of X. For instance, the spectrum of the sun leads us to infer its chemical composiiton, and the same for stars. Similarly, an arson investigation often pivots on signs of arson such as traces of accelerant and fires that propagate in ways characteristic of such. (As just happened here, unfortunately>) 5 --> It so happens that functionally specific complex information and associated organisation, especially symbolically coded info beyond 500 - 1,000 bits is welll known to be a characteristic sign of design as cause. There are billions of cases in point, and there are no credible counter examples, Genetic Algorithms and the like being actually plainly intelligently designed. 6 --> The living cell we observe today, and per reasonable inference, those form the remote past of life, have abundant FSCO/I. This includes digital coded messages well beyond 500 - 1,000 bits. Indeed the estimates for the minimally complex life would point to 100 - 1,000 kbits as reasonable as the minimum. This too is evidence. 7 --> So, we have excellent evidence based reason to infer that the best explanation for the world of cell based life is design. Which is a well known and easily observed mechanism that has created the world of information based technologies we use every day. Indeed, with the work of Venter and others in recent years, we see that known or reasonably developed lab techniques can arguably be a way in which such could have been done. ====== Thus, the "no evidence" talking points being resorted to are obviously selectively hyperskeptical and show what OT would wish to be so rather than what is so. They are a mark of desperation not to see what evidence is manifestly there, to refuse to be consistent in methods of empirical investigation and inference, and to insist that a predetermined ideological materialist conclusion be chosen, never mind that the evidence strongly points in another direction. KF kairosfocus
Progress- omtwo is finally catching on (with a little fix included):
You haven’t a clue about how the first replicator was designed "evolved", if there ever was a first replicator. And if there was a first replicator you have no clue whether it was capable of Intelligent Design blind watchmaker evolution. Given the nature of your evidence-free theory you can pretty much say anything you like, but that doesn’t make it so. If you had evidence which favored your position you would present it. If you believe my pointing out the lack of evidence for your claims is impeding the discussion I could really care less. Without evidence what’s to discuss?
He nails it- his position doesn't have any evidence so he has nothing to discuss.... Joe
Alan Fox:
They took a protein and varied each amino acid using the twenty coded residues.
One at a time and never more than one. No one on the ID side said that all proteins were fixed and couldn't toerate variation. But all that is moot because Alan's position cannot account for any proteins. And they sure as heck cannot account for chaperones. Joe
I suppose you would also be surprised to hear that cells self-replicate.
You suppose no such thing. I doubt you could even give a bogus explanation of how such a supposition might arise in your consciousness. That would surprise me. ;) Alan Fox
Alan Fox:
Obvious that cells are self-aware? We must mean different things when we use the word “self-aware”!
I suppose you would also be surprised to hear that cells self-replicate. Mung
I would have thought this rather obvious.
Obvious that cells are self-aware? We must mean different things when we use the word "self-aware"! Alan Fox
Not so. The MacLaughlin paper, as I have said, only tells us how sensitive a protein is to a simple step in a random walk, and is compatible with a very high functional complexity even in a very short protein sequence.
They took a protein and varied each amino acid using the twenty coded residues. They found quite a lot of functionality. What basis is there for prejudging unknown sequences with regard to functionality? None! So we have no reason to think functionality is less widespread elsewhere in unknown protein sequences.
The Szostak paper is, as I have shown many times, only a false argument which shows the limited capabilities of RV + intelligent selection, and as often happens in the darwinist field explicitly lies in its conclusions.
Keefe and Szostak only looked at ATP binding, so, yes, their approach was limited but it was certainly not worthless. It's a signpost that points away from "islands of function".
The “haystack crammed with needles” exists only in your imagination, and is not supported by anything.
It would be currently correct to say we don't know how rare potentialy biologically active proteins are in sequence space but Keefe and Szostak and McLaughlin et al are providing insights. More will follow, no doubt. Alan Fox
Alan Fox:
You think cells are self-aware?
I would have thought this rather obvious. Mung
Alan, what happens to a protein that does not fold correctly?
It sometimes causes CJD (Creutzfeldt–Jakob disease). Alpha-helices to beta-sheets.
Even a dumb cell is smart enough to know that there are islands of function.
You think cells are self-aware??? Alan Fox
Alan Fox: But, where this has been done, functionality turns up, as shown in the McLaughlin paper and previously by Jack Szostak. The haystack is crammed with needles! Not so. The MacLaughlin paper, as I have said, only tells us how sensitive a protein is to a simple step in a random walk, and is compatible with a very high functional complexity even in a very short protein sequence. The Szostak paper is, as I have shown many times, only a false argument which shows the limited capabilities of RV + intelligent selection, and as often happens in the darwinist field explicitly lies in its conclusions. The "haystack crammed with needles" exists only in your imagination, and is not supported by anything. I doubt it will remain so. It will not. gpuccio
It’s strange that darwinists always stress so much how difficult it should be to measure the topology of the protein space, while we IDists are so confident that it can and will be done soon.
The fact is predicting the possible functionalities of novel proteins without synthesis and testing is currently beyond our capabilities. I doubt it will remain so. It is about time ID proponents contributed some efforts as you suggest. It would be worth the effort. Alan Fox
gpuccio Thanks for the response. You write:
But when we look, we find functionality. It’s unjustifiable to claim functionality is rare.
Dream on. Indeed, if that were true, it should be very easy to find in the lab those functional, selectable intermediates which would explain the origin of protein domains. And protein engineering should be a piece of cake.
What do you mean by protein engineering? We can synthesize protein sequences routinely. What we can't do is predict the functionality of novel proteins. The only way to establish the functionality of a novel protein is to make it and test it (rather after the fashion of variation and selection ;) ) But, where this has been done, functionality turns up, as shown in the McLaughlin paper and previously by Jack Szostak. The haystack is crammed with needles! Alan Fox
gpuccio,
Statistical coupling analysis (SCA) is a quantitative approach for understanding the information content of protein sequences through a generalization of the principle of evolutionary conservation.
Are you familiar with this technique? Any comments? Cheers Mung
kf, yes, thanks. I thought of that but hoped we could be casual enough to ignore those details, lol.
Amino acids are covalently bonded together in chains by peptide bonds. If the chain length is short (say less than 30 amino acids) it is called a peptide; longer chains are called polypeptides or proteins.
So let's call it a peptide or polypeptide then. Anyways, the point being, does the cell just let these non-folding non-functional chains accumulate? Or are they so rare as to never be seen? Or are they recycled so the parts can be put to use? Mung
Alan Fox: You really can’t extrapolate like this. We don’t know what is out there. It was Petrushka who proposed the paper (which is indeed interesting). I was only trying to make sense of it. But when we look, we find functionality. It’s unjustifiable to claim functionality is rare. Dream on. Indeed, if that were true, it should be very easy to find in the lab those functional, selectable intermediates which would explain the origin of protein domains. And protein engineering should be a piece of cake. Experiment shows the opposite. No. The honest thing is to to say we don’t know about unknown sequences until we synthesize and try them. No. There are many other approaches. That paper is one of them. I have suggested ways to deepen the research on that line. Axe has worked in other ways. Maybe, in the future, we can develop a method of predicting emergent properties of new proteins. That day has not yet arrived. It's strange that darwinists always stress so much how difficult it should be to measure the topology of the protein space, while we IDists are so confident that it can and will be done soon. What does that say of the subconscious convictions of both? gpuccio
And protein folding is assisted by chaperones- and yes I know that not all proteins require chaperones to fold Joe
Mung: Generally speaking, if it does not fold [the first step to function], it is not a protein. KF kairosfocus
Operational definition? Natural selection is differential reproduction DUE TO heritable, random (as in chance/ happenstance) variation(s). Stuff that in your program and see what happens. Just remember that in the real worl we can have differential reproduction that is NOT due to heritable, random variation, so you also have to include that in your program. Good luck with that... Joe
I just loved petrushka's response to my WEASEL challenge:
Give us an operational definition of natural selection, so we will know what to shoot for.
Man does that ever bring back memories. Anyone want to help me develop an operational definition of natural selection that they can use in their programs? Apparently their theory lacks one. Mung
Alan, what happens to a protein that does not fold correctly? Even a dumb cell is smart enough to know that there are islands of function. Mung
You really can’t extrapolate like this. We don’t know what is out there. But when we look, we find functionality. It’s unjustifiable to claim functionality is rare.
Whenever we look at functional proteins, we find function! You can't argue that there are non-functional proteins!
It’s unjustifiable to claim functionality is rare. Experiment shows the opposite.
Would that be experiments with functional proteins? Yes, he can extrapolate like that. And the fact taht we don't know all the possibilities means you can't say it's unjustifiable. It would be unjustifiable if we knew it was false. But we have many reasons to believe it's not false. Mung
PS Though I am more inclined to read the more focused comments. The scatter gun approach makes my scroll finger twitch. Alan Fox
Hi Mr M, I don't feel constrained to respond to every minor point in every comment by any poster. Nor am I the ambassador for atheist materialism. I'm just, like you, some random internet addict commenting as the mood takes him. Alan Fox
Mr Fox, Good afternoon. I trust you are dealing with the tone and substantial matters you face above. KF kairosfocus
Now, this is only the extremely close space. The paper tells us nothing about the function reduction with more than one mutation. It is obvious that, the farther we go from the wild sequence, the more likely it is to lose function.
You really can't extrapolate like this. We don't know what is out there. But when we look, we find functionality. It's unjustifiable to claim functionality is rare. Experiment shows the opposite. The honest thing is to to say we don't know about unknown sequences until we synthesize and try them. Maybe, in the future, we can develop a method of predicting emergent properties of new proteins. That day has not yet arrived. Alan Fox
keiths can't seem to make up his mind about whether the paper is even relevant. ;) Mung
Mung and Petrushka: I am evaluating the paper. I wanted more time to study it in depth, but as "the discussion must go on", I will offer some first ideas, very briefly. The paper can be considered as an evaluation of the functional space immediately around a functional protein. IOWs, the authors have evaluated, by an indirect functional test, all the sequences that differ from the functional proteins for only one aminoacid. While most of these mutations are compatible with function, at least 20 sites are extremely sensitive to mutation, even of a single aminoacid. Now, this is only the extremely close space. The paper tells us nothing about the function reduction with more than one mutation. It is obvious that, the farther we go from the wild sequence, the more likely it is to lose function. IOWs, here we are evaluating a random walk of one step only. However, if we assume that the 20 sites that are sensitive to single substitutions can be a starting point to evaluate a minimal functional complexity, and assuming that those 20 aminoacids must be exactly as they are, we would have a minimal functional space of about 86 bits. Which is not small at all. And this is only a minimal value, derived from the mutational sensitivity to single mutations. Now, it would be interesting to test a random library where all aminoacids can freely vary, except for the 20 "fixed" ones. How many of the random sequences retaining the basic 200 AAs would still be functional? That is a very interesting question, and not beyond experimentation. Another interesting approach could be to apply Durston's method to this family of sequences. In Durston's paper, the sequences of comparable length have a minimal functional complexity of 123 bits (for a length of 80 AAs, Phage Integr N-dom). So, I believe that the results of this paper can be very much in potential accord with Durston. Obviously, the suggestion, so transparent in the darwinist field, that this paper would demonstrate that proteins are extremely stable to mutations, is simply wrong and silly. Again, a sequence of 20 AAs out of 83 which cannot practically be changed by a single mutation without losing the function means exactly the opposite. gpuccio
I've asked repeatedly for a specific ID argument that someone has made using the 'islands of function' concept. So far keiths refuses to provide any. And this at a site that appears to pride itself on their ability to provide evidence for their claims. It's clear they don't understand the argument, keiths chief among them. Mung
keiths is having a hissy-fit because Mung is using their tactic they used against Upright Biped's semiotic argument against keiths' island argument:
Your recent comments indicate that you still have no idea what this thread is about. Everybody else seems to get it, but for some reason you still don’t. I’m interested in engaging with opponents who actually understand the topic of discussion and are capable of presenting a coherent counterargument. You seem unable to do either of those things, whether through a lack of will, a lack of ability, or both. The material is out there if you are willing to make a serious effort and are able to learn, but I’m not willing to spoon-feed it to you or to turn this thread into a remedial course. Please make an effort, and while you’re at it, stop blaming us for your shortcomings.
It's a thing of beauty it is. Nice job Mung. Everything keiths said can be said by any ID opponent to any of the TSZ regulars pretty much at any time. Joe
These people just don’t give up.
Very similar to brain-dead zombies. It must be via common ancestry. Joe
lol. WEASEL is back. These people just don't give up. OMTWO:
Explain what WEASEL is in your own words, and what it is intended to demonstrate.
WEASEL is a computer program written by Richard Dawkins as an exercise in demonstrating the “power of cumulative selection” in which strings of characters are copied and mutated and then compared to a target phrase with those strings which more closely resemble the target phrase being selected to seed the next round, repeating the process until a string exactly matching the target phrase is found. There are various other versions of it in many different programming languages freely available on the internet. It’s a fine example of the power of intelligent selection, though that’s hardly what Dawkins intended to demonstrate with it. When your side comes up with a version of it that uses natural selection, rather than intelligent selection, we can compare the differences in “power” and answer petrushka’s question. Get busy. :) Please. Mung
Alan Fox:
I consider it your absolute right to reject scientific theories if they conflict with your religious dogma.
We don't reject scientific theories. Ya see evolutionism is not a scientific theory.
I still am unaware of any coherent exposition of a theory of “Intelligent Design”.
And we are still unaware of any coherent exposition of evolutionism. So please, enlighten us so that we can enlighten you- meaning we need to know what you will accept, otherwise you can just keep saying "that ain't good enough" for everything we tell you. So please ante up a testable hypothesis along with positive evidence for unguided evolution. Joe
Mr Fox: Pardon, you are playing at tangent games and well-poisoning again. On the table is a false accusation on your part of dishonesty on my part, which you refuse to address on the merits. And that is before you get on to the actual state of the evidence and reasoning in the book by Dawkins you touted; in which he showed demonstrably discrediting ignorance of what empirically based investigations can warrant on the deep, unobserved past, multiplied by a tendency to construct agenda-serving just so stories imagined to be "fact" and to erect and knock over ad hominem laced strawman caricatures of objections and objectors, poisoning the atmosphere for discussion. If it were not so tragic, it would be laughable that you are evidently unable to see that your a priori evolutionary materialism (or one of its symbiotes or parasites) has led you to project that WE are scientific (duly dressed up in holy lab coats and all) but YOU are spouting religious bigotry and superstition or the near like. (Not to mention, that this is all going on while you freely comment here at UD without moderation. Just think about the behaviour at hate sites that your irresponsible behaviour is enabling even as we speak.) The pivotal issue epistemologically and thence scientifically, is what can we reasonably warrant about an unobserved deep past, whether or not that is conducive to materialist origins myth-making. And, per Newton's rules (which are glorified common sense backed up by vast experience in science), what we can do is find and look at the traces of the past then look for key defining aspects. Then, we can investigate in the present processes and causal factors that produce like results, that are further backed up by empirical investigations on what is a reliable sign of what causal factor. That leads to a clarification of the common investigatory methods used in science as taught to generations, and it points to a priority on explanation by mechanical necessity, then by chance based statistically distributed possibilities, then by design where we find signs such as FSCO/I. A star such as our sun can be explained on the first two as a second generation, G2 middle aged H-ball undergoing fusion, about half way through its main sequence lifespan. That makes the earth plausibly about 4 - 5 BY old, and it is reasonable to hold -- equally provisionally [science provides weak-form knowledge, not epistemic certainty] -- that the observed cosmos may be about 13.7 BY old. But such does not go a long way to help out the sort of models that need to explain the digital code and nanotech systems in cell based life, or why we live in a cosmos that is fine tuned in dozens of ways such that the first four elements are H, He, O and C, with N close to the top. That is, our cosmos is set up to manufacture the key ingredients of C-chemistry watery medium, cell based life. And it produces terrestrial planets in Galactic and solar system habitable zones, too, as we live on one. FSCO/I, whether you and your ilk like it or lump it, is an empirically reliable, tested in billions of cases, sign of design as relevant cause. And, design is a mechanism, like it or lump it, one that is studied in schools of engineering all the time. Indeed, for years, Mr Dembski and others have pointed to a whole theory of inventive problem solving, TRIZ. Yes, it would be nice to have the resources to construct a whole research programme on origins. That is not in hand as yet. What we do have in hand are some highly significant, restricted range findings that point out that the dominant story of origins, often presented as "fact" is false and ill-grounded to the core, as a grand scope explanation. That is very important, to learn what we do NOT know. And, it is hard to admit, especially when there are huge vested interests deeply invested in the dominant story. But, just as the Climate game is quite plainly up in the aftermath of the Climate-gate revelations [a case where computer models substituted for empirical reality, and led us into all sorts of confusions], slowly but surely, it is becoming evident that the evolutionary materialist emperor leading the parade has no clothes on. KF kairosfocus
Oops Back in 2005, when I first heard about ID, I was directed to... Alan Fox
Mr Fox: Sorry, that dog won’t hunt.
I think you have me confused with someone else. I am not a proselytizer for evolutionary theory. I consider it your absolute right to reject scientific theories if they conflict with your religious dogma. I am still curious about "Intelligent Design". Paul Nelson is credited with the following:
Easily the biggest challenge facing the ID community is to develop a full-fledged theory of biological design. We don’t have such a theory right now, and that’s a problem. Without a theory, it’s very hard to know where to direct your research focus. Right now, we’ve got a bag of powerful intuitions, and a handful of notions such as ‘irreducible complexity’ and ‘specified complexity’-but, as yet, no general theory of biological design.
Back in 2005, I first was directed to sites about ID, among them Uncommon Descent - then still Bill Dembski's personal blog - and naively registered and asked in a comment what actually was the theory of ID. My comment never appeared and my registration was erased. It took a few attempts to re-register before I realised I was IP banned. I still am unaware of any coherent exposition of a theory of "Intelligent Design". Alan Fox
So omtwo ramps up the lies:
Yet ID supporters make the argument all the time that if “my side” is wrong the only alternative is ID. Don’t you actually read the other posts at UD? Perhaps you should point that out to Joe next time he says it, for one.
Next time? I never said it so how can there be a "next time"? As I have said not only do we have to eliminate necessity and chance, ie your side, there also has to be some specification, ie the positive criteria, before reaching a design inference. Joe
And we have another projector boy- omtwo:
When he has some *evidence* then perhaps his “argument” will be a little *more* compelling.
Exactly! When you have some evidence for your position then perhaps 1) you will have an argument and 2) people may find it a little more compelling than your bald assertions Joe
Mr Fox: Sorry, that dog won't hunt. Twice over. First, let us note the title of the paper you linked:
De Novo Designed Proteins from a Library of Artificial Sequences Function in Escherichia Coli and Enable Cell Growth
Did you notice that the proteins were designed to be proteins, i.e. not just random AA sequences? Notice, what the abstract goes on to say: Our collection of proteins was drawn from a combinatorial library of 102-residue sequences, designed by binary patterning of polar and nonpolar residues to fold into stable 4-helix bundles. By design, these were already within islands of function at the level of folding. The onward issue was to find whether such folding AA sequences had bio-function in some way. Some, apparently did. By designing for folding, the ~ 1 in 10^60 isolation gaps between folds IIRC has been bridged by DESIGN. In short, you have cited an example that substantiates that proteins can be designed and imagined that it shows that properly folding AA sequences that function are common in AA space. That's a strawman. Next, you try to pretend that I am in the wrong for having pointed out what I pointed out from 975 on above in reply to your putting up Dawkins' book:
As to Mr Dawkins and his sophomoric assertions, let this speak:
Evolution is a fact. Beyond reasonable doubt, beyond serious doubt, beyond sane, informed, intelligent doubt, beyond doubt evolution is a fact. The evidence for evolution is at least as strong as the evidence for the Holocaust, even allowing for eye witnesses to the Holocaust.
[ --> I add: No explanatory model of the deep, unobservable past can be a fact, that is simple epistemology. This is yet another case where Mr Dawkins' gross ignorance of key basic philosophy surfaces in a way that goes seriously against the overall credibility of his argument. FYI, when we deal with things that we did not or cannot observe and/or have no good record of that is generally regarded, we have to resort to the key ideas Newton espoused in his four rules of reasoning in empirical contexts (kindly, read the linked so you will know what you are talking about), as Joe so often emphasises. More particularly, we have traces from the past of one form or another. We observe such, to gather facts to be explained. We then investigate in the present the causal factors that can potentially give rise to such cases. We try to see what are the possible factors that can give rise, and per the design filter in the OP, we hold the default 1 that mechanical necessity if it is causally adequate, is the best explanation. Default 2, in cases of high contingency of outcomes, is chance. It is only when chance faces the sort of needle in the haystack problem that has been discussed repeatedly that design enters as best explanation, in a context where it is the ONLY observed causal factor that can give rise to results substantially like the traces of the past. That is, FSCO/I is an empirically reliable, analytically credible sign of design. We can freely state, on abundant reasons {cf here on] that FSCO/I is a reliable sign of design and that life forms from OO cell based life on, are chock full of such FSCO/I, well beyond the 500 - 1,000 bit threshold that poses an insuperable needle in the haystack search challenge to the atomic and temporal resources of the solar system at the low end, and the observed cosmos at the high end. We can further freely state that it is not the empirical issues that lead to a commonly encountered dismissal of such, but a patent ideologically loaded a priori that is documented in the just linked. ]
It is the plain truth that we are cousins of chimpanzees, somewhat more distant cousins of monkeys, more distant cousins still of aardvarks and manatees, yet more distant cousins of bananas and turnips…continue the list as long as desired. That didn’t have to be true. It is not self-evidently, tautologically, obviously true, and there was a time when most people, even educated people, thought it wasn’t. It didn’t have to be true, but it is. We know this because a rising flood of evidence supports it. Evolution is a fact, and this book will demonstrate it. No reputable scientist disputes it, and no unbiased reader will close the book doubting it …Imagine you are a teacher of recent history, and your lessons on 20th century Europe are boycotted…by politically muscular groups of Holocaust deniers. The plight of many science teachers today is not less dire. When they attempt to expound the central principle of biology they are harried and stymied, hassled and bullied.
[--> I add: THIS is where the first punch was thrown. This is slander by invidious association with holocaust denial and with fascist bully-boy tactics. Mr Dawkins has spoken dishonourably here, in the teeth of mounting evidence of people being harrassed and expelled for the thought crime of doubting Darwin. When someone steps out of the circle of civility like that, it is important to expose it, lest such spreads. Your problem obviously is that this is an embarrassment for you, to be associated with slander by citing a book that pivots its argument on a gross error of exaggerating what we can credibly know about the deep past of origins per empirical investigation, and then tried to shore it up with slander by invidious association. Instead of stopping and thinking again, you have tried to twist this about to make me out to somehow be in the wrong for calling for a stop to such dirty tactics. Sorry, that is improper on your part, Mr Fox.]
No theory or reconstruction of the remote and unobserved, unobservable past can be a fact, period. At best, such is a model. To then proceed to the obscene pretence that to object to such a categorical error is the moral equivalent of denial of a fact of living memory history with artifacts and record behind it, is outright inexcusable, especially the implied, subtext invidious association with those who would carry out onward genocide; who typically deny the last one by way of paving the way to the next. (Cf review by UD’s JM here.
[--> I add: If you had taken time to do due diligence before making a serious accusation, and simply look in the linked at 975, you would have seen that JM adequately addressed both the OOL and the OOBPs failures of Dawkins' book, here at UD, from 2009. That is in part why I explicitly cite JM above in my onward remarks. That you fail to look up an obviously pivotal link before making accusations of dishonesty speaks volumes.]
) These are ad hominem laced strawman tactics. That you cite such as perceived to be authoritative is revealing as well as a trifecta distraction: red herring led off to strawman soaked in ad hominems to be ignited to confuse, cloud, poison and polarise the atmosphere. It is quite clear that here again we see a diversion from the issue of a clear challenge of warrant on the table. If you did have a solid warrant, the objections that could be made at UD would be so obviously futile that the result would be patent. And your apparent endorsement of such speaks volumes, none of it to your good. Please think again, and retract.
Notice, I first pointed out that by making false declarations of "fact" Mr Dawkins has over-claimed what any attempt to reconstruct a remote, unobserved past can reasonably do, then has backed this up with an invidious association of those who object to such with holocaust deniers. What you are doing is ducking the substantial issue then trying to poison and polarise the atmosphere by resorting to the compounding turnabout accusation tactic, he hit BACK first. Sorry, what I have done is to FIRST highlight the substantial failure of Mr Dawkins' overall case, i.e. he is asserting a claim that no scientific evidence on the remote past can reasonably bear. That undermines the credibility of the book as a whole and it is entirely in order to highlight it as the first and foremost objection. I have then pointed out the fallacious and destructive rhetorical device he used to get that blunder through, invidious association, a species of well-poisoning. Obviously, you have no substantial answer on either of these points, as you have spent days trying to twist about and blame me as dishonestly dismissing the book by attacking the man. Simply rolling the tape shows that you have misrepresented the facts right there in front of you. Do you see why you therefore have little credibility in claiming to know the truth on the remote, unobservable past? Pardon, but identifying a rhetorical device used to get through a gross substantial blunder (that was already exposed) on the merits is a legitimate point. And the notion that I -- having long since noted from JM's article the onward problems with OOL and OO BPs as argued by Mr Dawkins -- was improperly using such to dismiss the book is a figment of your own imagination. Nope, I was trying to get your attention to the first pivotal blunders of substance and tone that utterly undermine Mr Dawkins' book. It is also noteworthy that I have subsequently taken time to address the RNA world substantial blunders and the distractive "attack the Creationist" strawman dodge on the Cambrian fossil revolution but so far you are whistling by the graveyard bravely as though you had not a fear in the world. This duppy leaning on the fence therefore has something to say. "BOO!" KF kairosfocus
Alan Fox:
Another paper where research belies the idea that protein function is rare in unknown protein sequences.
Great, now all you have to do is demonstrate that blind and undirected chemical processes can produce proteins. Good luck with that... Joe
Alan Fox:
It is the imaginary process of “Intelligent Design” that is an illusion.
Sed the clown whose entire position relies on imagination. Come on Alan, just ONE testabl;e hypothesis that demonstrates the efficacy of unguided evolution, along with some supporting evidence- I dare you. Joe
Alan Fox: Evolution has two aspects; variation and selection. Baraminology has two aspects; variation and selection. So I guess evolution = baraminology!
The fitness landscape is, when referring to GAs, analogous to the environment and affects the whole organism.
Except that GAs have a goal whereas evolution allegedly does not. Joe
I thought there was no way these things could be designed.
People design things all the time. People are real. It is the imaginary process of "Intelligent Design" that is an illusion. Alan Fox
mung
He appears to think that when IDer’s say ‘islands of function’ they can’t possibly mean things like protein domains. That they can only be referring to ‘fitness landscapes.
You are confused on this point. Evolution has two aspects; variation and selection. Variation occurs in the genotype, the DNA sequences. DNA sequences translate into protein sequences and all known proteins form a tiny sub-set of all theoretically possible proteins. Variation by mutation results in new sequences that may differ in one DNA residue, which may then result in a new protein with different properties from wild-type. We may talk about function space but the only way, currently, of assessing function is via the second evolutionary process, selection. Selection acts on the whole organism, the phenotype. An organism may survive to produce greater or lesser numbers of offspring depending on its adaptations to the niche environment it finds itself in. Any variation that gives some survival advantage in that environment will tend to predominate. The fitness landscape is, when referring to GAs, analogous to the environment and affects the whole organism. Alan Fox
A central challenge of synthetic biology is to enable the growth of living systems using parts that are not derived from nature, but designed and synthesized in the laboratory.
Aw shucks. I thought there was no way these things could be designed. And no way that anything in a living cell could ever possibly be traced back to an actual designer. Thanks Alan Mung
Alan Fox, who cares? keiths has declared that proteins are irrelevant. go back to TSZ and set him straight, if you can be heard in the echo chamber. Mung
Kindly, address the issues on the table (remembering your false accusation of “dishonesty” that needs to be resolved in light of the onward presented issues on the quality of Mr Dawkins’ argument, to return to a reasonable context of discussion), as I have answered specifically to OOL and OOBPs issues in the book you advanced, by Dawkins.
I've read this twice and can't make any sense of it. It seems the rule is kairosfocus can argue ad hominem regarding Dawkins but can then claim foul when I point it out. Alice in Wonderland. Alan Fox
Another paper where research belies the idea that protein function is rare in unknown protein sequences. H/T Allan Miller Alan Fox
Now this is hilarious. petrushka wants to know that intelligent selection can do. where to begin Toronto wants to know how intelligent designers can predict the future. i kid you not! This is the new argument against ID. Mung
yes. i tried to point this out over at TSZ. First fold (maybe), then function (maybe). Mung
PS: Proteins, of course are string based structures and it seems, strongly, that fold domains are deeply isolated. They are assembled in living systems based on DNA and mRNA, using Ribosomes and several dozen helper molecules. We are already seeing a multipart system, with many parts that have to be arranged and interfaced just so, to simply get to the AA strings that make proteins. Then, we have the problem that not just any old AA string will fold correctly. And, last we checked there are thousands of fold domains that seem to not have any semblance of incremental bridges between them, and we have not even got to bio-function and key-lock fitting yet. We are just at the issue of getting the strings to fold and work as a 3-d object. Not to mention it turns out that there is the prion problem, where it has been discovered that here are ways to fold that are energetically advantageous relative to the ways that do biological jobs, that can trigger a cascade of mis-folded proteins, hence mad cow disease and apparently hence Alzheimer's too. Things are getting more and more complex all the time! And, we have not got to a living cell yet, or to the requisites of Von Neumann Self replicating, metabolising automata [what a living cell does, and uses proteins as the workhorse molecules to do], much less a complex organism's body plan. See the island problems piling up? kairosfocus
Mung (Attn, KS): Islands of function is a no-brainer, for anyone who has had to design, build or fix something made up from multiple, well-matched parts that have to be properly interfaced to work properly. The multiple parts and the sea of possible configs, means that we have an exponentially growing space of ways that parts can be scattered, gathered, set up together. That brings us to a threshold of complexity issue: once we have 500 bits worth of complexity to describe the ways something's components can be scattered, gathered, and arranged, then we know that he atomic resources of the solar system -- our practical universe for atomic interactions -- cannot sample as much as a 1-straw sized sample to a cubical haystack 1,0000 LY across, about as thick as our galaxy. If the config of parts is taken at random, blindly, then we have no reason to prefer isolated and definable specific clusters. In short there are many more ways to get things than thee are to get them to work. The isolation of islands of function follows. For, specific configs to function in observable ways, will come from a much larger field of possibilities, and will tend to come in clusters [i.e. there is such a thing as tolerances as anyone who has had to design a real system will know about]. Now, different clusters of configs of parts may work, but once there is a situation where islands are locaslised, island hopping without intelligent navigation becomes a major problem. For, in general there is no good reason to imagine that there is a smooth, incremental bridge between islands, much less that there is a way to get to a highly complex object from a simple or arbitrary initial config. As an example, ASCII alphanumerical text strings are such cases, where the 128 possible components can be clustered in any number of ways. Just 72 or so such characters will take up 500 bits, and the space of possibilities will include every possible string of such characters, i.e 128 x 128 x 128 . . . x 128 72 times over, or 128^72. The vast majority of these will be garbage, and relatively few will be functional as English text. (Think about the TYPICAL output of a random string generator, and think about why it is that random text generators have so far only been able to get to about 24 letters in a meaningful English string.) Now, here is a simple case: See Spot run. Try to find an incremental, random walk driven path from this to say the text of this post; where every step of the way, there has to be a meaningful, readable English text. That just is not going to happen, and that is for a simple case with a particularly simple structure, a string. (Of course, WLOG, other more complex structures can be described in structured strings, but already we are seeing more and more constraints coming to bear and an elaborate system that allows us to encode. This, for instance is how AutoCAD etc work.) What the genetic Algorithm game and related exercises do, is that they start within islands of funciton, and look at incremental changes within such. Of course, we can move around within an island. That's not the problem -- microevo or adaptation or even drift. The real problem is, de no vo, to get to such islads from an arbitrary beginning. And in that context, the living cell, just looking at its genome, is going to start at 100 - 1,000 K bits worth of info, where for every incremental bit of complexity the space of possibilities DOUBLES. The problem is not probability calcs, it is searching for a needle in a haystack, on steroids, starting from an arbitrary initial config. Where of course the Darwin warm little pond with salts etc or the like is a useful start point. Which is also why OOL is a crucial test. KF kairosfocus
Mung on December 14, 2012 at 3:12 am said: So let's get one thing straight. I didn't ask keiths or anyone else to start this thread. I may or may not choose to participate in it. If I do decide to participate, there will be one rule and one rule only which will guarantee my continued participation. No censorship! If you don't want your members presented in all their glory for the world to see, block them from this thread now! Banning them from the site might be better. First, it's highly questionable that this thread was started out of any honorable "tradition" regarding how to treat people from UD. But leave that for another post. Second, I don't need a forum to present my views on ID or my case for ID. I can post anytime I want at Uncommon Descent, an ID-friendly site. No doubt there are numerous other places I could go, friendly and hostile alike, to post as well. Third, I am pointing out the misrepresentations of ID in another thread. You want me to repeat myself here? We could devote an entire thread to that one topic alone and I could restrict myself just to content right here at TSZ. Frankly that's what I ought to do to expose this charade for that it is. Fourth. I am presenting arguments for ID in another thread (or I was trying to), so why the need for this one? Is the other thread too focused on a single topic? Probably. Fifth, and this is what i think is the real reason for this thread This thread was begun so that people here could have more opportunities to ridicule me and my beliefs. It appears some members were sorely disappointed when I refused to allow them to draw me off-topic in other threads. They just weren't finding enough to attack in the other threads. The sharks smell blood, but no meat in the water. Too bad. Take it away, Mung. I haven't even begun my opening argument. Are you sure? Mung
Grr... Why Mung is an ID supporter Mung
Adventures in TSZ So over at TSZ keiths started up a thread to discuss 'islands of function.' It starts off full of the standard lies and misrepresentations that we've come to expect from keiths and complete lack of any supporting material. petrushka wanted to discuss a paper (linked above in my post to gpuccio) on some tests performed with a specific protein involving changes to amino acid residues and testing for effect. So I started posting some material from the paper only to have keiths inform me that the paper has nothing to do with 'fitness landscapes,' seemingly forgetting he was the one that raised the whole question of islands of function. He appears to think that when IDer's say 'islands of function' they can't possibly mean things like protein domains. That they can only be referring to 'fitness landscapes.' Then he accused me of posting material from the paper that sounded 'islandy' in order to make my case. (So far I only presented material from the first paragraph, lol.) Yes, this is TRUE, people. That sounds "islandy." Not allowed! There was so much Guano thrown in my direction that Neil Rickert messed up the thread trying to shovel it all, lol. Thanks Neil, for trying. I refused to be drawn off topic into discussions about THE DESIGNER or other ID arguments. What's the point when they can't even get this one right. So keiths starts a whole thread just for me! Whee! http://theskepticalzone.com/wp/?p=1480 I'm thinking about a response. It will probably get deleted, lol. But really, shouldn't they be careful that they might get what they asked for? I sure didn't ask keiths to create the thread. Mung
AF: I too have my own life, but on fair comment when you put on the table polarising false accusations, you have imposed on yourself a burden of responsibility that would not otherwise obtain. Kindly, address the issues on the table (remembering your false accusation of "dishonesty" that needs to be resolved in light of the onward presented issues on the quality of Mr Dawkins' argument, to return to a reasonable context of discussion), as I have answered specifically to OOL and OOBPs issues in the book you advanced, by Dawkins. (I note that he understands quite well the pivotal significance of OOL, that is why he tried to make the best face he could of the RNA world hyp. Not a very good one in the end.) KF PS: If you want my views on timelines, examine the long since publicly posted page here on, which starts with a case study on origins science done right, astrophysics and cosmology. My views are irrelevant, the issue -- as always -- is what is warranted, to what degree and on what grounds with what limitations. But that is not necessary for our purposes, the conventional timelines will do nicely, whatever their limitations. The design issues that are pivotal are independent of timelines, whether for H-ball stellar models or suggested ages for the solar system based on meteorite fragments, or proposed geological timelines tracing in the end to the deposition rate models and various adjustments. kairosfocus
And keiths continues to lie:
1a. Unguided evolution is far better than ID at explaining the evidence of the objective nested hierarchy.
Linnean taxonomy, ie the objective nested hierarchy, is based on a common design and has absolutely nothing to do with unguided evolution.
2a. The Designer is an unknown being with unknown abilities, unknown limitations, and unknown goals. ID therefore predicts nothing, and can be fitted to any set of facts about life by simply saying “that’s how the Designer did it.”
So forensics and archaeology predict nothing? Their designers are unknown with unknown abilities, unknown limitations and unknown goals. Yet they can and do determine design from nature, operating freely. That said unguided evolution has known abilities and they just are NOT up to the task at hand.
3a. To bring ID into alignment with the biological evidence, you have to make a bunch of assumptions about how the Designer operates.
Nope. We just need to do what all other design-centric venues do- eliminate necessity and chance AND observe some specification. So what he have is keiths, pathological liar and loser, spewing his misrepresentations as if they mean something. Joe
Alan Fox:
Myself, I think the evidence all points to an age of the Earth of around four and a half billion years.
What evidence? A handful of scientists saying so? Joe
Alan Fox:
I come here in the vain hope of seeing a clear exposition of an ID hypothesis that doesn’t take the form of a default argument (Evolution is like a language, so ID wins, for example).
1- It isn't clear that you understand the word "default" 2- You really need to focus on YOUR position because if you could produce positive evidence for it then you wouldn't need to worry about ID. We cannot say a designer is required once you have demonstrated necessity and chance are all that is needed. 3- ID only wins once necessity and chance have been eliminated AND some specification (eg function and/or meaning) is observed. Joe
PS @ kairosfocus, Just out of curiosity, Mr. M., could I ask you how old you think the Earth is? Myself, I think the evidence all points to an age of the Earth of around four and a half billion years. Alan Fox
KF upthread
For a couple of days now, I have been waiting for AF to address the inconvenient fact that not only does Mr[Dr!]Dawkins over-claim the powers of scientific theorizing on deep past of origins...
AF has been missing in action in this thread for a few days now...
Sorry to disapoint you, Mr M. but I have have other things to do beside compose comments for Uncommon Descent. Also, I am not defending or promoting OoL hypotheses. I support Robert Shapiro's view on the matter, especially with regard to space exploration (See his "Planetary Dreams). I come here in the vain hope of seeing a clear exposition of an ID hypothesis that doesn't take the form of a default argument (Evolution is like a language, so ID wins, for example). Alan Fox
gpuccio:
I will not answer your “argument” about the Rain Fairy. I find it simply stupid, with all respect.
Good for you. This is a common practice keiths uses (when he's not just flat out lying). He makes up some hypothetical scenario out of pure imagination that has no demonstrable relevance to the subject at hand and claims it trumps all evidence, facts, logic and reasoning. Need to prove evolution can happen. Imagine a "fitness landscape" of trillions and trillions of dimensions and say there, see? No problem for evolution, because if one path is closed off billions and billions of wormholes between dimensions make possible what was not otherwise possible. What a crock. And he's still misrepresenting your actual argument from dFSCI every chance he can. No integrity whatsoever. Mung
GP: Is this the "Rain Fairy" argument:
Keiths: First of all, you haven’t given any independent justification for your assumption. A designer (and especially a Designer) doesn’t have to work through common descent, and he doesn’t have to reuse what already exists. Your only reason for assuming that he does these things is that you are trying to force-fit your theory to the existing evidence. It’s the same error made by an advocate for the Rain Fairy hypothesis who assumes that the Rain Fairy always acts in ways that match the weather we are actually observing.
Of course the first problem is that we are dealing with a major sophomoric overestimation problem in dealing with the new atheists (as well as an associated sociocultural agenda), cf. here. In particular, they are always setting up and knocking over strawmen. Now, cf. OP above, where there is an illustration of the design detection filter. You will notice that things explicable under mechanical necessity and/or chance process -- and meteorological events such as precipitation fit here as any weather man can tell -- will be defaulted to necessity and chance. Of course an agent may imitate such, the EF will not detect that. It was not designed for that and we happily accept such false negatives as a small price to pay for what the EF does target. That is credibly high reliability when it does rule design. (And, on the empirically observable sign FSCO/I in its various forms including dFSCI, it is abundantly confirmed to be reliable at that empirically with billions of cases in point. That is, there are no credible false positives for FSCO/I beyond 500 - 1,000 bits, which gives the needle in the haystack threshold for the solar system tot he observed cosmos scale, on the number of atoms, how fast things happen at that scale and reasonable timelines for the age of these.) So, while KS et al do not wish to accept it, we have a highly reliable sign that is best explained on the known and observed causal factor, design. Instead of addressing this, they have erected a strawman and have knocked it over. In this case with a bit of ridicule tossed into the mix. As is so sadly typical. It so happens that life forms are chock full of FSCO/I and in particular, dFSCI, as in digital code and the associated organised machinery that processes digital code. It is obviously not unreasonable to see that such code is a sign that points to design. Next, we see a pattern of a basic DNA code with some variants, across the world of life. This too is quite familiar, if you have ever had to do with computer languages applied to diverse circumstances. So, code reuse and language reuse with variations is a known phenomenon associated with agent action. (As a matter of fact, just look at the pattern with C, C++ and Java, and the variants on Java. In its day BASIC was notorious for its variant forms, too. And there are any number of "basic-like" languages that were set up.) Now, the next thing is that a strawman demand is set up that a designer of life, to be acceptable to KS et al, must start from scratch every time, instead of using and even modifying a code base. Sorry, reuse and modularity are actually markers of good design praxis, and making mods to suit circumstances is reasonable too. So the whole objection is patently artificial and selectively hyperskeptical, flying in the teeth of common good sense and easily observed design praxis. KF kairosfocus
Keiths: I will not answer your "argument" about the Rain Fairy. I find it simply stupid, with all respect. gpuccio
Keiths: Those statements contradict each other. Which do you affirm, and which do you retract? My statement was: "The correct concept is as follows: It is completely wrong to model NS using IS, because they have different form and power." That is absolutely true for all the GAs you guys propose, which are based on IS and try in no way to realistically model NS. That is absolutely true for Joe Felsenstein's "argument" about "NS". My point is very simple: IS is IS. It has different forms and powers, and they do not correspond to what NS can really do. In IS, there is always an element of intelligent choice. Only an implementation of NS some true context, either computational or biological, can really tell us if NS can generate dFSCI. On the other hand, as you guys insist on possible "models" of NS, I have said that the only model which could tell us some very trivial things about NS would be a model where IS correctly tries to mimic the form and power of NS as observed in some true natural context. That would be a model, but it would not answer the question of what NS can really do. It would only model what happens after NS has occurred, with the form and power we assume for it. IOWs, it would only model how some selection, once attained, can give some results. As I have said many times, that would be acceptable, if the form and power attributed to NS are realistical (truly observed in some natural context). But it would be completely trivial and uninteresting. It could model how some simple microevolutionary event can propagate in a population (something we already know), but it could never be used to model more complex events, because we have no natural example where NS generates more complex events. That's why I have said that the only model for NS in the generation of complex events, at present, would be to attribute no role to it, a statement that evoked the fiery remonstrations of your lot, but which remains perfectly true. That is all. It is simple and true. You want to consider it contradictory, be my guest. You keep your strange ideas about contradictions and circularities. I will keep mine. gpuccio
As 1012 above shows, when Mr Dawkins does so, lo and behold, his case is nowhere near as substantial as he has suggested. That is, (i) by addressing OOL, Dawkins implies its relevance to the overall issue of the evo mat account of origins of life and its forms, but (ii) the root of the Darwinist tree of life is conspicuously absent and empirically unsupported. So, we are entitled to conclude already that (iii) Mr Dawkins’ claims are seriously exaggerated.
You mean we have actual reasons to be skeptical? Mung
In response to keiths: Why am I an ID supporter? Easy- 1- There isn't any supporting evidence for materialism nor evolutionism 2- There isn't even a way to test materialism nor evolutionism 3- There is plenty of evidence for design starting with the fact there isn't any suppoting evidence for materialism and evolutionism- ya see all design inferences mandate the elimination of materialistic processes before reaching a design inference- see Newton's four rules of scientific investigation 4- Other than #3, the same techniques that allow us to infer design wrt archaeology, SETI and forensics, are used to determine design in biology and the universe. 5- And we see design in living organisms and their subsystems- ie we see that which fits the criteria of design, ie no materialistic explanation along with "the ordering of separate components to achieve an identifiable function that depends sharply on the components" (Behe 1996) So yeah, until materialists can come up with a way to test their position along with positive evidence, the REAL question is why would anyone support materialism and evolutionism? Joe
JM's remarks are also relevant:
Before examining the underlying fallacy of Dawkins’ argument, let us take a moment to consider the theological undertones in the above text. Theological arguments — by their very nature — cannot be defended as a scientific statement, and thus ought to be given no place in scientific discussions regarding evolution. The subtitle of Dawkins’ book is The Evidence for Evolution. There should be no need, therefore, to prop up Darwinism by appealing to theologically-related considerations. The age of the earth and the proper interpretation of Genesis is the subject of heated debate among Christians. While I do believe that this is a very interesting and important issue (I personally strongly favour the view that the earth is very ancient), it should not be featuring in scientific discourses concerning the scientific evidence relating to evolution. Moreover, to categorically place all Darwin-skeptics in the same category is misleading. Leaving that point aside, let us turn to Richard Dawkins’ understanding of the Cambrian explosion. First, even if we were to grant him his premise — namely, the contention that organisms prior to the Cambrian were of a non-fossilisable composition (which is plausible) — this is not the point in question. Indeed, it is to be expected that non-skeletonized predecessors ought to leave few if any fossils. If it were the case, therefore, that one evolving line appeared suddenly in the fossil record, once it reached the stage of being fossilizable, then Dawkins might have a point here. But the real challenge of the Cambrian explosion is the wide variety of fossilizable forms which appeared at more or less the same instant in geological time. Every single phyla represented by modern day organisms — certainly all those with fossilizable parts — were included, yet for none is there any clearly identifiable ancestor. It is explaining the simultaneous and abrupt appearance of those which is one of the leading challenges in evolutionary biology. Dawkins’ argument here is by no means original. Interestingly, over the last century and a half since the publication of Darwin’s Origin of Species, paleontologists have discovered many Precambrian fossils, many of them microscopic or soft-bodied. As Darwinian paleobiologist William Schopf wrote in his The early evolution of life: solution to Darwin’s dilemma, “The long-held notion that Precambrian organisms must have been too small or too delicate to have been preserved in geological materials…[is] now recognised as incorrect.” If anything, the abrupt appearance of the major animal phyla, conventionally dated to about 540 million years ago, is better documented now that in Darwin’s time. Indeed, as more fossils are discovered it becomes clear that the Cambrian explosion was even more abrupt and extensive than previously envisioned. At any rate, as discussed in some detail here, the Ediacaran fauna are not generally thought to be ancestral to the modern phyla which appear explosively in the Cambrian radiation. The presence of these organisms, therefore, should offer no comfort to Darwinists. As Peter Ward has observed in On Methuselah’s Trail: Living Fossils and the Great Extinctions, “[L]ater study cast doubt on the affinity between these ancient remains preserved in sandstones and living creatures of today; the great German paleontologist A. Seilacher, of Tübingen University, has even gone so far as to suggest that the Ediacaran fauna has no relationship whatsoever with any currently living creatures. In this view, the Ediacaran fauna was completely annihilated before the start of the Cambrian fauna.” (p. 36) Moreover, many phyla (such as the brachiopods and arthropods) couldn’t have evolved their soft parts first and then added the hard parts (such as the exoskeleton or shell) later — their survival depends in large measure upon the ability to protect or shield their soft parts. Soft and hard parts had to arise together. Finally, the critic of Darwinism need not point to the fossil record as the most compelling decisive blow to Darwinian orthodoxy. Dawkins is free to invoke ad-hoc hypothesis in an attempt to explain away the gaps and challenges presented by the fossil record at the most crucial points. Nonetheless, the fact remains that the fossil record simply cannot be used to document anything relating to the common descent of all life forms — which is one of the two central claims of neo-Darwinism. To state otherwise is to engage in circular reasoning.
Now, the significance of this, is that the fossils constitute traces that come from the past of life on earth, and if positive direct evidence of incrementally diversifying, gradually branching life forms were to be found at body plan level, this is where that would be found. But, overwhelmingly, it is not. That is, the actual fossil record SUPPORTS the view that life forms come in islands. Which is of course the same message we get from 2,000 or so basic protein fold domains, the implications of multiple part functionality that depends on proper matching and specific organisation and the consequent needle in the haystack search challenge faced by a blind chance and mechanical necessity search approach. Namely, once we are beyond 500 bits of FSCO/I, the atomic and temporal resources of our solar system could search the equivalent of sampling a one straw sized sample of a cubical haystack 1,000 LY across (about as thick as our galaxy). With all but certainty, were such a haystack superposed on our galactic neighbourhood, such a sample would be overwhelmingly likely to pick up a straw and nothing else. So, we are in a position to see a consistently repeated pattern of bluffing and strawman tactic based ad hominem attack rhetorical tactics on Mr Dawkins' part:
a: For the overall case, he exaggerated the degree of warrant that any empirically based investigation of the remote and unobservable past that we must reconstruct on traces and observed processes that reliably and uniquely give rise to similar traces. b: He compounded this by setting up a Creationist strawman and invidiously associating such with holocaust denial. c: On the root of the tree of life, he resorted to the RNA world hypothesis, but failed to note the crushing difficulties that this model faces. And d: on the Cambrian life revolution, he distracted attention from the suddenness and lack of ancestral forms across the range of body plans, he presented a special case as though it were typical and would account for the overall case, he failed to clearly note in the immediate context of his remarks that it is no longer credible that soft bodied forms prior to that time would not be fossilised. Thus, he failed to note that the actual record supports the islands of function view.
Unfortunately, such rhetorical patterns have been typical of Mr Dawkins, all the way back to the notorious Weasel crude genetic algorithm of 1986 - 7. So, we note instead that the observed evidence suggests something else. namely, that islands of function are real and are linked to the search space challenge posed by multiple well matched and properly organised parts required for specific function. Indeed, the routinely -- and the only -- observed cause for FSCO/I is design. We are quite properly entitled to hold that per reliable and consistent empirical observation supported by the needle in haystack challenge, such FSCO/I is best explained on design, even where we did not directly observe the process of causation. Which is of course the same basic approach that is used in general areas of scientific investigation or scientifically guided investigation where we need to reconstruct an unobserved event that has left us with traces or clues, e.g. was this house fire accident, or arson. This brings us full circle to the 6,000 word essay challenge on the table since Sept 23, 2012. Provide and submit to me for publication at UD, a clean, empirically grounded case that substantiates the evolutionary materialist claim, including especially OOL and OOBPs. Let's just say to AF and the watching penumbra of objector sites, that the continuing failure to address such a clear and direct way to blow up design theory by hitting it in the vitals and blowing up the magazines, speaks volumes. KF kairosfocus
Onlookers: For a couple of days now, I have been waiting for AF to address the inconvenient fact that not only does Mr Dawkins over-claim the powers of scientific theorising on deep past of origins (suggesting that the suggested reconstructions are practically certain facts) and invidiously associate those who challenge such with holocaust deniers, but he does address OOL, through RNA world. As 1012 above shows, when Mr Dawkins does so, lo and behold, his case is nowhere near as substantial as he has suggested. That is, (i) by addressing OOL, Dawkins implies its relevance to the overall issue of the evo mat account of origins of life and its forms, but (ii) the root of the Darwinist tree of life is conspicuously absent and empirically unsupported. So, we are entitled to conclude already that (iii) Mr Dawkins' claims are seriously exaggerated. Now, AF has been missing in action in this thread for a few days now, so it looks like courtesy JM again, we will have to move on to the next issue, OOBPs, using the Cambrian revolution as the key case in point. The essence of this case, of course is that -- ever since Darwin and even now after 150 years of scouring fossil beds and 1/4+ million fossil species with millions of specimens in museums and billions in the ground, we have the very clear pattern of sudden appearances, stasis and disappearance that Gould and others have discussed. In the case of the Cambrian era, what has been going on is that of the 3.5 - 3.8 BY (or possibly 4.2 BY) of traces of life forms on the conventional timeline for the fossil record, some 530 MYA, in a window of 5 - 10 MY, the top level body plans appear, without evident ancestors, and then these continue down to today. That is, we do not see an observed last universal common ancestral form that then gradually branches out to yield the various forms, but instead we see top-down variation with no empirical trace in the fossils of the sort of incremental variation and increasing branching and diversification that the tree of life model would lead us to expect. Going back to the PBSW paper presented by Meyer in 2004 (which, contrary to what some may wish to suggest evidently did pass proper peer review by "renowned scientists"), we may summarise the issue from a design perspective:
The Cambrian explosion represents a remarkable jump in the specified complexity or "complex specified information" (CSI) of the biological world. For over three billions years, the biological realm included little more than bacteria and algae (Brocks et al. 1999). Then, beginning about 570-565 million years ago (mya), the first complex multicellular organisms appeared in the rock strata, including sponges, cnidarians, and the peculiar Ediacaran biota (Grotzinger et al. 1995). Forty million years later, the Cambrian explosion occurred (Bowring et al. 1993) . . . One way to estimate the amount of new CSI that appeared with the Cambrian animals is to count the number of new cell types that emerged with them (Valentine 1995:91-93) . . . the more complex animals that appeared in the Cambrian (e.g., arthropods) would have required fifty or more cell types . . . New cell types require many new and specialized proteins. New proteins, in turn, require new genetic information. Thus an increase in the number of cell types implies (at a minimum) a considerable increase in the amount of specified genetic information. Molecular biologists have recently estimated that a minimally complex single-celled organism would require between 318 and 562 kilobase pairs of DNA to produce the proteins necessary to maintain life (Koonin 2000). More complex single cells might require upward of a million base pairs. Yet to build the proteins necessary to sustain a complex arthropod such as a trilobite would require orders of magnitude more coding instructions. The genome size of a modern arthropod, the fruitfly Drosophila melanogaster, is approximately 180 million base pairs (Gerhart & Kirschner 1997:121, Adams et al. 2000). Transitions from a single cell to colonies of cells to complex animals represent significant (and, in principle, measurable) increases in CSI . . . . In order to explain the origin of the Cambrian animals, one must account not only for new proteins and cell types, but also for the origin of new body plans . . . Mutations in genes that are expressed late in the development of an organism will not affect the body plan. Mutations expressed early in development, however, could conceivably produce significant morphological change (Arthur 1997:21) . . . [but] processes of development are tightly integrated spatially and temporally such that changes early in development will require a host of other coordinated changes in separate but functionally interrelated developmental processes downstream. For this reason, mutations will be much more likely to be deadly if they disrupt a functionally deeply-embedded structure such as a spinal column than if they affect more isolated anatomical features such as fingers (Kauffman 1995:200) . . . McDonald notes that genes that are observed to vary within natural populations do not lead to major adaptive changes, while genes that could cause major changes--the very stuff of macroevolution--apparently do not vary [--> I add, save the cases of LOSS of features, which is obviously irrelevant to origin of same]. In other words, mutations of the kind that macroevolution doesn't need (namely, viable genetic mutations in DNA expressed late in development) do occur, but those that it does need (namely, beneficial body plan mutations expressed early in development) apparently don't occur.6
How does Mr Dawkins address the Cambrian revolution, then? Does he pull out little known fossils that show the slow, incremental branching from ancestral forms, and directly support his case? Surprise -- NOT! -- no. He spends his time setting up and knocking over a Young Earth Creationist strawman:
This great phylum of worms includes the parasitic flukes and tapeworms, which are of great medical importance. My favourites, however, are the free-living tubellarian worms, of which there are more than four thousand species; that’s about as numerous as all the mammal species put together…They are common, both in water and on land, and presumably have been common for a very long time. You’d expect, therefore, to see a rich fossil history. Unfortunately, there is almost nothing. Apart from a handful of ambiguous trace fossils, not a single fossil flatworm has ever been found. The Platyhelminthes, to a worm, are ‘already in an advanced state of evolution, the very first time they appear. It is as though they were just planted there, without any evolutionary history.’ But in this case, ‘the very first time they appear’ is not the Cambrian but today. Do you see what this means, or at least ought to mean for creationists? Creationists believe that flatworms were created in the same week as all other creatures. They have therefore had exactly the same time in which to fossilise as all other animals. During all the centuries when all those bony or shelly animals were depositing happily alongside them, but without leaving any significant trace of their presence in the rocks. What, then, is so special about gaps in the record of these animals that do fossilise, given that the past history of the flatworms amounts to one big gap: even though the flatworms, by the creationists’ own account, have been living for the same length of time? If the gap before the Cambrian Explosion is used as evidence that most animals suddenly sprang into existence in the Cambrian, exactly the same ‘logic’ should be used to prove that the flatworms sprang into existence yesterday. Yet this contradicts the creationist’s belief that flatworms were created during the same creative week as everything else. You cannot have it both ways. This argument, at a stroke, completely destroys the creationist case that the Precambrian gap in the fossil record weakens the evidence for evolution.
In short, Dawkins evades the missing required positive evidence that should be substantiating a claimed fact, dismisses or ignores the issue that "every tub must stand on its own bottom," and goes on the rhetorical attack. And even with YEC's, he faces a basic problem: YEC is not committed to any need to find fossils of internal flatworm parasites that presumably would be exceedingly rare in contexts that would fossilise, much moreso than other creatures. And, while it is convenient to Dawkins' rhetorical purpose to let this case stand in for all the others, in fact we are dealing with dozens and dozens of phyla and sub-phyla that are first observed in the Cambrian layers, and in subsequent layers right down to today. We also deal with the fact that in lower and presumptively earlier layers, we have clear records of fossils of soft-bodied creatures, traces of creatures and even of micro-organisms. We even have the ediacaran fossils that are generally not held to be "ancestral" to the phyla we do see -- i.e. we have further major body plans that do appear (evidently with their own problem of lack of ancestral trunk and branches) and persist for many layers then disappear. Some of these seem to have been soft-bodied, and certainly we do see that the layers in question can preserve fossils. So, we see the exact fossil form pattern identified by Gould, of sudden appearance, stasis, disappearance/ continuity to/ reappearance in the present, of major body plans. The handwaving and strawman pounding have not made the real issue go away. That is, by implication, Dawkins is acknowledging that we are seeing islands of functional forms in the fossils. That brings up the pattern highlighted by Loennig of the Max Planck Institute in 2004, in a peer reviewed article, on "Dynamic genomes, morphological stasis, and the origin of irreducible complexity." For, speaking of the horseshoe crab as an organism that seems to have been morphologically static across 250 million years of fossil record and on into the contemporary world, he notes:
examples like the horseshoe crab are by no means rare exceptions from the rule of gradually evolving life forms . . . In fact, we are literally surrounded by 'living fossils' in the present world of organisms when applying the term more inclusively as "an existing species whose similarity to ancient ancestral species indicates that very few morphological changes have occurred over a long period of geological time" [85] . . . . Now, since all these "old features", morphologically as well as molecularly, are still with us, the basic genetical questions should be addressed in the face of all the dynamic features of ever reshuffling and rearranging, shifting genomes, (a) why are these characters stable at all and (b) how is it possible to derive stable features from any given plant or animal species by mutations in their genomes? . . . . A first hint for answering the questions . . . is perhaps also provided by Charles Darwin himself when he suggested the following sufficiency test for his theory [16]: "If it could be demonstrated that any complex organ existed, which could not possibly have been formed by numerous, successive, slight modifications, my theory would absolutely break down." . . . Biochemist Michael J. Behe [5] has refined Darwin's statement by introducing and defining his concept of "irreducibly complex systems", specifying: "By irreducibly complex I mean a single system composed of several well-matched, interacting parts that contribute to the basic function, wherein the removal of any one of the parts causes the system to effectively cease functioning" . . . [for example] (1) the cilium, (2) the bacterial flagellum with filament, hook and motor embedded in the membranes and cell wall and (3) the biochemistry of blood clotting in humans . . . . One point is clear: granted that there are indeed many systems and/or correlated subsystems in biology, which have to be classified as irreducibly complex and that such systems are essentially involved in the formation of morphological characters of organisms, this would explain both, the regular abrupt appearance of new forms in the fossil record as well as their constancy over enormous periods of time. For, if "several well-matched, interacting parts that contribute to the basic function" are necessary for biochemical and/or anatomical systems to exist as functioning systems at all (because "the removal of any one of the parts causes the system to effectively cease functioning") such systems have to (1) originate in a non-gradual manner and (2) must remain constant as long as they are reproduced and exist. And this could mean no less than the enormous time periods mentioned for all the living fossils hinted at above. Moreover, an additional phenomenon would also be explained: (3) the equally abrupt disappearance of so many life forms in earth history . . . The reason why irreducibly complex systems would also behave in accord with point (3) is also nearly self-evident: if environmental conditions deteriorate so much for certain life forms (defined and specified by systems and/or subsystems of irreducible complexity), so that their very existence be in question, they could only adapt by integrating further correspondingly specified and useful parts into their overall organization, which prima facie could be an improbable process -- or perish . . . . According to Behe and several other authors [5-7, 21-23, 53-60, 68, 86] the only adequate hypothesis so far known for the origin of irreducibly complex systems is intelligent design (ID) . . . in connection with Dembski's criterion of specified complexity . . . . "For something to exhibit specified complexity therefore means that it matches a conditionally independent pattern (i.e., specification) of low specificational complexity, but where the event corresponding to that pattern has a probability less than the universal probability bound and therefore high probabilistic complexity" [23]. For instance, regarding the origin of the bacterial flagellum, Dembski calculated a probability of 10^-234[22].
[ . . . ] kairosfocus
Mung: Thank you for the paper. I will certainly give it a try. gpuccio
KF: Thank you. I think too that the descriptions are very vague. That's why I asked for specific details from someone who knows better the system. I must say that I am not very impressed, too. gpuccio
gpuccio, welcome back. Be sure to check out the following paper: McLaughlin_Ranganathan Is there enough information to calculate dFSCI? Mung
GP: Here's a starter on Tierra. I gather, Avida is a derivative (not a good recommendation). The key seems to be that the fitness function so called is alleged to be mere survival, and to be implicit, i.e. there is allegedly no hill to climb that is externally given. From the Tierra what is page:
The Tierra C source code creates a virtual computer and its Darwinian operating system, whose architecture has been designed in such a way that the executable machine codes are evolvable. This means that the machine code can be mutated (by flipping bits at random) or recombined (by swapping segments of code between algorithms), and the resulting code remains functional enough of the time for natural (or presumably artificial) selection to be able to improve the code over time . . . . Along with the C source code which generates the virtual computer, we provide several programs written in the assembler code of the virtual computer. Some of these were written by a human and do nothing more than make copies of themselves in the RAM of the virtual computer. The others evolved from the first, and are included to illustrate the power of natural selection. The operating system of the virtual computer provides memory management and timesharing services. It also provides control for a variety of factors that affect the course of evolution: three kinds of mutation rates, disturbances, the allocation of CPU time to each creature, the size of the soup, etc. In addition, the operating system provides a very elaborate observational system that keeps a record of births and deaths, sequences the code of every creature, and maintains a genebank of successful genomes. The operating system also provides facilities for automating the ecological analysis, that is, for recording the kinds of interactions taking place between creatures. This system results in the production of synthetic organisms based on a computer metaphor of organic life in which CPU time is the ``energy'' resource and memory is the ``material'' resource. Memory is organized into informational patterns that exploit CPU time for self-replication. Mutation generates new forms, and evolution proceeds by natural selection as different genotypes compete for CPU time and memory space. Diverse ecological communities have emerged. These digital communities have been used to experimentally examine ecological and evolutionary processes: e.g., competitive exclusion and coexistence, host/parasite density dependent population regulation, the effect of parasites in enhancing community diversity, evolutionary arms race, punctuated equilibrium, and the role of chance and historical factors in evolution. This evolution in a bottle may prove to be a valuable tool for the study of evolution and ecology.
Frankly, this is suspiciously vague and the description of improvement points to a fitness metric and to intelligent selection as driving replication leading to survival of the preferred. That Os seems to be pivotal to performance and begs the question of the search space challenge of the real world. There is a hint of short codes of about 80 bits. The digital organisms so called look a lot like controlled computer viruses in a sandbox. Where the reference to genomes points to something that looks a lot like what happens with GA's. This is of course a first look, but the bottomline is this is a wholly artificial scheme designed and tuned by a known author to use an underlying designed system to produce desired displays of patterns imagined to have happened in the deep past. Analogies and artificial worlds far removed from Darwin's warm little pond of electrified salts, much less addressing the realistic needle haystack challenge to produce novel body plans with genomes of order 10 - 100+ mn bits apiece. But, when such is beheld through the a priori materialist eye of faith wondrous confirmations of what one wanted to see appear, to great rejoicing. Pardon my being a tad less than impressed. KF kairosfocus
Joe Felsenstein (and others): Sorry, I have been very busy. You say: gpuccio has seemingly also ruled out GA-type models (although keiths has pointed out contradictory statements gpuccio has made on this point, and there is as yet no clarification of the matter by gpuccio). Well, I believe I have answered Keiths's comment in my post #941. Regarding Tierra, I asked: "Regarding Tierra, I have asked many times that someone on your side explain clearly how it works. I don’t know the code and the system. For example, it would be crucial to understand if the so called replicators in the system are true replicators, and if their replication “advantages” derive from true natural replication functions, and not from measured features. And nobody has ever explained what complexity the system would generate. I you want to use Tierra to make your point, please make your point in detail." I really have not the time to study Tierra in detail. If someone among you is acquainted with the system, could that someone please try to answer my simple points? The fact is, Tierra would be interesting for our discussion only if it is a true "implementation" of NWS. Therefore, the key point is: "Are the so called replicators in the system true autonomous replicators"? IOWs, are they similar to a computer virus, that copies itself in a system that has not been programmed to recognize it?. This is important, because the whole concept of NS is that autonomous self replicators can improve their replicating fitness by RV. So, it is crucial to have some answer also to the second question: "Do their replication “advantages” derive from true natural replication functions, and not from measured features"? IOWs, is Tierra implementing NS or IS? Finally, a true autonomous replication advantage is fine as a function for me. But we need to know what new functional code is responsible for that advantage, so that we can measure the complexity linked to that new code. For example, let's imagine that a computer virus replicates better because it develops a new system to copy its code to new locations in the computer. We could easily find which new code in the virus accomplishes that new task, and measure the linked complexity. So, can anyone there answer these points, please? gpuccio
F/N 2: AF is addressed on OOL from here on in the UB sets it out thread. The relevance of OOL for onward OOBPs is implicit in the implications of the OOL case putting design firmly at the table, multiplied by the drastic escalation in the quantity of dFSCI to be accounted for AND the drastic reduction in scope of resources to our planet. where for every additional bit in a string, the space of possible configs DOUBLES. OOL requires, per smallest genomes 100 - 1,000 kbits, and OOBPs require 10 - 100+ mn bits apiece. Just 1,000 bits is unsearcheable by the atomic resources of the observed cosmos to date, and 500 bits, by those of our solar system (let's be generous). KF kairosfocus
Joe: where, we know agency can act because in the here and now we have shown similar results by known agent action and have seen that nature acting blindly and freely by chance and/or mechanical necessity is not observed to do same. The underlying issue being that when multiple well matched parts require a narrow range of specific configurations to achieve a function, the sub space that will function will be deeply isolated in the space of possible configs. In particular the claimed magic bullet, exaptation, will run into the challenge that parts have to interface correctly and match or the complex function will not happen. Let us not forget for instance how with the F-86, simply the fact that an assembly worker put in a given bolt the "usual" way instead of the specified, caused a string of fatal crashes. That gives an index of how exacting "well-matched" can be. KF kairosfocus
F/N: I have notified AF (who has popped up in another thread but seems to have gone silent here), here, regarding his need to address my remarks on Mr Dawkins regarding RNA world, and concerning his false accusation of "dishonest[y]." I trust that those at TSZ who genuinely care about civility are monitoring. KF kairosfocus
Cubist, the clueless equivocator:
I’d rather been under the impression that Behe’s pro-ID irreducible complexity cannot evolve, ergo Designer argument took exactly and precisely the evolution can’t do it, therefore ID form which you here assert is not used in pro-ID argumentation.
LoL! No, cubist, your impression is very wrong. IC can evolve by design. There isn't any evidence for blind and undirected chemical processes producing IC systems. The positive side is only agencies have been observed constructing IC systems. IOW the positive evidence for ID is the SAME as teh positive evidence for an artifact and crime-> namely nature couldn't do it and agency can. Joe
F/N: in short, no roots so no shoots. The blind chance plus necessity explanation is a non-starter, right at the root of the tree of life. kairosfocus
Mr Fox, re:
I said clearly that I thought your attempt to dismiss a particular book on the grounds of Dawkins well-known views about creationists was not very honest. Dawkins lists all his references. If you want to wave that away, fair enough but this indeed confirms for me your ability to judge issues on their merits.
First, anyone may see that your summary as just presented is materially misleading by scrolling up. I leave that to an exercise of the onlooker. Next, let us recall the actual context of discussion: a challenge -- now approaching three months -- to empirically ground the claims of evolutionary materialism in respect of especially (i) OOL and (ii) OO body plans through material mechanisms (tracing to blind chance and/or lawlike mechanical necessity . . . ), as we are commonly told, is well established per the canons of scientific warrant. Where, there is a standing offer to host any serious attempt here at UD. Which has been repeatedly strawmannised or dodged or diverted from, but which has not been seriously attempted. Where also, a full length feature article of 6,000 or so words, that actually substantiates the evolutionary materialist claims, would have obvious devastating impact on design theory. The thing to be explained,then, is the refusal to take the free-kick at goal. (That smacks of an underlying lack of confidence in the case that is underscored by a persistent resort to well-poisoning rhetorical tactics.) Now, in "substitute" you have suggested a certain book by Mr Dawkins. But, on inspection, we immediately see a gross error regarding the possible degree of empirical warrant achievable for the remote, unobserved past involving a category confusion between facts and explanations. This is then compounded by invidious association of those who object to such a gross error to holocaust denial. But, the first error plainly discredits the claim to knowledge invoked, and the second reveals a shocking moral bankruptcy. Your objection, now, is that it is dishonest to point out and deplore such. Sorry, someone who argues like that has revealed his incompetence on substance and his bankruptcy on basic civility. And for you to try to twist this about into an accusation that I am dishonest to point such out, does not speak well of you. Please, think again and do better next time. As it is, I do intend to address a "slice of the cake" example on substance. Here, are some illustrative snippets on OOL from Mr Dawkins in the book, courtesy JM's previous comments as Mung has already linked at 986 (as in, the substantial problems have long since been pointed out here at UD):
We have no evidence about what the first step in making life was, but we do know the kind of step it must have been. It must have been whatever it took to get natural selection started. Before that first step, the sorts of improvement that only natural selection can achieve were impossible. And that means the key step was the rising, by some process as yet unknown, of a self-replicating entity [--> notice the telling concession, as well as the insistence on how the only serious candidate for origin of biodiversity is "natural selection"] . . . . Now for the key point of the ‘RNA World theory’ of the origin of life [which is held to resolve the catch-22 between DNA and proteins]. In addition to stretching out in a form suitable for passing on sequence information, RNA is also capable of self-assembling…into three-dimensional shapes which have enzymatic activity. RNA enzymes do exist. They are not as efficient as protein enzymes, but they do work. The RNA World theory suggests that RNA was good enough enzyme to hold the fort until proteins evolved to take over the enzyme role, and that RNA was also a good enough replicator to muddle along in that role until DNA evolved.
JM's reply is withering, and I will quote it:
As Dawkins himself concedes, natural selection can only occur in organisms which are capable of reproducing or replicating themselves. But surely any self-replicating mechanism must exhibit a definable minimal level of complexity, let alone the necessitude of functional, and thus sequence specific DNA and protein molecules. As theoretical biologist Howard Pattee explains in his The Problem of Biological Hierarchy: “There is no evidence that hereditary evolution occurs except in cells which already have…the DNA, the replicating and translating enzymes, and all the control systems and structures necessary to reproduce themselves.” In order to invoke a materialistic pathway which can account for the origin of specified information in DNA, the naturalist must invoke a process that itself depends upon pre-existing sequence specific DNA molecules. Yet, the origin of these molecules is precisely what the thesis seeks to explain. And let us not forget that it is not merely the sequence of base-pairs comprising the information in DNA which is the chief concern at this point — but the problem becomes even deeper when confronted with the paradox of the origin of the genetic code itself. . . . . Curiously, Richard Dawkins spends no time in The Greatest Show on Earth attempting to address the numerous criticisms of the RNA-first model. For example, the formation of the first RNA molecule would have necessitated the prior emergence of smaller constituent molecules, including ribose sugar, phosphate molecules and the four RNA nucleotide bases. But both synthesising and maintaining these essential RNA molecules (particularly ribose) and the nucleotide bases is profoundly problematic to perform under realistic prebiotic conditions. Further, naturally occurring RNA molecules possess very few of the specific enzymatic properties of proteins. Ribozymes can perform a small handful of the thousands of functions performed by proteins. The inability of RNA molecules to perform many of the functions of protein enzymes raises a third and related concern with regard to the tenability of the RNA-first model. To date, no plausible explanation has been advanced as to how primitive self-replicating RNA molecules could have made the transition into modern cellular systems which depend heavily on a variety of proteins to process genetic information. Consider the transition from a primitive replicator to a system for building the first proteins. Even if such a system of ribozymes for building proteins had arisen from an RNA replicator, that system of molecules would still require information-rich templates for building specific proteins. To date, there is no materialistic pathway by which specified information can be readily produced.
In short, we are looking at exactly the sort of over-wrought gross exaggeration of the degree of warrant that we would expect from the opening salvo blunder that claims as "facts" that which cannot be facts. So, as at now, Mr Dawkins leaves us with no root for the tree of life, much less a claim so well substantiated that to object to it is the moral equivalent of holocaust denial. That is, we are right back at Lewontin-style a priori materialism that, as Johnson long since pointed out, implies that the conclusion MUST be made that material processes led to life and its body plan level diversification. Then, with the eye of evo mat faith, then the slightest traces of things that can be bent and stretched into the story will look like solid proof. Only, it is not. Far from it -- and as the "must" twice used by Dawkins and his oh so revealing boast about natural selection ("the sorts of improvement that only natural selection can achieve") highlight -- we are clearly seeing a circular, tail-chasing logically fallacious game at work. KF kairosfocus
Allan Miller:
People on the ‘materialism side’ are naturally skeptical of the capacities of the agents you (Mung) think the evidence points towards.
Well Allan, then all those people have to do is step up and demonstrate that matter, energy, necessity and chance are all that is required. Yet you NEVER do. THAT is why we are skeptical of your skepticism. So please, spare us your insipidity. Joe
Dawkins lists references but unfortunately not one of his references demonstrates that natural selection is a designer mimic and not one demonstrates anything that says blind and undirected chemical processes are up to the task. IOW Alan, you don't have any ability to judge anything on their merits, and it shows. Joe
KF:
Please, do not insinuate dishonesty on my part to highlight such a serious problem with the source you allude to as authoritative.
Mr M, I was not insinuating. I said clearly that I thought your attempt to dismiss a particular book on the grounds of Dawkins well-known views about creationists was not very honest. Dawkins lists all his references. If you want to wave that away, fair enough but this indeed confirms for me your ability to judge issues on their merits. Alan Fox
Also the book, at least in its title, claims to really tackle the evolution question head-on. Where else would a reader look for evidence that "evolution is true"? Yet if it truly represents the main force of that evidence, the best they've got, it's pretty underwhelming. Did we think Coyne would answer our criticisms this time around? No, like the real Dawkins, he's not really in the habit of engaging serious challenges.
http://www.evolutionnews.org/2012/12/here_it_is_jon1067261.html Mung
And Cubist continues their ignorance of science:
Case in point: Dembski’s Explanatory Filter, which purports to detect Design by ruling out all possible non-Design explanations for the Design-candidate thingie of interest… but you can’t rule out an explanation you aren’t aware of.
1- Both Newton's four rules of scientific investigation and parsimony MANDATE THE ELIMINATION of necessity and chance before a design inference can be reached. Also there isn't any eliminating all possible- just all known. 2- It is NOT ENOUGH TO ELIMINATE, there also has to be some positive evidence, ie a specification. 3- Science goes with our current knowledge. It does not and cannot wait for what the future may or may not uncover. THAT is why ALL SCIENTIC INFERENCES ARE TENTATIVE. They can either be confirmed or refuted as our knowledge base grows. Joe
F/N: It is also clear from above that the logic of "no root, no shoots" is directly relevant to the convenient refusal to address the OOL challenge that is the foundation of the claimed ability of life forms to evolve at macro-, bauplane level [to use the German to highlight that this is not mere "misconception" as the strawman dismissal above insinuates] by blind chance and mechanical necessity. The unanswered Cambrian fossil life revolution after 150 years of scouring fossil beds, billions in situ, millions in museums and 250 k + species, showing a persistent pattern of gaps, stasis sudden appearances and disappearances speak eloquently tot he needle in haystack challenge of getting 10 - 100+ mn bits of functionally specific complex information to build such bauplane de noveo dozens and dozens of times over. In short, we see a back-handed confirmation that there is in fact a serious lack of ability to address either OOL or OOBPs on empirical warrant, coming from the darwinist perspective. But of course that will not be openly conceded. The force of the 6,000 word essay challenge is ever more clear. KF kairosfocus
Onlookers (& attn AF et al): AF Speaks, on the issue of civility in discussion about a matter that is pivotal to the present state and future progress of our civilisation:
It is entirely up to you (or whoever decides UD policy) whether you accept comments from a particular poster or not. Don’t expect gratitude for submitting (temporarily, for your own agenda) to generally accepted rules of civil behaviour. You either want to indulge in dialogue or you don’t. Up to you (or whoever makes the policy day-to-day at UD).
We see in action above the basic worldview-driven IS-OUGHT gap problem with the sort of evolutionary materialist radicals we are dealing with exposed for all to see. Remember, this is a man who has just accused me falsely of dishonesty, and who cited with approval from a man who announced -- in the teeth of the epistemic possibilities on empirical knowledge of the deep past -- that his model of origins is a "fact" on such a level that those who question it are comparable to holocaust-denying bully boys persecuting teachers etc. (We need not elaborate on the expelled phenomenon to see the turnabout games involved, just note on it.) To such -- sadly but plainly, matters of civility, courtesy, common decency, fairness, truthfulness, respect for reputation, and rights easily degenerate into the spoils of the power game. And since such as I are obviously viewed as threats, the only rule is, what such think they can get away with for the moment. (Cf various hate sites for samplers.) AND SO, WE ARE ENTITLED TO DRAW OUR OWN CONCLUSIONS ABOUT WHAT SUCH ARE LIABLE TO DO WITH POWER, AND THEREFORE TAKE STRINGENT MEASURES TO ASSURE THAT THEY CANNOT WRECK SERIOUS DISCUSSION WITH DISRESPECTFUL ABUSIVE BEHAVIOUR. if we are wise, we will mark such for the destructive nihilists they are, and -- for the sake of our safety -- beware of ceding them any significant degree of control. (As a first step, whenever they speak of or imply a right to act as they do, it would be worth the while to see whether their behaviour shows that mutuality of respect that is the grounds for civil liberty. So far, too often what I am seeing tells me just the opposite. For instance, when one has falsely accused some one of dishonesty, and/or has embraced one who makes false claims about the degree of warrant for his views, then goes on to invidiously associate those who question such with holocaust deniers, that person needs to make some fairly serious amends.) It will also help to see how this line is tangential, and is led away to a zone of willful atmosphere poisoning by those who behave as just warned against. KF kairosfocus
@ Alan Fox How many times The theory of evolution can't say anything about how life's diversity arose without saying something about how it originated. AND: You don't get to start with that which needs an explanation in the first place. Your position cannot explain how organisms develop. And it cannot explain meiosis and sexual reproduction. So bite it. Have a good day Joe
Alan Fox:
It is ridiculously simplistic to talk in terms of body plans.
Yes. We're trying to make it easy on you. Eric Anderson
Alan, since the authors you appealed to don't address the issues, why shouldn't we ignore them? Why shouldn't KF ignore them? Mung
@ mung How many times: The theory of evolution does not address the origin of life on Earth! And: "Body plans" is a common misconception about how organisms develop. Try to imagine how a fertilised human ovum develops via a new-born baby to a sexually active adult. At each stage, from single cell to adult, at each moment, the organism is capable of sustaining life (with help from mother at least) and all must be orchestrated somehow with whatever information is packed into that ovum. It is ridiculously simplistic to talk in terms of body plans. Google evo-devo if you are genuinely interested. Alan Fox
With all due respect, you are a guest in a thread I have posted.
It is entirely up to you (or whoever decides UD policy) whether you accept comments from a particular poster or not. Don't expect gratitude for submitting (temporarily, for your own agenda) to generally accepted rules of civil behaviour. You either want to indulge in dialogue or you don't. Up to you (or whoever makes the policy day-to-day at UD). Alan Fox
Alan Fox:
Busy for the rest of the day at least.
When you can find the time: 1.) Origin of Life 2.) Origin of Body Plans Now, if you would be so kind as to merely point out the chapters in the popular books by the above authors [Carroll, Coyne, Shubin, Dawkins] which deal with those two topics specifically, we’ll have a look. Mung
Mr Fox: With all due respect, you are a guest in a thread I have posted. FYI, this imposes a modicum of responsibility to respect the truth, fairness and the like. As in basic civility and polite company -- "Living Room" -- rules. However, overnight, you have managed to accuse me falsely of dishonesty, when I called your attention to what Mr Dawkins actually asserted in a book you cited as authoritative, in answer to a 6,000 word essay challenge I have raised for coming on three months now. When I corrected you, you managed to ignore it, deciding to instead answer to Mung by in effect accusing him of incivility and also suggesting that Mr Arrington, Blog Owner, normally responds in an arbitrary fashion. All of this is calculated to polarise, not to seriously resolve your problems, and get back to dealing with matters of substance. A very, very, very familiar pattern seen over the years with design skeptics. Or, should I use your own tactics and say "design deniers"? (Do you see the doors such would open up, and with what is on the table since last evening, with some very relevant examples in point? I will not go down that line, however. Instead, I request you to kindly, desist from such side-tracking polarisation tactics.) The "UD censorship" talking point is also highly misleading and invidious, as the fact Mung alluded to not only your personal involvement but the wider pattern of several threads on this general topic with altogether over 4,000 comments pro and con since Aug-Sept shows. It seems, frankly, that you are unwilling to face the fact that so long as commentators abide by rules of civility and remaining reasonably on topic instead of doing the profoundly rude behaviour of wasting time and effort -- I here speak of weeks and months of time wasted as can be seen in the silly distraction put up recently over the meaning of the term "arbitrary" recently -- through calculated persistent evasions and distractions, they have no problem with registering and commenting at UD. Instead, in the teeth of clear and abundant evidence to the contrary, you seem locked into a convenient and profoundly misleading, calculatedly polarising toxic talking point accusation about arbitrary censorship in the face of effective and cogent response. Where, I have very direct experience that if there is not serious moderation of discussion on this topic, there is a serious problem that objectors to design theory routinely run off along red herrings led out to strawmen soaked in ad hominems and ignited through snide or incendiary rhetoric to cloud issues, confuse onlookers, poison and polarise the atmosphere. Where, there are many such who outright maintain or participate in HATE SITES. As in I have had enough of being smeared unfairly, and having my family "outed" and threatened mafiosio style. Are you not decent enough to be ashamed of being seen in company like that? Do you not find it shameful that Mr Dawkins makes the sort of exaggerated claims shown overnight then backs them up with utterly toxic invidious associations that those who object to such exaggerations are in effect comparable to Holocaust deniers? If you do, why then did you even cite the book that does this? Do you not see that his is first a fallacy of over-claiming a case utterly beyond what the basic epistemology of empirically grounded knowledge claims will allow? Is that not at minimum discreditingly sophomoric and irresponsible? And to compound that blunder with an invidious insinuation of being morally equivalent to holocaust deniers is outrageous! Not to mention, twisting about the actual demonstrable track record of intimidatory behaviour and career busting as well as holding the children of Kansas hostage -- and I here specifically mean the US NAs and NSTA, which are august bodies not mere web commenters -- to pretend that it is objectors to such stunts who are the bullies! As in "he hit back first"! That, in the context of your actions overnight (not to mention how your attempted brush-off of the 6,000 word essay challenge spectacularly collapsed in exactly the context of contempt and smear tactics by Mr Dawkins, a chief representative of your views), speaks volumes, utter volumes. It seems, sadly, that you and too many other skeptics have a major problem with basic respect, common decency and good manners. Kindly, pull up your socks. And, when you have done so, I suggest to you that you would be better advised to actually seriously ponder the issues at stake instead of playing at the sort of rhetorical games I have been seeing and have again had to note on. Where, even this comment is about an utterly unnecessary tangential point, which is calculated to be toxic and polarising, not on the substantial issue on the table, the need to address actually grounding the claims of evolutionary materialism on solid evidence, especially in a context where people are attaching inappropriate labels like "fact" to such reconstructions of the deep past of origins as are being touted and where those who question such extravagant claims are being compared to holocaust deniers. (Who, BTW, in many jurisdictions, are subject to legal action and apparently even gaol. Do you intend to come for us to lock us up next, for daring to think for ourselves? Do you not see the implications of the line of rhetoric you and those you cite are using?) Cho man, do betta dan dat! Good day, sir GEM of TKI kairosfocus
Alan, does it not bother you in the slightest that every time you post here without being banned and every time you receive a civil response that you’re putting the lie to “The Myth of Uncommon Descent” currently prevalent at TSZ?
Barry can accept or reject commenters at his whim. I choose whether to comment or not. I've observed UD for too long to be impressed by any short-term policy change. Is everyone banned, for example, during the "one word answer" challenge reinstated? Reputations: easy to lose, hard to recover! I am not sure mung understands the concept of a civil response, BTW! :) Busy for the rest of the day at least. Alan Fox
Alan, does it not bother you in the slightest that every time you post here without being banned and every time you receive a civil response that you’re putting the lie to “The Myth of Uncommon Descent” currently prevalent at TSZ?
Barry can accept or reject commenters at his whim. I choose whether to comment or not. I've observed UD for too long to be impressed by any short-term policy change. Is everyone banned, for example, during the "one word answer" challenge reinstated? Reputations: easy to lose, hard to recover! I am not sure mung understands the concept of a civil response, BTW! :) Busy for the rest of the day at least. Alan Fox
Joe Felsenstein on December 8, 2012 at 2:57 pm said:
dFCSI requires an assessment of “function”.
Yes, that what the "F" in dFSCI stands for. If it's not functional, how can it contribute to reproductive differential?
tierra has no clearly definable function other than survival — whether a particular genotype persists. I cannot easily see how we could use that to assess “function” for dFCSI.
tierra is a program. As such, it has a clearly definable function. What are we to make of the fact that you cannot discern the function of the tierra program? Perhaps what you meant to say was that the organisms in tierra have no function other than to survive. But that would be false. Mung
Joe Felsenstein on December 7, 2012 at 5:26 am said:
However dumb I may be, even I realize that the four haplotype frequencies have to add up to 1. So you can’t increase all of them at the same time.
No one was accusing you of being dumb Joe, just negligent. You neglected to present all the relevant facts. As an educator, do you believe that neglecting relevant facts is acceptable behavior? You decided to mention only A and B. You cherry-picked your data. As an educator, do you believe thatcherry-picking data is acceptable behavior?
The issue was whether a new type could come into existence as the result of natural selection.
That's not the issue as far as I am concerned. New types can come into existence without natural selection. It happens all the time. New types can come into existence in spite of natural selection. It happens all the time. Is this something you deny? Your assertion was that natural selection increased combinatorial probabilities. We saw that the actual fact of the matter is that IF natural selection is increasing the probability of a given combination of alleles it is also at the same time and in the same measure DECREASING the probability of other combinations of alleles.
Mung (#949) doesn’t “get it”
And I still don't get it. This is the alleged engine of evolution? How does increasing the probability of AB while decreasing the probability of ab accomplish whatever it is that you are relying on natural selection to accomplish?
When land vertebrate forelimbs evolved from fins, the frequencies of alleles that made fins decreased as the frequencies of alleles that made limbs increased, and that is not a problem for evolution.
Hand waving and story telling are no substitute for the strong evidence required by the "true skeptic." The "true skeptic" seems to be a vanishing species at TSZ, if it ever actually existed there to begin with.
In the original population there were 1,000,000 mosquitos and an expected frequency of the AB haplotype of 0.00000001, which means basically no AB’s at all.
not necessarily
Now suppose that A and B are favorable. Each rises to a frequency of 0.01.
Why does each need to rise to that particular frequency? It's rather arbitrary, don't you think? How many generations of mosquito sex did it take? Mung
Dawkins’ “The Greatest Show on Earth” is a tour de force. One Long Bluff: A Review of Richard Dawkins’ “The Greatest Show on Earth” The merest rudiments The Greatest Spin on Earth A “remarkable fact” And that doesn't even begin to cover my own comments on the content of Dawkins' book. Mung
Mr Fox: You cited with approval, a book that makes the sort of invidious attack that I outlined. If you do not want to be challenged on what that book claims, then don't cite it please. In addition, in the context in which it plays the holocaust denier card, the book makes a grossly exaggerated claim on the degree of warrant possible for any theory of the remote unobservable deep past. It THEN also directly insinuates that to reject such a claim is tantamount to holocaust denial and bullying of those who teach such. Please, do not insinuate dishonesty on my part to highlight such a serious problem with the source you allude to as authoritative. That would be little more than an immoral equivalency attempt turnabout accusation. Where, Mr Dawkins, in recent years has made some very public claims and associations. Including with the case of choosing to appear on the same stage with Aiden, of Atheist Anthem infamy. As at now, Mr Dawkins is seriously tainted by his behaviour and declarations since at least 2006. Do you not also see one good reason for me to call for a fresh, clean look on the merits in the 6,000 word essay challenge? Next, you again trot out the talking point that evolutionary theory does not address OOL, but builds on it. Yes, we know what has been done since Darwin, indeed if you will look in the IOSE, I cite the passage at the end of Origin; here -- after first dealing with key ideas and issues, the timeline and cosmological issues and OOL. But that is just the point, the OOL is the root of the tree of life and it is the most important part of it. So, if you propose that you have a materialist theory of origin of the world of life, you had better have a good account of the root. That lack is exactly a key issue to highlight. And indeed, it is the case where there is no pre existing reproduction mechanism on genes to mutate and evolve, so the challenge to account for FSCO/I is there in the starkest terms. As has been pointed out already, the only empirically warranted source for such is design. Design is there as a serious candidate, and indeed in the Darwin remarks at the end of Origin, he alludes to life being created. Though of course in a private letter he would have been confident would be part of his intellectual legacy, he spoke of the notorious warm little salt filled electrified pond giving rise to a protein. So, since the issue of no root no shoot is highly relevant, we have every right to raise it. Besides, it is commonly raised in the relevant context of textbooks. And, once the issue of OOL is on the table, it shows that design is a serious candidate explanation, which then shifts decisively the context in which we evaluate the actual evidence of origin of diverse body plans. Common design -- which BTW is not inconsistent with common descent [cf. Behe] -- is definitely sitting at the table as of right not sufferance. KF kairosfocus
Alan Fox:
... the best efforts of Coyne, Shubin, Carroll are derided here. Dawkins’ “The GreatestShow on Earth” is a tour de force. that I imagine KF will wave away.
Coyne's book is being [metaphorically] shredded over at ENV. KF will rightly wave away anything not relevant to the two stated items of interest: 1.) Origin of Life 2.) Origin of Body Plans Now, if you would be so kind as to merely point out the chapters in the popular books by the above authors which deal with those two topics specifically, we'll have a look. A quick glance at the index of Dawkins' book shows no entry for Origin of Life or Body Plans. The "Cambrian Explosion" appears to warrant at least a single mention in the entire book. Mung
F/N 2: The REAL bully-boy game, and again, here. For shame, Mr Dawkins. kairosfocus
Alan, does it not bother you in the slightest that every time you post here without being banned and every time you receive a civil response that you're putting the lie to "The Myth of Uncommon Descent" currently prevalent at TSZ? Mung
Well Alan, since it appears that you get to make up special rules for yourself when it comes to what counts as evidence, why don't I get to do the same? I don't have to provide you any links. The evidence is all there. But since I'm trying to not be like the "skeptics" you are representative of, I offer you two lines of argument: 1. Evolutionary theory attempts to explain the origin of novel forms of life. It follows that it addresses the origins of living things. 2. Evolutionary theory is the alternative to special creation. It follows that it addresses the origin of life. Now, regarding proofs from Darwin himself, do you you really want me to find all the instances of "on the theory of special creation" for you? Darwin's theory was an attempt to rule out acts of special creation. If it fails to rule out all acts of special creation, what good is it? If even one miracle is allowed, even at the beginning with the OOL, then the entire edifice is built on sand. What was Darwin's comment about allowing even one instance of the miraculous? Now as to the second assertion you made, it is clear that ID depends on the evidence available from known intelligent causes. To claim that there is no evidence is then to say that you're either ignorant of that fact or that choose to ignore the evidence. To be ignorant. To ignore (to be willfully ignorant). Mung
Alan Fox:
Evolutionary theory addresses life’s diversity, not it’s origin.
If it does not address life's origins then it cannot address its diversity because the two are DIRECTLY linked. Ignore that all you want it doesn't change the fact. Joe
Alan Fox:
As Joe has confirmed, the best efforts of Coyne, Shubin, Carroll are derided here.
LoL! That is because those best efforts do not address blind and undirected chemical processes. And most of the claims made can't even be tested. That means those best efforst should be derided everywhere. Only true believers accept them- that should tell you something. Joe
Alan Fox:
But evolutionary theory does still not address the origin of life on Earth.
Right and that is one of te reasons it is bogus as how life started directly impacts how it evolved. Also Intelligent design is not anti-evolution, meaning your cowardly equivocation is duly noted. Joe
...the OOL is the ROOT of the tree of life.
But evolutionary theory does still not address the origin of life on Earth. I happen not to share the optimism of some scientists who appear to think that scientific research will soon be able to provide a convincing answer but one never knows. I endorsed Dawkins' "The Greatest Show on Earth" as an excellent example of a popular work on the evidence for evolution. To extrapolate that to imply that I have given a general endorsement of all his expressed views is unjustified. To demand a retraction of something I have not said is not civil nor very honest. Alan Fox
F/N: There are billions of observed cases that show FSCO/I to be a characteristic product of design. Where, despite much pretence otherwise, genetic algorithms and the like are actually also cases in point. (Just consider the implications of how controlled chance variation is used to make cases wander around defined upward sloping fitness functions, etc.) There are no credible cases where blind chance and mechanical necessity have produced FSCO/I. Therefore it is a reasonable, inductively warranted conclusion that FSCO/I is a reliable sign of design, a conclusion that is easily supported by needle in haystack blind search analyses. It turns out that cell based life brims over with such FSCO/I. The reason this is not taken as a no-brainer exercise, is that the sign cuts across a major, institutionally and culturally embedded a priori, that is often dressed up in the holy lab coat. kairosfocus
Mr Fox: Perhaps you have not taken time to look at the example tree of life diagram in the Challenge post, from a certain Smithsonian Museum. It shows that -- as the logic indicates -- the OOL is the ROOT of the tree of life. The implications of that are quite clear. Let me put it this way: no root, no shoots. If you have a materialist account of the origin of the world of life, it may be convenient not to address OOL, but it is plain that the issue is indeed pivotal, as the common fact that textbooks and courses in bio do present and have presented for decades something like the now untenable Miller-Urey exercise shows. I see you try to present a date for OOL as though it were unquestionable fact. The context should serve to indicate why such would at best be a model point on a timeline that is equally less than certain. As to Mr Dawkins and his sophomoric assertions, let this speak:
Evolution is a fact. Beyond reasonable doubt, beyond serious doubt, beyond sane, informed, intelligent doubt, beyond doubt evolution is a fact. The evidence for evolution is at least as strong as the evidence for the Holocaust, even allowing for eye witnesses to the Holocaust. It is the plain truth that we are cousins of chimpanzees, somewhat more distant cousins of monkeys, more distant cousins still of aardvarks and manatees, yet more distant cousins of bananas and turnips…continue the list as long as desired. That didn’t have to be true. It is not self-evidently, tautologically, obviously true, and there was a time when most people, even educated people, thought it wasn’t. It didn’t have to be true, but it is. We know this because a rising flood of evidence supports it. Evolution is a fact, and this book will demonstrate it. No reputable scientist disputes it, and no unbiased reader will close the book doubting it …Imagine you are a teacher of recent history, and your lessons on 20th century Europe are boycotted…by politically muscular groups of Holocaust deniers. The plight of many science teachers today is not less dire. When they attempt to expound the central principle of biology they are harried and stymied, hassled and bullied.
No theory or reconstruction of the remote and unobserved, unobservable past can be a fact, period. At best, such is a model. To then proceed to the obscene pretence that to object to such a categorical error is the moral equivalent of denial of a fact of living memory history with artifacts and record behind it, is outright inexcusable, especially the implied, subtext invidious association with those who would carry out onward genocide; who typically deny the last one by way of paving the way to the next. (Cf review by UD's JM here.) These are ad hominem laced strawman tactics. That you cite such as perceived to be authoritative is revealing as well as a trifecta distraction: red herring led off to strawman soaked in ad hominems to be ignited to confuse, cloud, poison and polarise the atmosphere. It is quite clear that here again we see a diversion from the issue of a clear challenge of warrant on the table. If you did have a solid warrant, the objections that could be made at UD would be so obviously futile that the result would be patent. And your apparent endorsement of such speaks volumes, none of it to your good. Please think again, and retract. What is instead increasingly clear is that Philip Johnson was right: the key issue is a philosophical biasing a priori, such that the issue is decided before actual facts we ground empirically can speak. Here is his reply to Lewontin:
For scientific materialists the materialism comes first; the science comes thereafter. [[Emphasis original] We might more accurately term them "materialists employing science." And if materialism is true, then some materialistic theory of evolution has to be true simply as a matter of logical deduction, regardless of the evidence. That theory will necessarily be at least roughly like neo-Darwinism, in that it will have to involve some combination of random changes and law-like processes capable of producing complicated organisms that (in Dawkins’ words) "give the appearance of having been designed for a purpose." {Emphasis added] . . . . The debate about creation and evolution is not deadlocked . . . Biblical literalism is not the issue. The issue is whether materialism and rationality are the same thing. Darwinism is based on an a priori commitment to materialism, not on a philosophically neutral assessment of the evidence. Separate the philosophy from the science, and the proud tower collapses. [[Emphasis added.] [[The Unraveling of Scientific Materialism, First Things, 77 (Nov. 1997), pp. 22 – 25.]
It is ever more clear that the science of origins lies in ideological captivity to Lewontinian a priori materialism dressed up in a lab coat. KF kairosfocus
Exhibit A: Origin of Species is available on line here, all six editions, in fact. I challenge you to link to any passage where evolutionary theory is applied to life's arrival on Earth. Exhibit B: I said evidence-based. Alan Fox
Alan Fox, Exhibit A: The Origin of Species by Charles Darwin Exhibit B: The Design of Life by Dembski and Wells. Mung
Meanwhile, over at TSZ, keiths has posted another anti-intellectual faux-skeptical evidence-free screed, contrary to the wishes of the founder of the site. Elizabeth Liddle:
In most venues, one view dominates [just like at TSZ], and there is a kind of “resident prior” about the integrity, intelligence and motivation of those who differ from the majority view [just like at TSZ]. That is why the strapline says: “Park your priors by the door”.
Unless your handle is keiths. Mung
@ mung. Your response suggests you have evidence that evolutionary theory does address life's origin. Then please show it. You know of an evidence-based theory of the origin of life on Earth? Then let's hear it. Alan Fox
Alan Fox:
Evolutionary theory addresses life’s diversity, not it’s origin.
That's not true. Alan Fox:
Nobody has an evidence-supported theory about the origin of life on Earth.
That's not true. Mung
Let’s see if, after coming on three months now, there will be any willing to actually step up to the plate.
I suspect there won't be any takers. Why would anyone bother? As Joe has confirmed, the best efforts of Coyne, Shubin, Carroll are derided here. Dawkins' "The GreatestShow on Earth" is a tour de force that I imagine KF will wave away. Why should the "B" team of random internet addicts fare any better here. Who would benefit? Alan Fox
kairosfocus
...an attempt to slice off the most decisive issue, OOL.
Evolutionary theory addresses life's diversity, not it's origin. Nobody has an evidence-supported theory about the origin of life on Earth. Beyond the undeniable fact that life got started on Earth around 3.6 billion years ago, after the planet was cool enough for liquid water, we just don't have the evidence to test the numerous theories that have been put forward. Unless evidence turns up (especially from elsewhere in the universe; in which case, all bets are off) we have to accept that we don't know and may never know. That doesn't stop imagination. Imagine all you want but if evidence does turn up then imagination needs to defer to reality.
...battlecruiser at Jutland...
Unanswerable! ;) Alan Fox
I've found an explanation for the passion of keiths for his theory of unguided evolution. It's called Benford's law of controversy:
Passion is inversely proportional to the amount of real information available.
Mung
And the 4,000+ comments pro and con in the several threads triggered since Sept give the lie to the well-poisoning talking point that no serious exchange of ideas can be had at UD.
Yes, they not only lie to others, also they lie to themselves. Martyrs for the cause of Darwinism. How utterly pathetic. Mung
F/N: For those who need a boiled down version of the challenge, here it is from early in the thread of discussion:
Provide an adequately empirically warranted account on blind watchmaker thesis chance and necessity mechanisms that accounts for OOL and OO body plans etc. Condense to 6,000 words, and submit. Those looking on will be able to see for themselves whether there is adequate warrant, or whether we are dealing with Lewontin’s imposition of a priori materialism that forces a blind watchmaker conclusion by writing the conclusion before the evidence can speak.
Let's see if, after coming on three months now, there will be any willing to actually step up to the plate. (Notice, Wikipedia -- per clipping -- has long since stood in for the silent objectors on OOL and on OOBP's, and it is clear from both the clips and the associated linked articles that there will be major difficulties actually adequately grounding the evo mat case.) KF kairosfocus
Joe: Looks like KS -- cf earlier, sadly richly deserved rebuke -- is fishing for poster child status. In October, he posted a complaint objecting to how the terms of the 6,000 word essay were so demanding -- remember, the evolutionary materialist frame is often presented as established "fact" comparable to the roundness of the earth or the orbiting of the planets around the sun -- and then indulged in personal attacks, saying in effect that my standing up and insisting on reasonable responsiveness and a modicum of civility were censorship. (Cf my comment on CR's behaviour here, as in, he has had a known and unresolved slander problem, refused to deal with it, and insisted on distractive side issues tied to tendentious notions on the nature of scientific reasoning and the logic of induction that are irrelevant to the provision of warrant adequate to claim that the evo mat, blind watchmaker picture of origins is sufficiently well warranted that it is acceptable to compare it to say the orbiting of planets around the Sun..) (Reminds me of the tendency these days to suggest that to defend yourself is unacceptable. Sorry, I am an old classroom teacher who has met more than one unruly lot in my time, and I know that if rules of reasonable conduct are not vigorously enforced no serious and progressive discussion is possible if the disruptive are around. If you show yourself unable to be civil, after reasonable correction, I will do the equivalent to putting you to stand out by the door of the classroom. And the 4,000+ comments pro and con in the several threads triggered since Sept give the lie to the well-poisoning talking point that no serious exchange of ideas can be had at UD. This is a plain case of "he hit back first." Let's just say, that any student who went home and got parents to come to the school to complain about my putting out a disruptive student or sending him to the principal with a note, was in bigger trouble than he thought. And I won't bother to go on about the College kid who, having been caught cheating in an exam, turned up at a disciplinary meeting with a lawyer in tow. [Let's just say we were not as drastic as the Nigerians who would try a student cheating in national exams on the charge of trying to steal a certificate.]) Here are those oh so unacceptably demanding terms that KS and ilk refuse to meet, while posting distractive and strawman tactic rhetorical attacks on design theory:
UD PRO-DARWINISM ESSAY CHALLENGE: Compose your summary case for darwinism (or any preferred variant that has at least some significant support in the professional literature, such as punctuated equlibria etc) in a fashion that is accessible to the non-technical reader — based on empirical evidence that warrants the inference to body plan level macroevolution — in up to say 6,000 words [a chapter in a serious paper is often about that long]. Outgoing links are welcome so long as they do not become the main point. That is, there must be a coherent essay, with
(i)an intro, (ii) a thesis, (iii) a structure of exposition, (iv) presentation of empirical warrant that meets the inference to best current empirically grounded explanation [--> IBCE] test for scientific reconstructions of the remote past, (v) a discussion and from that (vi) a warranted conclusion.
Your primary objective should be to show in this way, per IBCE, why there is no need to infer to design from the root of the Darwinian tree of life — cf. Smithsonian discussion here – on up (BTW, it will help to find a way to resolve the various divergent trees), on grounds that the Darwinist explanation, as extended to include OOL, is adequate to explain origin and diversification of the tree of life. A second objective of like level is to show how your thesis is further supported by such evidence as suffices to warrant the onward claim that is is credibly the true or approximately true explanation of origin and body-plan level diversification of life; on blind watchmaker style chance variation plus differential reproductive success, starting with some plausible pre-life circumstance. It would be helpful if in that essay you would outline why alternatives such as design, are inferior on the evidence we face. [As an initial spark for thinking, contrast my own survey of origins science here on (note the onward resources page), the definition of design theory in the UD resources tab top of this and every UD page, the Weak Argument Correctives in the same tab, the general resources that pop up on clicking the tab itself, and the discussion of design theory in the NWE article here. You may also want to refer to the site of the IDEA Center, and the Discovery Institute CSC site as well as Mike Gene's Telic Thoughts. Notice IDEA's essay on the case for design here.] . . . . I would put this up as an original post, with preliminary contextual remarks and an invitation to respond in the comments section. I will not submit the post with a rebutting markup or make an immediate rebuttal. In fact, let me make the offer to hold off my own comments for at least five initial comments. I will give you two full days of comments before I post any full post level response; though others at UD will be free to respond in their own right. And BTW, I am making this offer without consulting with the blog owner or others, I am sure they would welcome a serious response . . . [NB: I have given how to contact me in the original Sept 23 post, I will not repeat that in a headlined original post.]
In short, I have simply asked for the equivalent of a half-decent term paper, though of course, the structure does not need to be so formal. A serious feature article type discussion would be more than acceptable. (But in my view, it would be easiest to simply copy out the heads and fill in the blanks, making sure of coverage of the main issues and aspects.) Boiling down, I stated that you need to have a properly organised and responsive essay that covers the ground and makes the case on the empirical merits. KS's irritable dismissal of such a challenge and the shabby rhetorical nature of the way he tried to brush it aside then go over to a red herring, strawman ad hominem tactic attack on design theory eloquently jointly state that he and his ilk have no response on the real merits. Where, in fact, if the objectors to design theory had a substantial case like this, it would be a catastrophic magazine hit for that theory. We can rest assured, that if they were sitting on the facts, they would have long since seized the offer to post a hosted rebuttal at one of the leading ID blogs, and would positively enjoy the explosion that would result. But instead, they are acting like ideologues with a party-line taken to be gospel truth. How dare you question our consensus! In turn, that brings us right back to the cogency of Philip Johnson's retort to Richard Lewontin in 1997:
For scientific materialists the materialism comes first; the science comes thereafter. [[Emphasis original] We might more accurately term them “materialists employing science.” And if materialism is true, then some materialistic theory of evolution has to be true simply as a matter of logical deduction, regardless of the evidence. [emphasis added] That theory will necessarily be at least roughly like neo-Darwinism, in that it will have to involve some combination of random changes and law-like processes capable of producing complicated organisms that (in Dawkins’ words) “give the appearance of having been designed for a purpose.” . . . . The debate about creation and evolution is not deadlocked . . . Biblical literalism is not the issue. The issue is whether materialism and rationality are the same thing. [ --> I think not, by a very long shot, cf here and onward] Darwinism is based on an a priori commitment to materialism, not on a philosophically neutral assessment of the evidence. Separate the philosophy from the science, and the proud tower collapses. [[Emphasis added.] [[The Unraveling of Scientific Materialism, First Things, 77 (Nov. 1997), pp. 22 – 25.]
Bluff called. KF PS: I should note, I have at no point received reasonable notification of an essay submitted by a KS or any other party. I have been told that Talk Origins is an acceptable alternative (where, that site is notoriously manipulative and has long since been exposed as unreliable). I have been pointed to a comment in-thread in the discussion, but that did not address the pivotal issue OOL, and this seems to be a characteristic counter-move, duck OOL on grounds of asserting that it is an assumed pre-requisite of Evolution and is not part of the theory. Unfortunately, it is the first step to the whole process, so origin of C-Chemistry Aqueous medium cell based reproducing life is a legitimate challenge to those who present us with a global materialistic view. Where also, it is exactly OOL that allows us to show just why design is so relevant as a candidate cause, as there is no pre-existing code based genetic reproduction mechanism at that point to allow appeal to "natural selection." And if one wishes to appeal to some hypothetical self-replicating molecule, that raises the issue of the origin of code based replication and the issue of the transition from autocatalytic chemistry or the like, to the von Neumann self replicator based system we see in the world of observed cell based life. Similarly, Wikipedia -- the go to 101 on conventional wisdom, is little or no help to the evo mat cause and case. Rennie's 15 answers exercise similarly failed to seriously address the issues (repeatedly resorting to strawman tactics and evasions, cf here and here), and so on. Remember, we are dealing here with something often presented as practically certain FACT. That is a strong claim indeed and it demands adequate warrant. Empirically grounded warrant, not imposed -- and patently question-begging a priori materialism a la Lewontin et al or tendentious redefinitions of science per Jones, NCSE, ACLU et al that imply that science is a materialistic intellectual game unconnected to actually seeking the truth about the world in the past. kairosfocus
keiths:
I’ve already posted such an essay, and I challenged you to respond to it more than a month and a half ago.
And it's been responded to keiths. It is full of mularky, equivocations and bloviations. And that's not including the lies, misrepresentations and overstatements. These have all been pointed out to you. That you choose to ignore our responses just makes you willfully ignorant. So your cowardice and willful ignorance are duly noted. Have a nice day. Joe
If they don't have legs, then what are they doing with nylons? Joe
No new proteins, no new functions.
and no new legs Mung
ding dind sez:
They will not accept that slightly deleterious mutations can become fixed in a population, and may later serve as enablers for other mutations when the combination is beneficial.
We accept that can happen. However without design to the rescue all you have is sheer dumb luck because natural selection is about slight ADVANTAGEOUS variations and relying on sheer dumb luck isn't scientific.
They will usually fall back on tropes such as “Lenski’s E coli never grew legs in all those generations so yah boo, evolution doesn’t happen”
LoL! Actually Lenski demonstrated a "built-in response to environmental cues". It took a transport protein coding gene that was inactive in the presence of oxygen, ie its promoter was turned off by the presence of oxygen, duplicated it and put the duplicate under control of a promoter that wasn't turned off by the presence of oxygen. And apparently that took a couple of potentiating mutations. No new proteins, no new functions. Joe
petrushka:
My reading of this is that more than half (up to 75 percent) of the amino acids in a functional protein can be substituted for any arbitrary alternative without any effect at all on function.
Not at one time. 75% of the sequence can handle a single change. So in a polypetide of 100 amino acids that is a 1% change Joe
Hypothesis? They don't need no steenkin' hypothesis. They have 38 decimal points. And with the conclusion that unguided evolution predicts 38 decimal points, that is all they need. It kinda gives new meaning to "38 special".... Joe
keiths:
According to them, the complexity and diversity of life cannot be accounted for by unguided evolution (henceforth referred to simply as ‘evolution’) or any other mindless natural process.
Tell us how we can even test the hypothesis of "unguided evolution," whatever that is. How do we test the hypothesis of "mindless natural process," whatever that is? Mung
LoL! keiths' essay is totally evidence-free. Does he really think that his evidence-free rants will convince anyone but the true believers in evolutionism? keiths- please let us know when you get some evidence to support your trope. Joe
keiths, moron:
Intelligent design proponents make a negative argument for design.
No, we don't.
According to them, the complexity and diversity of life cannot be accounted for by unguided evolution (henceforth referred to simply as ‘evolution’) or any other mindless natural process.
Wrong again. The EVIDENCE says taht unguided evolution isn't up to the task. Don't blame us.
If it can’t be accounted for by evolution, they say, then we must invoke design. (Design, after all, can explain anything.
That is a lie. Three sentences and three lies. That could be a record, even for evoTARDs. It is really too bad that not one of ten TSZ ilk will be testifying at any ID vs unguided evolution trial. Joe
KS: Your desperation to avoid actually posting an essay justifying your view on actual empirical evidence, is duly noted in your attempted "challenge." And BTW, every one of those removed or asked to remove themselves were put in that state by their repeated uncivil conduct. That you cannot admit such to be an issue is revealing about your underlying attitudes. KF kairosfocus
Poster child status duly noted here. kairosfocus
F/N: AM needs to advance to poster child status for the price to be paid for projecting patent falsehoods:
an inability to distinguish the continuous and the discrete . . .
Let's start with "inability" -- inability n lack of ability or means; incapacity Collins English Dictionary – Complete and Unabridged. That is, ignorant or stupid. This sets up a demeaning strawman "Creationist." Let it suffice to note that the two founders of modern Young Earth Creationism at ICR were both former University lecturers at Doctoral level, one in Engineering {Morris} and one in Biochemistry [Gish]. The leading Old Earth Creationist [Ross] is a PhD level Astrophysicist. And that's for actual Creationists. It is notorious that the two leading design theory scientists are at the same level. So, ignorant or stupid are simply off the table. As for insane, the insinuation is patently false. Wicked, we all struggle with, and there is no credible reason to see Creationists or design thinkers as especially evil. Save, by insistence on demonisation and dehumanisation as a way to score cheap points against Creationists or design thinkers. Now, on substance. Discrete vs continuous state is a commonplace matter these days, I used to introduce it in lecture 1 of any Digital Electronics unit or course I taught, as ladders vs ropes. That is, there is no defined place to stand between rungs, but one may hang onto a rope anywhere. (Students loved sketches.) In the context of dFSCI (as has been discussed by GP), the d stands for DIGITAL, which is obviously discrete state. DNA, per ACGT, is obviously discrete state, and the AA chains in proteins are obviously specified based on such and are again discrete state. The folding [and, often agglomeration and activation] to form a functional protein is essentially continuous state, seeking a local minimum energy config. Where of course vibrational, translational and rotational modes of freedom are or may be relevant as we are dealing with things that have a temperature, where these of course may be subject to quantisation and freezing out etc.] And, I have pointed out that functionally specific complex organisation and associated information -- FSCO/I -- can be represented or described WLOG as a defined set of digital -- discrete state -- strings, as is common with say AutoCAD. (Where obviously, this can be used to describe a protein config on folding.) So, discussion of discrete state strings is WLOG for the relevant matters. Which has long since been explained by me here, where I regularly point those who discuss these matters to. The problem then is, that once we are past 500 - 1,000 bits worth of functionally specific information, explicit or implicit, we are dealing with a config space of possibilities that is contingent -- there is no effective forcing of relevant config by mechanical necessity or the case would not be contingent. Indeed, with protein AA chains the existence of prions reminds us of just how contingent what we are dealing with is. Yes as in Mad Cow disease, scrapies and it seems Alzheimers. So, we do face the search space challenge issue once we have enough complexity and functional specificity in hand and it remains the case -- GA's being incremental optimisation or cousins to that within islands of function -- that design is the best explanation and the only empirically warranted cause of FSCO/I especially dFSCI. AM is wrong, knows or should easily know he is wrong, and is showing himself to be utterly irresponsible and untrustworthy. KF kairosfocus
Mung: I see that AM is resorting to loaded words -- "Creationism" here usually means in such minds: ignorant, stupid, insane and or wicked Christofascist would-be theocratic tyrant and menace to progressive "rights" -- and that, in a context where he knows or full well should know that the design inference is about empirically reliable signs that point to design as most credible cause, not appeal to religious texts. In short, much the same -- frankly, dishonest -- rhetorical game involved in the pseudo-fallacy, "Gish Gallop" that is now being spread far and wide by those who should or do know better. So, let us take note of the level and tactics being used by objectors, who -- coming on three months now -- cannot find a way to compose and submit a cogent 6,000 word, empirically grounded summary of their case for chance and necessity as adequate to account for origin of life and body plans. Remember, there is an offer on the table to host such an essay on UD. If successful -- IF -- it would devastate design theory. Telling, on the true balance on the merits. KF kairosfocus
I still don't understand why you think this is some great “combinatorial probability increaser.” Mung
keiths:
Many (perhaps most) of the IDers concede that natural selection is effective...
It's effective at reducing combinatorial probabilities. Is that something you want to brag about? This is your vaunted engine of evolutionary change? Joe Felsenstein:
Take a population of one million mosquitos. If allele A ot one locus has a gene frequency of 0.0001, and allele B at another locus has a frequency of 0.0001 also, then if they are associated at random, the haplotype AB would basically not exist in the population, as it would have an expected frequency of 0.00000001. Now suppose that A and B are favorable. Each rises to a frequency of 0.01. Now recombination between these loci would create AB haplotypes at a frequency of 0.0001, which is high enough that they really would exist in the population.
Assume that as 'A' increases in frequency 'a' decreases in frequency. Assume that as 'B' increases in frequency 'b' decreases in frequency. So while you have increased the probability of AB you have decreased the probability of ab. And the probability of Ab and Ba? I still understand why you think this is some great "probability increaser." It's not. Mung
Allan Miller:
A common feature of Creationist argumentation is an inability to distinguish the continuous and the discrete... One could change one letter of a book every 1000 years.
That would be a discrete change. What's your point? Mung
And Allan Miller chimes in with a winnah!:
One could change one letter of a book every 1000 years. At no point does the text become anything other than a minor variant on what went before. And yet cumulatively, over say 100 million years, 100,000 substitutions have taken place, enough to obliterate the original. Books are islanded, of course. They must be comprehensible to be ‘viable’. And so in comes that other Creationist favourite, the argument from analogy. The space of all books is islanded, so the space of [string-system X] must also be islanded. One can therefore (fallaciously) eliminate incremental progression (including that concentrated by differential fitness, the ‘functional/specified’ part) as a ‘necessity mechanism’.
LoL! David Berlinski already covered that:
On the Derivation of Ulysses from Don Quixote I imagine this story being told to me by Jorge Luis Borges one evening in a Buenos Aires cafe. His voice dry and infinitely ironic, the aging, nearly blind literary master observes that "the Ulysses," mistakenly attributed to the Irishman James Joyce, is in fact derived from "the Quixote." I raise my eyebrows. Borges pauses to sip discreetly at the bitter coffee our waiter has placed in front of him, guiding his hands to the saucer. "The details of the remarkable series of events in question may be found at the University of Leiden," he says. "They were conveyed to me by the Freemason Alejandro Ferri in Montevideo." Borges wipes his thin lips with a linen handkerchief that he has withdrawn from his breast pocket. "As you know," he continues, "the original handwritten text of the Quixote was given to an order of French Cistercians in the autumn of 1576." I hold up my hand to signify to our waiter that no further service is needed. "Curiously enough, for none of the brothers could read Spanish, the Order was charged by the Papal Nuncio, Hoyo dos Monterrey (a man of great refinement and implacable will), with the responsibility for copying the Quixote, the printing press having then gained no currency in the wilderness of what is now known as the department of Auvergne. Unable to speak or read Spanish, a language they not unreasonably detested, the brothers copied the Quixote over and over again, re-creating the text but, of course, compromising it as well, and so inadvertently discovering the true nature of authorship. Thus they created Fernando Lor's Los Hombres d'Estado in 1585 by means of a singular series of copying errors, and then in 1654 Juan Luis Samorza's remarkable epistolary novel Por Favor by the same means, and then in 1685, the errors having accumulated sufficiently to change Spanish into French, Moliere's Le Bourgeois Gentilhomme, their copying continuous and indefatigable, the work handed down from generation to generation as a sacred but secret trust, so that in time the brothers of the monastery, known only to members of the Bourbon house and, rumor has it, the Englishman and psychic Conan Doyle, copied into creation Stendhal's The Red and the Black and Flaubert's Madame Bovary, and then as a result of a particularly significant series of errors, in which French changed into Russian, Tolstoy's The Death of Ivan Ilyich and Anna Karenina. Late in the last decade of the 19th century there suddenly emerged, in English, Oscar Wilde's The Importance of Being Earnest, and then the brothers, their numbers reduced by an infectious disease of mysterious origin, finally copied the Ulysses into creation in 1902, the manuscript lying neglected for almost thirteen years and then mysteriously making its way to Paris in 1915, just months before the British attack on the Somme, a circumstance whose significance remains to be determined." I sit there, amazed at what Borges has recounted. "Is it your understanding, then," I ask, "that every novel in the West was created in this way?" "Of course," replies Borges imperturbably. Then he adds: "Although every novel is derived directly from another novel, there is really only one novel, the Quixote."
Nice job Allan.... Joe
OK, evo-bluff called, next comes the table pounding... Joe
Mr Fox: It seems that the attempt is being made to claim that the question has been answered, except that of course there is an attempt to slice off the most decisive issue, OOL. As in, at OOL, there was no antecedent reproductive mechanism and the origin of that favourite device of evolutionary materialists, of reproduction with variation, then culling in the environment through differential reproductive success, is squarely on the table as demanding an adequate, empirically grounded explanation. In other words, you need to start in the warm little electrified salty pond of Darwin or a comparable plausible environment and appealing to blind chemistry and physics only, get to the metabolising, reproducing living cell with the use of code based DNA, algorithms that use the codes, executing nanotech machines etc. I confidently assert that you do not have an empirically warranted adequate substantiation of such an extraordinary claim, or you would have trumpeted it to the highest heavens. I further confidently note that there is just one empirically warranted causal source for algorithmic dFSCI and associated execution machinery; design. Further, that this is backed up by the implications of the needle in the haystack search challenge. So much so that the observation of such in any other context than this one where ideologically loaded a prioris bias the case, it would be immediately obvious that design is the best explanation. Design is on the table from OOL on. And once that is on the table, design is the obvious best explanation for the onward 10 - 100 mn+ bits of further dFSCI required to explain dozens of major body plans, and so forth. All of this has been pointed out long since, and so it is patent that your desire to slice off OOL is an implicit admission that you have no answer to this, for the excellent reason that you do not have valid observational evidence. Let us just say that such easily explains the coyness of refusing to put forth here at UD an invited, hosted 6,000 word summary of a knock-down case that if well warranted would blow up design theory like a battlecruiser at Jutland hit in the Magazine. (I think it was three such vessels the British lost on that day, to basically the same means.) And that, after coming on three months of the offer being on the table. Bluff called. KF kairosfocus
keiths:
Many (perhaps most) of the IDers concede that natural selection is effective, but they claim that its effectiveness is limited to microevolutionary change.
No keiths- natural selection exists but it doesn't do anything. And you cannot provide any evidence to the contrary. It's as if evolutionists are totally clueless as to how science operates and they think their ignoarnce counts against us. I almost can't wait for Dover II... Joe
And Joe Felsenstein continues to prove that he is scientifically illiterate:
Still, there is no proof that natural selection cannot get that far.
Joe, you have serious issues. YOU need POSITIVE evidence taht natural selection CAN do something- and you haven't any. Science does NOT prove a negative Joe and only scientifically illiterate morons think it does. And you have been asking for us to prove a negative for quite some time. Perhaps it is time you lay off the donuts... Joe
Alan Fox:
As I said upthread why reinvent the wheel?
As I said upthread, those wheels don't roll.
And what has the theory of evolution to do with the origin of life?
I have explained that to you also. Just because you can ignore the explanation and prattle on doesn't negate nor refute that explanation, Alan.
ToE does not address life’s origin; it is merely an attempt at explaining life’s diversity following the appearance of the first life on Earth.
Again HOW life originated directly impacts any subsequent evolution. If living organisms were designed then the theory would say they evolved by design, ie according to a plan, like an internal, (real) genetic program. There would be no room for the blind watchmaker thesis except to explain why things break or degenerate. There would be no reason to think that some designer(s) took all the effort and energy to design living organsims, along with a place that will sustain them, yet left everything else up to chance. Joe
Keiths: This is becoming really boring. I have given very clear definitions of what NS and IS are. I have offered a way by which NS, true NS, can be tested. I have specified that this would not be a model of NS, but an implementation of NS in a PC environment. You seem to ask, fastidiously, if a model of NS can be realized by IS. I have repeatedly said that all the models offered by you and by darwinists are examples of IS, not only because the model itself is designed, which bis obvious for a model, but because the model has no formal resemblance with observed parameters really appropriate for NS. I have added that I think we could model NS for microevolutionary events, because we can observe some of those events. Such a model would tell us nothing useful about how often NS happens, and how complex its results can be. We should take those parameters from observed reality, because only an implementation of true NS, or the observation of true NS in action, can give us those parameters. So, the model could only tell us what results we can expect from selection once the selectable property already exists, and assuming a definite reproductive advantage for it. IOWs, the model would give us only a mathematical treatment of what will happen if and when NS happens, and with imaginary properties. That can be interesting, but tells us nothing of how and how much NS happens in some environment, and about its functional information creating capabilities. If the parameters we derive from observation are good, the model is good. But the parameters are not given by the model. For macroevolution, and for complex functional information, we have zero examples to be observed. Zero parameters. So, no model is really possible at present, not even trivial. It is only possible to invent parameters, to invent reproductive advantages, to invent functionalities. Everyone is good at that game. All the GAs proposed by you or by others have clearly nothing to do with possible reasonable parameters of true NS. So, they are not only useless, they are false, is they are presented as models of NS, as Joe Felsenstein and many others have done. This is the simple truth. If you believe that a useful model of NS exists, propose it. gpuccio
Alan Fox:
As I said upthread why reinvent the wheel?
Do they address the origin of life and/or what the minimal requirements are for an information-based system capable of evolving? Mung
...his ilk’s refusal — for coming on three months now — to lay out a 6,000 word summary of their main case on OOL and OO Body plans, etc, in light of empirical evidence; which I have specifically offered to host here at UD.
As I said upthread why reinvent the wheel? And what has the theory of evolution to do with the origin of life? ToE does not address life's origin; it is merely an attempt at explaining life's diversity following the appearance of the first life on Earth. Alan Fox
As promised, here is my discussion on grounding morality in the teeth of evo mat and its implications for the community. kairosfocus
Joe Felsenstein:
But that using a computer algorithm to model the reproduction of a population could not investigate whether CSI could be put into the genome by NS because the CSI is already there in the code that reproduces the digital organisms.
That still holds true, Joe. Yet again I will ask- How can one model natural selection, which in the eral world is a result and after-the-fact assessment? Whatever is good enough survives to reproduce, and whatever is good enough changes- and could change on a daily basis. Only simpletons use simplistic models to model complex processes. And here we have the TSZ ilk... Joe
Mung: Toronto's response is to be understood in light of his and his ilk's refusal -- for coming on three months now -- to lay out a 6,000 word summary of their main case on OOL and OO Body plans, etc, in light of empirical evidence; which I have specifically offered to host here at UD. They know that if they have such a case solidly founded on the merits, it would devastate ID, and they know that one of the leading ID blogs, has an open offer. What is their response? Duck, dodge, accuse and name-call. That pattern implies, strongly, who is confident of their facts and reasoning on the merits, and who is not. As for the remarks about traffic here, that seems to be little more than a complaint that we have had an interaction with their threads for several months issuing in several threads here that have accumulated over 4,000 comments and a commensurate number of visits. If the objectors are serious, they know that they could very easily register here and make their case on substantial points. if they actually had a substantial case, that would soon be quite evident, but he past several thousand comments worth of discussion shows a clear overall pattern that indicates an interest in their part on obfuscation -- as in the silly dispute points over the term "arbitrary" are all the evidence one needs to see this =-- and trashing individuals, rather than seriously grounding their case. (Note, I have had to turn off comments on my own blog because of a wave of abusive commentary, I have had to deal with hate sites, and I have had too much experience of abusive behaviour by advocates of Darwinism when I have taken time to visit sites where they can carry on as they please. Evidently, they do not understand that this sort of ruthless nihilistic destructive and domineering factionism is exactly the point highlighted and warned against as a direct consequence of the radical relativism and amorality of evolutionary materialist worldviews, since Plato in The Laws, Bk X 2350 years ago. That is also why I insist that discussion here should be based on rules for discussion in polite company.) KF kairosfocus
Well eukaryotes are just evolved prokaryotes- 38 freakin' decimal points! Heck we cut Pi off at 2.... Joe
keiths:
I’ve stated repeatedly that HGT has to be limited in order for an objective nested hierarchy to be inferrable.
Prove it.
Note that in Theobald’s example of the 30 taxa, prokaryotes are confined to a single taxon.
How convenient. Some people might call it cherry picking your data.
Thus HGT among prokaryotes doesn’t obscure the objective nested hierarchy.
Because you've obscured the data that would invalidate your theory. And HGT only occurs between prokaryotes? Really? Mung
Toronto:
What I have noticed from this whole gpuccio challenge is that UD is getting the benefit of not having to address everything the “banned”, like myself, have “corrected” IDists on.
You should have thought about the consequences of your actions before you came here and got yourself banned.
I won’t come back either even if my bannination is revoked since that would just increase UD’s traffic and not this one.
Yes, we understand that the truth never mattered, regardless of the forum. Mung
Allan Miller:
Could Mung be mixing up the roles of natural selection and recombination?
Only someone who hadn't actually read my post would think so. The answer is no. If some allele is increasing in frequency, it follows that the alternative is decreasing in frequency. No recombination required. Therefore, the probabilities of a new combination involving the allele that is decreasing in frequency are likewise decreasing in probability. Natural selection decreases combinatorial probabilities. I don't know where you all got the idea that natural selection is some magical one way only panacea to increase probabiltities. Probably from some stupid program Richard Dawkins wrote decades ago. Mung
Joe Felsenstein on December 1, 2012 at 4:20 pm said:
Natural selection can raise the frequency of rare alleles at two loci and make those frequencies high enough to allow the haplotype that has both of these alleles to exist in the population (formed by recombination). At their previous low frequencies the two alleles would not have existed in the same haplotype.
1.) And if there's no recombination, then what, natural selection all of a sudden lacks the same creative capabilities? No, that can't be. So you need to be able to make your argument without appealing to recombination. 2.) The two alleles could still exist together even if neither allele were under selection. This happens all the time. It is not accurate to say that they would not have existed, as you have done. That's just an assumption you are making for rhetorical purposes. At best you can talk about the probability. 3.) In the same measure that natural selection increases the probability of a combination it also decreases the probability of alternative combinations. So what's so special about it?
The issue is whether natural selection can bring about a situation where new combinations of alleles [can]come into existence.
No, that's not the issue. 1.) Natural selection is not required for that to happen. 2.) The issue is what did happen. You know, the actual facts of the situation. Natural selection is supposed to be this creative force, doing what cannot be done by chance alone. And yet it reduces probabilities to the same extent it increases them. So what good is it? You're left with an appeal to the miraculous and the non-demonstrable. To non-science. Mung
Alan Fox:
I am sure gpuccio is only ever thinking in terms of known samples and is convinced that unexplored protein sequence space is a barren desert. What I don’t see is any justification for such a view.
lol. I can see Alan in the Sahara, or the Gobi. Sure, it may look like a vast barren desert, but surely we can traverse it safely without water. gpuccio here, he has no justification for his view that this desert is not just chock full of wells, or that we aren't likely to find water as and when when we need it. gpuccio, like a true skeptic, is asking for the evidence. You have none, so you have to mock him. That's the real gpuccio's challenge. Can you make your case on the actual merits, you know, the evidence. You folks ought to shut that site down until you can find some real skeptics to reign in all the fantasy-science that goes on there. Mung
keiths:
Also, I’m not interested merely in tactics. The thinking of IDers and creationists is also fascinating.
What we find fascinating is the utter lack of thinking evident in the vast majority of posts generated at TSZ. Mung
SG: Thanks for kind words. I was noticing its use in this thread and how it is spreading out beyond biology of origins issues. Since there does not seem to be a standing good rebuttal to this pseudo-fallacy, I have decided to provide something. Hopefully, it will help as a point of reference. KF PS: Did some minor cleanup. kairosfocus
Perhaps Mike Elzinga is just senile:
If this is the same Joe that was ejected from this blog, I seem to remember that he is the one that thinks all melted things are called water.
Nope, that thought never crossed my mind. Mike, I'm the one that pointed out that you said water had a melting point. Perhaps you have melted some of your few remaining neurons since then.
Thus, as I recall, according to him, all compounds and elements have different names depending on whether or not they are in a solid, liquid, or gaseous state.
Strange, I don't recall that.
He apparently thinks that water can be called water only in the liquid state.
It would be very confusing if people said "water" for every state of H2O. "Honey I am going water fishing. Only this time I have to drill a hole in the water to get to the fish in the water below." Why have different names for the different states of H2O? And why "water"? According to "them" the "water" came here as ice.
He doesn’t appear to know that water can exist in several phases.
Living in the North East, and having gone ICE fishing, I know that h2o exists in many states. But I have still never seen water melt. The rest is just Mike be very angry because he knows that his position is untestable and useless. Joe
KF: I read your post and I admire your ability to deconstruct and refute such fallacies. I'm afraid that I get intimidated when I run into this kind of thing and don't know how to respond. sagebrush gardener
I have notified, here, why the term "Gish Gallop" -- used as cited from KS by GP -- is illegitimate and should not be used. KF kairosfocus
Folks, as I said I would try to do, yesterday, here is the comment on the self-referentially incoherent nature of evolutionary materialism. KF kairosfocus
Keiths: Gpuccio, isn’t it a little embarrassing to be making the same argument as the Rain Fairy advocates? Not at all. I have nothing against fairies :) Let's “zero in on the crux of this disagreement” too! You always forget that the true reason why I infer a designer is that this explains a very important observe feature: dFSCI. To be able to explain that by a designer (the only credible explanation available) I have to assume that the designer worked in a way that explains the nested hierarchies. I maintain that this is compatible with a few very simple and reasonable assumptions. As I have explained, it is obvious from what we observe that the implementation of new information is the crucial point. New information, after having been implemented, is simply copied down by reproduction, or by HGT. That is true both in the case of unguided evolution and in the case of a designer. As I have explained, things could be different both in the case of unguided evolution and in the case of a designer. Even darwinists use the concept of "convergent evolution", which is in itself a violation of your rule. Maybe it simply describes cases where design was repeated in different ways, again violating what you say. But I agree that, in general, evolution, be it guided or unguided, proceeds in the way we have said. Now, just to show how natural my few assumptions about the designer are, I will make an example. Imagine that a great artist can paint a new, very beautiful painting by a deeply original creative act. And then, 100 copies of that work are needed in 100 different institutions. The painter can act in two different ways: a) He can paint a new painting, trying to recreate his inspiration, for each of the 100 institutions. b) He has a procedure available that can create 100 identical copies if the original painting (let's say that an identical copy is appropriate for the institutions). The painter chooses b), simply because it is much simpler and it satisfies the requirements (the painter is a very practical man, he is not a macho artist). So, my point is simply: those assumptions are very reasonable, and not completely arbitrary. And they are absolutely justified by the explanatory power of the design theory for dFSCI. You obviously disagree, but that is my point, and I hope I don't have to repeat it many other times. gpuccio
Keiths:
Gpuccio, Those statements contradict each other. You need to retract one of them. If statement #1 were true, it would mean that a fitness function could never legtitimately be included in a model of natural selection. That is obviously false, as you yourself have admitted. I therefore recommend retracting statement #1.
No, I think we can "zero in on the crux of this disagreement". I maintain statement number 1. So, what about a GA that models NS? It is a model which implements parameters appropriate for what is being modeled. It will use intelligent selection, but giving it a mathematical form which mimics true natural selection as we can observe it in nature. In that sense, it can give useful information. The selection in the GA is still intelligent, but it is intelligent and appropriate, at least for the purposes of the GA. So, I maintain also statement #2, and I can see no contradiction. gpuccio
Keiths:
Also, with gpuccio it is sometimes possible to zero in on the crux of a disagreement. You can’t do that with Gish Gallopers. For example: keiths: Gpuccio is therefore betting the farm on the hope that actual biological fitness landscapes will consist of separated “islands of function” which NS cannot navigate. gpuccio: Yes.
I suppose that is in a way a compliment. Thank you... ______ Re KS: Gish Gallop is of course a highly loaded and polarisingly denigratory personal attack, to explain away not having an answer. If you have evidence of improper argumentation give it, if not, stop accusing improperly. KF gpuccio
Keiths: Also, I’m not interested merely in tactics. The thinking of IDers and creationists is also fascinating. Many of them can see that reason and evidence are at odds with their beliefs. How they manage the dissonance, and how they maintain their beliefs in the face of contradictory evidence, is very interesting. I must say that I am fascinated by your thinking too. So, it seems we are both serious anthropologists and psychologists (and maybe sociologists). gpuccio
Joe Felsenstein: We would need to agree on what was or was not a “new function”. And it would not suffice to examine the code that made the new function immediately after it arose, as if it become “complex” later, by elaboration, that would seem to satisfy the requirements of dFCSI. I really don't understand your point here. What a new function is is not really a problem. Imagine that the "evolved" virus can free some memory to reproduce, by a specific set of instructions, while the original virus could do nothing like that, and the set of instructions in the evolved virus has no similarity to the original code in the original virus, and the new set of instructions is more than 500 bits long. That would be new dFSCI. I don't understand the point about "immediately after it arose". What do you mean? We simply monitor the code of the viruses, just like Lenski did in his bacterial experiment. Regarding Tierra, I have asked many times that someone on your side explain clearly how it works. I don't know the code and the system. For example, it would be crucial to understand if the so called replicators in the system are true replicators, and if their replication "advantages" derive from true natural replication functions, and not from measured features. And nobody has ever explained what complexity the system would generate. I you want to use Tierra to make your point, please make your point in detail. gpuccio
keiths:
Unguided evolution predicts the objective nested hierarchy.
Linnean taxonomy doesn't have anything to do with unguided evolution. And according to Theobald Linnean taxonomy is the nested hierarchy. Linnean taxonomy was based on a common design.
No, because HGT is explained by known unintelligent mechanisms.
Cuz keiths sez so! All science so far. keiths, unguided evolution can't even account for genes, nevermind their transfer. BTW keiths, HGT is not limited to prokaryotes. Nothing like ignoring facts and evidence. So if we ignore the facts and the evidence, then unguided evolution could be possible. Joe
PS: Since the issue always comes up, the interested onlooker may wish to see how I separate the empirically grounded inference and the worldviews and commitments debate here. On the morrow I intend to take up the issue of self referential incoherence and evolutionary materialism, even as I continue to monitor what looks rather unfortunately like an attack on our local courthouses. kairosfocus
F/N: Onlookers, it is simple. The provision of a 6,000 or so word essay that actually empirically grounds OOL by blind chance and necessity, and/or body-plan level macro evolution by the same, would devastate design theory. All of this hemming and hawing, pretence that the job has been done -- where, when, by whom? [remember 6,000 words is a reasonable limit for a good feature article length summary] -- and projection of loaded accusations are meant to distract from one simple, solid fact. Over the past two months, with over 4,000 comments across four or five long threads, plus more elsewhere, the objectors to design theory simply have not made their case. So, it can be taken to the bank that the actual situation is quite simple. Namely, FSCO/I in various forms, is an empirically well tested and inductively reliable sign of design. Such FSCO/I is ubiquitous in the world of life, and -- absent a priori materialist blinkers on doing science -- we have every reason to see the best empirically warranted explanation of OOL as design (this comes first as there was no reproductive cell based lifr form till we have this in hand), and with design in the door from the root of the tree of life, there is no good reason not to see major branches from protein domains to body plans as showing signs of design. That cuts clean across the ideology of a priori evolutionary materialism, and that is why we see so much intensity in objections that boil down to very little of the key required substance. And that is before we get to the persistent problem of Darwinist advocates speaking with disregard to truth and duties of care to fairness, hoping that they will profit from such assertions being perceived as true and well warranted. (By now they know what I just defined. and I will just quote my former neighbour: who de cap fit, let im wear it . . . ) KF kairosfocus
keiths:
He seems to understand that it is perfectly fine for the programmer to model variation:
No, that would be an implementation of variation, not a model of it. Sheesh. You can't even put together a coherent argument. Mung
keiths:
Third, the Blu-ray example is easily translated into a biological context. The Designer takes a complex structure that he implemented elsewhere (analogous to the Blu-ray drive) and “transplants” it into 25 distinct lineages (analogous to the 25 separate computer models). It’s design, it conforms to your unjustified assumption, and yet it still ruins the objective nested hierarchy.
Yet another 'test' of evolutionary theory that isn't. If a designer did that, you would claim that the lineages were not distinct because they all shared this feature in common. Say the designer created a genetic code and put it into a bunch of distinct lineages. Then you all would assert this proves they are all related by common ancestry. You wouldn't take it as evidence for design at all. And what your describing is pretty much what happens with HGT isn't it? But you don't attribute that to design, do you. And that invalidates your nested hierarchy, so you ignore it, as Joe has pointed out repeatedly. Are you saying convergence is proof of design? No, you wouldn't say that. Your theory is immune from disconfirmation. ID, otoh, can be refuted. All you have to do is get busy and do it. Mung
Keiths: What he’s suggesting is not a model of NS, it’s an “implementation of NS” — his words. He’s rejecting the idea of modeling selection and saying instead that we must actually implement selection by creating computer viruses which compete for computational resources, which he oddly labels “natural resources”. Hey, it was just a proposal. Why are you so upset? I said that it was not a "model". I also discussed the case of a "model" (see my post #800). The obvious irony (obvious to us, anyway) is that in trying to model NS, he ends up implementing selection, rather than modeling it. I can't see the irony. I said myself that it was not a model, but an implementation. So, why do you say that "in trying to model NS" I "end up implementing selection, rather than modeling it"? A lie, again? And it’s a form of selection that isn’t derived from actual natural fitness landscapes. Instead, it’s based on the success of artificial replicators in an artificial environment with an artificial source of variation. OK, I said that myself. But, if NS can act as a logical principle, it could well act in a computer environment. IOWs, if complex functions can be obtained by replicators who have to share resources, why shouldn't that be true in a computer environment?
He seems to understand that it is perfectly fine for the programmer to model variation: c) we introduce in the replicators some random variation mechanism, which can be modulated appropriately to test different rates and modalities of random variation. Yet for some reason he doesn’t understand that if it’s okay to design a model of random variation, then it’s okay to design a model of natural selection.
No, for the reasons I have many times explained. We can observe RV in nature. We also have some ideas about how often it happens in different contexts, and of the ways it happens. So, it is rather easy to model it. Instead, we observe NS only in microevolutionary contexts. So, that can easily be modeled. But the assumption that NS can generate new complex functions through intermediate selectable steps is, as said many times, only an abstract assumptions. We have no real example of that. We should invent the frequency of how often it happens. We should just invent that it happens, we should assume that complex functions are deconstructable into functional steps with increasing function, and invent how many of those steps may exist. As everybody can easily see, the two scenarios are completely different. Anyway, once you cut through all of his confusion, the bottom line is this: Random variation plus selection can produce functional complexity, as gpuccio himself admits. Random variation plu intelligent selection can do it. That's the only thing I have ever admitted. Random variation plus NS can't do it. Be careful, when you quote me as admitting something. Whether it does so in a particular case depends on the specific fitness landscape involved. No. That is simply not true. And you have never demonstrated it. In IS, the generation of functional complexity, when it happens, depends on intelligent choices of the designer, who introduces all the necessary information in the system in direct or indirect ways. Natural environments are not designers, are not conscious, and are not intelligent. Gpuccio is therefore betting the farm on the hope that actual biological fitness landscapes will consist of separated “islands of function” which NS cannot navigate. Yes. The evidence for the objective nested hierarchy demonstrates that this is a huge mistake. Studies by Szostak, Lenski, Thornton, etc., are additional nails in the coffin. Now I am really scared! gpuccio
keiths:
First of all, you haven’t given any independent justification for your assumption. A designer (and especially a Designer) doesn’t have to work through common descent, and he doesn’t have to reuse what already exists.
So let's label the assumptions and see who is making them: keiths_assumption_01: A designer (and especially a Designer) doesn’t have to work through common descent. keiths_assumption_02: he doesn’t have to reuse what already exists. Assumption Score: gpuccio: 0 keiths: 2 Mung
I see keiths is busy re-writing history as soon as it happens.
Being called a liar by the likes of Mung or Joe is harmless. No one takes them seriously on either side of the debate.
We've known for a long time now that truth is irrelevant to you. Are the actual demonstrations of your lies that we post likewise harmless, or do the facts not matter? And if it's true that my calling you liar is harmless, why the incessant moaning about it? Mung
Keiths: First of all, you haven’t given any independent justification for your assumption. A designer (and especially a Designer) doesn’t have to work through common descent, and he doesn’t have to reuse what already exists. Your only reason for assuming that he does these things is that you are trying to force-fit your theory to the existing evidence. It’s the same error made by an advocate for the Rain Fairy hypothesis who assumes that the Rain Fairy always acts in ways that match the weather we are actually observing. You seem to know things about the designer that I don't know. "A designer (and especially a Designer) doesn’t have to work through common descent, " Why? This is really a bold assumption. The designer can input information through a consciousness matter interface, but why do you think that he can do anything he likes (or, rather, anything you like)? That assumption has no foundation. Working through common descent just measn that the huge informational leap that is implied by OOL had to be done only once. Working in any other way would mean to redo that task each time. It is rather obvious that it is easier to work though common descent. Even unguided evolution could redo the initial miracle many times (if it really were able to do it). But that would not lead to your nested hierarchies. Second, your assumption doesn’t even work. The example I gave, in which a computer designer takes a Blu-ray drive (which already exists) and adds it to 25 different computer models (which already exist), thus intelligently modifying them, conforms to your assumption. Yet I have already shown that it spoils the objective nested hierarchy. No, it conforms to your idea of my assumption. My simple assumption is that an informational input is done once, and then reutilized by common descent or, when appropriate, by HGT. IOWs, the information input is the most difficult task, and it is administered only when necessary. Third, the Blu-ray example is easily translated into a biological context. The Designer takes a complex structure that he implemented elsewhere (analogous to the Blu-ray drive) and “transplants” it into 25 distinct lineages (analogous to the 25 separate computer models). It’s design, it conforms to your unjustified assumption, and yet it still ruins the objective nested hierarchy. There is no reason why a designer should act that way. Human designers have different environments, purposes and contexts. Your human blue ray designer will behave in the most advantageous way for his context. My only assumption is that the biological designer, too, acts in the most advantageous way for his context. You seem to know what that context is or can be, and derive a false logic from your arbitrary assumptions. You have a serious problem. The theory of evolution makes the audacious prediction of an objective nested hierarchy, out of trillions of alternative possibilities. The prediction is confirmed. Under a design hypothesis, you have no reason to expect an objective nested hierarchy. I simply don't agree with your audacious logic. Is that a serious problem for me? I am not aware of that. If you “follow the evidence where it leads”, as IDers like to say, you find that it leads directly away from design and straight to modern evolutionary theory. Let's just say that I will follow the evidence wherever it leads, but I will do that my way, not your way. gpuccio
Toronto:
gpuccio, you have to start posting comments on this side if you want a reply. It’s not fair to readers to have to follow two blogs for one conversation.
So, are you still reading my posts here? Is your “dFSCI” important enough to be defended in a cold objective non-biased environment? Frankly, you are not important enough. You asked for it, now you have it!
gpuccio
Joe Felsenstein:
When ID types come up with arguments that are, or seem to be, quantitative, analyses of these arguments need to appear here (or at other relevant forums such as Panda’s Thumb). I’m going to keep doing that. Of course I am not assuming that the hard-core ID posters and commenters will be convinced. They never acknowledge that any of their arguments are wrong. But there are numerous spectators out there reading these threads, and they need to hear how theoretical and quantitative arguments work, and I can supply that. There are also other TSZ and PT commenters who don’t know how to evaluate these putatively-quantitative ID arguments. These commenters seem to find it useful to have a careful explanation of the theory. We need an accessible place for these quantitative and theoretical arguments to occur. TSZ and PT are such places.
How strange! I could write the same exact words, just changing some names, I believe. gpuccio
Keiths: Personally, I think that interacting with the UDers does more good than harm. Again, we agree. 1. Anyone stumbling onto our odd interblog conversation quickly figures out the reason for it: censorship and banning on the UD side. We welcome open discussion at TSZ. They don’t at UD. That immediately discredits UD in the eyes of any objective observer. OK. You are the good guys! :) 2. IDers like to complain that their ideas aren’t given a fair hearing. TSZ puts the lie to that assertion. We go to great lengths to understand their claims, even when they don’t want us to (hi, Upright!). Look at how many threads we’ve dedicated to gpuccio’s argument, how much time we’ve spent parsing his very unclear declarations, and how much feedback we’ve given him. OK. You are the heroes. And, obviously, I am overwhelmed by your generosity towards this insignificant guy! 3. There are quite a few people who find pro-ID arguments persuasive in isolation. It’s good for such people to see that we can easily rebut those arguments and show that the evidence favors evolution over ID. OK. You are the winners. 4. Being called a liar by the likes of Mung or Joe is harmless. No one takes them seriously on either side of the debate. Now, that's really flattering. Is being called a liar by me a privilege? Or is it harmful? (That would be even better, but I dare not hope so much). 5. Interacting with the IDers reveals a lot about how they think, and why they make the mistakes they do. I think it’s fascinating and entertaining. It also suggests ways of better explaining evolution to those who don’t understand it. OK. You are the detached observers of silly people like us, and the wise teachers! 6. It gives us practice in expressing our positions clearly and logically to a hostile audience. That’s a useful skill to hone, even if the audience in this case tends to be impervious to reasoned argument. OK. Even the gods can improve their skills. What can I say? Nobody could sum up what has really happened here better than that. (For those who will read only this post of mine: maybe I have done it again, I have abandoned old good irony for explicit sarcasm :) ) gpuccio
And what’s up with Mike Elzinga?
He probably thinks that the negative of a log function is physical. Mung
Joe Felsenstein: OK, I sense the frustration and anger, but … really close TSZ down? I vote no. For what it's worth, I vote no too! :) (I hope someone there is still reading me here). gpuccio
Toronto:
Given that, I will only address comments made by ID/creationists on this blog. I also won’t read anything on UD anymore either, since the added traffic/visits will only be to their benefit, not mine since I am “banned” from participating.
Oh, my! Does that mean that I will no more be able to face your terrible challenge? I know, you cannot answer, you don't read here any more! Life is really unjust... gpuccio
I bet keiths thinks the Dawkins Weasel program: a.) Is a GA b.) uses natural selection Mung
And what's up with Mikey Elzinga? He talks as if he has been abused his entire life. Earth to Mikey-> EVIDENCE, as in only positive evidence for your position can do any damage to ID and its arguments. and I take it that it upsets you to no end that your position doesn't have any. Joe
Keiths: At one point, he did retract his claim that fitness functions are verboten: As usual, you are the most careful among my readers (maybe with Petrushka). It's perfectly true, my earlier statement was not correct, so I have retracted it and formulated a different statement. I stick to the second version, obviously.
But he’s still saying things like the following, which makes me wonder if he isn’t regressing to his earlier position: Intelligent selection is any kind of selection where a conscious intelligent being decides what to select, and what the effects of selection will be. In the case of a GA or a computational evolutionary model, the programmer makes those decisions. So according to gpuccio’s criterion, any such GA or model necessarily involves intelligent selection, not natural selection. It looks like he’s still confused.
No. A GA can be accepted, if it models well a real situation that can be observed. Obviously, the GA is designed in all cases, but we can restrict our analysis to what the GA does, not to its existence. It's the same with our previous "challenge", where I have allowed just from the beginning that anyone could use a Random String Generator, provided that its working was really random. We must distinguish between two situations: a) A GA that correctly models a real situation, generates true RV, and, if it introduces some role for NS, tries to stick to realistic parameters for it (which, as I have alredy said, is at present impossible for obvious reasons). In that case, the GA is correct. The GA is designed, but it is not introducing any information beyond what is necessary to correspond to some real system and model it as well as possible. b) A GA that, instead, introduces in the algorithm parameters, procedures, and choices that in no way correspond to what it is apparently modeling. That is not a valid model at all. gpuccio
Keiths: I’ve gone over this with him before, and I thought he was starting to get it, but other things he’s said since then seem to indicate otherwise. I believe I get it very well. I get it so well that I have proposed two different scenarios: a) If you want to model NS, you have to give parameters for how often it really happens, and how much it can lead to complex functions. Those parameters can be fully invented, or derived from observation. If you fully invent them you can say anything you like, but what you say is useless. If you derive from observations, your only parameters can be to attribute no role to NS for the generation of complex functions, because we have no real observed model where that happens. I have also proposed, again to Joe F., post #888, a computer implementation of NS, just to observe what it can do. That is not a model, but a computer experiment, similar to what Lenski is doing in the biological field. The only thing I cannot accept is that you model "NS" by some IS algorithm, with arbitrary parameters, chosen ad hoc for your purposes, that do not correspond to any real example, and then affirm that you are modeling NS and derive conclusions about it from your meaningless game. gpuccio
Alan Fox:
Why would anyone re-invent the wheel? If you dismiss Theobold – if you are not interested in the popular works of Coyne, Carroll or Shubin and all the other vast literature written for professionals, students and the general public, what is an essay by some random people who still happen to read the UD blog going to be worth? Not much!
Maybe you can get one of them to come here and defend their pop-fiction. But I'm guessing they won't. Do any of them have anything to say about the evolution of protein superfamilies and the missing functional protein intermediates? If you guys had a well-reasoned, evidence-based argument you would post it. The fact is that you're all 'believers' in the magical powers of evolution, but can't say why. So instead, you attack ID. Mung
gpuccio:
a) It must be functional b) It must be more functional than what already exists, so that it can be fixed (expanded) in the population. c) It must be in some way more related to the final sequence and structure more than what already exists (IOWs, it must really be an “intermediate”).
Otherwise you may as well just appeal to raw chance. This seems to be lost on Alan and Allen. And if you do calculate the probabilities in terms of raw chance they will scream an holler that you left out the impact of natural selection and it's supposed capability to make the staggeringly improbable somehow more probable. It's a nice shell game, if you can get away with it. Mung
keiths:
Yet for some reason he doesn’t understand that if it’s okay to design a model of random variation, then it’s okay to design a model of natural selection.
With natural selection whatever is good enough survives to reproduce. And with sexual reproduction there's no telling how many offspring will inherit the beneficial mutation. So how, exactly, do you model that? Joe
keiths:
I have given you an explicit example that shows why the design hypothesis doesn’t predict an objective nested hierarchy.
And I have given you an explicit examples that shows why the unguided evolution doesn’t predict an objective nested hierarchy. But you just ignore them because you are willfully ignorant and should be ignored.
If you “follow the evidence where it leads”, as IDers like to say, you find that it leads directly away from design and straight to modern evolutionary theory.
And as soon as there is supporting evidence for the MET we will give it all the consideration it deserves. Until then there isn’t anything to lead us to unguided evolution, not even a testable hypothesis. keiths would definitely eat it in a cold objective non-biased environment. Joe
Joe Felsenstein:
When ID types come up with arguments that are, or seem to be, quantitative, analyses of these arguments need to appear here (or at other relevant forums such as Panda’s Thumb). I’m going to keep doing that.
Unfortunately your arguments against ID would also eat it in a cold objective non-biased environment. As would your "arguments" for the power of natural selection. Joe
keiths:
I have given you an explicit example that shows why the design hypothesis doesn’t predict an objective nested hierarchy. And I have given you an explicit examples that shows why the unguided evolution doesn’t predict an objective nested hierarchy. But you just ignore them because you are willfully ignorant and should be ignored.
If you “follow the evidence where it leads”, as IDers like to say, you find that it leads directly away from design and straight to modern evolutionary theory.
And as soon as there is supporting evidence for the MET we will give it all the consideration it deserves. Until then there isn't anything to lead us to unguided evolution, not even a testable hypothesis. keiths would definitely eat it in a cold objective non-biased environment.
Joe
toronto:
Is your “dFSCI” important enough to be defended in a cold objective non-biased environment?
TSZ isn't such a place, that's for sure. And neither toronto (any TSZ ilk) couldn't defend his position in a cold objective non-biased environment. But they sure can bluff, equivocate, lie and obfuscate. Your parents must be very proud. Joe
Alan Fox redux:
If you dismiss Theobold – if you are not interested in the popular works of Coyne, Carroll or Shubin and all the other vast literature written for professionals, students and the general public, what is an essay by some random people who still happen to read the UD blog going to be worth?
Not one of those guys knows how evolution happened. Not one knows how many mutations it takes to make any of the changes required. Not one addresses UNGUIDED evolution. That said, Theobald gets it totally wrong wrt nested hierarchies- and I and others have explained why. Shubin found Tiktaalik but he has no idea how many mutations it takes to go from fish to Tiktaalik. Not only that thanks to tiktaalik the fossil record shows fish-> tetrapods-> fish-a-pods, yet fish-a-pods are supposed to have come before tetrapods. Carroll deals more with developmental biology, yet he has the same issue- has no udea how many mutations, what mutations nor how to use his skill with development to influence it in such a way to test his claims. As for Coyne, same issue. And they all have another issue- they think that their opponents argue for the fixity of species when even YECs accept change/ variation/ descent with modification, ie evolution. Where's the science? Where are the experiments that demonstrate that natural selection can actually construct something, ie that it is a designer mimic? And if the literature is really that vast then why can't Alan cut and paste so everyone can see that he is bluffing? :razz: Come on Alan, one testable hypothesis for ungiuded evolution- one that would convince people it can do what you say. Joe
Alan Fox:
The case of gene duplication speaks against your point a).
Please tell us how it was determined that gene duplication is a blind and undirected chemical process- be specific. Joe
Alan Fox:
And Joe promptly confirms my point!
So your point was that you are a bluffing equivocator? Joe
Keiths: I see. You have time to post 2,000+ words a day, on average, but you can’t spare a few minutes to work through a simple exercise in phylogenetic inference. Not if I cannot see any relationship with biological reality. That’s a pity, especially considering that the entire issue right now is your misunderstanding of the prerequisites for successful phylogenetic inferences. Show the concept in a biological concept. Regarding the rest of your "argument", please read again what I wrote: "The only “assumption” necessary to explain that kind of nesting in the design explanation is that the designer needs to act through common descent, and to reuse what already exists with intelligent modifications. It seems not such an extreme assumption, and it fits the facts." Given that assumption, it is obvious that the only reasonable answer is #1. Exactly like in the non design scenario. You have stated that "other assumptions" are necessary so that the nested hierarchy is the same in the the two cases. I say that is not true. You have not shown which "other" assumption would be necessary. So do it, or just admit you are wrong. gpuccio
OK, so once again it all hinges on when selection is “natural”. If we set up an computer model with fitnesses, genotypes, mutations, recombination, then the fitnesses must meet gpuccio’s standards to have the simulation accepted. I would never ask do much! Let's say that the fitnesses must meet what we observe in reality, in the processes we are simulating. Just showing that there are (many sets of) fitnesses that can lead to SI increasing, and CSI coming to be present, is not enough. Obviously it's not enough. Only darwinists can think it's enough! For then gpuccio will declare that we have made a case of “intelligent selection” but not “natural selection”. If it is intelligent selection, it is intelligent selection, and that is usually obvious if one considers the intelligent choices made by an intelligent designer in the procedure. There is no special need that gpuccio declares it. Intelligent persons can understand it by using the precious gift they have been endowed with: an unbiased cognitive mind. If they wish. I will readily acknowledge that I have made no big distinction between “selection” and “natural selection” in my posts here. I had that impression, yes. And yet your title boldly referred to NS, if I am not wrong... Just a small methodological "slip". I just am not as sure as gpuccio is how to distinguish between natural and unnatural fitnesses. Strange, because I have answered you explicitly about that, in my post #783, the same from which you quote. What the problem, you only read half of my posts at a time? However, I paste here the pertinent answer: "I am happy to comply. NS is that kind of selection (more correctly, effect) that can happen in a System where there are replicators interacting with environmental resource, and that is due only to the reproductive advantage that some kind of replicator can acquire. Intelligent selection is any kind of selection where a conscious intelligent being decides what to select, and what the effects of selection will be. Simple, isn’t it? NS is “natural” in the sense that it needs no intervention of a designer (once the System with the replicators is already set)." It is worse than that: gpuccio has presented no logical argument or mathematical theorem, or even computer model to back up the assertion that “RV+NS cannot do that”. That's true. And I have clearly said that I will not, and that I have no intention to try. And I have clearly said that you have no evidence to back up the assertion that “RV+NS can do that. And I have clearly said that there is no doubt that the burden of proof is yours, not mine. It's your theory. Your theory, your burden of proof. So all the posters and commenters at UD who keep saying that RV+NS cannot lead to CSI being in the genome are standing on thin air. So, now, observed facts are "thin air"! Good to know. Abd your faith that it can, on what does it stand? See above. I am happy to restrict the questions to “natural” selection if gpuccio and I can agree what is “natural”. I have given a very explicit, ad I hope clear, definition. I have pasted it again. What can I do more? It's up to you to agree or not, and if not, to explain why you don't agree. Skipping other issues which we can come back to if they are important enough — I do have answers for those — I note that gpuccio does define what the distinction is between “natural” and “intelligent” selection: Ah, OK. I note that you have noted. OK, so if I make an evolutionary algorithm with genotypes that lead to phenotypes, and these phenotypes have different abilities to get resources, and the reproduction depends on how much resources each individual can get, gpuccio will say “OK, that is natural selection. Now let’s see what it can or can’t do”? I am not sure I understand. If I understand correctly, that would be exactly the "implementation" of NS I have suggested many times. I would like it very much. My idea was: a) we take some computer environment with natural computer resources, designed in blind by people who are not aware of the implementation we are going to use it for. b) we design replicators that can well reproduce in that environment (like computer viruses) using those natural resources. c) we introduce in the replicators some random variation mechanism, which can be modulated appropriately to test different rates and modalities of random variation. d) we just wait. e) if and when the replicators develop new functions, we check their code to see if the new function is complex. That would be an implementation of NS in a computer environment, and could be considered in some way an indicator of what NS can or cannot do, even if obviously a computer environment remains different from a biological environment. Why do I worry that no matter how I do that, gpuccio will say that no, that way of getting phenotypes from genotypes is not natural, but is intelligently designed by me, and that rule for which phenotype gets which amount of resources is not natural, but is intelligently designed by me. You do it as I have shown, and I will not complain. The way of getting from genotypes to phenotypes would be perfectly natural: a computer virus replicates according to its code. And the relationship between the phenotype and replication would be natural: a better computer virus replicates better in that environment. Nobody makes intelligent ad hoc choices, because the environment has been set up blindly, and the fiteness if true, spontaneous fitness, not a choice of any intelligent observer. Perhaps gpuccio could demonstrate that this would not be a futile exercise by having gpuccio set up the model. Then we could see whether it can be shown that the model cannot out some appropriate form of SI into the genome. I have proposed this model many times. It's not my job to implement it. I am sure that, if correctly implemented, it will show that no new dFSCI is ever created, not even if the model is run forever. gpuccio
a) It is not supported by any evidence that existing protein superfamilies are not islands of functionality. I am still waiting for the easy results of protein engineering in finding the supposed many functional proteins that, as you say, should be common everywhere.
Then we don't know what functionality resides in unknown sequences. But when we look (Szostak for example) we find functionality. There are many more than one needle in the haystack. Alan Fox
Oops! There must be a shortcut key that I caught by mistake. contd... A duplication allows the possibility of drift. Alan Fox
Allan Miller: This is the version of evolution attacked by many of the highly-educated critics – Spetner, etc. Every incremental change must have phenotypic effect and be favoured by NS, a highly improbable state-of-affairs. I do wish they’d get to grips with the theory before tilting at it. See my previous answer. I do wish you'd understand what I write before criticizing it... gpuccio
The case of gene duplication speaks against your point a). A duplication allows Alan Fox
Petrushka: Untrue. Please, see my previous answer to Allan Miller. gpuccio
Allan Miller (and Alan Fox): This just isn’t true. It isn’t essential – nor even plausible - that every step in a protein’s history should be fixed in a population by natural selection. I am not saying that it is essential that any intermediate must be fixed. This is only a misunderstanding. Neutral mutations can happen and remain where they happened without being fixed. This is obvious and trivial. But neutral mutations do not change the probabilistic scenario. They are just a new state in a random walk. The probabilities of each output do not change just because some random variation occurs. So, what I am saying is that each intermediate state that is supposed to change for the better the probabilities of a final output must have three characteristics: a) It must be functional b) It must be more functional than what already exists, so that it can be fixed (expanded) in the population. c) It must be in some way more related to the final sequence and structure more than what already exists (IOWs, it must really be an "intermediated"). So, I maintain that any intermediate (in this sense) in a protein’s history must be fixed in a population by natural selection. The rest of your argument I have already considered and answered. I will only remind now my easy conclusions: a) It is not supported by any evidence that existing protein superfamilies are not islands of functionality. I am still waiting for the easy results of protein engineering in finding the supposed many functional proteins that, as you say, should be common everywhere. b) Your reasoning has the simple consequence that neo darwinism automatically ceases to be a scientific theory. Indeed, your theory itself assumes that we will never find any evidence for the theory itself, and that there is no way to falsify it. Popper would be horrified. c) In billions of years, many protein families or proteins have undergone big sequence changes, sometimes even functional changes, and still their homologies are traceable. Why should that become completely false for the ancestors of existing superfamilies? This is simply ad hoc reasoning, AKA wishful thinking, or simply fairy tales imagination. gpuccio
Joe And Joe promptly confirms my point! :) Alan Fox
Toronto:
1.0) You will get a string of 500 bits or more that is functional software, i.e. x86 machine code that will perform some functions that no one has any prior knowledge of. If I generate such a string, which is unknown to anyone including me, is this enough to invalidate “dFSCI” as a design detection tool?
The simple procedure that you must follow is the following: a) You offer the string. If I cannot see the function myself, you should be so kind as to define it clearly and explicitly for me. b) I assess the presence or absence of dFSCI at the 500 bits level for the string. c) If I assess dFSCI as present, I will make a design inference fro that string. d) Then, you have to show me how the string originated, and you have to convince me that its origin is really non designed. IOWs, that all the functional information was generated without any design intervention, in a system that really did not include any specific information that could favor that particular output. e) If you succeed, you will have "invalidated “dFSCI” as a design detection tool". OK? gpuccio
Toromto: At 1c), you check how this string came to be in this configuration. It's really frustrating how you do not understand things, even after one repeats them a lot of times very cleraly, and then you are ready to give the fault to insufficient clarity in others' explanations. My 1c) is: 1c) after careful observation and consideration, gpuccio isn’t aware of a ‘necessity mechanism’ that explains X to his satisfaction; I have clarified many times that to be aware of an explanation in no way means "checking how the string came to be". They are two completely different things. "To be aware of an explanation" means that we know some credible theory that fits what we observe. It is a statement about a theory. "Checking how the string came to be" means that we verify a fact. It is a statement about observing a fact. But you seem not to understand the difference between a theory and a fact. That's what darwinism does to human minds. All you had to do to be consistent in both test situations and real-life use of “dFSCI”, is to assess “dFSCI” regardless of how that string came to be, and then, after that, assess positive_for_design if you thought the string required an intelligent agent Which is exactly and literally what I have done in the challenge that gives its name to your thread. That’s all, just use terminology that is clear. You just use reasonings that are not wrong. gpuccio
Umm Theobald is easily dismissed as his "evidences" don't have anything to do with any mechanism- he said so. Not only that the same "evidences" can be used to support a common design. And as for Coyne, Carroll and Shubin, well all they can offer are delusions of gradeur and equivocations. Not one of them can tell us how many mutations it takes to get an upright biped from a knuckle-walker/ quadraped. IOW they don't have any science to support their diatribe. Joe
...an even more telling failure to provide even a solid comprehensive try at the 6,000 word essay challenge, both over the past two months or so. KF
Why would anyone re-invent the wheel? If you dismiss Theobold - if you are not interested in the popular works of Coyne, Carroll or Shubin and all the other vast literature written for professionals, students and the general public, what is an essay by some random people who still happen to read the UD blog going to be worth? Not much! Alan Fox
gpuccio I was going to reply along the lines that we see only the budding tips of the tree when comparing sequences for homology. The connecting branches disappear. But I see Allan Miller has written a better response and I refer you to it Alan Fox
And just when you thought it couldn't get any dumber- Mike Elzinga:
We also need to stop giving them feedback of any kind because they abuse every piece of information they are ever given and use it to become even more deceptive.
LoL! Umm, Mike, if you guys didn't misrepresent ID and IDists, ie your feedback, you wouldn't have anything to talk about. It's not as if you are actually going to provide testable hypotheses along with supporting evidence for your position, for discussion. Joe Felsenstein is worried about evaluating our arguments when all he needs to do is focus on his position. Positive evidence for the blind watchmaker is bad news for ID. THAT is how to evaluate our arguments-> by demonstrating blind and undirected processes can account for what say is designed, thereby making our arguments moot. Unfortunately not one of those TSZ clowns knows how to do any of that. So, without us to misrepresent, what will the TSZ ilk talk about? Talk about blog suicide... Joe
Toronto:
Joe, kairosfocus, Mung, gpuccio and Upright BiPed, have been able to call us liars and get away with it as far as readers of UD can see.
And the readers here can see the actual lie. You have something in mind where I called someone a liar who hadn't actually lied and been exposed as such? And why do you even care about what is or is not true? Mung
toronto:
Joe, kairosfocus, Mung, gpuccio and Upright BiPed, have been able to call us liars and get away with it as far as readers of UD can see.
If you ever stop lying then we will stop calling you liars. It is that simple. But when we keep telling you one thing and you keep saying something different about what we just said, that would be lying and the people doing it would be liars. It is what it is. Joe
kairosfocus, I hear ya, however that is just too subtle- heck what I post is too subtle. A good tar and feathering would be appropriate. Just sayin'... PS- Haven't you heard? Your challenge has been met, to 38 decimal points (cue maniacal laughter) :) Joe
Joe: I hear your point,where I see attempts to twist my words snipped out of context into all sorts of smears. However, the insistence on polite company rules has led to a very telling exchange of several thousand posts, multiplied by an even more telling failure to provide even a solid comprehensive try at the 6,000 word essay challenge, both over the past two months or so. KF kairosfocus
d) Do those bridges exist? The only credible answer, st present, is that they don’t exist.
The only skeptical answer, given the complete absence of strong evidence of their existence. But there's no true skeptic at TSZ. Mung
Apologies KF, I am just telling the truth ;) But yes, enough is enough- I just don't like being lied to and about and it seems that is all "they" have. I am sure that you have noticed it too. Joe
keiths:
In a model of Darwinian evolution, we model variation, we model replication, and we model selection.
Umm natural selection is a RESULT and it doesn't select. So please tell us how you model that. Not only that whatever is good enough survives to reproduce- how do you model that? And finally replication is the very thing that needs to be explained, which means if you are starting with replication then you are cheating and have already lost. Joe
EA: The problem is, of course, that many design objectors have a clear agenda to imply that design inference is a disguised right wing theocratic, tyrannical "Christo-fascist" agenda, with creationism as an integral component. They need to be reminded over and over again that each of these notions is ill-founded, as the Weak Argument Correctives show. KF PS: Such do not even understand what Fascism really is: a statist [Mussolini: "All within the state, nothing outside the state, nothing against the state"], politically messianistic ideology that sees itself as championing a mass-based victim group (or coalition of such groups) who identify with some Nietzschean (thus, "might and manipulation make right" nihilistic) superman political messiah who in the face of an unprecedented crisis has to have powers beyond the ordinary and is effectively above the law, which of course extends to his henchmen. That statism, of course, means that fascism is actually LEFTIST in essence [as in, note that Nazi means "National SOCIALIST German Workers Party"], but usually Fascists are smart enough to sign manipulative agreements with various traditional power centres, then use their growing power to subvert and undermine them. Resemblance to events ongoing in several places around the world, some quite close to home indeed, is NOT coincidental. kairosfocus
KF @865: Probably everyone on UD is familiar with this quote, but thank you for providing it again. I have a lecture of Johnson's on tape where he discusses the meaning of the three words: creation, evolution and science. At one point he walks through this issue of not getting caught in the Bible-vs-science trap (and let's be very clear, it is an intellectual trap). I think it would be difficult to overstate the importance of Johnson's insights into the Darwinist mind. Anyone at all interested in the debate owes it to themselves to become familiar with his writings. Eric Anderson
F/N 2: I see there was an attempt to divert to YEC bashing. Let us hear again Philip Johnson's reply to Lewontinian a priori evolutionary materialism:
For scientific materialists the materialism comes first; the science comes thereafter. [[Emphasis original] We might more accurately term them "materialists employing science." And if materialism is true, then some materialistic theory of evolution has to be true simply as a matter of logical deduction, regardless of the evidence. That theory will necessarily be at least roughly like neo-Darwinism, in that it will have to involve some combination of random changes and law-like processes capable of producing complicated organisms that (in Dawkins’ words) "give the appearance of having been designed for a purpose." . . . . The debate about creation and evolution is not deadlocked . . . Biblical literalism is not the issue. The issue is whether materialism and rationality are the same thing. Darwinism is based on an a priori commitment to materialism, not on a philosophically neutral assessment of the evidence. Separate the philosophy from the science, and the proud tower collapses. [[Emphasis added.] [[The Unraveling of Scientific Materialism, First Things, 77 (Nov. 1997), pp. 22 – 25.]
KF PS: On Jesus of Nazareth, cf. here. (I recently remarked on this here at UD in reply to Dawkins' dismissiveness.) kairosfocus
Joe, you too. KF kairosfocus
Mung: I am not able to monitor closely so please police your language, per polite company rules, cf. snips above on visiting just now. KF kairosfocus
F/N: I find it sadly interesting that after thousands of posts across three threads -- almost every one of which will exceed 73 ASCII characters worth of digitally coded, functionally specific, complex information -- there seems to still be a project to suggest that the term is meaningless or circular; which means to those who suggest that, much the same. Now, dFSCI is empirically observed as symbol strings that are specific to some observed function or other that is relevant, such as posts in English, or the particular sequence of bases that specify a given protein or the like. (Notice my insistence on the relevance to our understanding, of good examples.) It is observable and recognisable at the least on material family resemblance to iconic cases separate from its origin. In some cases, we do independently observe origin -- e.g. text on the web such as these posts, Java programs, etc, and we see that uniformly, dFSCI is produced by intelligent action. We may also see that the space of possible configs of elements in a string of relevant length, is very large to the point that -- on needle in haystack grounds -- a blind chance and necessity search is all but utterly incapable of finding such cases, as such functionally specific strings based on particular well-matched combinations of many elements, will be rare in the overall space. That is, there is excellent, easily confirmed empirically reliable reason to hold that dFSCI, a subset of FSCO/I, is a reliable sign of design as best causal explanation. The real problem is, this points to design as best explanation of the dFSCI embedded in cell based life, and to OOL as a work of design, with the onward inference that design also best explains origin of major body plans. (Such both easily exceed the 500 bit threshold discussed or the more stringent 1,000 bit one that obtains for the observed cosmos.) It is not that we have empirically well-warranted observed info that overturns this for OOL or OOBPs. Far from this, indeed for OOL even the most ardent evo mat advocates are at an increasingly obvious loss. One that is openly admitted. And if we look beyond confident manner assertions and assumptions, from the Cambrian revolution on, there is no good empirically warranted account of the proposed incremental origin of major body plans. As for the GA or the like that are so frequently trotted out as asserted counter examples, let us simply notice, that such depend on intelligently designed, specifically functional algors and code, but moreso, they depend on reasonably well behaved uphill-pointing fitness functions. That is, they are from the beginning searches within islands of function that were intelligently arrived at. Notice, in short, that there seems to be a reason why, after more than two months and thousands of exchanged comments, there has been no serious taking up of the 6,000 word essay challenge. And yet, in biology textbooks etc, things are often presented in a breezy, no problem all ducks are in a row manner. Something is deeply wrong and needs to be fixed. KF PS: Over time, I have noticed some pretty nasty strawman caricatures meant to denigrate, sometimes based on snipping isolated remarks not even directly related to design issues out of context, down to snipping individual words out and providing false contexts, in an attempt to denigrate, but I have not seen a serious response on the full range of challenged issues. [Certain Anti Evo denizens, you know yourselves and SHOULD be ashamed; I hope you have taken time to see the law dictionary link and why I have taken a strong stance against porn, pointing to some shocking statistics [some denizens took occasion of such to attack] and the twelve-step type recovery system as ways towards the cure of enmeshed souls. Onlookers, pardon my needing to address such disgusting topics, this sort of ad hominem based irrelevancy is what I have repeatedly seen in tag line snippets and the like at objector sites.] kairosfocus
And in true cowardly fashion Richie has a lie-filled meltdown:
You’re right Alan. I was just fascinated by Joe’s YEcism and attempted defense that the flood was a historic event.
So now I am a YEC because I understand their position, ie I am educated as opposed to Richie's obvious ignorance, and I am defending the flood as a historic event because I have expsoed his ignorance on the subject. What a brave little boy you are, lying about me on a forum I can't defend myself. And all of that because Richie's nested hierarchy ignorance was exposed. But by now I am sure he thinks we all forgot about that. Joe
Keith: As promised, a Zachriel-style example of phylogenetic inference. Suppose you are told that strings 2 through 16 below are all descendants of a common ancestor, which is string 1 (the string with all commas). Try to reconstruct the tree, and think about the criteria you employ while doing so. Excuse me, I have no time for that. What I expect from you is that you show me how that is relevant for true biological hierarchies, and where that makes a difference with a design explanation. Please, stick to that. gpuccio
Keiths: Later today I’ll post a Zachriel-style example of phylogenetic inference (Link, Link) and show why it depends on small changes. I am waiting. gpuccio
Toronto: I have had a hard time understanding gpuccio as he sometimes states “dFSCI” is an attribute of a string that once applied is never rescinded, yet it is difficult to follow why he sometimes will not attribute that label to a string, due solely to how the string was generated. You seem to have a hard time with truth. Where did I say such things? Please, show. a) dFSCI is something that a string exhibits, and we can recognize. The judgement about the dFSCI if a string, if correctly given, remains the same. b) There is no need to know how the string was generated to assess dFSCI for it. It is necessary, however, to define explicitly a function for it, and to know something of the System and Time span where the string emerged, essentially to compute the probabilistic resources of the System and to choose an appropriate threshold for dFSCI in that context. As I have said many times, always in the same way. Proper test cases would need to be blind to a larger extent than gpuccio has allowed. ???? At the point where someone would actually deliver a string to gpuccio that is of an actual non-design origin, that extra information that he had counted on for purely test cases, should no longer be available to him. I count on no extra information. I am only waiting that you stop talking, and deliver. Either “dFSCI” is refined enough to be usable or it isn’t. It is. gpuccio
Toronto: That’s not the case since I intend to only hand you a string that has “dFSCI” but was not designed. It's OK for me. Do it. This is an experiment and specifications like, “(let’s start with 150 bits, then we will see)”, are just not specific enough. I need to know something about the context to decide which threshold is appropriate. If you want a threshold without any prior knowledge of the System and of its probabilistic resources, I have to choose the UPB: 500 bits. gpuccio
Alan Fox: Just to be simple: a) The 2000 superfamilies are completely isolated one from the other at sequence level and strucutre level. This is a very simple fact, that can be easily verified by the BLAST tool, as I have showed. b) You may think that those 2000 functional islands are possibly joined by functional "bridges" in the protein space. That would be absolutely critical for the neo darwinian theory to be even remotely credible. c) But remember, those "bridges" should be made of naturally selectable sequences, each with increasing function. That is the only "function" that makes sense for the neo darwinian algorithm. d) Do those bridges exist? Theonly credible answer, st present, is that they don't exist. e) Why? First of all, because they have never been observed in the proteome. You have said yourself that homologies can help reconstruct the philogenies. Darwinists like Keiths are great fans of the nested hierarchies. All you people, however, seem to recede to improbable justifications evry time I ask the simple question: why is there absolutely no trace of those functional intermediate precursors in the proteome? Why can we follow philogemies so well up against the rivers of time, thorugh ordered nested hierarchies, to the origin of each superfamily, and then... nothing at all? Why? Why have all those imagined precursors, each of them functional, each of them selected and expanded to a whole population, vanished into thin air? While all the molecules that cone after the emergence of the new domains leave definite, abundant traces of themselves in the existing proteome? Why has this strange miracle happened not once, but 2000 different times? f) Another question, if those bridges exist, why protein engioneering has found no trace of them? Why are all our design resources, bottom up or top down, with all our understanding of biochemistry and computing power, so powerless to find even one of those bridges? h) You say: " You cannot infer rarity unless you have some way of assessing functionality in the vast set of as yet unexplored protein sequences." That is wrong. Rarity is what we observe. The proteome uses rare functional islands, completely detached at sequence and structure level. We can easily verify that, as soon as we go out of the island, function is lost. Axe has worked on that. See his paper: The Case Against a Darwinian Origin of Protein Folds Here: http://bio-complexity.org/ojs/index.php/main/article/view/BIO-C.2010.1 i) Durston has given us a brilliant indirect method to measure the functional complexity in proteins. Protein families, after they emerge, are subject to neutral variation. That's why they "traverse" their functional island in the course of time. So, we can derive a lot of information about the functional isalnd by analyzing the constraints to variation at each aminoacidic site of the sequence in the ocurse of evolution. l) In the end, it is obvious that it is not the duty of ID to exclude that those bridges may exist. It is the burden of neo darwinisms to demonstrate that they exist. That's how science works. A theory is nothing if it is not supported by the same facts that it uses to explain things. Neo darwinism is nothing. It's not enough to say: "they could exist, and you have not shown that they cannot exist". It's your duty to demonstrate that they exist, that they are fucntional, that they are naturally selectable. Otherwise, your theory is nothing. And it is! gpuccio
Alan Fox, You still cannot provide any evidence that blind and undirected chemical processes can produce a protein where there wasn't any already in existence. IOW Alan yiu are just being a cry-baby because your position has nothing and that bothers you. Joe
Gpuccio Sorry for the late response. Your remark
I hope this example gives you some idea of how specific sequences are in the proteome, and how insulated they are.
does not follow from the preceding description of a protein sequence comparison using The BLAST database of sequences. I already pointed out that sequence comparison is a powerful tool for looking at genetic phylogenies. You cannot infer rarity unless you have some way of assessing functionality in the vast set of as yet unexplored protein sequences. And the point I was interested in is where you begin to demonstrate that you can distinguish between a known functional sequence and an arbitrary sequence that shows no homology with known sequences without synthesizing it. In short, how are you inferring "design"? Alan Fox
Mark Frank:
The London temperatures are one example. GA’s are another. It [the definition of dFSCI] becomes circular when you use the necessity clause (or in the case of GAs a simple refusal to allow them as evidence) to exclude anything that might count as evidence against it.
GA's are created by intelligent designers. GA's provide great evidence in favor of what design can do. GA's are "EXHIBIT A" in the case for ID. We welcome the GA as evidence in our favor. What's your point? Mung
Mark Frank on November 28, 2012 at 7:25 am said:
The London temperatures are one example. GA’s are another. It [the definition of dFSCI] becomes circular when you use the necessity clause (or in the case of GAs a simple refusal to allow them as evidence) to exclude anything that might count as evidence against it.
[snip]. You are so full of it [snip]. If I were you, I'd be ashamed to call myself a skeptic. Let's break it down: It [the definition of dFSCI] becomes circular when... The elements of a circular definition are met. Sounds reasonable. BUT NO! Mark Frank has something else in mind! His own personal definition of a circular definition! Not a skeptic. ______ Mung, please police your language. KF Mung
Mark Frank on November 28, 2012 at 7:25 am said:
In this case it [the definition of dFSCI] is not circular. It is false.
The definition of dFSCI has never been circular, as your own investigation has demonstrated. Your implication that in some other case it might have been circular is just gratuitous nonsense. If you had any strong evidence for your beliefs you would post them. So it is not a matter of "in this case." Now, can you please explain for those of us who are not "skeptics" as you define the term, how the definition of dFSCI can be "false"? What are the elements of a false definition? You're just another faux skeptic. Mung
Joe Felsenstein on November 27, 2012 at 1:48 pm said: Joe F, if you see this, You seem to believe that natural selection increases combinatorial opportunities. I say that by whatever measure natural selection increases combinatorial opportunities it likewise decreases combinatorial opportunities. comment-440105 And you say? This is important. Those who favor evolutionary explanations admit that chance combinations are just too similar to miracles, so they must appeal to some mechanistic-deterministic process. Enter natural selection. Natural selection, we are asked to believe, skews the results and makes the utterly impossible merely improbable, yeah, quoth Chucky D., nigh certain! AMEN! PRAISE EVO! bee period ess period Faced with facts, evos are silent. Mung
Toronto:
This evolution debate pits literal interpretations of the Bible against science.
If that makes you feel better about evolution. I understand Charles Darwin also appealed to a silly interpretation of religious matters to make his 'scientific' argument. Why not judge things on their merits?
So just to be sure I have it right, you do not believe in a literal Noah’s Ark story as portrayed in the Bible.
I don't even know what that question means. Do i think the entire account was made up, as in fiction? No. What's your evidence that Jesus wasn't raised form the dead? Do you deny the historicity of Jesus of Nazareth? Mung
toronto:
This evolution debate pits literal interpretations of the Bible against science.
Nope, that is a lie. But I am sure that your twisted little mind believes it. Joe
Toronto:
While I have your attention, do you believe a literal Ark story is supported by science?
I believe science supports the literal resurrection of Jesus Christ from the dead. If Jesus was literally raised from the dead, then what difference does the answer to your question make? But to answer you, I don't think science addresses itself to whether the account of 'Noah's Ark' in Genesis is 'literally true' or not. I'm one of those people that understands that many things in the Bible are not meant to be taken 'literally'. Does that mean that the Bible is false? Hardly. Mung
Joe Felsenstein on November 27, 2012 at 1:48 pm said:
Sorry for the delay in answering — I have been busy. (I will shortly also reply to gpuccio’s most recent response to me.)
Quite alright. Life happens. As you can see, I took my sweet time in getting back to you as well. :) Mung: What is a GA? Joe F:
A little online searching will disclose that there are various definitions, but that generally a GA is an algorithm with a representation of a finite-size population of genomes that reproduce and have multiple sites that mutate, recombine, and undergo natural selection. The fitnesses of the genotypes are chosen so that they are largest when some desired optimization problem is solved.
Well, as I'm sure you're aware, it's not all that simple to define what a GA is. For example:
It turns out that there is no rigorous definition of "genetic algorithm" accepted by all in the evolutionary-computation community that differentiates GAs from other evolutionary computation methods. However, it can be said that most methods called "GAs" have at least the following elements in common: populations of chromosomes, selection according to fitness, crossover to produce new offspring, and random mutation of new offspring. Inversion - Holland's fourth element of GAs - is rarely used in today's implementations, and its advantages, if any, are not well established. - Melanie Mitchell, An Introduction to Genetic Algorithms
And:
...there is no single definitive genetic algorithm; rather we create algorithms from a suite of operators to suit our particular applications. - A.E. Eiben and J.E. Smith, Introduction to Evolutionary Computing
Joe F:
In other words, a GA is a standard multilocus Wright-Fisher model (or else Moran model) of evolution, except for the particular choice of fitness function.
I have at least eight books on evolutionary computing, including books on genetic programing and GA's. Not one of them contains an entry in their index for Wright-Fisher. If you ever get your hands on a copy of The Simple Genetic Algorithm by Vose, I'd appreciate it if you would post which of the theorems or proofs in it represent the Wright-Haldane (or Moran) model.
...generally a GA is an algorithm with a representation of a finite-size population of genomes that reproduce and have multiple sites that mutate, recombine, and undergo natural selection.
Obviously, the main point of contention is over whether GA's model of natural selection. They don't. In GA's, the designer chooses who is going you leave more offspring. If that's what you think goes on in natural selection, then hey, join us. Mung
petrushka:
Putting GAs off limits is neither arbitrary nor unjustified. If GAs are admitted as models of evolution, the ID hypothesis becomes superfluous.
We're more than willing to admit GA's as models of guided evolution. They strengthen the ID hypothesis rather than make it superfluous. GA's demonstrate quite well what design can do. We're happy to allow them in as models of design. If you think evolution is designed, join us. Mung
Rich:
In the case of unguided common descent..
What is unguided common descent and how do you distinguish it from not-unguided common descent? Mung
Toronto:
You’re making “unguided evolution” sound powerful enough to alter body plans.
What is 'unguided evolution' and how do you distinguish it from 'not-unguided evolution'? Mung
Richie:
So Joe, is baraminology, a biblical construct, correct?
It has a better chance of being correct than your position has. After all, unlike your position, baraminology has evidentiary support. But then again you don't know anything about science and evidence so wouldn't know. Joe
keiths:
Besides, gpuccio and Behe are not content with a theory in which ID plays only a small role. They insist that ID is essential to the production of biological information.
Too bad keiths can't say why that is. keiths:
The evidence says otherwise.
But you offer none, which is par for the course. Turn in your "skeptic" badge. Mung
Richie:
Joe: “don’t blame me because the evidence supports baraminology” Baraminology: “based on the Biblical view of origins” Are you following the evidence where it leads, Joe?
Science doesn't care about the Bible Richie. Science only cares about reality and right now your position has nothing to connect it to reality. OTOH all tests and experiments support baraminology- all observations and experiences too. Joe
Earth to Richie- I know what baraminology is. Just because you are just finding out proves that you are a clueless loser. And again don't blame me because the evidence supports baraminology. It isn't my fault that your position has nothing. If you really want to hurt ID then just step up and provide a testable hypothesis along with positive evidence for your position. Attacking Creationism and ID is not going to do that but it is the coward's way. Joe
Richie liar:
YOU proffered a global flood, Joe.
Nope, YOU did in response to the fact that baraminology predicted reproductive isolation and your position is useless. Are you really that stupid, Richie? So stupid taht you can't even follow what you said- that's sad Joe
Richie spewy:
Joe, do you not think that the ark story is a part of a bigger ID narrative, bilbical creationism?
ID doesn't have anything to do with the Bible. As I have told you if the Bible were refuted ID wouldn't be fazed. If the Bible didn't exist ID still would. But I understand that in your desperation you NEED ID to be Creationism. What a pathetic loser you are. Joe
Earth to Richie cupcake- YOU are the one who brought up the Ark story just because I presented the FACT that baraminology predicts reproductive isolation and your position just explains it away. that upset you so much that you in your desperation you spewed out the Ark story. You are a pathetic little imp, Richie. Joe
And even more stupidity:
Joe – Mike’s offered an analysis based on physics. You’ve offered a story from the bible. But ID isn’t religious.
This has NOTHING to do with ID. I take it that you are just upset because there is more evidence for the Ark story than there is for your lame position. That does not mean ID is the Ark story... Joe
And to prove he is a [snip, kf]:
Oh Noes Mike! This is what Joe finds so convincing: http://www.creationscience.com/onlinebook/
So because I know who talks about the Flood I find it convincing. Well Richie, I will say that it is more convincing then your position. All your position has for support is cowards like you. And you can only convince other cowards, like you. Joe
talk about getting it backwards- Richie pom-poms:
It would help your case if you could actually give some citations or thoughts as to why you think Mike’s case is “a straw man” or how you or other YECs think it could have happened. .
No, cupcake. It is up to the people trying to refute something to do their homework as opposed to being too lazy to do anything. I just know enough to know that you guys are ignorant fishermen drilling holes in water to get to the fish below. Joe
toronto:
Joe, please, do you believe in a literal Ark story, yes or no?
There is more evidence in support of the Ark story than there is for your position. YOU believe in stuff far more incredible than the Ark story, so can it, toronto. Joe
toronto:
But the ID side is asking a school board to look at ID as science, when those same proponents don’t know enough science to realize the Ark story cannot in any way literally be true.
YOUR position isn't even science. You and the cowards over on TSZ are living proof that your position has absolutely nothing to offer. There is a better chance of the Ark story being true than there is for your position being true. I understand that bothers you but too bad. Joe
Elzinga:
One of the more common arguments they try to muster is that there were no oceans or mountains before the flood, thus no water depth.
Not quite. The ocean's basins weren't as deep as they are now and water would have been circulating under the continents. There it would get warmed up and when it came out it would help keep the earth nice and warm. Dr. Walter Brown discusses it at length. Perhaps Mike should read what he has to say about it. Joe
toronto:
How does Mike Elzinga’s comment not reflect the reality of the physics problem of the Ark story?
Elzinga doesn't even know what the story is. He is totally clueless about what the Bible says and even more so about what creation and ID say. Joe
And Richie pom-poms posts a reference to the story but it doesn't support what he said. No surprise there... Joe
toronto:
Please tell me how we can take anyone seriously when it comes to science, if they actually believe that.
Dude, buy a vowel- look what YOU believe in. That is why I will never take any evolutionist seriously when it comes to science. Your position has nothing. So stuff it Joe
And Patrick responds to Elzinga's strawman by acting like it reflects reality. You guys just don't care that you are totally ignorant of your opponents. I guess that gives you free reign to lie about them. Sadly pathetic... Joe
keiths:
Your recent comments reveal some confusion over how hierarchies are inferred and what is meant by “small changes” in that context.
Shut up, keiths. YOU don't know anything about nested hierarchies. Your pap has been refuted. Grow up already Joe
” And I will say there is more evidence for the Ark story than there is for your position. So stuff it, already.” toronto:
If your side was not trying to get ID into schools we would not be having a conversation of any type.
If your position wasn't being wrongly taught in schools we wouldn't be having this discussion. If your position had some positive evidence we wouldn't be having this discussion. If you and your ilk weren't such lying cowards we wouldn't be having this discussion Joe
“Nice cowardly non-sequitur, there Richie. Unfortunately Creationists have said where the water came from and where it went. Your position can’t explain water, so stuff it. They have also said how the animals got to the Ark, how they all fit on the Ark and even how they dispersed. ” Richie pom-poms:
Yes they have, all of those have the same answer: God.
Reference please- we all know that you are a pathological liar so just your say-so is meaningless. And I know that you can't support that claim.
Nice to see that on an ID blog. Also ” requires rapid speciation beyond evolutionary claims and its completely at odds with the fossil record (no recent global mass extinction event).”
I explained the rapid evolution bit. Your ignorance means nothing. And the fossil record is imperfect. It can only tell us what was lucky enough to become fossilized. You do realize that not everything that dies gets fossilized? Category error, indeed... Joe
Mike Elzinga- Your ignorance is duly noted- Mt Everest did not exist in the pre-flood world. All the mountains and ocean basins were created during the flood year. That is if you actually know the flood story. Joe
And toronto continues to prove that it is a loser:
Toronto: Joe, are saying you believe the story of Noah’s Ark to be literally true? Joe: That doesn’t follow from what I posted. So why, other than being a total loser, would you ask such a thing?
Of course it follows, both from what you said and how you respond to claims.
OK, loser, I will spoon feed you seeing tat you are too dense to grasp reality: Just because I have read what Creationists say, and therefor know what they say, does not mean that I accept it. Richie made a false claim. THAT was my only point.
When our side claims something you respond with, “Where’s the evidence”?
Because you side always lies.
When it comes to the Ark story though, you say, “They have also said how the animals got to the Ark, how they all fit on the Ark and even how they dispersed. “
They have. Don't blame for your ignorance. And I will say there is more evidence for the Ark story than there is for your position. So stuff it, already. Joe
“Unfortunately Creationists have said where the water came from and where it went. Your position can’t explain water, so stuff it. They have also said how the animals got to the Ark, how they all fit on the Ark and even how they dispersed. “ toronto:
Joe, are saying you believe the story of Noah’s Ark to be literally true?
That doesn't follow from what I posted. So why, other than being a total loser, would you ask such a thing?
If you believe the Bible is literally true, what is the point of debating “dFSCI”?
I don't believe in the Bible and if someone could demonstrate that dFSCI could arise without agency involvement even a Bible- believer would take notice.
If however, it turns out that “non-guided by an intelligent agent evolution” over billions of years is true, what does that do to a literal interpretation of the Ark story?
Kills it. And nice of you to also ignore my refutations of keiths' nested hierarchy lie. You people are disgustingly dishonest. Joe
Richie pom-poms:
So these hierarchys are human constructs. Can we put “smart phone” in the clade for “Car”, or “Washing machine”? If not, why not?
Yes all nested hierarchies are manmade constructs. And educated people would put a smart phone in the smart phone category. Joe
“1- Baraminology predicts reproductive isolation. Your position can only try to explain it away”
Ah, that conjecture based on a religious text that can’t explain where the water came from, where it went to, how all the animals got to the ark, how they all fit on the ark, how they all then dispersed, requires rapid speciation beyond evolutionary claims and its completely at odds with the fossil record (no recent global mass extinction event).
Nice cowardly non-sequitur, there Richie. Unfortunately Creationists have said where the water came from and where it went. Your position can't explain water, so stuff it. They have also said how the animals got to the Ark, how they all fit on the Ark and even how they dispersed. As for their model of evolution- it's BY DESIGN Richie. So yes it can be faster than accumulations of genetic accidents, duh. “2- There isn’t anything in unguided evolution that prevents an organism from having a blend of dog, cat and rat characteristics ”
Apart from heritability.
What does that mean? Please provide a reference saying that unguided evolution prevents an organism from having a blend of dog, cat and rat characteristics. Do you really think that unguided evolution predicts the exact organisms we see today?
Category error, Joe. Opposable thumbs aren’t a “human characteristic”, they are a characteristic shared by humans”
Strawman Richie. I never said anything about opposible thumbs and your position has nothing to say about them anyway. “3- Richie pom-poms is also ignorant wrt nested hierarchies (hint- they are manmade constructs, Richie. WE set the categories. WE would categorize hybrid technology the same way you would categorize transitional forms and hybrids.)”
So these hierarchys are human constructs. Can we put “smart phone” in the clade for “Car”, or “Washing machine”? If not, why not?
And another infantile, cowardly non-sequitur. But nice of you to ignore the part about transitional forms, loser. Joe
keiths:
evolution proceeds by small changes
More nonsense from keiths. How small is small? Define "small changes," scientifically. show us the math. Show us the model that proves that evolution cannot possibly proceed by "big changes" as well as "small changes." This is just a disguised way of saying evolution cannot proceed by changes that might be thought to be miraculous, which is not a scientific statement. It's ideology. A corollary is, that if we can say that if some change is 'too small' to be miraculous, then we can test for the supernatural. Mung
Toronto: Your claim is that “digital” FSCI is what is being tested against non-design mechanisms, not actual biology. I am not going to model biology for this test as this is not the argument you are making. Hey, that's OK for me. I only said that I will check if the 150 bits threshold, that is for me a biological threshold, is still appropriate for your context, if and when you specify and detail the context. That's all. If you insist on a biological aspect to the simulation, how can you claim “dFSCI” as a biological design detection tool when your test strings were not biological? I am not insisting on that. You have to be able to recognize a string with “dFSCI” without regards to anything about its origin. Yes. I need to know, however, the System where it emerged, at least to some degree, and the functional definition. You have to think of a reasonable threshold and then stick to it. No. Maybe you never read what I write. The threshold must be appropriate for the System and Time Span. There is no absolute threshold. The string I will deliver to you must meet the specification that we agree to before the start of the test. I have nothing to change in the specification I have already given in my post #795: "I will accept that a string generated by a “non-design process” exhibits “dFSCI” if it exhibits functional information higher than an appropriate threshold (let’s start with 150 bits, then we will see). And if I can see nothing in the information in the string that can be explained by a specific necessity mechanism present in the System." That's it. You may agree or not. gpuccio
Joe Felsenstein: I grant you all of that, but there are variants of ID that only involve occasional intervention by a Designer, and then only in some characters, and those will be hard to tell from “unguided” common descent. You are right again. I would add that almost all variants of ID involve "occasional" interventions, because ID infers design only for those events that imply new dFSCI (or CSI). Therefore, I infer design for the emergence of new proteins, and of any other complex new organization, but all other unguided processes are always acting too. Microevolution is an example, information degradation another one. I think that maybe only a few extreme IDists would say that the designer is directly responsible for any event in biology. gpuccio
Keiths: In the case of unguided common descent, the inferred hierarchies tend to match the actual hierarchy, because evolution proceeds by small changes, inheritance is primarily vertical, and horizontal transfers are limited in number and type. The fact that hierarchies inferred from different lines of evidence match each other so well (perfectly, in the case of Theobald’s 30 taxa) is what gives us confidence that the inferred hierarchies match the true hierarchy. Wrong. a) Proceeding by small changes has nothing to do with the observed hierarchies. And what we observe is not "proceeding by small changes". A new protein domain is not a "small change", the Ediacara and Cambrian explosions are not "small changes", the trasition from prokaryotes to eukaryotes is not a "small change", OOL is not a "small change". And so on. Is the transition to humans a "small change", in your opinion? Ever heard of Gould? b) Inheritance is primarily vertical, because that is simply the most logic and simple way of inheritance in beings that reproduce vertically. That is valid both for unguided evolution and for design. c) Horizontal transfers are obviously an added tool, which requires specific instruments and rules. It is perfectly natural that it is limited to appropriate contexts, especially in a design theory. So, again, the only assumption needed to link a designer to nested hierarchies is the simple assumption that the designer acts through common descent, reusing what he already designed. gpuccio
Joe Felsenstein:
keiths’s statement applies to the preference for common ancestry over a version of ID that does not include common ancestry. Usually ID folks (1) say scornfully that criticism of ID fails to note that common ancestry is compatible with ID, but (2) fail, tellingly, to themselves endorse common ancestry. If someone (the only someone I can think of is Michael Behe, but there may be others) accepted common ancestry but still thought that ID played a role in the origin of adaptations, then this refutation of ID would not apply to that version of ID.
Correct. QED. Thank you, Joe! By the way, count me with Behe in that (like in practically everything else). And there are many others. I believe that common ancestry is at present the best explanation for what we observe. I have explicitly stated that many times here. I am not so sure that we can automatically apply the concept to "universal" common ancestry, but that is a perfectly possible explanation. The issue, however, like any other issue of this kind, must be solved scientifically, and not ideologically. gpuccio
Keiths: To put that 10^38 number into perspective, imagine that we are comparing two astronomical theories. I think we all have that number in good perspective. In ID, we are accustomed to numerical perspectives! It's the reasoning behind that number which is not in perspective at all... gpuccio
Keiths: You say: Read this section of Theobald, including the quote from Zuckerkandl and Pauling. Unguided evolution predicts that phylogenies inferred from morphological and genetic evidence will be highly congruent, if not identical. (In fact, they are identical for the 30 taxa of Theobald’s Figure 1.) The prediction is intrinsic to the theory. The theory doesn’t require force-fitting, via arbitrary assumptions, in order to match the evidence. Given that there are 1038 possible hierarchies involving 30 taxa, the exact match between the morphological and genetic hierarchies is a spectacular confirmation of evolutionary theory. But I am not denying that morphological and genetic hierarchies match. Indeed, I have never been very interested in the problem, but I can perfectly accept that. Why shouldn't they? Please, check my post #760, where I say: "The only “assumption” necessary to explain that kind of nesting in the design explanation is that the designer needs to act through common descent, and to reuse what already exists with intelligent modifications. It seems not such an extreme assumption, and it fits the facts." So, the correspondence between genetic and morhologic hierarchies is fully explained by that simple assumtpion. Then you wrote: No, because guided evolution via common descent doesn’t guarantee the existence of an objective nested hierarchy. You have to make additional assumptions which amount to stipulating that the designer acts in a way that is indistinguishable from unguided evolution. And on that, I asked: "What additional assumptions? Please, specify." I must say that I cannot find any answer to that in your new post. So, I ask again: What additional assumptions are necessary to explain the correspondence between genetic and morphologic hierarchies, or simply the observed hierarchies, other than the simple assumption I have already specified? Just to understand. gpuccio
keiths:
Besides, gpuccio and Behe are not content with a theory in which ID plays only a small role. They insist that ID is essential to the production of biological information.
That is what the evidence says.
The evidence says otherwise.
What evidence says otherwise? Please be specific. People have only been waiting for positive evidence for unguided evolution since the nonsense was first uttered. So please, have at it. I have my pen, notepad and magnifying glass ready and waiting. Joe
Nested hierarcy? What nested hierarchy?: 910 genes apparently transferred from prokaryotes, fungi or viruses provide essential or plant-specific activities and Bdelloid rotifers have acquired genes from more than 500 species including fungi, bacteria, and plants and Archaea acquired more than 1,000 genes by transfer from eubacteria Can you say "we have combinations of different species?" So the Richie pom-poms "smart phone analogy" does apply to biology. Good work cupcake... Joe
Richie pom-poms:
But the combining of some many, ‘mature’ technologies and devices is akin to a dog and a cat and a rat and a bat all having one baby. Which we don’t see in science.
LoL! 1- Baraminology predicts reproductive isolation. Your position can only try to explain it away 2- There isn't anything in unguided evolution that prevents an organism from having a blend of dog, cat and rat characteristics 3- Richie pom-poms is also ignorant wrt nested hierarchies (hint- they are manmade constructs, Richie. WE set the categories. WE would categorize hybrid technology the same way you would categorize transitional forms and hybrids.) Joe
BTW Richie, there isn’t anything preventing unguided evolution from producing a mammal with gills or any number of characteristic combinations. toronto:
You’re making “unguided evolution” sound powerful enough to alter body plans.
Umm, that is YOUR position's unsupported and unsupportable claim- that it can create and alter body plans. And there isn't anything your position sez about an organism cannot have a mix of charcters. And, as a matter of fact we would expect it- that is the whole meaning behind TRANSITIONAL FORM. Your position expects many transional forms, ie many organisms with a mix of characteristics. Apparently you guys don't even understand what your own position expects and why and objective nested hierarchy isn't one of those expectations. Joe
And Richie pom-poms chimes in:
Take a modern ’smartphone’ for example which is a phone, internet device, computer, camera etc. all combined.
So what? You would just give that device it's own category. BTW Richie, there isn't anything pereventing unguided evolution from producing a mammal with gills or any number of characteristic combinations. As a matter of fact, given a gradual process, we would EXPECT a smooth blending of characteristics, ie a mix of some kind would be observed. Unfortunately you are too dense to understand that. Joe
keiths: Unguided evolution, on the other hand, actually predicts an objective nested hierarchy
Hehe. And if it turned out that the "nesting" was not true, they'd claim that unguided evolution predicted a non-nested hierarchy. And if we found a rabbit skeleton in pre-Cambrian rock they'd start claiming it predicted that. It's a wonderful ideology. It can "predict" just about anything! CentralScrutinizer
keiths would rather be a liar than face the facts:
Unguided evolution, on the other hand, actually predicts an objective nested hierarchy,
No, it does NOT, for all the erasons provided, including those from "Evolution: A Theory in Crisis". And ignoring those reasons and blathering on just proves keiths is a willfully ignorant intellectual coward. Joe
keiths' hero, Doug Theobald, says:
Most existing species can be organized rather easily in a nested hierarchical classification. This is evident in the use of the Linnaean classification scheme. Based on shared derived characters, closely related organisms can be placed in one group (such as a genus), several genera can be grouped together into one family, several families can be grouped together into an order, etc. (bold added)
Linnaean classification was based on the premise of a common DESIGN. It has absolutely NOTHING to do with common descent. And it has absolutely NOTHING to do with unguided evolution. Any scheme based on shared characters (derived or not) doesn't have anything to do with unguided evolution. It doesn't have anything to do with common descent. Ancestor-descendent relationships, which is what common descent leads to, are non-nested hierarchies (by definition). Joe
And unguided evolution predicts that pink unicorns give birth to flying elephants. So what. Mung
keiths:
Read this section of Theobald, including the quote from Zuckerkandl and Pauling. Unguided evolution predicts that phylogenies inferred from morphological and genetic evidence will be highly congruent, if not identical.
Liar. Theobald doesn't say anything about unguided evolution and unguided evolution doesn't make that prediction. Joe
petrushka is proving to be ignorant, by definition:
Oddly enough, the scioenec of ID is all about proving a negative.
Wrong. Newton's four rules of scientific investigation, ie SCIENCE, mandates that necessity mechanisms be eliminated before even (scientifically) considering a design inference.
What are CSI and dFSCI if not attempts to prove that unguided evolution is not sufficient?
They are hallmarks of design because, via all observations and experiences, they only arise via agency involvement. Obviously the TSZ ilk do not understand a thing about science. Joe
keiths:
You have to assume that the designer always makes small changes (just like unguided evolution)...
This is hilarious. There is no theory of unguided evolution. No one knows whether changes made by "unguided evolution" (if such a thing even exists) are small or not small. No on knows what "unguided evolution" can do nor how to test claims about what it can do. The assumptions are all yours, keiths. You assume something you call "unguided evolution," for which you have no proof. Then you assume it makes only small changes, again a claim for which you have no proof. Mung
Keiths: From the most recent UD thread;
What is clear is that transposable elements may control the tissue-specific expression of lincRNAs, thereby affecting the evolution and function of lincRNAs with important regulatory roles. Following on from these results, it will be interesting to determine other ways hopping genes may have shaped lincRNA evolution. Kelley notes that "This study merely scratches the surface of the possible roles of transposable elements influencing lincRNA function."
From ny post #791 here (to you): "The same can be said for transposons, that are potential very good tools for a designer." gpuccio
That is only valid if any molecular arrangement can be a replicator. Ya see toronto replication is the very thing you need to account for so you just can’t start with it. toronto:
When ID proposes an “informational/mathematical” criticism against “Darwinism”, then the response is going to be from an “informational/mathematical” perspective.
Non-sequitur. You STILL need to account for replication.
If you are insisting that any argument, even those started by your side and based on mathematical models, must address chemistry and physics, then Dembski and other “engineering” ID proponents, are not qualified to take part in the debate.
LoL! Another bald and baseless spewage from toronto- and a non-sequitur. I am insisting that you cannot start with replication.
Your side will have to rely on people like Behe and our side will rely on people like Joe Felsenstein.
Felsenstein is only qualified for strawman creating.
You, I and Dembski would not be qualified to take part.
YOU can only speak for yourself. And you don't do that very well Joe
And Petrushka is a puppet by definition- dull, mindless and cotrolled by others. Joe
Toronto: Do you agree to the above? I agree, but I have no idea if the 150 bits threshold is appropriate for the example you have in mind. 150 bits is the threshold I have proposed for biological strings on our planet, and that is the only reason why I mentioned biological strings in my points. Anyway, we can start from that threshold. I reserve to discuss if it is appropriate for your example, when I know your example. l) I will accept that a string generated by a “non-design process” exhibits “dFSCI” if ………………????……………………… If it exhibits functional information higher than an appropriate threshold (let's start with 150 bits, then we will see). And if I can see nothing in the information in the string that can be explained by a specific necessity mechanism present in the System. gpuccio
Mark Frank:
I was thinking of observing it being used as a weapon.
But how would you know if you did NOT know the DEFINITION? Ya see Mark, it is the DEFINITION of WEAPON that allows you to make that connection, duh. Joe
Allan Miller:
The intermediates don’t even have to be selectable, of course. The version of evolution that most critique is the one that expects every last change to be a step up the fitness ladder. I read a bit of Joe G’s hero Spetner, and that’s the version he tilts at, rather cluelessly. But the fundamental process of evolution is one that generates, simultaneously, sequence common ancestry (of survivors) and extinction (of the descendants of all other sequences), irrespective of fitness differentials. It is that process that causes change, not the differential part. The intermediates must only be ‘not-overly-detrimental’. Being beneficial speeds things up and increases likelihood of fixation, but with or without a selective differential, generational distortion of frequency generates inexorable change given mutational input. Neutrality doesn’t add ‘dFSCI’, I suppose, but I don’t see anything in GP’s method that distinguishes those bits that got there through drift from those that got there through selection. Many bits in the modern protein contribute to modern function and would be detrimental if lost, because of coevolution of the parts of the whole – but many such bits may have got there in the first place by neutral means, only later being pinned in place by selection.
It's very simple. Neutral variation is free to happen, and it happens. But it does not change the probabilistic context. So, if a sequence is too unlikely to be generated by RV, neutral variation will not change that fact in any way. On the contrary, positive, selectable variation, if and when it happens, does change the probabilistic scenario. That's why our discussion focuses on supposed selectable variation. You see the effect of neutral variation everywhere in the existing proteome: why do you think that proteins which have the same structure and function sometimes have great sequence diversity, especially if the species are very distant? That is what neutral variation does: it changes the primary sequence where it can do that retaining the original structure and function. It is called "traversing the functional space of the protein family". gpuccio
Keiths: Suddenly (and very conveniently) nothing short of direct evidence is good enough for you, and when direct evidence is presented, you wave it away. And if direct evidence is not given, you claim that you’re entitled to assume that selectable intermediates don’t exist at all. OK, OK: go on that way. I cannot play that game forever. And, after all, I am still grateful for the help you gave me here. I understand your points, and agree with none. Is that OK for you? My point is simple: neo darwinism is your theory, not mine. For me, it is obviously a bogus theory. It's you who should be interested in providing some evidence for it. The burden is not mine. If you are satisfied to believe in a theory which is supported by nothing, that's fine for me. Yet when asked for direct evidence of your hypothetical designer, you argue that indirect evidence is just fine in that case, and that no one is entitled to assume that your designer doesn’t exist just because you can’t supply direct evidence. It’s a hopeless (and obvious) double standard. It's a different appropriate standard for completely different situations. See my post #740. You need to find a way to show, positively, that selectable intermediates do not (or cannot) exist. No. Unfortunately for you, the evidence of the objective nested hierarchy points overwhelmingly in the opposite direction. No. Unfortunately for you, stating things does not make them true. OK, I will say it again. I understand your points. They have at least some internal consistency, they are not simple absurdities like the circularity issue. I am not saying that what you say here has completely no sense. I understand that it makes sense for you. But I really don't agree. I really believe you are wrong. And I have tried to explain why. I cannot do more. So, as Mark would say, let's drop it. gpuccio
Keiths: You have to assume that the designer always makes small changes (just like unguided evolution), No. The emergence of a new protein (without intermediates) is not a small change, and it is exactly what we observe in te proteome, and what neo darwinism cannot explain. The Ediacara and Cambrian explosions are certainly not small changes. And, obviously, OOL is anything but a small change. What "small changes" are you talking about? that he uses vertical inheritance primarily (just like unguided evolution) Why shouldn't he? Vertical inheritance is the rule, in replicators. and that he limits horizontal transfers to those that could be produced by unguided mechanisms (just like unguided evolution). What kind of "assumption" is this? OGT is widespread, but it requires specific mechanisms, and has specific purposes. And it is not at all certain that its effects are only "those that could be produced by unguided mechanisms". How can you prove that? The same can be said for transposons, that are potential very good tools for a designer. The only assumption you are making here is that what you believe is true. You have to assume that he arranges the morphological and genetic information in just the right way so that their associated inferred hierarchies are identical (just like unguided evolution). I don't understand this. Could you please clarify better? How do you justify such wild, ad hoc assumptions? Is your Designer determined to hide himself behind evolution? Nothing of that is true. What we observe in the proteome is so different from what unguided evolution should do, that unguided evolution cannot explain it. That is true of protein sequences, of regulation networks, of transcriptomics, of body plans, and so on. You are so fanatically convinced that what we observe is what is expected from unguided evolution! The opposite is true. Does his evolution mimicry serve some higher purpose that you are privy to? There is no evolution mimicry at all. The designer designs living beings through common descent, because that is probably the easiest way to do it. If there really were unguided evolution mimicry, unguided evolution would be a credible theory. It is not. Is your hypothetical Designer a weak Designer who is somehow limited to behaving in this way? Why not? He is certainly limited by constraints that directly derive from the context in which he must, or has chosen, to act. The designer has no need to appear "strong". He seems to be interested in what he does, not in what we think of him. If so, how do you justify that assumption? It's no assumption. It's you who seem to be assuming that the designer should be "strong", maybe omnipotent. Why? Now note that unguided evolution predicts and explains the objective nested hierarchy naturally, So does design. The theory intrinsically fits the evidence, unlike ID. It’s a far superior theory. That cannot explain what it tries to explain. You really have a funny idea of what a "superior" theory is! So, excuse me if I am not a fan of your "macho" sensibility. ID explains biological information. Neo darwinism does not. Both theories fit nested hyerarchies as we observe them. 2-1. We win. (OK, that's a little macho, I admit it :) ) gpuccio
Mark: OK, let's drop it. I am tired. gpuccio
Dr Spetner gave us “built-in responses to environmental cues”. Allan Miller:
So that’s a ‘specific process’, is it?
It's at least as "specific" as natural selection and accumulations of genetic accidents.
Joe has in the past pointed to Vitamin C as an example of something that is just waiting for the right ‘environmental cue’, and the built-in-response is that the gene will somehow reassemble itself and start producing the vitamin.
What reassembly? The gene isn't disassembled, just disabled.
Many experiments have been inadvertently conducted in which small populations were kept in an environment deficient in Vitamin C – long sea voyages, for example.
And how much reproduction took place on those voyages? You do realize that evolution requires reproduction. Geez Allan, it's as if you are just an infant. Joe
Mark Frank:
Jo – by your logic a foot is a weapon by definition.
In what other way would it be a weapon if NOT by definition? Or are you just as clueless as your posts make you out to be? Joe
And keiths- YOU do NOT have any positive evidence that unguided evolution can do anything, let alone create an objective nested hierarchy. Heck it is a given that you don't know what a nested hierarchy is. And it is a safe bet that Doug Theobald doesn't understand the concept. So perhaps you should focus on that and stop lying like a little cry-baby.
You need to find a way to show, positively, that selectable intermediates do not (or cannot) exist.
Scioenec does not prove a negative. Obvioulsy you are scientifically illiterate
Unfortunately for you, the evidence of the objective nested hierarchy points overwhelmingly in the opposite direction.
Unfortunately for keiths an objective nested hierarchy cannot do that. For example Linnean taxonomy, an objective nested hierarchy, is based on a common design, not descent, and has nothing to do with selectable intermediates. So keiths may be able to fool himself and other fools, but that is about it. Joe
Earth to keiths- you don't have any advice worth taking and I do not use "Word" to type my comments. Not only that I don't care about typos. It gives imbeciles like you something to play with. Joe
toronto:
g) I will use a random bit generator to come up with my replicator.
That is only valid if any molecular arrangement can be a replicator. Ya see toronto replication is the very thing you need to account for so you just can't start with it. Joe
Mark Frank:
Jo – by your logic a foot is a weapon by definition.
Yes, it is. And if someone uses it to harm or try to harm, someone then the charge would be- for example "assault with a deadly weapon- shod foot (or even unshod foot)". Joe
Joe Felsenstein: I’m sorry to hear that gpuccio is unhappy, and wants models to be fully realistic. But the question being addressed was whether there was some general proof that models of genomes that had mutation, selection, and recombination could not put SI (and CSI) into the genome. Not at all. I fully agree that any genome, or other informational structure, can increase in SI by RV and intelligent selection. That is true, and easily attained. The question being addressed was whether there was some general proof that models of genomes that had mutation, natural selection, and recombination could not put SI (and CSI) into the genome. The proof of what I am saying? The same title of your post on TSZ: Natural selection can put Functional Information into the genome TSZ, March 4, 2012 Emphasis mine. I guess that if gpuccio has such a proof, or if Dr. Dembski has such a proof, the genetic systems and selection regimes that their proof applies to do not include the model that I presented. Anyway I have not seen any proof from them. Not only I have not any proof of that. I have said a lot of times that RV + Intelligent selection can generate new dFSCI. And that RV + NS cannot do that. As I have given proof that you have intentionally changed "the question being addressed" in your post. True, but gpuccio failed to notice that the model counterexample is for SI and CSI. Not for dFCSI. It was a refutation of Dembski’s arguments, which I guess are different from gpuccio’s. I would not say that. The functional information (or specified information) must be functional (or specified). If you just wanted to show that compressible strings can be generated by computation, and that Dembski is wring in considering compressibility as a good form of specification to infer design (if he really does that), then I agree with you. But anyway, you have attained that simple task by showing what we all know: that a computation, either it includes RV and intelligent selection, or not, can generate compressible strings. That is very trivial, and has nothing to do with NS. This represents a misunderstanding of my argument. Sure, if you start with gene frequencies of 0.9, you get gene frequencies of 0.9. But my example started with gene frequencies of 0.5, and then natural selection moved the gene frequencies to 0.9 and, as a result the content of 1 alleles in the population moves far out into the tail of the original distribution. there is no misunderstanding at all. I am not speaking of gene frequencies. Please, read what I write (and you quote): "Indeed, your result could have been much more easily realized by a very simple necessity mechanism. Just imagine that the algorithm of “reproduction” allows a 0.9 probability for 1, and a 0.1 probabiltiy for 0. That could correspond to a true natural situation: the 1s are simply much more represented in your environments than the 0s. You would easily get the same result, and no artificial (not “natural”) selection would be needed." So, I am not talking of "start with gene frequencies of 0.9". I am talking of having an environment where each mutation is more likely to be a 1 than a 0. IOWs, I am speaking of having a different probability distribution for the mutations, instead of a selection after the mutation has happened. Think of that in terms of nucleotides present in a biological environment. If there is an abundance of one nucleotide, and a lack of the other three, we could maybe obtain mutations including the "abundant" nucleotide more often than other mutations. So, an increase of that nucleotide in the genome would be obtained without the need of any kind of selection. The purpose of this reasoning is just to show that necessity mechanisms can easily generate compressible results. As I just mentioned, it was addressing SI and CSI but was not responding to gpuccio’s dFCSI. The compressibility issue is interesting. Dembski allowed high compressibility to be one of the possible signs of the presence of CSI (not a reason to reject possible CSI). So its presence was no problem. OK, I just think Dembski is wrong there. But in any case, what you did has nothing to do with NS. I’m glad to hear that we are in the presence, at long last, of someone who can serve as an oracle to tell us what selection is or is not “natural”. I am happy to comply. NS is that kind of selection (more correctly, effect) that can happen in a System where there are replicators interacting with environmental resource, and that is due only to the reproductive advantage that some kind of replicator can acquire. Intelligent selection is any kind of selection where a conscious intelligent being decides what to select, and what the effects of selection will be. Simple, isn't it? NS is "natural" in the sense that it needs no intervention of a designer (once the System with the replicators is already set). The real question is “is there a mathematical theorem of some sort that shows that CSI cannot come to be in the genome by processes of natural selection?” Not at all. The real question in your post was, and is: "Has Joe Felsenstein given an example that demonstrates that NS can generate CSI?". And the answer is: NO! But any attempt to investigate the issue using a mathematical or computational model seems to get criticized. Any wrong attempt to do that is and will be criticized by me. It's not a persecution, just scientific reasoning. The original criticism was that the CSI was already there, in the model, and that that (somehow) accounted for the presence of CSI in the genome at the end. In many cases, that is simply true. I did and do reject that argument. In some cases you may be right. In others, you are simply and obviously wrong. Just to make an extreme example, would you reject that argument for the Weasel algorithm? Just to know... But now the argument seems to have changed to the pronouncements of the Nature Oracle. Would that be me? I am honoured! Anyway, oracle or not, I have answered. gpuccio
Toronto: How do you intend by mere observation of a string, to determine “dFSCI”? I mean all the conclusions we can reach by observing the string itself, and by what we know of the System and Time Span where it emerged, without knowing anything else about it (IOWs, without having any information about its origin). gpuccio
Toronto:
gpuccio, j) A string above 150 bits has “dFSCI”. k) A string below 150 bits is within the scope of random configuration.
No to both. The simple truth: j) A biological string on our planet with more than 150 bits of functional information exhibits dFSCI (if we accept my proposed threshold for biological information on our planet). Therefore, we can make a safe design inference for it. k)A biological string on our planet with less than 150 bits of functional information does not exhibit dFSCI (if we accept my proposed threshold for biological information on our planet). Therefore, we cannot make a safe design inference for it. The same is true for any kind of string, if we use an appropriate threshold of functional complexity for the System and Time Span in which it emerged. That's all. gpuccio
Ya see Mark, all I need is ONE of the definitions to match in order for my claim to be true. And I have that. Mark Frank:
Very good – I never thought of that strategy – change the usual meaning of “true by definition”.
No, you use the strategy of false accusation and obfuscation. I did not change anything. It is not my fault that you cannot understand all I need is one case in which the definitions match in order to support my claim. It isn't my fault that you didn't understand that design was also a noun. And it is very telling that you didn't respond to the following: For example, in biology the anti-ID mechanism is “culled genetic accidents/ accumulations of random mutations”. In contrast the ID position which posits there was a plan, a structure, a purpose, an intention- IOW some grand (or not so grand) design. Design is a mechanism as in we can do things by design, ie via a planned process to achieve a result(see mechanism), or we can do it willy-nilly. By Mark's "logic" a person's foot can never be a weapon because there are multiple definitions of each and not all say that a foot is a weapon. "No your Honor, my client's foot is for walking and standing. That it had to be removed from the defendent's arse is meaningless because there are many types of weapons that aren't feet." BWAAAAAHAAAAAAAHAAAAA- nice one Mark... Joe
Mark: OK, I don't agree with all that you say, but I will iognore the minor points for the moment. Let me understand what you are saying. First of all ,we have to have a string which satisfies the part of A that regards the complexity of the information which is linked to the function. Do you agree with that? It seems so. You said:
First consider the statement : In the case of digital strings with a function, if the information linked to the function is complex enough to exclude empirically a probabilistic explanation then the string is designed (this is (A) without the clause “no known deterministic explanation”)
Now, you seem to readily forget this part, but it is in reality the most important part. It is the "positive" part of the procedure, and that's why you probably pretend it does not exist. Now, let's pretend for a moment that the "necessity clause" is not necessary. We just infer design because of the complexity of functional information. And we are always right. That is a very good empirical reason to use the complexity of functional information to detect design when we have no direct knowledge of the origin. Now, in this simplified case, any string with enough complexity is designed. Well, if it is true that only design can create cuntional complexity, then A is always true. Why? Because it is circular? No. Because only design can create functional complexity, and therefore if we see functional complexity we can infer design with certainty. This is not a circular statement. It is just a perfect empirical tool to detect design. If only X can cause Y, the observation of Y is perfect empirical evidence of X. That is not circular. Now, I have simplified the reasoning to show that, even if all your complex and frustrating statements were true (and I don't believe they are), still there is no circularity in inferring an origin from its exclusive output. It's very simple, and I really don't understand why you have problems with that. Now, why do we need the necessity clause, and why do we need the complexity threshold? In a sense, all true functional information is designed, whatever its complexity, because functions originate only in the consciousness of a designer. But there is a problem, well known in the whole history of design detection. Both probabilistic outputs and necessity outputs can occasionally take forms that can be interpreted by an observer as intentional function. That's why we need ID theory, and detailed tools like dFSCI: to distinguish between accidental, apparent function, and intentional, purposeful function. For probabilistic outputs, the only parameter that can help us is the complexity of the functional information. Simple functional information may be the result of random variation. Complex functional information cannot. A threshold appropriate for the question we are trying to answer is the correct tool Such a threshold transforms a measure of dFSI into an affirmation of dFSCI, a functional complexity which is beyond the realistic range of RV. So, why do we need the necessity clause? I have explained that many times. The only use of the necessity clause is to avoid those cases where lawlike regularity, or some other form of necessity mechanism which can easily be connected to the information in the string, can give the impression of complex functional information. Indeed, the information there would not be really complex, because it can be generated by a simpler system. The assumption in this step of the procedure is that a few simple methods can be used that will exclude all obvious necessity strings. Highly compressible, easily computable strings are the best example. Data strings are another example. Something like the neo darwinian algorithm is not the object of our necessity clause. Indeed, as I have said, if it were shown that mechanisms such as the darwinian algorithm can generate dFSCI, the whole dFSCI would be falsifies. Why? Because the neo darwinian algorithm is in no way an algorithm that is supposed to generate lawlike strings, or computable strings, or data strings. If it works, it can generate strings such as proteins domains, that are indistinguishable from any other string that exhibits dFSCI. So, if it works, it does falsify the whole dFSCI concept. If it does not work, on the other hand, it just does not work. And dFSCI remains a valid tool for design detection. So, why do you ask: "How (A) be falsified?" It is clear how A can be falsified. Just show that the neo darwinian algorithm, or any other smart algorithm, can create exactly that kind of string: a string that no one could, by mere observation, distinguish from any other string exhibiting dFSCI. A string for which I would happily affirm dFSCI. That will be a falsification of A. On the other hand, if it is true that only a designer can originate strings of that kind, then dFSCI will never be falsified. Why? Not because it "cannot" be falsified in principle, but simply because it always works. Just as you cannot apparently falsify the law of gravitation, even if it is in principle falsifiable. If dFSCI, when correctly assessed by the simple methods described, can really be generated only by a designer, then its observation will always correctly point to a design origin. Is this statement circular? No, it is not. It is not certain (you know, in principle the neo darwinian algorithm, or something similar, could work. But just in principle!). But it is not circular. So, please explain what is wrong in this simple reasoning. And please explain what you mean with your last statement: "So you left only with a as a realistic source of evidence for (A)" I am not sure if that is true (I have really lost you somewhere), but just to know, if it were true, what does it mean? gpuccio
And if the designer were an “evolution mimic”, then he would have created the intermediates!
indeed It follows that the pattern of life (the actual evidence, not the wishful thinking that often passes for evidence) is unlike what is predicted by evolutionary theory. If the intermediates required by the theory were present, we would not even be having this discussion. Mung
Toronto: OK, please, go on. gpuccio
Keiths: No, because guided evolution via common descent doesn’t guarantee the existence of an objective nested hierarchy. You have to make additional assumptions which amount to stipulating that the designer acts in a way that is indistinguishable from unguided evolution. How do you justify the assumption that the designer is an evolution mimic? What additional assumptions? Please, specify. And if the designer were an "evolution mimic", then he would have created the intermediates! :) You create a gap by assuming, against the evidence, the absence of selectable intermediates. Against the evidence? What evidence? I must have missed it! gpuccio
Mark: Hey, this is really hard to follow! But I will try... It would be very hard to be sure that the ingredients were the origin given no mechanism – correlation is not causation. Repeated correlation under a wide range of conditions would be evidence but that is equivalent to discovering a new law of nature and a deterministic explanation! What were Newton’s laws of motions but repeated correlation under a wide range of conditions. At the time there was no mechanism. I have serious problems here. "Correlation is not causation"? Not always, I agree. But then, what is causation? Now, I don't want to go back to Hume, but causation is a mental concept, not so absolute as we can think. I think you agree that what we call causation in empirical science is a repeated correlation. And I don't understand what you mean by "mechanism". As we seem to have language problems, I looked for the word on Dictionary.com: 1. an assembly of moving parts performing a complete functional motion, often being part of a large machine; linkage. 2. the agency or means by which an effect is produced or a purpose is accomplished. 3. machinery or mechanical appliances in general. 4. the structure or arrangement of parts of a machine or similar device, or of anything analogous. 5. the mechanical part of something; any mechanical device: the mechanism of a clock. Definitions 1,3,4 and 5 seem to relate to the concept of a machine, therefore an object performing some function by physical necessity, through a specific arrangement of parts. Definiton 2 is wider, maybe too wide, and could well include any "cause". My idea was: if I observe, or conceive, that the string originates in a setting, that it can repeatedly originate in a setting, and the setting does not include a designer, then I am conceiving a non designed origin. I need not have a mathematical laws that explains how the string is generated. Its origin is not designed, but I cannot explain it in detail. I don't believe that the concept of "mechanism" has anything to do with that. Again, I will not seriously consider the possibility of an undetectable designer specific for this setting. If you don’t know the mechanism you have no reason to ignore the intervention of a non-physical designer who is deliberately correlating the ingredients with the configuration – not necessarily maliciously – it could be for a thousand reasons – perhaps the designer wishes to make its presence known to the experimenter by performing miraculous correlations. Not so, for me. I will not consider the hypothesis of a designer who acts only in the setting I have created, and always acts in that setting. That would be the worst explanation. You know what I think of bad explanations... I cannot follow your final reasoning. So, I will ask for clarifications, before making any comment: a) There is a known mechanism and the origin is designed. This is quite common. Again with the mechanism concept. I don't understand what you mean. What are the quite common cases in a)? What is the mechanism? b) b) There is a known mechanism and the origin is not designed. This is also quite common. The London temperate record would be an example. Here, "mechanism" seems to mean a detailed explanation based on well known necessity laws: how to measure a temperature, for example. That does not seem the same meaning (whatever it may be) that the word has in a). Please, clarify. c) There is a no known mechanism and the origin is designed. This is very uncommon, in fact it is pretty much the definition of magic or a miracle. Again, I am in the dark. Design is not a mechanism, IMO. It is a process where the conscious representations of a conscious intelligent agent are transferred to a material object. We have no idea of how the conscious representations originate, and we have no idea of how the consciousness-matter interface works. Therefore, any act of design is in a sense magic. Therefore, this case is not uncommon at all. We cannot "explain" design. We can explain designed objects as a result of a design process, but we cannot explain the design process. We just know it happens all the time. If by "known mechanism" you mean that a design process involving a designer is observed as the origin of the object, then that is valid both for a) and for c). Indeed, I can see no difference. Please, explain. Possibly with examples. d) There is a known mechanism and the origin is not designed. The type of scenario you describe. This is also very uncommon and a major scientific mystery. This is completely obscure for me. An example? Given these problems, it is not a surprise that I am completely lost about your final statement: All four options: a,b,c, d would be relevant evidence. a and c would support it. b and d would be evidence against it. However, c and d are bizarre and extraordinarily uncommon because our current state of knowledge is such that we can almost always identify a mechanism to link an origin to an outcome and, as discussed above, it would be hard to be sure that origin is an origin and hard to tell c from d. They can effectively be ignored as sources of evidence. This leaves a and b. ?????? I stop here, waiting for explanations. gpuccio
Toronto: Do you mean per “individual” or for one generation of a “population”. The total number of individual states generated: the number of replications in the time span multiplied by the population number. That's the measure of the probabilistic resources of the System in the Time Span, IOWs the number of "attempts". There is no final target but I don’t understand “transition from an unrelated state”. The final target is the outcome that presents the dFSCI. The starting state must have no relation with it. Any information that is already in the starting state is not "generated".
The start of the simulation must start with something within the constraints of the “environment” the software resides in. For instance if we were modeling biology on Earth, there is no point in attempting to model a biological configuration that only works at -200 F. For the same reason, a computer simulation should not bother attempting to run code that has no chance of working in its “environment”. Secondly, a computer simulation has the added problem that certain “code” may crash the “virtual world” while biology has no such equivalent. The world is not instantly destroyed by the birth of any single biological organism, but in a computer simulation, that is something that needs to be addressed. g) I will use a random bit generator to come up with my replicator. h) I will not run the code before I verify the “world will not end”.
I am not sure I understand everything you are saying here. Probably, you should go on and say something more detailed. I will wait. gpuccio
Toronto: Two doctors debating a diagnosis would not be possible if their usage of terms was very different. But we are on a blog. We are not two doctors discussing a diagnosis. I believe anyone can express his own ideas. Those who are interested to clarify their terminology can do that. But it is not imperative. gpuccio
GAs model Intelligent Design evolution. toronto:
I think you and Mung should clarify what you actually mean by a GA.
I mean the same thing that talk origins means, that wikipedia means. So perhaps YOU should clarify, with references, what you think a GA is. Ya see GAs have a goal- to solve a problem. And they are given everything they need to achieve that goal. Unguided evolution doesn't have any goals. Whatever happens is happenstance, ie not directed. Joe
Mark Frank:
So a design can be many things other than a mechanism.
Yes, so what?
Therefore it is false that Design is a mechanism BY DEFINITION
That doesn't follow from the first part. You are confused. Ya see Mark, all I need is ONE of the definitions to match in order for my claim to be true. And I have that. Joe
Dr Spetner gave us “built-in responses to environmental cues”. toronto:
But Joe, responding to the environment is an “evolutionary mechanism”, i.e. it’s ours!
LoL! With your position there isn't any responding, the variation is already there. Not only that there isn't any "built-in responses"- it is all chance. How did the designer design? How did the designers of Stonehenge design Stonehenge? Joe
petrushka:
Putting GAs off limits is neither arbitrary nor unjustified. If GAs are admitted as models of evolution, the ID hypothesis becomes superfluous.
GAs model Intelligent Design evolution. They do not model blind watchmaker evolution. Your equivocation is duly noted Joe
Mark Frank- Design is also a noun: b: a plan or protocol for carrying out or accomplishing something (as a scientific experiment); also: the process of preparing this You can also look at people's designs. Joe
toronto:
Your side has provided no “specific process” supporting the design position.
Liar! Big FAT liar! Dr Spetner gave us "built-in responses to environmental cues". Then there are targeted searches and genetic programs directing mutations- IOW mutation and selection, albeit both artificial. And guess what? We have computers that demonstrate the power of targeted searches. And everything we have observed demonstrates your position's mechanisms are totally useless. I take it that is what has you all upset. The power is all with your position if you or someone could just step up and demonstrate that blind and undirected processes can do it- ie produce dFSCI. You won't and that is why your "criticisms" of ID are just cowardly whining. Joe
Mark Frank:
Joe as you are so charming and always ready to listen to the other point of view I am going to give you a free English lesson. The words of the English language are divided into parts of speech such as verb, noun, adjective, preposition, adverb, and conjunction. These parts of speech are mutually exclusive . An A cannot be a B if A and B are different parts of speech. Now in the example you give the word design is a verb (the word “to” at the beginning of the definition is a handy tip). The word mechanism is a noun. So in your example design cannot be a mechanism. It may be an activity done according to a mechanism – but this is not what you asserted back in 755.
A PLAN is a NOUN, Mark. And if you do something via the PLAN then you are doing it by design. For example, in biology the anti-ID mechanism is “culled genetic accidents/ accumulations of random mutations”. In contrast the ID position which posits there was a plan, a structure, a purpose, an intention- IOW some grand (or not so grand) design. Design is a mechanism as in we can do things by design, ie via a planned process to achieve a result(see mechanism), or we can do it willy-nilly. English 101- probably a little too advanced for you though Joe
keiths:
Evolutionary biologists (and I) claim that selectable intermediates exist and that unguided evolution is responsible for the diversity of life.
Then support that claim or retract it. What is wrong with you?
Well, unguided evolution operates via small genetic changes and primarily vertical inheritance, so we would expect it to produce a nested hierarchy.
Just about anything can be placed in a nested hierarchy- a human, a tree, even the contents of a room.
And not just any nested hierarchy, but an objective nested hierarchy, meaning that disparate lines of evidence — morphological and genetic, for example — will converge on the same tree, or very nearly so.
Then where is the nested hierarchy pertaining to prokaryotes? And why is that the process you mentioned lead to a smooth blending of characteristics, which is something that would violate an objective nested hierarchy?
You’ve invented a fictional barrier to evolution by assuming that selectable intermediates do not exist.
And you are an intellectual coward for not demonstrating the existence of those intermediates.
Never mind that all of ID is based on indirect evidence.
Liar. We can directly observe the design. OTOH your position is based entirely on indirect evidence and wishful thinking. In the end if evos had the supporting evidence for their claims ID would fade away. However ID is still going strong because evos have nothing and it bothers them. Joe
petrushka:
As Lenski demonstrated, neutral mutations can provide the critical scaffolding for later adaptive changes.
And Lenski has no idea if those mutations were due to chance or design. Joe
Joe Felsenstein spews:
In other words, a GA is a standard multilocus Wright-Fisher model (or else Moran model) of evolution, except for the particular choice of fitness function.
GAs model Intelligent Design evolution, not blind watchmaker evolution. IOW Joe Felsenstein is equivocating again. Joe
As with most words mecahnsim has several meanings. In the context of the ID vs. anti-ID debate, "mechanism" refers to a method or process for getting something done within a system or organization. For example, in biology the anti-ID mechanism is "culled genetic accidents/ accumulations of random mutations". In contrast the ID position which posits there was a plan, a structure, a purpose, an intention- IOW some grand (or not so grand) design. Meaning organisms were designed to evolve/ evolved by design. This is similar to the way GAs are used to solve problems. The GAs are DESIGNED to do so. So when someone needs an antenna to perform a specific task, writes a GA to do so, and it does it, that means it was done by design. The program was not just chugging along doing nothing but chughing along and then BOOM here's an antenna for a specific purpose. Many of the greatest scientists who ever graced this planet used science as a way to understand that design. IOW for those who embrace ID they can only be as scientifically literate as those great scientists. Which is something I would wish on everyone. OK mechanisms are a way of doing things. We can do things by design or we can do things willy-nilly. Both are mechanisms in this sense- the sense that the word is being used in this debate. Joe
And mark Frank is proud of his ignorance: True. Design is a mechanism BY DEFINITION. Why is it that evos have the most difficult time with using dictionaries? Mark Frank:
I am couldn’t resist this. I looked up design in the online dictionary. It can be a verb or a noun. “mechanism” is a noun. So if a design is a mechanism it must be the noun meaning of “design”.
LoL! mechansim: b: a process, technique, or system for achieving a result design: 1: to create, fashion, execute, or construct according to plan : So a mechanism is a process or technique for getting something done and design is to to create, fashion, execute, or construct according to plan and a plan is a method for achieving an end Was that too complicated for you Mark? Really? Joe
Keiths: As I said, you are entitled to your own opinions. I don't agree. And I say that with a very straight face. The only "assumption" necessary to explain that kind of nesting in the design explanation is that the designer needs to act through common descent, and to reuse what already exists with intelligent modifications. It seems not such an extreme assumption, and it fits the facts. On the other hand, design explains the dFSCI observed in biological beings, and neo darwinism does not explain it. It's as simple as that. gpuccio
Mark: I cannot understand how you can say we cannot conceive of origins. As long as you can picture something in your mind you can conceive of it. And you can certainly picture origins. You can conceive someone designing something or a natural process creating a crystal which becomes the origin of something. I think you must be using some rather specialized meaning of the word “conceive”. My simple idea is that we do not "conceive" a fact. We can observe it, or we can represent it in our imagination, and think that it happened. If that is what you mean by "conceive", it's OK. For me, a "conception" is a more sophisticated and abstract mental object than a simple mental representation. You ask if I agree on: "If I cannot conceive of a non-design explanation then I cannot conceive of non-design origin." I would say no. As I have said many times, we can observe, and therefore imagine (or, if you want, "conceive") a non design origin even if we have no idea of an explanation. Let's imagine (or conceive :) ) that we can, in our lab, put a few ingredients together, on certain strange environmental circumstances, and observe that in a certain time an object exhibiting dFSCI is generated. The result seems to be repeatable, and so we imagine that it could be explained by a necessity mechanism. But we have no idea of what the mechanism is, because it fits not with any of our understanding of physical laws. At the same time, we are controlling the setting, and we have really no reason to think that an intelligent intervention is possible. (I will ignore the possibility that a non physical designer is specially trying to confound us). So, we are observing a non design origin, but we have no non design explanation for what we observe. As I have not really observed this fact, but I have represented it in my imagination, and then to you in this post, I woul say that I have "conceived" (or better, imagined) a non design origin without having any non design explanation for it. gpuccio
Toronto: 1) I had written a b), but then decided it added nothing important to a). So I deleted it. 2) With "remunerate" I mean "reward". The point is that the system neither measures nor remunerate anything, actively. Natural effects, like NS, are admitted. 3) You ask if I agree on your f): "f) The software in charge of the simulation is not a part of the simulation.". Yes, I agree, but that needs more detail. The software in charge of the simulation is not part of the simulation, but it must be completely blind to the simulation, IOWs it must have no added information that is pertinent to the simulation. I will try to be more clear. In our "challenge" I specified from the beginning that anyone could use a random string generator to generate random strings, provided that the software was doing only that: generate random strings. The same is true for a model. If the model includes random variation, a random string generator, or a random mutator, are perfectly OK. But the parameters of everything must be realistic for the situation we are modeling. So, for example, the number of states the software generates must be appropriate for the situation we are modeling. If we are modeling a transition from an unrelated state, the new dFSCI generated must really come from an unrelated state, with no information at all about the final target. There must be no special choice of the variables at the start of the simulation that may be related to what we expect to obtain. The most important points, however, are those I have already stressed: the software is blind to the simulation, it has no information directly or indirectly linked to what should be selected, it measures no special thing, and it rewards no specific outcome. IOWs, we can model anything, but we are not modeling NS, for the reasons I have already explained: we have no realistic parameters to model NS for a complex transition, because we have no real life examples of that. We can observe some spontaneous NS, if it happens: that was my old model where computer viruses were free to replicate and evolve in a blind computer environment. But for some reason I suppose this is not what you have in mind. This is what I can say, without knowing what you will propose. Obviously, I can probably say more if you give a real example. gpuccio
Toronto: I’m confused Joe as to who you are in agreement with. I don't understand why you seem to assume that we in ID should agree on everything. ID is not a dogma, it is a place for thinking persons. But we certainly agree on most things. gpuccio
Why is it that evos have the most difficult time with using dictionaries?
Because dictionaries are 1) designed, 2) expose equivocation. Mung
toronto:
The term “design mechanism” does not mean design is a mechanism.
True. Design is a mechanism BY DEFINITION. Why is it that evos have the most difficult time with using dictionaries? Joe
Toronto: If you cannot come up with a falsifiable version of “dFSCI”, it is useless as a scientific tool. Maybe you are confused. "Falsifiable" means "something that could be falsified", not "something that will be falsified". The design inference by dFSCI is fully falsifiable, as explained many times. Any string exhibiting dFSCI that emerges in a non design system can falsify it. It's not my fault is you cannot falsify it! gpuccio
Toronto: And, by the way, I am not "vague" at all. I have answered all your points in great detail in my posts #747 - 749 - 750 - 751. If you don't like my answers, it's not my fault. gpuccio
Toronto: If I can show a computer simulation of the growth of complex information without the guidance of a designer, would that invalidate “dFSCI”? It depends on the simulation. It should be something like that: a) The information in the computer is completely blind to what will be generated. c) The computer does not select anything. d) The computer does not remunerate any result. e) New, original dFSCI emerges. Something like that. But it would be easier if you show what you are promising. I have no idea of your intentions. gpuccio
Toronto: Issue 1: At what “bit threshold level” do we consider “non-design processes” can operate at? Ah, but you are really obstinate! Non design processes can operate at any level. With different probabilities to give different results. All we can do is to compute the probability of a certain random outcome in a certain system. Thresholds are only artificially used for specific inferences in specific theories. (Ah, no, I must not speak of dFSCI. Yet.) gpuccio
Petrushka: You statements are certainly peculiar: It would be interesting to see any design methodology at all that does not involve cut and try. Have you ever seen a child design a simple house form? “Intelligent” selection is not different from natural selection in probability. Why? NS has no probability to select a loose affinity for ATP. Szostak did it. Think, before you write! And based on the Lenski experiment, functionality resulting from natural selection involves steps that have no obvious function that could be selected. Obviously. And so? If the transition is very simple, neutral mutations are the best way to reach the target. Unfortunately, neutral mutations do not change the total probabilities of a transition, as many times discussed here. gpuccio
Toronto: I will simply ignore your ramblings about articles. You may be an article fan. I am not. Was the “designer of life” himself alive? I have no definition for "life". But the designer of biological information was/is certainly conscious and intelligent. Those things are required to be a designer. gpuccio
Mark Frank:
In the case of digital strings with a function which are complex enough to exclude a probabilistic explanation then the only explanations which are known to most of society at this time are design explanations or deterministic explanations.
Probabilistic explanations do not exclude design. Design explanations are probabilistic explanations. So is necessity (P = 0 or 1). Mung
Toronto: I can show you step by step that non-design processes can result in strings which you, gpuccio, will agree have “dFSCI”. We'll see... However, there is nothing in my quoted statement above, that has anything to do with “dFSCI”, for the point I am trying to make for this step. No, but you asked me: " IF I “SHOW” YOU AN INITIAL STRING WITH THE INFORMATION TO SELF-REPLICATE, WHOSE LENGTH IS BELOW THE UPB THRESHOLD, ARE WE IN AGREEMENT THAT THE STRING CAN ALSO EXIST RANDOMLY WITHOUT MY ACTUALLY CREATING IT?" And my answer is definitely: No, I don't agree. I know nothing about the possible existance of any string, if I don't apply some procedure to make inferences. And if your statement has nothing to do with dFSCI, why do you mention the UPB? What has the UPB to do with the existence of strings, if not in the context of CSI or dFSCI? So, please clarify. The answer you gave has no relationship to the question I actually asked. And then the question you asked makes no sense. Clarify, please. “dFSCI” comes later in the process which is the whole point, that non-design processes will result in strings which you, gpuccio, will agree have “dFSCI”. We'll see. In the meantime, please explain the role of the UPB, and why I should agree with your strange statement about the existence of strings. Why are you afraid to simply answer the questions that are actually asked? I am not afraid. If your question makes no sense, it is difficult to answer it. For the moment, I certainly don't agree with your senseless statement. Try to convince me. Q1: Can random strings of any length exist without a “design mechanism” ? Design is not a "mechanism". However, random strings of any length can certainly exist. I have no intention to deny them this privilege. Q2: At what length are “design mechanisms” necessary? They are always necessary to have a designed string. They are not "necessary" at a certain length. First of all, the pertinent concept is not length, but functional complexity. But you have prohibited that I talk of it, for now. So, I cannot answer. gpuccio
Mark: I still have problems with that phrase: If I cannot conceive of a design origin than it follows that I cannot conceive of design explanation. For me, it should be: "If I cannot conceive of an explanation including a design origin, than it follows that I cannot conceive of a design explanation." Which, I suppose, does not say much. We conceive explanations, not origins. Origins are facts, we either observe them or not. Anyway, let's go to the agreements. Agreement 1: Perfectly OK. Agreement 2 is a little more tricky. In the case of digital strings with a function which are complex enough to exclude a probabilistic explanation then the only explanations which are known to most of society at this time are design explanations or deterministic explanations. I agree, but then you add: I think this is logically true – but if you want to insist it is empirical it makes little difference. It is empirical, not logical, for two reasons: a) An explanation based on a random origin, although empirically inacceptable, is in principle possible. There is no absolute logical principle that "excludes" it. b) Our map of reality at present includes only those three kinds of explanation, I agree, but after all it is only our map of reality. It is not a logical principle that only those three kinds of explanation can exist.Again, it comes from our experience of reality. Anyway, if it makes little difference, we can remain with our personal ideas about that. gpuccio
Toronto:
Show me one article that describes the methodology of the designer.
Which designer? Designers of synthetic proteins?
Schepartz and her coworkers have established unique strategies in the design and engineering of these three classes of molecules, which have added significantly to the biochemical tools available for manipulating and studying protein interactions inside the cell. - Synthetic Proteins: Designing Your Own Biomedical Toolkit
"What we have here are molecular machines that function quite well within a living organism even though they were designed from scratch and expressed from artificial genes," said Michael Hecht, a professor of chemistry at Princeton, who led the research. - Princeton scientists construct synthetic proteins that sustain life
A central challenge of synthetic biology is to enable the growth of living systems using parts that are not derived from nature, but designed and synthesized in the laboratory. As an initial step toward achieving this goal, we probed the ability of a collection of >106 de novo designed proteins to provide biological functions necessary to sustain cell growth. - De Novo Designed Proteins
Designed proteins, designed sequences, traceable back to an actual designer. What more could you ask for. And outside 'the debate context' even. Your "non-design biology" is losing ground every day. Mung
Toronto:
Issue 1: At what “bit threshold level” do we consider “non-design processes” can operate at?
None. There are no 'bits' for any 'non-design process' to set. It follows that there is no minimal or maximal 'bit threshold level' above or below which a non-design process can operate. Mung
keiths:
By your own standard, then, we must reject the Designer unless you can find him and show him directly to us.
Hypothetical intermediate designers won't do? Mung
toronto:
I can show you step by step that non-design processes can result in strings which you, gpuccio, will agree have “dFSCI”.
Then do it already.
For every mountain of articles that support “non-design biology”,
There aren't any articles that support non-design biology. Joe
gpuccio:
I confirm my diagnosis. You are completely lost.
What's the specificity on that? Mung
Keiths: I have not the time, and the resources, to fight with you on these points, that do not seem to allow constructive discussion. You are intelligent enough to understand the differences between our reciprocal positions, and keep your own mind to your satisfaction. So, I will briefly outline where I don't agree with you. Would you care to apply that same standard to your Designer? Substitute ‘Designer’ for ‘selectable intermediates’, with the appropriate grammatical changes: The two situations are completely different. A conscious designer can explain what we observe. It would be difficult to observe directly the conscious designer at work, especially if he is non physical. But we can infer his likely existence from the traces left in living beings. Your supposed selectable intermediates are physical realities that are essential to your theory, and have never been observed, neither directly nor indirectly. They should have left definite traces in form of homologies, as all related sequences have always done. They should be observable in the lab. they should be conceivable, even computable, according to the laws of biochemistry. there should be logical reasons to believe that they exist. Nothing of that is true. The existence of a designer, instead, is sorely required to explain the huge amount of dFSCI we can observe in biology. The situation is similar to the theory of a Big Bang at the origin of our physical universe. Who has ever observed a Big Bang? We scarcely understand what it could have been. And yet, our whole contemporary science accepts that theory as universally plausible. Why? Because it is the only theory that can really explain what we observe. The Big Bang theory has a lot of explanatory power, that other theories have not. And I have given you evidence that selectable intermediates exist. You didn’t deny that Lenski had found one — your only claim was that it was a case of ‘microevolution’, not ‘macroevolution’. Also, my objective nested hierarchy argument shows that the evidence supports the existence of selectable intermediates far, far better than it supports the existence of your designer. I have not studied Lenski's data in detail, so I could be wrong, but I am not sure that he has found "selectable intermediates". As far as I understand, he has found a selected new function (the internalization of citrate) which is the result of a few (I don't know if one, or two or three) mutations. If you are aware of a selectable intermediate in this sequence, could you please detail it? But there is support for them. Even you accept the reality of natural selection. Natural selection operates via differential fitness, so of course there are fitness parameters in the equations. How could there not be? The fitness parameter is not known, but I agree that we could make reasonable assumptions about it. That is not the problem. The problem is, the fitness parameter acts if and when a selectable intermediate is generated. That is the parameter we completely lack. IOWs, you can reason: "I believe that a selectabe intermediate is generated every two mutations, and therefore I model the effects of NS so and so. That is the same as saying: "if NS exists as I think it should exist, although I have no evidence of that, then it will do such and such". That is only a model of your wishful thinking. Anything can be reasonably attained with selection. If each mutation that leads to some complex result were easily selectable, the result could be obtained. Unfortunately, such a favourable situation is nowhere to be seen, except in ad hoc artificial models, like Joe's. Just to be clear. I can implement an algorithm like the Weasel, incorporate in it a full drama by S., and select according to any fitness function that expands, or in any way promotes, the random variations corresponding to the text of the drama. I could certainly obtain the dram in some more or less reasonable time. Now, I boldly state: see what NS can do! But I am only lying. I have only shown what intelligent selection can do if it knows what it wants to achieve. NS has not that power. It happens rarely, and it happens only for simple variations. Complex variations are not the sum of simple selectable variations. That is simply false. It's not a case that nobody has shown selectable intermediates. they don't exist. It is not a case that you cannot go from Excel to Access by one bit modifications that constantly improve the software. Even a child would understand that it is not possible. You keep saying that you accept microevolution but deny macroevolution. Do you really think that microevolution never involves fitness differentials? No. I have never said anything like that. Microevolution involves that, and is made possible by NS. But all the examples we know are examples of simple transitions (1-2 AAs), where the final result is selectable. I have also said clearly that we can model those things, because we have observed them. Your understanding isn’t even close to perfect if you can’t see that fitness applies to both natural and artificial selection, and both macro- and microevolution. Fitness is an abstract term, and an ambiguous one. In NS, the only property that is selected is a reproductive advantage. You want to call that "fitness"? Be my guest. In intelligent selection, anything measurable can be selected. An affinity to ATP, the ability to fold, sme specific sequence: anything. You want to call that fitness? Be my guest. But they are two different things. In NS, futness is an intrinsic property if the replicator ion the environment, that must in reality confer a reproductive advantage: nothing else can be selected. In intelligent selection, anything can be selected: simple or complex, useful or harmful or neutral, anything. The designer decides what must be selected, measures that property at any desired level, and expands, or in any other way remunerates, any random variation which is in the right direction. 1. The assumption that selectable intermediates are absent. At present, they are absent. I assume nothing. I work with what we know. 2. The assumption that there is a designer who can bridge the gaps that you assume are there. That is not an assumption. It is the final inference. 3. The assumption that out of trillions of possibilities, the designer just happens to behave in one of the few ways that produce an objective nested hierarchy and thus make it appear that unguided evolution is operating. This makes no sense. It is like if I say: "I propose a law of gravitation to explain how bodies fall", and then you say: "But why, out of trillions of possible mathemathical relations, you assume a law that just fits your data?" It makes no sense. Our explanations are exactly trying to fit our data: that is their purpose. Our explanations are not randomly chosen among trillion of possible explanations. A design explanation has explanatory power for dFSCI, and it can very well fit our data about nested hyerarchies. A non design explanation cannot explain the biological information, although it can also fit our data about nested hyerarchies. By your own standard, then, we must reject the Designer unless you can find him and show him directly to us. No. I have explained before why that is not the case (at the beginning of this post). gpuccio
Mark: B) To give a design explanation of the configuration of a digital string is to assert (among other things) that the configuration of the digital string has a design origin. I have no problem with this statement. If that is what you mean by "logically implies", it's fine for me. But that is not what I meant. Just to be clear: You are saying: "A design explanation of the configuration of a string logically implies that a design origin is part of the proposed explanation." That is true. I am saying: "A design explanation of the configuration of a string in no way logically implies that the configuration of the string really had a design origin". That is true. The two statements are very different, and perfectly compatible one with the other. I am not saying that the hypothesis is logically true. OK. I am saying that if the hypothesis is true then it logically implies a design origin. If the hypothesis is true, yes, then the object is designed. You want to call that "implies a design origin", it's OK for me. But the meaning is very simple. The hypothesis is that the object is designed. If the hypothesis is true, then the object is designed. I suppose that is the meaning of "true". Is that all? So, for example, it follows that if I don’t know of any plausible design explanation then I don’t know of any plausible design origin and if I don’t know of any reasonable design origin then I don’t know of any reasonable design explanation. I am afraid I am losing you. Let's see... "If I don’t know of any plausible design explanation" IOWs, I am not proposing a design explanation, because I don't think that a design explanation is plausible. Is that waht you mean? "then I don’t know of any plausible design origin" I really don't understand this. In a design explanation, I make the hypothesis that someone designed the configuration. If, as you said, I don't make such an hypothesis, it is because I don't think that it is a good hypothesis. So, we could say that I don't think that an explanation including a design origin is plausible. Is that what you mean? I think it's the same thing you have already said. and if I don’t know of any reasonable design origin then I don’t know of any reasonable design explanation. I have difficulties to understand what you mean. It is always the explanation that is plausible or not plausible. Not the origin. The origin is simply true or false. An explanation that includes the hypothesis of a design origin can be plausible or non plausible. According to the true origin (design or non design) it can also be correct or wrong. A design origin is simply true or false. It is a fact, not a theory. Facts are not "plausible" or "not plausible". The hypothesis of a design origin (the design explanation) is a theory, and it can be plausible or not plausible. I am afraid that again you conflate facts and theories. gpuccio
Toronto: To clarify, if I “show” you an initial string with the information to self-replicate, whose length is below the UPB threshold, are we in agreement that the string can also exist randomly without my actually creating it? No. If you show me that string, and if I have decided that the UPB is an appropriate threshold for the System and Time Span you are suggesting, I will simply not affirm dFSCI for it, and I will not make a design inference. That does not mean that I am saying that it can exist randomly. If you want to consider my non affirming dFSCI as "a negative", that is perfectly correct. Let's say that, at the end of my dFSCI assessment, I am inferring that the string is not designed. As the dFSCI procedure has a lot of false negatives, in no way that means that I, or anyone else, can realistically hypothesize that the string is not designed. The string can well be designed or non designed, and my assessment of dFSCI can tell us nothing credible on that point. That is the simple consequence of the low sensitivity of the dFSCI procedure, that is of the many false negatives. gpuccio
Toronto: The threshold we choose in all our debates between every contributor on both sides, is the number of bits that we accept as being the boundary between what we accept as being possible without the mechanism of intelligent design, i.e. random processes, as opposed to those configurations that require the efforts of an intelligent designer. No. Again, you are equivocating. And believe me, it is not a problem of language, but of bad reasoning on your part. The threshold has the only purpose of making an inference to design 100% specific. It is a conventional value. It does not make everything under that threshold "possible without design". That is not its purpose. And it is not even true that results above the threshold "require the efforts of an intelligent designer". The correct concept is that over that threshold we think that our design inference will most probably have 100% specificity, while we do not feel safe enough of that under the threshold. Concepts must be understood as they are, not changed for one's purposes. By definition, any bit configuration under the threshold, is considered to be a possibility, in a random distribution. This is folly. Any configuration whose probability is not zero is a possibility, in a random distribution. Only configurations whose probability is zero are impossible. You conflate, like many of your lot, logical possibility with empirical inference. As an example it is possible to find 7 bit patterns in a random distribution that will equal ‘A’. It is possible also to find a Shakespeare sonnet. The point is not what is possible. If I design a 7 bit pattern to equal ‘A’, it in no way means that all other patterns that exist with that same value, are thus no longer random. Obviously not. Your was designed. the random ones are random strings. The string remains the same in all cases. The origin changes. If random patterns can be found with the same configuration as a designed pattern, those random pre-existing patterns are still considered to be due to random processes, even though the pattern I configured with intentional design, exists in the universe alongside them. And so? The whole point of designing a bit configuration that can also be found occurring randomly, is to show the functionality of a string, that can also exist due to non-design processes. Again, simple nonsense. If you design a functional string of 499 bits, it will be under the UPB. That does not mean that "it can also exist due to non design processes". I would safely bet that such a string cannot exist due to non design processes, even in the whole universe. But UPB is a conventional threshold, that Dembski considers appropriate for the whole inference, and he uses that threshold because over that he feels the inference is absolutely reliable. That does not mean that you are ensured that you will find a functional 499 bits string in a random system. Get it by non designed mechanisms, and then we will discuss. There is a simple fact that you seem not to understand: obtaining a 501 bits functional string by non design mechanisms means one and only one thing: obtaining a 501 bits functional string by non design mechanisms. Obtaining a 501 bits functional string from a designed 499 bits string is all another matter. By designing the string, I am demonstrating it, not forcing its existence. Demonstrating? What do you mean? Without my design efforts, the string could still exist in nature since it is below our design threshold. You have made a law of nature out of an inference procedure! This is what darwinism does to human minds :) So in conclusion, I will design a string, that is also within the capabilities of non-design processes to produce. Then let non design processes produce it! And then go on from it. Since it is below the threshold, it already exists randomly and I don’t have to design it for any other purpose than to show what its capabilities are. I confirm my diagnosis. You are completely lost. gpuccio
keiths:
And I have given you evidence that selectable intermediates exist. You didn’t deny that Lenski had found one — your only claim was that it was a case of ‘microevolution’, not ‘macroevolution’.
What were those alleged selectable intermediates Lenski found? There weren't any until after the potentiating mutations AND the tandem dupication occurred. Also no one knows if what happened, happened by chance. IOW there is no reason to invoke the blind watchmaker. Joe
keiths:
Also, my objective nested hierarchy argument shows that the evidence supports the existence of selectable intermediates far, far better than it supports the existence of your designer.
1- keiths does not understand nested hierarchies- that is evidenced by his referencing Doug Theobald, another evo who does not understand the concept 2- Nested hierarchies do not support the existence of selectable internmediates- another fact that proves keiths is clueless wrt nested hierarchies. 3- Linnean taxonomy, the nested hierarchy, was based on a common design. Another fact keiths ignores because he loves his ignorance. Joe
keiths:
Even you accept the reality of natural selection.
Right, the reality of natural selection is that A) it exists and B) it doesn't do anthing.
Natural selection operates via differential fitness,
Natural selection is differential reproduction due to heritable random variation.
so of course there are fitness parameters in the equations. How could there not be?
But no one can tell what will be selected for at any point in time- it is all relative to the environment. Not only that whatever is good enough survives to reproduce. Joe
Mark: I believe you may be right that there is a problem of language, and probably it is not only the fault of my being italian, but of a substantial ambiguity in the use of the words. Let's try to clarify. I have checked Wikipedia at "inference":
Definition of inference The process by which a conclusion is inferred from multiple observations is called inductive reasoning. The conclusion may be correct or incorrect, or correct to within a certain degree of accuracy, or correct in certain situations. Conclusions inferred from multiple observations may be tested by additional observations. This definition is disputable (due to its lack of clarity. Ref: Oxford English dictionary: "induction ... 3. Logic the inference of a general law from particular instances.") The definition given thus applies only when the "conclusion" is general. 1. A conclusion reached on the basis of evidence and reasoning. 2. The process of reaching such a conclusion: "order, health, and by inference cleanliness".
That is vague enough to generate confusion. So, let's clarify what I mean, and always have meant, by inference. It is the first meaning: "The process by which a conclusion is inferred from multiple observations is called inductive reasoning. The conclusion may be correct or incorrect, or correct to within a certain degree of accuracy, or correct in certain situations. Conclusions inferred from multiple observations may be tested by additional observations." That is my meaning. I agree that it is probably more correct to say that the inference (in that sense) is made by someone, and not by the explanation itself. That, however, does not change anything. To be even more clear, still from Wikipedia:
Description Inductive reasoning is probabilistic; it only states that, given the premises, the conclusion is probable. A statistical syllogism is an example of inductive reasoning: 90% of humans are right-handed. Joe is a human. Therefore, the probability that Joe is right-handed is 90% (therefore, if we are required to guess we will choose "right-handed" in the absence of any other evidence). As a stronger example: 100% of life forms that we know of depend on liquid water to exist. Therefore, if we discover a new life form it will probably depend on liquid water to exist. This argument could have been made every time a new life form was found, and would have been correct every time. While it is possible that in the future a life form that does not require water will be discovered, in the absence of other factors (e.g. if it were from another planet) then the conclusion is probably correct as it has been in the past. Inductive vs. deductive reasoning Unlike deductive arguments, inductive reasoning allows for the possibility that the conclusion is false, even if all of the premises are true.[3] Instead of being valid or invalid, inductive arguments are either strong or weak, which describes how probable it is that the conclusion is true.[4] A classical example of an incorrect inductive argument was presented by John Vickers: All of the swans we have seen are white. Therefore, all swans are white. Note that this definition of inductive reasoning excludes mathematical induction, which is a form of deductive reasoning.
This is what I mean by "inference". I definitely do not mean "logical deduction" or "logical conclusion". The key difference as far as we are concerned is whether a design explanation logical implies a design origin or empirically implies it. And this is my key answer: a design explanation implies a design origin empirically, and not logically implies it. I would better say that it probabilistically points to it (implies is usually meant in a logical sense). You may wrongly infer that a protein is designed. That is not the point. But I don't mean that I make a mistake in assessing dFSCI. What I mean is that dFSCI can be wrong about the design origin, in principle. Empirically, it's all another matter. Yes this is what I mean. And, assuming that you use includes in a reasonably normal sense (but this is getting into a real quagmire) it follows that a design explanation logically implies a design origin. I don't follow you. We have said that my explanation is probabilistic. We have said that it does not imply a design origin logically, but only empirically. My design explanation include the hypothesis of a design origin. What are you saying here? That if I make a hypothesis, that logically implies that the hypothesis is true? I really don't understand. This the same confusion. I am not saying the pattern in the cloud logically implies that the pattern was designed or the origin. What I am saying is that if the pattern was designed that it follows logically (not empirically) that the pattern had a design origin. Again I don't follow you. "To be designed" and "to have a design origin" mean exactly the same thing. Obviously if a pattern is designed it follows logically that it had a design origin. It is the same thing. It is the logical principle of identity. Yes – but the key thing is the nature of that impossibility. I just want you to agree that if origin of the configuration of a digital string was a design process then it follows logically (not empirically) that the configuration of the digital string was designed. I obviously agree with this. I think you agree with this, but these things need absolutely nailing down given the nature of the debate. If you disagree then it should be possible to describe a case where a digital string’s configuration had an origin in a design process and yet was not designed. I don't disagree. I absolutely agree. The configuration of a digital string is designed if and only if the origin was a design process. Is that all? We have a saying in Sicily that, translated into english, would be more or less: "you took a lot of troubles on yourself by just not asking"! I absolutely agree with that statement. For me, the configuration of an object is defined as designed if, and only is, that configuration was outputted into the object by a conscious intelligent being from his personal conscious representations. That is in my original definition. IOWs, designed things are by definition the result of a design process. gpuccio
Alan Fox: Could you link to just one example? I will give you a very simple example of how we can personally verify that protein superfamilies are not bridged by any homology. I will use the Protein Blat tool on Pubmed. I have chosen, just as an example, the Cytocrome C superfamily in SCOP, a member of the alpha proteins class, and of the fold "Cytocrome C". Just to stay simple, I have chosen a member of the family "monodomain cytocrome c", so that we are sure that we are dealing with a single domain sequence. I have taken, just by chance, a specific protein of the family: Cyanobacterium (Synechococcus elongatus) [TaxId: 32046] In SCOP. In Uniprot, it is listed as an 86 AAs protein, a really simple example. The function is: "Functions as an electron carrier between membrane-bound cytochrome b6-f and photosystem I in oxygenic photosynthesis." From Uniprot. The identifier, which can be used in the Blast tool, is P0A3Y0. I blasted that sequence. I asked for 1000 hits, to go beyond the obvious homologies. The result: Only 712 hits have an E-value lower than 0.05, with a minimal homology of about 30%. Practically all of these proteins are Cytocrome C variant. That is true also of the remaining proteins listed in my 1000 hits list. At the end of the list, the E-value is as high as 0.20. Most hits are specific for proteins of the "monodomain cytocrome c" family, indeed for the subcategory: Cytochrome c6 (synonym: cytochrome c553) domain. I hope this example gives you some idea of how specific sequences are in the proteome, and how insulated they are. It is just a random example. We could choose thousands like that. gpuccio
keiths:
You are saying that if we currently lack knowledge of selectable intermediates, then the only “realistic” way to model NS is to assume that there are none and that NS therefore plays no role at all.
Or you could be a "good" skeptic and believe that the selectable intermediates once existed even though you have no strong evidence for your belief. Are you a "good" skeptic? You can just 'poof' them into existence as and when needed by your theory. Mung
Joe Felsenstein on November 24, 2012 at 4:21 pm said:
It is less clear from Mung’s comments that Mung knows what is and is not a GA, and it is unclear what gpuccio would do about modeling evolution, as gpuccio has presented no such models.
Ok, Joe, I'll bite. What is a GA. I'll say what a GA is not. A GA is not a model of evolution. Mung
Joe Felsenstein on November 25, 2012 at 7:23 am said:
Mung also seems not to realize that by increasing the frequencies of rare alleles one can give rise to new combinations of those alleles that did not exist before.
So? Natural selection didn't put the allele into the genome and it didn't put the combination into the genome either. A new combination could arise even while an allele is still 'rare.' Or is there something to prevent that? Natural selection could just as easily prevent new combinations from arising that did not exist before. Right? Say you have in a population two alleles, A and a. A is increasing in frequency in the population, is being substituted for a, and thus the frequency of a is decreasing. Now imagine a mutation bringing about some new novel allele B. You may have increased the probability that B will be combined with A, but you've likewise decreased the probability that B will be combined with a. And for all we know, given that the mutation is random with regard to fitness, a + B might be beneficial whereas A + B might not be. So what's your point? "Natural selection" cuts both ways. Don't your equations tell you that? Mung
petrushka:
I continue to be amused by the fact that IDists want the respectability of mathematics, but deny the one mathematical route to modelling the process they wish to discredit.
It just happened, that's all, is hard to model, mathematically or otherwise. Mung
gpuccio:
I hope that will lower my rate of typos
Maybe, but it may also take some of the fun out of reading your posts! Mung
I just don’t see that you can say anything about a DNA [s]equence without looking for homologies with known sequences.
which is very easy, I have done it a lot of times.
Could you link to just one example? Alan Fox
Keiths: The added context just reinforces my point. You are saying that if we currently lack knowledge of selectable intermediates, then the only “realistic” way to model NS is to assume that there are none and that NS therefore plays no role at all. Yes. That’s as ridiculous as saying “I haven’t measured the air resistance of my new car design yet. Therefore the only realistic model of my car’s performance must assume that air resistance plays no role at all.” No. We know that there is air resistance, although we may have not measured it in that specific case. But we have no evidence that your selectable intermediates exist. They are only in your imagination, as far as we know. I am not saying that we know they don't exist. I am definitely saying that we have no reason at all to believe that they exist. The phrase “the only model he can really build at present” does not mean the same thing as “the only realistic model of NS.” And as I pointed out, Joe did the right thing in his equations. Instead of foolishly assigning NS no role, as you recommend, he included fitness parameters in his equations. His equations therefore apply both in cases where selectable intermediates exist and in cases where they don’t. You just have to plug in appropriate values for the fitness parameters. No. He just invented parameters for which there is no empirical support. He is modeling hypothetical selection, not certainly NS. Look at hos "example" os 1s and 0s: can you explain what realtionship that has with NS? None at all. And yet he says that he is modeling NS, and demonstrating that NS can generate CSI. That is ridiculous, superficial, and completely false. Joe’s definition of fitness covers both natural and artificial selection. Your airy dismissals might be more persuasive if you actually understood what you are airily dismissing. I understand it perfectly. And airily! I have already answered your "arguments" based on hierarchies. I won't do it again. And they are irrelevant to the existence of selectable intermediates. There is only one way to prove the existence of selectable intermediates: find the. Nested hierarchies will not help. By the way, thank you for the suggestion about setting the spell checker to english. It seems to work. I hope that will lower my rate of typos :) gpuccio
Allan Miller: Design is the basis of that paper. What is designed could never have been obtained by RV and NS. And the function they find is not clear, and minimal. That paper is not a good argument for your cause. gpuccio
Toronto:
I hope you understand what this means for your argument and also Upright BiPed’s. Your “dFSCI” and UBP’s semiotic codes are no longer arbitrary and cannot be considered improbable purely from a statistical perspective, if actual chemistry is involved.
No, I don't understand. I have not been able to understand you for some time, now. What do you mean by "your dFSCI is no longer arbitrary"? (I will leave UB free to answer for himself). Because chemistry is involved? You must have lost any residual clarity of reasoning! How do we compute dFSI? Try to answer, I have said it at least 50 times, I believe. We measure the search space... that is easy... and then? Guess what: we measure the target (functional) space. Escuse me, can you see what that means? We have to evaluate what sequences express the defined function. What do you think is the reason why a protein sequence expresses a function? Guess! Biochemistry. What has that to do with "arbitrary"? The laws of biochemistry obviously dictate which sequences are functional and which are not. That's exactly what Axe is investigating. Whoever said anything different? The statistical aspect is to compute how likely it is to get a functional sequence by RV. You may have not realized it, but the biochemical processes that generate random variation at the nucleotide level are not aware, in any way, of the biochemical laws that determine the function of a protein. Simple, but you seem to miss it. So, RV in the genome is certainly "arbitrary" in respect to the biochemical laws that determine a protein's functionality. It's as simple as that. And you must be desperate to try this kind of argument. Any bit configuration under a certain probability threshold has a possibility of existing without the aid of a conscious designer, according to ID proponents themselves. No. Any bit configuration has some probability of being generated in a random system. That is its only probability. ID proponents have no responsibility for that. ID proponents choose appropriate thresholds to be able to infer design safely, without any reasonable risk of having false positives. That is not the same thing as what you are saying. If I can design a 7 bit string of bits that represent the ASCII letter ‘A’, that configuration is very likely to occur randomly. To be precise, in a system where all configurations have the same probability, that configuration has a probability of 1:2^7, that is 0,0078125, of being found in a single attempt. That is all. Show me where the “trick” is there. Let's go on, and you will see... Any string under a threshold X, has a possibility of occurring 1 in X configurations, regardless of whether that string is identical to some designed string. Obviously. Not completely precise, but I suppose the idea is correct. That is the whole point of Dembski’s and other IDist’s improbability arguments, that something above a certain threshold needs design, not a configuration below that threshold. Completely wrong. The idea is simply that, above some appropriate threshold, some event is simply too improbable, and we refuse a random process as a credible explanation. That does not mean that the event "needs design". Your terminology is naive, imprecise, and confounding. And it does not mean that some event below the threshold can easily come by randomly. The threshold is always very high, because we need absolute specificity. But many event under the threshold are still extremely unlikely. Yours is simply a reification of a simple inference procedure based on probability. If I design a self-replicator below the UPB, that string has a possibility of existing due to random processes. No. It will probably never happen through a random process. If you really believe it can, just get it from a random process. I intend to generate a significant number of bits above my threshold. If you want to falsify dFSCI, you have to generate a string with dFSCI (at an appropriate threshold) entirely by non designed mechanisms. As I have said, you cannot generate a designed string of, say, 499 bits, then add 2 bits by simple random variation, and say that you have overcome the probability barriers of UPB. You have overcome a probability barrier of two bits, and designed 499 bits of functionality. Even a child would understand that. If you really believe in such a silly argument, you are completely lost. gpuccio
Mark:
If something is logically possible (even if empirically false) it should be possible to imagine it. So please could you describe what it would be like to have: a design explanation for the configuration of a digital string which does not imply a design origin (You quote the example of the cloud that was designed by an airplane a few minutes ago. Surely the airplane creating the cloud is the origin? In any case that is not the configuration of digital string). a design origin for the configuration of a digital string where the correct explanation of the configuration of the digital string is not designed
I am not sure I understand. a) No design explanation implies logically that the origin of the object is a design process. A design explanation infers a design origin. An inference is not a logical implication. It is an attempt at knowing something that we don't really know for certain. So, what do you mean? I make a design inference for a protein, by dFSCI. Does the fact that I made that inference logically imply that the protein had a design origin? No. My inference can well be wrong, like any scientific inference. If you just mean that a design explanation includes the hypothesis of a design origin as part of the explanation, that is true. And absolutely trivial. So, what do you really mean? My example of the airplane, even if analogical and not digital, shows very clearly the difference. When I give the explanation (an airplane designed the cloud image) I don't know the origin of the cloud image, because I was not present, I have just arrived. But I make an inference, following some personal reasoning, and I give an explanation based on the hypothesis of a designing airplane. I can ask the people who were already there, and check if my inference corresponds to the facts they observed, or not. b) I am totally in the dark about your second request. You ask for: "a design origin for the configuration of a digital string where the correct explanation of the configuration of the digital string is not designed" What I wrote is: "If the origin of the configuration of a digital string was a design process (as explained before, an origin is not an object, and cannot be “designed”) then a design explanation of the configuration is empirically correct (that is, the inference made in the explanation, that the origin of the information was a design process, corresponds to facts)". Therefore, if the configuration of an object has a design origin (as a fact), then certainly the only correct explanation for the emergence of that configuration is a design explanation. A non design explanation, in this case, would simply be wrong. So, if I understand well what you are asking for, it is simply impossible. gpuccio
Alan Fox: Your claim seems to be you can tell something about the origins of, say, a sequence of DNA, merely by looking at it, is that right? This is not my claim. My calim is that it is possible to make a design inference about a protein, or other kinds of strings, when we can recognize and define a function for it, measure the target space/ search space ratio, csrefully consider the string itself and the system and time span of its emergence, and affirm dFSCI for that string according to the right procedure. This is not "merely by looking at it". So no, that's not right. Now, it is open to us these days, now that we can sequence whole genomes, to compare and find homologies. So a whole new field of study has opened up. Obviously. That's exactly the field of study that supportd ID, and falsifies the RV + NS theory. My argument is, indeed, about the emergence of new protein domains, that share no homologies with other previously existing sequences. How do we know that? By looking for homologies, and not finding any. As I said, more than 6000 groups can be derived from the SCOP database that share less than 10% homology. We can also synthesize a protein and test for biological function such as enzymatic activity. (According to Hazen, this is what FSC represents.) Yes, obviously. And we can study the protein functional space in many other ways, both top down and bottom up. That's what Axe is doing. Durston makes no claim to be able to conclude anything about the origins of a protein sequence. I never said he did. At least, not in that paper. I believe it would never have been published, if he had. I have always said that I make a design inference for the 29 protein families for whih Durston computed a dFSI (or FSC, as you like) higher than 150 bits, which is my proposed threshold for the emergence of biological information on our planet, in our planet's time span. I can make up (I mean just write down an arbitrary string) a sequence of nucleotides. Can you tell me, just by looking at it, anything about its origins or its functionality? Not certainly "just by looking at it". But there are the existing proteins in the proteome, for many of which we perfectly know the biochemical function. And there are many indirect ways to approximate the functional space for them, and therefore to compute their dFSI. Durston'r method is the best at present. Axe is approaching the problem differently. I may have stumbled on a novel functional protein. Unless we synthesize and test the protein, how could we possibly know? We can synthesize and test the protein. That's what Szostak did, with the protein he had designed. And, as said, there are many other ways to explore the functional space of proteins. That field in in rapid expansion, as it is strictly connected to protein engineering. We will soon know much more about that. And we already know much. What does your version of dFSI/dFSCI/FSC do in reality? It gives a firm foundation to a design inference for many known proteins, like the 29 families in Durston's paper. I just don’t see that you can say anything about a DNA equence without looking for homologies with known sequences which is very easy, I have done it a lot of times. or testing as-yet unknown sequences for any (which will not be a quick or easy task) function. That's the worst way to approach the problem, but it can be done. A better way is to approach the question top down, like Axe, by checking how robust to change an existing function is, or bottom up, for example by showing how "easy" it is to find a naturally selectable sequence in a random library. gpuccio
What has the TSZ thread "What Has Gpuccio's challenge shown?", demonstrated? That evos will say anything to try to distract from the fact that their position does not have any positive evidence. Congrats to Mark Frank- nice job ace... Joe
keiths:
3. The assumption that out of trillions of possibilities, the designer just happens to behave in one of the few ways that produce an objective nested hierarchy and thus make it appear that unguided evolution is operating.
Except that with unguided evolutuion we wouldn't expect to see an objective nested hierarchy. You are just a gullible moron. So there is no way we can assume that keiths posts on good faith because it is obvious that keiths is totally clueless. Joe
Alan Fox runs back to the safety of TSZ:
This is what puzzles me. How do you know a string is not a random string that just happens to coincide with a designed string? A random DNA sequence can stiil be translated into a protein. How do we know without actually doing the synthesis and checking the resultant protein for properties and functions?
Where did you get that random DNA sequence from, Alan? Can you demonstrate that blind and undirected processes produced it? If you cannot then the only reason to even bring it up is because you do not understand the debate.
Can gpuccio distinguish between a DNA sequence that codes for a functional protein from a sequence just pulled from the air?
No need to as DNA sequences do NOT appear out of the air.
Of course that arbitrary sequence could by chance code for a protein with some activity! I’ve asked him and am interested to see the answer.
You want an answer to your strawman? Now Alan you are and have been ducking many of our questions and our refutations of yur bald assertions. Perhaps you should get to answering those. Joe
gpuccio:
You can obviously invent all the parameters. You can imagine that 20 intermediates exist, that each of them is more functional than the previous one, and invent a parameter for each selective reproduction rate. You can invent that the transition from one intermediate to the other is not more complex than a few bits. You can build any model you like, but what will it be?
Design by poofing. Mung
Mr Bell must be as 'thick as two short planks'. And your citing his 'pronunciamento' does Mr Miller scant credit, to put it mildly. Axel
“Natural selection is a simple theory because it can be understood by everybody; to misunderstand it requires special training.” Indeed, it does. Unfortunately, the only people who need that 'special training' are the very people who conceived it, and are blissfully unaware that it is farcically mythological in nature - despite the ever-growing evidence against it. Only one major, unanswerable question is required for it to be disqualified from the most cursory consideration; for example, the Cambrian Explosion. Until that is persuasively answered, the whole matter should be 'off the table'. Axel
And Allan Miller chimes in:
Time once again for my favourite quote, from Graham Bell’s Masterpiece of Nature: “Natural selection is a simple theory because it can be understood by everybody; to misunderstand it requires special training.”
Jerk. We understand natural selection, Allan. We understand that nothing gets selected and it doesn't do anything.
Like NS, AS presumably ‘does nothing’.
What a dolt! The two are NOT the same Allan. AS has an agency doing the selecting whereas NS is just a result. Joe
And Joe Felsenstein continues to prove that he does NOT understand science:
All this avoids the real question: what proof do the UD commenters have that natural selection cannot result in Complex Specified Information being in the genome?
LoL! Earth to Joe- YOU need positive evidence that natural selection is up to the task. And you do NOT have any. I take it that it bothers you that your position doesn't have anything. Joe
Alan Fox spews:
It is a theory that makes predictions. Predictions such as an objective nested hierarchy of relatedness in living and extinct organisms.
That is incorrect as natural selection does NOT make any predictions and Alan doesn't even know what an "objective nested hierarchy" is. The reality says that any gradual process would produce a smooth blending of characteristics and that would not lead to an objective nested hierarchy. Proof 1 is in family trees- we canNOT create the same objective nested hierarcies out of family trees as we do out of the alleged tree of life Proof 2- there isn't an objective nested hierarchy amongst prokaryotes. And those proofs prove that Alan Fox is ignorant of nested hierarchies. BTW Alan, experiments have demonstrated that the theory of evolution is total BS. For one Lenski's shows how limited evolutionary processes are.
I can make up (I mean just write down an arbitrary string) a sequence of nucleotides.
What a jerk. Alan we need to see that sequence. Just writing it down is a moron's challenge, and here you are. Joe
gpuccio Sorry, I got distracted. I wanted to just point out that I am having a hard time seeing "the emperor's clothes". Your claim seems to be you can tell something about the origins of, say, a sequence of DNA, merely by looking at it, is that right? Now, it is open to us these days, now that we can sequence whole genomes, to compare and find homologies. So a whole new field of study has opened up. We can also synthesize a protein and test for biological function such as enzymatic activity. (According to Hazen, this is what FSC represents.) Durston makes no claim to be able to conclude anything about the origins of a protein sequence. He only claims:
This method successfully distinguishes between FSC and OSC, RSC, thus, distinguishing between order, randomness, and biological function.
I can make up (I mean just write down an arbitrary string) a sequence of nucleotides. Can you tell me, just by looking at it, anything about its origins or its functionality? I may have stumbled on a novel functional protein. Unless we synthesize and test the protein, how could we possibly know? What does your version of dFSI/dFSCI/FSC do in reality? I just don't see that you can say anything about a DNA equence without looking for homologies with known sequences or testing as-yet unknown sequences for any (which will not be a quick or easy task) function. Alan Fox
Eric Anderson writes:
NS is not a force; it’s a process.
Even that is generous. In reality, natural selection is simply a label attached to the results of phenomena that, in most cases, we are unable to clearly identify and which we do not fully understand.
The concept is not complicated in my view. Whether you think it is a real process depends on how convincing you find its explanatory power and supporting evidence.
On rare occasions we are able to look at a population and find an obvious biological characteristic that will result in that particular phenotype becoming more prevalent in the population.
I think that depends on how hard we look to see how the environmental niche and its occupants suit each other.
In nearly all cases, however, we look at things after the fact, note that some particular phenotype tended to prosper more than its less fortunate brethren, and proclaim that this was a result of “natural selection” in action.
It is a theory that makes predictions. Predictions such as an objective nested hierarchy of relatedness in living and extinct organisms. Is's what we find. Predictions such as morphologies running through genomes in a similar pattern of relatedness. It's what we find. Predictions that mutations occur and can be selected for. It's what Lenski found.
Natural selection is just a convenient label — a convenient placeholder for our current state of ignorance. It doesn’t do anything.
If you're unconvinced, you're unconvinced. Fair enough. You must have a better explanation, I guess. —–
(Incidentally, I should add the following: Although the majority of people (even evolutionary critics) don’t like to harp on this point, it is nevertheless still quite true that in most cases references to natural selection operate as useless circular tautologies. This is very common in papers and news stories in which this or that biological feature is “explained” as being the result of natural selection.)
"Explanation" means "is consistent with" the theory of evolution. If experimental observations that contradicted an aspect of the theory were made, then (assuming those observations were confirmed - and you can be sure they would be closely scrutinized) then the theory would have to be modified or abandoned. To date the theory of evolution is the only explanation that is consistent with observations. Were there another theory that had a better fit, was consistent with the evidence, and made better predictions, it would be embraced by the scientific community. Perhaps an alternative theory will come along soon. Maybe even the Intelligent Design community will come up with one! Never say never! Alan Fox
Mark:
Consider these statements: If an explanation of the configuration of a digital string is a design explanation then that explanation entails the origin was designed. If the origin of the configuration of a digital string was designed then a true explanation of the configuration is a design explanation. Are they true?
The first is certainly not true. As I have said, a design explanation does not imply a design origin. It only makes an inference about it. The second one should be reformulated as follows (I will explain the reasons in parentheses): "If the origin of the configuration of a digital string was a design process (as explained before, an origin is not an object, and cannot be "designed") then a design explanation of the configuration is empirically correct (that is, the inference made in the explanation, that the origin of the information was a design process, corresponds to facts)". It is possible that the explanation includes other aspects, that may be correct or not, but if we infer a design origin for the information, and if facts confirm the design origin, then we know that at least the design inference was correct. gpuccio
Keiths:
Gpuccio then: IOWs, the only realistic model of NS is to attribute to it no role at all. Gpuccio, now: But what I am saying is: if Joe says that he can model NS, the only model he can really build at present is to give it no rile at all. Gpuccio, You’ve backed off from your earlier extreme statement — “the only realistic model of NS is to attribute to it no role at all” — and substituted a more moderate one — “the only model he can really build at present is to give it no rile at all.” Your later statement is an improvement on the first, but it is still wrong.
New tricks, Keiths? Here is my complete original phrase: "At present, the number of naturally selectable intermediate for that context is easy to determine: zero. Therefore, their complexity is not knowable, and so their probability. IOWs, the only realistic model of NS is to attribute to it no role at all." This is not extreme at all, and is exactly the same as my other statement: "But what I am saying is: if Joe says that he can model NS, the only model he can really build at present is to give it no role at all." The only difference I can see is that in the second one I use Joe as an impersonal example of what anyone can do. Both statements clearly refer to our present state of knowledge, that is: zero known intemediates. I don't want to call you a liar again, but... We know that natural selection happens, so giving it no role would be foolish and unrealistic. Context, please. In my post 637, the one you quote from, I aws speaking of a specific context: macroevolution. The phrase before the one you quote is: "As the context I have been discussing is the generation of new dFSCI, such as the emergence of new protein domains, any chance to model NS for that context is to have some evidence of the naturally selectable intermediates, of their number, complexity, probability of being generated by RV." If you read my post #705 to Joe, you will see that I say: "Now, modeling NS is the problem. I mean, you can certainly model a case like simple antibiotic rsistance by one random mutation. We have observed examples of that. We have good ideas of how often a single mutation can occur in some type of genome, and of how often that kind of mutation can give a reproductive advantageb thorugh acquired antibiotic resistance. We know how often bacteria replicate, and we can measure true reproductive advantages of a resistant strain in true cases. IOWs, we have definite, realistic parameters to build a mathemathical model of what can happen." Context, please! Most IDers (including you, I thought) acknowledge that natural selection happens — they just maintain that it is far less powerful than evolutionists think it is. This is correct. The right way to model NS is exactly the way Joe does. He includes fitness parameters in the equations. By substituting appropriate values for the fitness parameters, you can model situations in which there are selectable intermediates as well as those in which there aren’t. You are modeling "selection" in this way. You still have no idea of which model corresponds to "natural selection". You guys seem to miss the simple fact that "selection" and "natural selection" are not the same concept. There is both direct evidence (e.g. Szostak, Lenski and others) and indirect evidence (see my next comment) for the existence of selectable intermediates. As far as I can see, you dismiss this evidence wholesale simply because it leads to an undesired conclusion. That’s bad science, gpuccio. No. Szostak has no evidence at all, if you refer to his paper about ATP binding. I have discussed that in detail. Lenski has no evidence of any macroevolutionary transition. Finally, you are free to think that your "nested hyerarchies" argument is evidence of selectable intermediates. That would certainly be be bad science, if it were even science, but anyone is free to think as he likes. gpuccio
Joe Felsenstein: I have read your old post at TSZ titled: "Natural selection can put Functional Information into the genome". Well, my only reaction is: are you serious? What you have done: a) You have defined each ncrement of a 1 as a selectable trait. b) You have created a context where each one bit transition can be selected. c) There is nothing at all abot how those one bit transitions would confer any reproductive advantage in any real case. Now, a very simple question, and please answer: why do you call that: A model of NS ?!!! What is "natural" in your model? It is obviously an artificail mathemathical model, that has nothing to do with NS. Moreover, the bits in your model are completely independent one from the other. You just assume, for you comfortable purposes, that the more the ones, the better. There is no function tied to a specific configuration of bits. There is no dFSCI there. Indeed, your result could have been much more easily realized by a very simple necessity mechanism. Just imagine that the algorithm of "reproduction" allows a 0.9 probability for 1, and a 0.1 probabiltiy for 0. That could correspond to a true natural situation: the 1s are simply much more represented in your environments than the 0s. You would easily get the same result, and no artificial (not "natural") selecion would be needed. That's because your result is however highly compressible. It has none of the chracteristics of dFSCI. But the main objection remain the first one: what has all that to do with "natural selection"? gpuccio
Mark: Strange questions. However, I will try to answer. I hope I understand correctly what you mean. First of all, let's see your premise: "In the following a “design explanation” is any explanation with involves an element of design and “entails” means logically entails according to your definition, not empirically happens to be true" OK, I agree, but just to be sure we mean the same thing I will say it my way: "In the following a “design explanation” is any explanation where the intervention of a conscious designer and a design process is essential to explain what must be explained, and “entails” means logically entails according to your definition, not empirically happens to be true, IOWs a logical implication." Are you OK with that? I hope so. For the moment, I will go on with the answers. Do all explanations include an origin (even if it is a rather vague statement about the origin)? If not, perhaps you could provide an example of one that does not? No, an explanation includes an inference about an origin if what it is trying to explain is the origin of something. In many cases, explanations try only to explain observed effects. For example, I observe an apple falling down, and I try to explain why and how that happens by some mathemathical law applied to physical concepts like mass, acceleration, and so on. No "origin" is specifically implied here. I speak of "origin" in our case, because what we want to explain is the origin of some specific informayional configuration of matter in a system, where that configuration did not exist before. So, a protein gene is a special configuration of nucleotides in a genome. We assume (indeed, we know) that there was a time when that specific functional configuration could not be observed (did not exist) in any genome on our planet. So, our question is: how did that new configuraion emerge at some time? That is what we want to explain. Our question is about the origin of something, therefore our answer will have inferences about that origin. Now, the simplest way to categorize explanations about that kind of problem, in our context, is to distinguish between design origin and non design origin as facts. That is simple. We define a design origin any context where a conscious designer can be observed (in any direct or indirect way) as the originator of the funcrtional information in the object. A non design origin is all the rest. At this point, a design explanation is any explanation that infers a designer and a design process to explain the observed information. A non design explanation is any other explanation. Does a design explanation entail a designed origin? If not, perhaps you could provide an example of one that does not? This is easy. No. In the best case, a design explanation infers a design origin, it never logically implies it. An inference is never a logical deduction. An inference can be empirically correct or wrong (if it corresponds or not to facts). A logical deduction is simply logically true or false (if it applies logical principles correctly or not). We are dealing with two completely different epistemological categories. An example of a design explanation that does not imply a design origin? Very simple. I see a cloud which has the form of a horse, and I explain its form by inferring that it was designed by an airplane a few minutes ago (but I have not observed the fact). My design inference is either correct or wrong. I can ask the people who have been there for some time, to empirically find out. But in no way my design explanation logically implies a design origin. If a designed origin is part of an explanation does that entail a design explanation? If not, perhaps you could provide an example of one that does not? This is less clear. I will say, staying very simple, that if what we want to explain is a specific functional configuration, and if our explanation attributes that configuration to a design process (a conscious designer outputted that specific configuration to the object, from his personal conscious representations), then the explanation is a design explanation. If, on the other end, the designed origin is relative to other aspects of the object, but not to its functional information, then we are not proposing a design explanation for that information. An example could be a conscious designer who purposefully makes a photocopy of a Shakespeare's sonnet. A designer is part of the explanation of how that copy came into existence, but that designer has no role in the generation of the sonnet itself. So, if our question is: "How did the information in the sonnet come into existence?" then the above explanation is not a design explanation for that. It would be a design explanation for the question: "How did this copy of this sonnet come into existence?" The design explanation for the information in the sonnet is: "Shakespeare wrote it." gpuccio
Joe Felsenstein: It is less clear from Mung’s comments that Mung knows what is and is not a GA, and it is unclear what gpuccio would do about modeling evolution, as gpuccio has presented no such models. I have tried to express clearly my point of view. If you, or I, or anyone else, want to model neo darwinian theory (RV + NS), we must model RV (easy enough) and NS. Now, modeling NS is the problem. I mean, you can certainly model a case like simple antibiotic rsistance by one random mutation. We have observed examples of that. We have good ideas of how often a single mutation can occur in some type of genome, and of how often that kind of mutation can give a reproductive advantageb thorugh acquired antibiotic resistance. We know how often bacteria replicate, and we can measure true reproductive advantages of a resistant strain in true cases. IOWs, we have definite, realistic parameters to build a mathemathical model of what can happen. That would be a model of RV + NS as a cause of microevolutionary events, the most simple case being a single mutation. But, if we want to do the same for a transition which generates a new protein, a dFSCI transition from an unrelated state, then we have to know if any intermediate exist that can be naturally selected, what reproductive advantage they can offer, how many of them exist, how complex is each transition from one to the other, and so on. My point is simple: we have no real case like that, so how can we build a model of what has never been observed? You can obviously invent all the paprameters. You can imagine that 20 intermediates exist, that each of them is more functional than the previous one, and invent a parameter for each selective reproduction rate. You can invent that the trtansition from one intermediate to the other is not more complex than a few bits. You can build any model you like, but what will it be? A completely invented, imaginary model, that has no probability of corresponding to anything that really exists. The only model you can build with our present knowledge is one where the transition form an unrelated state to a new protein domain happens without any intermediate. In that model, NS has no role, and the transition is not in the range of RV. That simple model would correspond to our actual knowledge (beware, Keiths, I am not saying that I assume that intermediates cannot exist). I hope that is clear. gpuccio
Toronto: Thanks for clarifying what yiou mean. Here is my answer. The UPB is a threshold for what can come into existence by chance alone in the whole universe. You can design anything you like below the UPB. That does not mean that it could come into existence randomly. It just means that it is not complex enough to safely affirm that it could not come into existence in a System that is made of the whole universe, and in a time span that corresponds to the life of the whole universe. As I have said many times, each problem regarding a design inference must be formulated with detail and precision. A System must be defined, and a Time Span. As I have said many times, I have proposed a much lower threshold of complexity for the System represented by our planet and biological life, and the Time Span corresponding to ouer planet's existence. By various gross approximations, I have (generously, I believe) set that threshold at 150 bits. Axe, starting from empirical and experimental considerations, sets a much lower threshold for proteins, at 30 bits. You can obviously try to design some self replicator that is below each of these thresholds. But what kind of self-replicator? If you are thinking of a biologcial self-repèlicator, you should specify better the System and Time Span you are referring to. Please, be more precise. Anyway, let's imagine that you can show some form of self replicator that, in a defined System and Time Span, could emerge by RV. OK, and so? Then you have to show that such a self-replicator, after emerging by chance, can still increase its functional information, and that the final functional information is beyond an appropriate threshold for the system and time span under consideration. You are free to try. But perhaps I can see the trick you are attempting. You want to design something that is just below an appropiate threshold. Then you want to show that, by RV, it can acquire a few bits of functional information, and get beyond the threshold. Is that the trick? What a poor trick it is, indeed! If you design A, no probabilistic barrier has been overcome. If then A becomes A1 through a random transition of a few bits, no probabilistic barrier has been overcome. The transition is completely in the range of RV. What you must obtain, if you want to prove something, is A1, from an unrelated state, by RV (or any mechanism not involving design). Can you do that? Try again, please. (If that was not your potential argument, no harm done: but please, specify what your argument would be, then). gpuccio
And whatever you call it, it still doesn’t do anything. So why not just call it snake oil?
At least snake oil does something. Mung
Allen MacNeil needs to buy a vowel and read "Not By Chance" already. And wrt natural selection the differential reproduction has to be due to heritable random (chance/ happenstance per Mayr in "What Evolution Is") variation. If the differential reproduction is due to something else, and that is very possible and likely, it ain't natural selection. And whatever you call it, it still doesn't do anything. So why not just call it snake oil? Joe
Eric Anderson: Natural selection is just a convenient label — a convenient placeholder for our current state of ignorance. It doesn’t do anything. NS an "argument from ignorance"? There is some justice, after all! :) gpuccio
Eric Anderson: (Incidentally, I should add the following: Although the majority of people (even evolutionary critics) don’t like to harp on this point, it is nevertheless still quite true that in most cases references to natural selection operate as useless circular tautologies. This is very common in papers and news stories in which this or that biological feature is “explained” as being the result of natural selection.) An argument about circularity? Against our adversaries? There is some justice, after all! :) gpuccio
Alan Fox: No! Not Allen MacNeill list of "engines of variation" again! RV includes all possible forms of non designed variation. They are all the same thing, in he end, whatecìver the mechanism of variation: they are random, and in no way connected to any specific result. MacNeill's list, a true manifest of post-post-neodarwinism, includes also "examples" (rather fanciful, indeed!) of what today would be called "active adaptational mechanisms". We know that active adaptation has a role, sometimes important. But active adaptation is exactly an algorithm, a machine, almost certainly designed. And however, algorithms have a drastic limit that cannot be overcome: being non conscious and non intelligent, they can only do what they were programmed to do. NS is a process derived from the information that makes living beings which reproduce and have metabolism possible. Being a consequence of that information, it can do very little beyond the scope of the information that already exists. Microevolution is all that can happen by RV + NS. Neo darwinists, and post-post-neo, have been preaching for decades that macroevolution can be the result of RV + NS. After decades, there is absolutely no evidence of that. No scientific theory should survive such a lack of empirical support. Neo darwinism's continuing academic success is a shame for modern thought, a triumph of dogmatism on reason and common sense. gpuccio
NS is not a force; it’s a process.
Even that is generous. In reality, natural selection is simply a label attached to the results of phenomena that, in most cases, we are unable to clearly identify and which we do not fully understand. On rare occasions we are able to look at a population and find an obvious biological characteristic that will result in that particular phenotype becoming more prevalent in the population. In nearly all cases, however, we look at things after the fact, note that some particular phenotype tended to prosper more than its less fortunate brethren, and proclaim that this was a result of "natural selection" in action. Natural selection is just a convenient label -- a convenient placeholder for our current state of ignorance. It doesn't do anything. ----- (Incidentally, I should add the following: Although the majority of people (even evolutionary critics) don't like to harp on this point, it is nevertheless still quite true that in most cases references to natural selection operate as useless circular tautologies. This is very common in papers and news stories in which this or that biological feature is "explained" as being the result of natural selection.) Eric Anderson
Mung
By definition, natural selection can only increase or decrease the frequency in a population of some already existing property.
Yes that's right, natural selection sifts variation. It's variability in the genome of a population of organisms that supplies the raw material for NS to work on.
Natural selection doesn’t put things into the genome. It is incapable of putting things into the genome. It is not a “creative” force.
NS is not a force; it's a process. And the source of new alleles is variation arising from mutations and other sources of variation in the genome.
Frankly, it’s not even proper to speak of natural selection increasing or decreasing the frequency of some trait. The actual increase or decrease in frequency is caused by differential reproduction, not natural selection.
The process is generally called natural selection because the name stuck. Differential reproduction is also a good description. I like environmental design. There is no problem if users define or clarify their usage. Alan Fox
Joe Felsenstein on November 24, 2012 at 6:47 pm said:
The assertion that it [CSI/dFSCI] cannot be put into the genome by natural selection is regularly made by posters and commenters at UD. And yet no one has a reasonably flexible mathematical model of evolution for which it can be proven that CSI cannot be put into the genome by natural selection.
No model is required. By definition, natural selection can only increase or decrease the frequency in a population of some already existing property. Natural selection doesn't put things into the genome. It is incapable of putting things into the genome. It is not a "creative" force. Frankly, it's not even proper to speak of natural selection increasing or decreasing the frequency of some trait. The actual increase or decrease in frequency is caused by differential reproduction, not natural selection. Mung
PS: And in effect dismissing something as familiar as writing a text as "poof" is itself a sign of desperation not to see the patently obvious. kairosfocus
GP, I must congratulate you on your patience. It seems to me that some folks are being dragged kicking and screaming against their will, making up every silly objection they can, to look at what a very commonplace occurrence is and signifies. The very posts they use to post objections are instances of dFSCI originating by intelligent design. And, in our observation, beyond a reasonable threshold of complexity it is not credible that chance and necessity mechanisms should originate such. Where such is abundantly confirmed by observation that in fact where we separately know the origin, dFSCI is a reliable sign of design. KF kairosfocus
The Burden of Poof Yes, Darwinists, it had to be said. You have the burden of poof. Mung
A Theory of Poof (pt. 2) But if you're a Darwinian, there's no "poofing" allowed. The function is much too complex to have been poofed into existence absent a designer. So let's poof into existence a theoretical intermediate. And if that's still too complex, poof into existence however many additional hypothetical entities are required to make the function appear achievable via Darwinian processes. Then, when it's pointed out that none of these hypothetical functional intermediates have been demonstrated to exist, say that evolution poofed them out of existence. You tall me. Who has the better theory of poof? Mung
A Theory of Poof (pt. 1) At times when I am developing software I will write a functional test before I write the actual code that is intended to perform the function. The test, of course, should fail. Then I write the simplest code possible to make the test pass. Then "poof" I have functional code. Yes, it's true. Software development by poofing. Mung
Mark:
Both origins and mechanisms can either be designed or not. For me a “necessity mechanism” is just a mechanism with no element of design. So this defines four types of explanation: a) Designed mechanism, designed origin b) Designed mechanism, non-designed origin c) Non-designed mechanism, designed origin (the sonnet got accidentally copied when it fell on the copier) d) Non-designed mechanism, non-designed origin I believe d) corresponds to a deterministic explanation.
This requires a deeper discussion. Let's remember that "designed" just means that the origin of the functional information in the object is from conscious representations. So, I see some problems in your distinction bewteen "mechanism" and "origin". We apply the concept of "designed" only to designed objects. Therefore, the origin of an object is not "designed". I use the term "design origin" to mean: "a designed object", IOWs an object whose functional form was outputted from conscious representations through a design process. IOWs, the "origin" of a designed object is a design process. But the "origin" is not "designed, because it is not an object. That said, let's see what remains of your definitions: "a) Designed mechanism, designed origin" a1) Let's consider the sonnet. If we refer to the functional information in it (the meaning) it has a design origin (not a "designed" origin). OK. Shakespeare conceived that meaning. But what do you mean by "designed mechanism"? That is not clear. S. used his body, probably paper and pen, to write the sonnet the first time. Well, I would say that his body was designed (you would disagree). Paper and pen were probably designed. But what has that to do with the information in the sonnet? Nothing. So, I am not sure I understand what you mean by "designed mechanism". Let's try again. The Weasel algorithm (whatever it is). Well, the algorithm s certainly designed (maybe by Dawkins). But the Weasel phrase was designed by S. What does the algorithm do? It transfers, with the principle of maximal effort for the minimal benefit, the phrase from one object to another. It "copies" it, although in a very fancy way. So, I would say that the "mechanism" that copies the phrase in such a fancy way is designed, and the phrase is desinged. But by different persons. "b) Designed mechanism, non-designed origin" The best I can thin about that is an automated recording of London's temperature. Here: - the mechanism that measures and writes the string and stores it is designed. So, in that sense, the string is designed. - but the information in it about temperatures is non designed: it is determined by "natural" events, and no conscious intervention determines the particular data that are registered. "c) Non-designed mechanism, designed origin (the sonnet got accidentally copied when it fell on the copier)" Not sure what you mean. The copier is designed. The sonnet (its meaning) is designed. The fall is not designed. You should be more precise, and clarify always: - what is the object that is designed (or not desisned) AND - waht is the information (form) in the object for which we are asking if it is designed or not designed. We must always know what we are speaking of. "d) Non-designed mechanism, non-designed origin" Well, that is easier. Any object for which there was never any design intervention is like that. But, as said, an object can contain designed information, and still be non designed for other aspects. Let's take a verse carved in a stone. The carved stone is designed with repsect to the functional information in the verse. The stone itself is not designed. That's why functional information is the main property in the dFSCI definition. The object itself is a physical "vehicle" of functional information.
I think this analysis makes it clear that it is false that everything with dFSCI has a non-designed origin. There are plenty of cases of b) which I think you would recognise as having dFSCI. For example any kind of artificial selection process such as the Weasel programme starts with a random origin. If you want to make it even remotely plausible that everything with dFSCI is designed then you must include a, b and c as cases of design. So really what you are talking about is whether there are any cases of dFSCI which are known to be d) i.e. deterministic explanations. You claim there are none. But the definition of dFSCI is no known deterministic explanations i.e. d)
You are wrong. There is no case that has dFSCI and is non designed. Let's take the Weasel case, for instance. You say that it starts with a random origin. That is wrong. It starts with the verse. The algorithm knows the verse, just from the beginning. It could never exist without knowing the verse. The random origin is origin of nothing. It is just a random object that is modeled by the algorithm to become the designed verse that is already in it. The functional information is the meaning of the verse. That is designed. That was in the algorithm from the beginning. That si transferred to the final string. It is only a complicated form of copying, nothing else. Other examples? gpuccio
Mark: Ah the difference between origin and explanation. This is key. It is another thing which is not as clear as you might think and deserves some detailed analysis. To me an explanation is an origin plus the mechanism that goes from the origin to the outcome. For example, an explanation of a sonnet appearing on my screen might be you copying (the mechanism) the sonnet from a book (the origin). Neither part by itself counts as an explanation. If you disagree please say so and give an example. I completely disagree. Please, read my post #677. If I copy the sonnet from a book to the screen, that is: a) An origin of the screen copy of the sonnet, if it is an observed fact. b) An explanation of how the sonnet could appear on the screen if you just give it as a theory, without observing it happen. In any case, what we are either observing or explaining is the copy process. We are saying nothing about the origin of the information in the sonnet, nor are we trying to explain it by a theory. On the other hand, if we see Shakespeare writing the sonnet, or we have good factual evidence that he did so, and that he was not copying it, but that the information in the sonnet originated from Shakespeare's representations in his consciousness, then we know the origin of that information. If, on the other hand, we have no factual infromation about the origin, we just read the sonnet without knowing anything about it, and yet we applt the dFSCI procedure and infer design for it, then we are offering an explanation that implies a design origin. If, on the other hand, we offer a theory about how theinformation in the sonnet emerged thorugh non design processes, then we are offerong an explanation that implies a non design origin. I hope that is clear. The origin is a fact, an observable. It can be observed (and therefore be certain) or just inferred by a theory (and therefore not be certain). An inferred fact can be part of an explanation, but explanations are theories, and therefore are sets of logiocal connections. On the other hand we can observe facts that we cannot explain. The facts remain facts, the explanations explanations. gpuccio
Keiths: The evidence for their existence is literally trillions of times stronger than the evidence for your hypothesis. Dream on. But why do you link your thread about common descent? gpuccio
Keiths: You are below your recent levels here (but in line with your old self!). I was debating Joe Felsenstein's statements about modeling NS. Your parody of my concept is: "Even setting aside his tendentious interpretation of the data, the logic is laughable. He is saying, in effect, “If you can’t give me lots of information about the intermediates, I’m allowed to assume that there are none. Zero.”" But what I am saying is: if Joe says that he can model NS, the only model he can really build at present is to give it no rile at all. Why? Because to model it he has to: a) Know some real case with selectable iontermediates, so that he can have parameters for how often NS can occur in a real case, the probabiltiy of the intermediates, and so on. So, he could build a reliable model of NS. As at present we know no selectable intermediates, at present he can only realistically model NS giving it no role. OR: b) Completely invent the parameters, and just model what would happen if NS happened in the way he imagines, and desires, it to happen. That is completely useless, trivial, and non scientific. That's what he does. So, I am not "recognizing that my statement is ridiculous, and that I now wish to retract it". Why should I? And I am being very honest about it. gpuccio
Toronto and OMTWO: I will not comment on your funny elaborations about what you think we think. But please, go on. It's some experience! (Well, I suppose this is irony). gpuccio
Toronto: What would happen to their world-view if their experimentation pointed to a result they weren’t ready to accept? For me, it is simple. I would make myself ready. If necessary, by changing my world view where required. gpuccio
Petrushka: There’s really no point in having a discussion with GP until you clear up his contentions regarding consciousness. It’s at the heart of everything he has to say about evolution. True. It’s why he dismisses GAs out of hand, regardless of what they can do. False. GP is not interested in whether evolutionary processes are sufficient. In fact, he is uninterested in anything that can be “reduced” to a process. False. And I suppose you mean "non designed evolutionary processes". Having said that, I tend to agree that the current state of AI is such that “automated” code generation is mostly limited to parameterized variations on known algorithms. You don’t see non-trivial software applications being generated by automated processes. True, and very sincere. GP would see this a permanent and necessary state of affairs. He simply does not believe that invention is a process that can be modeled and replicate in silicon. True. Or that it is a process at all. False. Not bad, anyway. I am sincerely pleased (that is not irony!). gpuccio
Petrushka: Hidden within GP’s declarations regarding naturalness and the requirement of consciousness is the assumption that consciousness is not a natural process. GP believes that consciousness is non-physical. Well, as you may know, I usually avoid the word "natural", because it is ambiguous. Sometimes I use it only for brevity, and because I hope that the context is clear enough. In the statemet you refer to, it just means "non designed". But I agree that it can be ambiguous. So, I will be more clear. I do believe that consciousness cannot be "explained" by any purely physical theory (for example, as a result of any arragement of matter). Physical is in reality another word which is ambiguous, but let's ignore that aspect for the moment. For me, consciousness is neither "natural" nor "non natural": it all depends on how we define "natural". I don't pretend to be able to "explain" consciousness. I accept it as a fact. In all my reasonings here, I use consciousnes as an empirical entity, and I never try ot "explain" it: I only try to describe its observed properties. Consciousness certainly has connections with the physical reality we observe thorugh it, in both directions (input and output), but i no way it can be explained by the physical reality itself. I hope that clarified my views. Exactly what UprightBiped would make of non-physical manipulation of information, we’ll never know, because ID advocates never discuss their mutual discrepancies. I am not sure what you mean here. I have expressed my personal thoughts about UB's reasoning at the very beginning of his thread. You can read there what I think. My simple view is that design starts as conscious representations. Those representations are obviously outputted to material objects through a consciousness-matter interface. How else could it work? gpuccio
Toronto: As a test, if I could come up with a “software string” below the UPB that could sel-replicate, would this qualify as an invalidation of “dFSCI”? I don't understand. Do you mean a designed string? And why should it "invalidate" dFSCI? If the UPB were our appropriate threshold in our hypothetical System, I would not affirm dFSCI for it anyway, so that would be a false negative, and would certainly not invalidate dFSCI. And what has the self-replicating function to do with the reasoning? gpuccio
Toronto: As it’s you that has failed to explain in sufficient detail what the process is, it’s not other peoples fault that you are unable to express yourself in terms that others find unambiguous. Is it a mentally confused person's fault that he is mentally confused? Ah, that's a question! gpuccio
Petrushka: For conscious process, read poof. OK. So, I can safely say that I experience poofs all the time. Don't you? gpuccio
Toronto: Is this why “necessity mechanisms” are ruled out? No. gpuccio
Petrushka: I think gpuccio (and all ID advocates) conflate agent and process. This confaltion becomes clear when we discuss whether humans creat a string via design or via a necessity process. I think this whole line of argument is rubbish. Not at all. If you look at my definition of design, you will see that I define three different things explicitly: Design process: the process by which conscious intelligent representations are outputted to a mterial object, shaping it pusposefully. Designer: the conscious intelligent being who outputs his conscious representations through the design process. Designed object: the material object that is shaped by the design process. There is no conflating at all. The issue to be decided is not whether sky fairies exist or whether mysterious agents meddle in the history of life, but whether evolutionary processes are sufficient. Let's say "non designed evolutionary processes", just to be precise. This is the same issue at the heart of OOL. Not whether we can determine the one true origin story, but whether regular pocesses are sufficient. Let's say non designed processes. The issue in any scientific theory is not true history, but sufficiency of regular processes. I don't agree. As you can read in my previous posts, true history, when observable, directly or indirectly, is a fact, and facts can always falsify any scientific theory, however "sufficient". Which is why Id advocates shy away from any attempt to model evolution and evolutionary processes. Simply not true. I shy away from wrong models that are passed as though they were true models. My own argument has been for some time that evolution is the only known process for creating and modifying biologically relevant information. There is simply no competing conjecture except poof. This is true even if we conceed the possibility of a designer. You are conflating, as you often do, "evolution" with "non designed evolution". Let's be clear. The true problem is between non designed processes and designed processes. Whatever your verbal tricks, that is the issue. You use the word "evolution" ambiguously. What do you mean? If you just mean a process that has some gradual aspects, then it is perfectly trivial to affirm that biological information was generated by "evolution". That is simply obvious: there is some graduality in the emergence of biological information. But if you use the word "evolution" to mean emergence through non designed processes, such as RV + NS (I know no other candidate!), then the type of graduality that is requested is completely different: it must be a graduality that passes through selectable intermediates, each of which must be in the range of RV. That is not true of the graduality that we can observe in designed processes. Process is always relevant. Obviously. The only known designers of abstract information do not poof things into existence. They build incrementally, modifying existing inventions by increment change or by horizontal transfer. Here you are wrong. While it is true that design processes often use some graduality and reuse of existing designed things, it is certainly not true that a dfesigner needs to proceed thorugh the same kind of "incremental change" that is required for RV + NS. Indeed, to believe such a thing is complete folly. In a sense, a designer always "poofs" something into existence: that "something" is the specific form he is representing in his consciousness. Obviously, he has to implement the output of that form to the material object. A complex form can be represented and/or implemented gradually, through simpler forms. But that process is completely different from the RV + NS algorithm, thaty goes on without any conscious representation, any undersatnding of meaning, any purpose. A solution often is represented in the designer's consciousness because of his understanding of laws, or of context, or just by intuition. Nothing like that happens in a non conscious context. Once a solution is represented, it can often be implemented easily. Other times, the implementation will be difficult and gradual, but it is always guided by the conscious representation of the designer. A designer can also use RV as a tool, and intelligently select outputs of RV. But again, the process is completely different here: it is always guided by the designer's understanding and by his purpose. It is really strange that you seem not to understand these very fundamental concepts. gpuccio
Toronto:
Please clarify what you are explaining if not the origin of the string. A string that is the result of a necessity mechanism has an origin, and if that string meets complexity and functionality requirements, that string has “dFSCI”.
Let's clarify that again. An explanation is a theory about cause and effects relationahip, a set of logical or mathemathical connections, that tries to explain observed facts. An explantion can be good or bad (according to its explanatory power. An explanation can be accepted or refused. An explanation can be supported or falsified by new facts. But an explanation is never a fact (an observable). This is basic epistemology. The origin of a string, as said many times, is an observable fact. It can be known or not known. But it is not an explanation. We can offere an explanation for a string that implies a certain type of origin, for instance a design origin. If, at any moment, the true origin is directly or indirectly observed, that simple fact can be compatible with our explanation, or not. So, if the observed origin is from a conscious intelligent being, it is a design origin, and if our explanation implied a design origin, the observed origin is in support of our ecplanation. Still, our explanation could still be false in its logialc structure, although its conclusions may be in accord with the observed origin. On the other hand, if the observed origin is from a non design context, then that simple fact falsifies our explanation. That is in perfect accord with the general principle that scientific theories can be falsified, but never be proved true. Is that clear? gpuccio
Toronto:
Please clarify what you are explaining if not the origin of the string. A string that is the result of a necessity mechanism has an origin, and if that string meets complexity and functionality requirements, that string has “dFSCI”.
Let's clarify that again. An explanation is a theory about cause and effects relationahip, a set of logical or mathemathical connections, that tries to explain observed facts. An explantion can be good or bad (according to its explanatory power. An explanation can be accepted or refused. An explanation can be supported or falsified by new facts. But an explanation is never a fact (an observable). This is basic epistemology. The origin of a string, as said many times, is an observable fact. It can be known or not known. But it is not an explanation. We can offere an explanation for a string that implies a certain type of origin, for instance a design origin. If, at any moment, the true origin is directly or indirectly observed, that simple fact can be compatible with our explanation, or not. So, if the observed origin is from a conscious intelligent being, it is a design origin, and if our explanation implied a design origin, the observed origin is in support of our ecplanation. Still, our explanation could still be false in its logialc structure, although its conclusions may be in accord with the observed origin. On the other hand, if the observed origin is from a non design context, then that simple facts falsifies our explanation. That is in perfect accord with the genearal principle that scientific theories can be falsified, but never be proved true. Is that clear? gpuccio
F/N: JF needs to recognise that GA's START inside islands of function, and so at best explain some form of microevolutionary adaptation to niches, they do not explain origin of body plans starting with the first. That is, the fitness function has a generally uphill pointing slope of course with room for various local peaks etc. But the problem is that the vast majority of reasonable config spaces for multi component systems depending on well matched and organised parts to work, will be flat zero, non functional. There is no slope info to get one pointed right with a blind process. We don't even have the sort of neutral drift possibility in an already working entity to play with until we hit an island. And, given the complexity involved for FSCO/I, drifting is equivalent to blind random walks in the full config space. Which gets you nowhere. KF kairosfocus
Mung (and, attn, Toronto): Thanks for drawing my attention to the notion that one can build a flip flop string then use it to generate a self replicating bit string, then claim the OOL problem is settled. I have a few remarks: 1 --> "Assume a can opener." (There is an old joke about the physicist, the engineer and the economist on a desert island who have food in cans but no can opener. The economist's "solution," assume the can opener.) 2 --> Flip flops are complex circuits themselves, and must be supported by rather restrictive power supplies. That requires information locked into the functionally specific organisation based on the wiring diagram and all the way back to the components and the precise arrangement of their parts for them to work, whether valve or solid state. A rough back of the envelope assessment of just the design specification for circuits and boards, not components and how we get to these puts you well beyond 500 - 1,000 bits to get such going. (Remember, 1,000 bits is 143 7-bit ascii characters.) 3 --> Toronto knows this or should know this, so he is simply putting up misleading talking points. Sadly, as usual. 4 --> When it comes to the living cell, the origin of which is to be explained, it is not just self replication per se that needs explaining. It is what Paley referred to in his self replicating watch example as additionality -- the watch told time AND replicated itself as a thought exercise. (I find it highly interesting that we seldom if ever see objections to Paley that address his argument in Ch 2, which is where he extends his watch in a field to the self-replicating case. A glance at the linked will show that in the IOSE, I essentially begin the serious discussion of the OO cell based life challenge with this point, so to try to dismiss on self replication alone, is a strawman tactic. About par for the evo mat rhetors' course.) 5 --> Notice, it is the observed living cell that needs explanation, int eh context of that additionality. That means that origin of codes, algorithms, self replicating automata that step by step assemble key components, etc need explanation. 6 --> Even if we were to run across a molecule that by some chemical magic ran a self replicating process, we have to explain the observed encapsulated, aqueous medium, metabolic automaton that uses codes and algorithms in the process. 7 --> Which would include bridging from your suggested self replicating molecular set to the actual observed architecture, step by incremental step by processes advantageous every step of the way. And, within the available time and atomic resources on the usual models. 8 --> In addition, you are looking at a vNSR and so face an irreducibly complex entity -- which challenges any proposed bridging process by the need to simultaneously come up with a cluster of well matched components that can plausibly assemble themselves into the relevant whole. As I noted in the OOL unit at IOSE:
the observed cell -- which is what we need to explain the origin of -- joins together (i) a metabolising entity that draws in energy and materials from its surroundings and processes them, ejecting wastes, to (ii) a symbol-based coded system that allows it to replicate itself. That is, we are looking at a molecular scale von Neumann self-replicating, metabolising automaton . . . . Now, following von Neumann generally (and as previously noted), such a machine uses . . . (i) an underlying storable code to record the required information to create not only (a) the primary functional machine [[here, for a "clanking replicator" as illustrated, a Turing-type “universal computer”; in a cell this would be the metabolic entity that transforms environmental materials into required components etc.] but also (b) the self-replicating facility; and, that (c) can express step by step finite procedures for using the facility; (ii) a coded blueprint/tape record of such specifications and (explicit or implicit) instructions, together with (iii) a tape reader [[called “the constructor” by von Neumann] that reads and interprets the coded specifications and associated instructions; thus controlling: (iv) position-arm implementing machines with “tool tips” controlled by the tape reader and used to carry out the action-steps for the specified replication (including replication of the constructor itself); backed up by (v) either: (1) a pre-existing reservoir of required parts and energy sources, or (2) associated “metabolic” machines carrying out activities that as a part of their function, can provide required specific materials/parts and forms of energy for the replication facility, by using the generic resources in the surrounding environment. Also, parts (ii), (iii) and (iv) are each necessary for and together are jointly sufficient to implement a self-replicating machine with an integral von Neumann universal constructor. That is, we see here an irreducibly complex set of core components that must all be present in a properly organised fashion for a successful self-replicating machine to exist. [[Take just one core part out, and self-replicating functionality ceases: the self-replicating machine is irreducibly complex (IC).] This irreducible complexity is compounded by the requirement (i) for codes, requiring organised symbols and rules to specify both steps to take and formats for storing information, and (v) for appropriate material resources and energy sources. Immediately, we are looking at islands of organised function for both the machinery and the information in the wider sea of possible (but mostly non-functional) configurations. In short, outside such functionally specific -- thus, isolated -- information-rich hot (or, "target") zones, want of correct components and/or of proper organisation and/or co-ordination will block function from emerging or being sustained across time from generation to generation. So, once the set of possible configurations is large enough and the islands of function are credibly sufficiently specific/isolated, it is unreasonable to expect such function to arise from chance, or from chance circumstances driving blind natural forces under the known laws of nature.
9 --> Remember, this is in an origins context, so either you explain this from the warm little pond, or else you come up with an autocatalytic reaction set that uses components that plausibly form under realistic prebiotic contexts -- i.e. you better have good explanations on issues of chirality, equilibria and kinetics, concentrations, cross reactions, interfering reactions, and degradation processes -- AND that bridges to code based vNSR replication integrated with metabolism, in a suitable environment. Either here on earth in a 200 mn year window or else getting to earth from a reasonable site as well, backed up by observations. 10 --> I can freely say that no serious chance and necessity only model in the peer-reviewed literature even comes close to such. Indeed the exchange between Orgel and Shapiro a few years back shows that we have mutually fratricidal models on genes and metabolism first, with RNA world scenarios caught up in the same pattern. 11 --> In fact, the mere challenge that the observed living cell starts out at over 100 k bits of stored info for a PARASITIC form, indicates that the 300 - 500+ k base zone or 1/2 - 1 mbit of info is a probable minimum for a viable vNSR cell. The entire cosmos we observe acting across its lifespan could not be expected to come up with as much as 1,000 bits worth of functionally specific complex info for needle in haystack reasons. And every bit beyond 1 kbit DOUBLES the search space challenge. 12 --> We do however have a well known, empirically reliable source for required FSCO/I: design. Indeed, we have every epistemic right to observe that such FSCO/I is a reliable sign of design as most credible causal explanation. Those who object need to identify a counter example instead of sitting around and playing at strawman and silly definitional debate talking point games. 13 --> I hardly need to add that once we see that design is sitting at the table as of right, we then have a serious candidate indeed to explain the onward bridges to the 10 - 100 mn+ bits of info required, dozens of times over, to explain complex body plans up to our own. In short, the ideological imposition of evolutionary materialism by the back door of an alleged methodological constraint, is patently explanatorily bankrupt. Time to move on, but as a rule -- as Planck observed, truly revolutionary paradigm shifts advance one funeral at a time. KF kairosfocus
And flip-flop circuits are designed by agencies.
They are designed to do something logical using a physical mechanism. So first they need to evolve logic using only physics and chemistry. Mung
Joe Felsenstein:
I also wrote my first GA program (but did not publish that one) in about 1962, 13 years before John Holland. I did my Ph.D. degree under the guy who was the first one to make a computer model of evolution at a single gene. I am one of the few people who got to meet Nils Aall Barricelli, who in 1954 was the very first person to use a computer to model evolution.
The point, Joe, is whether your GA in any way resembled these models of evolution. gpuccio says it's possible to model evolution. He says GA's don't do so. So let's compare a GA with a model. That was all I was asking. Joe Felsenstein:
I distribute a one-locus teaching program that simulates genetic drift, mutation, migration, and natural selection.
ok, we'll have to check it out. Maybe incorporate it into a GA. You realize don't you that GA's are goal driven. They have a purpose. Evolution isn't like that. So it's a mystery how you resolve that minor inconsistency. But I'd like to find out. Mung
Toronto:
a self-replicator below the UPB means kairosfocus can no longer claim OOL is not possible without a designer.
So? If it's not over the UPB it's not dFSCI. Toronto:
a self-replicator below the UPB means kairosfocus can no longer claim OOL is not possible without a designer.
If you can program a string that can copy itself you've solved the OOL problem? Do you know where to go to collect your prize? Mung
We recognize the necessity of flip-flopping when you're a Darwinist. Mung
toronto:
The flip-flop in this analogy is used as a pattern generator which is the necessity mechanism that will build the content of a data string that we will evaluate as “dFSCI”.
And flip-flop circuits are designed by agencies. Joe
keiths:
The “no known necessity mechanism” clause just amounts to “don’t infer design if a perfectly good non-design explanation is known.”
Well, YEAH. That is how it goes in archaeology, forensics and SETI, too.
Gpuccio’s error is in assuming that if a non-design explanation isn’t currently known (to his satisfaction), then none exists and it is safe to infer design.
Thanks for proving that you do NOT understand science, keiths. Ya see science goes on the knowledge we currently have and that is why with ALL scientific inferences the knowledge of tomorrow can either confirm or refute today's science. However we cannot wait for what tomorrow may or may not uncover. We have to work with what we currently have. And what we currently have demonstrates that only agency involvement can bring about dFSCI. Not that you will grasp any of that... Joe
Joe Felsenstein:
Natural selection can be viewed either narrowly or broadly. Narrowly conceived, it is simply one class of violations of the assumptions of the Hardy-Weinberg Laws, namely the cases in which viability or fertility depends on genotype. Broadly conceived, it is the primary force which causes evolution to be adaptive, the creative and progressive element in the evolutionary process.
Are we going to find this creative force in the equations or will they just express changes in gene frequencies for genes that already exist? Mung
Joe Felsenstein:
A comprehensive theory of evolution, one which does not yet exist, would integrate ecological processes (which determine the range of environments and the fitnesses of phenotypes), developmental processes (which determine the effect of genotype on phenotype), and population genetics (which tells us the changes in genetic composition of a population when the fitnesses of the genotypes are known). Lacking the other elements of this future theory, we concentrate here on the population genetics.
Mung
petrushka:
There’s really no point in having a discussion with GP until you clear up his contentions regarding consciousness.
Well there’s really no point in having a discussion with any evo until they actually produce both a testable hypothesis along with supporting evidence for their position AND they stop with their continued cowardly equivocation. Joe
Toronto:
As a test, if I could come up with a “software string” below the UPB that could self-replicate, would this qualify as an invalidation of “dFSCI”?
Didn't E. Liddle already attempt this and fail? But no, there's nothing that prevents designers from designing strings what fall below the UPB. Think Twitter. It's pretty remarkable that after all this time you still do not understand even the UPB. You need to generate a function that is above the UPB. Mung
OMTWO:
Humans are built to predict the future.
How do you suppose they manage that, given all that randomness? Your position is incoherent. Mung
OMTWO:
Of course the absurdity is that the “designer” created the universe yet can’t do anything more in it then that which is hidden behind “randomness”.
Just like a good 'skeptic' you don't let the facts stand in your way. One might wonder how science is even possible in the face of all that randomness. Tell us, if there was a designer, what would the probabilities look like? 60/40? 80/20? What level of randomness would reveal the designer? Mung
petrushka:
I can’t get interested i the debate about design until the process of design is illuminated. Poof is not a process. Let’s see someone in the design community discuss a plausible process.
You're funny. You are completely in the dark as to the process but that's doesn't seem to stop you from engaging in the process. It follows that your internet posts just 'poof' into existence, and that 'poof' is a process. Mung
keiths:
If you can’t give me lots of information about the intermediates, I’m allowed to assume that there are none. Zero.
You have no strong evidence that this is in fact what gpuccio believes. You fail at being a skeptic. We here at UD are the 'true skeptics.' We wait until we have strong evidence that someone is a troll or a liar, and then we ban them. You're banned from UD, right keiths? Mung
And Toronto floats another brick. Mung
gpuccio:
Why do you think that we use two different words? (probabilistic and deterministic).
Because one excludes the other. Because information requires freedom of choice between options and determinism is the opposite of that. Mung
Mark Frank:
I am not a biologist and am not qualified to discuss the evidence for modern evolutionary theory although I am impressed by what I read.
Can we assume you don't believe any of it yet? Still withholding intellectual assent until strong evidence presents itself? Mung
Mark Frank:
If you only want to discuss the evidence for “darwinism” I am not your man.
Is it really too much to ask of a skeptic that they give the evidence and reasoning for their beliefs? Mark Frank:
All it [skepticism] amounts to is the demand for strong evidence before believing anything.
Anything except darwinism. Mung
keiths:
The mere existence of a known “necessity mechanism” that can produce the string is enough to disqualify the string from exhibiting dFSCI, even if that particular instance of the string happens to be designed.
No, that is false. The mere existence of a known "necessity mechanism" that can produce dFSCI means that dFSCI is not an indicator of design. So you guys are either stupid or obtuse (most likely both). Joe
toronto:
Is this why “necessity mechanisms” are ruled out?
As I have told you several times already, necessity mechanisms have been ruled out because all observations and experiences demonstrate they are not up to the task. Obvioulsy you are just too dense to have that get through to you. Joe
Toronto: Pardon, but 5 marks off. While the control mechanism for a D latch is indeed based on mechanical necessity, its response to input states is such that it stores two possible data states, and is therefore a contingent logic element. (One of the classic three: RS, D and JK.) Set up 504 in a chain with separate data feeds. It would be possible to store random info in them, by various means, but it is also possible to store intelligently designed data. Indeed, let's put coherent ASCII text in English. If you were to see 504 D latches with the ascii text for the start for this post in them, you would not need to ask, you would conclude with practical certainty that the info was intelligently fed in. This is because the number of configs that correspond to such a specification, will be vastly outweighed by the number that would be nonsense, and in addition, the resources of the solar system -- our practical universe -- would be such that we could not reasonably expect to find such on chance. All of which has been pointed out over and over and over in sufficient cases that it is patent that it is not adequacy of showing why dFSCI is a reliable sign of intelligence that is the problem, but rejection because the consequences in another relevant case are so immense and adverse to a favoured materialistic view of origins. Please, think again. KF kairosfocus
Mark: You move from irony to sarcasm! Only occaionally. I definitely prefer irony! But I don’t see how it relates to my comment. I was declaring my prior beliefs and I emphasised that they were not something you could deduce from evidence. You respond by mocking my use of evidence in unrelated questions – very strange. The point should be as follows: You say: "YOUR PRIOR BELIEF IS THAT THERE IS A DESIGNER WITH THE APPROPRIATE MOTIVES AND ABILITIES. MINE IS THAT NOTHING IS PROVEN ABOUT THERE BEING A DESIGNER OR NOT." But that is not really consistent with your previous discourses. You previous argument, if I remember well, is that the existence of "a designer with the appropriate motives and abilities" is so unlikely that you refute the design inference. Now, that is not exactly compatible with affirming that your belief is "that nothing is proven about there being a designer or not". If you consider the existence of a conscious designer of life so unlikely, you are not "agnostic" at all about the issue. Strangely, my position was more "agnostic". I can happily agree that "nothing is proven". That's exactly why the design inference is valid, and cannot be refuted on the Bayesian basis that a designer is commpletely unlikely. If nothing is proven, a conscious designer of life can exist. The design inference points to that designer, and is a valid argument for its existence. My a priori conviction that non conscious designers exist is not necessary to my design inference, but certainly is no reason to refute it. Your a priori conviction that a conscious designer of life is extremely unlikely, instead, is absolutely necessary for your Bayesian refutation of the design inference. That's why I insist that our positions are not symmetrical, and that yours is more based on personal faith. Anyhow, having told you my prior beliefs, I am interested to know whether you admit that the ID argument is not valid unless you have a prior belief that there is a designer with the appropriate powers and motivation i.e. ID is not evidence for such a belief. As I have tried to explain, my point is that the ID argument points to a designer with the appropriate powers and motivation, and does not require a prior belief in that designer. It certainly requires that we are available to accept that such a designer can exist. On the contrary, your refusal of the ID argument critically depends on an explicit a priori conviction that the existence of such a designer is extremely unlikely, as shown by your Bayesian argument. gpuccio
Mark (cont): It seems to me that the other conditions – complexity and non-compressibility – just rule out special cases of deterministic explanation (where selecting a string at “random” from all possible strings is one kind of deterministic explanation). I don't agree. It is a reasonable probabilistic explanation, if the probabilities of the event are acceptable. But it is not a deterministic explanation. Why do you think that we use two different words? (probabilistic and deterministic). That still leaves some uncertainty over the phrase:“no known deterministic explanation”. And if you conflate different terms, the uncertainty can only grow. The majority of people in our society at this time cannot conceive of even the outlines of a deterministic explanation. (B) Yes, if we mean "deterministic" with "deterministic". The probabilistic explanation is ruled out by an evaluation of the probability of the event, not by what the "majority of people in our society at this time" can or cannot conceive. So, A would be: “In the case of digital strings with a function, if the information linked to the function is compllex enough to exclude empirically a porbabilistic explanation, and if there is no known deterministic explanation why the string should happen to have a configuration that performs that function, then you can infer design”. (A) Why must you people always change my definitions, and then criticize your version of my definitions as though it were mine? And B becomes: "The functional information in the string is too complex to be explained by a probabilistic explanation, and the majority of people in our society at this time cannot conceive of even the outlines of a deterministic explanation." (B) And I “prove” (whatever that means) (A) mainly by pointing out that there are: lots of strings for which the functional information is too complex to justify a probabilistic explanation, and there is no known deterministic explanation, and which are known to be designed – sonnets and such like there are no instances of strings for which the functional complexity is too high to justify a probabilistic explanation, and there is no known deterministic explanation, which are known to have a non designed origin (not "explanation") (this is definitely non circular) For obvious reasons neither of these prove much! Not in your version, obviously. There is a digital string with no known deterministic explanation and the explanation is not known then later the explanation becomes known (C) I still can't see the great difference between this case (which is possible) and all the cases (which are very common) where the origin is known, but not to the person who assesses dFSCI. And again, there is a difference between knowing "a credible explanation" and "the origin". You make a lot of confusion between the two things. We can know the origin of something, and still we may not be able to explain how it came into existence. For instance, we can observe the origin of something in our lab, repeatedly, and still not know the explanation of what happens. And we can have a good explanation fro something, and yet the origin could be different, and our explanation, although good, could simply not be true. Now, the point is: if we correctly (and blindly) assess dFSCI for a string, and we can prove (before, at the same time, or after) that the origin is not designed, that falsifies dFSCI as a design indicator. In the same way, if we correctly (and blindly) assess dFSCI for a string, and we can prove (before, at the same time, or after) that some necessity explanation can really explain that string (not that its origin is non designed!), that falsifies dFSCI as a design indicator just the same. But the two situations are different. Given your reluctance to pursue hypothetical examples the alternative was the game we played. We try to construct examples of strings where you can’t conceive of a deterministic explanation but we know of one. It is not exactly the same as (C) but is close. This proves to be hard because you can raise the bar of “cannot conceive of deterministic explanation” very high. Perhaps the best example was the London temperatures. I described how to generate a digital string that could be used to tell you whether London temperatures were higher or lower than average. You dismissed this because the string could have been copied from the pattern of temperatures in some undefined way. Basically we have to think of a way that digital strings can be determined that you could not possibly conceive of in even the vaguest way – quite a challenge. Challenges need not be only for me. Maybe that is quite a challenge simnply because it is impossible... Again, try to find a mechanism that writes sonnets... There are other problems – even if the test cases flowed and they always resulted in a designed explanation I would stick to my guns that you cannot rationally transfer a correlation like this in one domain (man-made digital strings) to another (molecular digital strings) without understanding why the correlation happens. Well, this is more interesting. In a sense, we don't know how design can do waht nothing else can do. But we have some clues.Design acts by transferring conscious representations to a material object. Only design can do that, because that is the definition itself of design. So, the mystery of design is intrinically connected to the mystery of consciousness. And of its main properties: meaning, purpose, choice. Desing is essentially that; understanding meaning (something that no "natural process" can do); representing and desiring some result (something that no "natural process" can do); and choosing the right actions to implement that result (something that no "natural process" can do). As Abel says, design is realized by choosing a specific state for those "configurable switches" whose state can be set indifferently by natural mechanisms. That is the crucial difference between random strings and designed strings: both share similar formal properties (high complexity, no law-like regularity); from the point of view of Shannon "information" we could never distinguish the two categories. The only difference is: the "apparently random" arrangement in the designed string serves a purpose, usually easy to be recognized (language conveys meaning, software does useful things, proteins do useful things). Who recognizes that purpose? Only conscious beings. So, the circle is closed. Design starts in consciousness and ends in consciousness. It is the mark of consciousness on matter. So, we can have some understanding of why dFSCI can be found only in designed strings: it is a peculair output of conscious processes. That's why I always asay that a design inference does not necessarily imply "human designers", but it certainly implies "conscious designers". PS No a priori principles or worldviews were used in the construction of this argument! I like this disclaimer. I hope you are being ironic here! :) gpuccio
Mark: I disagree and that is what I have tried to explain. I know. That is partly true. There is a rational process for inferring design and you might rationally come to different conclusions depending on your a priori beliefs about reality. However, these rational processes are not ID theory as usually expounded and do not include the argument from dFSCI. I am trying to explain why that is so I disagree. But maybe I am just obtuse. Also, we should not hide the requirement for those prior beliefs in order to make that rational deduction. They are prior beliefs, not something that you can deduce from the evidence. Your prior belief is that there is a designer with the appropriate motives and abilities. Mine is that nothing is proven about there being a designer or not. But, obviously, you lot do not rely on your prior beliefs, but only on evidence! You rely on evodence when you believe that consciousness is explained by some material arrangement. You rely on evidence when you believe that OOL happened in a pool, or an ocean vent. You rely on evidence when you believe that protein domains emerged in spite of all probabilistic evaluations, through selectable intermediates of which there is no evidence. How is that called? Evidence based imagination? Well of course I don’t accept they are valid scientific theories so I can’t try to falsify them at the scientific level. Your choice. I don’t think I have ever argued dFSCI is not politically correct! That was just irony! I know, I know, many do not understand my irony :) I believe there are deep methodological problems with your argument from dFSCI independent of evolutionary theory. As someone with a philosophy of science/statistics background I am vaguely qualified to discuss that. Well, we have certainly tried... I am not a biologist and am not qualified to discuss the evidence for modern evolutionary theory although I am impressed by what I read. Maybe if you were a biologist you would be less impressed. As a medical doctor, and more simply as a thinking person, I am not. (Well, I am impressed, but in a different way... but that could be irony, let's avoid it). If you only want to discuss the evidence for “darwinism” I am not your man. Well, some "my man" is sorely requested. (The evidence for darwinism is sorely requested too... ah, no, not irony again!). If you are at all interested in perceived methodological problems with dFSCI then I am interested to do my best to explain them. If I must be really sincere, I cannot see any methodological problem with dFSCI. Not before your arguments, not after. But again, maybe I am just obtuse. I know I have tried it many times but there are always new ways of putting the problems. I know, possible necessity mechanisms and possible arguments can always happen in the distant future... (irony?) gpuccio
Toronto: I fully leave the responsibility of convincing you to Keiths. I have lost any hope. gpuccio
Toronto:
In one case the origin is “you”, a designer, and the other case it is a “D flip-flop”, a necessity mechanism. If your claim is that it might be due to design or it might be due to a necessity mechanism, you’ve already said enough, which is that a certain information-rich string, can be due to a “non-design mechanism”. gpuccio’s “dFSCI” attribute , is withheld from strings that in all other respects, would be classified as “dFSCI” if their origins, i.e. how they came to be in the bit configuration that we observe, were not considered.
I withdraw my accusation of lying and apologize. You are really mentally confused. gpuccio
Keiths: Even setting aside his tendentious interpretation of the data, the logic is laughable. He is saying, in effect, “If you can’t give me lots of information about the intermediates, I’m allowed to assume that there are none. Zero.” I must object, just because I don't want any misunderstandings with my strict collaborators... I am not saying that. What I am saying is that if Joe Felsenstein really wants to model NS, he needs to know more or less how often NS can happen, and if it can happen in a way that leads to complex information. That means that he needs to know if those intermediates exist. Now, as at present none is known, I am not saying that everybody must assume that there is none (I personally assume that, but I can understand that you will assume differently). I am simply saying that Joe Felsenstein cannot model the true role of NS in biology. He can certainly model what would happen ifthe intermediates really existed, inventing not only their existence, but also their number, complexity, probability, selectability, and anything else he likes. But it would still be pure invention. Just to quote you, simply useless :) . gpuccio
Keiths: The difference between dFSI and dFSCI is that every functional string has some value of dFSI, large or small, but a string only has dFSCI if 1) the dFSI is greater than a threshold that is computed based on the system and time span in question, and 2) no known “necessity mechanism” can explain the string. The first qualifier excludes strings that could conceivably have been produced by pure random variation within the allotted time, and the second excludes strings that could be produced by unguided evolution and other known “necessity mechanisms”. Correct, again. You can come for your due wage, at the end of the month. gpuccio
Keiths:
That’s not correct. Criterion 1c doesn’t refer to the origin of the string, it refers to explanations of the string (hence the word “explains”). Gpuccio is certainly off base in accusing you of lying, and he has done a poor job of explaining himself, but he does draw a distinction between origins and explanations that you seem to have missed.
That is correct, thank you again. Maybe I am off base in accusing Toronto of lying. Maybe I should accuse him only of superficiality, arrogance, not reading what others write, inventing things one has never said, and similar. I am waiting for a clarification from him about his real motives, then I could probably change my accusations... I should probably limit the accusations of lying only to intelligent people like you, who have demostrated that can understand what is said. (When those intelligent people do lie, obviously :) ) gpuccio
Toronto: gpuccio should have one term, “dFSCI”, for the configuration of a string which is independent of origin, and a separate one when determining the means by which that string was generated. You must be kidding. Of course I have two separate terms. dFSCI is the term for a property that can be assessed without knowing anything of the origin, and that allows empirically to infer a design origin. The name for an object whse originn is design is "designed object". Very simple, and you can find it in my original definition of dFSCI. This is the frustration that always comes up when talking with IDists, and that is that they somehow assume we must know what they mean by their own unique terms, even as we ask for clarification. Strange! I only assume that, when I have clarified one thing, I should not be asked to clarify it again one thousand times, and people who have recieved the many clarifications sould not act as if I had never clarified that thing. I suppose that is the frustration that always comes up when talking with neodarwinists... As far as gpuccio’s “dFSCI” goes, a string that does not seem to be generated by a random process but can be generated by any “non-design mechanism” such as a “necessity mechanism”, simply means that the “search space” for that mechanism is of a non-random distribution, as it is for design. This is really one of the most cryptic phrases I have ever read. Or it just means nothing! gpuccio
Toronto: You, ..gpuccio…, will not assert “dFSCI”, …meaning you will withhold your “dFSCI” label, from a string, not because the string is not functional or complex enough, but because of its origin, i.e how the string “came to be”. What would that explain? My post #635 remains perfectly valid. It is not true that I withold anything because of the origin. I have always said very clearly that the assessment od dFSCI does not depend on any knowledge of the origin. That is clear even in the phrase you quote. So, either you are a liar or you don't understand. I let the choice to you. Either you apologize for being a liar, or you apologize for not understanding what has been clearly stated and yet arrogantly misinterpreting it and criticizing what has never been said. Let me know... gpuccio
Alan Fox: I’m hoping it will catch on. A bit like dFSCI for FSC. You are a little late for copyright money: NS is an old trademark! :) At least, me and Durston are almost contemporary defenders of a minority theory, despised by all... Leave us at least the satisfaction of choosing our private acronyms! gpuccio
Alan Fox:
Just trying a new description for the process often referred to as “natural selection”.
A new name for a process that doesn't do anything?
Waddayathink?
Why not just call it snake oil? (at least FSC/ dFSCI pertains to stuff that actually does something AND it differentiates between Shannon information and information that actually does something) Joe
What “environmental design”? What is your evidence tat teh environment can design? Or are you just so desperate that you will say anything?
Just trying a new description for the process often referred to as "natural selection". I'm hoping it will catch on. A bit like dFSCI for FSC. Waddayathink? Alan Fox
gpuccio:
Anyway, I would appreciate a link to your free ebook.
Joe F provided the following link: Theoretical Evolutionary Genetics Mung
Mark: 1) An explanation is more than just knowing physics, biochemistry, probability and so on. You can be an Einstein in all of these and fail to realise how they apply to a specific situation. A world’s best geologist may not understand why a particular earthquake happen in a specific pattern. Someone less expert may be aware of a particular fault line that is the cause or have a flash of inspiration as to how the pattern might have occurred. This is nothing to do with failing to apply the dFSCI procedure properly. It is simply one person knowing there is a necessity mechanism and another not. Mark, your "arguments" have nothing to do with the simple fact that the dFSCI procedure empirically works. If it were so difficult to apply the necessity clause to real strings, you guys would have already won the challenge. That is the simple truth: it works. How are you so sure that no necessity mechanism can generate Sakkespeare's sonnet? Just ask yourself that. You could apply all your sophisms to that case, and argue that someone could be aware of a necessity mechanism. But you will never believe that. Neither will I. 2) You want to extrapolate the results of applying dFSCI from the world of man-made digital strings such as computer software and written text to molecular strings in life. This is a massive jump. That is why it is relevant to consider whether the procedure would apply in other widely different situations where we know the origin e.g. thousands of years ago. It is no massive jump. It is a very natural inference. Biological strings do appear designed. To anyone, even Dawkins. dFSCI, and the ID theory, give us an explicit justification of what is an obvious truth. The simple fact, if neither of us wants to lie to himself and to the other, is that such a natural inference has deep implications for a general view of the world, of what is real, and of how it is real. Your commitments make you extremely reticent to accept the inference. I can accept that. As you should accept that for my world view, the inference is the most natural thing of the world. So, can a scientific inference depend so strongly on one's world view? Yes, it can. As I have said, science is not the place for absolute truth. It has limitations, and it always depends on one's general view of reality. And still, science has important elements that can be shared. In this case, I would simply say that you guys should accept: a) That ID and dFSCI are valid concepts and valid scientific procedures. b) That the inference of design for biological information has deep general philosophical implications, and that therefore it is perfectly natural that some will accept it, and others will not. Neither the acceptance nor the refusal depend on those people being "less scientific" or "less rational" than the others: it depends on what they can accept as real. c) That ID and dFSCI, being valid scientific theories, can be falsified. And you, who cannot accept them, should fairly try to falsify them at the only correct level, the scientific level. d) That the simplest way to falsify the ID inference at the scientific level is to give some credibility to your alternative theory, neo darwinism. Which is, by the way, the only alternative theory available. So, do your work, find logical and empirical support for your theory (because, believe me, at present it is completely lacking both those things). IOWs, stop inventing false reasons why dFSCI is circular, is useless, is wrong, is not politically correct, and other similar nonsense. And do the only work that can work: demonstrate that your theory is not a myth. I know, that is really impossible, but... at least try! :) gpuccio
Joe Felsenstein: I have a free online e-book which is the text for my course. Perhaps gpuccio can read chapter II (Selection) and tell me where the equations go wrong and what would be better ones. I can tell you where the problem lies without reading your books. There is probably nothing wrong in your equeations. There is everything wrong in your reasoning. To model NS, you need to know the probability of having, in a biological context, something on which NS can act. IOWs, naturally selectable intermediates. As the context I have been discussing is the generation of new dFSCI, such as the emergence of new protein domains, any chance to model NS for that context is to have some evidence of the naturally selectable intermediates, of their number, complexity, probability of being generated by RV. At present, the number of naturally selectable intermediate for that context is easy to determine: zero. Therefore, their complexity is not knowable, and so their probability. IOWs, the only realistic model of NS is to attribute to it no role at all. So, the equations become really easy. Anyway, I would appreciate a link to your free ebook. It could probably be a good text about intelligent selection... gpuccio
Allan Miller: Since GP rejects all models of evolution due to their inevitably being non-’natural’, it is hard to see how anything other than a very long wait could meet his stringent criteria. Again, that's wrong. Please, check my answer to Joe Felsensteing in post #345: "For GAs, I have explained that we could model RV and NS with a GA (I have also suggested how Lizzie’s algorithm could be chabged to apèproach such a result). The simple fact is that existing GAs do all expcept modeling NS." gpuccio
Toronto: I may be tired of your nonsense, but I will not accept explicit lies.
"d) All strings that exhibit high regularity and compressibility should not be considered as exhibiting dFSCI, just to be cautious. Those output can be very likely explained by necessity mechanisms." There is the confusion. If a), b) and c) are all true, you withhold asserting “dFSCI”, until you examine how that string was generated according to gpuccio. So Joe will accept “dFSCI” with no consideration of origin and gpuccio won’t.
You lie. Where do I say that "you withhold asserting “dFSCI”, until you examine how that string was generated"? Why do you attribute such a silly statement to me? ("according to gpuccio"!) As anyone (except maybe you) can read and understand, what I said (and you quoted) is: "All strings that exhibit high regularity and compressibility should not be considered as exhibiting dFSCI, just to be cautious. Those output can be very likely explained by necessity mechanisms." Now, I ask you to answer cleraly to my request: where am I speaking of "examining how that string was generated"? I am not. So, you are simply lying about me. Which is not a good thing. I just said: a) that strings that exhibit high regularity and compressibility should not be considered as exhibiting dFSCI b) that the reason for that caution is that they can be very likely explained by necessity mechanisms (emphasis added). No mention of "examining how that string was generated". No mention at all. So, I publicly ask you to apologize. gpuccio
omtwo:
In the past when I’ve asked how to calculate dFSCI I’ve been told that Durston has done it already so go read his work. I suspect the reason for the invention of further terms is related to the conclusion:
For future extensions, measures of functional bioinformatics may provide a means to evaluate potential evolving pathways from effects such as mutations, as well as analyzing the internal structural and functional relationships within the 3-D structure of proteins.
Nothing there about “Therefore Design”. So they have to invent it.
And nothing there about "Therefor the blind watchmaker". So evos have to invent it. Joe
Mung: I thought you said natural selection was deterministic. Allan Miller:
I don’t think anyone, least of all a mathematician, makes that claim.
Allan Miller, meet Jerry Coyne: Jerry Coyne sez:
A brief correction first: natural selection is not a “random process.” It’s a process that combines the random production of mutations with the deterministic process of natural selection itself. I hope he understands that.
And natural selection is non-random only in the sense that if you have differential reproduction due to heritable random variation, then you have natural selection. It still doesn't do anything. Joe
Alan Fox:
Unless you mean gpuccio has used the EF successfully to distinguish “intelligent design” from environmental design in a real biological example somewhere else?
What "environmental design"? What is your evidence tat teh environment can design? Or are you just so desperate that you will say anything? And Alan, YOU need to talk about why your position cannot account for proteins, let alone FSC or dFSCI. Joe
Oops Just to correct my error in comment n° 630. FSC stands for "Functional Sequence Complexity"! Alan Fox
PS remember gpuccio has confirmed dFSCI is the same as Durston, Abel and Hazen's FSC (functionally specific complexity) so we only need to talk about FSC from now on. Alan Fox
mung quoting my comment to KF
To date, despite the manful attempts by hard-working commenters like Sal Cordova, Joe and mung, I never got a satisfactory reply. Do you think you can successfully use the EF?
You forgot to mention gpuccio. What do you think his dFSCI is an implementation of. So it’s been used, successfully, and you know it.
Gpuccio did not participate in the ARN thread so your comment makes no sense. Unless you mean gpuccio has used the EF successfully to distinguish "intelligent design" from environmental design in a real biological example somewhere else? In which case... Let's see that! Alan Fox
Allan Miller:
Since GP rejects all models of evolution due to their inevitably being non-’natural’, it is hard to see how anything other than a very long wait could meet his stringent criteria.
A blatant lie. Mark Frank:
I am as guilty as anyone, but I propose we try hard to resist the temptation to make personal comments
You're more guilty than most. Allan Miller just uttered an absolute falsehood, which you know to be false, and you said nothing. Mark Frank:
That is what distinguishes TSZ from AtBC and UD.
Yes, pride yourselves on the dearth of personal attacks. Yet you claim to be skeptics, and allow falsehoods to go unchallenged, unless they are uttered by a "non-skeptic." Mung
Toronto:
You should be more humble Mung
Are you asserting that I OUGHT to be more humble? Mung
Toronto:
Just to be sure, are you agreeing with Joe and myself, that “dFSCI” is not dependent on its origin?
You didn't answer my questions: Since you understand so well, why do you pretend in other places to be so confused? Is it due to the “necessity clause”? If so, where do you think the “necessity clause” enters into the analysis, and why? Is it in (1) or (2)? Here's another question for you to ponder: Were you dependent on your origins? Mung
Joe Felsenstein:
It is quite common for ID commenters to argue that it is not possible for evolutionary forces such as natural selection to put Functional Information or Specified Information) into the genome.
In what sense is natural selection a force? I am going to assume that "natural selection" can only operate according to that which is already present in the genome, and it does not "put" anything at all into the genome. If it is in fact the case that "natural selection" does not "put" anything into the genome, it of course follows that it cannot "put" Functional Information or Specified Information into the genome. Joe F., as a true skeptic, should be able to explain why I am wrong, and provide strong evidence why he is right. Mung
Joe Felsenstein on November 21, 2012 at 2:53 pm said:
I have some history with genetic algorithms too: I also wrote my first GA program (but did not publish that one) in about 1962, 13 years before John Holland.
I'm impressed Joe, really. Post your source code.
I did my Ph.D. degree under the guy who was the first one to make a computer model of evolution at a single gene.
Post the source code. Let's see how close your GA was to the model.
I am one of the few people who got to meet Nils Aall Barricelli, who in 1954 was the very first person to use a computer to model evolution.
Fantastic! Post the source code. Post your unpublished paper that shows how your GA employed an actual model of evolution.
I was an invited speaker at an artificial life workshop at the Santa Fe Institute.
Congratulations. What do you know of artificial life? Did you present a paper? Was it published?
I distribute a one-locus teaching program that simulates genetic drift, mutation, migration, and natural selection.
In your teaching program, what is it that natural selection GENERATES?
This program simulates the evolution of random-mating populations with two alleles, arbitrary fitnesses of the three genotypes, an arbitrary mutation rate, an arbitrary rate of migration between the replicate populations, and finite population size.
YIKES! Arbitrary overload! I thought you said natural selection was deterministic. Could you please, in your spare time, explain the meaning of arbitrary to onlooker? Mung
<a href="http://theskepticalzone.com/wp/?p=1450&cpage=3#comment-18023"Toronto on November 21, 2012 at 1:50 pm said:
Unless I am mistaken this is the way the process should work: 1) Assess the string for digital content that represents specific functionality and complexity. 2) If above a threshold measured in bits, assert that the string has “dFSCI”.
Very Good! Since you understand so well, why do you pretend in other places to be so confused? Is it due to the "necessity clause"? If so, where do you think the "necessity clause" enters into the analysis, and why? Is it in (1) or (2)? I am going to give you a HUGE hint. Complexity. Mung
Toronto:
On a computer motherboard, I cannot mix 3.3V and 5V devices
Sure you can.
... because a voltage level that is logically high for one device might not be for another, and there is no guarantee the device will actually survive the mismatch without being stressed to the point of failure.
That doesn't prevent you from mixing them. Again, you fail basic logic. But you're confusing the physical with the logical. Who or what decides that a physical 3.3v means "high" or that a physical 5v means "high"? What law of physics? Which natural law? That's right. There is none. That's right. You and all your "skeptical" friends missed the basic facts and evidence. You're not skeptics. You're Ideologues. Mung
Toronto:
Computers at the physical level operate with electrical charges on gates and current flow. Biology does the same at the physical level as there are chemical processes involved.
Let me see if I have this right. Chemical and electrical are interchangeable. And logic gates? Where do they come from? Biological organisms employ logic gates in the same manner as computers, except biological organisms use chemicals? Is that what you are saying? Mung
Toronto:
“dFSCI” must not be dependent on its origin, period.
You make no sense. According to you, what is the origin of dFSCI? According to gpuccio, what is the origin of dFSCI? Mung
Mark Frank:
Not sure this is entirely fair. There are two stages to the ID argument: 1) Evolution can’t explain life.
Evolution can explain life, if it is guided by a purposive intelligence. Mung
Toronto:
Have you changed your mind?
Do you have a mind that can be changed? Mung
Allan Miller:
I would encourage Mung to write a GA. It’s an interesting programming task, and may be instructive in terms of gaining an understanding of what faithful representations of evolutionary mechanisms do to populations of replicating strings. The relevance of it to biological considerations may (or may not) become apparent as part of the process.
I did write one. People at TSZ were not impressed. :) But I'm still willing. Would you or anyone else there like to present a programming challenge involving a GA? I can publish my code online and we can discuss it openly. I am completely open to it as a learning experience.
If you don’t or won’t understand the evolutionary process, you are in a position neither to critique it as an explanatory mechanism, nor to declare it incapable of functioning as a ‘necessity mechanism’ alternative to active string design.
The debate is over whether GA's accurately represent the evolutionary process. Take Elizabeth's GA. Her strings had a pre-defined function, and she selected them based on how well they performed the function. So hers was an optimization problem that she was trying to solve. Is that your understanding of evolution? It's simply an optimization strategy? That cannot be. Optimization is goal seeking.
Start with strings of zero length, and keep tabs on descent from a collection of such null-strings numbered 1 to n. This is NOT an analogue of a DNA string of zero length, nor the OoL, it is an analogue of a replicator that can do no more than merely replicate, no better or worse than any other. Copy and kill them at random … and one of them will become the ancestor of all, guaranteed.
What does this have to do with natural selection? How does this explain functionality and the appearance of design?
Then introduce methods that add and change bits, recombination, and internal duplication of string segments and a fitness function operating on these now non-null bits of ‘extra’ string.
I can simply add those methods, I don't need to evolve them? How would that intervention be discernable from goddidit?
You are randomly patterning your replicators, introducing non-critical function which nonetheless affects fitness differentially. Your strings adapt to the prevailing conditions, as if designed to fit.
How does one introduce non-critical function without design? Without some sort of design decision, why should that non-critical function affect differential reproduction? Mung
Joe Felsenstein:
At forums like UD you see repeated assertions that if we find CSI (or something), that there is no way that this could have been put into the genome by natural selection.
Meanwhile, over at forums like TSZ, we have posts by actual educators [paid by the state?] in which they assert that things are put into the genome by natural selection. Is that what you teach your students Joe? Do you teach that natural selection is the "creative force" that makes a Creator unnecessary? And the strong evidence that you offer consists of? You're no skeptic. Is anyone posting at TSZ a real skeptic? I hear you banned the only true skeptic to show up there. Mung
Allan Miller chokes:
Since GP rejects all models of evolution due to their inevitably being non-’natural’,
That is incorrect. We reject the alleged models because you cannot model what you do not understand. And you do not understand biology enough to model biological evolution. Not only that Intelligent Design is OK with evolution. Intelligent Design says that organisms were designed to evolve and evolved by design. That said, when AVIDA is given realistic parameters the model of evolution bites it- meaning it does not do what you require and actually does the opposite. Joe
And omtwo admits it needs to get a life:
What amazes me is the continued absence of Dr Dembski from UD and the continued absence of any question as to why from any UDite.
To be amazed by something as mundane and uninteresting as that seals the deal on omtwo being a tosser and a wanker. Not necessarily in that order. Joe
Joe Felsenstein:
At forums like UD you see repeated assertions that if we find CSI (or something), that there is no way that this could have been put into the genome by natural selection.
That's correct. And there are at least two reasons why it is the case. 1. Natural selection doesn't "put things into the genome." At best it can only preserve or eliminate what is already there. For something to be "selectable" it must already exist. 2. If natural selection is a deterministic mechanism, as you claim, it cannot create information. Mung
And check out the egotard- he really thinks he invented "BWAAAAAHAHAHAHAHAHAHAHHAHAH" This is the sort of egotard it takes to be an evo. Richie "cupcake" Hughes, the Al Gore of "BWAAAHAHAHAHAHAAHAHAHAHA" Joe
Joe Felsenstein, still clueless:
At forums like UD you see repeated assertions that if we find CSI (or something), that there is no way that this could have been put into the genome by natural selection.
Except it isn't an assertion. That is based on all of our knowledge of cause and effect relationships. Why do you guys try to blame us for your position's lack of supporting evidence?
The UD commenters have not realized that since Dembski’s Law of Conservation of Complex Specified Information collapsed,...
Collapsed under your tremendous girth, no doubt. Is that what you mean, Joe? Or are you still fantasizing? Joe
Joe Felsenstein:
I am waiting for some theoretical framework (equations, simulations) showing that dFCSI cannot arise by natural selection.
Keep waiting. Nothing arises via natural selection. Natural selection is a filter. It keeps or rejects certain organisms that have already arisen. Mung
Alan Fox:
To date, despite the manful attempts by hard-working commenters like Sal Cordova, Joe and mung, I never got a satisfactory reply. Do you think you can successfully use the EF?
You forgot to mention gpuccio. What do you think his dFSCI is an implementation of. So it's been used, successfully, and you know it. Mung
kairosfocus- Seeing that von Braun was a Creationist, they probably reject rocket science. :roll: Joe
PS: It is not exactly rocket science to be able to see that digital strings are real, and that once we deal with above 500 bits or equivalent, we have more possibilities than the atoms of our solar system can reasonably explore to find deeply isolated and narrow zones by blind processes. In context, the high contingency of digital systems -- obvious for codes for different proteins -- eliminates blind necessity. Blind chance or chance and necessity run into the needle in haystack challenge, here the haystack as discussed is 1,000 LY ON THE SIDE AND YOU GET ONE CHANCE TO PICK A ONE STRAW SIZED SAMPLE. On billions of observed cases -- start with the Internet -- dFSCI is observed reliably, routinely and without exception, to come from intelligence. In the case of GA's and the like, they all start WITHIN islands of function -- cf the fitness function and its useful well behaved slope, and proceed based on intelligently designed search and selection procedures that use carefully metered out chance variations to search within the island. Not a counter-example, but another example on the point. In this light we have a confident inductive inference that dFSCI is a reliable observable sign of design. The problem with cell based life is not that this is contradicted by observed cases, but that such an inference runs counter to deeply entrenched institutionally dominant ideology. If you doubt me on this, kindly provide an empirically warranted detailed, and widely accepted summary of OOL by chance and or necessity only in a warm little pond or the like. Similarly, for OO body plans. Indeed, there is a still open 6,000 word essay challenge unmet since Sept 23rd. kairosfocus
AF: Why not simply read here on in context? Your question has been directly and even trivially answered any time someone points to the dFSCI involved in D/RNA and proteins, once reasonable complexity is involved, as obtains with ALL observed life forms, from about 100 k bases on up. But then, I see where some on your side are now struggling to accept that the D/RNA code is just that, a digital symbolic, info-carrying code, familiar to anyone who has had to deal with a register level view of a significant digital system. This speaks volumes, none of it to your side's good. KF kairosfocus
Clueless Joe Felsenstein:
I am waiting for some theoretical framework (equations, simulations) showing that dFCSI cannot arise by natural selection.
That is based on all observations and experiences. Meaning YOU need to step up and demonstrate that natural selection can produce dFSCI. The GAs you are so proud of, start with the dFSCI that needs explaining
Lacking that, I don’t find dFCSI of any use.
It is obvious that natural selection isn't of any use except to desperate evos who will use it to fool the fools. Joe
Alan, That all depends on how you define "succesful". I say it has been done for biological organisms and to date neither you nor anyone else on this planet can produce any evidence to teh contrary, ie that blind and undirected processes can produce a living organism from inanimate matter. As I said the EF is a process that ensures that the investigator follow Newton's four rules of scientific investigation. That is all it is. And as a matter of fact everyone who conducts an investigation needs to use it to conduct a proper, scientific investigation. So I don't see what your issue with the EF is. Anyone with any interest in science should be able to see that it is as I say. So what is your problem with the EF? How do you think investigatirs determine the cause of the effect they are investigating? Joe
@ kairosfocus You link to a version of Dembski's explanatory filter. A while ago (over seven years), I asked a question at ARN forum:
Can anyone point me to an example of the successful application of the EF to a biological system?
To date, despite the manful attempts by hard-working commenters like Sal Cordova, Joe and mung, I never got a satisfactory reply. Do you think you can successfully use the EF? Alan Fox
Joe: Inter alia they seem to have problems correctly interpreting a simple flowchart. That speaks volumes. KF kairosfocus
Mark Frank:
There are two stages to the ID argument: 1) Evolution can’t explain life. 2) Therefore life was designed.
Nope, nice strawman though. Geez it's as if these alleged "skeptics" are just a bunch of willfully ignorant children. Joe
LoL!: Joe Felsenstein:
gpuccio does not have any mathematical theorem showing in a model of evolution that dFCSI cannot arise by natural selection
Have archaeologists put forth a mathematical theorem that says natural processes cannot produce Stonehenge? No. Joe Felsenstein seems to be totally ignorant of science as he does not understand that his position requires POSITIVE evidence. Earth to Joe Felsenstein- YOU need positive evidence that natural selection, for example, is up to the task. Joe
Alan Fox:
Well, if that’s so, why on Earth use another term?
They are not exacty the same.
Do you think Durston or you have the means to predict the functionality of proteins not yet existing in vivo or in vitro?
Why is that required? AGAIN functionality is an OBSERVATION. We make an OBSERVATION that something is doing something, ie functionality and then via science we try to explain how it came to do that. And Alan, if you had any evidence, any evidence at all, tat unguided evolution could produce functioning proteins, you would post it. That you haven't posted it proves that you have nothing. Joe
Gpuccio writes:
The problem, in a nutshell, is your quote mining.
In practice, the sequence space for possible novel functional states may not be known.
It's a simple statement of fact. What you quote that follows does not alter the meaning. Do you think Durston or you have the means to predict the functionality of proteins not yet existing in vivo or in vitro? A quote mine is selective quoting to alter the meaning that was intended. Not seing how I have done that. Alan Fox
dFSI and FSC are the same thing. Durston’s procedure is an empirical way to approximate the value of dFSI.
Well, if that's so, why on Earth use another term? Just to be clear, Durston's FSC and your dFSCI (and now you are using dFSI)are identical concepts? Now Durston builds on Hazen. The Hazen paper is very clear and easy to follow. FSC is a measured property arrived at by comparing the degree of function that, say, a particular protein sequence has at a specific task such as catalyzing a particular reaction. Functionality can be expressed as a rate of enzymic activity that can be compared. There is no question of drawing any inference about the origin of the sequence or its rarity in this process. Durston is less clear. Alan Fox
Alan Fox: But there is no mention of dFSCI in the paper. Is it claimed that dFSCI and FSC (functional sequence complexity) are the same concept? dFSI and FSC are the same thing. Durston's procedure is an empirical way to approximate the value of dFSI. That is lredy obvious in the opening phrase: "Abel and Trevors have delineated three aspects of sequence complexity, Random Sequence Complexity (RSC), Ordered Sequence Complexity (OSC) and Functional Sequence Complexity (FSC) observed in biosequences such as proteins. In this paper, we provide a method to measure functional sequence complexity." Emphasis mine. And: "As Abel and Trevors have pointed out, neither RSC nor OSC, or any combination of the two, is sufficient to describe the functional complexity observed in living organisms, for neither includes the additional dimension of functionality, which is essential for life [5]. FSC includes the dimension of functionality". You quote, from the paper: In practice, the sequence space for possible novel functional states may not be known. But why do you stop there? The paper goes on, as follows: "In practice, the sequence space for possible novel functional states may not be known. However, by considering particular proteins, estimated mutation rates, population size, and time, an estimated value for the probability can be chosen and substituted into the relevant components of Eqn. (9) to limit search areas around known biosequences that are observed, such as protein structural domains, to see what other possible states within that range might have some selective advantage." The problem, in a nutshell, is your quote mining. Durston gives a method and applies it. And that method approximately measures the dFSI linked to a function. gpuccio
Joe Felsenstein: gpuccio does not have any mathematical theorem showing in a model of evolution that dFCSI cannot arise by natural selection Why should I? I suppose it's you that should have some mathemathical theorem showing in a model of evolution that dFCSI can arise by natural selection. Please, note the emphasis on "natural selection", before you run to pseudo arguments about GAs that do not model NS at all! gpuccio
Zachriel: dFSCI is not a theory. It is a procedure in a theory. ID is the theory. dFSCI is a tool for design detection. The theory is that it is possible to detect design by that tool. gpuccio
Alan Fox: In all the discussion, unless I overlooked it, you have not shown how to estimate your dFSCI “parameter” or what purpose the exercise would serve. You have definitely overlooked it. I have assessed dFSCI for the simple software string offered by Mung. And I have affirmed dFSCI for the 29 protein families analyzed in the Durston paper, whose FSC exceed 150 bits. The purpose of the exercise in the case of Mung's string, or of any other that can be proposed, is to show that dFSCI has 100% specificity in detecting design in the cases where a design origin can be independently confirmed. The purpose of affirming dFSCI for the 29 protein families is to show that it can be used to infer design in cases where the origin id not known. Does that asnwer your questions? Apart from that, well done! Thank you! :) gpuccio
Joe. Mung, KF: Thank you guys for the good work. Joe to Toronto: 1- The design inference mandates discrediting darwinism. So we have to- it’s part of the rules of science Absolutely. We could ignore neo darwinism if it were just a wrong and irrational theory proposed by some isolated fool and correctly diasavowed by all. But unfortunately, that's not the case. Neo darwinism is a wrong and irrational theory that has gained the almost universal acclaim of the scientific world. That, I suppose, requires some correction... Joe to Joe Felsenstein: No, in that case gpuccio, and others, would say that dFSCI is not a true indicator of design. Absolutely. Our confused interlocutors have been sticking to the "necessity clause" for all possible invented reasons: to suggest a non existing circularity, to suggest that dFSCI is subjective, to suggest that dFSCI is useless, to suggest that dFSCI could contradict itself: emphasis on "suggets2, no real argument or example ever provided for those fantasies. They simply don't want to understand te meaning of the "necessity clause". Which is important, but only for very simple considerations, that have nothing to do with myths like NS as possible origin of dFSCI. The "necessity clause" is simply a duty if correct reasoning. As the puspose of the whole procedure is to infer design, we have the duty to ask ourselves: is there a simple explanation of how that arrangement could arise in this system, without a design intervention? The answer is very simple, if we consider the natural laws acting in the system, and the kind of information linked to the function. Essentially, laws work through regularity. So, we look for obvioous regularities that could be explained by the laws acting in the system. Let's take the case of protein genes, which are after all the object of the whole discussion. We know, form biochemistry, that the protein sequence is what makes the protein functional. We know also that there is no simple way to find what protein sequence will be functional: it can probably be computed from the laws of chemistry, but the computation is so complex that we cannot do it ourselves, with all our computational resources and all our understanding of how chemistry works. That's obciously enough to understand that those sequences cannot arise in a biochemical system by necessity. But there could be exceptions. I have proposed many times the example of a sequence of one aminoacid. While a protein made of 100 alanins, just to make an example, is certainly non functional in a general sense, we could probably find some use for it, with some imagintion. As the dFSCI procedure leaves the functional definition completely free, we could in some contexts be tempted to assign dFSCI to such a protein. But the necessity clause is a safeguard against that error, that could generate a false design inference. The simple repetition of one aminoacid is definitely a regularity that can arise in a biochemical system. So, we have to exclude that kind of sequences. The same could be said of a long protien which is only the repretition, for example, of a fixed 4 AAs module. Agai, tha obvious regularity makes that result possible in a biochemical system. Modular repetitions are observed in DNA, and there is no special reason not to believe that they can arise in the processes of DNA duplication. So, even if a completely modular protein were functional (which is not very likely), it would not exhibit dFSCI, if the module itself is very simple. But the simple fact is that complex functional proteins are not that way. They are strictly dependent on a definite sequence that has no obvious regularity, no more that a computer software code has obvious regularities, or a sonnet. The objection that some small regularities always can exist, and all the stupid discussion about possible compressions, is completely irrelevant. It is like saying that, as Shakespeare's sonnet can be zipped, then the regularities that allow the zipping can explain its meaning. In the same way, even if a the myoglobin sequence can certainly be somewhat compressed by some algorithm (which is true also of any random sequence, because truly random sequences exhibit some regularities), that certainly does not mean that those small regularities that can be compressed explain the myoglobin function. The function of a proteins is explained only by the special setting of those "configurable switches" (as Abel says) that are free from the restraints of necessity, and that only conscious intelligence can set in a very specific arrangement, to express thye function. No law can do that, because that arrangement is only linked to function by intelligent understanding, and never by repetitive law. That is the only role of the "necessity clause". It has nothing to do with NS, which is a necessity mechanism, but simply does not explain the sequences we observe. It has nothing to do with future scientific revolutions: we will deal with them if and when they come. It has nothing to do with excluding "possible" explanations that nobody know of: excluding the undefined possible is simply impossible. It has nothing to do with strange wars between cognitive groups, where some know an explanation and keep it hidden from others, probably for copyright reasons: the "knowledge" my definition refers to is simply our present scientific understanding of nature, shared by all who can access internet: how we understand physics, how we understand biochemistry, how we understand probability, and so on. It has nothing to do with possible errors in applying dFSCI that can be done by some: any procedure can be applied incorrectly. It has nothing to do with possible errors that would be made by people of ceturies ago, if they could understand the procedure, while ignoring modern science: a special prize goes to Mark for that, because his imagination is as big as his faulty logic. Our interlocutors have tried anything available to them: to make dFSCI circular, to make it useless, to make it irrelevant, to make it wrong, to make it politically incorrect, and so on. Unfortunately (for them) what is available to them can never undermine the simple fact that they have lost their challenge. I have applied dFSCI to all the examples that have been proposed, I have found true positives, and never a false positive. QED. gpuccio
Alan Fox:
There’s the problem in a nutshell.
And yet science continues to advance in the face of incomplete knowledge and it's difficult to think of something being informative when all is known in advance. And science is tentative. Weak rejoinder, really weak. If we become aware that the the sequence space for possible novel functional states is much larger than previously thought, we take that into account. That's science. If the probabilities then become such that they fall below the bound (e.g., 500 bits), then the dFSCI concept becomes useless. That's science. And this highlights that it is testable and falsifiable. IOW, you folks over at TSZ really have nothing to complain about except for the fact that given our currently state of knowledge gpuccio appears to be right and you appear to be wrong. Why not just admit it and hope for something to come along and help your side in the future? I'll tell you why. Ideology. It has nothing to do with science. Nothing to do with empiricism. Nothing to do with skepticism. It's Ideology. Mung
mung:
But he[gpuccio]did point you to the Durston paper, repeatedly, as an example of the concept in action.
But there is no mention of dFSCI in the paper. Is it claimed that dFSCI and FSC (functional sequence complexity) are the same concept? From the paper:
Consider the number of all possible sequences is denoted by W...
and
In practice, the sequence space for possible novel functional states may not be known.
There's the problem in a nutshell. Alan Fox
Mung: remember it has to be functional step by step, all the way from a few bits to at least 500 bits, starting from a random walk from an arbitrary sequence. KF kairosfocus
Joe Felsenstein on November 19, 2012 at 10:50 pm said:
when the folks over here at TSZ suggest using a genetic algorithm simulation to see whether dFCSI can arise by natural selection and random mutation, gpuccio argues that dFCSI is already present in the GA and thus that this is not a valid test (I disagree strongly)
Well, that's not exactly what he said. What he said was that the GA would have to be set up to actually simulate natural selection otherwise it would not be a valid test. That seems reasonable to me. We'd love to see you come up with a GA that generates a functional informational digital sequence.
and presumably gpuccio would argue the same against any use of population genetics theory to test whether dFCSI can arise by natural selection.
dFSCI cannot arise by natural selection. As you already said, natural selection is deterministic (except when it isn't). So the best you can do us use random chance events to generate information (also not possible), and then use your NS filter to keep or get rid of what was randomly generated. We're waiting. You all could falsify this whole dFSCI thing using a GA, so please at least make the attempt. Mung
Joe Felsenstein on November 19, 2012 at 10:50 pm said:
gpuccio does not have any mathematical theorem showing in a model of evolution that dFCSI cannot arise by natural selection,
It's called information theory. Why do you all continue to ignore it? A deterministic mechanism cannot generate information. If natural selection generates information it is not deterministic. You don't get to have it both ways. And information requires "aboutness," which your mechanistic deterministic 'theory' cannot explain. Mung
Alan Fox:
Skeptics are left wondering (as with the explanatory filter, CSI, irreducible complexity) what is the point?
We get it Alan, you don't understand how science operates. For example, even a child could see that the point of the explanatory filter is to make sure that the investigator follows Newton's four rules of scientific investigation, ie conducts the investigation properly, in an orderly and easily documented fashion. As for irreducoble complexity, CSI and dFSCI, well they are all indicators of design. And again even a child understands that an investigation changes depending on whether or not agency involvement was needed. So by "Skeptics are wondering...", Alan really means "Willfully ignorant evos are wandering..." Joe
Alan Fox:
What might have drawn people’s attention would have been a demonstration of the usefulness of dFSCI in any practical way.
Oh get off it with your 'oh we're so reasonable and you've got nothing" revisionist history. The evidence show quite the contrary. Gpuccio drew plenty of attention, most of it of absolutely no relevance, but he wasted his time in trying to explain anyways.
Skeptics are left wondering (as with the explanatory filter, CSI, irreducible complexity) what is the point?
Well why didn't they just ask, instead of pretending that his definition of dFSCI was circular?
In all the discussion, unless I overlooked it, you have not shown how to estimate your dFSCI “parameter”
But he did point you to the Durston paper, repeatedly, as an example of the concept in action. I guess you overlooked it. Mung
gpuccio
Maybe it’s really time to drop out of this long discussion. There have been some good things, and so much futility.
What might have drawn people's attention would have been a demonstration of the usefulness of dFSCI in any practical way. Skeptics are left wondering (as with the explanatory filter, CSI, irreducible complexity) what is the point? In all the discussion, unless I overlooked it, you have not shown how to estimate your dFSCI "parameter" or what purpose the exercise would serve. Apart from that, well done! Alan Fox
and toronto proves it cannot follow along:
You and I have both said that “dFSCI” is not dependent on its origin yet gpuccio assesses “dFSCI” to a string only after he checks its origin.
That is incorrect. dFSCI exists regardless of its origins and gpuccio has said that. Joe
Zachriel's parting shot:
dFSCI doesn’t qualify as a theory, though, even if it were valid in other respects.
It's in good company because unguided evolution doesn't qualify as a theory. So perhaps dFSCI will be mainstream before ya know it. Joe
ONE reason gpuccio has had enough: Joe Felsenstein:
?gpuccio does not declare the presence of dFCSI, if at that time there is an explanation of the origin of the sequences by “deterministic” forces such as natural selection,
No, in that case gpuccio, and others, would say that dFSCI is not a true indicator of design.
?and presumably gpuccio would argue the same against any use of population genetics theory to test whether dFCSI can arise by natural selection.
No, you need real evidence and if you are using population genetics tenn you are starting with the very dFSCI that you are supposed to be explaining. THAT is why GAs are no good unless you can write one that can do something without replication. Good luck with that... Joe
toronto:
Try promoting the positive evidence for ID instead of constantly attempting to discredit “Darwinism”.
1- The design inference mandates discrediting darwinism. So we have to- it's part of the rules of science 2- We have promoted the positive evidence for ID and all you have done is shown that you guys don't know anything about evidence And all you can do is blame us for teh fact that your position has nothing and explains nothing. That's a strange form of skepticism you guys share... Joe
Not that you weren't warned... Joe
To all: Ever more boring, and ever more useless. TSZers are out of grace. Maybe it's really time to drop out of this long discussion. There have been some good things, and so much futility. OK, it could have been worse! gpuccio
Mark:
Gpuccio I am going to drop out of this debate about whether dFSCI is relative to an observer’s knowledge. It has become circular and barren. I also withdraw my assertion that the statement “Everything dFSCI is designed” is not circular. I thought was true but I misunderstood your definition of dFSCI. In the light of what you have written over the last couple of days I believe that you use the term dFSCI in practice in such a way that the statement is circular.
My compliments! (Beware, this is ironic) I happily drop out of this frustrating and useless debate with you! gpuccio
Petrushka:
It strikes me that a lot of time and energy is being wasted over the term arbitrary. With respect to the DNA code, arbitrary has at least two useful meanings. One is that none of the bases are particularly favored by chemistry. Hence, mutations do not favor one or the other. The other meaning is encapsulated in the phrase “frozen accident.” Which more or less means that the specific code and interpreter could have been different.
Good concepts. You are the best! gpuccio
Toronto: You are confusing the map with the territory. Absolutely not! I am a great fan of the map-territory concept, and would never confuse one with the other! It's you who are confusing everything with everything else :) Computers at the physical level operate with electrical charges on gates and current flow. Obviously. And a screen at the physical level operates with pivels, and electricity. And so? Biology does the same at the physical level as there are chemical processes involved. I had never suspected that! Thank you for the news. On a computer motherboard, I cannot mix 3.3V and 5V devices because a voltage level that is logically high for one device might not be for another, and there is no guarantee the device will actually survive the mismatch without being stressed to the point of failure. Never mix your hardware! In biology, a different chemical makeup would result in different “life” and this means that the DNA “code”, which is chemical and not digital, is not arbitrary. Why? We could have the same life, with proteins coded in a different code, and translated according to that code. Empirically, we have never seen different “translation devices” in humans, other than DNA as it exists. Because we use those designed a lot of time ago. You know, we are not as good at designing as the designer of life... From Wikipedia:
Variations to the standard genetic code See also: List of genetic codes While slight variations on the standard code had been predicted earlier,[31] none were discovered until 1979, when researchers studying human mitochondrial genes discovered they used an alternative code. Many slight variants have been discovered since then,[32] including various alternative mitochondrial codes,[33] and small variants such as translation of the codon UGA as tryptophan in Mycoplasma species, and translation of CUG as a serine rather than a leucine in some members of the genus Candida (see the article on Candida albicans).[34][35] In bacteria and archaea, GUG and UUG are common start codons, but in rare cases, certain proteins may use alternative start codons not normally used by that species.[32] In certain proteins, non-standard amino acids are substituted for standard stop codons, depending on associated signal sequences in the messenger RNA. For example, UGA can code for selenocysteine, and UAG can code for pyrrolysine. Selenocysteine is now viewed as the 21st amino acid, and pyrrolysine is viewed as the 22nd.[32] Despite these differences, all known naturally-occurring codes are very similar to each other, and the coding mechanism is the same for all organisms: three-base codons, tRNA, ribosomes, reading the code in the same direction and translating the code three letters at a time into sequences of amino acids. [edit]Expanded genetic code Main article: Expanded genetic code See also: Nucleic acid analogues Since 2001, 40 non-natural amino acids have been added into protein by creating a unique codon (recoding) and a corresponding transfer-RNA:aminoacyl – tRNA-synthetase pair to encode it with diverse physicochemical and biological properties in order to be used as a tool to exploring protein structure and function or to create novel or enhanced proteins.[36][37] H. Murakami and M. Sisido have extended some codons to have four and five bases. Steven A. Benner constructed a functional 65th (in vivo) codon.[38]
gpuccio
Toronto:
When I was growing up, we spoke German, Yugoslavian and English at home.
Sometimes it seems like you are still speaking three different languages when you post. ;) Mung
Toronto: But only to a human reader. In software, just as in biology, the runnable code, is native to the run-time processes at the physical level, i.e. it is not the descriptive source code. And so? It is designed just the same. But that is the point, that there is a “translating apparatus” already in place that understands “codes” that exist only in a very particular “chemical set”. And so? In order to do what you suggest, you would have to redesign an “apparatus” that exists today in biology that already does the “translation”. Exactly as someone had to design the existing apparatus in the beginning. And so? We could do that. At that point, you could still not “arbitrarily” use two different codes at the same time as you can with language. What do you mean? At the same time? When I was growing up, we spoke German, Yugoslavian and English at home. That's not "at the same time". You speak a language at a time. That can be done also with biological systems, in principle. Conversations tended to end in a different language than they started with, which was only acceptable because we could all encode and decode all three sets of “communication codes” at the same time. Again, not at the same time. In sequence, maybe. There is no difficulty, in prinbciple, to do that also with a biological machine. It would certainly be much more complex. One difference could be that biological machines are machines, and not conscious individuals. A conscious being cannot do anything, but is very flexible, because he is intelligent and conscious. Machines can only do what they were programmed to do. So, if you have a translating software, it will be able to shift from one language to another, but only if it has been programmed to translate those languages, and to recognize the present language according to simple tests. In principle, a biological machine can do the same. Human language is different than what is represented in DNA because it is used for a different purpose. Human language is different for many reasons. First of all it is mainly descriptive, and not prescriptice. And it is vastly context dependent. DNA is more similar to software: prescriptive, and context independent. gpuccio
Mark:
Yes -but not all groups know the same things. Therefore they do not have the same “present state of knowledge”. This difference in knowledge need not correspond to a scientific breakthrough. It could simply be a realisation that the laws of science can be applied in a particular way to that string. For example, a group may simply not realise that this sequence: 01101110110001101 can be generated quite easily by a natural process. Assuming it was much longer and there was a function they might apply the dFSCI procedure objectively and correctly and deduce there was dFSCI. Are they wrong?
The persons who assess dFSCI must be aware of the scientific knowledge pertinent to the problem they are examining. They don't work with abstract strings, but with material objects generated in a system. The definition of the function, in most cases, allows easily to exclude necessity mechsnisms, That is the case with proteins, for example. The purpose of dFSCI is not to analyze abstract strings that could hide some order or not. In dubious cases, the judgement will be negative. But when the nature itself of the function, and of the information tied to the function, excludes necessity explanations in the System, a clear judgement can be done, and it will be the same for all observers who are correctly aware of the procedure. For example, in the case of DNA coding sequences, it is absolutely obvious that no biochemical laws can explain a sequence of nucleotides that bears the information fro a functional protein. That judgement has nothing subjective, and no group of individuals, however aware of what science knows, could offer any such explanation. To evaluate dFSCI, we have obviously to know well the porblem. The proof that it works is that you could offer no example or situation where I, or others, would make a design inference and be wrong.
All digital strings can be converted to a decimal number. That is not the point. I am not talking about a physical thing that happens to be expressed as a number. I am talking abut the number itself. Who designed the number 3 and when did they do it?
The number 3, as you should know, is a mathematical concept created by human thought, and not a simple one. Numbers can be defined in different ways, none of them simple. They are obviiosuly a ocnscious concept. They are not a desiogned object, because they are not material objects. But they are abstract6 ideas, the result of intelligent thought. I find your ideas very confused about that. The prime number offered, which is only a coding of a program, looks a designed object to me (if it is written in an object). Do you think differently? Would an object that codes that nuber that corresponds to a program to decrypt DVDs (or whatever it dies) appear as a non designed object to you? Just to understand... gpuccio
Allan Miller:
The following numbers are the same, and are all ‘logical’ strings: 555 576 1053 1422 2323 4210 20223 202120 1000101011
No. They are different physical strings, in which it is possible to read a same menaing, using different codes. But 555 and 576 can certainly be read as two decimal strings, and they have in that case also a different meaning. Any logical string can be represented by any other. Maybe. Or maybe not. Is there a theorem that proves that? Can 123 represent the first 1000 decimal digits of pi? But physical strings can only be ‘represented’ by logical strings. All strings are physical. I could represent a physical DNA sequence as ATGGCTACC , or 143324122, or ‘$’ (143324122 in my patented base143324123 notation), or a 3D space-filling model, or “Met-Ala-Thr”, or whatever, but none of them would be either DNA or protein. That just means thyat I am writing the same information differently. You are also conflating here two very different aspects, in your confusion. One thing is the code I use to write the same information. DBA uses a base four system, with a redundant arbitrary code of three character words. I can write a number with paper and ink in decimal code or in binary code. The information is the same, provided we apply the right code to translate it. Another problem is the material means we use to write down the information. In DNA, we use nucleotides. But we coud write the same protein information using another code, with different words. It would still be DNA, but the string would be different, and the information would be the same. But we could also write a Shakepseare's sonnet in DNA, using some code deviced by us. The material object would still be DNA. The string would be different. And the information would be different. So, we can wrie a sonnet by pixels on a screen, ink on paper, DNA, laser writing. We can use different codes to write it. The only thing that reamins the same is the information. But the strings change, the material objects change. For sure, there is a physical system that would take the “$-sequence” and turn out a peptide sequence that I could also represent as “Met-Ala-Thr”. But this is not done by turning anything into a logical representation, at any stage. It’s all done by physics. Wrong. You have to design the translation system correctly, if you want that they output the correct information that is in the string. That is not done by physics, but by design. When the aaRS glues a Met on the end of an AUG-bearing tRNA, it’s physics. This is simply stupid. When my screen represents Shakespeare's sonnet, that is physics too. And so? So … if one thinks that the protein translation system is fundamental to life and unevolvable, and dFSCI is a reliable indicator of design, one would expect more dFSCI in the proteins of the translation system than (say) those patterning mammalian skin. So how is it actually distributed? There is obviously a lot of dFSCI in the translation system. And also in the mammalian skin. According to a paper about basic protein superfamilies, almost half of them were already present in LUCA. But the rest came after. Does that answer your question? gpuccio
Allan Miller: But all logical strings are fully compressible down to a single bit, and fully interconvertible. I don't understand. Please, explain. All the rest of your "argument" seems pure folly. But maybe it's me that cannot understand your deep concepts. I know no string which is not "physical". Again, please, explain. I know no physical string that has no logical aspect (its information). Again, please explain. gpuccio
Mark: Thank you – very clearly put. I am wary of the word “objective” because it gets abused so much – but I think you have made it clear what it means in this context. Very clearly put?!!!!! Please, read my previous post. gpuccio
Keiths: In your most recent comments, you seem to be referring to what I will call “objective dFSCI.” Objective dFSCI is something a sequence either has or doesn’t have, relative to a system, a timespan and a function. What any particular observer thinks at any particular time is irrelevant. You may think that X has dFSCI, and I may think that it doesn’t, but only one of us is correct. You may think today that it has dFSCI, and you may change your mind next week when I show you a new “necessity mechanism,” but the true answer doesn’t change. “Objective dFSCI” is a property of the sequence itself (relative to the system, the timespan and the function). It is not a property of the state of knowledge of any particular observer or observers. Objective dFSCI is not dFSCIgpuccio or dFSCIkeiths. It is just plain dFSCI. There is only a misteke here. Objective dFSCI is a judgement that we can perfectly give with the state of knowledge that science has today. If Mark calls into discussion possible revolutions on scientific knowledge, I can say nothing about that. The same is true of quantum mechanisc, of relativity, of any scientific view. Moreover, dFSCI has no need to bother of abstract doscussions about "possible necessity mechanisms" that could one day be found in the excited fantasy of darwinists who need to justify a wrong theory. dFSCI, like science, works with what we know and understand today. For the rest, I agree.
Yet for dFSCI to be objective, you would need to change the definition you’ve been using all along. In particular, this criterion: b) No known necessity mechanism that can explain the string …would need to be changed to this in order to make dFSCI an objective concept: b) No necessity mechanism exists that can explain the string
No. b) is simply stupid. It is a non scientific statement, that nobody can make. There is no need at all to chane a). It's fine as it is. Obviously we can never be absolutely certain that no necessity mechanism exists, so our assessment of dFSCI depends on what we know at any given time. However, our assessment of dFSCI is just that — an assessment. dFSCI is an assessment. Assessments can change, but the true answer to the question “does X have objective dFSCI relative to this particular system, timespan and function?” remains always the same. No. dFSCI is an assessment, made according to a definite theory, which is obviously related to what we know today. ID, dFSCI, neo-darwinism, quantum mechanics, are all theories. None of them is a fact. Fact remain the same. Theories can change. Theories are never "true answers". At best, they are "good answers, given the context". Your epistemology is all wrong.
Now consider “subjective dFSCI”. Subjective dFSCI is the kind of dFSCI you’ve been talking about throughout most of these threads. It’s the kind of dFSCI whose definition includes: b) No known necessity mechanism that can explain the string If I know of a necessity mechanism that explains X, then X truly does not have dFSCIkeiths. But if you are unaware of my necessity mechanism, then X truly does have dFSCIgpuccio. It is subjective. It depends on the state of knowledge of the observer. The assessment is the true answer.
Completely wrong. It is not subjective at all. The objective requirement is that, with our scientific knowledge, no necessity explanation is available. That does not depend on gpuccio, or anyone else. And, as said, there are no "true answers". Subjective dFSCI is what you’re referring to here: "dFSCI is a diagnostic judgement made on an object at time t. It is obviously made at time t, with what we know at time t." There is nothing subjective in that. The reference to what we know is objectively necessary. It would be necessary for any scientific theory. Just to hammer the point home, let’s use an analogy. A number is prime if it has no factors other than itself and 1. A number is primekeiths if keiths knows of no factors other than the number itself and 1. A number is primegpuccio if gpuccio knows of no factors other than the number itself and 1. Ah! Here is where your epistemological confusion is obvious! You see, you are conflating here two completely different categories: mathematics and empirical science. Logic and mathematics are not empirical. Methematical deductions derive from arbvitrary postulates, and from the accepted rules of logic. A number is prime if it corresponds to our definition of a prime number. We are not dealing here with empirical things. We are not meaking empirical inferences. You cannot apply the deductive rules of mathematics to empirical science. Again, correct you epistemology before discussing serious things here. Primeness is an objective property of a number. It never changes. Primenesskeiths and primenessgpuccio are subjective. They can change if our knowledge changes. I can assess the primeness of a number, and my assessment can be correct or incorrect. It can change over time as I learn more or correct previous mistakes. Though the assessment may change, the actual primeness (or lack thereof) of the number is a fixed, objective fact, waiting to be discovered. See above. In empirical science, there is no "actual fact" (except observables). All theories, judgements and explanations are never "actual", and are never "facts". gpuccio
Keiths: Cool your jets, gpuccio. Your hot temper is making you look foolish again. I have no problem with appearing foolish to some. I am often proud of that. “Hinges on” does not mean “hinges on exclusively.” If you look at other comments of mine (this one, for example) you’ll see that I explicitly mention the function and dFSI criteria. Why say "hinges" and not simply "is based in part"? And anyway, you purposefully omit what you like to omit, when that omission serves your pseudo argument. The first two aspects are useless, because everybody knows (for example) that the hemoglobin gene has a function and is too complex to have arisen through pure RV. It is not useless. It is an essential part of the argument. You say it is useless only because you have to defend a false argument. That is lying. These are questions that no one is asking on either side of the debate. Another lie. I am asking them. And I am on a side of the debate. The only part of the dFSCI concept that carries any significance is the “no known necessity mechanism” part, and that is nothing but a reflection of your current state of knowledge. This is only your partial, incorrect, unfair and irrational opinion. gpuccio
Mark: To spell it out a bit more precisely. Do you accept that the dFSCI of a string could be true of one group of observers but not of another group at the same time (because of their different knowledge and skills) and true at one time and not true at another because of different knowledge and skills at the two times? dFSCI, with our present state of knowledge, can be objectively evaluated by people who understand well the concept and the procedure. Obviously, any group that does not understand correctly those things can apply it incorrectly. What will happen of dFSCI, or of any other scientific concept, in the future nobody can say. I believe it will be always appliable. But I am not a prophet. gpuccio
Toronto:
Take an Italian string of text and translate it to English. You now have a string with two different configurations, whose intended meaning can be understood by gpuccio. Try that with DNA and you will find your translated configuration will “mess things up”. DNA is not as “arbitrary” as human language.
Completely wrong. You can write the sequence of the myoglobin gene in any code you like, in any form you like, with any means you like, including DNA nucleotides, and it will always have the perfectly valid information for myoglobin. Obviously, you must also build a translating apparatus that is able to synthesize myoglobin from that coded information. DNA is as arbitrary as any language, but, as any language, it must be correctly translated to express its information. gpuccio
and RB chimes in:
Not only is skepticism mandatory, its most important target is one’s own cognition.
Then it is strange that you do not appear to be skeptical of unguided evolution especially seeing that it is still unsupported and appears to be unsupportable. Joe
Mark: 2) According to your definition if a group find something has dFSCI according to that group’s current knowledge at time t and then that group learns of a new necessity mechanism at time t+1 then it is still true that that string had dFSCI at time t. The only thing that is true, in that case, is that the group of scientists understands, at time t+1, that their concept of dFSCI is not an useful tool to detect design. The procedure is empirically falsified. Is that so difficult to understand? gpuccio
Cubist:
I’ve come up with what I believe is a pretty solid way of testing any alleged protocol for determining dFSCI. Step one: Encrypt a chunk of English-language text. Step two: Generate (N-1) additional character strings, of the same length as the encrypted text generated in Step One, by throwing random characters together. Step three: Use the candidate dFSCI-detecting protocol on all N strings. If the candidate dFSCI-detecting protocol actually does what it says on the label, it shouldn’t find any dFSCI in any of the (N-1) random strings, and it should find some dFSCI in the encrypted text. Therefore, a valid dFSCI-detecting protocol should be able to distinguish encrypted text from a random character string. Want to give it a shot, gpuccio?
Yes, obviously. It's very simple. If I know, or in some way understand, the encryption protocol, and I can see that one of the strings is in reality corresponding English text, then I can recognize a function for that string and, if everything else is satisfied, affirm dFSCI abd infer design. Which will be a true positive. The other strings will be recognized as non functional, and will be true negatives. If, on the other hand, I cannot do that, I will not recognize any function for the encrypted english string, and wiill not affirm dFSCI for it. That will be a false negative. See how simple it is? gpuccio
Mark:
The fact that it is a prime is not relevant The string is that very long number or if you want it in physical form then the set of digits displayed on the screen The function is: can be converted into an executable program which is illegal There are negligibly few numbers that can perform the same function – so it is clearly complex As far as I know numbers are not the result of any necessity mechanism (this is dFSCI relative to my knowledge) Numbers are not designed. I don’t for a moment suppose you will accept it is dFSCI. I am grow less and less sure what the criteria are for dFSCI anyway. I just want to see what explanation you come up with this time.
I will leave Wikipedia come with the explanation:
Background The DeCSS code can be used by a computer to circumvent a DVD's copy protection. One of the earliest illegal prime numbers was generated in March 2001 by Phil Carmody. Its binary representation corresponds to a compressed version of the C source code of a computer program implementing the DeCSS decryption algorithm, which can be used by a computer to circumvent a DVD's copy protection.[1] Protests against the indictment of DeCSS author Jon Johansen and legislation prohibiting publication of DeCSS code took many forms.[2] One of them was the representation of the illegal code in a form that had an intrinsically archivable quality. Since the bits making up a computer program also represent a number, the plan was for the number to have some special property that would make it archivable and publishable (one method was to print it on a T-shirt). The primality of a number is a fundamental property of number theory and is therefore not dependent on legal definitions of any particular jurisdiction. The large prime database of The Prime Pages website records the top 20 primes of various special forms; one of them is proof of primality using the elliptic curve primality proving (ECPP) algorithm. Thus, if the number were large enough and proved prime using ECPP, it would be published. Discovery Specifically, Carmody applied Dirichlet's theorem to several prime candidates of the form k·256n + b, where k was the decimal representation of the original compressed file. Multiplying by a power of 256 adds as many trailing null characters to the gzip file as indicated in the exponent which would still result in the DeCSS C code when unzipped. Of those prime candidates, several were identified as probable prime using the open source program OpenPFGW, and one of them was proved prime using the ECPP algorithm implemented by the Titanix software. Even at the time of discovery in 2001, this 1401-digit number, of the form k·2562 + 2083, was too small to be mentioned, so Carmody created a 1905-digit prime, of the form k·256211 + 99, that was the tenth largest prime found using ECPP, a remarkable achievement by itself and worthy of being published on the lists of the highest prime numbers.[1] In a way, by having this number independently published for a completely unrelated reason to the DeCSS code, he had been able to evade legal responsibility for the original software. Following this, Carmody also discovered another prime, this one being directly executable machine language for Linux i386, implementing the same functionality. The first illegal prime number The Register gives the 1401-digit number as:.[3][4] It has the form k·2562 + 2083.
I would just point to your really amazing statement: "Numbers are not designed." !!!!!! What do you mean? Any software program is a number. A Turing machine works exclusively with numbers. Is software not designed? gpuccio
Mark Frank:
I am not sure I know what a worldview is – but scepticism falls far short of being an ideology. All it amounts to is the demand for strong evidence before believing anything.
That is a big fat lie given the circumstances. Ya see MF, your position doesn't have any evidence, let alone "strong evidence" and yet you cling to your position AND call yourself a skeptic. You are obvioulsy deluded. Mark Frank:
To take the particular issue of whether life is designed. Scepticism does not exclude design. It just asks that a design explanation is evaluated by the same standards as any other explanation.
Well the design inference exceeds the standards for your position.
It is not sufficient that other explanations are considered to be inadequate.
That is a good step in the right direction. And it also happens to be a scientific requirement. Joe
Mark Frank is now choking on skepticism, and ONTWO chimes in with:
Said the guy who is unable to support his claim (dFSCI is useful) in any meaningful way but cannot bring himself to admit he was wrong.
LoL! You chumps can't support any of your position's claims and you prove that your "skepticism" is no more than a child's whining. But anyway, we will admit we were wrong as soon as you morons step up and actually produce some positive evidence for your position. And keiths- we know how you think you use the word. And we also know how you think you use it is in direct contradiction to its definition. Joe
What does “more dFSCI” and “less dFSCI” have to do with anything?
Nothing. Allan just pulled it from his arse, thought it looked good so he posted it. Joe
keiths:
Obviously we can never be absolutely certain that no necessity mechanism exists
THAT is why the design INFETENCE, as with ALL SCIENTIFIC INFERENCES, is TENTATIVE and can be either confirmed or refuted with furure findings. But thank you for continuing to expose your scientific illiteracy. Joe
Allan Miller:
So … if one thinks that the protein translation system is fundamental to life and unevolvable, and dFSCI is a reliable indicator of design, one would expect more dFSCI in the proteins of the translation system than (say) those patterning mammalian skin.
But what if one does not think that the protein translation system is unevolvable? Do you have evidence that the protein translation system is not fundamental to life? Have you published? Assuming dFSCI is a reliable indicator of design (no false positive has ever been demonstrated), how does it follow that one should expect more dFSCI in the proteins of the translation system than (say) those patterning mammalian skin? What does "more dFSCI" and "less dFSCI" have to do with anything? Mung
The TSZ Motto: “He can’t prove that I can’t imagine that I might be right and he might be wrong, therefore…” Mung
Toronto on November 13, 2012 at 7:45 pm said:
You’ve defined “information” as being arbitrary.
So? If you know the outcome in advance, how much information do you obtain when the outcome is precisely as you knew it would be? Mung
Allan Miller:
The following numbers are the same, and are all ‘logical’ strings: 555 576 1053 1422 2323 4210 20223 202120 1000101011
They are not logical strings, they are physical strings. I viewed them. With my eyes. Therefore, they are physical. And they are not the same. Mung
Allan Miller:
Applying this to the string-world of principal interest, biology, a fundamental problem here appears to be a failure to perceive crucial distinctions between physical and logical strings (a relative of UBP’s ‘semiotic’ problem). Of course, for certain purposes, we can turn the one into the other and back again. But all logical strings are fully compressible down to a single bit, and fully interconvertible. Physical strings are not, other than via a ‘logical’ intermediate.
ok, that's a mouthful. What is it you're trying to say? You seem to be claiming that physical strings can be transformed into logical strings and logical strings can be transformed into physical strings. I don't think you'll get any argument on that point, but how is that a problem for Upright BiPed?
But all logical strings are fully compressible down to a single bit...
Please explain. Do you mean a logical string can be reduced to a single true or false and that these concepts (true/false) can be represented with a single physical bit?
But all logical strings are fully compressible down to a single bit, and fully interconvertible.
Since I fail to understand how a logical string can be reconstructed from a single bit, I am going to assume that I am just not understanding your assertion. What are logical strings fully convertible to? By interconvertible, I assume you mean that upon conversion, the original string can be restored.
Physical strings are not, other than via a ‘logical’ intermediate.
Physical strings are not what? Physical strings are not convertible to a single bit? Yet they are, by your own admission. Physical strings are not 'fully interconvertible' (whatever that means)? Yet they are, by your own admission. I would really like to understand the point you're trying to make here. Up till now, I had not been aware of any distinction between physical and logical strings. I thought gpuccio was talking about physical strings.
But physical strings? They have at best one representation: themselves, physical arrangements of quarks and electrons in space.
Physical arrangements of quarks and electrons in space are not representations. Anything that has at best one representation does not have a representation. Due to the very nature and definition of a representation, there is no thing that has but one representation, physical or logical. Mung
keiths:
Obviously we can never be absolutely certain that no necessity mechanism exists
Therefore, Darwinian science is not objective. Mung
keiths:
It’s a textbook argument from ignorance: Gpuccio is not aware of a “necessity explanation” for X that he considers satisfactory. Therefore there is no such explanation, and X is designed.
We can apply the same analysis to your claims. They are either: a) an argument from ignorance. b) an ignorant lie c) a deliberate lie I believe c) a deliberate lie. But you don't care that you're a liar. But you expect other people to not lie. That makes you a liar and a hypocrite. And that is no doubt why you are banned from UD. Mung
Toronto:
Take an Italian string of text and translate it to English. You now have a string with two different configurations, whose intended meaning can be understood by gpuccio.
How does a string have two different configurations? Do you mean to say that you now have two strings in two different configurations which perform the same function? So? Mung
Over at TSZ we have Mark Frank congratulating keiths. And where have we seen that nonsense lead in the past? Mark Frank:
I will add that the objective definition results in the statement “Everything with dFSCI is designed” being circular. /blockquote> Nonsense. How can an objective definition result in a statement? Why do you continue to ignore the element of inference in gpuccio's reasoning?
Mung
keiths:
Yet for dFSCI to be objective, you would need to change the definition you’ve been using all along. In particular, this criterion:
b) No known necessity mechanism that can explain the string
No, keiths, that is a FACT, not a criterion. It is a fact that is based on our knowledge of cause and effect relationships. Joe
Toronto:
Mung, I thought you would see the analogy between “inheritance” in OOL’s and inheritance through biology.
Hard to see things that aren't there. Mung
Toronto:
If the candidate dFSCI-detecting protocol actually does what it says on the label, it shouldn’t find any dFSCI in any of the (N-1) random strings, and it should find some dFSCI in the encrypted text.
Why?
Therefore, a valid dFSCI-detecting protocol should be able to distinguish encrypted text from a random character string.
A valid dFSCI-detecting protocol should be able to distinguish encrypted text from a random character string. Therefore, a valid dFSCI-detecting protocol should be able to distinguish encrypted text from a random character string. Brilliant, just brilliant. Please apply your skepticism to your own writings. Mung
Toronto:
DNA is not as “arbitrary” as human language.
Other ID critics argue that human language is not as arbitrary as DNA. It appears the anti ID argument is, well, somewhat arbitrary. Mung
Alan Fox:
Talking of language and the processes that go on in living cells is poor and anthropomorphic analogy.
That's a pretty uninformed stance to take. Cells were communicating long before humans ever arrived on the scene.
DNA sequences have nothing in common with language.
Trivially true. But so what? DNA is a storage medium. Can we at least agree on that?
Cell Communication and Signaling, the official journal of the Signal Transduction Society, is an open access, peer-reviewed, online journal that encompasses all basic and translational aspects of cellular communications and signaling pathways in normal and pathological conditions. - http://www.biosignaling.com/
http://en.wikipedia.org/wiki/Cellular_communication_(biology) http://learn.genetics.utah.edu/content/begin/cells/insidestory/ The Touchstone of Life: Molecular Information, Cell Communication, and the Foundations of Life Mung
petrushka:
I claim Lincoln was shot by garden fairies masquerading as John Wilkes Booth. If you can’t prove me wrong, I win.
Yes, if you can't prove me wrong I must be right is a favorite assertion by Darwinists. We've seen it many times. But there's no reason to believe it's true. Here's another recent example from TSZ:
...your only hope is to demonstrate that information transfer via self-replicating molecules is impossible. Good luck with that.
Why do you call yourselves 'skeptics'? Mung
Allan Miller:
GP is a veritable dFSCI-IC Oracle! “Ask me any question you like. I only give true answers … when all results are in. As part of that process, I may give a provisional answer that is superseded by my final verdict. In this way, retroactive revision of my earlier opinion, I avoid false positives.”
Allan, thank you for such a good example of the depth of your understanding and of the fairness and style of your behaviour in a discussion. I was almost starting to think that maybe TSZ was a little different from ATBC... gpuccio
Mark: Do you really want to deny this fact of human nature? (I never used the word subjective). No, if you intend that simply in that sense, I agree. That is true of any human activity, scientific or not. As you decide what counts as dFSCI , and your definition appears to alter in the face of counterexamples, it is hard to falsify! But it certainly sounds like it is relative to you. If it were so. But again, that is your opinion. I have never altered my definition and procedure. I have certainly explained, in front of very special cases provided by you, how it applied to those cases. That is not altering anything. The dFSCI definition and procedure, as given by me, are certainly "relative to me". But the fundamental concepts are not. gpuccio
Mark: Just to say things as they are: OMTWO wrote the following (November 15, 2012 at 2:34 pm): Yet here it seems that despite the fact that dFSCI has “billions of billions” of usable examples (KF’s claim) the fact that it can be used to detect design has been, well, falsified. To that I answered: "Very, very interesting. When and where did it happen? Did you see it on TV?" Which was, I suppose, clearly ironic. Then OMTWO posted (November 15, 2012 at 6:30 pm): Hmm. (very clear!). And string and a link to Wikipedia. And you, immediately after: Nice example. Kudos to Gpuccio 500 for accepting it may be an example of non-designed dFSCI. I reallyy hope for more from him on this as it may make some of his ideas clearer. As you can understand, I was rather puzzled! I followed the link. It is about: "The first illegal prime number" (the one posted by OMTWO). Reading the Wikipedia page, I couldn't frankly understand what OMTWO's argument was, Nor yours. So I asked. Now you say: I was referring to OMTWO’s example of a string with dFSCI that was not designed. I am not sure I understand. Why is "The first illegal prime number" an "example of a string with dFSCI that was not designed"? I am happy to counter arguments, but I would like to hear the argument first. Thank you. gpuccio
Petrushka: I claim Lincoln was shot by garden fairies masquerading as John Wilkes Booth. If you can’t prove me wrong, I win. I disallow all traditional testimony because all witnesses were deceived by the fairies. Prove me wrong. My admiration for your creative imagination is boundless. Let's try this: I claim basic protein domains were generated by RV + NS through naturally selectable functional intermediates, from one common precursor. If you can’t prove me wrong, I win. I disallow all objections about the absence of any fact supporting the existence of those naturally selectable intermediates and of that precursor, because my theory itself implies that all those things were destroyed, and all possible traces of them were destroyed too. Prove me wrong. How do you like that? (Allan, are you here?) gpuccio
Keiths: In other words, not only is dFSCI itself hopelessly subjective, but the entire argument is hopelessly subjective. Gpuccio is not claiming that dFSCI is a reliable indicator of design; he’s only claiming that dFSCIgpuccio is a reliable indicator of design! If you are proposing to name dFSCI "dFSCIgpuccio" in my honour, thankyou. But I don't think I deserve so much :) Anyone can apply "dFSCIgpuccio" if one follows "gpuccio's rules for dFSCI". That does not make dFSCI subjective, although it could maybe earn me copyrigth money! Mark's argument is not an argument. Like all scientific concepts dFSCI relies on what we know today, not on what we knew centuries ago, nor on what we will knoe in a few centuries. That is true for all science. Is science subjective because of that? Is quantum mechanics subjwective because ot would be difficult to explain it to people from a millennium ago? gpuccio
Keiths: The “dFSI greater than the threshold” criterion takes the time span into account, because the time span factors into the threshold. However, your “no deterministic explanation” criterion, as stated, does not take time into account. You should add the temporal qualifier. Well, the System and the Time Span are essential to the judgement in all cases. I don't always repeat the full procedure for brevity. I believe the Time Span is more relevant to compute the probabilistic resources of the System, that are time dependent. The System is extremely relevant to assess the natural laws at work in it. Howevwr, it is true that both the System and the Time Span are integral part of the problem and of the assessment, because what we wanto to infer is the origin of the string in that System and in that Time Span.
1) gpuccio isn’t aware of a ‘necessity mechanism’ that explains X to his satisfaction; 2) therefore X exhibits dFSCI; 3) gpuccio says that everything to which he has ever attributed dFSCI has turned out to be designed, when the origin is known; 4) therefore X is designed.
The correct version: 1a) gpuccio observes that the strin X has a function and explicitly defines it. 1b) gpuccio computes the functional information for that function, and observes that it is high, higher than an appropriate threshold for the System and the Time Span. 1c) after careful observation and consideration, gpuccio isn’t aware of a ‘necessity mechanism’ that explains X to his satisfaction; 2) therefore X exhibits dFSCI; 3) gpuccio says that everything to which he has ever attributed dFSCI has turned out to be designed, when the origin is known; 4) therefore gpuccio makes a design inference for X's origin. As you can see, there are many differences. Your version is a censored parody. The argument hinges on your ignorance in #1. This is easy to see, because if you knew of a necessity mechanism, then you wouldn’t infer design. It is only your ignorance of a necessity mechanism that leads to a design inference. Pure lie. My argument hinges on: 1) My observation of a function, and my explicit definition of it in 1a. 2) My computation of dFSI and its confrontation with an appropriate threshold in 1b. 3) The absence of a credible necessity explanation in 1c. As everyone can see, my argument hinges on three different things: the existence of a funcion, the complexity of the information linked to that function, and the absence of a necessity explanation. You say that "It is only your ignorance of a necessity mechanism that leads to a design inference", and that is a lie. All three components must be present to affirm dFSCI. If no function were observed, ir if the functional information were low, we would not affirm dFSCI, even in the absence of a necessity explanation. While the absence of a necessity explanation is a negative aspect, the first two aspects are strongly positive. Therefore, mine is not an "argument from ignorance". QED. By the way, I had already explicitly and clearly explained all that. gpuccio
Toronto:
I cannot believe you have made that charge. 1) I have asked, and got clarification from you, that “dFSCI”, is an attribute that is not dependent on its origin. Full stop. Period. 2) That means the only thing you can look at when assessing “dFSCI” for a string, is the string itself. 3) The assertion of positive or negative for the presence of design, is done after “dFSCI” has already been asserted, but before its origin is known. 4) That means that if I can deliver you a string that looks as if it was designed, I don’t have to tell you how I generated that string before you have to assess design or non-design. 5) If you assert design, but get that answer wrong, the use of “dFSCI” as a design detection tool is not valid. 6) Because we have agreed that the “dFSCI” of a string is not dependent on its origin, I don’t have to tell you how the string came to be until you tell me whether you think it has been designed. Is that clear enough?
Yes. Clear and true. And so? gpuccio
Alan Fox: I believe that two important properties of living being are the only explanation for the very limited, but real, powers of NS. They are: a) Replication b) Metabolism. Both must be present for NS to act, NS has some power, but extremely limited (the only selectable function is differential reproduction). And those limited powers, however, are the consequences of the huge information that allows reproduction and metabolism. So, no joy there for non design theories. gpuccio
Alan Fox: It must be frustrating. Yes, it is. “… but at the length truth will out.” Yes, it will. gpuccio
Alan Fox: Talking of language and the processes that go on in living cells is poor and anthropomorphic analogy. DNA sequences have nothing in common with language. Wrong. DNA sequences have all to do with software and software language. And with machines. I can agree that they are in part different from descriprtve language: indeed, they are prescriptive language, they implement a function, rather than a meaning. And if this is a "poor and anthropomorphic analogy", then a poor and anthropomorphic analogy is exactly what is appropriate. gpuccio
Alan Fox: Just to be clear, I can agree that the topology of protein functional space is still a rather open issue, but your statement that: "accumulating evidence suggests functionality is widespread in new protein sequences" is at best very naive. You quote Szostak, a paper that explicitly lies, as I have discussed many times here, and a paper whose title is: "Principles for designing ideal protein structures". (emphasis mine) On the other hand, you completely ignore Axe's work, which is centered exactly on this problem. No further comment is needed. gpuccio
Alan Fox:
In short, accumulating evidence suggests functionality is widespread in new protein sequences.
In short your position cannot account for any protein sequences. Joe
Passive organisms. Got it. Struggle for survival. Strictly metaphorical. Organisms don’t shape their environment. Got it.
I am using environment in its broadest sense which includes intra-species and inter-species competition as well as all the other factors both cyclical and catastrophic that play a part in creating niches. Are you a gardener, mung? Me neither but I find just watching the weeds spread over some cleared ground a fascinating demonstration of how the environment designs and selects. Recolonisation after a forest fire is fascinating too. No question interaction between environment and organism can change the niche as well as the organism. One important example would be oxygenation of the Earth's atmosphere by cyanobacteria. You are a Mike Gene fan so you must be familiar with the concept. Alan Fox
Eric Anderson I was pointing out your misconceptions of what the theory of evolution actually proposes. I haven't the expertise, time or inclination to go through all the evidence that supports the theory. Just a couple of quick points; One: A tiny amount of the theoretically possible protein sequences are used by living organisms. There is no current way of establishing function in unknown proteins other than by synthesizing them and examining their properties. But it can be and is being done. Jack Szostak started a trend (PDF) and the work continues. There is much more work going on which you can find by googling a few keywords. In short, accumulating evidence suggests functionality is widespread in new protein sequences. Two: Talking of language and the processes that go on in living cells is poor and anthropomorphic analogy. DNA sequences have nothing in common with language. You'd be welcome at TSZ if you want to expand on these issues. Alan Fox
toronto:
I so want to make a joke about Dover but I won’t.
Dover was a joke. Evolutionism didn't have an answer for IC before the trial and it still doesn't. Judge Jones didn't know a thing about science before the trial and there isn't any evidence that he does. The mistakes made during that trial will not be made again. And the strawmen that won the day last time will be fully exposed the next. Should be interesting... Joe
Alan Fox:
Organisms fall passively into niches that are available.
That's one view. Here's another:
Living cells have an unlimited capacity to detect and respond to their surroundings. ...A basic knowledge of and response to the environment are integral parts of ever living cell's makeup. Dennis Bray
Yes, that Dennis Bray. On this one, I'm going to go with what he says. Mung
Eric:
The idea that biological machines operating on the basis of a digitally-coded language can easily flow from one island of function to the next just doesn’t pass the smell test.
But what if your olfactory system has been repeatedly assaulted by the continual stench of the dying corpse of Darwinism? Mung
Flint @519 (quoted by Joe): Well, I was under the impression that the "anything goes, therefore there is nothing to explain" gambit was relatively rare, limited to a few folks we've been talking to on the other thread (e.g., wd400). Then Nick Matzke jumped into the fray (although he has been a bit more circumspect). Now Flint. I take it back. This seems to be a pervasive (and perverse) viewpoint that is becoming popular among evolutionary proponents. This, folks, is the argument against the need for specification in biology, in all its two-headed horrific glory: "You ID folks keep pointing to incredibly sophisticated systems, with multiple functional parts operating on the basis of complex specified information. But evolution could have taken a different path. Anything goes. So we don't have to explain how existing biological systems arose, because under our theory something else could have theoretically happened (indeed, our evolutionary process could spit out a complete mess of biological junk with no function at all). So we don't need to explain anything." ----- Ah, yes, the Great Evolutionary Explanation: Stuff Happens. Awesome. Just awesome. Eric Anderson
Alan Fox, No, it is you who needs to show that the islands of function are numerous and easily bridged. It is true that there is much we do not yet know about biology, DNA, etc. Yet everything we are learning points more and more to coordinated functional interdependence. Here is what we do know: - A functional machine in our everyday experience represents a vanishingly small representation out of the possible representations of the matter making up the machine. - Meaningful languages and codes represent a vanishingly small island of function among the near-infinite variety of non-functional possible arrangements. The idea that biological machines operating on the basis of a digitally-coded language can easily flow from one island of function to the next just doesn't pass the smell test. Nor does it pass the empirical test. Even prominent Darwinists acknowledge that we are dealing with small islands of function amidst a sea of possibilities. Of course they appeal to lots of organisms and the great goodness of natural selection to overcome the odds. But that the odds are there is pretty well acknowledged. Eric Anderson
Alan Fox:
Organisms fall passively into niches that are available.
Passive organisms. Got it. Struggle for survival. Strictly metaphorical. Organisms don't shape their environment. Got it. Mung
Alan Fox:
This is such a basic misunderstanding of the concept of variation and selection that I wonder whether if this is worth the effort.
Actually it's people like keiths and Toronto who are operating under a basic misunderstanding. A simple hypothetical self-replicating molecule does not guarantee either Darwinian heritability, Darwinian selection, nor Darwinian evolvability. But far be it from anyone over at TSZ to actually understand what's required for Darwinian evolution. Mung
keiths:
And in either case, as I said, your dFSCI argument remains an argument from ignorance:
Obvioulsy your position is an argument from ignorance as you can't tell us anything except that something happened, some time in the past.
1) gpuccio isn’t aware of a ‘necessity mechanism’ that explains X to his satisfaction;
Nope- more like, no one in the world can demonstrate any necessity mechanism that can produce X
2) therefore X exhibits dFSCI;
No, jerk. X (can) exhibits dFSCI regardless of how it came to be. It is just that all of our knowledge says dFSCI only comes from agency. And AGAIN, keiths, all YOU have to do is actually do the work and find a necessity mechanism capable of producing dFSCI. OR you can sit and whine on intertube forums. I know which one the smart money is on... Joe
Totally clueless- Flint:
What escapes them is the baffling concept that evolution has no target, that each organism followed a sort of drunkard’s walk to get where it is, and that this directionless process continues nonstop.
What escapes YOU is there isn't any evidence to support the claim that unguided evolution can produce the diversity of life observed. It doesn't even seem to be capable of anything but breaking stuff. Flint thinks that a company can lose a little on each sale but make in up with volume, ie selling more. Joe
Alan Fox:
There is no search. Organisms fall passively into niches that are available. We are all offspring of a long line of organisms that functioned well enough to survive in the niche they found themselves in.
No search, no science and of absolutely no use. Joe
I will go on answering, but only to interesting things.
It must be frustrating. "... but at the length truth will out." Alan Fox
Eric Anderson:
Go for it, replicate away all you want. It doesn’t change the fact that you are still searching for tiny islands of function amid near-infinite detritus.
This is such a basic misunderstanding of the concept of variation and selection that I wonder whether if this is worth the effort. Fistly: There is no search. Organisms fall passively into niches that are available. We are all offspring of a long line of organisms that functioned well enough to survive in the niche they found themselves in. Secondly: Nobody knows what functionality lies in as yet untested DNA=>RNA=>protein sequences and variation only stumbles a short way from existing functional sequences. You cannot justify talk of "near-infinite detritus" (presumably you mean non-functional sequences) unless you have confirmed lack of functionality in protein sequences not found in use in organisms now living or extinct. Alan Fox
Toronto @513 (quoted by gpuccio): Ah, yes. The ol' "but with self-replication nothing is impossible" gambit. Why on Earth would self-replication alter the reality of dFSCI? All self-replication means is that you have more trials available. But we've already granted more trials than all the particles in the whole universe. Go for it, replicate away all you want. It doesn't change the fact that you are still searching for tiny islands of function amid near-infinite detritus. Eric Anderson
To all: Comments at TSZ have become extremly vague and boring. I have not much time. I will go on answering, but only to interesting things. gpuccio
Toronto: The key component in evolution is the ability to self-replicate, and I think “dFSCI” faces a problem if self-replication is taken into account. Again, please give examples. You are strangely vague. gpuccio
Mark: And it is only your commitment that makes it seem possible – after all we have never observed any examples that come close to it. We have no idea how it could be done. It seems to me that we are both assessing the design option on the basis of prior commitments – why stress one rather the other? I have the slight advantage in that there have been many phenomena that were formerly explained by a commitment to a the design(s) of a supernatural force of some kind which are now universally accepted as being explained by previously unrecognised natural forces. There are zero occurrences the other way round. I don't agree, and I have explained why. There are objective reasons to believe that a conscious intelligent being has designed the biological information, and only your previous commitment can deny that. But I will leave you to your ideologies. As said, I respect faith. Accepted. I guess you are saying that if a string is found to have dFSCI for any function then it always turns out to be designed. Yes. Formerly you answered a) which avoided circularity – but of course that implies dFSCI is relative to an observer’s knowledge. It sounds like you are now shifting to b) which is makes dFSCI circular. I don't understand why you say that. I am not "shifting to b". I can see nothing in my words that justifies this comment. Perhaps you could explain better why you think that. The evaluation of dFSCI is not subjective, but it is certainly relative to what can be assessed by observers from a careful observation of the string. Well of course the body of widely known scientific laws changes dramatically from time to time. There is nothing magic about that. But what I am really getting at is that an explanation may be totally unanticipated by one observer or a group of observers even without discovering new laws of nature: tectonic plates are a good example. No one among all the community of geologists thought of this as an explanation of the formation of mountains and earthquakes. But it did not require new laws of nature – just a fertile imagination. So, maybe one day a "fertile imagination" will falsify dFSCI. Or maybe not. Until then, it works. The problem here is that you and I have much the same body of knowledge and intellectual skills. So any explanation that I thought of you would have already thought of and therefore there would be a necessity mechanism and you would not regard the string has having dFSCI. Suppose I found an example of a person or group of people with less knowledge than us because of history or age or education. Then I produce an example of a functional digital complex string for which they cannot see the necessity mechanism that created it, but we can. Would that refute the dFSCI argument? Is that really an argument? My argument is: I can recognize designed strings by dFSCI, without false positives. Can you falsify that? Your arguments are of the kind that has been shown. Anyone can judge. Hang on – dFSCI only points to design if you accept your world view! No. It points to design in the results of our challenge. gpuccio
Flint:
I think this coupled with the fact that most of those folks forget or ignore all the related drunkards that went extinct from mutations that didn’t provide enough use in given environments or simply those organisms that didn’t get to pass on their genes. These two groups are just as significant to the existence of the organisms we have today and are part of the reason that the target concept is unnecessary.
Right. All those misses are why the target concept is not necessary. Forget the hits. Got it. Mung
petrushka:
GAs wreck the neat mathematical arguments of the ID movement, which is why Dembsky tries so hard to cast them as “searches”...
Sure. GA's as a search is a Dembski concept. He made it up all on his lonesome. Right. That's one of the most stupid comments I've ever seen from you. Having a bad day? Or just knowing you can say any old thing there at TSZ and no one there will say any different. WikiPedia:
In the computer science field of artificial intelligence, a genetic algorithm (GA) is a search heuristic
Search Space A population of individuals are is maintained within search space for a GA, each representing a possible solution to a given problem. Each individual is coded as a finite length vector of components, or variables, in terms of some alphabet, usually the binary alphabet {0,1}. To continue the genetic analogy these individuals are likened to chromosomes and the variables are analogous to genes. Thus a chromosome (solution) is composed of several genes (variables). A fitness score is assigned to each solution representing the abilities of an individual to `compete'. The individual with the optimal (or generally near optimal) fitness score is sought. The GA aims to use selective `breeding' of the solutions to produce `offspring' better than the parents by combining information from the chromosomes. here
If we are solving some problem, we are usually looking for some solution, which will be the best among others. The space of all feasible solutions (it means objects among those the desired solution is) is called search space (also state space). Each point in the search space represent one feasible solution. Each feasible solution can be "marked" by its value or fitness for the problem. We are looking for our solution, which is one point (or more) among feasible solutions - that is one point in the search space. The problem is that the search can be very complicated. here
Genetic Algorithms in Search, Optimization and Machine Learning petrushka:
... and why gpuccio simply defines them as irrelevant.
Except that he doesn't.
Figures don’t lie.
So? Why does the truth matters to you? Mung
Petrushka: One can, however, generate a pretty good encryption key simply by specifying the starting point within the digits of pi. It is not beyond ordinary means to calculate a portion of pi, starting with any arbitrary point in the sequence. This could be XORed with the message to be encrypted or decrypted. And that, I suppose, happens every day without any design intervention. gpuccio
Keiths: Yes, though gpuccio would no doubt respond that any physically realizable random number generator could not generate the complete works of Shakespeare within the lifetime of the known universe — hence the universal probability bound. Thank you. And even if pi turns out to be exhaustive in the required sense, gpuccio could argue similarly that a physically realizable ‘necessity mechanism’ for generating the digits of pi couldn’t create the works of Shakespeare within the allotted time. Does anyone really believe it couls?
However, this would mean adding yet another qualification to his patchwork argument: Instead of It is required also that no deterministic explanation for that string is known. …it would have to be: It is required also that no deterministic explanation for that string is known that could have produced the string within the lifetime of the known universe. And of course, it still ends up being an argument from ignorance.
I have nothing to add. It's all already there. Haven't you read the part where I speak of defining the System and the Time Span? gpuccio
Petrushka: The problem with the concept of isolated islands is that it is simply wrong. As Petrushka says... gpuccio
Keiths: Amusing to think that somewhere within the digits of pi is a representation of the best possible defense of the argument from dFSCI. The only question is: is it good enough? I strongly suspect the answer is no. The answer is no. gpuccio
Mark: Nice example. Kudos to Gpuccio 500 for accepting it may be an example of non-designed dFSCI. I reallyy hope for more from him on this as it may make some of his ideas clearer. I don't unserstand what you mean. I also don't understand what OMTWO means, but that is normal for me. Could you please explain? gpuccio
Toronto: If you find an algorithm that can “uncompress”, i.e. generate, a string that for any other reason would be acceptable as “dFSCI” positive, and that compressed string is below the UPB, the concept of “dFSCI” is invalidated. dFSCI can be invalidated as an indicator of design only in one way: a) a string is correctly assessed as exhibiting dFSCI in a defined system and time span AND b) you show that it can credibly be generated without any design intervention in that system and time span. It's as simple as that. gpuccio
Toronto:
The key component in evolution is the ability to self-replicate...
says who?
I think “dFSCI” faces a problem if self-replication is taken into account.
so? Mung
Toronto: As mentioned here by many, self-replicators are necessity mechanisms that can generate a lot of information that would be considered “dFSCI”, and yet the “information” required for self-replicators is below the UPB. I am not sure what you are referring to. Please, specify. gpuccio
Did you see it on TV?
More importantly, was it outside the debate context? Mung
OMTWO: Yet here it seems that despite the fact that dFSCI has “billions of billions” of usable examples (KF’s claim) the fact that it can be used to detect design has been, well, falsified. Very, very interesting. When and where did it happen? Did you see it on TV? gpuccio
Toronto: Please, discuss your problems with UB with UB. If you exclude highly compressible strings, you have excluded an “origin” for strings that in all other respects would qualify as “dFSCI” positive. A negative assessment does not exclude anything, because dFSCI has many false negatives. I accept more false negatives in order to avoid false positives. If the “information” in DNA is found to be compressible by some algorithm, does DNA now become “dFSCI” negative? If it turns out to be higly compressible, the result of some simple computation, that would be exactly the same situation as finding a necessity mechanism that can explain it. That would falsify the procedure. As I have said, compressibility and necessity mechanisms are essentially the same thing. You and I have said that regardless of origin, any string whose bit configuration meets “dFSCI” requirements, has “dFSCI”. Yes, and so? Are you proposing a simple computation that can give us the sequence for a functional protein? I would immediately propose you for the Nobel! gpuccio
Joe Felsenstein: So it seems to be a considerably weaker argument than Behe’s. I have no pretence that my argument is stronger or weaker than Behe's. It's just formally differnet, but I agree that all ID arguments share the same fundamental intuition. I respect deeply Behe's work. I just express thing in my way, and try to answerr the possible objections of my kind antagonists. in UD comment #442 gpuccio chastised me as misrepresenting gpuccio’s method for analysing the strings proposed in the Challenge I don't want ro chastice anyone. I try to correct wron statement when I see them, because that is the spirit of a debate. You had said that I wanted "to know exactly how they were made as part of the dFCSI assessment". IOWs, that I asked for the origin before assessing dFSCI. That is simply not true. I have never done that. All the clarifications I hav ever asked during the challenge were about the functional definition offered by those who were proposing the string. I have never asked anything about the origin of the string in order to assess dFSCI. That's all. It's true, in the end I wrote: "Please, be more careful in the future". But that was not to "chastise" you, but because really each incorrect statement about what I have said or done, in this context, is going to cost me a lot of work just to clarify the point. gpuccio
Mark: So we have random, design and “without the need for probabilistic treatment”. Where do explanations that make the outcome more probable than random but not fully determined fit? I am surprised at how you put it. Let's try my way. a) A necessity explanation explains what we observe by laws, usually mathematical laws, where the evolution of a system is completely determined by initisl state and by the laws themselves. A good example is classical mechanichs. In a necessity system, the evolution of the system is determined with probability 1. b) In a sense, all natural phenomena, if we do not deal with quantum physics (or, maybe, conscious phenomena) are usually assumed to be caused by necessary laws. But in many cases, the nature itself of the system prevents us from achieving any detailed description of its evolution in terms of those laws. That's where a probabilistic description is of some help: it does not allow us to describe in detail what will happen, but it still give us some useful information about what can happen. IOWs, probabilistic systems are indeed necessary systems, but our description of them is completely different. Quantum mechanics is obviously all another matter, as you well know. Conscious events: well, let's say they are an open problem. c) Design is any process where a conscious intelligent being outputs a specific, purposeful form from his conscious representations to a material object (or system). As the origin of desogn is a conscious representation, I would say that its real nature remains an open problem. So, as you can see, it is not that necessary systems are explained in terms of probability. Necessity is the natural way we cognize things: the cause and effect relationship, which is so basici to all human reasoning. Probability is a more sophisticated concept, whose nature is still open to debate. It is, however, a useful cognitive tool, fundamental for modern scientific thought, because most systems cannot be described in detail in terms of necessity. With regards to an outcome being "more probable" or less probable", I would say we are always in the case of probabilistic description. A random system is a random system, whatever the probability of an outcome. It is true, however, that necessity effects can change the probabilities of outcomes in a random system. Let's take the simple example of coin tossing. If the coin if perfectly fair, the discrete distribution of the two possible outcomes of a single tossing will be uniform: 0.5 for H, 0.5 for T. If we change the weight distribution in the coin, we are acting by law, and the result (the different description of the coin in traditional mechanics) can be easily described by necessity laws. But, when we toos the coin, the result will still be unpredictable, because of the many variables we can't control. We are again in a random system. But the probabilities of the two events have probably changed. Let's say that now H has probability 0.6 and T has probability 0.4. It is still a perfectly valid random system, with a different distribution of probabilities, because of the necessary effects of our acting on the coin. Something like that can be said of the traditional algorithm if RV + NS. The system is a random system, and all the variation derives from random events. But we know that some configurations, if they happen by chance, will modify an important parameter of the system, the reproductive rate of some beings versus others. The effect of that new asset on reproduction can be described by laws, biochemical and biological laws. However, as the necessary results of this necessary variation interact with other random variables, the final effecvt is in some way unpredictable. Still, we anticipate, and indeed verify on the field, that those variation that affect negatively, because of its necessary effects, some important existing biochemical function, will usually affetc negatively reproduction, in the measure that it depends on that function. The opposite can happen although much more rarely, for beneficial mutations. Neutral mitations by definition should not have any necessity effect. So, here too, the system remains a random system, but the probabilities of specific outputs can change. As I have tried to show, and model, the introduction of a step of pure, perfect NS in a trasition greatly affects then probabilistic barriers, essentially by increasing the probabilistic resources of a specific outcome. that is due essentially to the expansion of the intermediate. I hope this answers your question. What do you mean by “best” explanation? Is it different from most probable? Slightly. And again, it is a question of worldviews. In your, all seems to be described in terms of probability. Not so in mine. In mine, cognition is a complex act of the consciousness, which implies reason, probability, intuition, feeling, choice. Let's say that the best explanation is a choice of the cognizer, which can be, at least in part, be described as a comparison between probabilities. I would rather desccribe it as a comparison between complex representations. But you accept we need to centre it on an intelligence with power and motivation to design life? Whether this corresponds your God or not I am happy to leave. Yes, I certainly accept that. This is unreasonable. There are an infinite variety of world views. You write as though there were only two alternatives my view and yours. You make it sound as though I am making the commitment which excludes ID. But you can believe in non physical conscious beings and still think it impossible that there was something with the motivation and power to design life. You have to make the prior commitment to the extraordinary possibility of such a designer for ID to work. This is unreasonable. There are certainly infinite world views, probably one for each conscious intelligent individual that ever existed. But it's only your prior commitment to your world view that makes you think that a designer "with the motivation and power to design life" is an "extraordinary" possibility. I can't see anything "extraordinary" in it. How do you explain that? Therefore a string can have dFSCI for one function and not have it for another, right? Yes. Therefore it is not a property of the string which can be correlated with design. This is simply ridiculous. Of course it is a property of the string, in relation to that function. The string has a specific form to express that specific function. For another function, it has no specific form. It seems that sometimes you fall back in some form of "animistic" reasoning, as though dFSCI should be a "ghost" that either haunts the object or not. It is a property, relative to a function. What is difficult in that simple concept? Whatever type of necessity mechanisms we are talking about (and this does seem to be getting rather complicated) one observer may know of such a mechanism while another does not. Therefore for one observer the string has dFSCI while for the other it does not. It may that as a result of discussion one observer will change his or her mind. But that happens later. I cannot see how you can avoid this. It follows from your definition. The simple fact is that I am reasoning in a very clear and empirical way: a) We observe the string, and try to know as much as possible about the system where it emerged. b) We eliminate all strings that have any evidence of being ordered and highly compressible. c) We carefully consider if any laws acting in the system are logically related to the information in the string, and therefore can explain it. If all these conditions are reasonably satisfied, we affirm dFSCI. Any non biased observer will affirm it. If there are difficult situations, they can be discussed. There is no more subjectivity here than in any scientific approach. As I have said, the purpose of the necessity clause is not to deal with possible "magical" necessity explanations, or with sophisticated mechanisms that are owned only by an élite of theosophists. The question is simple: in the light of what science knows, is this information connected to simple computations (hiughly compressible)? Or is it in some way what we would expext from the working of physical laws, or of biochemical laws, or of any other well known law of nature? If the asnwer to both questions (that are, in essence, the same question in two different forms) is no, then the string objectively exhibits dFSCI: it will have the form of a pseudo random string, a string that nobody can specially identify, except for its functional content. IOW's it's only the functional content that makes the string part of a specific subset of the search space. The magic necessity mechanisms that would explain that kind of strings exist only in your mind. Show one of them, prove that it works, and you will have demonstrated that all my discussions about dFSCI are bogus. It seems to me your are saying that dFSCI is only true if there is no necessity mechanism (as opposed to no known necessity mechanism). That way leads back to circularity. No. Stop there. Known, in the sense that someone can really show it. As opposed to fanciful, never seen, hoped for, imaginary. Known. That does not mean that, if I cannot see an obvious mechanism that should be evident to all those who can reason and have enough understanding of the context, my assessment of dFSCI will be valid. As I have said, dFSCI, like any other procedure, must be applied by intelligent and responsible observers, who know well the definition and procedure and understand well their meaning. If those elementary rules are followed, there is nothing subjective in it. Why phrase it in terms of my prior belief? It can equally be phrased in terms of your prior belief that an intelligence with the power and motivation to design life is possible There is a good reason for that. dFSCI empirically points to design. So, it is natural to accept that it can point to design even in those cases where the origin cannot be ascertained. It's you who deny that simple connection, in name of the utter improbability of a designer "with the motivation and power to design life". An improbability that derives only from your world view. So, I am only putting things in the correct logical order. gpuccio
Joe Felsenstein whines:
So it seems to be a considerably weaker argument than Behe’s.
And you still cannot refute it with actual evidence. What does that say about your position? :razz: Joe
Strange that when all it would take to refute gpuccio's claims is actual evidence that demonstrates some necessity mechansim can produce dFSCI, we don't get that, we get mangled spewage in its place. So the conclusion is either evos are cowards, just plain ignorant or supporting an unscientific position. Joe
Keiths: However, you must be aware that this very same understanding of your argument is what leads me to the conclusion that dFSCI is a useless concept that adds nothing of value to the discussion. All it does is to impart a pseudo-scientific sheen to the ID argument and disguise the fact that it is really just an argument from ignorance. OK. I will live with that, as long as you help me being understood on the other side! :) Sorry for the accusations (I would not call them insinuations, they were very explicit) of lying, but I believed, and still believe, that in the context you fully deserved them. But I am sure you can live with that too. :) gpuccio
Allan Miller:
In my world view, Gpod exists, I want one! That is going straight on my Christmas list.
:) Once I come out with something funny, it is not even intentional! (Could I become rich with that idea?) gpuccio
Mark: Well that depends a bit what you mean by “natural necessity” which I find rather vague but I think means “not designed or random”. No. It means an explanation where natural laws necessarily determine the observed output, without any need for a probabilistic treatment of the system. It is a bit stronger than that. If 3 is even more unlikely then it would be irrational not to prefer 1 and 2. Do you accept that this is true? It is not clear from what follows. If 3 is more unlikely, I would prefer the more likely explanation, or just look for another one. I would not express that choice in term of being "ratinal" or "irrational", but I would certainly choose what seems the best explanation, or just admit that there is no credible explanation available. I have no problems to live with mysteries. Yes under your world view God is the most likely explanation for everything for which we cannot find an answer. No. You must excuse me, but I really believe that you do not understand my world view. In my world view, God is an answer for all things for which He is an answer. Some of those things could probably be answered differently, but again I choose the best explanation. The negative concept of a "God of the gaps" is yours, and only yours. In my world view, God is a very tangible reality, and has nothing to do with "gaps". However, I must remind you that I have never used the concept of God in my arguments. That concept is very intimate for me, and I feel no need to use it in this kind of discussions. I have, indeed, used the concept of consciousness and of non physical conscious beings, and similar, because those are a credible, although not necessary, implication of the design inference for biological beings. I have only quote that I believe that God exists to correctly characterize my world view, but I don't think we should center our discussion about ID on the concept of God. But the design argument is meant to be independent of any world view. It is an important concession that it is only valid if you adopt your world view. No. I believe that no argument, of any kind, can be "independent of any world view". That is simply impossible. And the point is not that the design argument is only valid if someone adopts my world view. It's the other way round. The design argument is perfectly valis for all, except those whose worldview has alredy desided, for instance, that non physical conscious beings cannot exist, and that therefore 3 is more unlikely of what has been show to be extremely unlikely. It's your commitment to your worldview that makes 3 so unlikely. I have only proposed to agree that we cannot establish the probability of 3, because that depends critically on personal worldviews. Therefore, your argument that my argument should be refuted, because 3 is too unlikely, is not valid for all, but only for those committed to your world view. All the others, including serious agnostics about the problem, can well accept my argument, and ignore yours. Well actually the probability of 2 is also unknown. We don’t know what necessity mechanisms might be round the corner. I only said that your argument assumed this probability was low. This is just your opinion. My argument, and my intelligence, assume that the probability of 2 is extremely low for strings of the type that would elicit a positive assessment of dFSCI. If it were not so, we would have many counterexamples already available. Careful. What I have discovered over the course of this debate is that dFSCI is a relationship between a person’s knowledge, a function and digital string. (It also describes a process which might work well for detecting design if design is a common explanation (see my medical analogy)). Only by accepting this can you avoid the circularity objection. A string can have dFSCI for one function and not for another. It can have dFSCI for one observer and not for another. It can have dFSCI for an observer at one time and not at another. It is not a property of a string which can be “output” by anything. I don't agree. It is certainly true that dFSCI is evaluated for a certain definition of function, and is relative to that definition. That is implicit in the definition and procedure of dFSCI, and is perfectly true. But I don't agree that an object "can have dFSCI for one observer and not for another". Allowing for the possibility of individual errors, or of obstinate irrational positions, which are the right of any human, dFSCI can be objectively decided. If there are differences of judgement, these can be discussed, and a correct adherence to the definition and procdure will always bring to a consensus, at least among reasonable observers. And I do not even agree that an object "can have dFSCI for an observer at one time and not at another". As I have explained to Joe, and them refined to Toronto, that is not really true. The necessity clause is necessary to exclude essentially highly compressible strings and pure data strings, as we have seen. It is not meant to exclude arguments like unguided evolution, or any similar non obvious necessity explanations, which could work but have never been found to work. As I have said, the moment such kind of explanations were shown capable of producing objects that exhibit dFSCI, IOWs that are not highly compressible, are not data strings, cannot be easily explained by existing laws, and so on, then the whole meaning of dFSCI for a design inference would be falsified. So, I don't agree that the judgement about dFSCI is subjective. It is not. Finally, I will reformulate your two styatement in a way that I can fully accept: a) There are reasons to refute the argument from dFSCI only if you have a prior belief that an intelligence with the power and motivation to design life is extremely unlikely. b) If the design explanation were even less probable than the random or necessity explanations, then I would choose the best explanation available, or just procalim the issue still a mystery, if no available explanation is IMO credible. gpuccio
Joe Felsenstein: Interestinger and interestinger. So the thing that must be explained is not origin of a gene from an unrelated sequence but new information needed for the origin of a “new function”, even if from a related sequence. So what has to be “new” about a new function? Where is that explained in the definition(s) of dFCSI? I believe it is rather simple. We can use dFSCI to evaluate how unlikely it is for a protein gene to arise from some unrelated state. In that case, the full FI in the gene must be explained. On the other hand, we can use dFSCI to evaluate how unlikely is a transition from a related state to a new state that has a different function (or even a refined level of the same function). Let's take the case of emergence of nylonase from penicillinase, for example. We can give penicillinase as already existing (the starting state) and consider the transition to nylonase, which implies a definite change of affinity for a substrate (nylon), with the ensuing ability to metabolize it. That transition generates a new function (the ability to metabolize nylon), but it is not complex, because it implies only one or two substitutions (I don't remember exactly). Other transitions, that allow the emergence of new biochemical activities in a same family, can have different complexities. dFSCI can be a valuable tool to analyze them too. Obviously, the explanation of the emergence of a new gene remains its most relevant application. gpuccio
Upright BiPed: Thank you! Sometimes my ego needs some boosting from friends :) gpuccio
Toronto:
Why would you say that only finding a “necessity mechanism” after a positive “dFSCI” assessment, falsifies the validity of the procedure? Any string X, that has passed all other tests except an assessment of whether it is a result of a “necessity mechanism”, is already functional at the level you claim only design can deliver. If you find a “necessity mechanism” that can generate a string that you would assess as positive for “dFSCI” had no “necessity mechanism” been found, then “dFSCI” has already failed as a procedure for testing design. There is no need to wait to find a “necessity mechanism” to invalidate “dFSCI” as a design detection tool for an otherwise suitable string, if you’ve already found it beforehand.
I agree. That would falsify dFSCI just the same. I was answering Mark, I believe, and using the framework of his argument. But you are right. If a necessity mechanism can generate strings that would normally be considered, by a careful observer well aware of the correct procedure, as exhibiting dFSCI, that would falsify the utility of the procedure itself. gpuccio
Petrushka:
Gpuccio has been at this for at least a couple of years, and I thought he had made it plain that he believes protein domains were created ex nihilo by a non material designer. At one point I believe we discussed the possibility that the designer revisits his creation every million years or so to pop in a new domain. As evidenced by the apparent history of new domains appearing in new lineages. Two lines of reasoning are critical to GP’s argument. 1. Function is isolated and cannot be bridged by evolution. 2. At least some domain sequences have no relatives or variants. He uses this to reinforce the concept of isolated islands. I see no reason to get excited about the fine points of his definition of dFSCI when these are the real meat of his argument. If he is correct that one needs 80 or more bases in a precise sequence before any selectable function appears, then he has a strong argument.
OK. All that is very reasonable. By the way, I would precise that I beleive that the functional information in protein domains was inputted by a non material designer. There is no reason for the string to be created "ex nihilo". Only designed by intelligence. Moreover, I would not accept that "the designer revisits his creation every million years or so to pop in a new domain." I never identify the designer with a creator. That is not a ocnclusion that ID can reach. And anyway I don't think that the designer "revisits" anything. Fow what we know, he (or they) could just be there always. It is true, however, that the history of information emergence in life is "punctuated", so his interventions, at least the most obvious, are certainly discontinuous. gpuccio
GP, you are a gem. Upright BiPed
Joe Felsenstein: I see that gpuccio (#476) has agreed with you. Of course gpuccio does not formulate dFCSI in terms of proteins — it’s strings. But gpuccio does want an “explanation” of the string, as a step-by-step scenario for the evolution of the string from an unrelated string. That's correct. But, as I have said, we can also apply the concept of dFSCO to a transitionfrom a related state, just by measuring only the functional complexity of the transition. In that case, the functional complexity that was alredy available in the starting state is not computed. dFSCI is a flexible tool. The point is always the same: how much information is necessary to explain the new function that arises? gpuccio
Zachriel: Of course, the vast majority of scientists believe that evolution does result in functional complexity. Again an appeal to conformistic thought? The entire biosphere is the counterexample. Unless it is designed. Please, don't be circular now. Not sure what you’ve accomplished with dFSCI, as #4 is determined external to your calculation of functional complexity. The most you can say is that you have identified a property, functional complexity, then assert by analogy, while rejecting the evolutionary sciences, that the property signifies design. It's not "the most I can say". It's what I say. Is that the entirety of your point? Yes. Of course it’s negative: “#4) It is required also that no deterministic explanation for that string is known.” That’s a negative condition. Wrong. Something is negative, and is an "argument from ignorance", only if it is based entirely in negative conditions. But a negative condition can certainly support a positive definition. ID is an "argument from ignorance" only in the ignorant arguments of its adversaries. gpuccio
Mark: I have nothing against your reflexions about medical diagnosis. I think I have already answered your points on my previous post. However, I would also say: a) That the simple fact that dFSCI exists in nature is amazing. Indeed, we don't know how conscious intelligence does it. But it does. b) All your considerations arise fromsticking to the concept that "humans" do it. You never consider that "humans" can do it only because they are conscious and intelligent. So, we are back to the question: what is consciousness? Waht is intelligence? If you believe that consciousness and intelligence are the product of a physical brain, your reasoning is consistent. But it is based on a false premise. Consciousness cannot be explained by arrangements of matter. Never has been, never will. If that were true, computers should be able to generate original dFSCI, independent on what is inputted in them. They can't. They will never do that. In the end, our scientific reasoning is always conditioned by our world views. Philosophy of science is right about that. Science is not the place of absolute knowledge. But many things can be shared even if worldviews are different. So, I am happy that I could share my concepts about dFSCI with you, and that in the end only your worldview prevents you from accepting them. gpuccio
Mark: First – I apologise about the self-critical comment. In fact I thought about editing it and removing the comment shortly after posting it – but it is bad practice to edit comments that have been posted except for clarification. I happily accept the apology. No harm done! I am going to leave the “outside the debate context” argument because I have failed to explain what I mean and I am tired of it. Me too. There are easier ways to expose the problems with the dFSCI argument. OK, let's see. Presumably you are aware that there are deep conceptual problems with classical hypothesis testing (and Fisher’s original formulation has been abandoned by statisticians). In fact you can’t live without Bayesian inference. You use it – but without realising. I will explain. Ehm, I was afraid you would go back to Bayesian inference. OK, let's see. First let’s be clear. You can never know there is no natural necessity system. All you can say is that you do not currently know of one and assess the probability of one existing. A quite different thing. That's waht I have always said. The concept of knowing that something cannot logically exist is not part of my thinking. It has repeatedly come from your side.
So given a digital string with a function you have three alternative types of explanation: It arose through “random” arrangement of the string (there are problems defining what “random” means here but that’s another post) It arose through a natural necessity mechanism (and a natural selection process is one such process) It was designed
That smells of Dembski, but it's fine form me. Let's remember, however, that these three "explanations" are derived from expereince, and are not logical alternatives that exhaust all that can exist. We are not dealing with a logical theorem here. Now, let's go to your "Bayesian" argument. Please, let me express in simple words, that IMO catch your concept without going into the details of Bayesian statistics. What you are saying is: I can agree that the probabilities of 1 and 2 (RV and necessity) may seem low, but if 3 (design) is even more unlikely, I prefer 1 and 2. You some up the true point in your final statement: But of course, unless you have a prior belief in a God, the same is true of 3 as it applies to life. There is very little chance of a designer being able to implement life and no obvious reason why such a designer would want to do so. Well, I understand your position, but have to disagree. That's why: a) Your position depends critically on your pre commitment to a specific world view: not only one where God does not exist, but one where non material beings do not exist, consciousness can be explained by arrngements of matter, and consciousness has no special properties that matters cannot explain. OK. I have nothing against your world view. But it is not mine. And it is not the world view of a lot of people in the world. Above all, it is not a world view that is more compatible with science than any other. In my world view, Gpod exists, non physical beings exist, consciousness cannot be explained by matter, and it has distinctive properties that cannot be explained by matter. Now, I am not asking you in any way to share my world view, or to even consider it non laughable. What I am saying is that you have no right to ask me to make my scientific inferences as though your world view were true, just as I cannot ask the same of you. IOIWs, we cannot establish the probabilities of 3 (a non physical designer, that has designed life), unless we impose our personal world view on all. b) And then? Well, we cannot establish the probabilities of 3. But the probabilities of 1 and 2 can well be established and do not require a world view war. And they are extremely low. But here is something we can assess, because it comes from observation: a conscious intelligent being seems to be the only entity in the universe that easily outputs dFSCI in designed objects. So, if conscious intelligent beings other than huamns exist, and could have been existing and interacting with matter when life appeared, and in the course of its history, the abundant dFSCI in living things can be explained by the only thing that seems to have the power to generate it: conscious intelligence. Maybe that is nothing for you. Maybe your commitments to a reality where the only cosncious intelligent beings are humans is so strong, that you easily dismiss 3, in spite of its explanatory power, and of the lack of any other explanation. That's fine for me. As said, I respect peoples' faith. I am happy iof we can agree on that: a) You say: I agree that my explanation is not satislying, but it is the only one I can accept, so I stick to it. b) In alternative, you can just say: "I don't know". c) I will say: I know that my explanation implies the existence of conscious intelligence in forms that are different from human intelligence. That's not a problem for me. Indeed, my map of reality is absolutely compatible with that implication. I happily accept design as the best explanation for biological complexity, because all other explanations are really non credible, and because conscious intelligence is a principle that exists, and that has repeatedly demonstrated to be able to easily generate dFSCI. And so, we can live happily together, in our Bayesian paradise. gpuccio
Allan Miller: ‘Transitions’ are all about moves between related states - related by descent When I say "unrelated state", in my argument, I mean "unrelated at sequence level". To be very severe, we can choose groups with less than 10% sequence homology. You can get 6258 such groups from the SCOP database. But separating out ‘protein domains’ is an arbitrary class that we can see but evolution/genetics cannot. It amounts to protein baraminology. Is SCOP protein baraminology? But the string-copying process doesn’t know where genes start and stop, let alone domains, and makes no contribution to assessments of the length of a segment whose entire linkage sequence is discretely ‘functional’. Yes, and so? That just means that variation at that level is random. Function is assessed in lives, skewing the distribution of non-demarcated strings presented to the copy process in favour of the ‘useful’. It's not perfectly clear. I would say that function works in lives, and is assessed in the consciousness of conscious observers. But OK, let's go on. What GP misses is the fact that parts of biological strings are related to each other. Am I really missing that? The basic unit of the protein is simply the amino acid, not the domain. The aminoacid is the basic structural unit. It is not certainly the basci functional unit. The basic functional unit is the domain. And the basic unit of the amino acid coding segment is the nucleotide, blindly copied. Yes, the nucleotide is the basic structural unit of DNA. Are we done with trivialities? These ‘modules’ can build by duplication locally or distally into higher-order modules, Which modules? Aminoacids and nucleotides? What are you saying? That single aminoacids can be joined, and form sequences of two, three, "n" aminoacids? That single nucleotides can form sequences of nucleotides? Is that what I was missing? among which are the domains that have proved of evolutionary value en bloc, and hence are found repeatedly in various proteins of various functions. So, up to now we have discovered that functional domains are made of sequences of individual aminoacids. Thank you for the interesting information. But the domains themselves are modular. A four-acid sequence may give you one turn of a helix. Duplicate it and you get two. Duplicate that you get four… So, let me understand: a four acid sequence is functional, and is naturally selectable? Does it give reproductive advantage? And may I ask, are proteins made of "words" of four aminoacids? Can we see those repeated sequences when we blast proteins? Answers, please. In no time at all you have a lengthy structural element. A functional, naturally selectable element? A bit of point mutation, with quite a bit of latitude due to relatedness of amino acid properties, may then obscure the ‘true’ relatedness of these elemental repeats. Excuse me, I don't understand. We can find homologies netween related proteins in a family, even after the whole process of evolution from OOL to now, and you are saying that we cannot find any homology between proteins generated by the duplication of the same modules? That's good logic, indeed! Then GP comes along and says that there is no way that this longer sequence could have arisen by mechanical means Yes, I do. And with no clear audit of the steps, thanks to the eliminatory and obfuscatory nature of the very processes of evolution, his diagnosis of Design is irrefutable Only one thing is irrefutable. With your faulty logic, you insist in making of neo darwinism a non scientific theory, one that will never be supported by facts, and that any Popperian student would immediately dismiss as pure phylosophy. I think I am more charitable with neo darwinism: I consider it a perfectly scientific theory, one that can be falsified. Indeed, one that has alredy been falsified. I am afraid that I have missed what I was missing... gpuccio
toronto:
In short, we don’t need design if “necessity mechanisms” are up to the task.
Very good, we have only been telling you that for years. However you don't have a necessity mechanism that is up to the task. And nice to see that you still don't understand what gpuccio is saying. As I have told you already, necessity mechanisms are excluded because they have been tested and failed. Joe
toronto:
Joe, gpuccio does not assess “dFSCI” positive if a string is the result of a known “necessity mechanism”, even if that string passes all other tests for “dFSCI” except for its origin due to a known “necessity mechanism”.
No, dFSCI exists regardless of how it came to be. We have been over and over that already.
If a known “necessity mechanism” can generate a string that would be as functional as one requiring complex design above the UPB, why would I need to go through a design procedure?
There isn't any known necessity mecahnism that can produce dFSCI. When you find one please submit it to peer-review. Until then, stuff it. Joe
Zachriel:
Of course, the vast majority of scientists believe that evolution does result in functional complexity.
Of course that alleged vast majority can believe whatever they want to. However they cannot demonstrate that unguided evolution can produce functional complexity and that means they don't have any science to support their belief. What does that say about their objectivity?
Of course it’s negative: “#4) It is required also that no deterministic explanation for that string is known.” That’s a negative condition.
Pure stupidity- ALL design inferences require the elimination of necessity and chance. That is part of Newtons four rules of scientific investigation. Joe
To all here: I must say that I am happy that at least some of my points seem to be better understood by our interlocutors. That is a good result. I know they don't agree with them, but that's finme for me. I don't want to convince anyone. But being understood is a satisfaction in itself. Keiths and me have even become, at least in part, coworkers! I know, there is still his strange obsession with parodistic circularity, but I will let him have fun! gpuccio
F/N: Have the objectors to design theory and the use of the FSCO/I concept as a sign taken time to see how the statistical form of the second law of thermodynamics is framed, and how it is confidently asserted but is subject to empirical refutation by empirical counter-example? KF kairosfocus
Keiths:
Joe, But Dembski’s CSI is not formulated in terms of originating a new gene from an “unrelated” one… Neither is gpuccio’s dFSCI. He attempts to apply dFSCI to the protein question, but dFSCI is not formulated in in terms of the protein question.
Good job again :) gpuccio
Joe Felsenstein: But Dembski’s CSI is not formulated in terms of originating a new gene from an “unrelated” one — Dembski could as easily be talking of making (large) improvements in an existing gene. But dFCSI is not concerned with that, instead with the “origin” of a new protein from an “unrelated” one. Different notion entirely. Well, I don't know... As explained, dFSCI can be applied to transitions from a related state, but we have to ignore the related part in the computetion, and just compute the functional complexity of what needs to change to obtain the new function. gpuccio
Joe Felsenstein: One thing it means is that once a gene family (say the globins) gets started, none of the subsequent change creates dFCSI if the original globin had it. That's more or less correct. To be more clear, let's say a gene family has started. I would say that two different kinds of events seem to happen in its following history: a) First of all, the same proteinb, with more or less the same structure and function, becomes gradually different in different species at sequence level, while retaining structure and function. The more distant the species, the bigger is usually the sequence divergence. But structure and function are maintained. That can be easily explained, IMO, as the effect of neutral mutations accumulating in time. That scenario has been described as the "big bang theory of protein evolution": A protein suddenly appears, and then slowly "traverses" its functional space as a result of neutral mutations. Neutral mutations and negative selection of detrimental mutations can very well explain that. I believe that such observations are at the same time a very good argument for Common Descent, and a very good argument for the designed origin of the protein family. b) Another type of event is the development of new functions in the family, usually because of variation at the active site, while in most cases the general folding structure is maintained. Now, I agree that dFSCI has no role on explaining this kind of transitions, if the complexity implied is low. So, here we are in a field that could more easily be explained by the neo darwinian mechanism. Anyway, even here the mechanism should be well documented, before we accept the explanation. Let's call these scenario "semi microevolution". Axe has discussed this problem in a paper at Biocomplexity. He believes that many of these transitions cannot be explained by the neo darwinian mechanism, ans sets the empirical threshold for explainable transitions at 7 AAs. That is a reasaoning similar to my dFSCI, but the threshold is much lower, according to Axes's computations. Let's say that I have based my 150 bits (35 AAs) biological threshold on a very wide reasoning "a la Dembski", applied to the biological scenario: I have grossly compute maximum biological probabilistic resources for the whole planet earth, with the most favourable assumtpions for the RV + NS theory. According to Axe's reasoning, that threshold is certainly too high. I believe he may be right. However, I would happily leave the problem of "semi microevolution" open. To sum up, the scenario is more or less the following: a) Transitions of 1 - 2 AAs: certainly in the range of RV + NS: documented, observed, accepted by all. Microevolution. b) Transitions of 2 - 7 AAs: Microevolution? Maybe. Very rarely, however. c) Transitions over 7 AAs: not explained by RV + NS according to Axe. I tend to agree, but I am happy to leave the problem open. d) Transitions over 35 AAs: not explained by RV + NS according to my threshold. Macroevolution. e) Transitions over 500 bits (115 AAs): simply impossible in the universe, according to Dembski's UPB. In all these cases we assume that there are no naturally selectable intermediates. If those intermediates are shown, we will reconsider. gpuccio
Keiths: Yes, and he’s also assuming that evolution has a prespecified target, rather than opportunistically exploiting anything useful it stumbles upon. That is another problem, what i call the "any possible function" objection. It is a perfectly serious objection, and I have discussed it many times. I will not do that again here, just not to widen even more the present discussion. gpuccio
Petrushka: But that’s assuming one protein evolves into another completely unrelated sequence, rather than both evolving independently. No, you can as well show the ancestor, and how the two different domains evolved independently from it. Any working explanation will do, but you have to show it. gpuccio
Petrushka:
OK, but my reading is that the size of dFSCI or the number of bits contributes to determining that evolution is improbable. I say this because Gpuccio raises no objection to two or three functional mutations taking place in a few years in a small population. So if half a dozen characters are not a problem, but 80 characters are a problem, then dFSCI is being used to determine that RMNS is not the cause.
Keiths:
petrushka: OK, but my reading is that the size of dFSCI or the number of bits contributes to determining that evolution is improbable. The numerical dFSCI value reflects the probability that the target could be produced by pure random variation, without selection, in a given amount of time. This is one of the reasons that dFSCI is so misleading — the value itself is unimportant. All of the freight is carried by the implicit boolean part. You may be thinking of gpuccio’s protein family argument, in which he argues that the distance between selectable intermediates is too great to be bridged by pure RV. In other words, his argument (at least in that case) does not deny the power of RV + NS per se; it’s really an argument about the nature of the protein fitness landscape. He thinks that NS never gets a chance to do its thing because the selectable intermediate proteins are too far apart to be located by RV in a reasonable amount of time.
Hey, Keiths, thank you for doing so well my job! I don't think I can pay you adequately (you know, the crisis), but thank you anyway. You can go on like that, I am sincerely pleased :) gpuccio
Joe Felsenstein:
>If (as seems the case) gpuccio is willing to designate a sequence as having dFCSI based on its length, function, and complexity, then his argument does not rule out it arising by natural selection and mutation. If he designates dFCSI based on our not now having evidence for RV+NS, the designation of dFCSI does not inherently rule out that the evidence might be found later. gpuccio argues that this has never been shown to occur, as an empirical proposition. gpuccio does not seem to have any theorem showing that it inherently cannot occur in the future. So the use of #4 does not rule out finding evidence of a “deterministic mechanism” in the future. The use of dFCSI seems to be that it represents a formal determination that gpuccio has made that he feels that it is extremely unlikely that this sequence will be found in the future to have arisen by RV+NS.
Perfect! gpuccio
Petrushka: Assuming you have proved by some other line of evidence, that evolution did not occur or was not that cause of the sequence, dFSCI tells you how many bits the Designer inserted. Well, that is something, isn't it? The start of a scientific apporach to the designer's activity. And, in passing, I would remind that it is you that should prove that evolution occurred, not the other way round... gpuccio
Zachriel: I am very happy that you seem to have finally inderstood my point. Okay. The definition you had provided wasn’t clear, which is why so many people said it was circular. Normally, empirical tests can be repeated as many times as necessary. I apologiza for not being clear enough. Keiths is still convinced of the circularity, maybe there are no limits to how clear one must become :) Empirical tests can be repeated, unless they are shown to ne useless. That is my simple point. dFSCI is the basis for design inference. In a very important field of cognition, such as the inference of design in biological objects, it has sense only if it is really 100% specific. The specificity of dFSCI rests on the simple fact that the kind of strings it points to have never been shown to emerge from necessity, randomness, or a mix of the two. Thta's why, whose that exist, have alwasy been found to be designed, when the origin could be assessed. The point is that such a result will never change. For us, who accept the specificity of dFSCI, its specificity has nothing to do with our ignorance of appropriate necessity explanations, that could be found some time. We really believe that dFSCI identifies a type pof strings that will never be explained by randomness, necessity mechanisms, or a mix of the two. This conviction can be true or false. As far as no counterexample is sound, we believe it is true. You can obviously believe differently, and go on looking for a counterexample. I hope this helps to understand better why it would be useless to "update" the judgement about dFSCI if a necessity mechanism is found that explains the object. The point is that if the object was really that kind of string dFSCI points to, and then a necessity explanation is found, then dFSCI is not what we believe it is, and becomes useless. In any case, that just loads #4 with the question of evolution. As that seems to be the question at issue, what is the purpose of dFSCI? Although there is no doubt that the falsification of neo darwinisn evolution remains a fundamental point of the ID theory, there is a very important reason to base design inference on dFSCI, ar any equivalent concept. It is a coomon criticism from your field that ID is only a "negative" theory, what many of you love to call "an argument from ignorance". That is simply not true. The argument is positive, and derives from dFSCI (or any equivalent concept) and its empirical connection with design. This is a very positive argument, the possibility to detect factual origin of something fro an observable property of that something, based on past observations of that connection. It has nothing that could be described as "an argument from ignorance". Now, the whole ideology of neo darwinism is based on a very special assumption: that objects like biological objects and strings, objects that, according to Dawkins himself, "look designed", can really be explained by a mixed mechanism (RV + NS). But those objects certainly exhibit dFSCI! Therefore, if the neo darwinian assunption is true, the observed connection between dFSCI and design would be, for the first time, falsified. That's why ID, together with its "positive" part, has taken also the burden of whoing that the neo darwinian theory is a false scientific theory. That is the "negative" part of ID. But the positive part remains the most imnportant component of the theory. And it critically depends on the concept of CSI/dFSCI. I hope that answers your questions. gpuccio
gpuccio and Mung: Man, you guys have some serious patience with these clowns. Eric Anderson
Mark Frank:
The observer cannot conceive of a deterministic explanation for producing the string
Is that statement supposed to bear some relationship to gpuccio's argument? I can conceive of a deterministic explanation for producing your string. I can probably even implement a deterministic mechanism by which a string just like it can be produced. Does that mean you didn't design your comment, or does it just mean it doesn't have dFSCI? I don't understand why you didn't just end your argument there and declare yourself the winner. Let's test this. Post a string. I'll conceive a deterministic explanation for producing the string. That means it doesn't have dFSCI. We can all go home now. there are no designed strings, at least none with dSFCI. Mung
Mark Frank:
It explains why you cannot find examples of strings which pass the dFSCI test outside the debate environment.
You're going to need to be more clear about what you mean by 'outside the debate environment.' I posted a segment of Ruby code. That code, as I already stated, had been previously developed in a context that had nothing to do with testing the dFSCI concept. I can direct you to plenty other instances of code that can be demonstrated to have been developed prior to this debate and 'outside the debate environment.' So your claim is a bit bizarre and likely false. And we can take a string that was generated during the debate and remove it from the debate environment (whatever that means). What then of your objection? You've come up with this challenge that is completely arbitrary and so poorly defined that you have no problem coming up with ad hoc rationalizations why examples provided to you don't meet your criteria. So you need to spell out, explicitly, what is acceptable and what is not acceptable. I take it that any such string that gets posted by gpuccio or anyone else participating in the debate is no longer 'outside the debate environment' and is therefore disqualified. I take it that nothing in any known human language can be used, because we know the origins of those languages. Likewise nothing in any computer language, or anything executable on a computer. So, item 1. nothing that anyone can know anything about. that pretty much rules out everything. You win.
Because the observers did not assess the virus for dFSCI and because they know an enormous amount about the origin of the string.
So? Since when does the dFSCI depend on who assessed it? That's pretty much the exact opposite of objective, isn't it? And since when does the dFSCI depend on how much or how little is known about the origin? Is that an inverse relationship? The more you know about the origin the less dFSCI there is? Mung
Mark: You told me it was a virus. Viruses are designed. Why? Couldn't they have evolved in computers? gpuccio
Zachriel: Is there anything besides evolution that can create functional complexity? If not, then why does he bother with #4? #4 is essential. It rules out, as we have seen in our discussion, ordered and highly compressible strings and data strings. gpuccio
Petrushka: Of course, the way gpuccio limits the class of sequences eligible for the term dFSCI, no false positives will never occur. Thank you. That just means that my tool works well. One cannot model a process that creates sequences in order to demonstrate the mathematical feasibility, because that would violate gpuccio’s definition. That only violates logic. As I have said, you can model NS, if you want. The results will be trivial. The problem is that you like to model NS with the parameters that are not of NS. That is simply cheating. One cannot point to a gradual process for creating dFSCI, because the quantity of change is insufficient. That's not true. You can certainly deconstruct a protein into simple steps of change, each of them naturally selectable, that accumulate into the final protein. Just do that. But suppose we do a little thought experiment. Let’s agree that gpuccio’s definition entails a threshold. Say 150 bits. That implies that 149 bits does not trigger the dFSCI indicator. The number is arbitrary, but gpuccio’s paradigm requires a threshold. Let’s just call it t. Now suppose that Lenski or someone starts with a sequence of length t-1, and after 20 years, observes a length of t or t+1. Suppose the happens in a natural setting. What happens to the definition of dFSCI? Absolutely nothing. I have discussed that scenario many times. There would be no dFSCI in that transition, because you pass from t-1 to t, through a simple change of 1 bit (or aminaocid). The problem is, you have to explain how you get t-1, that is not an unrelated state, but is derived from t. It is a poor trick tried many times by darwinists. The dFSCI of a protein applies to a full transition from an unrelated state to the final state. That's why I apply the concept to basic protein domains. gpuccio
Petrushka: t is when we use unknownness as a defining attribute of dFSCI, and then declare that because we have dFSCI we know the origin, that we run into trouble. But I have never declared such a thing! I say that, if we have dFSCI, we infer design on the basis of its repeatedly observed empirical connection with design. I have never said that "because we have dFSCI we know the origin". Let's say that you guys run into trouble whenever you invent circular variants of my non circular definition. gpuccio
Joe Felsenstein:
No, gpuccio declares that gpuccio would not do that — that once dFCSI is inferred, further clarification of the origins of the string does not cause dFCSI to be undeclared. If gpuccio did what you say, then the charge of circularity in the Design inference would be correct. But gpuccio declares that once a string is inferred to have dFCSI, if sufficiently strong evidence that it arose by RV+NS is found, then it is constitutes a false positive. And owing to that, gpuccio’s procedure is not circular. And in that case gpuccio”s inference of Design totally collapses. But gpuccio argues that this has never occurred — that no false positives have occurred.
Perfectly correct! gpuccio
Zachriel: If such a detailed explanation were determined, per gpuccio’s definition, it would cease to have dFSCI. It wouldn’t be a false positive! Rather, the new knowledge would change our evaluation of dFSCI. No. The only reason for dFSCIìs existence is that it is a specific tool to detect design. The existence of false positives to a corredctly evaluated dFSCI would falsify the procedure, or at least its usefulness. So, if necessity mechanisms are found that could not be anticipated at the time dFSCI was assessed as positive, using all the necessary criteria, that is a false positive, and a falsification of the validity of the procedure. gpuccio
Mark: * Are there examples which meet your criteria for dFSCI which are not designed? Never seen one. And you? Are there any cases outside the debate environment (see my earlier comment) which meet your criteria for passing the dFSCI test at all? Any meaningful string of language long enough. Any working software code long enough. They would all qualify as having dFSCI, and they would be designed. I am not sure if they would be "outside the debate" because, as I have said, that means nothing to me. As it happens the first example does throw some light on some of the problems with dFSCI and the debate environment. Of course I can see that it was based on some English text which someone wrote and therefore it was designed. I can do this on good Bayesian grounds. But does it meet your criteria for passing the dFSCI test? If you are referring to the feedback definition, or to the biography of Tito Schipa, the answer is yes. The biggest problem is the clause that says the observer must have no knowledge of the origin. To be precise, that is not a clause in the definition of dFSCI, but a methodological procedure to avoid bias during the testing. IOWs, one can assess dFSCI even if he knows the origin, if the assessment is done objectively, and verified by others. But assessing it in blind guarantees protection against cognitive bias. While I was not previously aware of that particular bit of text (perhaps you wrote it) I am familiar with English text in general, I have a pretty good idea of how it gets created, and I know that you provided the text and are very capable of writing it yourself or finding a piece that someone else created. So I really have a very good idea of the origin – which is why I can deduce it is designed on Bayesian grounds. And I need nothing of that to infer design on Fisherian grounds. All i need to know is that it is too unlikely for it to emerge in a random system, at least in this universe, and that there is no natural necessity mechanism that write definitions of feedback, or biographies of Tito Schipa. So, believe me, I can live without your Bayesian inference. This is not trivial. It explains why you cannot find examples of strings which pass the dFSCI test outside the debate environment. This is not trivial: it is false. Almost every string (except molecular strings) comes with a context that tells the observer a lot about its origin. In the debate environment it is possible with a great deal of effort to devise strings which have very little context and tell the observer very little about their origin, but I am not convinced it happens anywhere else (although even in the debate environment the fact that a debater with an agenda created or selected the string tells you something about the origin). Let's call that a Bayesian excuse for excluding a scientific design inference for biological information, against all evidence, and only because you don't like the idea. What were we talking about, a few moments ago? Cognitive bias? Of course, we could always test dFSCI by trying to imagine we didn’t know anything about the origin. But you yourself ruled that out – probably wisely as it is very hard to do that objectively. As I have said, I have not ruled it out. I just prefer to do it in blind, because it is better methodology. Whatever you say, I have repeatedly tested dFSCI, and it works. But you can always deny truth, otherwise why would you call yourself a skeptic? gpuccio
Alan Miller: From Wikipedia: "Antimicrobial resistance is genetically based; resistance is mediated by the acquisition of extrachromosomal genetic elements containing resistance genes. Exemplary are plasmids, transposable genetic elements, and genomic islands, which are transferred between bacteria via horizontal gene transfer." (emphasis mine) "mecA is responsible for resistance to methicillin and other ?-lactam antibiotics. After acquisition of mecA, the gene must be integrated and localized in the S. aureus chromosome.[27] mecA encodes penicillin-binding protein 2a (PBP2a), which differs from other penicillin-binding proteins as its active site does not bind methicillin or other ?-lactam antibiotics.[27] As such, PBP2a can continue to catalyze the transpeptidation reaction required for peptidoglycan cross-linking, enabling cell wall synthesis in the presence of antibiotics. As a consequence of the inability of PBP2a to interact with ?-lactam moieties, acquisition of mecA confers resistance to all ?-lactam antibiotics in addition to methicillin.[27] mecA is under the control of two regulatory genes, mecI and mecR1. MecI is usually bound to the mecA promoter and functions as a repressor.[26][28] In the presence of a ?-lactam antibiotic, MecR1 initiates a signal transduction cascade that leads to transcriptional activation of mecA.[26][28] This is achieved by MecR1-mediated cleavage of MecI, which alleviates MecI repression.[26] mecA is further controlled by two co-repressors, BlaI and BlaR1. blaI and blaR1 are homologous to mecI and mecR1, respectively, and normally function as regulators of blaZ, which is responsible for penicillin resistance.[27][31] The DNA sequences bound by MecI and BlaI are identical;[27] therefore, BlaI can also bind the mecA operator to repress transcription of mecA.[31]" From the paper "Origin and molecular evolution of the determinant of methicillin resistance in staphylococci." "Methicillin-resistant Staphylococcus aureus (MRSA) is one of the most important multidrug-resistant pathogens around the world. MRSA is generated when methicillin-susceptible S. aureus (MSSA) exogenously acquires a methicillin resistance gene, mecA, carried by a mobile genetic element, staphylococcal cassette chromosome mec (SCCmec), which is speculated to be transmissible across staphylococcal species. However, the origin/reservoir of the mecA gene has remained unclear. Finding the origin/reservoir of the mecA gene is important for understanding the evolution of MRSA. Moreover, it may contribute to more effective control measures for MRSA. Here we report on one of the animal-related Staphylococcus species, S. fleurettii, as the highly probable origin of the mecA gene. The mecA gene of S. fleurettii was found on the chromosome linked with the essential genes for the growth of staphylococci and was not associated with SCCmec. The mecA locus of the S. fleurettii chromosome has a sequence practically identical to that of the mecA-containing region (?12 kbp long) of SCCmec. Furthermore, by analyzing the corresponding gene loci (over 20 kbp in size) of S. sciuri and S. vitulinus, which evolved from a common ancestor with that of S. fleurettii, the speciation-related mecA gene homologues were identified, indicating that mecA of S. fleurettii descended from its ancestor and was not recently acquired. It is speculated that SCCmec came into form by adopting the S. fleurettii mecA gene and its surrounding chromosomal region. Our finding suggests that SCCmec was generated in Staphylococcus cells living in animals by acquiring the intrinsic mecA region of S. fleurettii, which is a commensal bacterium of animals." From Uniprot: "Protein names Submitted name: MecA PBP2' (penicillin binding protein 2') EMBL CAA36829.1 Submitted name: PBP2A EMBL CAA74376.1 Gene names: Name: mecA EMBL CAA74376.1 Organism Staphylococcus aureus EMBL CAA36829.1 Taxonomic identifier: 1280 [NCBI] Taxonomic lineage: Bacteria › Firmicutes › Bacillales › Staphylococcus Sequence length: 668 AA. (emphasis mine) gpuccio
Mark: No. This wouldn’t meet Gpuccio’s criteria for a test of the dFCSI. The authorities know a lot about its origin before they even begin the tracing operation – in particular they know it was designed. How? By Bayesian inference? gpuccio
Mark: Excuse me, but as I have said I cannot follow you in what appears to me as mere paranoia. So, I wil respect your strange "last level" opinions abvout this problem, but I don't agree on anything that you say. * It is well defined how to do the complexity calculation. The space of all possible strings is clear and a uniform probability distribution of each possible string is assumed. And so? That is exactly the theory of dFSCI. Obviously, if in some situations there were reasons not to assume a uniform distribution, I would take them into account. In almost all cases, there is no such reason. The participants are selecting examples with an agenda. My only agenda was to show how dFSCI works, and that it has 100% specificity for design. That was my explicit agenda from the beginning, that is what I have done. Your agenda, I suppose, was to show through my challenge that my concept and procedure were wrong. You failed, so now the challenge is not enough for you, and you want me to go to Africa. No, thank you. So you and Mung are presenting examples which are clearly designed and clearly meet your criteria for dFSCI. I have presented examples of designed strings with dFSCI, of random strings, and of designed strings without dFSCI. Practically all the possible range. You have presented examples that met my criteria for dFSCI (in negative). Any possible string meets my criteria for dFSCI, because for any possible string I can assess it as present or no present. We try to present more difficult ones, and indeed you can’t tell whether they are designed, but then you dispute whether they have dFSCI on grounds such as unacceptable natural processes (no GA algorithms), or unacceptable functions (no post-specified lists, no “data” strings). You presented strings that did not exhibit dFSCI. According to the definition and the procedure. I never for a moment thought that they could exhibit dFSCI, and not certainly bevcause you were proposing them, but because it was obvious that they did not have it. It is possible to arrange things so the observer has an unrealistic lack of knowledge about context and origins (although it is quite hard to do this). I don't understand what you mean. Your insistence about possible bias from indirect knowledge of the origin is ridiculous, as it was ridiculous on your part to deny dFSCI to the feedback definition because "you knew the origin". The feedback definition obviously exhibited dFSCI. You have lost any connection with reality. So really if the case is to be convincing then there should be examples of the dFSCI/design relationship outside the debate context. This can still be controlled, just as assessing diagnostic tests in a hospital can be controlled. In fact I am asking that the examples conform to the control standards you yourself set i.e. an observer who had no knowledge of the origin deduced dFSCI and then later found the string was designed. This is your paranois, and nothing else. Keep it, if you want. For me, the case of dFSCI specificity is absolutely convincing. You are not convinced? Your choice. Why am I not surprised? 2) This sounds a bit pompous but I want to be reassured about your ability to be self-critical, as I suggest Joe and I have been over the issue of circularity. The ability to look at your own ideas critically and accept you are wrong is rare. I do not expect any of your colleagues to do it. But I hoped you might be an exception. If the participants are not prepared to be self-critical then debates are bound to become sterile as no one can change their opinion. This is not only pompous, but false, unfair, and ridiculous. I am satisfied of my self criticism. You, think what you like. I could say a lot of things about your self criticism, orcomplete lack of it, but I am not used to criticize people's faculties, only their arguments or their behaviour. It seems to me obvious now that you have never observed an example of the dFSCI relationship being confirmed outside the debate context. I have asked for a single example many, many times and even given you the form of words such an example would take. You are honest so you haven’t made one up, but you also haven’t provided the example. Instead you have raised almost every objection I can imagine. I think this must be because it would be embarrassing for you to confess that despite your claim that the principle has been verified thousand and thousands of times you actually have never observed it being verified outside the debate context. I don't ubderstand what you want. I think you only want to evade from reality, and from your defeat in the previous discusssion. Mt concept of dFSCI was created, refined, tested and discussed in what you call "the debate". For me, there is nothing "outside the debate context". The debate is all, and is perfectly fine for me. Again, you think and believe what you like. But don't tell me what I should do. And I am not embarrasses, and I have nothing to confess. I propsed a defintion and a procedure, and I entered a challenge to show you and others that both worked. I have done it. I can do it again. I am very happy of that. Obviously you can now go and make up an example with your brother but this would share the characteristics of a debate context and would not count as self-criticism. All my life is a debate context. I am proud of that. As I am proud of my self criticism. I really have nothing else to add. Please, out of simply courtesy, don't repeat again the same points, at least with me. You have said what you liked, and I have said what I liked. Try something else. gpuccio
Gpuccio Fair enough! Alan Fox
Zachriel:
Is there anything besides evolution that can create functional complexity?
And the evidence that evolution can create functional complexity is... Intelligent agents create functional complexity. All the time. In fact, they are the only known cause of functional complexity.
If not, then why does he bother with #4?
Because one of the characteristics of dFSCI is the I. Information. Ad we've explained before, numerous times, a necessity mechanism does not generate information. Information requires freedom of choice between options. That's pretty much the opposite of necessity, wouldn't you agree? Necessity. No options. No choice. No freedom. No Information. Mung
Mark Frank:
Are there any cases outside the debate environment (see my earlier comment) which meet your criteria for passing the dFSCI test at all?
A digital string that is suspected to be a virus or worm based on it's observable complexity and function which upon being traced to it's origin had an intelligent agent as the cause. If not, why not?
The biggest problem is the clause that says the observer must have no knowledge of the origin.
Frankly I don't see why that matters. dFSCI is not dependent upon the knowledge or lack thereof of the origin. Mung
Allan Miller2:
Yes, viruses in computers. Necessarily computer programs, necessarily designed.
We're talking about digital strings. A virus is only one example of a digital string. I expect you to understand that from the context. Do I really have to spell out every little detail of the argument every time? The digital string may or may not be executable. It may execute on one platform but not another. There is no necessity that a given digital string be executable and there is no necessity that it execute on a given platform and there is no necessity that it exhibits the behavior of a computer virus or worm. So your objection likewise fails. Mung
Mark Frank:
No. This wouldn’t meet Gpuccio’s criteria for a test of the dFCSI. The authorities know a lot about its origin before they even begin the tracing operation – in particular they know it was designed.
How do they know it's designed? And even if they suspect it's designed, it does not follow that they know it's origin. So your objection fails, and I ask again, why does the process of identifying the presence of a computer virus or worm and tracing it to it's source not meet your challenge? It appears to me like you are attempting to present to gpuccio a test that is immune from falsification, iow, not a true test. So give us an example of something that would meet your test. Mung
keiths appears to be saying his argument for circularity in gpuccio's definition of dFSCI is based upon abstract thinking and is as connected to gpuccio's actual argument as oil is to water. I'll say. He refuses to identify the qualifiers in his earlier argument and how they are related to the criteria of his latter argument and how either is connected to dFSCI I think his objection to dFSCI can safely be ignored as being without content. Mung
Toronto:
That is pseudocode meant to illustrate that memory loc [x] will contain the byte F2 and the next sequential byte will contain AE.
You claimed it was machine code. You're either very sloppy with your terms or you don't know what you're talking about.
If you set the program counter to x, it will directly execute that instruction.
You're confusing the instruction with the function (operation). Why am I not surprised. Mung
Toronto:
But that in itself is Dembski’s “oracle”.
lol. You are a real barrel of laughs. Mung
keiths:
If you haven’t figured it out, A, B, and C are the qualifiers.
That's patently false. A, B, and C are symbols that represent the qualifiers, they are not themselves the qualifiers. A, B, and C don't qualify anything. And unless and until you can tell us what they represent, they are meaningless symbols. I asked you what they were, specifically. What are "the qualifiers" that A, B and C represent? Does the 'A' represent the F in dFSCI, or something else? Why not just use an 'F'? And no, I haven't figured out what A, B, or C is supposed to mean. That's why I asked. Until you tell us what they represent they are meaningless, as is your argument. And did you ever clarify your use of 'qualifier' in the earlier thread and now your use of 'criteria'? Are the terms synonymous in the way you are using them? Mung
F/N: Wiki on tests and reliability (as signs), Positive Predictive Value article here. dFSCI and related criteria have high specificity and positive predictive value, as intended, with the gold standard being tests on cases of known origin, e.g. 500-bit to 1,000 bit or more strings of discrete symbols as may be found on library shelf contents, threads such as this one, the net as a whole, as well as in digital computers and similar technology. It is prone to false negatives, i.e. to assigning to chance and/or mechanical necessity, but that is not a problem for what it is intended to achieve, quite high confidence in cases where it does rule positively. KF kairosfocus
Petrushka: I was trying to use Newton’s published arguments rather than mythology. Petrushka, don't always be so deadly serious! Mythology is much more fun :) gpuccio
Joe Felsenstein: when petrushka obviously should have said “the force governing a falling apple”. That would have been even more elegant. OMTWO, learn again! gpuccio
Joe Felsenstein: gpuccio does not allow us to use sequences evolved in a genetic algorithm as test cases, and sequences made up by discussants here don’t seem to working as test cases. gpuccio wants to know exactly how they were made as part of the dFCSI assessment. But that is simply not true. I don't mean the first part, that is perfectly true. I mean the part about "sequences made up by discussants here don’t seem to working as test cases". Why do you say that? I hope you were simply distracted. I cannot doubt your honesty. Sequences made up by discussants here are perfectly OK for me. I have assessed dFSCI for each of them, and I have provided three myself, for which Mung, and in part Mark, have correctly assessed dFSCI. And why do you say that: "gpuccio wants to know exactly how they were made as part of the dFCSI assessment"? That is ompletely false too. Please, read again all the previous exchanges. the only supplementary information I have asked for, both to Mark and Mung, was about how they were defining the function. Never about "how the string was made". Please, be more careful in the future. gpuccio
OMTWO: Petrushka says: "It’s as if Newton had argued that planetary motions cannot be explained by the force governing the trajectory of cannonballs." Thyat's much more imaginative and elegant! Please, learn. gpuccio
OMTWO: seems Gpuccio is doing the equivalent of claiming that pennies do not add up into dollars. Ah, that's an argument! I am amazed and humiliated. I will probably retire and live a solitary life of repentance. gpuccio
Petrushka: Gpuccio’s problem is that the length of the sequence is irrelevant if it accumulates. And your problem is that it does not accumulate. But having admitted that one or two step accumulations are naturalistically possible, the only claim he is making is that longer accumulations do not happen. Yes. He bases this on the length rather than any evidence of an alternative history. Now, let's think correctly. It is you who base your explanation on the accumulation of functional changes. It is you who have the burden to show that functional changes accumulate. That's science. The reverse is only cheating. Moreover, as said many tiems, I base my point not on the length, but on two very string arguments: a) There is no logical reason why complex functions should be the accumulation of very simple functions. b) There is no example of that "natural history" that you always invoke, where those simple functional changes accumulate to create a complex function. Logic plus empirical observation. Could you ask for more? gpuccio
Even if we do not specifically know who the designers were (assuming more than one), does anyone really believe this was not intelligently designed? http://en.wikipedia.org/wiki/Stuxnet Mung
Joe Felsenstein: Thank you. That's intellectual honesty. gpuccio
Petrushka: Gpuccio has, on occasion, referred to Durston for a completely worked out example of dFSCI. But Durston has no examples for which the history is known to be design. Obviously. That's why I like you, Petrushka. Occasionally, you say something trivial, but true :) . Nor does he know if every element in the sequence is both necessary to function an unmodifiable. Wrong, this time. That's exactly what he approximates with his method. gpuccio
Mark Frank: I'm not real clear on what your objection is, or your objective, but take the following scenario: A computer virus is discovered. The authorities trace it back to it's creator and find an intelligent human being was responsible. This is something completely independent of the debate over ID in general and 'gpuccio's challenge' in particular. Would that meet your criteria? Mung
OMTWO: You did not distinguish between them, despite you saying it’s “extremely easy” to do so. You seem to need things repeated hundreds of times. What have I said here hundreds of times? No, don't use your supreme intelligence to answer, I will help you: That dFSCI is a diagnostic tool for designed objects with 100% specificity and low sensitivity. Now, do your homework. Go to Wikipedia, and study well what specificity and sensitivity mean. You will spend well your time, better than writing folish posts here. And you will acquire an important concept, a Bayesian one, so Mark will be happy too. gpuccio
Mark: Here are my comments to your "answer" about my three strings: 1) You have failed to define the function for any of them. I left you free to decide. If you could not see any function, you could simply ask. Here is my answer: - The first one is functional if it is a meaningful english phrase, conveying a meningful concept. - I have no function for the second one, unless you can find one. - The third one is highly compressible. 2) I know the origin of the first one – so that is no good. Remember you said it would not be necessary to imagine I didn’t know the origin. I don't know how you know it. But OK, let's try again: "Raffaele Attilio Amedeo Schipa is born in Lecce, fourth in a modest family (his father Luigi is a custom officer) in the working-class neighbourhood called Le Scalze, last days of 1888, though recorded January 2, 1889 for conscription reasons. His supernatural vocal gift is immediately noticed by his primary school teacher Giovanni Albani, then by all Lecce, wich actually always considered him "propheta in patria". The arrival from Neaples (1902) of bishop Gennaro Trama, real talent scout of those times, offers the young talent - whose nickname is now "Titu" (tiny) - the chance to enter the local Seminary, where he will study singing and composition." The function: a meaningful english passage, describing correctly events in the life of Tito Schipa. 3) The second could have a natural or a designed origin and may or may not be complex as it could be an encrypted version of a naturally generated string. I wll take that as a negative assessment of dFSCI. If you cannot explicitly define a function, and measure its complexity, you are not assessing dFSCI as present. As the origin of the string was random, as explained to Mung, this is a true negative. 4) The third can easily be created by a natural mechanism. OK, then it does not exhibit dFSCI. Which is correct. Abd, as I had designed the string, that is a false negative. So, to sum up: you made a good work. In cases 2 and 3, you essentially agree with Mung, who is a very smart person :) . In the first case, you just avoided the challenge with a stupid excuse. Now, for a moment, be really sincere: You really could not assess dFSCI as present in that case because "I had failed to define the function for it"? You really couild see no function in it by your own intelligence? Or, you really could not assess dFSCI as present in that case because "you knew its origin"? So, if you had never read that phrase in advance, would your judgement really be different? Mark, I am rather tired of your tricks. gpuccio
Mark: It is cheeky to challenge what is presumably your area of expertise but I am sure you are wrong. You must know that sensitivity and specificity should be measured throughout the process – from creating a test in the laboratory through to its use in the field – because the values may change significantly when you get to the field. That was not exactly my idea. Take a hospital lab, for example. It is a field, isn't it? It deals with true patients. We deal with true strings. A lab can be part of the field. And yet, yu can work in a controlled context, such as: The lab diagnoses a disease for one year in the traditional way, with the traditional set of tools that is considered "the gold standard". The results are stored, and all clinical decisions are taken according to the gold standard. At the same time, the lab test on all those patients a new test, let's say one that is less expensive, or less invasive. The results are stored. If the research is serious, the assessment of the results of the new test will be done in blind, without any awareness of the results of the gold standard. The, the two sets of results are combined in a two by two table, and specificity and semsitivity (and possibly PPV and NPV) are computed for the new test. That is a perfectly valid scientific methodology. That's exactly what we have done here, or what we can do anytime, with all the necessary safeguards. We are dealing with strings, information, design. We are not dealing with a rare disease. There is no need for us to go testing dFSCI in Africa. What we are doing here is perfectly correct. To put it another way I am asking for an example of someone assessing/demonstrating the dFSCI procedure as described by you outside the “laboratory” context of debates. Why do you fight so hard? All you have to do is give me one of your thousands of examples. I am not fighting. I was trying to show you why your objections have no sense. Now, let's say I have demonstrated the same thing that I have demonstrated here, at my home, with my brother. Would that be "out of the lab"? You must be desperate. Your argument of circularity has failed. You have failed in the challenge about dFSCI. Your arguments now are completely bogus. I don't think I can follow you any more on that path. gpuccio
Keiths: The two arguments are logically identical. The only difference is that the first one unnecessarily mentions dFSCI. Tons of lies: a) You have not answered any of my points about your stupid arguments. b) The two arguments are logically identical only in your false version. You have completely deleted the part where dFSCI is tested empirically as a reliable indicator of design. As I don't think you are stupid, and you must certainly be aware that we have been debating exactly that point, in the same thread where you posted, what remains after we apply the "Keiths explanatory filter"? Only lies. But maybe that is circular. After all, I already knew you were a liar, and Mark would not be happy... gpuccio
Petrushka: I suppose I should simply assert that we know from dozens of lies of independent, consilient evidence, that biological sequences have evolved without the intervention of a designer. (Emphasis mine) An intentional joke? A Freudian slip? Or just a typo? :) gpuccio
Alan Fox: Yes, that Durston paper. As I have said many times, the Durston method is a very good method to approximate indirectly the functionally specified information in protein families. His FSC (functional sequence complexity) is the same as my dFSI: the complexity of the information necessary to express the function. gpuccio
Mung: Very good. You have assesses dFSCi very correctly. Our skeptical friends will think that we had everything planned, but you and I know that's not the case. Now, my part: 1. It is a definition from Wikipedia. True origin: designed. Your inference is a true positive. 2. I randomly typed it at my keyboard. True origin: random (at least, in the measure that my typing was really random). Your inference is a true negative. 3. I designed it to be a very compressible, ordered string. True origin: designed. Your inference is a false negative. That's how it all works. Very simple. Very straightforward. Very powerful. gpuccio
gpuccio: 1. Contingent/Specified - designed 2. Contingent/Not Specified - not designed 3. Not Contingent - not designed. Mung
AF: I have annotated your remark at 400, on clarifying what dFSCI means. And yes, the main usage is dFSCI etc [such as FSCO/I which brings in organisation that is reducible to info, digital info being WLOG as anything informational can be reduced to digits by A/D, but where EXPLICIT code is significant because it can be directly seen to be a code], so you have been following a variant mainly used by objectors. KF kairosfocus
Mark: A test for specificity is made in controlled situations. Often, for example in medicine, it is made by just applying retrospectively only some diagnostic procedures to cases where the gold stndard too has already been applied. You get perfectly good 2 by two tables that way, to assess sensitivity and specificity. That's exactly what we have done here. That is perfectly scientific. This is our lab. I have never said, as you seem to imply for reasons known only to you, that the "true origin" of the string must become known "after". I have always talked about strings "whose origin we already know". IOWs, the gold standard is known. The fact that the person who assesses dfSCI is kept blind is simply a methodological tool to ensure that his judgement is not biased. This is how science is currently done. I believe you have serious epistemological problems about that. By the way, have you given an assessment about my three strings? With two different threads active at TSZ, it is easy to miss things. I would encourage everyone there to post in the last thread, now. gpuccio
Petrushka: When we take the trouble (of which there is a lot) to test every possible one step variation on a functional sequence, we find that most point mutations have no effect at all. Or at least that is the finding of recent research. What does that say about needles and haystacks? I suppose it says that you can look in the haystack to find the needle, provided the mutation is neutral. And that your probabilities to find the needle are exactly the probabilities of finding a needle in a haystack. Was that a point? gpuccio
Toronto: “dFSCI” is not a tool that is useful for differentiating “all at once design” from “a bit at a time” evolution. You are always the king of bad understanding, and of unwarranted enthusiasm for the bad understanding consequences. As many times discussed, it is of absolutely no relevane if the transition happens "all at once" or "a bit at a time". The probabilistic barriers are the same, if NS or IS do not act. So, the only question would be: "Does it happen one bit at a time, and is each state generated by one bit transition capable of conferring reproductive advantage? Is each step selected and expanded?" So, please, show that that is the case. And avoid false statements. Design needs not be "all at once". And unguided evolution is an explanation not just if it happens "a bit at a time", but if, and only if, all the transitions and possible selections are explictly defined, the RV component probabilistically credible, and the NS component causally verified. gpuccio
Keiths: I have answered in detail your silly "SuperDuperness" argument here: https://uncommondescent.com/intelligent-design/id-foundations/the-tsz-and-jerad-thread-continued/ Post #665. [--> LINK, there, KF] I don't remember any answer from you to that. gpuccio
Patrick: Here you’ve demonstrated the general principle that when one strips away the deliberately confusing presentation, IDC arguments turn out to be obvious nonsense, without exception. My compliments to you too, for supreme honesty and clarity of thought in adhering to someone else's wrong thinking. gpuccio
Keiths: Just to pretend that you still have an argument for circualrity, you have started again inventing things I have never said. That speaks volumes about your honesty. The circularity is in the remaining criterion: 1. Gpuccio thinks it couldn’t have evolved because it exhibits dFSCI. A simple, explicit, stupid lie. Whoever said such a thing? I never said that "I think it couldn't have evolved because it exhibits dfSCI". I have always said (hundreds of times, I suppose) that: a) I affirm dFSCI if a function can be defined for the string that is complex enough AND b) No explicit explanation based on necessity mechanisms is available. I have said many times that I am not interested to mere "possibilities", and to statements such as "It could have evolved" or "It couldn't have evolved". I feel no need to affirm or deny that kind of statements: they are simply not science. 2. Why does it exhibit dFSCI? Because gpuccio thinks it couldn’t have evolved (or been produced by any other ‘necessity mechanism’). Another lie (or rather, the same lie again). As even a small child would understand, at this point: It exhibits dFSCI necause: a) A function has been defined for the string, its functional complexity measured, and the complexity is higher than an threshold appropriate for the system we are considering. b) No necessity mechanism is known that can explain the emergence of the information for that function. Quite different, isn't it? If you excise the circularity from dFSCI, all you’re left with is “has a specified function” and “couldn’t have been produced by pure random variation.” Well, everyone agrees that the gene for hemoglobin, for example, has a specified function and couldn’t have been produced by pure RV. The question isn’t being asked by either side. Lies. What we "are left" with is: a) Has a specified function b) Complex enough to exclude RV as an explanation c) No other explanation based on necessity mechanisms, or necessity + RV, has been shown. So, please show how the gene for hemoglobin can emerge by RV + NS. Or let me infer design for it, and keep your convictions. But don't say it is useless, because it is a lie. It is very useful, because it provides me (and all reasonable people) with a credible explanation for a very important question: "How can the emergence of biological information, such as the gene for hemoglobin, be scientifically explained?" You know, a lot of people are asking that question. This is definitely a question I am asking. Consider a lengthy gene X with a known function: 1. Gpuccio is unaware of a ‘necessity mechanism’ that could have produced X. 2. Therefore X is designed. Lie. Why have you cut dFSCI from my argument? Just to lie? My argument is about dFSCI. And the main part of the dFSCI definitionis: "A function can be defined for the string, and the functional information linked to that function is complex" Obviously, if you cut that part from my argument, the part that is necessary to empirically connect the definition to a design origin, what remains is simply an argument from ignorance: your ignorance (spontaneous or more likely intentional) of my argument. Irreducible complexity isn’t circular, but it’s wrong. dFSCI is circular, and its circularity renders it useless. So now, answer these points, and apologize for the lies. Or just go on lying. Your choice. gpuccio
Alan Fox: Having clarified, I hope, the misunderstanding, here are some other clarifications about more substantial issues: Gpuccio seems to be saying he can distinguish between a sequence of symbols that are not random from a sequence of randomly generated symbols. Not exactly. I have been saying that I can distinguish between a designed sequence of symbol, provided I can recognize and define a function for it, and that its functional information is complex enough, and a non designed sequence of symbols. Leaving aside the impression that this is yet to be convincingly demonstrated, We have demonstrated it here. We can do it again. We can do it anywhere. Anyone can do it. gpuccio seems to say that he does not need to apply his method to Nature (a biological example, I assume he means) presumably because all life is designed anyway and he doesn’t need to check. That would be a very strange concept indeed. I hope it is clear now that I never meant such a thing. I am left wondering what it is that CSI and dFSCI (is that a typo; should it be dFCSI?) can achieve as concepts. Accepting for the sake of argument that there is a universal way (gpuccio’s method) to tell if a string of numbers were either random or non-random, how does this advance ID? What am I missing? It seems you have missed practically all my other posts here in the last week. However, in a nutshell: a) dFSCI, in my posts, means: digital Functionally Specified Complex Information. Other acronyms can be perfectly fine. b) The concept is: dFSCI is empirically a reliable marker of design (100% specificity, but low sensitivity) in all cases where it can be tested, because the true origin of a string can be independently known. c) That is enough to convince us not-too-smart IDers that it is a good marker of design also in cases where the true origin cannot be independently known, and that it can therefore be used to infer desgn in those cases. d) Among those cases, prominent is biological information. gpuccio
Alan Fox: Gpuccio seems to be saying he can distinguish between a sequence of symbols that are not random from a sequence of randomly generated symbols. Leaving aside the impression that this is yet to be convincingly demonstrated, gpuccio seems to say that he does not need to apply his method to Nature (a biological example, I assume he means) presumably because all life is designed anyway and he doesn’t need to check. I am left wondering what it is that CSI and dFSCI (is that a typo; should it be dFCSI?) can achieve as concepts. Accepting for the sake of argument that there is a universal way (gpuccio’s method) to tell if a string of numbers were either random or non-random, how does this advance ID? What am I missing? This is just a misunderstanding. My fault, probably. I was answering Mark about his request of "tests" of dFSCI outslide blogs. So I wrote: "Now, you want “instances where the dFSCI design relationship has been demonstrated outside of examples put forward in debates like this”. Do you want papers on Nature about dFSCI specificity? I cannot give them. But you certainly know that." And: "I hope that answers your request. Your need to read an assessment of dFSCI on Nature is only your personal need. I am happy that I do not need that, because I am afraid I would have to wait some time." I meant "Nature", the scientific journal, which I quote just as an example of something that a "skeptic" like Matk would probably consider as "authority". I was not aware of the possible other sense. I apologize. gpuccio
keiths:
My response to Mark matches the logic of the “SuperDuperness” example:
Your claim that your logic matches your logic, therefore you are not being illogical, is not a convincing argument. My claim is that your logic does not match mark's logic, therefore you are a liar. In your argument, what is the property 'A'? Or is that irrelevant, according to your argument? Mung
Alan Fox:
This Durston paper published in 2007? I see mung refers me to a Durston paper as well.
Do you admit your earlier comment was made in error due to ignorance?
gpuccio seems to say that he does not need to apply his method to Nature (a biological example, I assume he means) presumably because all life is designed anyway and he doesn’t need to check. No. That is false. It's demonstrably false. Retract it.
Mung
keiths:
Now look at what remains of gpuccio’s argument when you cut dFSCI out of it.
Without dFSCI he has no argument. So what's to look at?
Irreducible complexity isn’t circular, but it’s wrong.
So? Are you claiming dFSCI is IC?
dFSCI is circular, and its circularity renders it useless.
Really? Why?
The circularity is in the remaining criterion: 1. Gpuccio thinks it couldn’t have evolved because it exhibits dFSCI.
Gpuccio thinks it couldn’t have evolved isn't a criterion. It couldn’t have evolved is not a criterion. It exhibits dFSCI is not a criterion. Your objection fails, even under the three strikes and you're out criterion. No circularity.
2. Why does it exhibit dFSCI? Because gpuccio thinks it couldn’t have evolved (or been produced by any other ‘necessity mechanism’).
A lie. So, no circularity.
The circularity is in the remaining criterion:
That's simply false, as I've shown. Mung
Over at TSZ, Mark Frank asks the following question: What has Gpuccio’s challenge shown? For me, it has shown that almost no one at TSZ, including Mark Frank, can discard their prejudice against ID long enough to engage in an honest and open debate. Mung
keiths:
No, what I actually said was that the addition of qualifiers can’t save dFSCI from circularity:
And the difference between qualifiers and criteria is? You don't tell us. Why not? As I pointed out earlier (did you ever respond?), it is precisely those "qualifiers" that define the meaning of dFSCI. They are not something "added to" the definition. They are elements of the definition. You can't just choose to ignore them and then claim the definition is circular:
...it doesn’t depend on what the qualifiers are.
Yes, it does. Even Mark Frank acknowledged it does. Exhibit A (keiths):
The known function means that it’s specified, and the length means that the dFSI is greater than the threshold, so it meets those criteria for the presence of dFSCI. The circularity is in the remaining criterion:
So it does matter what the qualifiers are. Of course it matters. They constitute the definition under discussion. Even you admit this, finally. The context is there for everyone to see. Your comment was made in response to the following. Exhibit B (mark frank):
If dFSCI was simply a synonym for “no good natural explanation” then the case for circularity would be obviously true. But it [dFSCI] incorporates other features (as do its cousins CSI and FSCI). So for example dFSCI incorporates attributes such as digital, functional and not compressible – while CSI (in its most recent definition) includes the attribute compressible.
Your response:
The addition of qualifiers doesn’t (and can’t) save these concepts from circularity.
That's simply false. And it was exposed as false. So you ought, by now, to know better. Are you going to continue the charade? Mung
Mark Frank on November 11, 2012 at 6:58 pm said:
Mung 385: why carbon? pure coincidence? a miracle? Carbon is the only element with the right electron shell configuration to form long chains (Silicon has it to some extent but not sufficient to form chains like this).
Long chains of what? Chains like what? Polymers capable of long term information storage?
Did you not learn this at school?
No.
I don’t see the point of this comment.
You need to learn to change your framework of thinking. Carbon. Life. Fine Tuning. There is no way that any natural process could have known that carbon was the best choice. The best that you have to offer is pure dumb luck. Coincidence. Chance. Indistinguishable from a miracle. Not science. See? Mung
keiths:
In my OP, I make it clear that the evidence for common descent doesn’t preclude ID — it’s just that ID fits the evidence poorly, and evolutionary theory fits it far, far better. For example, I wrote: As it turns out, ID is not just threatened by the evidence for common descent — it’s literally trillions of times worse than unguided evolution at explaining the evidence.
How so? That's quite a different claim from the claim that Intelligent Design is not compatible with the evidence for common descent. So are you retracting that earlier claim? How does ID explain the evidence? How does unguided evolution (whatever that is) explain the evidence? How did you ascertain the 'fit' between the evidence and the explanation? Mung
"OTOH Mung and the rest are hopeful that the most dense material known to exist- the skull of a materialist- can be breached and then reasoned with." lol Mung
keiths:
Consider a lengthy gene with a known function. The known function means that it’s specified, and the length means that the dFSI is greater than the threshold, so it meets those criteria for the presence of dFSCI. The circularity is in the remaining criterion:
This from the person who stated that the criteria were irrelevant to the definition. Are you retracting your earlier claim? keiths:
The circularity is still there. I just got tired of pointing it out again and again.
But you didn't get so tired that you could not change your argument to depend on the criteria, when your earlier argument was that the criteria didn't matter? Are you retracting your earlier claim? Why is it that now, all of a sudden, the criteria matter? Did you think we had forgotten? keiths:
The addition of qualifiers doesn’t (and can’t) save these concepts from circularity. It’s a simple matter of logic, and it doesn’t depend on what the qualifiers are.
The link, again: http://theskepticalzone.com/wp/?p=1373&cpage=1#comment-16972 Honorable mention, for those who could use a good laugh, the estimable Joe Felsenstein:
I congratulate Mark, keiths, and others for clearly pointing out the circularity issue.
Yeah well, Joe, you need to brush up on your 'skepticism.' Or find some new friends. Mung
petrushka:
It would seem that the only suggested use for dFSCI would be to distinguish biological sequences that could be the result of incremental evolution form those that could not.
As usual, we are left to wonder what on earth you mean. How could dFSCI possibly distinguish between the two? As gpuccio has explained many times, a biological sequence either exhibits dFSCI or it doesn't. dFSCI cannot, even in principle, distinguish between two biological sequences that exhibit dFSCI. So what that means is, you need to identify a biological sequence that exhibits dFSCI, get gpuccio to agree that it exhibits dFSCI, then show how it had it's origin in something other than design. That would, to say the least, weaken the design inference for biological strings that exhibit dFSCI, wouldn't you agree? But you won't. You can't. Neither can any of the other nay-sayers over there at TSZ. At lest keiths knows this, which is why he clings, against all evidence to the contrary, to assert that dFSCI is circular. Mung
As I said over in the Upright BiPed thread, I’m willing to take you seriously if you’re willing to carry on a serious discussion. We probably all are. (Except Joe.)
Because Joe knows, and history confirms, there ain't any such thing as carrying on a serious discussion with that ilk. OTOH Mung and the rest are hopeful that the most dense material known to exist- the skull of a materialist- can be breached and then reasoned with. Joe
Toronto:
The improbability argument does not apply to “computer” structures any more than it does to biology.
Sure it does. Try running x86 machine code on some other architecture. There is a subset of all possible strings of bits that are functional as machine code. If you came across a sequence that was functional as machine code and of sufficient complexity you would not attribute the sequence to chance or necessity. If SETI received a message from outer space that upon conversion to a sequence of 0s and 1s was executable on an x86 computer it would be big news. Your objections to gpuccio's argument are just not believable. Do try again. Mung
Toronto:
You keep misunderstanding that computer programming languages as seen by the programmer do not exist in text format at execution time.
lol. Listen, you are very sloppy with your language. No wonder gpuccio has a problem understanding you. I have problems understanding you, and English is my first language. Is English your first language? I have programmed in interpreted languages, such as Ruby and Perl, in compiled languages, such as C and Java, and in assembly language (in ASA, among others). I am not misunderstanding what goes on when computers execute instructions. I can write code in Ruby and save it to a file. I can launch the Ruby interpreter and it will read and process the file. The file and the ASCII text it contains does not disappear just because it is being executed. The file continues to exist along with the instruction in it, in text format, at execution time. So maybe you meant to say something else, because that was a really dumb statement. Toronto:
...so claiming 80 bits of complexity for 10 characters is misleading as the tokenized executable code might be smaller or larger.
ok, you got me here. What is 'tokenized executable code'? My point was, and this seems to be a point lost on you, that the text has to be turned into 'bits'. Why must it be turned into bits? Maybe I don't misunderstand after all. Toronto:
For instance, the “return’ command in “C” does not necessarily generate any more code than typing “ret” in an assembler language.
and? my examples were def and end, two more three letter words. Even assembly language typically uses three characters or more. At some point the instructions have to be converted to bits that are meaningful. I challenge you to show a 16 bit 'function.' Toronto:
Like this: Memory[x] = 0xF2; Memory[x+1] = 0xAE; Those 16 bits are the machine code for “REPNE scansb” for an x86 CPU which will search through sequential memory, i.e. a “string”, until a match is found.
That's not machine code. How did you arrive at a figure of 16 bits? Toronto:
As an example, the function of ‘XOR’ing two registers takes one byte (8 bits), in most micros.
That's a function that already exists. How many bits did it take to define it? Wikipedia:
XOR CL, [12H] = 00110010 00001110 00010010 00000000 = 32H 0EH 12H 00H
32 bits, just for an XOR, a pre-defined function. Try again. Mung
Alan Fox:
Gpuccio seems to be saying he can distinguish between a sequence of symbols that are not random from a sequence of randomly generated symbols.
I don't think I've ever seen him make any such claim. petrushka was on to something, but never followed up on it. Shame.
Leaving aside the impression that this is yet to be convincingly demonstrated...
What would convince you?
Accepting for the sake of argument that there is a universal way (gpuccio’s method) to tell if a string of numbers were either random or non-random, how does this advance ID? What am I missing?
The middle way. As I said over in the Upright BiPed thread, I'm willing to take you seriously if you're willing to carry on a serious discussion. We probably all are. (Except Joe.) 1. Do you dispute that there is a way to distinguish random sequences from non-random sequences? mark frank seemed to have no problem. 2. Do you understand why informational sequences will appear to be random rather than non-random? 3. Do you know that DNA sequences that appear to be random actually code for functional proteins? 4. Do you see what you're missing. yet? 5. Are you familiar with the Explanatory Filter? 6. Do you see that both random sequences and designed sequences are a subset of contingent sequences? 7. Might we then expect that random and designed sequences have something in common not exhibited by strings produced by a necessity mechanism. 8. Do you grasp yet, that designed sequences may well appear to be random? 9. Do you see what you're missing. yet? Mung
Do you have any actual quotes from gpuccio saying he doesn’t need to apply dFSCI to biological examples, or are you just in the mood to make things up?
Well, the quote was in the quote I quoted! To save you the trouble of looking back at the quote, here it is again:
Your need to read an assessment of dFSCI on Nature is only your personal need. I am happy that I do not need that, because I am afraid I would have to wait some time.
Alan Fox
Alan Fox:
gpuccio seems to say that he does not need to apply his method to Nature (a biological example, I assume he means) presumably because all life is designed anyway and he doesn’t need to check.
Do you have any actual quotes from gpuccio saying he doesn't need to apply dFSCI to biological examples, or are you just in the mood to make things up? In fact, that seems to be the exact opposite of what he does say. Did you miss his cites of the Durston paper? How about his continual refrain about protein domains, to which no one over at TSZ can ever bring themselves to bear upon and actually debate? You're off to a rousing beginning. Grats. Mung
Alan, The simplest living organisms exhibit dFSCI. And what they acheive as concepts is they allow for objective design detection. And as anyone who has actually conducted an investigation knows, the mere determination of design changes the investigation and changes the way we look at it. You do realize that we investigate a pile of rocks differently than we do a pile of artifacts (made from rocks), and that we investigate a crime differently than we investigate natural phenomena? So THAT is what you are missing Alan-> knowledge of investigation. Joe
Gpuccio writes
Everybody here is well aware that it is extremely easy to distinguish designed strings from randomly generated strings by the use of dFSCI. The specificity of dFSCI for design can be tested everywhere, in every setting, just by respecting a few simple rules. I have shown you how to do that. Your need to read an assessment of dFSCI on Nature is only your personal need. I am happy that I do not need that, because I am afraid I would have to wait some time.
Gpuccio seems to be saying he can distinguish between a sequence of symbols that are not random from a sequence of randomly generated symbols. Leaving aside the impression that this is yet to be convincingly demonstrated, gpuccio seems to say that he does not need to apply his method to Nature (a biological example, I assume he means) presumably because all life is designed anyway and he doesn’t need to check. I am left wondering what it is that CSI and dFSCI (is that a typo; should it be dFCSI?) can achieve as concepts. Accepting for the sake of argument that there is a universal way (gpuccio’s method) to tell if a string of numbers were either random or non-random, how does this advance ID? What am I missing? _____ F/N: Mr Fox, it is you who have the variant. dFSCI stands for digitally coded, functionally specific complex information, and means a digital string of sufficient length that in a given context (e.g. 500 bits for our solar system), blind chance and/or mechanical necessity would be maximally unlikely to hit on it or the functional equivalent. Empirically, every case of dFSCI of known origin -- e.g. the contents of libraries, files on computers, etc, posts in this thread -- is the product of intelligent design. On both inductive generalisation and the needle in the haystack analysis, we have good reason to infer that such dFSCI is an empirically reliable and analytically plausible sign of design as best causal explanation. Why this is controversial is not because it lacks such a warrant as just outlined, but because it assigns DNA and related entities to design, which is a challenge to an established school of thought. never mind, that the members of that school, on being pressed, have to admit that they do not have a cogent, empirically well warranted explanation of OOL, the first biologically relevant case. KF Alan Fox
Toronto:
Our problems with gpuccio are mainly in trying to understand what he means.
Well maybe you should find out before launching unfounded accusations and then cheering your success. He's shown every willingness to clarify. Like I said. He withstood the logical challenge. Then he withstood the empirical challenge. I predict that it won't be too long before you all will be crowing about his defeat over there at TSZ and accusing him of intellectual cowardice. Mung
Toronto:
Just to be “clear”, a “method” can be as short as 16 bits.
So? First, I thought we were talking objects and defining methods on objects, which I presume means we were talking about object-oriented languages. What language are you using to define your 16-bit method? Second, you were specifically talking about building up objects from small methods. Third, you explicitly mentioned object-oriented programming. So, are we talking about an OO language, or something else? As you must know by now, I like Ruby. A short method that does absolutely nothing can be defined as follows: def a;end; try it: http://tryruby.org/levels/1/challenges/0 That's 10 characters, minimum. 80 bits. And that method does nothing, so it can hardly be used to build up an object. So what language are you talking about? And actually code, please. You seem long on talk and short on functional code. And what on earth is your point in all this, or do you even have one? Mung
Mark Frank:
Incidentally none of the examples you offer have dFSCI as I understand your rules. 1) You have failed to define the function for any of them.
So? You think for a string to exhibit dFSCI the function has to be defined by gpuccio? I thought gpuccio said the function needed to be objective.
2) I know the origin of the first one – so that is no good.
Your first objection is therefore without merit. gpuccio did not have to define the function for it to be recognizable and for you to apply that recognition to identifying the source. So now what is your basis for asserting his first string does not exhibit dFSCI? Mung
Mark Frank:
I see you talk a lot of honesty. Do you accept that you don’t know of any instances where the dFSCI design relationship has been demonstrated outside of examples put forward in debates like this? I have asked you several times to provide an example and on every occasion you have failed to do this. Remember that you yourself said that demonstrating this relationship requires the observer not to know the origin.
I also find this remark very strange. gpuccio has never shied away from the fact that we don't have complete knowledge about the origin. That's why his argument is based upon inference, and he's never claimed otherwise. Now your position is really very weak mark, if you're reduced to, at this time we don't know the origin, therefore we never will. How anti-science is that? ;) It's my understanding that we have the technology to encode English text into DNA. Now all gpuccio has to do is find a case where this has been done where the sequence is of sufficient complexity, and then where will your argument stand? An Entire Book Written in DNA Future of Data: Encoded in DNA http://code.google.com/p/text2dna/ I predict that we will be able to find encoded in the DNA of a living organism information for which we can demonstrate the origin has an intelligent cause. If we can't already do that, it's only a matter of time.
How can we be sure that the M. mycoides is synthetic? When recreating it, the team added a number of non-functional "watermarks" to the genome, making it distinct from the wild version. Scientists create “artificial life” – synthetic DNA that can self-replicate
Show me the string(s). The function, to serve as a 'watermark' identifying this organism as synthetic. Mung
Mark: I see you talk a lot of honesty. Do you accept that you don’t know of any instances where the dFSCI design relationship has been demonstrated outside of examples put forward in debates like this? I have asked you several times to provide an example and on every occasion you have failed to do this. Remember that you yourself said that demonstrating this relationship requires the observer not to know the origin. I don't know what you want from me. The connection between CSI and design has been repeatedly observed by all those who have developed the ID theory. As I have formalized a special definition and procedure here in this blog, that IMO allows a better clarity of the concept and an easier application to digital strings, I have challenged you to verify my statement that dFSCI could be easily observed to have 100% specificity for design in all possible settings where the origin is independently known. We have tried together to verify that affirmation of mine, with the results that you know as much as I do. The connection between CSI and design is universally affirmed in all ID literature. That's very natural, because the definition of CSI and its role in design detection are a product of ID theory. Obviously, much less interest in the subject can be found in the official literature. dFSCI is my personal form of CSI, with some personal aspects, although it is essentially a subset of CSI. Everybody here is well aware that it is extremely easy to distinguish designed strings from randomly generated strings by the use of dFSCI. Those who understand well the concept are also aware that it is easy also to exclude strings that can have a necessity origin. You at TSZ have expressed many doubts about dFSCI, its definition, its procedure, its results, its specificity for design. I have challenged you to test all that here, and we have done it. Now, you want "instances where the dFSCI design relationship has been demonstrated outside of examples put forward in debates like this". Do you want papers on Nature about dFSCI specificity? I cannot give them. But you certainly know that. The specificity of dFSCI for design can be tested everywhere, in every setiing, just by respectinbg a few simple rules. I have shown you how to do that. As KF always says, anyone who recognizes language as designed, every day, is using the same principle, although certainly less formally. You will say that Bayesian inference can give the same results. I have nothing against that. If Bayesian inference can show that a string is designed, so it be. My non Bayesian method certainly can. The problem of the final inference for biological strings remains the same. I think we have clarified enough the terms of the problem, and why, IMO, you choose one way, and why, in your opinion, I choose another way. The simple truth is, we have different vies, different cognitive approaches, and certainly different committments. All that can influence our choices, but it is our responsibility to make our choice as adherent to truth as we feel possible. I hope that answers your request. Your need to read an assessment of dFSCI on Nature is only your personal need. I am happy that I do not need that, because I am afraid I would have to wait some time. If, on the pother havd, your strange request is only a new form of appeal to authority and to conformist thought from a "skeptic", I have already commented on that. Truth is truth, wherever observe it, or debate it, or try to catch it. As I have said, I love this place, because this is a place where we are seeking truth together. Finally, it is obvious that the testing requires the observer not to know the origin. That's exactly what we have done here. If you are worried that I could guess the origin from the person who proposes the string, we can repeat the experiment. You can get strings form people here or from people at TSZ (you think how, at some e-mail address for instance), and then give them to me anonimously, here, in a single document. I will assess dFSCI for them by my procedure, and then you will verify the results. We can do that whenever you like. gpuccio
Is that clear, or still vague?
It doesn't matter how clear you make it, Toronto will still twist it. Mung
Toronto: Just to be disgustingly clear: In my theory, both "the “information” to make corn bug resistant and also the code to make it 12? tall" would qualify as dFSCI if they have the requirements. That has nothing to do with the iontentions of tyhe designer, that we obviously do not know. In my theory, a separate functional complexity would be computed for each of those two codes (and functions), and a separate judgement about dFSCI would be given for each of them. In my theory, intent is certainly part of the design process, but information or inference about the intents of the designer is not part of the assessment of dFSCI, and therefore of the design inference for the observed object. Is that clear, or still vague? gpuccio
Toronto:
Imagine a pool of 1000 text strings you could choose from. Half of the strings are proper English sentences and the other half are random nonsense. The odds of my randomly sending you a valid text string is 1 in 2 but the odds of my sending you any “specific” message from that pool is one 1 in a 1000. Now let’s apply it to biological “design”. If I as the “intelligent designer”, have a pool of “genetic code” that contains the “information” to make corn bug resistant and also the code to make it 12? tall, and my intention is to make the corn bug resistant, I must send you that “specific” code. An IDist cannot in this case, look at a field of 12? tall corn and say, “There is no way corn can so quickly change from being 8? tall to being 12? tall without being “designed” that way. As the “intelligent designer”, I would have failed in this case as the “design” I intended, clearly did not get into the organism. That is the whole point of these discussions, that ID is a “theory of intent”, and should not accept “random variation” as acceptable evidence of “design”, which is what would have happened in this case. Despite the facts that the strings themselves qualify as “dFSCI”, you cannot claim “design” unless you know what the designer’s intentions were.
Well, now it is more clear. What can I say? You are pparently elaborating your own theory of Intelligent Designed, and you are entitled to that. But your theory has nothing in common with mine, or with anyone else's here. So, if we want to discuss my theory, we should discuss it, and not confound it with yours. In my theory, there is nothing like what you describe. In my theory, an object is designed if, and only if, the arrfangement of the information in the object is given by a conscious intelligent being, who purposefully outputs his conscious representations to the object. In my theory, the only intention of the designer is to design the object according to his conscious representations. In my theory, there is a property that can be assessed in some digital strings, and not in others, that I call dFSCI. It has nothing to do with the origin of the information in the string. In my theory, there is a procedure to assess if that property is present or not. In my theory, a connection is empirically observed between the presence of dFSCI and a design origin of the information. The connection is: if dFSCI is present, the information in the object has a design origin. If dFSCI is not affirmed in the string, the origin can be either design or a random system or a necessity mechanism. That is the same as saying that dFSCI is an indicator of a dersign origin with 100% specificity and low sensitivity. Obviously, the measurement of dFSCI's specificity is made with strings whose true origin can be independently known. In my theory, dFSCI can ne ueds to infer design for strings whose true origin is not know, like biological strings. That is the essence of ID theory for biological information. This is my theory, and I believe it is essentially what the ID theory is about. Your theory is something else. gpuccio
Toronto:
Our problems with gpuccio are mainly in trying to understand what he means. At one point it seemed that gpuccio, Joe and I agreed that “dFSCI” was not dependent on its origin. Soon after that, Joe and I both seemed to think that gpuccio had made statements to the effect that in certain cases, “dFSCI” was dependent on its origin. Further on I found out that gpuccio didn’t mean origin of the string as much as he meant the “content” of the string, but he doesn’t use terms as I understand them. It’s the same sort of confusion with Upright BiPed’s use of “arbitrary”. Using the term “materially arbitrary” however, is as clear as using the term “aggressively passive”. Please don’t anyone ask me to clarify what the word “passive” means as you could easily Google it and get a clear definition.
Ehm... Just to be clear: a) When we assess dFSCI in a string, we have no idea of its origin (said as clearly as possible at least 20 times in the last week). b) The origin of a string is the simple observable fact of how it is generated: I see you writing a poem to express your feelings, I know its origin is from you, a conscious intelligent beings: the string is designed. I see you tossing a coin and just writing the results, I know that the origin of the string is from a random system (the coin tossing). Obviously, we are referring here to the origin of the information in the string, of the arrnagement of values: it is not important if the string is written by you, or by the rain, or by a computer. c) The content of a string is the content, the infromation, the arrangement, you name it. What is not clear in the word? All that has been clarified a lot of times. You have problems? Maybe, but I can't understand why. gpuccio
Toronto:
No, what you have done is make a “functional description”, not a “functional specification”. As an example, if someone asks kairosfocus to look at an electronic circuit and find out what it does, he could perform tests and then render his description of how it operates. If the builder of the board then disagrees and quotes his “functional specification” as stating a completely different functionality, KF gets to say, your “specification” has not been met. What KF cannot do, is proclaim that what he has observed is the “functional specification”, as clearly he had no way of knowing what was actually intended. A design that has an unintended result, has not been “specified”.
I am in complete amazement. What you say is beyond any reasonable interpretation. Please. go back to my definition of dFSCI. d is for "digital" FS is for "functionally specified" C is for "complex" I is for "information". I don't know what you mean for "specification", but I certainly know what I mean for "functional specification". It happens that I have defined that vague term many times here. Maybe you were distracted. "Functional specification" means that an observer recognizes a function in the string, whatever function he likes, defines it explicitly, and gives some objective method to recognize that function and measure it in any possible string. That is a specification, because it defines a subset of the search space, the target space: the set of all strings (usually, for simplicity, of the same length) that express the function as defined. the ration of the target space to the search space will be the functional complexity for that functional specification. This is all in the definition and procedure. You will certainly find it vague, but I cannot help you for that. The obvious thing is that my definition and procedure have nothing to do with the strange, rambling comments in your post. gpuccio
Toronto: How can I believe that you are not intentionally generating confusion, just for the hell of it? But then you have failed a design connection! The whole point of “designing” something is to get the result you intend. Please, this is ridiculous. What I said was: " We don’t assess function as a specific intention. We are not mind readers. We just recognize a possible function, define it appropritaely, and compute the complexity linked to the function we have defined." It is very clear what I am speaking of: the procedure to assess dFSCI in a string. In that procedure, there is no discussion about "intention", least of all "specific intention". If we affirm dFSCI, we infer design. Design is obviously an intentional process, but what has that to do with the assessment of dFSCI as described? I affirm dFSCI for the sonnet. Then I infer design for it. Correctly. The sonnet is obviously intentional: Shakespeare certainly intended for it to express a definite meaning (not always easy to understand, but that's another story). But you and I have nothing to do with Shakespeare's intention, least of all with the evaluatio of dFSCI in his sonnet. Is this vague, again? If you don’t get the result you intend, your design has failed to meet its specified functionality. And so? what has that to do with the assessment of dFSCI? If you’re saying a designer would accept a result that exists in a “set of results”, then any improbability assigned to a “target” in a “search space”, drops drastically. I don't know if this is vague, but certainly I don't understand what it means! Please, explain better. If the “intelligent designer” of life is willing to accept one of a number of “configurations” for his “designs”, then Behe, kairosfocus and Dembski can no longer use the improbability argument. Again, not very clear, but I will try to interpret it in some way. A designer can choose any configuration he likes, but obviously, if he is a good designer, he will choose a configuration that expresses well the desired function. That is very trivial. But it is certainly possible that many different configurations can express the function well enough. That is certainly the case with proteins. We know that many configurations can still express the function. That's why, in evaluation dFSCI, we try to compute the target space/search space ration to calculate the dFSI. That's why, in Durston's paper, the functional complexity of protein is much lower that the maximum complexity derived from the length of the sequence. But we can still use the improbability argument, obviously in reference to the functional complexity, and not to the complexity of the search space. I don't know if these vague comments can answer your "point", because I am not sure I have understood your point. gpuccio
Mark Frank:
That’s a strange inference because it means there is no way of correlating dFSCI with design at the molecular level as we do not know the origin of any strings with dFSCI.
Thanks for that admission. Mung
Mark: That’s a strange inference because it means there is no way of correlating dFSCI with design at the molecular level as we do not know the origin of any strings with dFSCI. Let's put it this way: a) either biological strings are the only exception in the whole universe to the repeatedly observe connection between dFSCI and design origin or: b) they are designed, like all other strings exhibiting dFSCI. So, we in ID choose b) and infer design. It can seem strange to you. It seems very natural to us. Again, choices. gpuccio
gpuccio, Again, you have our respect. The announcement at TSZ that your definition of dFSCI was circular was met with great fanfare and many cheers from the peanut gallery. Strangely, when that line of attack failed, many of them just fell silent. You passed the logical test. Then came the empirical test. As you point out, the main thrust was to have you give a false positive. What does that tell us? They understood, at whatever level, that giving you strings with objectively defined functions that were in fact designed was not going to help their cause. It means that in the main, they full well know that you are correct. Mung
mark frank:
The problem now is that carbon chains are the only digital strings with any kind of complexity and these are just the one’s we are trying to evaluate. There are no digital strings at the molecular level with dFSCI except for those involved in life.
why carbon? pure coincidence? a miracle? Mung
Mark: I have read you new summary. I find ot honest enough. I disagree on many points, but I believe I have already explained why, so I will not repeat myself. Let's say it is a honest summary of you views about my arguments. But I fully agree on this conclusion: The problem now is that carbon chains are the only digital strings with any kind of complexity and these are just the one’s we are trying to evaluate. There are no digital strings at the molecular level with dFSCI except for those involved in life. That's exactly what makes me so certain about the design inference for biological strings. Again, different choices. gpuccio
Toronto: You have might a false negative if you decide the part you cannot read from a human point of view is not designed. As an example, it might be the header for the communications packet that ensured the data payload was properly received by a slave terminal. And so? I will have a false negative for that part. What's the problem? What is vague in my definition of dFSCI, where I say that there can be many false negatives? Suspiciously, the bottom unreadable portion could be a trailer for this packet and/or the header for the next one. Anything could be. And so? Even worse is the fact that you have a false positive here for any data string you handle in this manner, since the content of the string was not “specified” by me for you to receive, it was “specific” only to you, which means you painted a target around the arrow. Utter nonsense, to say the least. I have no interest in you specifying anything, especially "for me". Your imagination runs wild. I recognize the meaningful part as exhibiting dFSCI. It does. It is a true positive. The information in that part is designed. Are you denying that? Since I had no intention of conveying that “specific” message to you, it fails the ‘S’ portion of “dFSCI”. Srange, in my definition of dFSCI you and I were not quoted. The "S" portion of the name was not even considered as you seem to do. Indeed, my concept is simply about "functional specification", the specification given by a function. Here, the function is the conveying of the meaning in the sonnet. What have you or I to do with that? That would be like the “intelligent designer” assembling portions of DNA out of order and yet expecting that “string” to be functional. The string could still be considered functional, but the function should be defined in a wider way, such as "a string made of single phrases that are correct in english and meaningful, but that do not have a genral meaning as they are assembled". With that definition, the functional complexity would be lower, and should be computed differently. At this point it may probably not be “functional” as well as being not “specifically” intended. We don't assess function as a specific intention. We are not mind readers. We just recognize a possible function, define it appropritaely, and compute the complexity linked to the function we have defined. We are really discussing ID as it applies to biology and the sonnets are analogies. No. We were discussing my challenge. My challenge was about string whose origin we know, such as sonnets, software, or random strings. Not biological strings. We do not know the origin of biological strings. That's why I have used the sonnets as an example. I can live with Shakespeare out of order, but not my DNA. I am glad to know that. So, that's all for now. Have I been vague? gpuccio
Toronto: OK, you admitted a very obvious thing once. And I recognized that (as a rare event). All the other times, your behaviour has been obstinately reticent, and many times, like the last one that earned you the liar thing, explicitly unfair, arrogant and insultant. You know, people are often mixed realities. I can live with that. People are trying to understand your points, because we need a good understanding of exactly what you are trying to say, in order to generate a proper response. I don't agree. If you guys are trying to understand my points, either you are not making any serious effort, or you afre seriously habdicapped, or more likely you are only trying to understand any possible weak aspect in my points. In a Bayesian mood, I would definitely bet on option number three. Therefore, your attention and memory is strangely selective and biased, and even the simple understanding of simple terms, however many times explicitly defined by me, seems targeted only to find fault with them, not certainly to understand what I mean with them. The general attitude of all of you is much more than biased, many times intentionally offending and cheating. As I like to give thanks for good things, I have always recognized the few good things that have come from some of you, including the one from you: they can be counted on the fingers of one hand. What have you all done, on the otgher hand? Let's see. You have attacked me with a false accusation of circularity for days or weeks, explcitly ignoring, rephrasing, or simply lying about my detailed explanations. Well, now the argument of circularity seems less popular, and a couple of you has in some way admitted, through their teeth, that my argument is not circular. And yet, my argument has never changed in all this time. You have challenged me to apply dFSCI to strings provided by you. I have done it. All the strings provided by you have been tricky attempts to demonstrate that dFSCI is false, or ambiguous. All have failed. Nobody among you has even tried to do what the challenge was about: provide a series of strings, designed or not designed, to verify if dFSCI really can infer deisgn. All you strings were negatives, more or less smart attempts to affirm a false positive. All were easily recognizable for what they were: negatives, string where no dFSCI was recognizable. Only Mung has provided a designed string, and I have promptly recognized it as exhibiting dFSCI. A true positive, the only one. And yet, what happens? Mark, who is certainly the most sincere among you all, after having debated that, after having had a fulll response by me about the only true positive in our "challenge", suddenly forgets everything about it, and write a series of wrong considerations! Not intentional certainly, but a clear demonstration of the strong cognitive bias, and scarce fairness, that all of you show for my arguments. Abd you say that you don't understand what I say because of my terns, or because I don't answer your legitimate questions? Liar, liar, liar. You understand only what is convenient for you. You are so slectively biased that usually I must explain the same obvious thing at leat ten times before you are forced to step back a little. You should be ashamed. Why would you bother to formulate your “dFSCI” argument if your only intention was for it to be accepted by those who already share your convictions? Clearly they don’t need convincing, we do. I have no intention to convince any of you. I would be a stupid optimist if I thought that. What I do want to do, is to show how my arguments are perfectly sound and convincing, even in the face of unfair and unreasonable criticism form biased adversaries. I want to show that to all sincere readers of this blog, and that's why I discuss with you, either you deserve it or not. You know, the world is not made only of people who have already embraced ID and of people who will never consider it, not even in the facte of overwhelming evidence. There are many paople there who still have an open mind, and are interested in deciding what is true and what is not. If your terms are vague to the very audience you are trying to reach, why would you continue with them? My terms are not vague. gpuccio
When GP is reduced at length to such a conclusion, that is pointing to a truly sad state. kairosfocus
Toronto: If you were teaching something to a child and they said they didn’t understand you, would you just keep repeating yourself instead of adapting yourself to your listener? I have never refused to clarify. I have clarified a lot of times. I refuse to adopt your terms instead of mine, for the simple reason that mine are better. If instead you just answered questions as asked, you would actually be typing less and putting the pressure on our side to answer your clarified position. You are a liar, and believe me, this is really a compliment. I have always answered questions, if they has a minimum sense. Your side, including you, very often does not asnwer my answers, or rephrases them with malice or arrogance or both. Your side (with few exceptions, and you are not one of them) would never admit any true thing about ID or dFSCI, whatever the pressure. You are fanatics, and many of you are liars. gpuccio
Mark: But more to the point – you repeatedly said before we embarked on this that there were many, many cases of dFSCI which have all proved to be designed. When challenged you seem to try any other response than describing a single one. You must be kidding. Let's reverse the challenge. I give you a few strings, and you decide f you want to affirm dFSCI and infer design: 1) "Feedback is a process in which information about the past or the present influences the same phenomenon in the present or future. As part of a chain of cause-and-effect that forms a circuit or loop, the event is said to "feed back" into itself. Ramaprasad (1983) defines feedback generally as "information about the gap between the actual level and the reference level of a system parameter which is used to alter the gap in some way", emphasising that the information by itself is not feedback unless translated into action" 2) "athsisnbdo psiuai kmnxopop m iisuaiooaopp xcdpzspp lcspppdkè klkpsoppès+è+,cèà diusatuiaoò-c à òdlsn so 132 kw09s nal xkoia9m òpòòòò spopospòlw zabayhaon ertysino xdp,amspèa ,XPPSPOJK LXMKLP mkxllzpppzp òèèc 38 sn9su3’, ,mòòààà còòsè copkiziioppp" 3) "0101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101" These are three examples, I suppose. I could easily affirm or not affirm dFSCI for each one of them, but I will not do it, because I know their origin. So, please go on. gpuccio
Toronto: I will certainly continue the way I have been, but for my motivations, not certainly yours. You know, I am a little tired of people telling me what I should do. I do what I like. You react as you like. I say what I consider true, in the way I consider most appropriate. You are free to understand, disagree, be confused or be illuminated: as you like. I don't tell you what you should do. Please, be as kind to me as I am to you. gpuccio
Mark: Look: I am not playing games. I don't know if you are, but I am not. I made a challenge. You accepted it. I complied, and I made all my assessments and motivated the. There was no false positive, as I expected. For me, the challenge is done, unless you want to present more strings. The procedure with Mung's string was perfectly correct. I recognized that it was code because I nave some experience with programming, but I had to ask Mung for the function because my experience was not enough to detect it myself. I had already desclred that I would ask the function, and only the function. And you had agreed to that. My design inference for Mung's string has nothing to do with him being an ID supporter. I would have done the same inference if you has presented the string, and given the same functional clarifications. I can admit that I would have been more careful in your case, and thought two seconds more probably, just to be sure that you were not playing tricks. That's only human, and if you want to interpret it as Bayesian thinking, instead of simple human caution, be my guest. I would ask you why you never offered a designed string, or simply a random string without meaning: that's playing games, indeed. In your language, all of a sudden serious discussions in a blog like this, where most of us spend sincerely their time, their resources, and their passions to defend what they believe is true, become: "the unreal context of Noddy challenges on blogs put together or selected by people whose motivation you can easily guess" I strongly disagree. This is a deep place, where deep issues are discussed, much more seriously, IMHO, than in many scientific papers or academic circles. I love this place, and I love this activity of the mind and of the heart. If you suddenly despise all that, if you suddenly think that it is out of the "real world", please keep your opinion, but I have no sympathy for it. gpuccio
Toronto: The confusion was a result of attempting to use your definitions, which are very ambiguous. That's your opinion, and you are entitled to it. I will stick to my terms, because I find them precise, explicit and non ambiguous. You do as you like. gpuccio
Toronto: Fire is a very important function but it was not designed by an intelligent designer, rather it is a chemical process that has both “necessity and random mechanisms”. I don't follow you. Fire is a function? That's new, for me. I thought it was a natural phenomenon. If a random lightning bolt hits a dry branch in a forest you will have a fire that will keep burning until it runs out of fuel or something stops it. And so? If it rains, it rains until it stops. Can you see? I can build brilliant arguments too, if I want. The process of fire is functional but not designed and neither are some specific instances of fire though they also sometimes serve a purpose for example, in promoting re-growth in a forest and thus changing the local environment. You are mentally confused. All events have effects. That does not mean that they are "functional". Function is a condition of consciousness. But certainly, we can recognize some function in anything, even the falling of a stone or the flow of a river. That's why I leave complete freedom of function definition in the dFSCI procedure. I am not interested in the function itself, but in how complex is the functional information. If the functional information (the information necessary to express the function, the information that is not merely the effect of necessary laws) is highly complex, then the object exhibits dFSCI and I infer design (this is probably the nth time I say it, with a very big "n"). Fire does not exhibit dFSCI. Any "function" you can define for it is completely explained by necessity and/or randomness. But, if someones applies fire selectively, according to a complex pattern that can be linke to a definable function, then the scenario can be very different. The pattern cannot any more be explained by laws or randomness, if it is complex enough. Just think, fire used to carve a sonnet by Shakespeare in wood! gpuccio
Toronto:
If I design a computer program that dumps memory from a random memory location, that string might contain English text or a string of binary digits in sequential order or even valid machine code. Since I didn’t “specify” what the actual output should be, the string does not have “dFSCI”, as the ‘S’ attribute is FALSE. When you read it however you might see, “Please enter your name….”, which seems to be specific, and therefore the ‘S’ attribute of “dFSCI” would be TRUE. You would have a false positive if you claimed designed “dFSCI”. Even though the program itself is designed, no output was “specified” since the “search space” and “target” were random.
Well, this is interesting. And it is even more interestin to witness how you guys are trying the impossible to show that dfSCI can be "circumvented". But the impossible remains impossible. You see, if you just tried to simply understand the meaning of dFSCI, you could probably easily answer your questions yourself. In your example, the only important point is: what can explain the functional information we observe? So, let's say that your random program dumps a Shakespeare sonnet and some random memory without any meaning. We could obtain something like that:
bbbtsrwi doenwlo ohv nspiwe llllasèap bxhsoidy nffo elsnau ls spdppòd istciaed lflcpm aaiauusuusalnxòpxè Why is my verse so barren of new pride, So far from variation or quick change? Why with the time do I not glance aside To new-found methods, and to compounds strange? Why write I still all one, ever the same, And keep invention in a noted weed, That every word doth almost tell my name, Showing their birth, and where they did proceed? O! know sweet love I always write of you, And you and love are still my argument; So all my best is dressing old words new, Spending again what is already spent: For as the sun is daily new and old, So is my love still telling what is told. xtrsuds floe qalkpapò pòclpsp ,mlp,kmpòa mnxozgtausb c cpdnvcik sakuuz òlòpcòcò
Now, answer your own questions: a) Does the string exhibit dFSCI? Simple answer: part of it does. Can you guess which part? b) Shall I affirm dFSCI for the string? Simple part: yes, but only for the meaningful part. Remember, dFSCI is about the minimal information that can express the function. The meaningful part of the string completely expresses the meaning. All the rest is irrelevant. c) Shall I infer design? Simple answer: certainly yes, for the functional part. d) Would that be a false positive? Simple answer: certainly not. It would be a full true positive. The meaningful part of the information in the string, indeed, was designed by Shakespeare, as we all know. Can you see how simple it is? gpuccio
keiths:
Zachriel, you’ve been sloppy, hypocritical and dishonest in this thread. It reflects quite poorly on you.
And I have provided evidence that keiths has been sloppy, hypocritical and dishonest in that thread. And it reflects quite poorly on you, keiths. Joe
Mark: What you did was effectively ask Gpuccio to guess the function. That’s a completely different game. No! Absolutely not! Why do you say things that are not true? There is alredy enough confucion here. Mung has proposed the string. Then I asked him its function. He gave it. Then I affirmed dFSCI, explaining why, and made a design inference. Then I asked Mung confirmation about the origin, and he confirmed that he had designed the string. This is the simple truth. Please, stick to the truth. Just look at my post #284 to you. The whole story is there:
Mark: "I am sorry – I have not been able to read every comment on this thread. What was Mung’s string?" It’s at #111 here. I asked about the function at #167. Mung answered at #170. I affirmed dFSCI at #177. Mung confirmed a design origin at #179.
gpuccio
Toronto:
But any readable “string” that is output by a computer is ultimately a repository of data, regardless of whether it “defines” values or “defines” functions. If instead of writing a “string” to a screen however, you instead output data to a D/A converter, you now truly have function.
There is a difference. We have discussed data strings here as those strings whose only detectable function is as repositories of information about facts (like measures). Instead, a string that has an indepependent function, such as the information for a functional software, or a functional protein, is different (although you can still consider it as some form of "data"). The difference is: in the second case, the string conveys data about a function. In the first case, the string only conveys data about natural events. For our purpose, this is very important: natural events can be explained by necessity-random mechanisms. Instead, functions are ususally designed by intelligent agents (unless they are very simple). That's why we use functional information as specification, but we don't use simple data (factual information) in the same way. It's all implied in the "necessity clause". gpuccio
Mark:
I mean actual examples – not ones that could be done – actual cases other than examples dreamt up to created to illustrate the point in completely unrealistic contexts. There are mean’t to be thousands of them which have demonstrated the utility of the dFSCI process. Surely you can show me one? The alternative is that the empirical correlation only based on hypothetical cases and noddy examples. Remember the conditions. An observer did not have any idea of the origin. Assessed that the string had dFSCI and then another observer revealed that the string was designed.
This was the challenge here. Why don't you give me thousands of strings to jubdge? I am ready, as far as my time allows. You choose 500 strings designed and 500 generated by a RSG. This is the idea. We can do it. Anyone can do it. I already know what the result will be. But I am available to spend the time to convince you, if you are not yet convinced. And waht is "noddy" in our examples? (whatever that means...) You give strings that are not "noddy", please. gpuccio
Toronto:
What is designed are the human designed “methods” as used in software, which is one half of our analogy. The other half, what we are making the analogy about, is biology and it is precisely the origins of its “methods” that are the subject of debate.
That is true. Whoever said anything different? I just said that what corresponds, in your analogy, to "methods" in a protein, that is simple subunits, alpha helixes, beta sheets, and similar, is not naturally selectable and has in itself no useful biochemical function. If you were talking instead of multi-domain proteins, then single domains can certainly be functional, or potentially selectable. But a protein domain is a very complex object. gpuccio
Toronto: Can we find suitable terms such as “presenter” and “generator” to show the different meanings? Why not use mine, now that you have understood them? For convenience, I repeat here some explicit definitions: a) Origin: the way a string, or object, comes into existence, as observed, directly or indirectly, in a way that gives reasonable certainty. IOWs, we treat the origin as a fact, known or unknown, If the fact is unknown, we can try to make inferences about it. Those inferences can be right or wrong, but we can know that with certainly only if the origin is independently known as a fact. b) A necessity mechanism is any mechanism that links an output to specific causes by necessity (probability = 1). It is usually part of some proposed explanation (theory). c) A probabilistic explanation is a proposed explanation for some output where the output itself is descirbed as the result of a random system, and its probability in that system can be evaluated. d) Explanations are theories that try to explain facts. They are based on necessity mechanisms and /or probabilistic explanations. Explanations are proposed to explain facts, and the explanation, if accepted as "the best available explanation", can imply some inference about unknown facts, like the origin of what we observe. e) Proposed explanations can be good or bad, consistent or not, simple or complex, convincing or not, supported by known facts or not. Inferences can be right or wrong. However, no scientific knowledge is ever absolute, or definitive. Can you agree on these concepts? gpuccio
Toronto: First if all, I cetainly share your (and Petrushka's) enthusiasm for OOP. But let's go back to work. You say:
I think you should come up with a different scenario that explains why the “generated output of a computer algorithm”, does not have “dFSCI” if all other requirements, i.e. d F S C and I, are met. Remember, the computer program, the “necessity mechanism” is not passing data from input to output when I use the analogy of a computer program. One of the few things Joe and I agree on is that the attribute “dFSCI” as applied to a string, is not dependent on how it was produced.
Well, let's say that if you have a computer program that generates a string that exhibits dFSCI, and I observe the string, and know nothing of its origin, I will affirm dFSCI for the string, and infer design. Which will be correct, because the string was generted by a designed computer program, and therefore its origin is from a design process. So, that would be a true positive. A computer program that can generate a string with dFSCI must be, as far as I know, a designed program exhibiting dFSCI. It is, however, a compression of the output string, therefore the Kolmogorov complexity of the output string is the complexity of the program, if that is lower. As I have aòready discussed, the only way to generate a false positive this way would be the following: a) To have a computer program that was not designed (for instance, that arose in the system without any intelligent intervention, by pure RV). b) And that is capable to generate a string that exhibits true dFSCI, and has no objective sign (like order, or computability) of being compressible by a very simple program that could arise by chance. In that case, I would make the design inference, and I would be wrong. That would be a false positive. Have you any example of that? gpuccio
Toronto:
Strings of instructions could be chained together into “objects”.
What does that even mean? Why the quote marks around objects? Mung
Toronto:
But any readable “string” that is output by a computer is ultimately a repository of data, regardless of whether it “defines” values or “defines” functions.
That hardly even makes sense. You acknowledge a difference between values and functions. Great. Does mark frank? He seemed to be confused on the point. A string output by a computer is typically data. It's output by a function. In Ruby, the puts function outputs a string to the standard output. Can you give me an example of a computer outputting a function? And in a case where one is using a string to store values, a different data structure would suffice, and the string itself is not what defines the values, contrary to your claim. In fact, in my function I used an array [data structure]. I stored a single value in each element of the array and then converted that data structure to a string using another function (Array#join). Now in Ruby, I can define strings of code and use the eval function to execute them: eval "2 + 2" => 4 You can try it yourself here: http://tryruby.org/levels/1/challenges/0 But there is a clear difference between functional strings and non-functional strings. Try a data string: eval "abcdefghijklmnop" => # oops! Not a functional string! Why don't you give us some similar examples that you think make your case?
You would not replicate “definitions” of anything since those are really compile-time responsibilities, not run-time.
You make no sense. Again, I'm using Ruby. It's not a compiled language, it's an interpreted language. Do you really think that the code of a class is duplicated every time it's inherited, regardless of whether it's at run time or compile time? If it's not, then what is the similarity to biological organisms? Seriously. Would you just shut up and think for a moment?
The replication of actual runnable code and data is up to the running process and is only limited by computer resources just like any real biological process would be limited by its resources.
A living organism may indeed not replicate due to lack of resources. I think there are studies that confirm this. But computers don't refuse to implement inheritance due to lack of resources. Sheesh.
Remember, we are dealing with object code at run-time, not source code.
You didn't read anything I wrote previously, did you. Or linked to. 1. I am using Ruby, an interpreted language. I don't have to compile it to run it. 2. There is an additional step called linking that occurs with compiled languages such as C. Object code is not what gets run at run time. What language do you program in? Or have you never programmed, and that's why you are having so much difficulty with concepts? Do you know what a make file is?
I would not do a simulation at the programming language, i.e. source code level, it would be done with real functional object code which would be significantly below 500 bits for simple “methods”.
Do it. Show us. How are you going to get object code without source code? Use pseudo code for all i care. Just show us something real. You keep making assertions without any demonstrations to back them up. I posted a link to Ruby's BasicObject. Even that is incredibly complex and well beyond 500 bits. And it's been stripped of much of what is normally present for a standard object in Ruby. What will your object do, if anything? Well, let me give you my opinion. 1. An object must be capable of having attributes. 2. An object must be capable of having behavior. So, all you need, as far as I am concerned, is two methods. Now, your task, should you choose to accept it, is to define a method that allows a programmer to define methods (behavior) for the object. Try to do it in less that 500 bits. Mung
Toronto, please show actual examples of software inheritance and how it works and compare it to biological inheritance. It's not the same and it sure as heck doesn't involve replication of the code defining the classes and objects. If it did you'd be constantly getting out of memory errors. And again, show us how to create an object in your favorite object-oriented programming language by building it up from small methods of less than 500 bits. For your reading pleasure: http://en.wikipedia.org/wiki/Eigenclass_model Mung
Mark Frank:
I mean actual examples – not ones that could be done – actual cases other than examples dreamt up to created to illustrate the point in completely unrealistic contexts.
What on earth are you talking about? My string wasn't made up to illustrate the point and it most certainly was not from some unrealistic context. I took it from an actual working program that I had previously developed completely independent of this whole exercise and merely tweaked it to have exactly 150 characters. I could put forth any number of other strings likewise created completely unrelated to this whole thread that are neither trivial nor unrealistic. Real code from real working programs. You could to, if you wanted to. Do you still think there's no difference between a string that defines a function and one that is merely a repository for data? Mung
Zachriel:
For instance, the existence of the nested hierarchy largely precludes separate creation.
Unfortunately for Zachriel the EXISTING nested hierarchy was produced by a CREATIONIST attempting to classify the CREATED KINDS, ie a special and separate creation. For example, the following reads like a DESIGN spec- In the nested hierarchy of living organisms we have the animal kingdom. To be placed in the animal kingdom an organism must have all of the criteria of an animal. :
All members of the Animalia are multicellular (eukaryotes), and all are heterotrophs (that is, they rely directly or indirectly on other organisms for their nourishment). Most ingest food and digest it in an internal cavity. Animal cells lack the rigid cell walls that characterize plant cells. The bodies of most animals (all except sponges) are made up of cells organized into tissues, each tissue specialized to some degree to perform specific functions.
The next level (after kingdom) contain the phyla. Phyla have all the characteristics of the kingdom PLUS other criteria. For example one phylum under the Kingdom Animalia, is Chordata. Chordates have all the characteristics of the Kingdom PLUS the following:
Chordates are defined as organisms that possess a structure called a notochord, at least during some part of their development. The notochord is a rod that extends most of the length of the body when it is fully developed. Lying dorsal to the gut but ventral to the central nervous system, it stiffens the body and acts as support during locomotion. Other characteristics shared by chordates include the following (from Hickman and Roberts, 1994): bilateral symmetry segmented body, including segmented muscles three germ layers and a well-developed coelom. single, dorsal, hollow nerve cord, usually with an enlarged anterior end (brain) tail projecting beyond (posterior to) the anus at some stage of development pharyngeal pouches present at some stage of development ventral heart, with dorsal and ventral blood vessels and a closed blood system complete digestive system bony or cartilaginous endoskeleton usually present.
The next level is the class. All classes have the criteria of the kingdom, plus all the criteria of its phylum PLUS the criteria of its class. This is important because it shows there is a direction- one of additive characteristics. Yet evolution does NOT have a direction. Characteristics can be lost as well as gained. And characteristics can remain stable. And as expected the design specifications get more intense as one narrows in on the organism. Joe
And keiths continues to prove that he does NOT understand nested hierarchies:
On the other hand, a process (e.g. evolution) that involves descent with (gradual) modification and primarily vertical inheritance will produce an objective nested hierarchy.
OK keiths, based on what criteria, exactly? What criteria are you using for this alleged "objective nested hierarchy"? And how does the fact that traits can be lost affect this? Also do you realize that Linnean taxonomy, an objective nested hierarchy, is based on a common design and has nothing to do with universal common descent? And if gradual modification demands a smooth BLENDING of traits, which it does, how does that square with objective nested hierarchies which require SEPARATE and DISTINCT, objectively defined sets, something that gradual modification cannot produce? Anyone who thinks that unguided evolution predicts an objective nested hierarchy needs to read "Evolution: A Theory in Crisis". keiths won't because he is blissfully ignorant and obvioulsy proud of it. Joe
gpuccio:
Take the only positive: Mung’s software string. I suspected immediately that it was code, as you would have done yourself.
Probably because it was the only one with a truly objectively defined function. :) Mung
While complete “objects” might be complex, their building blocks, i.e. their “methods”, can be quite simple and way below the UPB.
And Toronto still doesn't know what he's talking about. If only he could give some actual examples. http://www.ruby-doc.org/core-1.9.3/BasicObject.html https://github.com/ruby/ruby/blob/trunk/object.c Mung
Mark: I am happy we have reache some agreement on that point. You make two interesting comments. Here are my counter comments: The first point: In any real situation the observer is going to have some knowledge in both dimensions 1 and 2. A digital string is always in some context which tells you something about it. It is going to be extremely rare that a string with a natural origin gives no inkling to the observer that it could arise through a necessity mechanism (and thus automatically does not have dFSCI). Hence the danger of circularity. It is not really so. There are various aspects in this statement, and I will consider them separately. a) First of all, I really agree about your considerations about how we can know the origin. It is really so. Obviously, when I say that we use strings whose origin we know, I mean that someone can give us sufficient information to convince us of the origin. In the case of Mung, for instance, he has declared that he presonally wrote the string of softwrae. Unless we think he is lying, that would be good information. b) I have always said that, to really assess dFSCI, we should define well the system where the string emerges, and the time span we are considering for its emergence. That, however, is not because we must try to "guess" the true origin, but only because in many cases we need that information to decide what threshold we should use for dFSCI. IOWs, we need to approximate the probabilistic resources of the system. We also need to be able to reason about possible necessity explanations, and that is much easier if we know something of the system. c) We also need to know the object where the string can be read. We usually underemphasize that point in our discussions here, but it is important. A string of nucleotides in DNA is not the same thing as a string with the same information written in a blog. d) However, after making those distinctions, I still believe that in most cases the most important thing remains the information in the string itself. Take our "challenge" here. for instance. You have given me the strings in the most abstract form. I have not, in general, asked anything about the system, or the time span, or the object where you had read the strings themselves. All the clarifications I have asked were about the function, and about how it was defined. And yet, I have given a judgement in all cases. Many have been negative judgements, but I have motivated each of them. Take the only positive: Mung's software string. I suspected immediately that it was code, as you would have done yourself. It was very clear, no special "guess" wa necessary. I needed confirmation of the language and the function, to motivate my assessment correctly. The same is easy for language, for most software, for most machines. That brings us to your second point: Second. The test you describe will be a situation where an observer with limited knowledge did an estimate of dFSCI and then someone else (or that observer later on) discovered what the origin really was. You talk of all the thousands of proofs of the dFSCI correlation. How many instances can you think of where this process has been followed other than specially designed tests by bloggers over the Internet! As KF always points out, the test can be done for myriad of objects in daily life. We do it daily for all language. For software, and, in analogic contexts, for art objects, houses, machines of every type, and so on. You darwinists were only trying to build some false positive, or some example that could demonstrate some ambiguity in the definition. But you could have offered thousands of simple examples of designed strings. I would have inferred design for most of them. Mung could have given 1000 strings, instead of one. In the same way, you could have easily offered thousands of randomly generated strings: we had agreed in advance that using a computer RSG was perfectly OK. I would have inferred design for none. So, the test is always there, under your eyes. You don't even need a blog to do it. gpuccio
Toronto:
While complete “objects” might be complex, their building blocks, i.e. their “methods”, can be quite simple and way below the UPB. Seen in this way, “objects” can be viewed as configurations of “methods”, not bits, and life can also be seen as configurations of “functionalities”, not pure bitmaps.
True, but there are three important points that you are not considering: 1) Those methods are susally still complex enough not to emerge by chance. As far as I know, "methods" are desinged. 2) The reuse of methods in dofferent contexts is designed too, and often it rquires not only intelligence, but great intuitive creativity. 3) As you know, I always speak of proteins. In proteins, basic domains are the functional units (anad, often they are not functional in themselves, needing much irreducibly complex organization in biological machines to be really useful). It is true that proteins are made of simpler structural modules, but those modules cannot certainly be considered as functional, when the only function that can be considered is giving a reproductive advantage, as in your RV + NS algorithm. An enzyme cam be useful, and in the end give a reproductive advantage, only if it does what it does. Its simpler units do not do what it does. It's as simple as that. Moreover, most enzymes are of some utility only when they are inserted in a protein cascade, or in a multi protein machine, and when they are correctly expressed, at the right time and in the right quantity, in the transcriptome. When I stick only to the complexity in basic protein domains, I am really doing you darwinists a great favout. gpuccio
Toronto: Is the “dFSCI” attribute of a string, dependent on its origin? No. You were right about that. I hope my post #354 has clarified the point. gpuccio
Toronto: Another point that deserves to be clarified, because you have spread a lto of confusion about it. I have never said that a designer cannot use any necessity mechanism in designing, or that the use of a necessity mechanism, such as a computer, excludes dFSCI in an object. If you read my words, and not your rephrasings, you will see that my concept is very simple: it is the functional information in the object that must not be explained by necessity mechanisms, if we want to affirm dFSCI. I have shown, in my post #353, that the data string of Londom temperatures is no dFSCI not because it is registered by a necessity mechanism (the measuring machine). Indeed, the measuring machine is the only part of the system that is designed, and could exhibit dFSCI, if it is complex enough. The data string does not exhibit dFSCI because the information in the string can be explained by necessity-random mechanisms: those mechanisms that generate the differences in London temperatures. And the designed mechanism of measurement derives the data string from the necessary events according to a necessity mechanism (the measurement). Is that clear? So, Shakespeare writes his sonnet. That is an act of design, and the complexity in the sonnet cannot be explained by any necessity-random mechanism. Then, Shakespeare writes his words on a paper by necessity mechanisms, his publishers generated millions of copy of the sonnet by necessity mechanisms, including our computers. That is of no importance. The information in the sonnet remains the information created by Shakespeare, by an act of design. Is that clear? gpuccio
Toronto: You here have clearly said that if the origin of a string, (i.e. the generator of the information in a string), is a necessity mechanism, then the string does NOT have “dFSCI”, solely because of where the string came from. I believe here you are really confused, in good faith, about a point that is in itself very simple. I will try to clarify it. I have not said that: "if the origin of a string, (i.e. the generator of the information in a string), is a necessity mechanism, then the string does NOT have “dFSCI”" Those are your words. My words are, as you yourself quote them: "IOWs, I will not affirm dFSCI if I know a possible necessity mechanism that can explain the information in the string. But I am saying nothing about the origin of the string." You see, you would avoid much confusion if you just used my words in commenting my words, instead of rephrasing them. Can you see the difference? I am speaking of "a possible necessity mechanism that can explain the information in the string". Not of "a necessity mechanism that is the origin of the string". IOWs, I am still evaluating dFSCI without knowing anything of the origin of the string, as explicitly stated in the words you quote. I can know a necessity mechanism that can well explain the string. That is a cognitive judgement about a possible explanation, and not an inference about an origin. You should always keep separated explanations and inferences. It's always epistempology that creates the greatest problems for you darwinists, in my experience. So, the point is: if I judge that the information in the string can be explained by a necessity mechanism, I will not affirm that dFSCI is there, and I will not infer design. Still, I know nothimg about the true origin of the string. As I have said many times, many things are designed, and yet they are simple. Some of them could be explained by a necessity mechanism, even if in reality they were designed: think of some very simple darwing in the sand, that could be the result of waves or wind, but it can really be designed. So, the origin is one thing. Explanations are another thing. The plausibility of available explanations, IOWs what we believe to be the best explanation for what we observe, is the basis for our inferences about true origins. Inferences are inferences, and are never certain. Explanations just have to be reasonable, credible, consistent, as detailed as possible, and better than their competitors. gpuccio
Joe: A computer program is a machine. It works by necessity mechanisms, but it is not in itself explained by necessity. It is very simple, as KF as very correctly pointed out in post #351 There is no ambiguity at all in these simple concepts. Take for example the case, many times debated here in the last days, of a data string generated by a necessity mechanism. The string of highest temperatures in London is a good example. We must consider separately: a) The complexity of the natural events that are described by the measures in the string: the variations of temperature in London are certainly complex. But, in general, most people would agree that they are not designed. But their complexity is explained by necessity-random mechanisms, such as those studies by metorology. b) The complexity of the necessity mechanism that measures and stores the temperatures (in digital form). This is a designed mechanism, whose complexity can be assessed. The mechainsm works by necessity, but is not explained by necessity. c) The complexity of the data string. This is the result of the repeated measures of the events (a) by the mechanism (b). Now, the important point is that (b) connects (a) and (c) by a necessity mechanism: the measurement of the temperature. Therefore, the complexity of the string (c), however long it may be, is only "derived" from the complexity in (a), and as the complexity in (a) can be explained by necessity-random mechanisms, also the complexity in (c) can be explained in the same way, plus the contribution of the complexity in (b). But the complexity in (b) (the designed complexity) remains always constant, however long the string (c). That measn that the main complexity in the string (c), especially if it is long, derives from the complexity in (a), and not from the complexity of the measuring mechanism. I hope this is clear. gpuccio
While the “engineers of life”, .i.e. IDists, point to human engineering examples when explaining biology, they refuse to accept that the concept of “inheritance” as used by software, is also applicable to biology.
As usual, Toronto doesn't know what he's talking about. Mung
GP: The executing machine works by mechanical necessity, per the loaded strings of instructions and data. However the code itself, as an information-based entity, is highly contingent, functionally specific and as a rule well beyond the 500 - 1,000 bit threshold where the only empirically backed explanation is design. And those who are playing rhetorical games to dance around such inconvenient facts know it or full well should know it. This speaks volumes. KF kairosfocus
OMTWO: Do you read my posts? Evidently not. I have assessed dFSCI for all the strings proposed. Only in one case (Mung's string) I assesses dFSCI as present. That was a true positive, because the string was designe, by Mung's admission. I have also inferred design on the basis of dFSCI for almost 30 protein families, according to Durston's data. I am ready to be falsified about that inference. So, do you read my posts, or are you just having fun writing the first thing that comes in your mind? gpuccio
Mark: So we know it but are not aware of it! I am glad to have things simplified. Mark, are you serious here? Sometimes I am amazed at your comments. This is not complicated, it is simply nonsense. We have done that! How can you not understand? It is simple ands obvious. We are esting dFSCI with string whose origin is known. So you, or Mung, or anybody else, collect string whose origin you know. Then another onserver (that would be me, in the thread that has been dedicated by you to the testing itself!) assesses dFSCI "without knowning the origin" of the string (which, however, is known to you). As I have written a lot of times, tyhe testin is done "in blind". Then after I have assessed dFSCI, my assessment is evaluated against the true origin of the string, and calssified as true positive, false positive, true negative, false negative. As discussed, with you, many times in the last few days. So, why do you come out with nonsense like that comment? Actually I think you are saying the same as me – although I guess you find your wording simpler than mine. To assess the dFSCI procedure you have to imagine you do not know what in fact you do know i.e. the origin Are you kidding? I am not saying the same as you at all. And what I am saying is very simple. Again: "To assess the dFSCI procedure I have to "imagine" absolutely nothing. I have to assess dFSCI without knowing the origin, and then checking my assessment with the known origin." Is it so difficult to understand that the origin can be known, but the observer who assesses dFSCI can be prefectly unaware of it? So did it or did it not have dFSCI at time t1? (Sorry to be so complicated). I we assess dFSCI again at time 1, we will not say it has dFSCI. But that would be from a point of advantage. Our previous judgement, correctly given at the time, would have been however falsified, and the procedure would have been falsified, in this particular case. gpuccio
gpuccio, Are you saying that a computer program is a "necessity mechanism" because the computer has to run it as it is? Or why are you agreeing that a computer program is a necessity mechanism? To me it is a design mechanism. Joe
Toronto: Is a computer program a “necessity mechanism”? Yes, obviously. I works by necessity algorithms (unless it also includes random components, which is possible). And so? gpuccio
Toronto: While the “engineers of life”, .i.e. IDists, point to human engineering examples when explaining biology, they refuse to accept that the concept of “inheritance” as used by software, is also applicable to biology. It certainly is. Why should I refuse to accept that? Biological design is, at least in good part, "object oriented". Every test of evolution ends up with the “improbability” argument that insists all “functionality” appears at once. Object oriented design is still design. You have to design the objects that will be inherited. and the inheritance itself is designed and controlled. I can't see your "point". gpuccio
Joe Felsenstein: Finally, given these statements by gpuccio, gpuccio’s inference to Design is not circular. gpuccio intends not to exclude cases that later turn out to have a natural mechanism for the CSI. Instead of being circular it is based on a faith that cases of dFCSI that have not yet been investigated will always turn out to be cases of Design. Correct. Thank you for the non circularity admission. I had noticed that the circularity argument was no more very popular, but you were very kind to state that explicitly. I have no problems with your review of my position, even if, obviously, I would describe some points with different words. For example, you say: "I think that this makes it almost inevitable that the argument will fail, since sooner or later someone will study one of these unstudied cases and find a plausible nondesign pathway." I am happy for your faith and hope (which are anyway good qualities of the soul). I humbly remind, however, that the problem is not that we have hundreds of cases where macroevolutionary complex molecular events have alredy been explained by RV + NS, and a few cases that still need to be explained for lack of time and resources to study them. Indeed, it is exactly the other way round: no macroevolutionary complex molecular event has been ever explained by RV + NS. Maybe fro you it's the same thing. For me, it is not. For GAs, I have explained that we could model RV and NS with a GA (I have also suggested how Lizzie's algorithm could be chabged to apèproach such a result). The simple fact is that existing GAs do all expcept modeling NS. Finally, you say that my inference "is based on a faith that cases of dFCSI that have not yet been investigated will always turn out to be cases of Design". That is true, but IMO it is not faith, here, but a very reasonable scientific conviction. I prefer to consider faith the hope that something that has never been shown, and that has logical reason to exist, will one day be shown to exist. Again, it's always a problem of choices. In this case, specific cognitive choices and cognitive styles. You write on a blog that is, admittedly, for "skeptics". As I have said, I hate the word. But you could probably say that I am completely skeptic about you conviction that those things will be found. gpuccio
keiths:
Evolutionary theory predicts that the two trees will be highly congruent, if not identical. In other words, evolution predicts that given a morphological tree, the molecular tree will come from the tiny sliver of possible trees that are highly congruent to the morphological tree.
1- There isn't any "tree" amongst prokaryotes- more of a web and evolutionary theory is OK with that. 2- Different trees result from different molecules from the same organisms and evolutionary theory is OK with that 3- Evolutionary theory would be perfectly OK with a prokaryote-only, ie non-tree, world. 4- Evolutionary theory would be OK with a non-branching lineage formed by descent with modification 5- Evolutionary theory would be perfectly OK with any of the alleged possible 10^38 nested hierarchies And finally keiths still has not demonstrated any understanding of neither nested hierarchies nor evidence. Joe
RB chimes in:
It’s dFSCI of the gaps, and not much more.
And archaeology is a scribe of the gaps and forensics is a criminal of the gaps... Joe
“No, evolution proceeds BY DESIGN, just as I have been telling you for years.” toronto:
Does the “intelligent designer” intervene in a life-form’s “information”, i.e. “dFSCI” or “semiotic codes”, in order to for evolution to occur?
Not required but it is a possibility. However evolution by design contradicts Darwinism/ MET Joe
“Built-in responses to environmental cues- ie genetic programming. IOW the designer does NOT fine-tune life. Thanks to the designer(s) life fine-tunes itself. “ toronto:
So evolution proceeds without “intelligent designer” intervention, but our only real difference with IDists is the “OOL”?
No, evolution proceeds BY DESIGN, just as I have been telling you for years.
Are we close to an understanding Joe?
No, obvioulsy you are incapable of understanding. Joe
the modern ID synthesis lol Mung
Toronto:
That doesn’t save you from “gpuccio’s law”. Any string that is a result of a “necessity mechanism”, such as a computer program, does NOT contain “dFSCI”. That means you are going to have to manually put together any string that you wish to assert “dFSCI” for. It also means the “intelligent designer” of life is also forbidden from using computers as the resulting life-forms would NOT have “dFSCI” and therefore would not be considered as “designed” by gpuccio.
You win a special prize for the best misunderstanding of the week. gpuccio
Zachriel:
Inheritance just so happens to be a natural property of life.
Most likely it is a DESIGNED property.
Life naturally forms the tree.
That all depends on what you call a "tree". Design theorists are OK with a orchard or a lawn. Joe
Joe Felsenstein: I am still wondering what gpuccio would have us do when a sequence is designated as having dFCSI because there is not a sufficiently detailed explanation of it by RV+NS, but later such a detailed explanation is found. Strange. I believe I have answered that at least 10 times in the last few days. (1) Would gpuccio then concede that dFCSI is not a good indicator of Design? Yes. It will be interesting to see which of those gpuccio would choose. I hope you find my choice interesting. In the meantime gpuccio’s dFCSI appears to be an attempt to formalize Michael Behe’s irreducible complexity argument in terms derived from William Dembski’s CSI argument. I have no objections to that. In a moment of huge narcissism, I would call it "the modern ID synthesis" (just kidding! :) ). The attempt does not seem to me to be successful. You cannot convince everybody... There are important unanswered questions — so far no one here on TSZ can claim that they know how to apply the dFCSI concept. That is probably not good, either for my clarity, or for TSZ's understanding ability :). I don’t think that dFCSI adds anything to Behe’s argument, and I don’t think we’ll be seeing Behe switch to describing his argument in terms of dFCSI. Why should he? His argument is great as it is. gpuccio
He disregards inner ear evolution because we don’t have the molecular history.
Or because no one knows if it is possible because there is no way to test the claim. Joe
Petrushka: He disregards inner ear evolution because we don’t have the molecular history. He disregards detailed molecular histories because they aren’t sufficiently complex. He disregards simulations because the undermine the mathematical basis of his belief system. I disregard "evolution" without molecular history because all my arguments are based on the complexity of molecular history. I disregard detailed molecular histories of microevolution because they are not complex, and all my arguments are based on complexity. I disregard simulations because they are not simulations if RV + NS. I can see nothing odd in that. gpuccio
Petrushka: Perhaps it would be clearer if it were called dIC. Digital Irreducible Complexity. I think what gpuccio is arguing is there are sequences for which there can be no incremental history. Perhaps he avoids making this expllcit because it removes the argument from the realm of mathematics and into the realm of chemistry. No, we could discuss that aspect, and I believe you are essentially right. Obviously, I would say "there are sequences for which there is no known, or reasonably expectable, incremental history". Otherwise, you would pretend that I demostrate a logical impossibility, which is in no way my intention. The simple fact is: there is no logical reason why complex sequences should as a rule be universally deconstructable into an incremental histopry with very specific requirement, such as that each ioncrement should give a reproductive advantage. Indeed, there are many logical reasons, especially perteining to protein sequences, why that should not be the case. So, if such a result is in no way expected logically, or biochemically, I really need to see real demonstrations of its existence before believing in it. Is that clear enough? gpuccio
Keiths: gpuccio is saying that Durston’s FSC is the same as dFSI, not dFSCI. The “necessity clause” applies to dFSCI but not to dFSI. Perfectly correct. My compliments! gpuccio
Mark: I don’t think there is a “necessity clause” in Durston’s definition which means, unlike dFSCI, his definition is not to relative an observer’s knowledge at a given time. Durston gives a method to approximate the functional information in proteins, IOWs to get an approximation of the target/search ratio with an indirect biological method. He says nothing in the paper about a design inference, so he does not need a "necessity clause" at that level. However, the whole theoretical framework of his paper is based on Abel's concepts, so it is rather obvious that he does not think that any necessity mechanism can explain that kind of inforamtion that is found in proteins. I use Durston's data to assess the quantitative values of dFSI in real proteins. The design inference is mine, and only mine: Durston has no responsibility for it (although I believe he would agree). gpuccio
Mark: Why do you always complicate things without any need? 1) Then the gene had dFSCI relative to Gpuccio’s knowledge at time t0 but the string was not designed That's OK. So, dFSCI here is responsible for a false design inference (a false positive). 2) At time t1 the gene no longer has dFSCI relative to Gpuccio’s knowledge because string was not designed. No, at time t1 we have no need to "reassess" dFSCI: we have already made a mistake in that case. It is a false positive, and a serious falsification if the utility of dFSCI as a design indicator. What it does mean is that if inspecting strings for which the origin is already known then by definition any string with a known natural origin has not got dFSCI at the time of inspection. No, you are making a great confusion between different things. In the process of testing the specificity of dFSCI for design inference, we use strings whose origin is known, but we still assess dFSCI without being aware of that knowledge of the true origin of the string. As explained, that is a simple process of testing a diagnostic tool. In the (very hypothetical) case that RV + NS were shown capable to explain what it has never explained, that would show that our appication of the concept of dFSCI to biological information gave false results (false positives). dFSCI would be no more a reliable diagnostic tool, and the ID theory for biological information would be definitely weakened. Although it would probably still be possible to make an argument for OOL, I would consider such a result as a very strong argument in favour of the neo darwinain theory anyway. I have always been very clear on that: I believe that a same mechanism should explain both OOL and the successive evolution of biological complexity. I believe that only design can explain those things. If you show that RV + NS can really explain the evolution of biological complexity, I would recognize your success, and I don't think I would shift the argument to OOL alone. So any attempt to correlate design with dFSCI would have to somehow imagine whether the string had dFSCI before the origin was known. But this is an almost meaningless exercise. This makes no sense. dFSCI is clearly correlated to design in human artifacts, and my process of testing demonstrates that, as long as human artifacts and natural non biological strings are compared, dFSCI has 100% specificity. The controversial point is its application to biological information. We in ID believe that dFSCI reamins a perfectly valid diagnostic tool for design even in the buiological field, and we base this conviction on known facts. You, neo darwinists, belive on the contrary that biological information behaves in a completely different way from all other things, and rely on an explanatory mechanism that has not explained anything for your personal hopes. OK. Our choice, your choice. gpuccio
keiths finally admits his position is not a good theory:
Good theories are those that fit the evidence without the need for arbitrary, extraneous and ad hoc assumptions.
True and YOUR position is so vague all it does is use arbitrary, extraneous and ad hoc assumptions. Joe
toronto:
We are not talking about Dolly here or modifying corn but rather what ID claims is the mechanism by which the “intelligent designer”, fine-tunes life.
Built-in responses to environmental cues- ie genetic programming. IOW the designer does NOT fine-tune life. Thanks to the designer(s) life fine-tunes itself. Joe
1) Would gpuccio then concede that dFCSI is not a good indicator of Design?
gpuccio, Behe, Dembski, Meyer, myself, Mung, kairosfocus, PaV, vjtorley, bornagain77, Eric- well every IDist I know of would say that dFSCI is not a design indicator if and only if blind and undirected processes can be demonstrated to be able to produce it. And that is in writing too... Joe
Petrushka: I can’t see any scenario in which gpuccio would concede. That is not fair. And not true. From previous discussions at UD and at Mark’s blog, I think gpuccio believes the designer twiddles the bits in a way that is indistinguishable from naturalism. That is simply wrong, indeed the opposite of what I believe. I believe that the act of design needs not violate physical laws (although it could). In no way that means that it is "indistinguishable from naturalism". Otherwise, why would ID theory exist? In other words the dice are occasionally, but not always, loaded. the history we infer is the correct history, but occasionally key mutations are forced by an immaterial designer. That is correct, but it dopes not mean that the result is "indistinguishable from naturalism". The results of a design process are completely different from natural results, because they exhibit abundant dFSCI. On the contrary, if RV + NS were true, the natural history should be very different from the history of a design process. In design, intelligent information can be inputted in abundance, without violating physical laws, but certainly violating all probabilistic laws. A natural process cannot do that. GP is free to correct my understanding of this. I hope I have clarified my real views. gpuccio
Joe Felsenstein: OK, that clarifies things. In cases where RV+NS is not ruled out, but still possible, but where we have not investigated enough to say much further about whether RV+NS accounts for the adaptation, gpuccio considers “that no necessity mechanism is known”. What a pity that such a mechanism has never been shown to be existing for any molecular macroevolutionary transition, such as the emergence of a new protein domain! Alan Miller simply believes that it is not possible to find evidence for any such transition. You say it's just a question that "we have not investigated enough". The simple truth is that the neodarwinian algorithm has been considered for decade one of the most important triumphs of moderb science, has been declared a fact, more certian than the theory of gravity, and still cannot explain one single macroevolutionary event. What a shame! 1) Would gpuccio then concede that dFCSI is not a good indicator of Design? Yes. I have said that many times, very explicitly. gpuccio
Mung: thank you for the clarifications about the string. If I understand well, then, it is however a data string. Therefore, no dFSCI in the string (again, maybe the mechanism). gpuccio
Toronto:
This still leaves you with the question of how the designer would change “semiotic codes” in the cells of a living body.
You claimed this could not be done. You were proved wrong. What's your point in simply repeating your previously refuted assertion? Genetic Engineering. Genetically Modified Organisms. Heard of them? Mung
Toronto on November 8, 2012 at 4:59 am said:
Mung: So, you haven’t been paying attention. Why am I not surprised. My first string was not generated by a computer program. That doesn’t save you from “gpuccio’s law”.
So? It saves us from your obvious ignorance, and that's good enough for me. What is "gpuccio's law"?
Any string that is a result of a “necessity mechanism”, such as a computer program, does NOT contain “dFSCI”.
Is that what you're calling "gpuccio's law"? What about strings that specify a computer program?
That means you are going to have to manually put together any string that you wish to assert “dFSCI” for.
So? I manually put together the first string I posted and I manually put together the strings that generated my second string.
It also means the “intelligent designer” of life is also forbidden from using computers as the resulting life-forms would NOT have “dFSCI” and therefore would not be considered as “designed” by gpuccio.
Your conclusion does not follow from your premise. Mung
Joe Felsenstein on November 7, 2012 at 2:57 pm said:
I also don’t care what gpuccio’s motivation is, the issue is whether gpuccio has a method (dFCSI) that can be carried out by other people, and that is evidence that RV+NS cannot explain an adaptation.
You want to know what we care about Joe? Published results. In peer reviewed journals. Where are the papers you had published in peer reviewed journals in response to the results published by Durston et al.? http://www.ncbi.nlm.nih.gov/pubmed/18062814 Of possible interest to the current duscussion:
Abstract The fields of molecular biology and computer science have cooperated over recent years to create a synergy between the cybernetic and biosemiotic relationship found in cellular genomics to that of information and language found in computational systems. Biological information frequently manifests its "meaning" through instruction or actual production of formal bio-function. Such information is called prescriptive information (PI). PI programs organize and execute a prescribed set of choices. Closer examination of this term in cellular systems has led to a dichotomy in its definition suggesting both prescribed data and prescribed algorithms are constituents of PI. This paper looks at this dichotomy as expressed in both the genetic code and in the central dogma of protein synthesis. An example of a genetic algorithm is modeled after the ribosome, and an examination of the protein synthesis process is used to differentiate PI data from PI algorithms. http://www.ncbi.nlm.nih.gov/pubmed/22413926
Mung
Toronto:
How can you say a necessity mechanism is NOT generating something specific?
Who said that? dFSCI, what does the 'I' stand for? How much information is generated by the following 'necessity mechanism': def print_random_character puts ‘A’ end Mung
Toronto:
Show me from the perspective of the “designer”, how I change the semiotic codes in living cells.
Is this an admission that living cells actually have semiotic codes that can [potentially] be changed? Mung
Toronto:
The whole point of my asking a question is to get your answer.
I gave you an answer. Now you pretend like I didn't. If you've been banned from UD, I can see why. Mung
toronto, https://uncommondescent.com/education/the-tsz-and-jerad-theread-iii-900-and-almost-800-comments-in-needing-a-new-thread/#comment-437540 Mung
toronto (who I mistakenly thought was following along):
Mung: “I’ve posted two strings. Where are your comments on my first string?” toronto: Same as your second string and any other you generate with a computer program, (i.e. a “necessity mechanism”), that they don’t have “dFSCI”.
So, you haven't been paying attention. Why am I not surprised. My first string was not generated by a computer program. Mung
toronto:
What about the output from a compiler?
Who cares? Ruby is an interpreted language.
While it [the output from a compiler] can be considered data, it is actually running code and thus very specific, very complex, very functional and literally digital.
Fight with this guy, then get back to us: http://www.cprogramming.com/compilingandlinking.html I don't understand why you still reject ID. Didn't you say all we needed to do was show you human engineered changes to living organisms and you'd be convinced? Mung
toronto:
But wouldn’t a necessity mechanism be the purest source of “specific” information?
You tell us. def print_random_character puts 'A' end A necessity mechanism, by your own admission. How much information? Mung
toronto seems to be following closely along (or not):
A computer program is a “necessity mechanism” and thus your resultant string, regardless of its content, does not have “dFSCI” according to gpuccio.
so? I've posted two strings. Where are your comments on my first string?
This means there is no reason to describe what your string’s functionality actually is, as the mere fact of its origin is enough to preclude “dFSCI”.
so? Mung
toronto seems to be following closely along (or not):
Firstly, does a string contain “dFSCI” because of its configuration, or does something external to the string determine “dFSCI”?
Think about it. Then try to answer your own question. If you can't do that, post a string of your own devising. Define what it's function is. What determined it's function? Mung
For example, here's a simple function that returns true if there are more 1's than there are 0's in the string named bitstring. def more_ones_than_zeros? bit_string.count('1') > bit_string.count('0') end Now, anyone who has done any computer programming OUGHT to know the difference between data and operations (functions). Some programming languages even have a 'String' data type. Ruby, being an object-oriented language, has a String class. In the above example, bit_string is an instance of the String class and count is a method (operation/function) that can be performed on any object of the String class. Clearly, the function is not the data and the data is not the function. http://www.ruby-doc.org/core-1.9.3/String.html#method-i-count Be sure to click on "click to toggle source" Difference between a string that defines a function and a string upon which a function operates and a string produced by a function. Mung
gpuccio, Here's some more info on my string (s1): I tossed a coin 1000 times, recording each head or tail as a '1' (representing a heads) or a '0' (representing a tails). (Call this string s0.) Then I counted the number of 1's and the number of 0's in that sequence (s0). If the number of 1's was greater than the number of 0's I recorded a '1', otherwise I recorded a '0' in my string (s1). I repeated the above steps 500 times. Of course, I didn't actually toss a coin 500,000 times! Instead, I took the above text, which describes an algorithm, and encoded it in a programming language and had a computer do the actual work for me. Now, what truly amazes me, is that people cannot seem to comprehend the difference between the algorithm and the string created to encode the algorithm so that it could be run on a computer and the string that is produced by the algorithm. But hey, no one says humans have to be rational. But for some strange reason we all seem to think that they OUGHT to be rational. Mung
Well, the fine folks over there at TSZ have somehow gotten it into their heads that the only reason UD still exists is because they are over there at TSZ propping us up. Yes, it's true. No doubt the site itself was founded just to keep UD alive. Funny how the only thing they seem capable of being skeptical of is ID and/or Christianity. Oh, and the reason so many were banned from UD was for daring to speak the truth. HAH! Yes, it's true. As if truth matters. Personally, I don't see much sense in attempting to debate people who are so obviously delusional (and irrational). Seriously, they claim truth is on their side. Mung
Here's one for fun:
illnnqkjkqhpjjgjrbljjtrroosrkmgm omjjglokultomnnvupjepskscokwsqlp eokqlsltkpiqqrnimjtpnkgiolojtppl oietlltmqrxkbkqrqhkqslmqnnsmpleo smjnrhnnipbficpehoeqqnhukjognikh kjklrnqpnnijjklionmnkprjmmlljnnn ugrungmfnqjlqnorppjinfntqddjikpi kqhpjjgjrbljjtrroosrkmgmonqbulkh qmbcddddfdedmqnkeeccfbbdglonglnd ghfbdedededokmpjdeedcbdeccdhrlup ljebeeddecehftoedcceeddeddeefrhq osmleeecenufkneeecdiifmjdcedeekj mhkpfcecciaiqijhddehooljnceedcin oiwfdecfgffkgkkjccfgrphmudedbffl nmuuiecbdgkqmongecflingqetjecdek tqoisdefegnarqpgeddkjnoipojdcgdi nljoeedeckmnnligcdflmmmopnjdecbn qpiljcceepmljnlddefhjmjimpkeecep jnouhfceeqlrhrjfdcegktfgkkjedbfp mokkfgddgfmnfnsgdddkmjnrhngceadi jeqojedffqqqwqnebbeklkwhnedddefp ukfsicdcfhlhmeqifddbgglidbeeciqr mhcdfdbecddgjjiicccecddcddfdgffm hmdfbcfeebcdjlukfdfcdcbceddfogpn nldbefdedeeiknfgecccddcdbdphijon mpljnmihgojqqnppjosnstjhlupkkpfk lkuhorrlrrlonhhuqpipengjjonulnon rfpmkgjrjonrphesqgogkcrjlhpjomiq tgiurqgkgjlurvlsklkgkpnljogpnofk qlrhrjkliplktfgkkopmcrpmsiqijoei kptlrnnnnsolgqqmvlnmpqvrgnrpnoqt jqqnuptqnmrhoipkjnmjminkpjjhorfm
It specifies around 9.4 bits of English alphabetic text. Chance Ratcliff
They are excluded because they have been tested and found inadequate. toronto:
But you have to “include” necessity mechanisms in order to prove your argument that non-design mechanisms fail at your specific “dFSCI” test.
They WERE included right up until the were tested and found inadequate, duh. Joe
Eric @306: I hope you didn't spend too much time on it, lol. You're not supposed to have to figure out what it does. I'm hoping, with no great expectation, that mark frank or someone else at TSZ will write a function that reads that string and let's us know whether the coin that was used to generate it is a fair coin or not and post the string that defines that function. That might clear up the confusion about the different types of string. Mung
Mung @294: Well, I made a half-hearted effort yesterday to decode your string. Various 2-8 position size increments, converting to decimal, ASCII, shifting the frame by one character at at time, and so on. So far nothing . . . Eric Anderson
petrushka:
Of course Darwin addressed this possibility explicitely by saying that his theory would be defeated if you could find a feature that couldn’t be reached incrementally.
How daft! Evos need to demonstrate that a feature CAN BE REACHED INCREMENTALLY. They cannot and that is just another reason why their position isn't scientific. Joe
And Joe Felsenstein is still mumbling and still cannot produce any evidence ofr natural selection producing dFSCI, or anything of note, for that matter. BTW JF, natural selection includes random variation as natural selection is the result of heritability, random variation and fecundity. Joe
As expected, toronto doesn't produce any evidence- Joe: “If a necessity mechanism can produce dFSCI then it is no longer a design indicator. “ toronto:
Joe, do you still believe this?
That has been ID's position, forever.
Do you think it is fair for gpuccio to exclude “necessity mechanisms”?
They are excluded because they have been tested and found inadequate. Joe
Mark Frank:
First I am not sure what the difference is between a data string and any other kind of string.
One is descriptive, the other is prescriptive. You really don't see any difference? Mung
gpuccio:
Mung: The function?
What? I thought it would be obvious! ;) It's 'function' is to provide information about whether a coin is a fair coin or not (whether it is weighted). Further details available upon request. Mung
A few tips from Hans Christian Andersen, perhaps, Joe. Axel
toronto:
Now Joe believes that “dFSCI” has never been demonstrated to be the result of a non-design source while I believe it has,...
Great, toronto, present the evidence then. What are you waiting for? Joe
keiths, still clueless:
MET is trillions of times better than ID at explaining the objective nested hierarchy. It’s the better theory, by far.
1- The MET cannot even be tested 2- The MET is OK withOUT an objective nested hierarchy as evidenced by the FACT tat we do not observe one with prokaryotes Does keiths really think that his willful ignorance means something? Joe
Mark: First I am not sure what the difference is between a data string and any other kind of string. My function was simply “predict whether the London temperature was above average or below”. Would it still be data if I was predicting whether oxygen would be carried in the blood stream or not? First of all, I still object to the use of your word "predict". Your string just gives information that corresponds to some natural events. Therefore, it can easily be derived from the natural events themselves, or from any already existing measure of them. The important point is the necessity copnnection with the natural events. The concept of a data string is very simpèle: it is a string whose "function" (utility) is only its necessary connection with events. It stores information about those events, and does nothing more. Second the necessity clause does not apply to the London temperatures. It applies to a string which I have told you nothing about. Wrong. You have told me that its function is to give us information about the London temperatures. You have told me that its function is there only if the string has a connection with the events of London temperature. It might be a string of amino acids coded in binary for all you know. In that case, it would have other functions. Or, if you mean that the information about London temperatures can be written using aminoacids, I agree, but then nothing changes. The importantpoint is not how the string is written, but its informational utility. So how can any special conditions about data (whatever that means) possibly apply to it? It's simple. dFSI is the part of information that is necessary to express the function, excluding the part of onformation that is explained by necessity. In a data string, all the useful information is generated by necessity mechanisms, and is not dFSI. It's as simple as that. In a functional protein, or a sonnet, or a software, the functional information can in no way be explained by a necessity mechanism, or by mere natural events. Those are examples of dFSI. Suppose you are confronted with a string of digits that happens to be the numbers of the most recent winners of the UK lottery in order. Would you say that string was designed? It is always a data string. The only difference is that the events, here, are not "natural", but related to human activities. But that makes no difference. The answer is the same: the string itself, its sequence, does not exhibit dFSCI. The mechanism to get and store the data could exhibit dFSCI, but that is another porblem. IOWs, once a definite mechanism to know who the winners are, and to store that information, is acting, the information in the string is simply a recording of data. It can be short or long, it is certainly more or less complex, but it does not exhibit dFSI any more than the string that records London temperatures. gpuccio
Toronto:
gpuccio: “The answer is simple. It does not exhibit dFSCI, because it could be copied from the string for London, or be connected to it in some other way. “ gpuccio, you are clearly stating here that “dFSCI” is NOT intrinsic to the “functional specified complexity” of a string. If string A has “dFSCI”, then string B, an identical copy of string A, MUST contain “dFSCI”, if “dFSCI” is a characteristic of a string. Only if “dFSCI” is dependent on its origin/source/generator, can you claim that B does not contain “dFSCI” even though string A does.
The simple point is that string A, here, has no dFSCI. Therefore, not even B has. The problem is not the copying. The problem is that neither the original events, nor the strings that store the measures, nor any string derived from the events or from the measures, exhibit dFSCI. All of them are explained by necessity laws, or random effects, or a mix of them. gpuccio
Mung: The function? gpuccio
gpuccio, I have a new string for you! 000110111011001011110111110101000100010000110110100010011010 000010101000001001011000011000011111010000001111000101011011 100010101010101001111010001000010001100111000100010001101011 010100000001000101001101010100100001000110010001101000110101 110101100110100110110110000011111011000001000100001010011011 100000001111000110100010010011100000110010100101101100100111 110000000101000011000110010010101101000010011001000100110100 110110000000111100101010001000100001000100100001110000001001 00001110100011000101 It's all one string. Should represent 500 bits. Mung
To all: It seems that the "density" of arguments at TSZ is becoming increasingly lower. A few brief answers to scrcely relevant comments: Joe Felsenstein:
So there we have a question for gpuccio: In deciding whether we “know no necessity mechanism” for an adaptation, must we rule out the possibility of RV+NS? Or must the details of the RV+NS be established before we can decide that a “necessity mechanism” is “known”?
At the moment we evaluate dFSCI, either the mechanism is known, or it is not. IOWs, if you have a path for RV + NS, sufficiently detailed and tested, I will accept it gladly. If nobody has such a thing, I will consider that no necessity mechanism is known. I am not interested in imaginary "in principles", or in fauth driven hopes in some future vindication.
2. In the latter case the inference to design is vulnerable to having it later be shown that RV+NS is possible, so the inference to design is not sensible.
It is vulnerable, like any other scientific theory. Science is not a place for invulnerable things. You should try superheroes for that.
I think GP probably feels secure in the knowledge that an historic path through a serial stochastic, chaotic process will not be repeated this side of the heat death of the universe. We are attempting to follow the paths of molecules – admittedly ones which leave a trace, but only amongst survivors. An empirical demonstration of the capacity of RV + NS to generate a specific biological string is practically impossible – there will never be that ‘later’. That does not make dFSCI any more respectable, but it seals it off for its main purpose, which I think is to convince GP.
Your idea seals neo darwinism off for what it really is: an imagination based theory, without any support from facts. But your idea is indeed wrong. Homologies are well used to track paths that exist. Strangely, we cannot find any for paths that don't exist, and never existed. Moreover, even if you cannot track those "abundant" darwinian paths from existing molecules, it is always possible to find them in the lab, if they exist. The simple truth is that i "feel secure in the knowledge that an historic path through a serial stochastic, chaotic process" has never existed, and that's why it will never be found. OMTWO: dFSCI (or any variant is never mentioned in the Durston’s paper at all. I’ve asked KF why that is and he made up some blah about it being the same thing anyway. If it’s the same thing why invent another name KF? It is clearly mentioned at the very beginning of the paper. Durston calls it "Functional Sequence Complexity (FSC)". It is the identical concept as dFSI: the part of complexity that is bound to the function. So, KF is perfectly right, as usual. Durston obviously can use the terms he likes. As can I. If you just understood the concepts, you would see that it is the same thing. gpuccio
Mark: Joe I agree that this phrase is key. Clearly it is a phrase that is open to interpretation. I hope i have clarified it enough (see my previous post to Joe Felsenstein). How plausible does a necessity mechanism have to be and how much detail has to be conceived before you can say you know of a necessity mechanism. Let's say it must be detailed enough, and consistent enough, to explain how things happened. It needs not be completely detailed, but the important details, those that transform the "principle" into an empirical explanation, must be there. For instance, in the case of hypothesized NS, you must be able to show the intermediates, and that they are really naturally selectable. The mechanisms needs not be proven true. It must only be proven reasonable and credible. That is an important point. I don't ask for any demonstration that the mechanism really did it, but only that it could really have done it.
In his most recent example Gpuccio has indicated that he knew of a necessity mechanism: “because it could be copied from the string for London, or be connected to it in some other way”. without any further detail.
Please, refer to my answer to Alan Miller (#289) for that. The point is simple: in a data string, or a data derived string, the information that we can observe consists in the connection to real events. That connection is a necessity connection. There would be no utility in a data string that is connected to real events randomly. It would give no information about the events, and would not be functional. Therefore, for data the connection itself is of the necessity type, and that makes them data, and therefore functional. Data are measurements of events.
This is so vague it applies to life as well and indeed many of the proposed examples of things that have dFSCI. The string of text could have been copied from the Lord’s prayer!
Again the same error. If we are evaluating a copy of the Lord's prayer, we are not interested in how the specific sheet of paper we are observing was generated, but in how the information in the Lord's prayer was generated. Data, however copied, refer to natural events that can be explained. But how do explain the Lord's prayer by natural events? It is not the measure of any natural event. It is not a string of data. It is meaningful language. In the same way, the sequence of a functional proteins is a special sequence that generates a working molecular machine. It is not the copy of natural events, or the measure of anything like that. That sequence did not exist before its first emergence, and we have no good explanation of how it emerged. gpuccio
Joe Felsenstein: I am beginning to think that a key issue is the phrase “know no necessity mechanism that can explain …”. Many of the people who have argued that gpuccio’s argument that dFCSI implies design is circular have interpreted “know no necessity mechanism” as ruling out the possibility that natural selection acted. And that is definitely wrong. But if (as I think) gpuccio means by “know” the mechanism that we have a detailed and explicit explanation of exactly how and why natural selection acted in the particular case, then things are not so simple. You think well. That's what I mean, what I have always meant. But why are things "not so simple"? In general, when I see a phenotype, such as the shape of the legs of some species of mite, I don’t know exactly what genotypes are available or what the fitnesses of the genotypes are. That's why I never discuss phenotypes if the molecular basis of the phenotype is not well known. Simply because I have never studied that species, and probably no one else has either. well, why not stick to species that you, or someone else, has studies? We cannot certainly discuss what is not known. But I do know that for typical species there are genetic variations, and phenotypes that are that easily visible have noticeable fitness differences. And the molecular basis for that, when known, is always very simple. So in that sense I “know” that there are evolutionary forces that can in principle explain the phenotypes. In principle? Please, show something that is really known. Principles are very common in this world. Real explanations are a rare thing. If gpuccio sees a case where we don’t have a detailed explanation for the phenotype being a result of natural selection and random genetic variation, does he consider that we “know no necessity mechanism”? I am not sure of what you are saying here. First of all, we need to know the genotype, and its connection with the phenotype. We have to know the genotype transition we are trying to explain, its phenotypic effects, and the natrual selctability of those effects. And is we know no necessity mechanism, then we know no necessity mechanism. (I know, that is circular :) ). If so, then he would be at risk of inferring design in such cases, when later they might be shown to be explainable by natural selection and random variation. As I have said many times, I fully accept that risk. It's the risk of doing science. Anyone doing science is at risk of seeing his theories falsified in the future. Or does he mean by that phrase that we know that no necessity mechanism based on natural selection and random variation is in principle possible? No. Absolutely not. I hope that is clear enough, for all. I am not interested in "in principle" discussions about these things. gpuccio
Petrushka: I’ve published the complete history of four lineages diverging from a common ancestor — on this thread. It was probably what killed the site. I knew you are dangerous! :) All the lineages are responding to the same “oracle,” which never varies. I spent a couple hundred hours building this specifically to respond to gpuccio’s claims. I appreciate that. But I don't understand what claim of mine you are responding too. Do you believe that your oracle is a good model of NS? Please, prove that. My claims are about proteins and the NS mechanism, I believe. Please, be more specific, otherwise your many hours of work will be rather useless... gpuccio
Allan Miller: How? String by string: how? Please, refer to the Durston paper. He analyzes 35 proteins. For most of them, the functional complexity is more than 150 bits. For none of them I am aware of a necessitty explanation. And if you specifically exclude copied strings from your method, how have you determined that none of these strings is linked to any other by a copy chain? The problem here is not if a particular string is copied. All biological strings are obviously copied. What we are trying to explain in the case of biological strings is how that particular sequence first emerged. It is not important how many times it was copied. Mark's case was completely different. There the function consisted in pointing to natural events. In that case, the information is already in the events, the string is a set of measures and a recording of those measures. The problem is not if the string we observe has been copied, but that the original string is a set of measures, easily explained by the events themselves and by the process of measuring and recording. So, to be clear, we have: a) A set of natural events, that can be fully explained by natural laws and random effects. b) A set of measures of those events, recorded in a digital string, whose sequence is fully explained by a necessity mechanism (the measure) applied to that set of events. c) A set of any other string derived from the first one, or independently measured from the same, or similar, events. All those things can be explained by necessity and random mechanisms. gpuccio
Mung: Every case of a text in English of 143 characters is a case of dFSCI. In every case of separately known origin -- billions -- it is reliably the product of intelligent design. Random text generation exercises so far have hit 24 or so characters, or a factor of 1 in 10^100 of the FSCI threshold of 1,000 bits. So, those who would pretend otherwise, know or should know better. KF kairosfocus
So, true positives are abundant. But only Mung has offered one.
I had a sneaking suspicion. :) Mung
Petrushka: I can’t believe we’ve wasted this much time on a measure of ignorance. Sometimes I can't believe I waste this much time with you! But I don't complain. It's my choice, after all... gpuccio
Mark: The answer is simple. It does not exhibit dFSCI, because it could be copied from the string for London, or be connected to it in some other way. You kindly offer an assurance that the string was not copied. As I said, that is nor correct. I should know nothing about the historical origin. The string is identical to an existing string of data. It could have been copied. That's enough. It is not dFSCI. Even if I accepted that the string was not copied, which is not in itself part of the correct procedure, I should obviously consider all possible necessity origins. For instance, you could have measured the temperatures in London yourself, without copying an existing string. Or the string could be derived from other meteorological data (pressure, wind) by some simple meteorological algorithm. I don't understand what you want to demonstrate by using measure made in a "nearby location". Obviously, if the location were far enough, the mere temperatures would somewhat differ. But you astutely did not use the raw temperatures, but rather a comparison of them to the averages. That is probably more likely to be identical in nearby locations. Moreover, what do you mean by "nearby"? I could just measure the temperatures a mile away from where they are usually measured (is that Greenwich?), and I would have the same results, I believe. You may say: but you know nothing about the origin. OK, I am fine with that. Then I really must know nothing. The only thing I know is: I have a string that is easily obtained either from existing data, or from some direct measurement of the same data, or of very similar ones. So, no dFSCI. Data and all that is related to them are an interesting kind of information, but they are not examples of dFSCI. They are not examples that warrant a design inference. gpuccio
Mark: I am sorry – I have not been able to read every comment on this thread. What was Mung’s string? It's at #111 here. I asked about the function at #167. Mung answered at #170. I affirmed dFSCI at #177. Mung confirmed a design origin at #179. OK. Let’s change the challenge a bit. Why? Do we agree that the challenge up to now confirms that dFSCI has 100% specificity when applied to string whose origin is known? All your examples are of things that are known to be man-made for other reasons. Not exactly. The designed ones (like Mung's string) are examples of that. The random strings are not. I agree with ou that the only examples of design origin of which we are historically certain are human artifacts. But I suppose we already knew that. We all know that text and code are man-made. OK. Life is not. That's true. Give me an example where somebody used dFSCI to deduce design and the string was not known to be man-made (remember we are talking digital). Well, first of all let's change "deduce" with "infer". Then the answer is simple. Me. I have affirmed dFSCI for all protein families, in Durston's paper whose functional complexity exceeded 150 bits according to Durston's results. And I have inferred design for all of them. Incidentally, I did give what I thought was a false positive and you said it didn’t count because you didn’t like the function. No. Because the function, correctly stated, told me it was a negative. Now I am trying to pin down what the rules are with a hypothetical example! (I am not saying that your procedure does not work – but I think if you define it so it does work and it is not circular you will find it does not apply to life.) It applies to life perfectly. But you can go on trying. gpuccio
Mark:
Gpuccio277 I am really struggling to understand your comments (I do begin to wonder if there is a language problem after all). So I will try to be very precise and limited in what I say. Suppose I (1) Define a function: “predicts whether monthly London temperature anomalies will be positive or negative.” (2) Present you with a string of 500 bits. I tell you nothing about its origin except to reassure you it was not in anyway derived from the record of London temperature anomalies. That is the total of all the information I give you. On investigation you find that the string does indeed correctly predict London temperature anomalies. Has the string got dFSCI? If not, why not?
I have some problems with those statements. Please, help me understand: a) You definition of function: "a string that predicts whether monthly London temperature anomalies will be positive or negative." What does "predict" means? You are given me a string that will predict that sesult for the future? IOWs, is the string a pre-specification? (It's you who used the word "predict": I must necessarily undersatnd what you mean). Or do you mean: "a string that tells us whether monthly London temperature anomalies have been positive or negative."? Then you say: "I tell you nothing about its origin except to reassure you it was not in anyway derived from the record of London temperature anomalies." First of all, you should simply "tell me nothing about its origin". Why the exception? And the unrequested exception is not correct, either. If I understand well what you say about the origin of the string, that it is a measurement of the temperature in a nearby location, it is, if not "derived", certainly connected to the string of the temperature anomalies in London by the simple necessity rule that temperatures in very near locations usually may have a very similar trend. IOWs there are precise laws of meteorology that can explain the similarity (or identity) between the two strings. You don't specify if the string you give me is identical (if we make the correct comparison) to the string of the temperature anomalies in London, or if it corresponds only in part. If you specify all that, my answers will be simple (I believe you can already anticipate them). gpuccio
Joe: The "misunderstanding" is rather simple, and IMO not serious. I agree that some special property is really in the object. But dFSCI is a way to catch that property. It is a concept defined by us, and as I have said many times, to be empirically useful we have to consider it as a diagnostic tool, an empirical property objectively definable, and whose empirical sensitivity and specificity can be measured. So, for me, dFSCI is evaluated in the object. It is a judgement made by us accordign to a precise definition and procedure. I strongly disagree. dFSCI exists regardless of its origins. But waht are you disagreeing with? I have always said that we need not know anything about the origins to assess dFSCI. The only difference is that I would not use the word "exists", because ny definition and procedure are empirical, and have no pretence to deal with the problem of "substance". I would only say that: "dFSCI can be evaluated regardless of its origins". Now, please read again my statement: "If you read again my definition of dFSCI, you will see that an integral part of it is what Mark calls the “necessity clause”: IOWs, we must know no necessity mechanism that can explain what we observe, before we can affirm dFSCI." Where am I talking of "origins"? I am only saying that, if we know a credible necessity explanation for the string, we do not affirm dFSCI. That has nothing to do with the historical origin, that we don't know. I remind you that, if we say that we cannot affirm dFSCI, the string can still be designed. IOWs, I will not afform dFSCI if I know a possible necessity mechanism that can explain the information in the string. But I am saying nothing about the origin of the string. Only if I affirm positively dFSCI, I will make a design inference. That does not mean that I know the origin. It just means that I infer design. If the origin can be independently known, now or in the future, my inference will be either confirmed or falsified. You say: If a necessity mechanism can produce dFSCI then it is no longer a design indicator. That is true. If dFSCI fails in the design inference, and gives false positives, its utility will be falsified. dFSCI is not a dogma. It is not a religious faith. It is an empirical tool, part of a greater empirical theory, that is ID. I am fully confident that ID and dFSCI are very useful scientifc tools. I belive ID is the best explanation for biologic information. But ID is not a Bible, nor a religion. It is science. I treat it as pure science, and I believe that is the greatest tribute I can give it. gpuccio
To all: Just a little more clarification about data strings, in case it is not yet clear to all. Let's say that we measure the highes daily temperature in London each day, and record the results in a digital string. Now, there is no doubt that the system that makes the measures and the recordings has some complexity. I would also say that it is designed, because I am not aware of a natural system that can do all that. Beware, I am not using dFSCI here, I am just giving a common sense judgment. First of all, the measuring system could be mainly analogic, although some digital procedure is expected to create the data storage string. And second, I am not completely sure that some natural system could not keep some track in time of the highest daily teperature in London for some time. I don't really see how, but it could be possible. And anyway, I am sure that some natural objects can keep a lot of information about some natural events, is correctly read. So, let's say that for the moment we cannot quantify the complexity of the mechanism that measures and stores the temperature in a string. Let's say it has complexiy "X", and obviously a well defined function: measuring the temperatures in London and storing them. So, X is the functional complexity of the mechanism, whatever it is. But what about the string? Let's say that we use the mechanism for two days only. Then the string of data is simple enough: a few bits. The necessity mechanism would certainly be more complex than its output. Now, let's measure the temperature for 1000 days. Now the string is very complex, and function in the sense we have defined for data strings (it gives us information about the temperature in London in time). But where does that complexity come from? And is it dFSCI? The answer, as already said, is: NO. The mechanism has not changed. No new complexity has been added to it. It just goes on working repetitively. The simple answer is: the complexity derives directly from the complexity of the events that are measured: in this case, the temperature in London. The necessity mechanism only "translates" the information in the events to the string. Now, the way the temperature changes in London is certainly a complex issue: it is the result of complex natural law, and of random components. A whole science tries to understand and describe those kind of systems. But there is no doubt that the temperature in London can be explained by natural explanation,s be them necessity laws, random configurations, or a mix of the two. We agree on that, don't we? So, the conclusion is simple: the functional complexity in a data string is simply the complexity in the events the data describe. That complexity has perfectly understandable necessity/random causes. Therefore, the data strings too have perfectly understandable necessity/random causes. gpuccio
gpuccio:
If you red again my definition of dFSCI, you will see that an integral part of it is what Mark calls the “necessity clause”: IOWs, we must know no necessity mechanism that can explain what we observe, before we can affirm dFSCI.
I strongly disagree. dFSCI exists regardless of its origins. That said, everytime we have observed dFSCI and knew the origins it has always been via agency involvement AND we have never observed blind and undirected causes producing dFSCI. THAT is why it is a design indicator. If a necessity mechanism can produce dFSCI then it is no longer a design indicator. I think we may just have a little communication issue. As for function, as I said before that is something we observe and then try to figure out what caused it. Joe
Toronto: The list of your errors and misunderstandings is so long that it must certainly be complex. I cannot correct them all. Just a couple of examples: A string of “information” can be “digital”, “functional” and “complex” but the key attribute is “specified” which has to do with its origin. Not at all, obviously. The specification is in the observed and defined function. Nothing to do with the origin. gpuccio’s argument is that a string with all the attributes of “dFSCI” loses that designation strictly because of its origin, in other words, if nature can generate DNA with a necessity mechanism, then DNA has no “dFSCI”. Not at all, obviously. My argument is that I use dFSCI to infer a design origin (let's say it is a diagnosis). If my diagnosis is proven wrong, IOWs of the origin is then assessed as a non desing origin, my evaluation is a false positive. And that would be a serious blow to the specificity of the dFSCI procedure. And so on, and so on... gpuccio
Mark: We only agreed a set of conditions when it was not circular by being extremely precise about the definition and recognising it was relative to a particular observer at a particular time with that observer’s knowledge. We only agreed that the function must be well defined. And that we have to follow the rules given in the definition and procedure for dFSCI. As a matter if interest can you point to a real example of someone using dFSCI to detect design when they didn’t already know the answer because they knew the origin was designed for other reasons? Yes, sure. Mung's string. You see, you lot could have given hundreds of string exhibiting dFSCI: meaningful strings of text, functional source codes, even functional engineered molecules, and so on. Nobody in your field has done anything like that. Why? Because you know that in all those case I would have probably affirmed dFSCI, inferred design, and been correct. Your only purpose has been to find somethinf that could be give a false positive. And you have failed. So, true positives are abundant. But only Mung has offered one. gpuccio
Mark:
I think there is some confusion (my fault – I have explained it badly). My plan was to point to the list of London temperatures not as the string but to help define the function. The function was to predict whether those temperatures were above average without looking at them. Another string, of which I would tell you nothing, just give you the string would be the one that did the predicting. Your challenge would then be tell me whether that string was designed. In fact that string would be the based on the temperature record of an adjacent location – but I wouldn’t tell you that. So it would be: Complex Digital Functional using a prespecified function
I am not sure I understand. If the second string is similar, or identical, to the first, I would never affirm dFSCI for it, because it could be simply copied from the first. If I knew that the second string is of an adjacent location, and still it is similar or identical to the first, there is a nacessity laws that explains the similarity, that is that nearby locations share similar conditions most of the time. I don't understand your point. Let's say that you show me a string whose function is to be identical to the true temperatures measured in London. Why should I be surprised? I will just say that a very simple necessity mechanism can generate the second string, deriving it from the first. I may not know exactly how the string was really generated: I would probably not imagine that it is the measure of temperature in a nearby location. And so? The only important point is: the function of the string is only to give information about true natural events. So, a necessity mechanism (of measure and storage of the measure) can easily explain it. OK. I will be more precise. So the point of dFSCI is to detect design origin when there is a positive case. This is not much use if you have to know the origin to determine if there is dFSCI in the first place. Right? Wrong. I don't have to know the origin. But I have to know the defined function. If the defined function in itself implies a possible necessity origin, I will obviously ackoledge that fact. In the case of a functional protein, I have no need at all to "know the origin". And the functional definition tells me nothing about a possible necessity explanation. And I can pretty well assess dFSCI. You always have to watch for circularity with dFSCI because it is used to determine whether something has a design origin but in order to decide whether something has dFSCI you have to assess whether it has other origins. No. This is always the same error. Let's sum up your arguments in the last days. First you tried to give a post-specified functional defintion (without saying it) that in your opinion would have prompted me to affirm dFSCI. As soon as I requested more explanation about the definition (not about the origin of the string), I could easily affirm that no dFSCI was present in that particular string. Then you tried to define a string that is certainly complex and functional. But the definition itself tells us that it is a data string, ar at least a data derived string, and therefore there is a perfect necessity explanation available. As you can say, the oriign of the string is never the problem. And circularity is never the problem. Here, the problem was only with the definition of the function. Once the function is defined well, the assessment of dFSCI (negative or positive) follows naturally. gpuccio
Reciprocating Bill: Which is to say: phenomena that arise by natural means do not exhibit dFSCI by definition. Wrong. The correct form is: "Phenomena for which a good explanation based on necessity is known do not exhibit dFSCI." It follows that, regardless of other properties an object may have, it cannot be concluded that it exhibits dFSCI until its causal history is known. Wrong. It is enough that no necessity explanation is available when we evaluate dFSCI. dFSCI is a diagnostic tool, and ot works with what is already known. No procedure or calculation performed upon the object can alone warrant the conclusion that the object exhibits dFSCI absent knowledge of that causal history. Wrong. See before. It further follows that to claim that dFSCI present in an object is evidence for a particular kind of causal history (it was designed) is patently circular, as you cannot assert that dFSCI is present until that causal history is known. Wrong. dFSCI is not "evidence" of anything. It is an empirical basis for a design inference. Its connection with a design origin (in positive cases) is only empirical. And, lastly, it follows that no enumeration of supposed of objects displaying dFSCI, defined in this way – and the absence of counter examples in this collection – has any empirical bearing upon the question of whether the exclusion of natural objects by definition is in fact appropriate. I suppose that would be wrong, if it made any sense. gpuccio
Joe: Wait, dFSCI is based on some criteria, independent of cause. If you red again my definition of dFSCI, you will see that an integral part of it is what Mark calls the "necessity clause": IOWs, we must know no necessity mechanism that can explain what we observe, before we can affirm dFSCI. Now, that has nothing to do with "cause". The simple existence of a necessity explanation rules out dFSCI. It does not necessarily rule out design, or any kind of "origin". As I have said, when the assessment of dFSCI is negative, we cannot say anything about the true origin of the object. It could have been designed, or it could have been produced by a necessity mechanism, or even by RV. What we know, for a data string, is that the complexity in it can be prefectly explained by a necessity mechanism (such as the measuring/storage of natural events). Again, please remember that here I am not speaking of the complexity of the measuring/storing mechanism. That is a separate problem, that needs evaluation. I am speaking of the complexity in the string sequence, its "correspondence" to natural events. That is certainly a form of useful information. It can certainly be complex (if long enough). But is is perfectly explained by a necessity mechanism (the measuring and measure storing of natural events). Therefore, it is not dFSCI.
1- Data is only functional if there is some agency around to gather and interpret it. 2- Data is only information if there is someone is around to interpret and add meaning to it
OK, I agree with that. But that is true for any function. A sequence in a gene is only functional because we recognize its function. In my definition, the observer if completely free to recognize and define any function. The important point is, the function, as defined, becomes the object of our dFSCI evaluation. Any function defined for data is connected to the events they represent, or from which they are derived. Therefore, the function itslef is connected to a possible (indeed, extremely likely) explanation of the data string by a necessity mechanism that can realte the string itself to natural events. This is very interesting, because it shows that the function of data is very different from the function of a machine. Data can only represent natural events, and they are derived from them. A machine does something, and need specific information to do that something. That sepcific information is not the recording of natural event, but rather an intelligent arrangement of matter to implement a purpose. The definition of dFSCI is complete, and can easily recognize those two different situation, thanks to the "necessity clause". gpuccio
Mung: Darwinists will assert that the linear digital sequences in DNA are simply a recording of random variation plus environmental necessity. Therefore, there is no dFSCI in living organisms, according to your criteria. And so? I have always said that, if darwinists suceed in shoing that RV + NS can really generate the functional complexity in living beings, then the ID argument fails. I an perfectly aware of that. And I am in no way worried. They can't. They may be right or wrong, but you need to exercise care that you don’t cut the legs out from under your own argument. You’ll need to explain why they are wrong and/or why living organisms are different. No. I believe in my argument. The only "legs" on which my argument must stay are the legs of truth. If my argument is wrong, darwinists are absolutely welcome to falsify it. I have nothing to be worried about, except truth. If darwinists are right, they are right. And I will happily admit it. On the other hand, if darwinists are wrong, they are simply wrong. And I am perfectly confident that they are wrong. ID (and dFSCI), like any scientific theory, is falsifiable. Let them falsify it, if they can. gpuccio
Earth to keiths- There isn't any "problem" of evil wrt Christianity. That alleged problem is all in your little-bitty pointed head for the reasons already presented. Joe
toronto:
gpuccio’s argument is that a string with all the attributes of “dFSCI” loses that designation strictly because of its origin, in other words, if nature can generate DNA with a necessity mechanism, then DNA has no “dFSCI”. That makes no sense since that is the whole reason for this debate, to determine the *origin* of the “information” that results in life. You can’t dismiss the “origin” of “dFSCI” simply because you don’t like the source. If DNA is the result of a necessity mechanism, then a necessity mechanism is its cause, period.
Do you have problems following along? I addressed your concerns in comment 269- I say gpuccio is wrong or misspoke as we had already agreed that dFSCI exists independent of cause. That said, no one has demonstrated that DNA is the result of any necessity mechanism. Joe
toronto:
But wouldn’t a necessity mechanism be the purest source of “specific” information?
No. Ya see there isn't any evidence that any necessity mechanism can produce specified information. Joe
keiths demonstrates his confusion:
keiths: The following asymmetry explains why: the discovery of an objective nested hierarchy implies common descent, but the converse is not true; common descent does not imply that we will be able to discover an objective nested hierarchy.
Umm if the discovery of an objective nested hierarchy implies common descent then that would be because common descent implies that we would be able to discover an objective nested herarchy. There is just no way out of that. However I would LOVE to see you explain yourself- but I am sure that you won't... Joe
gpuccio @ 258:
So, has it dFSCI? No. Why? because it is perfectly explained by necessity mechanisms.
Wait, dFSCI is based on some criteria, independent of cause.
Given the temperature, and the meausirng system, be it some analogic natural system, or a designed digital measurement, the string is determined by the necessary measurement if the temperature. So, in general, a complex string of data about some natural phenomena is a string complex, certainly functional, but does not exhibit dFSCI because it has a complete necessary explanation given the natural phenomena. which, I believe, are supposed to be explained also by necessity, or random, mechanisms.
1- Data is only functional if there is some agency around to gather and interpret it. 2- Data is only information if there is someone is around to interpret and add meaning to it Joe
keiths:
Most Christians hold all three of these beliefs, so for them, the problem of evil is a major issue.
Most Christians hold beliefs in addition to those three. You haven't even tried to consider how those additional beliefs affect your argument.
Atheists deny #1 and #2, so the problem doesn’t affect them.
Not so. But in addition to being affected by the problem of evil, atheists are faced with a far worse problems. And this is why your 'argument' can't be taken seriously. Mung
Allan Miller:
I think Mung is following the common line that atheists cannot say that something is ‘evil’, as they do not derive their ‘moral code’ from scripture or holy men.
keiths says that rape and murder are evil, though why he picked on Mourdock rather than the nanny in New York is something I think we ought to look in to. My problem is that he claims it is evil, without saying why it is evil, nor even saying what it is. He may as well be arguing that baffleglibous is evil.
The fact that he wants people to ‘define rape’ first is hilarious.
Why? Because keiths can't/won't define rape? It should be a simple thing for him to do, don't you think? Especially if he is going to argue that it's evil. Yet he avoids doing so. He claims to be making an argument. Yet he doesn't even consider that it is valid for a person to question his premises or that he should need to establish their truth. And he seems oblivious to the possibility that someone might think that God could be the cause of evil. He's an intellectual lightweight, and all you "skeptics" over there at TSZ don't deserve the name of skeptic. Mung
Posted on November 5, 2012 by Elizabeth:
Will try to sort out mess. Would any one like to volunteer for admin privileges?
I volunteer. Mung
Mark Frank:
The string identifies for each month over a period of 120 months whether the London monthly mean high temperature is above or below long-term average...The string will simply be a string of 120 bits with 1 for above average and 0 for below average.
In what sense would that string have or perform a function? Basically you propose to take some information and encode it into a string. Do you think it then follows that the string performs a function? What function does this string perform that is not already present in the information being encoded into the string?
A happens if and only if B happens A (and therefore B) happen on an unpredictable schedule
Is B the cause of A or merely some event or condition that must be satisfied before it is possible for A to occur? I don't see how it follows that if A is unpredictable (happens on an unpredictable schedule) that B is also unpredictable (happens on an unpredictable schedule). I don't see how your temperature readings meet your criteria. There must always be a mean high temperature for a month. There must always be a long term average temperature for a month. The mean high temperature for a month must always be above or below or equal to the long term average. Set aside for now whether the data you need is reliably available, in your temperature reading example what is A and what is B? What about rainfall measurements? Rainfall meets or exceeds a certain level if and only if it actually rains. Is that too predictable? Mung
As evidenced by "The Privileged Planet" we live on a natural data recorder. They have a chapter called "At Home on a Data Recorder" (ch. 2). And in an article on data, we learn:
For data to become information, it must be interpreted and take on a meaning.  
And that is where agency comes in. Nature cannot interpret anything and data is meaningless to nature. Well, everything is meaningless to nature. Joe
But I was really interested in evaluating correctly the complexity tied to the “recording” of natural events.
gpuccio, But to be totally honest with you, I think you need to consider what this may mean for your overall argument. Darwinists will assert that the linear digital sequences in DNA are simply a recording of random variation plus environmental necessity. Therefore, there is no dFSCI in living organisms, according to your criteria. They may be right or wrong, but you need to exercise care that you don't cut the legs out from under your own argument. You'll need to explain why they are wrong and/or why living organisms are different. Mung
Mark:
Gpuccio 258 Thanks for you response. I must say I am surprised by what you wrote. You seem to be saying that the reason that the “above average temperature record” is not dFSCI is because you know its origin (natural vartion + necessity mechanism). This leaves us straight into the circularity argument again – because the whole point of dFSCI was to determine the origin. Imagine I was to present you the string without telling you the origin. That is the scenario we are talking about. You would then need to determine whether there is dFSCI and if it has conclude it was designed. If you cannot tell whether something has dFSCI without first knowing the origin its not much use for determining the origin! I don’t think the “above average temperature record” string has dFSCI for a completely different reason. It needs a prespecified function and I haven’t found one yet. As you say you can always find a postspecified function (that is why you need to rule them out). “B” – the second string of somewhere physically close was intended to provide that prespecified function – the one string could be used to predict the other. This is an empirical relationship based on our empirical knowledge that temperatures in locations that are physically close are very similar. However, as I say, I can’t get good enough temperature records.
No. I don't agree with you. What I said is that the definitioon of the function itself (IOWs, the simple fact that it points to natural data) tells us that the origin is a necessity mechanism, and therefore allows us not to affirm dFSCI. There is no circularity here. You have some strange obsession for circularities that do not exist! If you had simply givan me the string, without saying what it was, I would simply have recognized no function, and still I would have not affirmed dFSCI, for a different reason. IOWs, either I know the only function recognizable in the string, and therefore I know that it is a consequence of necessity, or I just don't know the function. In both cases, I cannot affirm dFSCI. You are also wrong when you say that: "because the whole point of dFSCI was to determine the origin." Again, you still don't understand dFSCI. The whole point od dFSCI is to infer a design origin in positives. As it is a tool with many false negatives, it is of no utility to infer the origin in other cases. Please, reflect on that. gpuccio
Mung: I agree with all that you say. Indeed, if you read carefully my post, I had already anticipated many of your observation. And I agree that the digital form smells of design in any case. But I was really interested in evaluating correctly the complexity tied to the "recording" of natural events. That is an interesting form of complexity, because it is complex, it is in some way functional (because it gives information about real events), but still it is not dFSCI because it is explained by necessity (and because it is not digital, but it could still be CSI if it were not explained by necessity). So, I am very happy that we have some good example here of how important is the "necessity clause" in the evaluation of dFSCI (or simply CSI). In a sense, that reminds me of the debate we had some time ago about the information in shadows, tracks, and so on. Those are all examples of what we could call "data information". I agree, however, that "natural" data are usually in analogic form. gpuccio
gpuccio:
First of all, I believe we are dealing here with data that are derived from natural phenomena, and that can be read in some digital string.
Or analog data represented with a digital string. Which raises the interesting question of how and where did the representation arise. And then the representation needs to be stored so that it can be recalled/transmitted. Which raises the question of how information can be store/transmitted in a material system. So even if Mark did come up with a string it would still beg the questions that Darwinists are completely unable or unwilling to address. gpuccio:
We could in principle imagine that some natural object can store some record of the highest daily temperature for us.
In a digital string? We know of only two such systems, those created by humans and living organisms themselves. And these are the two things Mark wanted to exclude. It looks to me like Mark is attempting to incorporate two aspects, a random aspect and a necessity aspect. By analogy, if the string contains dFSCI evolution can generate dFSCI. There are many problems with this approach, imo. It might be an interesting topic to explore on it's own. The first problem would be defining an objective function for the string. Do we find function apart from human artifacts and living organisms? Mung
Mark Frank:
I am going to have to abandon my attempt to produce a binary string which identifies when London temperatures were above average. I can’t get the data I need consistently and accurately enough.
Why can't we create a simulation that basically does the same thing and use it to create the string? Mung
Mark: Thank you for the interesting contribution. I paste here your post, before commenting on it:
Gpuccio I am going to have to abandon my attempt to produce a binary string which idenitifies when London temperatures were above average. I can’t get the data I need consistently and accurately enough. It might be interesting to explain what I was trying to do. I was looking for two events A and B which satisfy these properties: A happens if and only if B happens A (and therefore B) happen on an unpredictable schedule No living thing in involved with either A nor B The schedule for A and B is publically available Under those conditions the string of when A happens (if long enough) would appear to have the function of identifying B, be complex, incompressible, digital and prespecified. I thought being above average temperature in London and being above average temperature in somewhere else very close woud satisfy these conditions but it is vital to have temperature records to high degree of accuracy and averages taken over the same periods. I can’t seem to find that data. Nevertheless I wonder if you agree that the conditions I set out would be a case of dFSCI which is not designed?
Well, this is really interesting because it allows me to clarify some aspects of the dFSCI reasoning. It requires, IMO, no "refinement" of the procedure, but certainly a good understanding of the concepts. I must say that I has in some way anticipated your example, and already given it some thought. I am not really sure that I understand correctly in detail what you wanted to do, so I will make some assumptions and some general reasoning to clarify my views. First of all, I believe we are dealing here with data that are derived from natural phenomena, and that can be read in some digital string. Now, let's say that we have a measurin system that registers the highest temperature in London each day. After a long enough time, we will have a string of values complex enough. Now, it is rather obvious that the whole system that produces the string is designed, but that is not the point here. We could in principle imagine that some natural object can store some record of the highest daily temperature for us. The interesting point is that the specific sequence of values is obviously not designed. And it is complex. It has not, in principle, a specific function, but you could say that it is functional because it can give us information about past temperatures. I can agree on that. So, has it dFSCI? No. Why? because it is perfectly explained by necessity mechanisms. Given the temperature, and the meausirng system, be it some analogic natural system, or a designed digital measurement, the string is determined by the necessary measurement if the temperature. So, in general, a complex string of data about some natural phenomena is a string complex, certainly functional, but does not exhibit dFSCI because it has a complete necessary explanation given the natural phenomena. which, I believe, are supposed to be explained also by necessity, or random, mechanisms. I believe that, in your general formulation, the original data string would be "B". So, my first point is that B is complex, in a sense functional, but does not exhibit dFSCI. What about "A"? If I understand well, A would be a string derived from B, through some form of simple computation. It could be some mathemathical derivation of the data in B, or, as I believe was your initial proposal, a comparison of two sets of data. Now, the important point here is: some complexity is implied by the procedure of derivation, whatever it is. But most complexity would be still derived from the original complexity of the data in B. So, again, the new string would probably not exhibit dFSCI. Obviously, if the derivation procedure is complex enough for the system and the time span, dFSCI could be affirmed. Three important points: a) In a data string, or in a string derived form a data string, the origin of the data complexity is alresy known, because it is implied by the definition. We have to infer nothing. For example, if you give me a complex random string, and you tell me that it is the registration of highest daily temperatures in London in a certain period, I already know how the complexity of the string arose: by measuring the temperature in London. So, I already know that the complexity in the data srtring is explained by a necessity mechanism. I have not to infer that information. b) Any process of derivation from a data string by a necessity mechanism still retains a complexity that can be explained by necessity mechanisms. In a way, the situation is not very different from a copy of the original information, like in DNA duplication, only here the necessity mechanism does not imply simple copying, but some form of computation. c) The original data string is impredictable because the original natural events can be described as a mixed system: necessity laws, and random variation. In the case of meteorology, we known that the original natural system can have the properties of a chaotic system, and therefore be specially impredictable. However, there is no doubt that we all agree that those events are anyway explained as the result of random configurations plus necessity laws. So, the impredictability of the original events is perfectly natural and explained. The derivation of B from the events, and of A from B, instead, is usually perfectly explained by strict necessity mechanisms. Well, that's all for the moment. I hpe I have interpreted your points correctly. If not, please clarify better what you think. gpuccio
keiths:
The ‘problem of evil’ is a problem for anyone who 1) believes that God exists; 2) believes that he is omniscient, omnipotent, and perfectly good; and 3) believes that evil things happen in the world. Most Christians hold all three of these beliefs, so for them, the problem of evil is a major issue. Atheists deny #1 and #2, so the problem doesn’t affect them.
Most Christians do not ignore their Scripture and they understand why evil exists. So the "major issue" for Christians wrt evil is how to deal with it. OTOH your major issue seems to be that you have stopped taking your medication Joe
Mark: I have read your interesting post. I have tried to answer today, but I had not enough time. I hope I can answer tomorrow. gpuccio
keiths, You might have better success by posting Part II of your series on why ID is not compatible with the evidence for common descent. But somehow, I doubt it. Mung
keiths:
So if some stranger overpowers and forcibly penetrates your mother, your sister, or you — you don’t think they’ve committed an evil act?
Is that your definition of rape, finally? So rape is only an act committed by strangers?
What about murder? God allows it. Would you argue that it’s not evil?
Define murder and put forth an argument as to why murder is evil. Mung
Mark Frank:
So here are the three strings I would like to apply your procedure to:
gpuccio, mark, Continuing the analysis of your strings. You were kind enough to add blanks to separate out the individual PMIDs, but I’m not sure that was necessary. I decided to ignore your scheme of separation and devise my own, just to see what would happen. I used your first string, but took each sequence of six numbers. They also identified specific PubMed papers:
206768 813885 305238
But they also identified other papers also searchable from the PubMed site:
206768 813885 305238
Again, admitting this is based upon minimal analysis, I would still have to conclude that your strings are neither specific nor objective. Now, I will say that you said your string specified an ordered list. I don't want you to think that I either missed that or ignored it. But I'd appreciate some feedback from you before I continue with any further analysis. Do you still think your strings exhibit dFSCI? Did you ever think they exhibited dFSCI, lol? (Just thought I'd ask.) You also say that each string represents a specific set of papers. I take that to mean that all the papers identified by each string have something in common, other than the fact that they are available through PubMed. Did you ever identify the three sets? So again consider that the question is not simply do they perform the specifi4d function, but how many other functions do they specify. If they can be shown to specify any other function, then would you agree that your function is not objective? Where do we stand now? Mung
Mark Frank:
So here are the three strings I would like to apply your procedure to:
gpuccio, mark, I've begun an analysis of your strings. You were kind enough to add blanks to separate out the individual PMIDs, but I'm not sure that was necessary. Your first three do indeed identify PubMed papers:
20676881 3885305 238342
But they also identify other papers also searchable from the PubMed site:
20676881 3885305 238342
So I would (admittedly based upon minimal analysis) conclude that your strings are neither specific nor objective. (continued in my next post) Mung
Mark Frank:
Even my own comments are going into moderation!
I blame it on petrushka Bet you guys would pay a fortune for an intelligently designed moderator now! Mung
keiths:
That means that the excuse you’ve been giving for the Christian God — that he allows rape because he values free will — is bogus. He can value free will and prevent rape at the same time.
Your problem, among other things, is that you don't pay attention and you make things up. I never argued that God allows rape because He values free will. If I were to make some sort of assertion, it would be that God allows rape because there's nothing evil about it. So now what? You need to define rape, and make an argument as to why rape is evil. You've done neither. You have no argument. Mung
keiths:
You haven’t thought this through. An omniscient and omnipotent God could prevent rapes from happening, and he could even prevent the desire to rape from happening, all without controlling anyone’s thoughts and desires.
You have not: 1.) provided a definition of rape. 2.) provided an argument for why rape is evil. It's clear to me that you have no argument. So here's what you have to do. Explain how you can make an argument about rape being a specific instance of the problem of evil without either defining rape or explaining why rape is evil. Then try to make your argument without begging the question of OUGHT and FREE WILL. You can't. That's why your "argument" is so obviously amateurish. Your latest god is not the christian God that your OP is intended to mock. He/she/it is an ad hoc god you invented to support your flailing attempts at reason, so I could care less about your special pleading. I could with as much force of reason argue that this latest ad hoc god you've described is not be compatible with the god in your OP. You need to meet your obligations with regard to your original claim. You haven't. Until you do, you have no argument. Mung
Mark: That’s false. For the other two examples if they were post-specified this would be something like taking the string, studying the papers it points to, and seeing what you can find that they had in common. As all papers have something in common (even if it is just a distinctive phrase somewhere in the text) then the probability of success is 100%. That’s why I suggest you simply amend the process to say no post-specified functions. Any function could potentially be post-specified. No. That is wrong. First of all, we must obviously stick to keywords, and not to any possible word in the papers, otherwise ot is obvious that any paper has something in common with any other, and there would be no complexity in a definition "a string pointing to 5 paper that have at least one word in common". That is trivial. We could give a definition this way: "a string pointing to 5 papers that have a keyword in common". That would be more restricted, but still the tyarget space would be very big. As I have shown, some keywords, like "disease", are very common. we are distant from a high complexity result. But when I give the definition "a string pointing to 5 papers who share the keyword "elaprase", the situation is much different. That keyword is very rare. the probability of having a string that points only to 5 papers indexed by that word, as I have shown, is rather low. Maybe not so low that we can in any case affirm dFSCI (here we should discuss the problem of the threshold for this particular problem), but we would anyway observe high compexity. And you are wrong that the situation is the same as in your original definition. It is not. As I have alredy said, if I observe that a string points to 5 papers indexed by the keyword "elaprase", the factc itself is very strange. I believe that you are confounded about the real meaning of the word "postspecifiction" as applied to the two cases. The definition "a string pointing to 5 papers indexed bu the keyword "elaprase" " is postspecified only in the sense that we observe the property in the string, a property that is in itself surprising, and we just define it. But we could have well defined the same property as a prespecification without knowing any special string. The keywords for PM are publicly known, we could have just looked for a rare keyword and defined the property (indeed, that's exactly what I did, and I had no particular string available). Here, even if we had first observed the property in a string of which we are assessing dFSCI, and then defined the property, the complexity would be rather high. Indeed, the question we are trying to answer is: we observe here a string that has a property that defines a tiny subset of a search space. How likely is for that string to emerge in a random system? Instead, in your original definition, the definition itself is postspecified not only because you define it after you oberve the string, but also because you define it from the string sequence. You could have never defined this particular definition, with this contingent list of papers, in prefernec to any other similar definition with any other contingent list of papers, if you had not known in advance the sequence of the string. I hate to say this, but I am afraid that your definition smells a little bit of circularity :) . Without knowing the exact sequenc of an already existing string (the one about which we should assess complexity) you could have done only two things: a) Give a general definition, as I have suggested, of !any string that can point to 5 papers, that can easily be listed after we observe the string. That definition, as I have repeatedly pointed out, is correct, but is not complex. b) Give a huge set of different definitions, each with one of all the combinatorial lists of papers you can extract from a database of 20x10^6 papers. Not a satisfying alternative! So, you are wrong. The situation is not the same. There is a definite logical difference between the two cases, and I am surprised that you, who are so well acquainted with logic, still can't see it. I was thinking of the last 10 years – 2002 to 2012 – I could do a longer period but it would be tedious. I was going to use http://www.holiday-weather.com/london/averages/ for the averages. Although the values for 2002 to 2012 are known I was not going to use them to generate the string. That’s why I said “identify” rather than “predict”. I will not even look at the actual temperatures until after I have generated the string – although I won’t be able to resist checking it has worked when I have finished. The string will simply be a string of 120 bits with 1 for above average and 0 for below average. I realise you want 500 bits but that would be really tedious to look up all the data, so I hope 120 will be sufficient to prove the case. OK. Go on, and I will certainly understand better your intentions. gpuccio
keiths:
You haven’t thought this through.
Sed the chump who cannot thnk anything through- well obviuously keiths can think through his strawmen.
An omniscient and omnipotent God could prevent rapes from happening, and he could even prevent the desire to rape from happening, all without controlling anyone’s thoughts and desires.
Prove it- and then prove that God wants or needs to do this. Then tell us how we could be judged as individuals when we are not in total control of ourselves. If the whole point is to see who can be good in a world full of crap then keiths is a clueless dolt. Well the evidence supports that claim regardless... Joe
Mark: OK, maybe we don't really disagree at this point. My simple argument is that I asked you if your definition was prespecified or postspecified, because the evaluation of dFSI in this particular case would have been completely different in the two cases, because of the special nature of the definition (relying on a contingent list). As I have explained, dFSI would be rather high in the case of a prespecified function (target space equal to 1), almost zero in the case of a postspecified one (target space extremely big). That's all. With the other two functions, instead, relying only on an explicit, non contingent property, the computation of dFSI would not change in the prespecified or postspecified case. The target space and the search space remain the same in both cases. “The string identifies for each month over a period of 120 months whether the London monthly mean high temperature is above or below long-term average.” Yes, I think the function is acceptable. But, to be complete, I would obviously ask what the period is (and in particular, if it is a future period or a past period whose values are already known), and what the long term average reference is. Just to have a completely explicit definition. That said, I am ready to follow your reasoning. gpuccio
Mark: Thank you for your Bayesian answer. Still, I don't think you have caught the meaning of my question. Indeed, you say: I don’t recognise function (a) and can’t make much sense of it. My function was “refers to 5 specific papers in the PubMed database” – as I have said they can easily be listed even if the string was never thought of. In fact I don’t see how you could create a list such that “We can explicitly list the entries, if and only if the string is already known”. There will always be other ways of listing them – such as the titles or the URLs. That is the simple problem. If you don't understand function (a), and change it, my question has no more sense. Let's see. As I defined it in my question, function a) was: a) The string you proposed, whose function can be defined as follows: “It points to 5 entries in the PubMed databases. We can explicitly list the entries, if and only if the string is already known.” Why cannot you make sense of it? You have given: - a string - a list of papers in the PubMed database. Now, please, there is no difference if the list is given in the form of the numbers in the string, or of the titles. The only important point is: the numbers in the string correspond to the papers. But, when I asked, you admitted that you chose the papers by looking at the numbers in the string. Therefore, the correspondence of the numbers in the string to those 5 papers is a consequence of your post-specification. Is that clear? Now, how likely is it to have, in a RSG, a string for which we can create such a scenario? It is extremely likely. Therefore, we are observing a scenario (string + post-defined function) that is extremely likely. IOWs, there is no dFSCI, no complexity. If the original string emerged really in a RSG, no probability law was violated, no extremely unlikely event happened. Can you agree on that? Let's go, instead, for instance, to string c). My definition: c) A string whose function can be defined as follows: “It points to 5 entries in the PubMed databases, all of them indexed by the keyword: “elaprase” ". So, here the scenario is: we see a string, and we read the five parts of it as PMIDs. We check the 5 corresponding papers (up to now, no differences with the previous case). Now comes the difference: we see that all 5 papers are referenced by the keyword "elaprase", a rather rare keyword in the database. Now, that is strange. As you can see, the problem here is not if the function is pre-specified or post-specified. It is post-specified here too, because we observe it in the string. But we are not "creating" that strange property of the string by choosing an ad hoc list of papers, as we could have done for any random string. Here, we jusr observe a strange fact that requires some inquiry; the 5 papers have a remarkable property in common, and it was not us who acted to crerate that situation. It was the string itself that pointed to 5 papers with a common property. So, the fact here is: either the function is pre-specified, or post-specified (because observed in an already existing string), the probability of such an event remains extremely low in a random system. That's exactly the reason why it is perfectly reasonable to suspect design in the case of string c). It is very simple, and I really can't understand why you cannot see it. Your "argument" is, unfortunately, a new version of the old, and rtaher infamous, argument of the "deck of cards". So, let's say that we observe a deck of cards sequence which is apparently perfectly random. We rae not surprised at all. Although that particular sequence is certainly as unlikely as any other, it is perfectly natural that we observe it, because it is in no way special, it is not recognizable from any other random sequence. We can, just the same, find some post-specification for the sequence, either just by giving the sequence itself as a specification, or by finding some connection as you did with the Pubmed papers. But, if we do that as a post-specification, it remains perfectly compatible with the random origin of the sequence. But let's say that the sequence we observe is perfeclty oredered: 4 1s of Spades, Hearts, Diamonds, Clubs, then 4 2s in the same order, and so on. Can you dany that, even though the order is observed after we see the sequence, and is therefore post-specified, we would correctly have a lot of doubts about the random origin of the sequence? We would naturally look for some other explanation: a necessity mechanism here could be considered, and certainly we could consider design (a designer ordered the deck). Why? Because the ordered sequence is extremely unlikely as a random result. It is not importan if we pre-specify the sequence and then get it, or if we just get the sequence and observe that it is strangely ordered. The result remains extremely unlikely in a random system. On the contrary, a random sequence is perfectly likely because a lot of random sequences exist, and there is no special way to distinguish one from another. For each of those random sequences, however, we can post-specify some "function" that can only be defined after the string is explicitly know. Such a procedure does not change the probability of having a string of that kind (a string for which an ad hoc post-specification can be easily created). Obviously, if we use that ad hoc post-specification as a pre-specification, everything changes: the probability of having the same string a second time becomes, naturally, an almost impossible event in a random system. If we really observe it, we are prefectly justified in suspecting design. Please, consider what I have said here. And comment on that. Don't change the cards. And, in the light of what I have said, please answer simply my question in post #238. I will certainly bet on statement 1) as the true statement. And you? You say: I don’t see the relevance of your Bayesian challenge – I thought we were trying to define a process with 100% specificity – not estimate which hypothesis is most likely. But it is the same thing! When we evaluate dFSI in a string, we are just answering this simple question: is this string objectively unlikely as the output of a random system? How unlikely is it? The string for which you post-specified that kind of function is not unlikely at all. That's because the function you post-specified makes that result "unlikely" only as a seocn result (IOWs,only if used as a pre-specification). On the contrary, the functions defined in b) and c) meausre the probability of that kind of result, either as pre-specification, or as post-specifications. If I say: let's try to get a string that points to 5 papers reference by the keyword "elaprase". How unlikely is that event in a random system? Or if I say: I observe a string that points to 5 papers referenced by the keyword "elaprase". How unlikely is it to oberve that string as an event in a random system? In both cases, the probability is extremely low. gpuccio
keiths:
If the desire to rape is all that matters, then why does God allow the rapist to go through with the act? Why subject the victim to that horrifying experience?
Why does God allow the desire? Surely it's the desire that is the root cause of the act itself. Or are you just pretending to know Scripture? Why subject the perpetrator to that horrifying experience? Define rape. You won't. So you really don't have an argument. So don't expect me to address myself to your non-argument. You prefer a god that controls all your thoughts and desires? Mung
Mung: I would disagree with that statement. NS has no visibility of DNA sequences. DNA sequences are not functional and cannot be selected. Well, I would say that, according to the proposed algorithm, they are selected for their phenotypic effects (through the proteins they encode). In the simple form of antibiotic resistance explained by the darwinian algorithm, the genetic variant is selected necause of its phenotypic effects, and so in all known forms of microevolution. gpuccio
gpuccio:
In the neodarwinian algorithm, “DNA sequences are generated by RV and selected by NS”.
I would disagree with that statement. NS has no visibility of DNA sequences. DNA sequences are not functional and cannot be selected.
In the design theory, “DNA sequences are generated and/or selected by an intelligent designer”.
Intelligent selection is the only reasonable explanation for selection at the nucleotide level. NS isn't even an option. Mung
Petrushka: The process I have modeled is not limited to eight or ten characters It can reasonably be extended to hundreds. It does not require resources beyond those of the universe. It scarcely requires a fast computer. I have never doubted you are a good designer. gpuccio
Cubist: Why does gpuccio insist on knowing the origin of a string before he’ll try to use his dFCSI-determining protocol on it? Complete nonsense. Please, read my post #204 here, to Petrushka. It clearly explains what we are doing here. The whole purpose of all this discussion is to test dFSCI's specificity. That's exactly what you folks have doubts about. I think you are really desperate now. The intellectual level of posts at TSZ has never been so low. At this point, I feel confident in making a prediction about the results of gpuccio’s challenge, assuming he manages to disgorge any results thereto: For any string X, the answer to the question “has gpuccio determined that string X has dFCSI?”, and the answer to the question “has gpuccio been told, up front, that string X was Designed?”, will always be the same answer. And I make a very simple statement: you are a liar. I have determined dFSCI for all the strings that have been proposed here. And for none of them I have been told, up front, if the string was designed. So, you are a liar. It's as simple as that. gpuccio
Petrushka: What you say has no sense. You have given a long list of words. None of them obviously exhibits dFSCI. What else do you want to know from me? You know nothing about how DNA sequences were generated or selected, and yet you speak with authority about it. This is simply not true. I speak with "authority" (just to use your senseless word) about a specific explanation that has been proposed, that is the neo darwinian algorithm, and its only available alternative. In both explanations, it is very clear how "DNA sequences were generated or selected" (according to the explanation, I mean). In the neodarwinian algorithm, "DNA sequences are generated by RV and selected by NS". In the design theory, "DNA sequences are generated and/or selected by an intelligent designer". As you can see, we all know those things. Those are the explanations that we test against known facts. With or without "authority" (whatever it means). gpuccio
Mark: It's not my fault if you use silly and useless arguments. You take the responsibility of what you do. I simply state what I think of your output. Now, if you agree, let's play a little game. That will show why your argument is silly and useless. I appeal to your Bayesian heart. Now let's say that I give you three strings that all look alike (apparently random). And I give you three functional definitions, according to the concepts we have already discussed (please, reread also my computations in my post #235). The three string are as follows: a) The string you proposed, whose function can be defined as follows: "It points to 5 entries in the PubMed databases. We can explicitly list the entries, if and only if the string is already known." b) A string whose function can be defined as follows: "It points to 5 entries in the PubMed databases, all of them indexed by the keyword: "disease" ". c) A string whose function can be defined as follows: "It points to 5 entries in the PubMed databases, all of them indexed by the keyword: "elaprase" ". OK with that? Now, let's say that you have 1000 euros and you must bet. The bet is as follows. We have three different statements: 1) String a) was generated in a Random String Generator, in one single attempt. 2) String b) was generated in a Random String Generator, in one single attempt. 3) String c) was generated in a Random String Generator, in one single attempt. I tell you that only one of these three statements is true. You have to bet your 1000 euros on one of them. If you guess the one that is true, you win 2000 euros. If you bet on a false one, you lose your 1000 euros. Bayesian, isn't it? Now, my question is simple: On what statement will you bet? And why? Please, answer that. (By the way: it is not virtual money. Let's say that it is real money, that you earned through hard work. And you really want to keep your money, and win more). gpuccio
Mark Frank:
It is just that my definition “represents these papers” is equally testable and equally independent of the string – as I discussed above it could be performed in many different ways without the string ever coming into it.
I think there are at least three questions raised: 1.) How many other strings could perform the same function? 2.) How many different functions can be defined for your string? 3.) Is the function of the string distinct and separate from the string itself. Mung
Allan Miller: You seem to be the only one still outputting arguments, although wrong. I have no reason to ignore them. a) You say: As interesting as all this ‘string theory’ is, I feel it completely misses the bus, certainly in terms of proteins, which are nothing without their 3D structure. But you seem to forhet that RV acts at the sequence level, and in the gene, not in the protein. It knows nothing of protein sequence level. The search space for RV is only the sequence space in the genes. This is a very serious mistake in your reasoning. b) You say: Two protein domains can bear no sequence similarity yet have a high degree of structural congruence. That's absolutely correct. c) You say: And they can still derive from a common ancestor by stepwise substitution of every single part. If the structure and function are maintained, that is certainly possible. Indeed, the great variety of primary structure in simnilar proteins with similar functions can easily be explained by neutral variation. Negative selection can certainly allow sequenc variation that does not change structure and function. That's the whole ppoint in the model of "prtoein big bang theory". What this mechanism cannot do is to create a new structure with a new function. Exactly our problem when we have to explain the emergence of new basic protein domains. c) You say: Each amino-acid ‘letter’ is taken to be an equal distance from all others, and this is simply not the case Yes, it is. Because, as said, RV acts on nucleotides, not on aminoacids. The variation in the genome knows nothing of the effect in the protein. It isn’t the case in general, because amino acids cluster on properties, nor in specific instances, where the ‘distance’ between two substitutions, as determined by the 3D effect, is entirely dependent on the position in the broader matrix. Again, you make the same mistake: you are reasoning in terms of the protein, that is in terms of NS. But the new arrnagements are created in the genome, by RV. dFSCI has to do with RV, not with NS, as many times explained. If dFCSI takes no account of higher dimensionality, it is not likely to be a useful tool for determining protein ‘design’, even with a clear methodology for applying it to 1D structure. Again, see previous points. dFSCI measures the probability of new arrangements by RV in the genome. The "natural selectability" of proposed intermediates must instead be verified in the lab, and then, and only then, added to the computation model. Elements many bits apart come together in a manner vital for ‘function’. Not certainly by unguided RV. d) You say: A further point relates to ‘function’. Function is frequently partitioned protein by protein, but the very modularity of protein domains means that the same domain can appear in proteins of widely different ‘function’. And the ‘function’ of the domain in each protein may itself be widely different, yet retaining the same 3D structure. So we have these sub-protein elements that display substantial phylogenetic congruence, some on sequence, some on structure, and some on both, scattered about the proteome. That's more or less true. That's why I refer to the origin of basic protein domains, as you may have noticed. Let's postpone the discussion about multi-domain proteins to when we have explained single domains. Their integration from one protein to another is entirely within the capacity of ‘RM + NS’. How do you know that? Such practical, chemical considerations, of course, part of the general “things that come out at TSZ [...] better ignored”. No. They are simply easily falsified. gpuccio
Mark: This would greatly decrease the complexity as by your argument the real function should be “can represent some set of papers”. The fact it was a CHD set was determined by the string. But you do not feel it necessary to ask the how the CHD function was arrived at. I can see no logical difference in the situations except a matter of degree. But I can. Try this. We can define a function this way: a) Do a search on Pubmed with the keyword "disease". You will get 2836651 results. Always assuming 20x10^6 voices in the database, the probability of getting one item in the subset "disease" is 0,14183255. The probability of getting a list pointing to 5 such items (form value under 20x10^6) is therefore 5.739573e-05 (a perfectly likely event, in any decent random system). b) Now, do a search with the keyword "elaprase". You get 49 results. The probability of getting one item is now 0.00000245. The probability of getting 5 such items is now 8.827352e-29. You see no logical difference. As you can see, when the subset is objectively defined, there is huge empirical difference according to the definition. Here, I see 79 bits of empirical difference. Can your "logic" explain that? gpuccio
Mark: I will not go on forever with this. I don't agree with you. With my disagreement, strangely, I can infer design correctly. With your loigcal fallacies, strangely, you would affirm false positives everywhere, which seems to be your hidden dream. You say: It is utterly clear which strings can be used to represent that list of names whether the function be prespecified or not. What a pity that the list of names cannot be known until the string is there. Try to specify a list of names, and then try to get a string that specifies them in a random system. In fact it is clearer than a rule such as “papers about CHD” as one could argue about which papers are about CHD. That's really silly. You can give a very simple rule for measuring that: you go to the Pubmed site, and just perform a search with "CHD" as keyword. You immediately get a specific number. The function you want to substitute if I did not “prespecify” points to a different subset – but is clearly a different function. It is the function of representing any list of papers. Yes. And it is the only function that makes sense if the list is not pre-specified. Because, you see, if the list is not pre-specified, you matching a specific list to a specific string, and you can do that with any string. You seem to just play (and not well) with logic. You seem to forget that we are dealing, here, with empirical science. We need a functional specification that points to a specific subset of strings in a search space. but why are we doing that? Because we want to know the probability of getting a string with that function by RV. Now, just answer this simple question: if your function (and list) is not pre-specified, of which subset is it measuring the probability in a random system? You seem to affirm that it is specifying the probability of getting by RV a string that exactly matches that list. OK, I can accept that. But then it is the probability of getting such a string in a new search, not certainly in the search that gave you a string to define the list from! Obviously, that string is already available. Does that contradict the ID procedure? No, because that string has nothing special: it is a random string, that cannot be distinguished in any way from any other random string. It is one item in an extremely large subset: purely random strings, with no special function. It's you who have built a function for that random string, with a procedure by which you could have built a function for any other random string. Your argument is silly and useless. I am amazed that you still stick to it. It must really be cognitive desperation. I will not go on with this "argument" any more. Please, find other tricks, or let's stop it here. gpuccio
Mark Frank on October 31, 2012 at 4:20 pm said:
I don’t have a problem with your source code as an example of a function. Is there anyone who does? It is just that my definition “represents these papers” is equally testable and equally indepedent of the string – as I discussed above it could be performed in many different ways without the string ever coming into it. Gpuccio’s example of “Any string that has the following sequence: HHTHTHTTTHHTHTTTTHHTHHHTHTT” is not even a function and not at all similar to my example.
I haven't seen any complaining about my string. I wrote it specifically as an example of a string with objective functionality. You can even plug it in to a page on a web site and validate that it performs the stated function. I haven't really looked at your string(s) yet. Was there just one string, and it's composed of sub-strings, with each sub-string being a reference to a document? A suppose we can say it then has a function. And thus the question becomes is that function specific and complex enough. I'm trying to think of analogies that might be useful. We probably have differing levels of complexity and functionality, so the question is probably not easy to answer. For example, needing to divide the string into sub-strings of a specific length. But numbers can represent a very great many documents. So if we were to find some strings of numbers that made reference to other documents, then we'd say the string lacks specificity. If we change the "reading frame" will we get different and yet still valid pubmed documents?
Given a set of PubMed IDs (PMIDs) you can use this converter to obtain the corresponding PMCIDs and/or NIHMS IDs if they exist. A PMCID will be available if the article is in PubMed Central (PMC). An NIHMS ID will be available if the manuscript has been deposited via the NIH Manuscript Submission (NIHMS) system.
http://www.ncbi.nlm.nih.gov/pmc/pmctopmid/ Mung
Who wants to have cake and not eat it? Joe
keiths:
Poor Mung. He can’t defend ID, and he can’t defend his faith.
Poor keiths. Having given no definition of rape he thinks he's made an argument. But he asks us to suppose that tomorrow he decides to blow up the entire earth. If he knew his Scripture, he'd know having the desire is as good as having done the deed. So if he desires to rape a woman, it's no different than if he had raped a woman. And we wants to blame God for not preventing the action, when the thing that needed preventing was the thought. So what he wants is a god that controls all his thoughts and desires. And because he doesn't have such a god, he thinks it's a problem for Christians. Of course, a god that did exercise such control would no doubt be evil. So keiths wants to have his cake and eat it too. Mung
Petrushka: So how do you account for the accumulation of ten or so changes to form a new function? Petrushka, how were the words generated and selected? How can I answer that question if I know nothing of what you are talking about? gpuccio
Mark: Rule 0: No definition of functuion can be used to compute dFSI if it does not point unequivocally to a specific subset of the search space. This is the first rule you violated: your definition could point both to a subset of one string (if it was a pre-specification, or to a subset of 20*10^6 strings (if it was a function derived from the string itself). Rule 1: You ask: When confronted with a proposed function how do I decide if I need to know how the proposer came up with the function? I will use your template: "If a proposed function does not point unequivocally to a specific subset of the search space, for instance if it introduces contingent elements (like a paper list) whose logical relationship with the emergence of the function itself in the system is not clear, then it is necessary to find out how the proposer came up with the unexplained elements in the definition”. Rule 2: You ask: Having investigated how the proposer came up with the function and determined that it was by inspecting the digital string and then finding a function it could perform (I assume this is right so far – feel free to correct), how do you decide what function to replace it with? I will use your template: "The replacement function has features: "Any function with which an observer can perform a similar procedure, and obtain similar results (for instance, a function of the same form that differs only for the list of contingent elements). All that is really useless. Rule 0 should be enough. Any intelligent person, in the presence of an ambiguous functional definition, will naturally ask the definer the correct questions to solve the problem as I have done with you. Anyway, you asked for those unnecessary rules, and I tried to give them. The problem is really with the list of papers. A list of papers that have nothing in common is not a logical categoy. It is just a contingent list of elements, whose only logical connection is that they were derived from the existing string. The biochemical function of a protein has nothing contingent. Indeed, we can observe the function work in reality, and we did nothing for it, except observing and defining: but the function was already working before our observing and our defining. the biochemical reaction has been accelerated for million of yeras, before human observers even existed. Now, I am not saying that to create new rules: I just want to show you why your trick is so different from a true functional definition. However, the real rule is rule 0. And the reason should be obvious. The whole purpose of measuring dFSI is to measure the probability of a string arising in the system by RV with the defined function. If we define the function to match an existing random string, and the function has no universla meaning except the correspondence between the existin sring and some use we have defined for iots specific sequence, then we are measuring nothin, except the generic property that a string can be used that way. We could even do that for a protein sequence. We can, for instance, define a rule that transforms the sequence into a sequence of numbers, and then use that sequence as a key to an electronic safe. And so? We can do that with any protein sequence. But we can have a specific enzymatic activity only with certain sequences, and not with others. And please. take notice that all your "problems" in no way have created any difficulty to my assessment of dFSCI in all the strings that have been proposed. I have given a specific judgement for all of them, including yours. I have even given a specific judgement for your string in its original, ambiguous form: no dFSCI can be affirmed, because the defined function is ambiguous. gpuccio
Mung: Thank you for the kind cooperation :) gpuccio
gpuccio:
The only requisite is: the function must be objectively defined...
I'm not sure they understand what an objective definition would look like.
I had no problems at all in recognizing the function for Mung’s source code, with his cooperation. You cannot deny that function. Anybody can verify it. Mung could have expressed that function before writing the code, without knowning the code at all. Other codes could have the same function.
Precisely. In fact, there is a software practice which consists of writing functional tests before writing the code. I could have different people write a test that tests for the function performed by my code. They could write those tests without ever seeing my code. def test_mung_code expected = '_' actual = to_ascii ’1011111? assert_equal expected, actual end Mung
gpuccio:
Strangely, nobody among you has done that.
I knew there was a reason i should post my own string for you to look at. :) Mung
Toronto: I have never neither supported nor condemned UD's policies of moderation. I am just not interested. Personally, I am not in favour of banning anyone, but I understand that in a blog it may be sometimes necessary. Anyway, as a rule, I respect the decisions of those who have the responsibilities of moderating a blog where I am only a guest. My decision to post here, and not at TSZ, has many reasons, none of which has to do with supporting or not supporting the moderation policy: a) It is easier for me to post here, because it is the place where I like to post. UD is my place, TSZ is your place. b) While I can appreciate the general atmosphere of TSZ as one that is not extreme, still I am not at ease in that environment, which is too different from my personal attitude under many respects. the same word "skeptical" is for me rather a word of offense. c) I really want that people at UD, who after all are my own people, may have the opportunity of following the things I debate without having to go to TSZ. That's why I always try to comment after diligently quoting the statement I am commenting about. d) I believe that, after all, this "parallel posting" is working. It also has some peculiar positive aspects: for instance, it is easier for me to ignore what has to be ignored, and follow what is interesting. And yes, many of the things that come out at TSZ are better ignored (well, I am sure you think the same of UD, so you should be happy of the circumstance too!). So, I don't understand this emotional response from some of you because I, and others, are posting "at home" rather than at your site. It really seems not so important. We are not "shouting at each other from across a street". We are on the Internet, I believe. Well, I can admit that someone is shouting, occasionally, but the distance is not certainly physical, or informational... gpuccio
toronto:
No one but Joe has been banned here and you can find out why by directly asking him.
I was banned for telling them exactly what they all are- a bunch of cowardly liars and losers- except I did it with a link. And they still have not changed. Joe
Joe: BTW I applaud your resilience, even though I sometimes have problems understanding why you are doing what you are. There are many reasons. a) First and foremost, I respect the ideas of our adversaries (when they have ideas ;) ), and I feel that it is my duty to have them express their ideas, and to carefully and openmindedly consider them. b) Second, I believe that a public discussion between us and them is the best way to illustrate our poits to all who read. c) And finally, it is really the best way for me to understand better what I believe, and to refine my personal thinking. Thanks to all, friends and enemies alike, for giving me that precious opportunity. gpuccio
Mark Frank:
Yes. Szostak et al have defined function information in a biological context. They make it very clear that this number is relative to a particular function and do not make any attempt to correlate this with design.
Well they do NOT correlate it with the blind watchmaker.
However, they do not go near the question which I am raising which is how you choose the function.
Function is something we OBSERVE. And designers choose the function depending on the needs of the design. Joe
Thanks gpuccio, I was sure you and I had already agreed on that. And no one, not even Alan, understands what is in Alan's mind. :) BTW I applaud your resilience, even though I sometimes have problems understanding why you are doing what you are. Joe
Joe: You said: "dFSCI is, and will be, an excellent indicator of design until someone steps up and demonstrates that dFSCI (or what IDists say is dFSCI) can arise via some other mechanism than intentional, intelligent design." That seems a perfectly reasonable statement. I certainly agree with you. That is exactly the same as saying, as I have said: "dFSCI has 100% empirical specificity when used to infer a design origin. Hoever, that simple observation can be easily be falsified by showing that it can give false positives. That would be a serious falsification of the empirical utility of dFSCI as an indicator of design". So, we agree. It is very said that Alan Fox comments that with such a stupid statement: "If gpuccio agrees with Joe then I guess the matter is settled! We know something is designed because everything is designed!" I cannot even start to understand what is in his mind! gpuccio
Mark: I think all your "problems" can be easily solved. You said that if the papers had something in common then you would not have felt the need to investigate how I had chosen the function. What is the rule you are illustrating here? Something on the lines of “the function must be expressible as a general rule”? But it is rather obvious. If I define as function: "A string whose components all point to papers about cystic fibrosis in the Pubmed database" My definition is objectively defining a subset of strings. I need not know any specific string. I can give the definition after I have seen a specific string, because I have norices that its parts all pointed to that subject. Or I can give it just out of the blue. Nothing changes. If any string points to that kind of papers, it is objectively part of an objectively defined subset of strings. But that is not the case with your procedure. You procedure means: "Any string that points to a set of papers that I will choose after I see the string, using the exact sequence of the string to look at the corresponding papers". As I have explained. this function is correct, but is not complex. Almost any string of a certain length can be interpreted as pointing to a contingent list of papers. So, the subset defined by your definition is extremely big, and the complexity extremely low. I don't know how I can say it more clearly. If you define the subset on the basis of a particular string, it is fine too. Then the subset will have the maximum complexity available for that search space (1 : search space). OK. that will be a good definition to test any new string that emerges in a system. But not the original string. The original string is the template on which the definition was created, and it cannot obviouslt be used to prove that that function can arise in a random system. What happened is the exact contrary: the function itself was defined for a string emerged in a random system, that alredy existed. How can you still insist on this false concept? Let's try another way. I create by a random coin tossing the following string: HHTHTHTTTHHTHTTTTHHTHHHTHTT and I define for it the function: "Any string that has the following sequence: HHTHTHTTTHHTHTTTTHHTHHHTHTT" As the complexity of the string is 27 bits, I have 1: 2^27 probabilities of getting that string in a random attempt by tossing a fair coin. That is about 1 : 10^8. If I try to get a new sgtring like that by tossing a coin, I will need a lot of time to get it! That is the true complexity of the string, obviously. If the "function" is to have exactly that sequence, there is no doubt that the probability of having it by random search is that low. And yet, according to your "reasoning", we alredy got the result, in a random system, at our first attempt! As you can see, your reasoning is simply wrong. The fact that the list of papers is not the sequence of the string does not change anything. It is just a derived way to describe the exact sequence. Consider instead my definition of having a string that points to papers about cystic fibrosis. The subset here is defined by an independent property. To give that definition, I need not know any specific string, any specific number. I can completely ignore what IDs correspond to papers about that argument. I can ignore how many papers correspond to that argument. And still I can give the definition in a completely explicit way, and a perfectly correct way to verify if any string has the defined property. Let's go to a functional protein, an enzyme that accelerates, say, of 1000 times a biochemical reaction. The function is there. I can observe it in any lab, without knowing anything of the specific protein that is performing it: not its sequence, not its structure. I can objectively measure it. I can even define an enzymatic fucntion for which no real protein can be shown with that function. Proteins databases all list the same function for the same protein, without ambiguities. So, can you see how the concept of "defining a function" works? I had no problems at all in recognizing the function for Mung's source code, with his cooperation. You cannot deny that function. Anybody can verify it. Mung could have expressed that function before writing the code, without knowning the code at all. Other codes could have the same function. And I easily affirmed dFSCI for that string. And it was a true positive. You guys could have offered easily thousands of designed strings that would have been easily identified by me as exhibiting dFSCI. All true positives. Strangely, nobody among you has done that. You say that the function has to be changed to “any set of papers”. But why stop there? Why not any function discoverable through Google? After all that is what I did. Again what is the rule? There is no problem at all. The function: "Any possible string that can be read as a list of valid PMIDs" is a valid functional definition. It has very low complexity. For example, if we assume that Pubmed has at present 20 x 10^6 IDs, and if we deal with a string of 35 decimal digits, and we set a rule that any string of that length must be read as a set of 5 numbers, each of 7 decimal digits (which frees us from the necessity of a separator), that any string will give us 5 numbers under 100 x 10^6, and each number will have 1 : 5 probabilities (p = 0.2) of being a valid PMID. Therefore, the probability of having a random string with 5 valid IDs is, according to the binomial distribution: 0.00032. That is certainly not low enough to affirm dFSCI, at any reasonable threshold. If, on the other hand, we define our function as follows: "Any string for which a function can be defined using a google search" this function, too, is perfectly valid. And its complexity is probably zero. It is very likely that we can find some functional definition for any possible string, just using a google search. You may think that all this only arises when the function is chosen because it is something the string can perform and so it is a bit a sideshow. No. I just think that "all this" is not a problem, and can be easily solved if we define correctly each function. The only requisite is: the function must be objectively defined, so that anyone can agree on what it means, and anyone can objectively measure (at least in principle: obviously, there will be practical difficulties in many cases) the complexity linked to the function itself (IOWs, the target space / search space ratio). However, the process I used is close to how evolution works. Mutation creates a gene or protein and then if there is any function it can perform that adds to the organism’s fitness it is preserved. Using your approach the choice of function for the calculation of dFSCI for a protein should be “can make any contribution to the organism’s fitness” or something like that. Neo darwinian evolution assumes that RV creates new arrangements that increase the reproductive fitness of a replicator in a certain environment, enough so that the new arrangement is expanded in the original population. That is certainly possible, and can be evaluated. Microevolutionary events are well known that illustrate the principle. A computation of dFSCI for any explicit transition is rather easy (the only controversial point being the calculation of the target space, as we all know). Let's say that we can show a new arrangement that differs from the previous one of only one aminoacid (in the final protein). That would be a single mutation. If we reason at the protein level, that mutation, if highly specific (let's assume for the moment that only one aminoacid will give the desired result) will have a probability of 1 : 20 mutations at that specific site. If we have enough information about the system and the time span (for example, the mean rate of mutations per site in that replicator, the population, and the available time) then we can easily compute the probability of the event. If the event can be shown to give a true reproductive advantage in that replicator (that can easily be shown in the lab for bacteria), then it is a selectable event, and if the probability of getting the new arrangement by RV is high enough, the whole sequence (the emergence of the new arrngement, and its expansion by NS) can be easily explained by the neodarwinian algorithm. The problem arises when the new arrangement is very distant at sequence level from averything that already exists in the replicator (like in the case of the emergence of a new protein domain), and no naturally selectable intermediate is known. In that case, the dFSI of the new state is extremely high, and NA cannot be considered as a facilitating factor, because no naturally selectable intermediate is know (and, indeed, it is perfectly possible, I would say extremely likely, that no naturally selectable intermediate exists!). In those condition, the neodarwinian algorithm is irrelevant: it explains nothing. But we can agree that, in evaluating the neo darwinian algorithm, there is no ambiguity about the functional specification that each supposed state that emerges by RV must have: it must be naturally selectable. I hope that answers all your doubts :) gpuccio
To TSZ- dFSCI is, and will be, an excellent indicator of design until someone steps up and demonstrates that dFSCI (or what IDists say is dFSCI) can arise via some other mechanism than intentional, intelligent design. Alan Fox:
If gpuccio agrees with Joe then I guess the matter is settled! We know something is designed because everything is designed! Joe and Sherlock Holmes say so!
1- gpuccio has already agreed with me 2- That does NOT mean everything is designed. Only a moron would make that leap. And here is Alan Fox...
I think I am going into “watchful waiting mode” in the doubtful expectation that, one day there may be something useful that will eventually emerge from the ID camp.
Well Alan the entire world has been waiting for something useful to come from your camp and it ain't happenin'. So perhaps you should focus on that... Joe
OMTWO: Does it have dFSCI? No. gpuccio
Mark:
Suppose I had supplied the strings and the functions and then no longer been available for further questions – maybe I died of frustration in the interim . So you don’t know if the papers were: a) prespecified b) all had something in common you were not aware of e.g. they were on my desk in that order c) were post specified as I explained Has the string got dFSCI or not?
Mark, the answer is simple. I will never affirm dFSCI for the string. I (like anybody else) cannot assess dFSCI if the function is not clearly specified and the dFSI linked to the function cannot therefore be calculated. So, the answewr is no. For me, in those circumstances, I cannot affirm that the string exhibits dFSCI. gpuccio
ES: Excellent thoughts, unfortunately unlikely to be heeded by those who need to. KF kairosfocus
Gentlemen, Just a comment... I have been reading these TSZ threads for many hours. Amazing how people can prevaricate... The definition of functionally specified information is clear and simple and yet they decide to question it even though it was used in a paper in Nature as early as in 2003, by Szostak if I am not mistaken. It is also clear that messages detected in biology necessarily require a protocol to encode/decode them, as is the case elsewhere. And there is such a protocol! Messages are artefacts because they actually carry detectable semantic cargo (as is clear from communications between animals, animals and people, between people, and people and machines). Did anyone demonstrate how a message can arise prior to its interpretation protocol being uploaded into the information processing system? No. Also, what seems to have difficulties in getting across to people's minds is that any algorithm needs tuning. And what tuning does is implicitly bias search towards exploring areas where the algorithm designers think/hope/believe/expect to find most solutions. Dead simple. Also, any algorithm is a formalism. Are there any examples of spontaneous/law-like generation of a formalism? No. These things are so simple but... Eugene S
Mark: So is my function explicit or not? Mark, please! In the way I have formulated it, with full explanation of the role of the paper list, it is explicit. And, if the case is the second, it is not complex. You formulation is very obviously not explicit. It introduces an arbitrary list of papers, and it does not explain how that list was generated. So, it is not possible to say how much functional information is in your string, unless you clarift what is the true role of your arbitary list. Once you have done that, the reasoning is simple. This all turns on the word “explicit”. Obviously you could go on asking for more and more detail about a function indefinitely. If the dFSCI procedure is to be clear than it needs to be clear about when a function has been explicitly defined. It can’t just be the tester’s opinion that they would like more information. You are really losing yourself in the desperate attempt to show that you can create a false positive for dFSCI, or simply confusion about its concepts. You have not. You can't. The function is defined in order to compute the functional complexity linked to that definition. You simply tried to cheat (not in a bad sense, I am not saying that you were intentionally deceiving anyone: you are only dec eiving yourself!), and gave a definition that is ambiguous and can refer to two completely different scenarios. Your trick was simply to introdece in the definition an arbitrary list, without explaining the logical connection with your definition. As anyone would have done, I simply asked: "Hey, just a moment! What is this list? Why did you take these particular papers? Please, explain!" Itìs very simple. We are not stupid. You must explain what you mean. As I have shown, if, as you have admitted, you just picked up any possible paper that could match the list according to any possible connection, well, that's fine! It's a correct, explicit functional definition. But the definition is as follows: "Any string for whcih an observer can find any possible functional definition, using google or any other mean, after he knows exactly the string's sequence". That is a valis functional definition, but ubfortunately, as you yourself admitted, it can be applied to almost any possible string. Therefore, the defined function is not complex. IOWs. your initial definition would be: "Any string that can point exactly to the following papers from Pubmed: .... Hehm, wait a moment, please, let me see the string in advance, and I will tell you what papers I mean! This is not valid. You can just say: "Any string that points exactly to papers # 364789, 89654, 38290, 27654, and 90231." And then show a system where that string arises. That would be a pre-specification, and would imply some complexity to be explained. But not what you really did. That was not complex. It was just a poor trick (again, certainly non intentional). gpuccio
Get an education, keiths, and that won’t happen…
Wanna bet? Mung
Earthquakes haven’t killed me. Tsunamis haven’t killed me and hurricanes haven’t killed me. So what’s the beef?
Yeah, who cares about those other people?
Their choice to live in those areas. More people survive those then die from them.
And as long as less than half of the people “doe”, then God is still perfectly good, I guess.
All you do is guess. What does God have to do with it anyway? I have already told you we made our choice to go at it without God. And with earthquakes we can actually study the earth.
Yeah, it would take all the fun out of it if God simply told us about the earth instead of killing people and wrecking their homes so that we can study it.
So you choose to be willfully ignorant. Got it. Again we made our choice for knowledge without God. Tsunamis we can prevent and with hurricanes we can move.
All those Bangladeshis living on $2 a day — why don’t they just move?
LoL! How much did the nomads that left Africa make per day? Heck they made it to America on less than $2/ day.
What’s wrong with them? If they don’t move, it’s a good thing when God kills them.
You act is if there is something wrong with death. Perhaps all the innocent people who die gain eternal salvation. People die keiths. But life still marches on... keiths is still upset that I have expsoed his ignorance, again. Get an education, keiths, and that won't happen... Joe
To TSZ- dFSCI is, and will be, an excellent indicator of design until someone steps up and demonstrates that dFSCI (or what IDists say is dFSCI) can arise via some other mechanism than intentional, intelligent design. Joe
Geez keiths- you are so ignorant that you still think that unguided evolution predicts an objective nested hierarchy, even though there isn't such a thing for prokaryotes and gradual evolution predicts a smooth blending of characteristics which would ruin any objective nested hierarchy. So who takes anything you say seriously? Joe
Stupidity rules:
Do you really believe that Adam and Eve sinned, therefore earthquakes, tsunamis, and hurricanes? Can you explain the mechanism by which sin caused the tectonic plates to start moving?
Nice hissy-fit seeing that your original "argument" was shot down by reality. Do you really think that your ignorance means soimething keiths? Really? Earthquakes haven't killed me. Tsunamis haven't killed me and hurricanes haven't killed me. So what's the beef? More people survive those then doe from them. And with earthquakes we can actually study the earth. Tsunamis we can prevent and with hurricanes we can move.
What purpose does all the suffering serve, and why doesn’t God prevent it?
Already covered that.
And the most interesting question of all: How can anyone take this idea — that the Fall is the cause of all of the suffering and evil in the world — seriously?
Because it is in scripture. Look, moron, YOU asked an asnine question about evil- a question that has been answered many, many, many times. And just because you, a known liar and moron, does not like the answer doesn't mean anything to me. Joe
Mark: So it appears that all functions are ambiguous unless you know how they are derived! If you look at my definition of dFSCI, you will see that the function is "recognized and explicitly defined" by the observer (ususally, the same person who measures its dFSI). I must bring your attention to the word "explicitly". In this case. you defined the function. I, having to measure the dFSI of the string, don't think that it is explicit in the way you defined it. So I ask you further information about your definition. That is perfectly correct. You defined the function, so I have all the right to ask for clarifications about the definition. The clarification is simple: why did you choose that particular list of papers, and when? Given that due clarification, the evaluation of dFSI is simple, as I have shown in my post #203. In one case, (pre-specification), some dFSI could be affirmed, but it must be measured with greater detail. In the other case (a list designed to match a string) there is no reason to affirm complexity linked to the function: any random string can be linked, a posteriori, with ad hoc functions designed exactly for the string as it is. This is the correct procedure. There is absolutely no problem in it. The function is defined by the observer, and it must be completely explicit. I am not saying that your function ion the second case is not valid. I am just saying that it is not complex, and that is the simnple truth. The rules for defining an acceptable function for dFSCI appear to be more complicated than they first appeared! No. They are not. And again, any explicitly defined function is fine. Even yours. But it is not complex. gpuccio
Mark: Defining the terms of this challenge is not straightforward. If I decide on a function and then find a short algorithm to create a string that performs it – have I designed it or not? It is after all a deterministic process. The origin of the string is obviously a design process: you designed the algorithm to produce the string with the function. The assessment of dFSCI would obviously depend only on the string itself. gpuccio
Hotshoe: Get your courage together, gpuccio, Oh, no! I am too afraid of you... gpuccio
Petrushka:
My problem with gpuccio’s insistence on “someone” knowing the source or history of the string is that this is precisely what we are trying to find out. The number of bits is not interesting in and of itself. If GP’s method doesn’t tell us anything about the history of the string, what is its value?
I thought I had been clear enough, but let's say it another time. The computation of the specificity (and sensitivity) of any diagnostic method is done as follows: a) We need a "gold standard" according to which we affirm if the condition is present or absent. The gold standard is considered the "truth". In our case, the gold standard is the known, observed history of the string: whether it was generated by a design process, or not. b) We have a "diagnostic test": something that is trying to detect the condition. It's exactly the efficiency of the diagnostic test that we want to evaluate, in terms of sensitivity and specificity. That's why we apply the test, in this context, only to "patients" whose condition is independently known (by the gold standard). c) In this way, we can classify all the results of our test in our test patients as: true positives, false positives, false negatives, true negatives. So, we build a two by two table, from which the various parameters, including specificity, are easily computed. It should be ovious, therefore (but I will probably have to repeat it again many times) that here we are just "testing" the procedure against strings whose origin (design or not) is independently know. In particular, we are verifying (you are verifying) my statement that the specificity of the procedure is 100% when tested in this way. The application of a test to a situation where the condition is not independently known, instead, is the application of the test. A test would be useless if we never applied it to detect the condition. So, after we are reasonably sure that the test is good (in this case, that it has a measure specificity of 100%), then we can confidently apply it to cases where the origin (design or not design) is not known. IOWs, we use the test now to "detect" the condition. That is the design inference. So, to sum up: One thing is the testing of the procedure; amother thing is the application of a good procedure to new cases, whose "condition" is not known. The first thing is the measurement of dFSCI's specificity for the design condition. The second thing is the application of dFSCI to make a design inference in unknown cases. Is that clear? Please, an answer would be appreciated. gpuccio
Mark: I thought this was sufficient to decide that dFSCI is present. Are you now saying that you also need to know something about how the function was arrived at? It is very simple. Your objectively defined function is as follows: "A digital string that points to a list of papers that I have designed so that it is pointed to by the pre-existing string." That is the correct definition of the function you define. This function is correct. And its compèlexity is low. Therefore, there is no evident dFSCI in the string. This is my answer. I suppose it is a true negative, if the string was generated in a random system. You cannot just say: "A digital string that points to the following list of papers". That is not a good definition of the function. Why? Because it ios ambiguous. It can point to two completely different cases: a) "A digital string that points to the following list of papers, that was defined by me before the string came into existence". This is a valid case of pre-specification, and has some complexity, which has to be evaluated with more precision (probably, it is not enough to affirm dFSCI for any generic system and time span). Or: b) "A digital string that points to a list of papers that I have designed so that it is pointed to by the pre-existing string." As already said, this definition is valid, but has no special complexity. A very big subset of all possible strings would be defined by that definition, as you yourself have admitted. Therefore, the complexity is very low, and no dFSCI can be affirmed. It's as simple as that. gpuccio
Toronto:
Either requires the designer to have the abilities of the god in Genesis.
So? Mung
Mark Frank on October 25, 2012 at 8:35 am said:
Defining the terms of this challenge is not straightforward. If I decide on a function and then find a short algorithm to create a string that performs it – have I designed it or not? It is after all a deterministic process.
First you must decide on a function. Then you must find a string that performs the function. Then you must find an algorithm to create a string that performs the function. Then you must solve the search for a search problem. Then you must establish that the entire process is deterministic. Good luck. Mung
keiths:
Poor Mung. He can’t defend ID, and he can’t defend his faith. Yet he clings to both.
Is that an argument? Mung
keiths:
Do you really believe that Adam and Eve sinned, therefore earthquakes, tsunamis, and hurricanes?
A question. Not an argument. Who cares what he believes?
Can you explain the mechanism by which sin caused the tectonic plates to start moving?
A question. Not an argument.
What about all the earthquakes that happened before there were humans?
A question. Not an argument.
But if the Fall was retroactive, why wasn’t the redemption also retroactive, and why isn’t the second coming retroactive?
A question. Not an argument.
What purpose does all the suffering serve, and why doesn’t God prevent it?
A question. Not an argument.
Why should animals have suffered for millions of years for the sins of a couple of humans?
A question. Not an argument.
Why should an innocent baby die slowly and painfully under earthquake rubble because of what Adam and Eve did?
A question. Not an argument.
Who designed the malaria parasite?
A question. Not an argument.
Who gave the lion sharp teeth and claws for ripping its prey to shreds?
A question. Not an argument.
If God did it, then why did he so deliberately design things to cause such suffering?
A question. Not an argument.
If Satan or demons did it, then why did God allow them to do it?
A question. Not an argument.
If neither of the above, then how did those things come into existence, and how did Adam and Eve’s sin cause it to happen?
A question. Not an argument.
And the most interesting question of all: How can anyone take this idea — that the Fall is the cause of all of the suffering and evil in the world — seriously?
A question. Not an argument. Do you have an argument? keiths:
Here’s a hint. Read through my OP, looking for the sentences that end in question marks. Those are known as questions. See if you can answer them.
ok, granted. you have a lot of questions. Do you think that means you have an argument? Mung
Toronto:
In short, he does not claim that you can know if a string is designed simply by looking at the string itself.
IOW, the definition of dFSCI is not circular. Mung
Toronto, in yet another display of ignorance, says:
Amazingly, even Mung agrees that the search space might be less than 2**X in an analogy he gave where one bit in a string is directly related to another bit in that string, thus showing that “information” in a string is not completely “arbitrary”
What I said has nothing to do with the size of some search space. There is nothing "amazing" about it. There was no "analogy" involved. In my example, there was one bit that was determined by the state of two bits and a rule. Your assertion that "one bit in a string is directly related to another bit in that string" doesn't accurately capture what I said. I could even argue that it's false.
...thus showing that “information” in a string is not completely “arbitrary”
I don't even know what that means. Do you? Assume there exists a rule which states that if the first bit is 0 and the second bit is 1, then the third bit shall be 0. 010 Assume there exists a rule which states that if the first bit is 1 and the second bit is 0, then the third bit shall be 0. 100 Can we, by the fact that the third bit is 0, determine the value of the first bit? The answer should be obvious. NO. Mung
petrushka on October 25, 2012 at 1:11 pm said:
All I will say about my string is that it is a subset of a highly useful and lucrative set of strings. What I want to see is gpuccio’s methodology for determining whether the string can be produced by necessity mechanisms.
gpuccio hasn't claimed to be in possession of a methodology to identify strings generated by a necessity mechanisms. Sorry to disappoint.
The article I quoted indicates that 75 percent of bases are noise — any value is equivalent to any other value.
That's not noise.
So the search space to be considered is not the number of possible strings of length x; it is significantly less than the length of string x.
But evolution can compute any string, right? Including strings of length x + 1 and strings of length x + x. Mung
Cubist on October 25, 2012 at 10:16 am said:
Why is gpuccio putting these restrictions on his challenge? Any protocol for measuring stuff has its operational limits; to cite the first example that comes to mind, C14-based radiometric dating doesn’t work so good on specimens that are 50,000+ years old.
How do we know that?
Any protocol for measuring stuff has its operational limits;
ok
Why is gpuccio putting these restrictions on his challenge?
Because any protocol for measuring stuff has its operational limits? Mung
The difference between me and keiths: If someone put a gun to my head and said, rape that child or I will kill you, I would choose to not rape the child and take my chances. keiths, otoh, would rape the child and say he had no choice. Mung
keiths: Here’s a hint. Read through my OP, looking for the sentences that end in question marks. Those are known as questions. See if you can answer them. Why should I answer your questions? Do you think that asking questions is a substitute for making an argument? Put forth an argument, if you can. One that makes sense would be nice. What is the "specific instance of the problem of evil" your OP raises? Rape? That's not a specific instance. Your specific decision to rape a specific person, otoh, might qualify. Your specific decision to "blow up the entire earth," otoh, might not qualify. If we're not talking specifics, please, let's get that out of the way right now. I don't want to get way down the road just to find out that you didn't really mean what you said in the title of your OP, like last time. Define rape. Identify the specific instance of rape you're talking about. Can't you do those two things without asking questions? Admit you don't have a specific instance of the problem of evil. Admit you don't know how to define rape. Admit you never actually responded to my post. You want us to set aside the issue of free will, right? Mung
Mark Frank, To your OP On the Circularity of the Argument from Intelligent Design I posted somewhat in the area of 15 responses. I saw a total of two replies from you. Is that how you deal with refutations of your arguments? Just ignore them? Mung
hotshoe on October 30, 2012 at 12:20 am said:
Gpuccio – since you’re reading this thread, why under god’s blue heaven are you not over here posting your responses/questions, instead of hiding at UD where everyone is banned?
liar Meanwhile, Mark Frank continues to allows lying liars to post in threads under his direct control. So maybe that answers the question. Mung
petrushka on October 25, 2012 at 1:11 pm said:
All I will say about my string is that it is a subset of a highly useful and lucrative set of strings. What I want to see is gpuccio’s methodology for determining whether the string can be produced by necessity mechanisms.
It cannot. If it could, it would not be lucrative. And you need to talk to onlooker, who doesn't understand the meaning of arbitrary.
I might say that one of the folks often cited by ID advocates –Hubert Yockey–is on record saying evolution can “compute” any string.
And many anti-ID'ers meanwhile, are on record claiming it cannot. Mung
Allan Miller on October 25, 2012 at 10:27 am said:
So apparently the only ‘dFCSI’***-generating mechanism we would propose is excluded from the challenge.
You're confused. The only 'generative' mechanism you have is random variation. At best, NS can merely spread the dFSCI through the population. [Yet another reason GA's are not like evolution.] Mung
keiths:
Setting aside the issue of whether free will exists, this argument has always seemed bogus to me. Suppose that tomorrow I decide to blow up the entire earth. Does the mere fact that I’m incapable of carrying out my plan mean that my free will has been denied? I don’t think so. If it did, it would mean that God is constantly denying our free will, because there are always things that we want to do but can’t. If that’s permissible, then why isn’t it okay for God to prevent us from raping?
So keiths puts forth a free will response to the problem of evil, then immediately says we should set that argument aside. Yes, this is the level of intelligence we are dealing with. So say tomorrow keiths decides to blow up the whole earth. He's obviously deluded. He lacks the capacity to blow up the whole earth. Then he asks if his free will has been denied. This while we're supposed to be setting aside the question of whether free will exists. Yes, it's true. So then he asks, if God isn't denying his [keiths's] free will by preventing him from carrying out some act which he is incapable of carrying out, then why isn't it ok for God to prevent him from raping some unspecified something. I have to ask, who did you [keiths] decide to rape, and can you please define rape for us? Mark Frank:
I too would love to see a response from a theist as your argument seems pretty watertight to me.
lol. REALLY? WATERTIGHT? He can barely form an intelligible sentence, much less a watertight argument. 1) What is his definition of rape? If he doesn't have one, then he doesn't have an argument. Mung
Jerad,
As is your right, even if you do not hold yourself to the same criteria. But I do have the fossil, genetic, morphologic, geographic and breeding records to back me up.
Back up what exactly? That the micro mutations we see today are sufficient to account for the known varieties of cell types, tissue types, organs and body plans? How so?
I do not know your particular flavour of ID but does it exhibit the same level of detail and explanation you are asking of the modern evolutionary synthesis?
I assert no ID at all presently for this discussion.
CS: Show us how the known processes can generate novel cell types, tissue types, organs and body plans. Prove your concept to the scale you claim. Jared: I do not claim to be able to elucidate the exact molecular pathway that occurred to produce any modern life form.
You can throw out "exact" and you'd still be right. At any rate, thank you for the admission. Now, what pathways can you demonstrate?
But I’ve got a lot of consistent and coherent evidence which points in that direction.
Such as?
CS: P.S. please demonstrate that even the known types of genomic variation existed 500 millions years ago. Jared:Without assuming uniformity you can’t really ‘do’ historical science. If you throw away that assumption then everything is unknown and nothing can be established.
Not true. Without uniformity in *physics* you cannot really do historical science. However, when talking about putative controversial processes, such as what you propose, that are not basic to physics, you must demonstrate your uniformity. At any rate, before uniformity is even a viable lynchpin to your thesis, you have to establish that the known sources of genomic mutation that exist *today* are sufficient for such a development of the known variety of cell types, tissie types, organs and body plans. Can you do that? CentralScrutinizer
haha, keiths is at it again. Another OP that has nothing to do with demonstrating that ID is not compatible with the evidence for common descent. Yes, keiths, we're still waiting for Part II. Nice to know though that he doesn't think the problem of evil has anything to do with ID. keiths:
This is The Skeptical Zone, so it’s only fitting that we turn our attention to topics other than ID from time to time.
His OP has the title A specific instance of the problem of evil. But where does he say what that specific instance of the problem of evil is? Maybe the specific instance of the problem of evil is him not being able to ascertain whether some guy means a rape or a pregnancy when he says it was intended by God. Yeah, that's probably it. Or maybe the specific instance of the problem of evil he is referring to is people being able to make choices. I guess that he thinks that's somehow not compatible with the idea of God. Maybe he should have used a different title. Intelligent Design is not compatible with the evidence for evil. After all, evil is explained trillions and trillions of times better on the theory of unguided evolution. As is rape. Mung
Talk about stupidity:
I’m disappointed that no theists have shown up here to defend their God.
As if- 1- As If God needs defending 2- As if humans could 3- As if anyone cares what keiths sez But anyway, being brought up in a Christian family and having attended catholic schools, it is clear to anyone with an IQ over 50, that pain and suffering are the result of the fall of man. We brought it upon ourselves, with a lttle help from below. Now we have to deal with it. Individual salvation can be had, as can individual damnation- equal opportunity. The choice is yours. So that is how Christians explain and accept the world, keiths- unless they have changed in the past thirty + years. Joe
Mark: I didn’t design the function. I identified it from all the many things that could be done with that string. In fact the exact process was I took parts of the string and entered them into Google to see what they might be used for. I started with the whole string and progressively broke it down into smaller parts. It only took about 20 minutes. The function of representing that list of papers was a property of that string even if I had never engaged in the search. I expect there are very many other such functions should I stumble across them. So, the answer is very simple: let's say that, given a numerical string, it is very easy to find some use for those numbers, whatever they are, just by using google. So, the only function that I see defined here is: "A string of numbers such that we can find any use or function for it, sfter we see it, by using google". OK, this is the only function that I can see in your string. You did not give me a specific list of papers. You did not explain how such a list was found. So I look at your string, and I can find no complex function for it. As you say, almost any random string can be used for something, a posteriori. So, that is a function, but it is in no way complex. It would be complex to generate a string that points to a pre defined list of papers. It would be complex to generate a string that point only to papers about cystic fibrosis. It would be complex to generate a string that is the exact key to a specific case. It is not complex to generate a string that point to any generic list of papers. Almost all strings of a certain type, or interpreted in a certain way, will do. It is not complex to generate a key that can be used as a key for a generic safe, by setting it as a key: any string of the correct length will do. But it is always complex to generate a key that points only to the papers in Pubmed which deal with cystic fibrosis. Tha definition, and only that one, popints to an objective function, that objectively defines a subset of all Pubmed papers. Let's say that Pubmed has about 20 million IDs. I searched "cystic fibrosis", and it gave me 36969 results. So, let's say that the probability for a number under 20 x 10^6 of pointing to a paper about cystic fibrosis is about 0.00184845. Let's say that we have a list of five numbers under 20 x 10^6, all of them pointing to a paper about cystic fibrosis. Using the binomial distribution, the probability of having 5 successes in 5 events with such a p is of the order of 45 bits, if I am not wrong. So, we are not at any high threshold here, not even the 150 bits threshold. But it is quite an unlikely result just the same. For a simple system, like a RSG with limited resources, 45 bits could be enough to affirm dFSCI and infer design. That's where we need to define better the system and the time span, as I have always argued. This is a good example of the concepts, and of the procedure. gpuccio
Mark: Here is the evidence of your error: Independent of the string – the function is to list a set of papers in order. This list of papers is independent of the string. Absolutely not. You created the list of papers from the string: you took the numbers, looked for the corresponding papers, and created the list. IOWs the list of papers was designed from the string. How can it be independent? The other possibility is that you first created the list of papers, and then designed the string to fit it. That would be a correct pre-specification. And I could possibly infer design, if you guarantee that the list was specified before the string was generated, and if the dFSI is high enough. IOWs, you either designed the list, or designed the string. gpuccio
Mark: No. You are wrong. Pre-specification is a very special case of specification. Dembski has dealt with that explicitly. If you pre specify an output, and then the output comes, then you have a strange event. If you specify the output after you look at it, simply defining the outpu, not because it has an objective function, then you are only joking. Let's make it more clear. Let's take the classical example of an arrow that hits a wall. If it hits a target that was pre-existing in the wall, that is a sing of design. If you design the target after the arrow was thrown, what does that mean? Nothing. You are doing the same thing, You look at an arrow in the wall, and then say: "Well, I define a function for this arrow as being exactly at the point that is such and such centimeters from the floor and from the left angle. So, the position of the arrow is functional". That is nonsense, and has nothing to do with a functional specification. The correct way to describe your specification is: "An arrow on the wall that is exactly where it is". The complexity of such a definition is extremely low: only arrowa that are not in the wall will not comply. But let's say that the arrow is in the center of a target drwan on the wall, and that you know very well that the target was not drawn there because the arrow was alredy there. You see the arrow after it reached the target (post-specification), but the target was there independently. And it is the only target in the wall. Or still, you may have 10 targets on the wall, on a very bign wall, and in 5 of them you see an arrow. That is functional spèecification: you define a small subset among all possible arrows in the wall. I am very amazed that you are confused about these very simple aspects of design theory. As I said, Dembski has analyzed them very well in his first works. So, to sum up: Correct functional specifications: a) I give you a list of papers. After that, a string is generated, and it correspinds to the list I had given before (pre-specification). b) I give a list of papers that can be objectively defined: for instance, all the papers dealing with cystic fibrosis. That defines a very objective subset of all papers, and of all valid PMIDs. If you give me a string whise numbers, correctly separated, all correspond to that subset of papers, I will have to evaluate dFSCI for it. And, in this case, it will be specially easy, because the functional subset can be easily measured by a search (but we should also consider the probability of having numbers correctly spaced so that all of them are below the highest of PMIDs). I am afraid, Mark, that you are only creating unnecessary confusion. dFSCI measures the improbability of a string arising by chance, by evaluating the complexity tied to the functional definition. If you observe the string, and then look for some way to give it a function (for example building an appropriate list of papers that correspond to the random string), then it is not then complexity of the string that is functionally linked to the list: it is rather the complexity of the designed list (you selected the appropriate papers amonf all the possible ones, just with the purpose to have them correspong to tyhe random string) that corresponds to the random string. IOWs, you designed a list of papers that has the function of corresponding to an already existing random string. As you can see, design theory, if correctly understood and applied, can explain many different situations. gpuccio
Mung: Thank you! I will consider you an intelligent designer :) So, at present we have: a) One true positive (your string) b) One false negative (Petrushka's string) c) Some true negatives, IMO (Mark's examples, if they were randomly generated), or some false negatives if Mark purposefully wrote the sequences (by the way, Mark, the strings were lacking a separator, in that way they are useless). No false positive up to now, I suppose. gpuccio
Petrushka: There is no way to “weasel” this, What do you mean? Why should I want to "weasel" that (whatever it may mean)? gpuccio
I designed the code. It could probably be more compact, but it did what I wanted it to. It was good enough for government work, as the saying goes. It was generated by random firings of neurons in my brain from which I made selections (RV+IS) with future potential function in mind. I wonder if I could write a GA to do the same thing and whether it would come up with a better solution. Mung
Petrushka: Thank you for the information. So, if I understand well, the list was designed. Very well. So, this is a false negative. OK. gpuccio
Mung: Thank you for the information! Then, I think I can say that the string exhibits dFSCI. Now, please tell us the truth: was it written by you (or somebody else), or was it generated in a random system (or by natural laws)? IOWs, was it designed or not? Is it a true positive, or a false positive? These questions could seem trivial, but they are not. I am just showing how the testing works. gpuccio
Petrushka: I eagerly await his objective method of detecting design that does not involve first calculating dFSCI. Isn’t that the part where the argument goes circular? And you will wait forever. I have no "objective method of detecting design that does not involve first calculating dFSCI". Where did you take that strange idea? I just asked for strings whose origin is known. To you. IOWs, I suppose that, if you yourself wrote a string of language or a piece of software, you certainly know that its origin is from design. I accept that. In the same way, if you generated a string by tossing a coin, you know that it was generated in a random system, without any design intervention. The same is true, as I have explained, for a string generated in a RSG. IOWs, you who propose the string must know its origin, I have nothing to "detect". I only assess dFSCI, and in some cases infer design. gpuccio
Jerad:
I just don’t find the need to bring in any ’causes’ other than those natural, undirected processes we have observed and measured and defined already.
Jerad:
I think undirected natural causes are adequate so it doesn’t embarrass me at all.
Mung
Toronto:
According to gpuccio, it is “dFSCI” that doesn’t care about the generating function. When you go to attribute “design” to a string however, the generating function is then taken into consideration. That’s where his terms “False Positive”, “False Negative” etc., come into play. In short, he does not claim that you can know if a string is designed simply by looking at the string itself.
Thank you for understanding and correctly expressing my points. That is appreciated (and rare). gpuccio
Mark: No, now I understand waht you mean. You can certainly predefine a list of papers. That would be a pre-specification, because the papers have nothing in common, and cannot be defined in any other way than listing them. So, if you predefine a list of papers before the string is generated, then you are right, the string that is generated exhibits dFSCI. The situation would be similar to specifying a definite sequence of a deck of cards, and then having it coming out. A very strange event, that would suggest design in the form of cheat! But if you define the deck of cards after it was obtained, you are obviously simply "post-specifying" a random event that alreadt occurred. That is not a valid specification. Pre-specification is a valid specification (indeed, not a functional one in the proper sense, but I can accept it as a "stretched" form of function). But it is of no practical use. But yours is not a prespecification. You are saying: "I give you a list of numbers that correspond to certain papers. They are specified and complex because they correspnd to the papers to which they correspond". That makes obviously no sense. I will remind here that a true functional specification, while being certainly a post-specification (we recognize the function in th object and define it), is an objective kind of specification, and therefore is valid as a post-specification. When we define the function of an enzyme, we are objectively describing and measuring what theb protein can do, but we are not, in any way, defining the protein as: "a protein that has the following sequence of AAs". IOWs, our definition is objective, and completely independent from the sequence of the string, and from the events that should generate that sequence. So, your definition: "any sequence of IDs, that corresponds to the papers to which it corresponds" is the same as saying "any protein which has the sequence that it has". They are valid specifications, but they are not certainly complex. They don't define objectively a small target space. Any protein has the sequence that it has (complexity zero). And practically all the numbers under a certain value are valid PMIDs (extremely low complexity). Is that clear? gpuccio
Jerad:
Just out of curiosity . . if my position is so week (sic) why do you continue to argue with me?
lol. Upright BiPEd:
As a simple observation of your words, you live in a self-sustained, self-affirming, self-isolating cocoon.
But it's warm and comfy in here. Jerad:
Just out of curiosity . . if my position is so weak why do you continue to argue with me?
Are you serious? Is this supposed to be an argument for why you are correct? Because we argue with you? Jerad:
Just out of curiosity . . if my position is so weak why do you continue to argue with me?
Because if your position was true we wouldn't need to argue with you. Mung
Petrushka: So how can he place conditions on how the string is generated? Conditions? What do you mean? Are you referring to my request not to use the output of GAs? As I have explained in my post #162: "That’s why I objected to GAs: not because I would have any problems in applying the procedure to any string produced by a GA. As sais many times, when we apply the procedure we know nothing of the origin of the string. The problem is, how would you comsider a string outputted by a GA? I would obviously consider it as a string that has a design origin. Some of you would probably try to affirm that it has not a designed origin, but on what basis? There can be no doubt that the origin of the string is from design. You may ask: waht if I use a Random String Generator? I think we can accept that as an algorithm producing random strings, if it really work only as a RSG. Well, the algorithm would still be designed, but I think we can agree to accept that as a reasonable substitute for a slower random system, such as a coin tossing system. So, I would certainly accept the output of such a software as “non designed strings”." gpuccio
gpuccio:
It clearly appears to be source code. At this point, I would kindly ask Mung if he can offer the following information: a) The language b) If it is a complete source code, or just a piece of it c) If it can be compiled as it is d) What would the compiled software do, and in what environment?
a) Ruby b) The code defines a function (aka method). In that sense it is complete. (see d) c) Ruby is an interpreted language, so no compilation is required. d) The function accepts a binary string and returns an ascii string by scanning the input string and taking each sequence of 7 bits and converting the seven bits to an ascii character. You can copy and past the code into this web page: http://tryruby.org/levels/1/challenges/0 Hit the enter key after pasting it in. You should see: => nil Then copy and paste in the following to see it in action: to_ascii '1011111' Hit the enter key. You should see: => "_" Mung
Petrushka: Was your last post an answer to my analysis? If so, please explain better. I don't understand your point (if there is a point). gpuccio
Mark (and others): Maybe I don't understand your point. I have tried the first set of papaers, but they do not seem to have anything in common. So, what is your specification? Any sequence of numbers that can correspond as PMID to any generic pubmed paper? That would not seem complex at all. Please, explain. gpuccio
Mung (and others): You proposed a string for wehich I have found at lòeast one interesting function: as soon as I try to paste it in this form, everything crashes :) So, I will not post it here. You can find it in post #111. Well, this is a 150 characters string. The potential search space, with the whole english alphabet plus space, would be 713 bits. It clearly appears to be source code. At this point, I would kindly ask Mung if he can offer the following information: a) The language b) If it is a complete source code, or just a piece of it c) If it can be compiled as it is d) What would the compiled software do, and in what environment? Those informations would be usefule for a more detailed analysis, and to correctly define the function. In general, if we can correctly define a function for the source code, I would say that we are probably in a condition that can allow to assess dFSCI as present, because the string is long enough to comply according to the principles I have suggested for language, and I believe that source code obeys the same rules as meaningful language where the length/dFSI relationship is implied. In the same way, I am aware of no natural way to generate working software beyond a minimal complexity. So, with some help from Mung, we could probably classify this as a positive. gpuccio
To all TSZers: Well, just to start the fun, I would like to consider the strings that have been already proposed. We can face any problem while we try to work them out. I will start with the one offered by Petrushka: "NOULASSENT MYSTINESS VERWERTEN VALATERIA HOLONES AERRADO CRACIES PECULARDS PUMISHES GENOTERONT VORKELTE FROSSER EWECHET PARRIERIA ROUTOUS OVERTINT CRUFFIER SURTER SNUFFLEY PAROUSEL" Well, let's start with what is simple. I make a reasonable assumption that the above string uses the english alphabet, or a very similar one, as basic alphabet, including the space character. That would give 27 letters, but indeed, if I am not wrong, 5 of them are not present in the string, so I would cautiously say that the alphabet used here is of at least 21 letters. The string is 180 characters long, so the search space is about 790 bits. I suppose that should not offer any problem to anyone. The second point would be: is there a functional specification recognizable here? Well, Petrushka has not offered any help. At first site, I cannot see any recognizable function in the string. It has some of the formal aspects of language, and obviously some similitude to existing words possibly of different existing languages. If it were language, the functional specification would be a meaning. At present, I can detect no meaning in the string. I wondered if that could be some artificial language, like Esperanto, but a very quick google search does not seem to support that hypothesis. The single words, however, seem to have meaning: verwarten is german, mystiness is english, holones would be spanish, and so on. My best guess is that it is a sequence of words in different languages, not connected in a phrase. I would ask Petrushka, please, if he can confirm that. If the wrods form a phrase with meaning, my reasoning would be different, but frankly I don't want to spend a lotof time trying to "translate" form a non existing language. So, I will go on according to my assumption: indeed, I have not considered all the words, for brevity. Some of them, like valateria, don't seem to be words, but could be names. However, the sequence could at most correspond to a generic specification: any sequence (that long) of existing words, in any known language. Now, if the phrase were a phrase, with a recognizable, well expressed meaning, I really would have no problems in attributing dFSCI to it. The reasoning would be as follows: a) The search space is extremely big. Much greater than any proposed threshold for CSI. Much greater than 500 bits. b) Calculating an exactl target space for language is not an easy task. However, I have shon elsewhere that it is possible to demonstrate, for language, and in particular for compact phrases without big redundancies, that the dFSI necessarily increases when the length of the sequence increases. That result is probably valid for all digital sequences, but is particularly obviousl for meaningful language. I will not repeat the demonstration here, but if someone is interested, we can discuss it. So, I am perfectly confident that any meaningful and compact phrase as long as the one proposed is certainly beyond 500 bits of dFSI. Moreover, I am aware of no natural mechanism that can output meaningful language beyond a minimal complexity. I am also perfectly confident that none will ever be found, but that is not strictly necessary for the reasoning. So, very briefly, if I were aware that the above phrase has a good compact meaning (even if expressed through words of different languages) I would definitely assess it as exhibiting dFSCI. However, as a simple sequence of existing words, it is more difficult to give a quick answer. The evaluation of the target space is more difficult. Indeed, at present I have no idea of how to approximate it. So, while intuitively I woul think that opribably, if a god approximation of the target space could be obtained, the sequence could still be considered as exhibiting dFSCI, for the moment I would cautiosly abstain from that conclusion, because I have developed no reasonable way to evaluate the target space of all possible sequences, of a certain length, of existing words, of any length, in any language. And, for the moment, that's all for this string. gpuccio
Jerad:
What is your better model?
Well common design is actually observed. Common descent is observed also but only observed to make more of the SAME. Joe
Jerad:
The fossil, genetic, morphologic, geologic and breeding records are good evidence to suport the contention that universal common descent with modification from a common ancestor is true.
That is your opinion pnly. The fossil record shows fish-> tetrapods-> fish-a-pods- and that isn't an opinion. Breeding demonstrates severe limits to change. genetics do not support the transformations required. You don't even know how many mutations it would take nor to what parts of the genome. Your position is untestable and therefor unscientific. Joe
Jerad:
Okay Eric, if I’m wrong then tell me your alternate hypothesis which does a better job of explaining the data, is consistent with known science and requires no special pleading.
Alternative to what? Your position doesn't explain anything, so it isn't an alternative. Your position is not consistent with science and requires special pleading, so it isn't an alternative. So again I ask- alternative to what? Joe
To all TSZers: Well, I am back. don't know how much time I will be able to dedicate to the topic, but I will try. I am happy that not too much discussion went on during my absence. That makes my catch up easier. First of all, I would like to say that I agree with what some of you have said, that the purpose of the discussion is not to win or lose a challenge, but to clarify the dFSCI procedure with examples. In that sense, there is in principle no reason why we should be antagonists in that. If the procedure can be applied, why should you object to that? So, let's work together and constructively. Another point that is maybe not so clear is the nature of the "challenge" I paste here: "Give me any number of strings of which you know for certain the origin. I will assess dFSCI in my way. If I give you a false positive, I lose. I will accept strings of a predetermined length (we can decide), so that at least the search space is fixed." The important part is, as I have consistently said in all the previous discussion, that the test needs "strings of which you know for certain the origin". That means that you should propose strings that were: a) designed or b) not designed. That's why I objected to GAs: not because I would have any problems in applying the procedure to any string produced by a GA. As sais many times, when we apply the procedure we know nothing of the origin of the string. The problem is, how would you comsider a string outputted by a GA? I would obviously consider it as a string that has a design origin. Some of you would probably try to affirm that it has not a designed origin, but on what basis? There can be no doubt that the origin of the string is from design. You may ask: waht if I use a Random String Generator? I think we can accept that as an algorithm producing random strings, if it really work only as a RSG. Well, the algorithm would still be designed, but I think we can agree to accept that as a reasonable substitute for a slower random system, such as a coin tossing system. So, I would certainly accept the output of such a software as "non designed strings". Now I have not much time, so we can clarify better these points later. For now, I have to stop here. gpuccio
Eric (158):
Joe, Jerad likes those undirected natural causes. He can’t point to which ones they are. Or how they operate. Or a single example of them actually doing the required work of creation. But, hey, let’s not get in the way of a good a priori commitment to materialistic causes. Wouldn’t want to shake the faith now would we?
Okay Eric, if I'm wrong then tell me your alternate hypothesis which does a better job of explaining the data, is consistent with known science and requires no special pleading. Seriously. Time to put your money where your mouth is. Give us all an alternative that does the job better. We'll just stop all this fussing about my opinion and cut to the chase: what have you got that works better? In all ways? I'm going to ask questions. Jerad
Joe (156):
Opinions mean nothing. Only science matters. And your position only has opinions and no science.
In our past discussions you have hypothesised an extra source of information in the cell/genome which accounts for adaptation and . . . lots of other stuff. What science or data have you got to bolster your opinion? (157)
I think undirected natural causes are adequate so it doesn’t embarrass me at all.
Adequate for what, exactly? And what is the evidence that supports it?
The fossil, genetic, morphologic, geologic and breeding records are good evidence to suport the contention that universal common descent with modification from a common ancestor is true. What is your better model? Seriously. You stand on the sidelines and bitch and run but you never really stick your neck out and cough up a well thought out model which works better. I'd be really happy to consider such a model if you proposed one. But you haven't. Science is about coming up with explanations. Okay, let's hear yours. Jerad
A new topic: "The evolution of blind faith in materialism- why the design went awry" That is right up there with: "If you have a big breakfast you don't need a lunch- a response to Wm. Dembski" :) Joe
Joe, Jerad likes those undirected natural causes. He can't point to which ones they are. Or how they operate. Or a single example of them actually doing the required work of creation. But, hey, let's not get in the way of a good a priori commitment to materialistic causes. Wouldn't want to shake the faith now would we? Eric Anderson
Jerad:
I think undirected natural causes are adequate so it doesn’t embarrass me at all.
Adequate for what, exactly? And what is the evidence that supports it? Joe
The fossil evidence has fish->tetrapods-> fish-a-pods. THAT does not support universal common descent. Also breeding demonstrates severe limits to the phenotypic plasticity that organisms have. Heck your position can’t even get past prokaryotes without relying on some magical endosymbiosis. So please, stop with your lies already. Jerad:
Well, there are other opinions.
Opinions mean nothing. Only science matters. And your position only has opinions and no science. Joe
UBP (154):
The claim I am making regarding the (logically and empirically validated) material conditions required for recorded information are not impacted by the fossil record. The simple fact is that the fossil record would not even exist without those material conditions (i.e. Darwinian evolution is entirely dependent on them). Why is this so hard for you to grasp? Perhaps your lack of understanding is tied to the fact that you choose not to engage the argument, preferring to shield your views from any evidence to the contrary.
I guess I'll have to read at least part of 'your' thread laying out your argument. I remember skimming parts of it but by the time I had a look the discussion had gotten quite convoluted and I decided not to stick my oar in without having done the work of reading stuff first. Anyway, it's not fair of me to make anymore comments without first having a look.
“chops down the whole Darwinian tree”? Would you mind trying to apply yourself a little more to the topic? First, I have no need to chop down the Darwinian tree. Secondly, there are certain characteristics of the first replicator that are generally understood. I am arguing for those required characteristics, and you are ignoring that argument.
I will try and find some time to read 'your' thread before I comment further.
So please allow me to take you at face value. If I infer the act of an agent from material evidence and logical necessity, then you demand I show you evidence of an agent. But in the effort to brush aside that same material evidence, you are happy to posit things you don’t even believe, like ancient astronauts with lunch boxes. Great.
I was just pointing out that from my point of view, and for what I am arguing, there are multiple possible sources of the first basic replicator. My argument is completely separate from yours obviously.
Good grief. Do you hear yourself? You do not have a cause to “bring in” that can explain what must be explained, but you apparently don’t know this because you refuse to engage the evidence. So instead, you bring in the causes that don’t work – and simply assert they do. Does this not embarrass you at all?
I think undirected natural causes are adequate so it doesn't embarrass me at all. I will make an effort to look at your argument as laid out in your thread.
You simply do not know what you are talking about, and I think you may prefer it that way. Darwinian evolution requires the existence of recorded information. As a simple matter of fact, it is the information that does the evolving. If there is no recorded information, then there is no Darwinian evolution. And there can be no recorded information without the existence of specific material conditions. These material conditions are unique among material processes. Darwinian evolution cannot be the source of these conditions, because it (itself) is entirely dependent upon them. To say otherwise is to say that a thing that does not exist can cause something to happen. Let me ask you a question: Do you think a thing that does not exist can cause something to happen?
I don't want to give a flippant or quick answer . . . . and I don't want to miss something subtle . . . .a thing? Unless I'm misinterpreting what you're getting at then no, I do not believe that something that does not exist can cause something to happen. I think it takes material or energy causes to affect material or energy. Jerad
Jerad,
No but the fact that there is descent with modification implies that looking at modern lifeforms without considering the fossil, genetic, morphologic and geographic records means you have to be very, very cautious about claiming their origin is due to design.
The claim I am making regarding the (logically and empirically validated) material conditions required for recorded information are not impacted by the fossil record. The simple fact is that the fossil record would not even exist without those material conditions (i.e. Darwinian evolution is entirely dependent on them). Why is this so hard for you to grasp? Perhaps your lack of understanding is tied to the fact that you choose not to engage the argument, preferring to shield your views from any evidence to the contrary.
You are really convinced that not knowing the nature of the first basic replicator chops down the whole Darwinian tree.
“chops down the whole Darwinian tree”? Would you mind trying to apply yourself a little more to the topic? First, I have no need to chop down the Darwinian tree. Secondly, there are certain characteristics of the first replicator that are generally understood. I am arguing for those required characteristics, and you are ignoring that argument.
I’ve said before that the first basic replicator could have ridden to earth on an asteroid or fallen out of an ancient astronauts lunch box.
So please allow me to take you at face value. If I infer the act of an agent from material evidence and logical necessity, then you demand I show you evidence of an agent. But in the effort to brush aside that same material evidence, you are happy to posit things you don’t even believe, like ancient astronauts with lunch boxes. Great.
You seem determined to accept no conclusion other than design. Are you sure you’re not biased?
You are welcome to attack me after you address the evidence, not before. Otherwise, it’s a fallacy.
I disagree. I think at the very least you have to say: we don’t know. But you are very sure and that makes me very suspicious.
What exactly is it that you could disagree with, given that you are unwilling to engage the evidence?
I’m not denying anything. I just don’t find the need to bring in any ’causes’ other than those natural, undirected processes we have observed and measured and defined already.
Good grief. Do you hear yourself? You do not have a cause to “bring in” that can explain what must be explained, but you apparently don’t know this because you refuse to engage the evidence. So instead, you bring in the causes that don’t work – and simply assert they do. Does this not embarrass you at all?
I think the evolutionary paradigm explains the ‘information’ in DNA nicely.
You simply do not know what you are talking about, and I think you may prefer it that way. Darwinian evolution requires the existence of recorded information. As a simple matter of fact, it is the information that does the evolving. If there is no recorded information, then there is no Darwinian evolution. And there can be no recorded information without the existence of specific material conditions. These material conditions are unique among material processes. Darwinian evolution cannot be the source of these conditions, because it (itself) is entirely dependent upon them. To say otherwise is to say that a thing that does not exist can cause something to happen. Let me ask you a question: Do you think a thing that does not exist can cause something to happen? Upright BiPed
UBP (151):
You don’t think that life forms being able to descend with modification affects the way we look at them from a processes point of view?
It’s a non-sequitur. You’ve lost your place. The question is about the existence of living things on earth, and what that existence entails. Your objection was that you wanted “independent” evidence for the existence of a designer. I returned that the evidence we have is purely material, just exactly like any other we have for anything else in the deep past, and it is therefore is just as valid. You disagreed because living things replicate, and you’ve now added the “process” of evolution. But the fact that living things evolve by a process does not explain their existence in the first place – no more than the process of combustion explains the existence of your car.
No but the fact that there is descent with modification implies that looking at modern lifeforms without considering the fossil, genetic, morphologic and geographic records means you have to be very, very cautious about claiming their origin is due to design. You are really convinced that not knowing the nature of the first basic replicator chops down the whole Darwinian tree. I've said before that the first basic replicator could have ridden to earth on an asteroid or fallen out of an ancient astronauts lunch box. It doesn't change the evolutionary argument. Nor does it explain the initial replicator. You seem determined to accept no conclusion other than design. Are you sure you're not biased?
The simple fact remains that we have material evidence that points to a material event in the deep past (the onset of recorded information at the origin of life) and that event dictates the sufficient and necessary condition of recorded information, which intractably infers the act of an agent.
I disagree. I think at the very least you have to say: we don't know. But you are very sure and that makes me very suspicious.
I understand perfectly what you are saying, and I have understood you from the first time you said it. However, what I am saying is that Darwinian evolution explains nothing whatsoever about the existence of life, and I have made it perfectly clear that you rely on the fact of evolution (i.e. that things change over time) as the intellectual means to ignore the larger issue that Darwinian evolution does nothing whatsoever to explain the existence of life – the very thing that needs to be explained (i.e. the ID thing which you deny).
Why don't you just say the origins of life if that's what you mean? And if that's not what you mean then you'd better explain yourself more fully 'cause then I think I'm missing something. I'm not denying anything. I just don't find the need to bring in any 'causes' other than those natural, undirected processes we have observed and measured and defined already.
Not in the slightest. First off, DNA is not a “maybe class” of evidence; it is a concrete reality that is the distinction between living things and inanimate matter. Secondly, the information recorded in DNA requires very special and unique material conditions in order to exist (and function), which none of the things on your list even begins to explain.
I think the evolutionary paradigm explains the 'information' in DNA nicely. The environmental pressures 'favour' certain life forms or DNA sequences, those 'favoured' individuals leave proportionally more offspring thereby shifting the allele balance in the population and this process continues. Eventually you have life forms which have been 'tailored' to suit the environment and the 'information' in their DNA contains instructions on how to build a well-adapted life form for that environment. Cumulative selection acting on random variation. Powerful stuff.
It’s rather simple, actually. You come here to deride ID while hiding behind a process which cannot even exist without the evidence which supports ID, and consequently your process does nothing whatsoever to impact it. When you say you came here to find out what ID people think, is this not what you wanted to hear?
That is simply not true. I have not come here to deride ID. I have tried to be respectful and behave in an objective manner. I have not called names or made fun of anyone unlike some of the UD commentators it has to be said. I get asked questions and so I try and answer them. If you feel my answers deride ID then that is your interpretation.
No need to answer, I will drop out from the conversation, given that evidence for ID does not matter anyway. -best regards
That is your call. I don't think we have to agree to understand each other's opinions. I don't expect to convert anyone. But I keep getting the feeling that my not being converted to the ID point of view is offensive in some way. Why do you think that is? Jerad
CentralScrutinizer (150):
You guys see little micro changes in genomes and their small effects and somehow in your thinking this is catapulted across all the huge gaps into an “explanation” for the creation of novel cell types, tissue types, organs and body plans. I cry foul.
As is your right, even if you do not hold yourself to the same criteria. But I do have the fossil, genetic, morphologic, geographic and breeding records to back me up. I do not know your particular flavour of ID but does it exhibit the same level of detail and explanation you are asking of the modern evolutionary synthesis?
Show us how the known processes can generate novel cell types, tissue types, organs and body plans. Prove your concept to the scale you claim.
I do not claim to be able to elucidate the exact molecular pathway that occurred to produce any modern life form. But I've got a lot of consistent and coherent evidence which points in that direction. Does your hypothesis generate answers to the questions you ask? Is it fair to ask you questions about how, when and where the designers did their work? I'm always told it's not cricket yet I get asked even more specific questions.
P.S. please demonstrate that even the known types of genomic variation existed 500 millions years ago.
Without assuming uniformity you can't really 'do' historical science. If you throw away that assumption then everything is unknown and nothing can be established. You might as well go back to multiple gods and their local shrines. Jerad
Jerad,
You don’t think that life forms being able to descend with modification affects the way we look at them from a processes point of view?
It’s a non-sequitur. You’ve lost your place. The question is about the existence of living things on earth, and what that existence entails. Your objection was that you wanted “independent” evidence for the existence of a designer. I returned that the evidence we have is purely material, just exactly like any other we have for anything else in the deep past, and it is therefore is just as valid. You disagreed because living things replicate, and you’ve now added the "process" of evolution. But the fact that living things evolve by a process does not explain their existence in the first place - no more than the process of combustion explains the existence of your car. The simple fact remains that we have material evidence that points to a material event in the deep past (the onset of recorded information at the origin of life) and that event dictates the sufficient and necessary condition of recorded information, which intractably infers the act of an agent.
Wow.
Your feigned indignation doesn’t impact the evidence.
Okay, how about I change my statement to universal common descent with modification explains the development of life since the first basic replicator? Is that better? I kind of figure you know what I mean since I’ve said the same thing many, many times.
I understand perfectly what you are saying, and I have understood you from the first time you said it. However, what I am saying is that Darwinian evolution explains nothing whatsoever about the existence of life, and I have made it perfectly clear that you rely on the fact of evolution (i.e. that things change over time) as the intellectual means to ignore the larger issue that Darwinian evolution does nothing whatsoever to explain the existence of life - the very thing that needs to be explained (i.e. the ID thing which you deny).
The ‘one class’ of evidence I was referring to was DNA. I hope my changed statement above addresses your list of ‘do not explain’s.
Not in the slightest. First off, DNA is not a “maybe class” of evidence; it is a concrete reality that is the distinction between living things and inanimate matter. Secondly, the information recorded in DNA requires very special and unique material conditions in order to exist (and function), which none of the things on your list even begins to explain.
I shall attempt to be more specific in the future regarding what I think evolutionary theory explains. If you find my position so derisible why are you arguing with me?
It’s rather simple, actually. You come here to deride ID while hiding behind a process which cannot even exist without the evidence which supports ID, and consequently your process does nothing whatsoever to impact it. When you say you came here to find out what ID people think, is this not what you wanted to hear? No need to answer, I will drop out from the conversation, given that evidence for ID does not matter anyway. -best regards Upright BiPed
Jared:Okay, how about I change my statement to universal common descent with modification explains the development of life since the first basic replicator?
What does it "explain" exactly? As an engineer I find the way Darwinists (i.e, believers in the Blind Watchmaker Thesis) throw around the term "explain" to be very puzzling. It's kind of like this: Let's say we visit a factory where pottery is being made. Raw materials go in the front door, and we can see how the humans mold, form, and bake the pottery. The finished product goes out the back door. Now, we come across a factory that makes airplanes. We have no access to the inside of the factory. We see raw materials go in the front door and finished products go out the backdoor. We don't know exactly what is going on inside, but by extrapolation we feel confident that what is going on inside the airplane factory is essentially an extension of the same process as what is going on in the pottery factory. Yeah right. You guys see little micro changes in genomes and their small effects and somehow in your thinking this is catapulted across all the huge gaps into an "explanation" for the creation of novel cell types, tissue types, organs and body plans. I cry foul. Show us how the known processes can generate novel cell types, tissue types, organs and body plans. Prove your concept to the scale you claim. P.S. please demonstrate that even the known types of genomic variation existed 500 millions years ago. CentralScrutinizer
UBP (146):
They change and evolve on their own whereas non-living things will be substantially the same as they were when last modified by an intelligent cause.
This says nothing, and answers nothing. Our knowledge of material applies just as much to one as the other, and are just as valid.
You don't think that life forms being able to descend with modification affects the way we look at them from a processes point of view? Wow.
Darwinian theory only hypothesises the first basic replicator. The rest comes from universal common descent with modification.
Exactly what I said. Darwinian evolution simple assumes life, and therefore it is not an explanation of it. So your statement that Darwinian evolution explains life is 100% incorrect. Period.
Okay, how about I change my statement to universal common descent with modification explains the development of life since the first basic replicator? Is that better? I kind of figure you know what I mean since I've said the same thing many, many times.
lol. Darwinian evolution does not explain the existence of life. Do you not understand this? Fossils do not explain the existence of life. Genetics do not explain the existence of life. Morphology does not explain the existence of life. Geographic distributions do not explain the existence of life. Your case (that Darwinian evolution explains life on earth) in not made one iota stronger. Simply chanting a list of things that have no impact whatsoever on your claim does nothing to make that claim stronger, or even valid. Is it even possible that you not understand this? Ah yes, and I love how you say “not just one maybe class of evidence’. Are you perhaps referring to that one little bitty observation that nothing happens without the recorded information which Darwinian evolution is 100% dependent upon? Did I mention that you demonstrate a great deal of confirmation bias?
Most humans do exhibit at least some confirmation bias. It's hard to avoid. The 'one class' of evidence I was referring to was DNA. I hope my changed statement above addresses your list of 'do not explain's.
This isn’t a disagreement – you’ve brought nothing to the table. You first state that Darwinian evolution explains Life on Earth (which Darwin himself disagreed with), then to support your claim, you repeat a list of items which offer no explanation for the existence of Life on Earth. And all the while, you disregard evidence which bring this flaw in your position to light. As a simple observation of your words, you live in a self-sustained, self-affirming, self-isolating cocoon.
I shall attempt to be more specific in the future regarding what I think evolutionary theory explains. If you find my position so derisible why are you arguing with me? Jerad
Joe (142):
The fossil evidence has fish->tetrapods-> fish-a-pods. THAT does not support universal common descent. Also breeding demonstrates severe limits to the phenotypic plasticity that organisms have. Heck your position can’t even get past prokaryotes without relying on some magical endosymbiosis. So please, stop with your lies already.
Well, there are other opinions. I'm surprised you bother talking to me anymore if I'm that off. Jerad
KF (141):
1: We have never observed the origin of significant features by chance variation and natural selection that would suggest the possibilities of body plan origin by same.
And you call me a hyper-skeptic! The fossil, genetic, morphologic, geographic and breeding data all points to it being able to happen.
2: We are not given the first replicator. That is the pivotal challenge that decisively exposes the emptiness of the chance hyp. By now you know there is no credible, empirically well grounded theory of OOL driven by chance and necessity. So you are begging the question of the root of the tree of life.
Well then you'd best argue with someone else. I think that all the lines of data point to a common first replicator.
3: You have no empirical evidence that accumulated errors filtered by differential reproductive success in light of chance and environmental constraints, can originate novel body plans. This too is a hugely begged question that has no shown adequate cause.
Sure I do; I've got the fossil, genetic, morphologic, geographic and breeding data which all points to that happening. Is there an echo in here?
4: By substituting breeding, you make multiple errors. First, Breeding is mostly about reshuffling already existing genetic capacities and moving to extremes within an existing genome, so it is well known that breeding exercises frequently hit hard limits beyond which the variety will not go. Next, it is an exercise in ARTIFICIAL selection, i.e. intelligent design. And to see whether it passes the environmental fitness advantage test, observe that such domestic varieties typically cannot compete against wild ones in natural environments. Think, crops vs weeds etc.
Artificial selection works with the same basic raw materials and processes as natural selection. It's going to be faster but it shows that cumulatie selection operating on descent with variation can radically alter morphology. Dog breeds, brassicas, rose varieties all show what can be done in just a few centuries. Rutabaga, turnips, kohlrabi, cabbage, kale, cauliflower, broccoli and Brussel sprouts were all cultivated from the same wild plant stock mostly in the last 1000 years. There's some pretty impressive 'body plan' changes in that group.
Overall, you are highlighting the gaps in not the achievements of your view.
Just out of curiosity . . if my position is so week why do you continue to argue with me? Jerad
Jerad,
UB: Uh, okay. What principle is at work to say that because living things have the property of Life, the application of our knowledge regarding material regularities and processes are subsequently invalid? Jerad: They change and evolve on their own whereas non-living things will be substantially the same as they were when last modified by an intelligent cause.
This says nothing, and answers nothing. Our knowledge of material applies just as much to one as the other, and are just as valid.
UB: You must be joking, right? Evolutionary theory offers absolutely no explanation whatsoever for the existence of life on Earth. What in the world makes you think otherwise? Frankly, you seem to be completely unaware of the data. Darwin himself assumed life, and Darwinist (a term I rarely use) have been assuming life ever since. Hello? Jerad: Darwinian theory only hypothesises the first basic replicator. The rest comes from universal common descent with modification.
Exactly what I said. Darwinian evolution simple assumes life, and therefore it is not an explanation of it. So your statement that Darwinian evolution explains life is 100% incorrect. Period.
UB: <Your blind spot is, ahem, large. In virtually the same way in which you previously stepped over your demonstrated confirmation bias, you now simply want to step over your assumptions. So let’s be clear. You point to the ID advocate and say “you believe in a thing which you have no evidence exist” and then you turn right around and believe in a thing which you have no evidence exist. Understand? Jerad: Except universal common descent with modification has several lines of evidence which all point to a common ancestor. Not just one maybe class of evidence. Fossils + genetics + morphology + geographic distributions. The case is much stronger.
lol. Darwinian evolution does not explain the existence of life. Do you not understand this? Fossils do not explain the existence of life. Genetics do not explain the existence of life. Morphology does not explain the existence of life. Geographic distributions do not explain the existence of life. Your case (that Darwinian evolution explains life on earth) in not made one iota stronger. Simply chanting a list of things that have no impact whatsoever on your claim does nothing to make that claim stronger, or even valid. Is it even possible that you not understand this? Ah yes, and I love how you say “not just one maybe class of evidence’. Are you perhaps referring to that one little bitty observation that nothing happens without the recorded information which Darwinian evolution is 100% dependent upon? Did I mention that you demonstrate a great deal of confirmation bias? :)
We’ve observed in the lab how mutations in DNA lead to new features/abilities. Given the first basic replicator and knowing there’d be mutations/copying errors/duplications/etc we can get the variety of life we see now. We have centuries of breeding experience that shows cumulative selection working on a base of mutational variation can introduce great changes in appearance and abilities.
Once again, none of this even begins to explain the existence of life. It simply assumes life, but offers nothing whatsoever to explain its existence. Give it a rest already.
UB: The distinction between us, of course, is that I have material evidence (confirmed as both a universal empirical observation as well as a logical necessity) which intractably demonstrates the artifact of an agent … while you have nothing of the kind. Jerad: Guess we’ll just have to disagree then!!
This isn’t a disagreement – you’ve brought nothing to the table. You first state that Darwinian evolution explains Life on Earth (which Darwin himself disagreed with), then to support your claim, you repeat a list of items which offer no explanation for the existence of Life on Earth. And all the while, you disregard evidence which bring this flaw in your position to light. As a simple observation of your words, you live in a self-sustained, self-affirming, self-isolating cocoon.
OH YES, I’d forgotten about that thread!! DUH!
Exhibit A. Upright BiPed
keiths is still clueless:
My contention is that unguided evolution, proceeding via gradual change and predominantly vertical inheritance, predicts an objective nested hierarchy, but that ID (including common descent via guided evolution) does not — unless we add arbitrary, unjustified, ad hoc assumptions to the ID hypothesis.
We do NOT observe an objective nested hierarchy with single-celled organisms. You lose. Joe
toronto:
ID can’t be refuted because it has made no claims of its own.
Your ignorance doesn't mean anything, toronto. And strange that scientists are not only trying to refute ID but some have incorrectly claimed to have refuted it. You can't have it both ways- you can't say it cannot be refuted then say BTW we refuted it. IDists have said how to test and falsify our claims. And all you can do is choke on it. Life is good... Joe
Alan Fox:
In relation to ID, what does the hypothesis “therefore design” actually explain?
It explains that the thing in question arose via agency involvement. And that alone changes the investigation. IOW it makes a huge difference, Alan. And if you had any investigative experience you would have known that. That said, what does the hypothesis "it just happened" (your position, Alan) actually explain? Ya see Alan, unlike your position, ID actually makes testable claims. Joe
Jerad, The fossil evidence has fish->tetrapods-> fish-a-pods. THAT does not support universal common descent. Also breeding demonstrates severe limits to the phenotypic plasticity that organisms have. Heck your position can't even get past prokaryotes without relying on some magical endosymbiosis. So please, stop with your lies already. Joe
jerad: Do you really mean this?
We’ve observed in the lab how mutations in DNA lead to new features/abilities. Given the first basic replicator and knowing there’d be mutations/copying errors/duplications/etc we can get the variety of life we see now. We have centuries of breeding experience that shows cumulative selection working on a base of mutational variation can introduce great changes in appearance and abilities.
1: We have never observed the origin of significant features by chance variation and natural selection that would suggest the possibilities of body plan origin by same. 2: We are not given the first replicator. That is the pivotal challenge that decisively exposes the emptiness of the chance hyp. By now you know there is no credible, empirically well grounded theory of OOL driven by chance and necessity. So you are begging the question of the root of the tree of life. 3: You have no empirical evidence that accumulated errors filtered by differential reproductive success in light of chance and environmental constraints, can originate novel body plans. This too is a hugely begged question that has no shown adequate cause. 4: By substituting breeding, you make multiple errors. First, Breeding is mostly about reshuffling already existing genetic capacities and moving to extremes within an existing genome, so it is well known that breeding exercises frequently hit hard limits beyond which the variety will not go. Next, it is an exercise in ARTIFICIAL selection, i.e. intelligent design. And to see whether it passes the environmental fitness advantage test, observe that such domestic varieties typically cannot compete against wild ones in natural environments. Think, crops vs weeds etc. Overall, you are highlighting the gaps in not the achievements of your view. KF kairosfocus
UBP (139):
Uh, okay. What principle is at work to say that because living things have the property of Life, the application of our knowledge regarding material regularities and processes are subsequently invalid?
They change and evolve on their own whereas non-living things will be substantially the same as they were when last modified by an intelligent cause.
You must be joking, right? Evolutionary theory offers absolutely no explanation whatsoever for the existence of life on Earth. What in the world makes you think otherwise? Frankly, you seem to be completely unaware of the data. Darwin himself assumed life, and Darwinist (a term I rarely use) have been assuming life ever since. Hello?
Darwinian theory only hypothesises the first basic replicator. The rest comes from universal common descent with modification.
Your blind spot is, ahem, large. In virtually the same way in which you previously stepped over your demonstrated confirmation bias, you now simply want to step over your assumptions. So let’s be clear. You point to the ID advocate and say “you believe in a thing which you have no evidence exist” and then you turn right around and believe in a thing which you have no evidence exist. Understand?
Except universal common descent with modification has several lines of evidence which all point to a common ancestor. Not just one maybe class of evidence. Fossils + genetics + morphology + geographic distributions. The case is much stronger.
You have absolutely no process or mechanism to point to as the cause of the necessary symbol system or the biological information which is required to organize a living thing. You believe in a thing that you have no evidence exists.
We've observed in the lab how mutations in DNA lead to new features/abilities. Given the first basic replicator and knowing there'd be mutations/copying errors/duplications/etc we can get the variety of life we see now. We have centuries of breeding experience that shows cumulative selection working on a base of mutational variation can introduce great changes in appearance and abilities.
The distinction between us, of course, is that I have material evidence (confirmed as both a universal empirical observation as well as a logical necessity) which intractably demonstrates the artifact of an agent … while you have nothing of the kind.
Guess we'll just have to disagree then!!
I have. And I am willing to defend it.
OH YES, I'd forgotten about that thread!! DUH! :-) Jerad
Jerad,
But you assert and ancient designer based on the evidence of living forms several hundred times descendents of what you are claimed was designed. This is not analogous to material remains like hearths or pots or spears or ruins or bodies.
Uh, okay. What principle is at work to say that because living things have the property of Life, the application of our knowledge regarding material regularities and processes are subsequently invalid?
Evolutionary theory offers an explanation for life on earth which explains the data, is consistent with other branches of science and which involves no special pleading or assumption of anything other than observed natural forces.
You must be joking, right? Evolutionary theory offers absolutely no explanation whatsoever for the existence of life on Earth. What in the world makes you think otherwise? Frankly, you seem to be completely unaware of the data. Darwin himself assumed life, and Darwinist (a term I rarely use) have been assuming life ever since. Hello?
Id wants to infer a cause not proven to be in existence at the time in question.
Your blind spot is, ahem, large. In virtually the same way in which you previously stepped over your demonstrated confirmation bias, you now simply want to step over your assumptions. So let’s be clear. You point to the ID advocate and say “you believe in a thing which you have no evidence exist” and then you turn right around and believe in a thing which you have no evidence exist. Understand? You have absolutely no process or mechanism to point to as the cause of the necessary symbol system or the biological information which is required to organize a living thing. You believe in a thing that you have no evidence exists. The distinction between us, of course, is that I have material evidence (confirmed as both a universal empirical observation as well as a logical necessity) which intractably demonstrates the artifact of an agent … while you have nothing of the kind.
If you’ve got a hypothesis then why not offer it up?
I have. And I am willing to defend it. Upright BiPed
UBP (133):
We know of ancient peoples because of material things. Nothing else. ID is no different.
But you assert and ancient designer based on the evidence of living forms several hundred times descendents of what you are claimed was designed. This is not analogous to material remains like hearths or pots or spears or ruins or bodies.
Again, you have no material evidence to refute the (sufficient and necessary) system of recorded biological information which is being offered to you as a material artifact of design. Recorded information doesn’t just happen, it requires specific material conditions which must be met in order for it to exist.
Yes, fossils must be in the right place at the right time to get made into fossils. Evolutionary theory offers an explanation for life on earth which explains the data, is consistent with other branches of science and which involves no special pleading or assumption of anything other than observed natural forces. Id wants to infer a cause not proven to be in existence at the time in question.
This is almost a shameless non-sequitur. The topic being discussed was ‘recorded information arising from inanimate matter’. Not archaeological sites.
I can see where I got that wrong. In which case I would refer to the stratigraphic data recorded in geologic layers, ice and sediment cores and geologic processes like plate tectonics.
Each time I have tried to engage you, you have immediately stated that you consider all OoL issues a mystery and prefer only to talk about other things. It is disingenuous to say otherwise. If you have changed your mind, then you know the thread here and you are welcome to participate.
I have not said they are a mystery, only that I don't understand the issues. There is a difference and you are miscatagorizing my comments. And it's pretty silly for you to be refusing to offer your opinion just because I'm holding back. If you've got a hypothesis then why not offer it up? I find that it happens a lot when I ask ID proponents for their ideas or notions they pull back and find some reason not to offer them up. And, really, what difference does it make what my opinion is? You're not going to put your view forward because of what I do or do not think? Is that the way science progresses? Oh gosh, I'll tell you my view but you have to go first? Really? I don't think so. I DON'T KNOW how the first basic replicator arose on earth. But what that has to do with anyone else offering their opinion I can't say or begin to understand.
Justifying your actions thusly does little to change the practical result; which in my estimation has been little more than a demonstration of confirmation bias. I am unsure how you can reduce rancor by ignoring the evidence presented by your conversation partners. It’s rather surprising that you think those actions would be successful.
Since I don't think I have ignored any issues or data are you saying that I should just quit if I don't agree with you? Do you not allow for a dissenting viewpoint that doesn't include design? Do I have to agree with you to build a better dialogue? Jerad
Mung (132):
You just keep repeating your assertions without engaging the arguments against them. How do we know they were ancient human species? By the designed artifacts they left behind.
Mung if you are really drawing into question the existence of ancient human species like Home erectus and Neanderthals then I think it would be best to stop even having a conversation. If that's your position then I do not understand your criteria for evidence. As something that can be applied in any meaningful way to historic sciences. Are you confused with my use of the tern human species? It's a way of referring to species in the genus Homo. __________ Jerad, I think you need to look again. The issue is, how are you inferring to the activity of such, but by inferring on signs from their traces in light of observed causal factors and their signs. In short, Mung and I think others are challenging you to look at cases you accept and then think about why you reject materially similar cases that do not fit the scheme you have accepted. I raised this in the respect of geochronology for instance, where you obviously accept inferences on far less reliable sign that those relating to design such as FSCO/I KF Jerad
Mung (131): Doing this for the second time since the website spit up blood the first time:
This has been asked and answered. If you like I’ll even find the link to where it was answered, if that will help.
Yes please since I don't recall the answer.
But to answer your question, again, I cannot tell if keiths was right or not because he contradicted himself. In one breath he says we have to know that something could not possibly [please assign the probability] have evolved in order to infer design. Then he says P(H) is very low, but not 0. Now if he says that what he meant to say was not that it was not possible [what's the probability on that, again, just for the record], just very unlikely, I think we can say he corrected himself. Do you consider that a retraction of his first statement? As far as I know he never retracted it, he merely said he didn’t mean what he said (I guess you could call that a retraction.)
I think he was very consistent all the way through. I think he never said P(H) = 0 as you claimed. I think he said P(T|H) had to be low based on Dr Dembski's criteria. And this is an essential point: keiths was just trying to explain Dr Dembski's position. What he and I found particularly galling was that you were complaining about us trying to explain what Dr Dembski was saying. When it seemed that you were arguing based on what you THOUGHT Dr Dembski said but not what he actually said.
But if he corrected or retracted his statement, I think it’s safe to say he was wrong. Don’t you?
But he didn't retract or correct his statements nor did he need to.. _____ Jerad, Mung has said he is gone for a few days; we do know that he earlier reported he was on vacation. I am busy with issues over aircraft and access policy etc intensified and polarised by the case of a fatal crash, and not at all of my choice or desire. Multiplied by issues over development policy trajectories, capacity building and project cycle management, and more. So, I do not have time to track down specific posts, but I can state that in looking some days back at threads where the exchange was in focus, I saw where Mung made a case that KS stated something that did imply that design theory as a premise demands that p(H) = 0 [blind chance/necessity -- remember, high contingency comes form chance/choice, and necessity is going to lead to regularities not wide variation under similar start points, think F = m*a etc -- is impossible as an explanation], in an attempt to critique Dembski. Whilst KS also had to admit or imply that Dembski was looking at config space analyses that imply extremely low probabilities on blind chance plus mechanical necessity. Where also, you need to realise that you and others have side tracked discussion to long since poisoned debates over Dembski's formulations of general models, when we have all along had on the table a simpler framework that returns us tot he starting issues in NFL, and which is directly testable. Where if the expression Chi_500 = I*S - 500 bits beyond the threshold, is such that if you have a good empirical counter example counter example that is valid, the whole construct of not only FSCO/I but also with it CSI wold collapse as a sign of design. The consistent side tracking goes strongly to show that you do not have such empirical counter examples in the teeth of billions of test cases that show that the criterion is a reliable sign. So, the test of FSCO/I is quite specific, an empirically reliable tested sign of design. KF. Jerad
I'll be taking a break for a few days. Give someone else a chance to be heard ;) best wishes to all Mung
Mung (131): If you did address the issue after all the discussing then I truly apologise for picking on you about it. So, yeah, I think you'd better give me the link 'cause I can't remember. I can be very annoying just out of spite but that wasn't the case this time. I really don't remember what your conclusion was. Just got a minute so pardon my brevity but, no, I thought what keiths said was correct. I DID somewhat misinterpret what he said but he and I both agreed he was NOT saying P(H) = 0. If you still disagree then we can leave it there. There's no need to have the same discussion again. I just was trying to be sure and, again, if I missed something then I do apologise. More later . . . I'll look over your points more closely. No time at the minute. Jerad
Jerad, Your response failed to address the confirmation bias in your previous post; where you first said you were ignorant of evidence, then suddenly knew enough to reject that evidence, then submitted your own conclusions instead. - - - - - - - - - - - - - -
Something other than that which you are asserting was designed. As we find with ancient human species.
We know of ancient peoples because of material things. Nothing else. ID is no different.
Oh gosh no, that would be ridiculous. I’m talking about something like archaeological evidence.
Again, you have no material evidence to refute the (sufficient and necessary) system of recorded biological information which is being offered to you as a material artifact of design. Recorded information doesn't just happen, it requires specific material conditions which must be met in order for it to exist.
UB: You have admitted to placing your belief in recorded information arising from inanimate matter (by some unknown process). But have you seen it? If not, then on what do you place your belief? Jerad: I’ve seen a lot yes. And I’ve found some. And I know lots of archaeologists. And a few paleontologists. And I’ve read a lot about ancient sites. Most of the evidence found on such sites is available for scrutiny by other researchers. Much is on public display. I am also aware of how various dating techniques work, what their limitations and strengths are.
This is almost a shameless non-sequitur. The topic being discussed was 'recorded information arising from inanimate matter'. Not archaeological sites.
I thought I was engaging? I would very much like to hear what supports your belief.
Each time I have tried to engage you, you have immediately stated that you consider all OoL issues a mystery and prefer only to talk about other things. It is disingenuous to say otherwise. If you have changed your mind, then you know the thread here and you are welcome to participate.
Initially I came to UD to find out what ID proponents were thinking. I seem to have fallen into the token Darwinist slot as I find myself answering many more questions than I ask now. I think if we understand each other then we can work towards a future with more cordial discussions. I think the whole issue is imbibed with too much rancour and ill feelings. So I’d like to try and help that situation.
Justifying your actions thusly does little to change the practical result; which in my estimation has been little more than a demonstration of confirmation bias. I am unsure how you can reduce rancor by ignoring the evidence presented by your conversation partners. It's rather surprising that you think those actions would be successful. Upright BiPed
Jerad:
Something other than that which you are asserting was designed. As we find with ancient human species.
You just keep repeating your assertions without engaging the arguments against them. How do we know they were ancient human species? By the designed artifacts they left behind. Mung
Jerad:
Was keiths right about P(H) or not? If you answer I’ll shut up about it.
This has been asked and answered. If you like I'll even find the link to where it was answered, if that will help. But to answer your question, again, I cannot tell if keiths was right or not because he contradicted himself. In one breath he says we have to know that something could not possibly [please assign the probability] have evolved in order to infer design. Then he says P(H) is very low, but not 0. Now if he says that what he meant to say was not that it was not possible [what's the probability on that, again, just for the record], just very unlikely, I think we can say he corrected himself. Do you consider that a retraction of his first statement? As far as I know he never retracted it, he merely said he didn't mean what he said (I guess you could call that a retraction.) But if he corrected or retracted his statement, I think it's safe to say he was wrong. Don't you? Mung
UBP (129):
Again, the evidence is material, so I am not certain what being “independent” of that would hope to mean.
Something other than that which you are asserting was designed. As we find with ancient human species.
If you are talking about having to see the designer with my own two eyes, then I would ask you the same.
Oh gosh no, that would be ridiculous. I'm talking about something like archaeological evidence.
You have admitted to placing your belief in recorded information arising from inanimate matter (by some unknown process). But have you seen it? If not, then on what do you place your belief?
I've seen a lot yes. And I've found some. And I know lots of archaeologists. And a few paleontologists. And I've read a lot about ancient sites. Most of the evidence found on such sites is available for scrutiny by other researchers. Much is on public display. I am also aware of how various dating techniques work, what their limitations and strengths are.
I can very easily and coherently tell you exactly what supports mine, but as already discussed, you refuse to engage in that. But the question is not why you refuse to engage.
I thought I was engaging? I would very much like to hear what supports your belief.
The question is why you continue to engage in not engaging. Why are you here to only talk about what doesn’t hinder you belief system? What purpose does that serve?
Initially I came to UD to find out what ID proponents were thinking. I seem to have fallen into the token Darwinist slot as I find myself answering many more questions than I ask now. I think if we understand each other then we can work towards a future with more cordial discussions. I think the whole issue is imbibed with too much rancour and ill feelings. So I'd like to try and help that situation. Jerad
I have only refused to enter into discussions of OoL issues because of my own ignorance about the chemistry and hypothesis already put forward.
I reject the idea that the physical evidence supports an alternate theory.
I have said before that the first basic replicator could have arrived via a meteor.
A clearer case of confirmation bias would be hard to imagine.
And, I would like to point out that there is no coherent laid out alternate ‘theory’.
It would be easy to goad you into debating the validity of this comment, but we've already been there. So what's the point in it? There is none.
Why are you so willing to give up on natural processes and accept that there was some ancient designer
This is about material evidence, not wishes. 'Willingness to give up on natural processes' has nothing to do with it.
a) there’s no independent evidence of one and b) we’ve only been looking for less than 60 years?
Again, the evidence is material, so I am not certain what being "independent" of that would hope to mean. If you are talking about having to see the designer with my own two eyes, then I would ask you the same. You have admitted to placing your belief in recorded information arising from inanimate matter (by some unknown process). But have you seen it? If not, then on what do you place your belief? I can very easily and coherently tell you exactly what supports mine, but as already discussed, you refuse to engage in that. But the question is not why you refuse to engage. The question is why you continue to engage in not engaging. Why are you here to only talk about what doesn't hinder you belief system? What purpose does that serve? Upright BiPed
Mung (126):
From red herring to ad hominem. This is what people do when they have given up on reason.
Was keiths right about P(H) or not? If you answer I'll shut up about it. (127):
I’m in the vast majority on this.
You should be skeptical about that. And yet another logical fallacy: argumentum ad populum.
I agree, it's a logical fallacy to use that as an argument. I was merely pointing it out. In my mind if the vast majority of scientists who have worked in any field association with evolutionary theory have come to a similar conclusion then there's a fair bet it's correct. But, not necessarily, I agree. Jerad
Jerad:
I’m in the vast majority on this.
You should be skeptical about that. And yet another logical fallacy: argumentum ad populum. Mung
Jerad:
By not apologising he’s appearing to be petulant and petty.
From red herring to ad hominem. This is what people do when they have given up on reason. Mung
UBP (123):
Let us not forget when it comes to physical evidence, you have refused to engage in arguments which you do not consider “settled”.
I have only refused to enter into discussions of OoL issues because of my own ignorance about the chemistry and hypothesis already put forward.
By settled, it is meant: already found to comport (or substantially comport) to your belief system. The origin of information is such a case. If the origin of information is not found to substantially (or arguably) comport to your belief system, then you dismiss it as an OoL mystery which you will not engage in. Consequently, you give yourself an intellectual pass on the subject, without allowing yourself to admit that the physical evidence actually supports an alternate theory. You have no material basis to deny that we may already have the data required to produce a valid claim on the matter. Instead, you derive an unsupported conclusion despite that evidence. This is referred to as ‘selective confirmation bias’. Or are you now agnostic on the matter?
I believe the physical evidence points to a first basic replicator and that after that you've got universal common descent with modification. And I have said before that the first basic replicator could have arrived via a meteor. It could have fallen out of an alien astronaut's lunch bag. Maybe some time travelling human dropped it by accident. I think it's most likely we will eventually find a plausible natural development path but I can't deny the other possibilities. I reject the idea that the physical evidence supports an alternate theory. And, I would like to point out that there is no coherent laid out alternate 'theory'. People in the ID community don't even agree on that. Why are you so willing to give up on natural processes and accept that there was some ancient designer when a) there's no independent evidence of one and b) we've only been looking for less than 60 years? (Taking the discovery of DNA and the beginning of the real ability to search for the first basic replicator.) Jerad
worth repeating
In short, you need to realize that skepticism, contrary to much modern self-congratulation, is not an intellectual virtue.
Mung
...doesn’t mean I haven’t looked at and considered everything.
Let us not forget when it comes to physical evidence, you have refused to engage in arguments which you do not consider "settled". By settled, it is meant: already found to comport (or substantially comport) to your belief system. The origin of information is such a case. If the origin of information is not found to substantially (or arguably) comport to your belief system, then you dismiss it as an OoL mystery which you will not engage in. Consequently, you give yourself an intellectual pass on the subject, without allowing yourself to admit that the physical evidence actually supports an alternate theory. You have no material basis to deny that we may already have the data required to produce a valid claim on the matter. Instead, you derive an unsupported conclusion despite that evidence. This is referred to as 'selective confirmation bias'. Or are you now agnostic on the matter? Upright BiPed
Alan (121):
You say and “believe” there is no evidence, but I do think it is obvious you have not looked for it very hard.
Well, you don't know what journey I have been down in my life and I'm not prepared to discuss it with some stranger on a forum. Just because I disagree with you doesn't mean I haven't looked at and considered everything. Let's just talk about ID vs universal common descent with modification and the evidence therein. Jerad
JERAD and company: You have the ability to justify "hyper" skepticism - consider it a gift. Your "position" provides insight into the inability of the natural man (NM) to "see" and provides insight in the free will issue also - dispute the vase evidence for a designer / the NM is not only unable to see he is unwilling to see = definition of NM = nature of the Sin nature = can't and won't choose God (THE Proven one) / You say and "believe" there is no evidence, but I do think it is obvious you have not looked for it very hard. So - question to all: Is it reasonable to believe that if one takes a serious look at fulfilled prophecy (= Proof of a mind beyond space and time), cosmological constants, design inference, cause then result laws etc. (natural proofs - from the creation we "see" the Creator) that there is not only no evidence of a Designer, there is ABSOLUTE PROOF of one? Is it true that true belief is based on true objective reason? (+ Election re. Theology - different "level" than this discussion) alan
KF (119):
1: Show me the evidence and I’ll change my mind. On the evidence of having been repeatedly shown adequate evidence, sadly, it seems not.
The evidence for the presence of a designer aside from the 'objects' you assert were designed. You know what I mean!!
2: I just want Mung to apologise Mung will be able to handle his own issues, mine is that there is a talking point that says in effect there is a design assertion that chance is not a possible explanation.
But he's not handling it maturely at all. He's just ignoring the issue. You and he pointed to a new research paper you were interested in hearing my comments about. I read what was available and gave you my comments. And, I think, I was pretty honest in admitting that, on the face of it, there seemed to be a lot of support for your point of view. I didn't ignore the issue or decry the work or dismiss it as being misinterpreted. I'm trying to take the dialogue seriously and I just want everyone to be held to the same standard.
By the very nature of the case, OOL is not a matter of evolution by chance variation plus differential reproductive success. That you repeatedly miss this, is telling. It is about how we get from chemistry and physics in a warm little pond, or the like, to a gated, encapsulated metabolic automaton with a vNSR using code and homochiral informational polymers as implementing machines for coded algors and data structures. Until you account for this, you have no start point for the Darwinist three of life so evolutionary explanations are precluded from the outset. By the inherent nature of the case.
I have always admitted that I have no explanation for the generation of the first basic replicator. If you choose to use that as a reason to reject universal common descent with modification that's up to you. You keep implying that I'm missing the point when I've always, consistently addressed it honestly and truthfully.
Going further, we then see that what we have is a priori imposition of materialism, at worldview level, and as a methodological postulate, even in the definition of science — historically inaccurate and philosophically suspect — being taught to students and the general public. On thsoe a priori commitments, the evidence is then used to illustrate an a priori, sometimes seen as self evidently true, by those who do not realise that this is diagnostic of an imposed worldview level question-begging a priori.
Uh huh. Let's just stick to the science.
4: Evolutionary theory may fail but Intelligent Design would still have to prove [WARRANT] its case. I strike and replace to highlight the key problem here. we are dealing with an empirical matter, and with explaining on best empirically warranted explanation. We have a clear case that he only warranted explanation for FSCO/I is design, with billions of supportive cases and no clear counter examples. Repeated objections consistently turn out to be design behind the curtain of what is obvious.
Which do you think is the weaker term: prove or warrant? Billions of cases? Really? I don't think you get to count each event as a separate case. I think once you've brought up computer programs that just counts as one example. I think we're talking about classes of objects.
And, Thomas was properly rebuked for the precise reason of refusing to face adequate warrant and respond appropriately.
But he got his evidence. Nor was he really punished Not a great example for you really. I don't mind being rebuked, as long as I get the evidence.
6: skepticism [clear, well warranted thinking based on understanding induction, abduction, deduction and warrant of knowledge claims in a world of experience and limitations on what we can know, how certainly] is absolutely essential these days. What with all the dross and tripe foisted on us via the internet and scams and people willing to take our money just to line their own pockets. The strike and replace speaks for itself.
Sounds like a pretty good definition of skepticism to me!!
7: statements need to be fact checked The self appointed fact checkers need to be tested and the focus needs to shift to the gap between persuasion and warrant.
The whole point is to NOT have some central authority telling everyone else how to think or focus. Your suggestion smacks of authoritarianism.
I therefore insist that the known adequate cause of FSCO/I is a relevant explanation. That happens to be design.
You can insist all you want. Doesn't make it true. Or get people to agree with you. I'd look for some more evidence if I were you.
9: Life is complicated now. I haven’t got all the answers and I don’t trust someone who says they do. I have never claimed to have all the answers, nor have others who represent UD, so the suggestion is inappropriate. Especially as the precise reason why design theory does not claim to identify specific designers, is that there is not adequate evidence on the relevant signs to do so as a scientific inference. So design theory is much like the stage of investigations that identified arson not accident. Other techniques and tools will go on to establish whodunit.
I didn't mean to cast aspersions on you. I was just trying to justify my 'hyper'skepticism. I do think though if you're sure you've established the design inference then it's time to stop arguing about it and flesh out the hypothesis a bit more. AND look for more evidence to convince the critics.
PS: Had to wait to get where I could send, busy now.
No worries. Did the hurricane miss you altogether then? Sounds like Cuba is getting the brunt of it now. Jerad
Jerad: I am waiting on a bank, so I note: 1: Show me the evidence and I’ll change my mind. On the evidence of having been repeatedly shown adequate evidence, sadly, it seems not. 2: I just want Mung to apologise Mung will be able to handle his own issues, mine is that there is a talking point that says in effect there is a design assertion that chance is not a possible explanation. This, I underscore is not so, necessity, then chance are the successive defaults, defeated by first high contingency, then by high complexity joined to high specificity especially by function. 3: You don’t get a designer because evolutionary theory has not answered all the questions yet . . . . before you draw a comparison to evolutionary theory not having shown us explicitly all the answers I will just say that, at this point, it’s a much, much better model than any other alternative for reasons I’ve elucidated many, many times By the very nature of the case, OOL is not a matter of evolution by chance variation plus differential reproductive success. That you repeatedly miss this, is telling. It is about how we get from chemistry and physics in a warm little pond, or the like, to a gated, encapsulated metabolic automaton with a vNSR using code and homochiral informational polymers as implementing machines for coded algors and data structures. Until you account for this, you have no start point for the Darwinist three of life so evolutionary explanations are precluded from the outset. By the inherent nature of the case. That you are trying to suggest that you have answers to most questions and a bit of tidying up to do in the teeth of the repeated underscoring of this is telling. I repeat, the cell is chock full of FSCO/I. Its origin antedates evolutionary explanations, and has to address the gap between what blind chemistry and physics can do and the observed information based automaton. And, once we see that on good warrant design is a serious candidate and in fact best explanation at OOL, then the obvious point that common design is at least as good an explanation as common descent decisively shifts the weight of how we evaluate all across the world of life. Going further, we then see that what we have is a priori imposition of materialism, at worldview level, and as a methodological postulate, even in the definition of science -- historically inaccurate and philosophically suspect -- being taught to students and the general public. On those a priori commitments, the evidence is then used to illustrate an a priori, sometimes seen as self evidently true, by those who do not realise that this is diagnostic of an imposed worldview level question-begging a priori. Then, we see that there is simply no good evidence to warrant that body plan level origins is credibly a simple accumulation of micro changes, and that the fossil record we actually have as opposed to the one presented is one of sudden appearance, stasis and of mosaics rather than a dominant and obvious pattern of transitionals incrementing their way across the span of the tree of life. 4: Evolutionary theory may fail but Intelligent Design would still have to prove [WARRANT] its case. I strike and replace to highlight the key problem here. we are dealing with an empirical matter, and with explaining on best empirically warranted explanation. We have a clear case that he only warranted explanation for FSCO/I is design, with billions of supportive cases and no clear counter examples. Repeated objections consistently turn out to be design behind the curtain of what is obvious. 5: Extraordinary claims require extraordinary proof. [adequate warrant] Diagnostic of an underlying problem of selective hyperskepticism. And, Thomas was properly rebuked for the precise reason of refusing to face adequate warrant and respond appropriately. 6: skepticism [clear, well warranted thinking based on understanding induction, abduction, deduction and warrant of knowledge claims in a world of experience and limitations on what we can know, how certainly] is absolutely essential these days. What with all the dross and tripe foisted on us via the internet and scams and people willing to take our money just to line their own pockets. The strike and replace speaks for itself. 7: statements need to be fact checked The self appointed fact checkers need to be tested and the focus needs to shift to the gap between persuasion and warrant. 8: You are very, very skeptical of lots of things. You demand much more of evolutionary theory than you do of ID regarding proof of ability to deliver the goods. False. I simply ask that we recognise that we are seeking to scientifically investigate the remote, unobserved past. Accordingly I accept that the uniformity principle and explanation on signs in a context of inference to best explanation, are relevant. We are dealing with causal models so the first requisite is that traces of what happens in teh past must be explained relative to known reliably adequate causes. So, the demand is that the phenomena in the traces from the past have known, empirically reliable tested and observed causal explanations that are adequate to account for the effect. Chance variation and differential reproductive success etc are adequate to account for variations within and regulatory adaptations of a body plan. They do not have warrant to account for OOL or OO body plans. We observe that life from the cell up is chock full of FSCO/I. I therefore insist that the known adequate cause of FSCO/I is a relevant explanation. That happens to be design. 9: Life is complicated now. I haven’t got all the answers and I don’t trust someone who says they do. I have never claimed to have all the answers, nor have others who represent UD, so the suggestion is inappropriate. Especially as the precise reason why design theory does not claim to identify specific designers, is that there is not adequate evidence on the relevant signs to do so as a scientific inference. So design theory is much like the stage of investigations that identified arson not accident. Other techniques and tools will go on to establish whodunit. Life is indeed complex, and it has been so from the very first living cell. Not just complex but functionally specific and complex beyond the reasonable reach of blind chance and mechanical necessity on the gamut of the solar system or observable cosmos. Hence the relevance of design as the best explanation of the FSCO/I in life. KF PS: Had to wait to get where I could send, busy now. kairosfocus
KF (117):
That is just he problem, again. You are staring adequate evidence in the face and are denying that it exists or is cogent. If you think that FSCO/I is not a reliable sign of design as causal process, kindly show us an empirically warranted adequate alternative cause. And, we do not hold our views hostage to your skepticism, once we have good reason to conclude we have a reasonable case.
We disagree on what's adequate evidence. And, it is true, I'm in the vast majority on this. I don't mind you disagreeing with me on it. You don't have to convince me or even pay attention to what I have to say. But you keep trying to convince me for some reason. I think the evidence points to universal common descent with modification and so the development of DNA is explained via those natural processes. And, again, I do think design can be inferred in many, if not most, cases. Especially where there is adequate supporting evidence of the presence of an intelligent cause at the pertinent time. Which ID has not yet established. I'd stop arguing with me and work on that if I were you. Talking to me is just wasting time you could be using to prove your case. In fact, I'd be really interested in a more fleshed out intelligent design hypothesis. Like, for example, when you think design was implemented? I would think you'd have enough evidence to at least have a guess at that. Jerad
Jerad: That is just he problem, again. You are staring adequate evidence in the face and are denying that it exists or is cogent. If you think that FSCO/I is not a reliable sign of design as causal process, kindly show us an empirically warranted adequate alternative cause. And, we do not hold our views hostage to your skepticism, once we have good reason to conclude we have a reasonable case. KF kairosfocus
KF (115):
It is ever more evident that the real root of some of your objections is that your a prioris make you think the possibility of a designer at the time in question is nil or essentially that.
Not at all. I'm saying you haven't proved there was one. Show me the evidence and I'll change my mind. I just want Mung to apologise for calling keths a liar when he was doing no such thing. I think that's what reasonable people do when discussing things in a collegiate manner. By not apologising he's appearing to be petulant and petty. Would you let me get away with similar behaviour? I hope not.
That is why your demands to see separate evidence in addition to what is staring you in the face starting with the OOL question on — which you have steadfastly refused to address on the merits per showing how on empirical warrant blind chance and necessity are causally credibly adequate, rings so decidedly hollow.
You don't get a designer because evolutionary theory has not answered all the questions yet. It's not one or the other. Evolutionary theory may fail but Intelligent Design would still have to prove its case.
You are beginning to sound like Thomas, confronted by a mysteriously empty tomb, and by fellow disciples by the dozens who reported meeting, hugging, walking, talking and eating with their risen Lord, demanding to put his hand into the spear wounds, before he would accept the testimony of multiple known credible witnesses who were not at all expecting any such thing, had no cultural background that would lead them to come up with it and who were also looking with the rest of the city at the definitively and inexplicably empty tomb outside the city walls.
Extraordinary claims require extraordinary proof. I like Thomas, he was skeptical. But, given the evidence, he changed his mind. Makes sense to me. And before you draw a comparison to evolutionary theory not having shown us explicitly all the answers I will just say that, at this point, it's a much, much better model than any other alternative for reasons I've elucidated many, many times.
In short, you need to realise that skepticism, contrary to much modern self-congratulation, is not an intellectual virtue. It is proper to require that there be adequate warrant, on pain of admitting that so far we are all ignorant on a subject, but we do not have a right to demand arbitrary levels of evidence, once we are addressing a subject.
I think skepticism is absolutely essential these days. What with all the dross and tripe foisted on us via the internet and scams and people willing to take our money just to line their own pockets. Politicians need to be listened to with extreme skepticism, their statements need to be fact checked and mulled over. Homeopaths and chiropractors and all that ilk are always making statements with no real basis in good, hard science. Telephone salesmen . . . do you take what some stranger says to you on the phone seriously? You are very, very skeptical of lots of things. You demand much more of evolutionary theory than you do of ID regarding proof of ability to deliver the goods. I don't even trust myself to get it right all the time. Life is complicated now. I haven't got all the answers and I don't trust someone who says they do. I fully admit, and have done many times, that inference to design is completely warranted in many situations. You don't need to bring up more examples. Jerad
Jerad: It is ever more evident that the real root of some of your objections is that your a prioris make you think the possibility of a designer at the time in question is nil or essentially that. That has long since been pointed out. And on the point you are now objecting to Mung, it does seem that Mung per what I have seen has a point, if the odds of a chance hyp are zero, you cannot have a valid conditional prob on that.
P(A|B) = P(A AND B)/ P(B) Set P (B) to zero . . .
So at least ex hypothesi, we have to accept that P(B) != 0. B must at minimum be a logically (and here, physically) possible state of affairs, as opposed to a plausible one. What we have shown repeatedly is that while we may argue to bare logical and physical possibility that by chance we get any number of possible outcomes, such as the O2 molecules in the room where you read this all simultaneously rush to one end leaving you gasping, the balance of statistical weights of clusters of states is such that we have no reason to expect to observe such on the gamut of the observed cosmos, not even once in its lifespan. The same basic analysis applies to the proverbial warm little Darwinian pond or the like, to spontaneously form a gated, encapsulated, metabolising automaton with embedded vNSR, using homochiral molecular nanomachines that work by key-lock fitting controlled, algorithmic, code based mechanisms. Whether all at once or incrementally. Not, given what we know about physics and chemistry, including statistical thermodynamics and reaction kinetics. From simply observing such an entity as actually existing, we know it is highly contingent in a very special way that calls for an adequate cause. The only -- and on billions of cases empirically reliable -- known cause of FSCO/I (which the cell is chock full of) is design. Therefore the reasonable conclusion is that we have adequate evidence to infer to design from the signs we can see. At this stage, apart from institutional dominance, the shoe of warrant is plainly on the other foot. That is why your demands to see separate evidence in addition to what is staring you in the face starting with the OOL question on -- which you have steadfastly refused to address on the merits per showing how on empirical warrant blind chance and necessity are causally credibly adequate, rings so decidedly hollow. In short, you need to look very seriously at whether you are falling into the Cliffordian/Saganian evidentialism trap, of an escalating demand for proofs beyond what is adequate, because one is disinclined to go with what is in front of one. The demand that "extraordinary claims require extraordinary evidence" is crucially driven by the perception of extraordinariness, and by a failure to see that all that is required of warrant for a case is that it should be adequate. You are beginning to sound like Thomas, confronted by a mysteriously empty tomb, and by fellow disciples by the dozens who reported meeting, hugging, walking, talking and eating with their risen Lord, demanding to put his hand into the spear wounds, before he would accept the testimony of multiple known credible witnesses who were not at all expecting any such thing, had no cultural background that would lead them to come up with it and who were also looking with the rest of the city at the definitively and inexplicably empty tomb outside the city walls. In short, you need to realise that skepticism, contrary to much modern self-congratulation, is not an intellectual virtue. It is proper to require that there be adequate warrant, on pain of admitting that so far we are all ignorant on a subject, but we do not have a right to demand arbitrary levels of evidence, once we are addressing a subject. KF PS: It might interest you to know that on the evening of July 18, 1995, many people here were looking for a low flying jet aircraft, as the sound made by a jet of steam driven ash etc is sufficiently similar to make one think so at first until one learns better. So, this is a case where the mere presence of jet-like sounds can be explained by any of several means. However, on balance and on subtler indicia, we have good reason to infer to aircraft in certain circumstances, and volcanoes etc in others. This is similar to the case of deer tracks and possible imitations. The point of comparison is that there are no credible, empirically warranted alternatives to account for FSCO/I, but the one warranted on billions of test cases and backed up by the needle in the haystack analysis, design. Which is exactly what the living cell is chock full of. So, there is adequate warrant that design is a process that can adequately cause what we see, and there is further adequate reason to see that there is no other credible possibility. Next, we know that, on the LGM possibility [brought forth for the specific reason of pointing out that Venter et al have shown good reason to infer that an adequate cause would be a molecular nanotech lab . . . i.e we have a comparative model that says, empirically feasible], in ages of time, the sort of direct evidence you demand can be erased by the sands of time. And that is only one possible case for what is beyond DESIGN the empirically warranted process in view, specifici designers. kairosfocus
Mung (109): Are you going to revisit the P(T|H) issue? Do I assume from your silence in this matter (when you called keiths a liar multiple times) that you now acknowledge that you were wrong? Or do you still think you're right? And why won't you address the issue?
I was hoping Jerad would take a look. I think they are very pertinent to the current debate going on in this thread. But having no counter-arguments to offer himself any longer, he is reduced to red herrings. And yes, Jerad, people are watching, and they see.
I read the review of the paper on the Discovery Institute's website. I tried to read the paper itself but I don't have access on PubMed. I wanted to see if the authors addressed the problem which you and KF and the DI are pointing out: the seeming vast improbability of a cell to arise from a random soup of constituent parts. I don't think anyone is hypothesising that a cell arose without precursors and I was wondering if the authors discussed that part of the issue. Without being able to read the actual paper I can't come to a full conclusion but from what is reported it looks like evidence for your point of view. I'd like to see more.
I just heard a jet pass overhead. It’s really cloudy, so I couldn’t see it, and there was no visible contrail, so I had no independent evidence of it’s existence, but hey, I still made the inference.
As I would have done as well. Please don't charicature my point of view. I agree with design and existence inference in many, many situations. In your example you KNOW jets exist, that they fly in your area, you have probably heard them in similar situations before, you have experience, etc, etc, etc. My contention is: there is no evidence that an intelligent designer was around during earth's ancient past. There is no supporting physical evidence that indicates highly technical work took place anyplace on earth, or any place else that we've found so far. Therefore, it's not reasonable to infer such a designer. Jerad
petrushka:
I’m more interested in the process of analyzing a string than in the result. I would like to see the universal method that applies to any string.
Why would you like to see such a method? Hidden somewhere in there is a hidden gem about the meaning of arbitrary. Maybe onlooker can dig it out, but I have my doubts. Mung
petrushka:
I’m more interested in the process of analyzing a string than in the result. I would like to see the universal method that applies to any string.
keiths:
Yes. The question isn’t “how often can gpuccio guess the origin of a string?” It’s “does gpuccio have an objective, reliable method for identifying designed strings?”
As usual, you're lagging behind. That's not the question. We already know the answer to that question, and it's yes. The question you meant to ask is: Does gpuccio have an objective, reliable method for identifying functional strings? And the answer is, who cares? ID doesn't claim to be able to identify all functional strings and neither does gpuccio. petrushka:
I’m more interested in the process of analyzing a string than in the result. I would like to see the universal method that applies to any string.
I have one. any_string.each_char {|char| char = ''} Mung
Gpuccio's Challenge They have a new thread up at TSZ. Here's my entry, for when gpuccio gets back. A 150 character string. def to_ascii bit_string; asc_str = []; bit_string.scan(/[01]{7}/).each do |str| asc_str << str.to_i(2).chr if str.length == 7; end; asc_str.join; end; Mung
H'mm, I am hearing one of those Britten-Norman Islanders (sound-pattern as sign). Landing, I think. Just let my breath go, this is getting to me. KF kairosfocus
kf:
Mung, that no 3 paper looks to be a doozy, on islands of function, no less, with a telling admission against interest by Dawkins. KF
I was hoping Jerad would take a look. I think they are very pertinent to the current debate going on in this thread. But having no counter-arguments to offer himself any longer, he is reduced to red herrings. And yes, Jerad, people are watching, and they see. I just heard a jet pass overhead. It's really cloudy, so I couldn't see it, and there was no visible contrail, so I had no independent evidence of it's existence, but hey, I still made the inference. I was in the Navy for a number of years, during which time I was stationed both on an aircraft carrier and at a Naval air station. I have a wealth of experience when it comes to the sounds that jets make. Why should I just disregard all that experience? Upon what logical basis do you assert that I should not have made that inference without independent corroborating evidence? So lets say I have a contact at the FAA who can confirm that indeed there was a jet flying over my area at that time. Why should I not be allowed to add that to my wealth of knowledge? In all case where I have been able to trace the effect to a cause, it's been a jet aircraft. Mung
Mung (100):
The absolute weakness of your case is showing through. People can see what you’ve been reduced to. It’s not a compelling argument.
Damn! I blame Drs Dawkins and Coyne and Meyers and Miller and Dennett and Wilson and 150 years of scientists who worked and published in the field of evolutionary science. And Carl Zimmer. Who can you trust these days eh? By the way, did you ever apologise for accusing keiths of lying about P(T|H)? If you did I missed it. Jerad
Mung, that no 3 paper looks to be a doozy, on islands of function, no less, with a telling admission against interest by Dawkins. KF kairosfocus
I derive some sort of perverse pleasure in exposing them for what they are. Mung
Ah, yes. Semantic games over substance. You have a lot more patience than I do to deal with the clowns. Eric Anderson
Now remind me, what point were our materialistic friends trying to make?
That ID is a non-starter because it's argument is circular. e.g., The only known source of dFSCI is design. Therefore, all dFSCI must be designed. Or some such nonsense. That's not even circular, its a non sequitur. Mung
Mung @101:
From the very beginning it’s been clear that gpuccio admits that there are things which exhibit dFSCI for which the origin is not known.
Which is why we have to infer design in those cases, rather than just looking at the known historical facts of the origin of the thing in question. On the other side of the coin, if the origin of something (say, the bacterial flagellum, for example) is not known, our committed materialistic friends would have to infer non-design if they wish to draw that conclusion, because the known historical facts of the origin of the thing in question do not directly answer the question. The inference-to-the-best-explanation approach is necessary in the historical context. The question is simply whether the design inference is warranted in particular cases. Now remind me, what point were our materialistic friends trying to make? Eric Anderson
Some interesting new posts of possible relevance over at ENV: http://www.evolutionnews.org/2012/10/information_the065471.html http://www.evolutionnews.org/2012/10/are_we_reaching065671.html http://www.evolutionnews.org/2012/10/a_revolutionary065521.html Mung
Mark Frank: the statement "everything with dFSCI is designed" is circular Now, it looks like through much hard work by gpuccio even that accusation has been retracted. But really, Mark could have stated the proposition much more fairly to gpuccio and saved us all a lot of trouble. From the very beginning it's been clear that gpuccio admits that there are things which exhibit dFSCI for which the origin is not known. Some possible reformulations: We have good warrant to infer that any object which exhibits dFSCI is designed. There is a high correlation between dFSCI and design. Mung
Jerad, The absolute weakness of your case is showing through. People can see what you've been reduced to. It's not a compelling argument. Mung
Guys: By. To next week. This is final. gpuccio
Mark: Of course for the vast majority of digital strings the process for generating them is known at the same time that the string is generated. Here there is circularity. Only the ones that have been designed can have dFSCI by definition. Excuse me, but this is still wrong. Nothing has dFSCI "by definition". The strings are examined in blind, and only those that are judged as exhibiting dFSCI are assesses as such. According, obviously, to the definition. In this process, the person who makes the assessment knows nothing of the origin of the string (just as we will do in our test). After the assessment is done, it is checked with the known origin of the string. Any other strings that were generated by necessity mechanisms would not have dFSCI by definition. Again, no. The person who evaluates dFSCI is npot aware of the origin. He must exclude possible necessity mechanisms on the basis of the string he observes. That's all. So it is invalid to use the correlation between dFSCI and design as evidence that future strings with dFSCI will be designed. Why? If a property has such a high correlation with a type of origin in all known cases, why should it be "invalid" to use it to infer that type of origin in unknown cases? it's perfectly sensible, and scientific, to do that. Obviously, it is not a necessity. It is an inference. It can be right. It can be wrong. Like any scientific inference. But it is perfeclty "valid". The only correlation that is acceptable is instances where a string has an unknown origin and then the origin is discovered. Why? There aren’t very many of those – but there is little doubt that some of them turned out not to be designed. I am not aware of any of them. Actually the more I think about this the more tangled it gets. Really we are only interested in strings where the origin is not known – once the origin is known then its dFSCI status is settled by definition. No. Its origin is settled by definition. Not its dFSCI status. A lot of designed things do not exhibit dFSCI. In theory, we can find non designed things that exhibit dFSCI. Knowing the origin of a string does not prevent us from independently, blindedly assess dFSCI for it. So what is the known necessity mechanism clause – which is clearly a reference to origins – doing? If we don’t the origin then we don’t know whether it was the result of a necessity mechanism or design, therefore we don’t know whether it was the result of a necessity mechanism. I think maybe he is getting at something like “could not imagine this string being generated by a known necessity mechanism” in the sense of that the mechanism is known but not that it is know to apply to this string. But it is simple. I look at the string. With what I know of it, and of the system where it is found, and of the time span, I assess dFSCI. To exclude a necessity mechanism, what I have to do essentially is to exclude strings that have regularities. And be sure that the laws acting in the system have no connection with the specific function of the string. For instance, in a biochemical system where a protein coding gene emerges, I must be sure (and I am) that the laws of biochemicstri have no connextion with a specific string of nucleotides coding for a functional protein through an arbitrary code. I an sure of that. I am sure that the gene sequence shows no mathemathical regularity that could derive from a necessity mechanism. So I affirm dFSCI. What a tangled web! If only he would define dFSCI without the necessity clause it would make everything simple and save hours of blogging. If I defined dFSCI without the necessity clause, any series of heads generated by the tossing of an unfair coin would be a false positive. No, thank you. I am not that stupid. ______ GP enjoy y'self (assuming it is not a work trip . . . AND IF, FIND A BIT OF FUN TIME). In fact, none of us, almost, directly independently knows the source of the dFSCI strings in this thread. We routinely accept a design inference, and credit the announced identity. For instance I have never met you in person, nor Mung etc. But I have excellent reason to infer the above post is not blind chance and necessity but design. Add in a few details and I am confident it is really you, Dr GP of Italy. KF gpuccio
Zachriel: Please, don't create further confusion. Number 5 does not say, as you state: "#5) Therefore anything whose origin is known must not be deterministic." It says: "#5) Any object whose origin is known that exhibits dFSCI is designed (without exception)." You introduce a "must be" that changes completely the meaning, Please, no more lies. The meaning is: #5: Any object whose origin is known, that exhibits dFSCI, is designed (without exception) I have already explained the meaning in detail to you, in a previous post . The "objects whose origin is known" are strings of whiah we know the origin (desing or not design) and that are used to test the dFSCI procedure (let's call them set "test". "that exhibits dFSCI" means those strings in set "test" for which dFSCI is assessed as present, obviously in blind (the person who assesses dFSCI is not aware of the origin of the string). "is designed (without exception)" os the empirical result of the test, not a logical statement, as you try to imply. No more lies, please. I have said those things a lot of times, only in the last few days. Stop inventing things that I have never said. Notably, gpuccio is happy that you said it’s not circular without understanding your reasoning. It is enough that you agree apparently. I am happy because a honest person made a honest admission that was difficult to do. It is not a question of agreement, but of intellectual integrity. gpuccio
Mark: I would say binary strings of 500bits. Or language strings of 150 characters. Or decimal strings of 150 digits. Something like that. Even a mix of them would be fine. Some observations. I will literally apply my procedure. If I cannot easily see any function for the string, I will not go on in the evaluation, and I will not infer design. If you, or any other, wants to submit strings whose function you know, you are free to tell me what the function is, and I will evaluate it thoroughly. I will be cautious, and I will not infer design if I have doubts about any of the points in the procedure. Ah, and please don't submit strings outputted by an algorithm, unless you are ready to consider them as designed if the algorithm is more than 150 bits long. We should anyway agree, before we start, on which type of system and what time span we are testing. And anyway, I am afraid we have to wait next week for the test. My time is almost finished. gpuccio
Mark: Thank you, thank you, thank you!
OK. That helps a lot. Given your clarification I will admit that the statement “Everything with dFSCI is designed” (X) is not circular! Is just false. Also it makes dFSCI into a weird concept.
Emphasis added by me. As the purpose of all this discussion was to reject an accusation of circularity, I am completely satisfied. You are wonderful. Honest and wonderful. Obviously, now that I am happy, I can also say one or two words about the accusation of falsy and weirdness! :) Well, the accusation of weirdness is not really a problem: I like it! But let's consider it anyway: Using your definition as I now understand it, something only has dFSCI relative to a current state of knowledge about its origins. dFSCI is a diagnostic judgement made on an object at time t. It is obviously made at time t, with what we know at time t. But knowledge about its origins has nothing to do with it. We assess dFSCI without knowing the origin. So, you are wrong here. Even when "testing" the specificity of dFSCI with strings whose origin is known, the person who assesses dFSCI must not know anything of the origins. dFSCI is assessed exclusively on the object, and in reference to a specific system and time span. But knowledge of the historical origin is not required, otherwise dFSCI would be useless. So if you and I have different knowledge about the origins of a string it may well be that it is dFSCI for you and not dFSCI for me (because I know of a necessity mechanism that you don’t). I will ignore the reference ot origins, which as said is not correct. Let's say that if you knwo an explanatory mechanism at time t, and I am not aware of that, I will assess dFSCI at tiome t. That will be recognized as a false positive, as soon as you make known the explanatory mechanism, and we agree that it can generate the string for which I have assessed dFSCI. Why is that weird? Suppose we have a string which is long, digital, and functional – a protein will do nicely. At time t1 none of the world’s experts know of a necessity mechanism. So it has dFSCI at time t1 for them. Later at time t2 a mechanism is discovered, so now it does not have dFSCI at time t2 for them (by your definition). As explained, this would be a flase positive. As dFSCI was correctly assessed at time 1, and a design inference was later falsified by the new mechanism, that is a false positive. There is no need to "reassess" dFSCI in the pèrotein. dFSCI has alredy failed for that protein. Furthermore it may be that at time t1 in another country some other scientists knew of a mechanism that the world’s experts were unaware of – so for those scientists it did not have dFSCI even at time t1. I does not matter. As I said, the assessment of dFSCI relies on simple observations.Either it works, or it does not work. If I assess dFSCI for a protein, and some some scientist who is my enemy already known a necessity explanation, but willfully bhides it to me, and I assess dFSCI, I am assessing it correctly, and it will be recognized as a false positive. dFSCI is a tool, not an eternal substance. Why cannot you consider it as any sceintific tool? It works, or it does not work. I suspect you will think this is irrelevant philosophising. More or less... You are so certain in the cases we are discussing that no necessity mechanism will be found. Yes, I am. But actually it is very relevant – because as I explain below – using this definition statement X i false. So, let's go to the falseness. I will ignore all the discussion about the Fibonacci series. First of all, I am not a mathemathician, but I am not convinced at all that yur example has sense. And in any way, my faith in dFSCI does not get to the point of defending how someone would have applied the concept before 1200! You really ask too much. But I answer you worries in a very simple way, and that answers both your preoccupations about known or unknown mechanisms and your worries about randomness assessment (to which, I believe, I have alredy answered in my previous post). It is simple: dFSCI is a diagnostic tool. It is applied as it is. Either it works, or it does not work. My statement X: "“Everything with dFSCI is designed” (X) is not a logical deduction. It is not even an inference. It is simply the result of my testing phase. It is true, I believe, for any testing done as I have suggested. I am available to repeat the testing anytime with you. Give me any number of strings of which you know for certain the origin. I will assess dFSCI in my way. If I give you a false positive, I lose. I will accept strings of a predetermined length (we can decide), so that at least the search space is fixed. So, you cannot say that my statement X is false, unless you falsify it. It is an empirical statement: there is no other way to falsify it than to show that it is not empirically true. I remind you, to avoid misunderstandings, that my statement X refers only to the specificity of dFSCI as measured in the testing phase. As I have said many times, for objects whose origin we don't know for certain, we can only assume that dFSCI will have the same specificity. It is a very reasonable assumption, but it is not necessarily true. gpuccio
Mark: I remind you that I only exclude from dFSCI highly compressible strings, those with evident order or regularity. I am aware that most strings, including random ones, are in some measure compressible. But that compressibility is of no importance here. Let's imagine you have a true random string (originated by the tossing of a coin), and you zip it. You will probably get a somewhat shorter string. But the only effect, for our purposes, is that now you must compute the complesity of the compressed string, plus the complexity of the unzipping software, and hypothesize that both originated by RV in the system, and then the unzipping software generated the unzipped string (that we observe) from the randomly generated zipped string. Is that really of significance? The true reason to exclude strings with high regularity is not really that some software could have generated them, but that some natural system could have generated them. I have made many examples: a) A string of 500 heads, generated by tossing a coin that can only give head. b) A gene of 300 Gs, generated in a lab situation where only Gs were available. c) A sequence of 100 HHHHT sequences, which is also a solution to Lizzie's example, generated by the casual copying of a sequence of low complexity. In all these cases, a necessity mechanism is a very admissible explanation. But not for Shakespeare's sonnet. Not for the human G6PD sequence. Not for Excel's source code. I believe that Shakespeare's sonnet is in some measure compressible. Does that change you assessment about it? The important point, that you guys are still trying to ignore, is that in true dFSCI there is a convergence of events that are apparently random, or at least not dictated by any law, towards the simple result of the final meaning or function. That is specially obvious in DNA. The sequence of nucleotides in a protein coding gene is completely inert, it has no special biochemical properties linked to the specific sequence. The laws of biochemistry cannot, in any way, imply that specific sequence. And yet it has the meaning of conveying the sequence of a functional protein. Even the sequence of AAs in a protein, in itself, does not predict the function, unless we can compute how the sequenc will fold, and what biochemical properties it will have: a task that, as Petrushka always reminds us, is not easy. gpuccio
Joe: OK, I will confess my original sin. I am italian :) gpuccio
Mark: And politely I answer: I call them "pseudorandom" because they are formally random, but they convey a meaning. We could call them "formally random strings with a meaning (or function). This is a special use of the "pseudo", so thank you for giving me the opportunity to explain my sense. I am aware that pseudorandom strings can mean random strings generated by a computer by an algorithm that is not completely random. For my purposes, all these disctinctions are not necessary. What I mean is simply that the string we observe is not highly compressible, in the sense that it does not exhibit specila order or regularity. That is enough. I will also explain why. If a pseudorandom string generator generates strins so that they may appear random, the result is the same for me: they have a form compatible with a random origin. There is no possibility that such an algorithm may generated complex information that points to a function (unless, obviously, you are cheating and have incorporated a weasel like algorithm in the pseudorandom string generator, with the string to be obtained already in). Therefore, if a string has a random, non regular, form, and it has high functional complesity, it's enough to assess the presence of dFSCI and infer design. As I have said many times, we assess dFSCI only on the object, without knowing anything of the origin. dFSCI is a property of the object. But, instead of repeating politely the interesting divagations of Olegt, why don't you answer my last post to you? gpuccio
kairosfocus:
GP: Sometimes it amazes me that you are writing in a second language and many of the objectors are writing in their first. KF
Really? I suspected as much- well most likely I knew it and just forgot. Amazing indeed. But that does explain some things like the choice of wording. ______ GP is a European, medical practitioner whose native language is not English. From some of his phrasings, I suspect he is not yet at the level of thinking in English, he seems to be internally translating what he says here. KF Joe
KF: It amazes me too! :) However, you are very kind to occasionally remind our interlocutors of my little "handicap". Maybe they will become more clement, in time :) But I am not holding my breath. gpuccio
Guys (everywhere): Just an announcement: I will be away for a few days, and I will not be able to post. Sorry to go whne the discussion is hot. I am aware I am breaking your hearts :) , but I leave you a treasure trove of posts (you cannot deny that I have been rather active in the last times). I encourage you to study them thoroughly: you will find maybe some answers there, and certainly many things to criticize :) But don't despair! I will be back next week, and I will try to catch up (something tells me that it will not be easy: please, not more that 2000 posts in the two blogs...) I may be able, I hope, to still write something in the next few hours: last occasions for arguments (or admissions? :) ). By to all. gpuccio
GP: Sometimes it amazes me that you are writing in a second language and many of the objectors are writing in their first. KF kairosfocus
KF: Thank you for the usual lucid contribution. gpuccio
Jerad:
I guess you’ve never seen the circle at Avebury. Or some of the ones in Scotland.
I have and they do NOT resemble Stonehenge.
What have you got to explain it?
Design, ie the same thing that explains Stonehenge and those other stone circles. ________ Joe is patently correct. Avebury. KF Joe
GP: One of the things that comes across strongly to me is that the objectors do not seem to understand information, e.g. its property of being independent of particular expression once it has been initially expressed. Particular expression is a necessary but not sufficient condition of the existence of info -- there must be one copy in some medium, but beyond that, any number of copies has not added to the existing info, save that it will be easier to save at least one copy -- redundancy. (Hence the clever utility of DNA's double helix with complementary copies.) BTW, excellent, patient work as usual, and your strictures at length are well warranted, as the objectors need to heed duties of care to truth and fairness in light of what continuing misrepresentation is. KF kairosfocus
Toronto: Secondly, does a copy of a designed string still contain “dFSCI”, if copied by a “necessity mechanism”? Obviously. The string is assessed as exhibiting dFSCI, but it can exist in one copy or in one billion copy. The dFSCI is the same. It does not increase with the copying. It does not decrease with the copying. A separate problem, if you want, would be to consider the copying process. But that's another story. We want to explain how that partucular string emerged in relity, not how many times it has been copied. We want to explain how Shakespeare's sonnet was generated, not how many times it has been published. Ah, that's what I like! Simple questions, simple answers. I must say that accusing you lot of being stupid or dishonest seems to have an empirical good effect on your cognitive performance :) gpuccio
Toronto:
If the source of the information in the string, is a conscious designer, then I believe you claim the string would have “dFSCI”, provided it meets all complexity and functionality requirements. If you have a second, completely different string which also meets all complexity and functionality requirements for a system it is part of, but the source of the information is a “necessity mechanism”, does that string have the attribute “dFSCI” also simply for being complex and functional enough? The only difference here is the generator of the information, i.e. the source. If “dFSCI” is only applied in cases of design, then the final determination is the source that generated the information, not the “specific functional complex information” in the string which still in both cases fulfills its functionality.
I really believe, ever more, that you at TSZ don't read what I write in answer to you. From my post #45 here, to you: "They would both be assessed as having dFSCI. The first would be a true positive. The second (that has never happened) would be a false negative. dFSCI is assessed from the object (and the system). If the two objects are the same, and they appear in the same system, the assessment of dFSCI must necessarily be the same for both. If independent facts can attest a different origin for the two objects, thatwould imply what I have said: one is a true positive, the other a false positive." What is not clear in that? So, does the label, “dFSCI” only apply depending on the originator of the information? No. Absolutely not. I’m trying here to see if this is what you mean by false positive where “dFSCI” is originally concluded, but then changed to “NOT dFSCI” if the originator is not design. No. False positive means that the objects correctly exhibited dFSCI, but it was not designed. Our "gold standard" is the true origin of the string. Our diagnostic tool, that is being tested, is dFSCI. So, to be clear, at the cost of being pedantic: 1) True positives are those objects that are correctly assessed as exhibiting dFSCI AND had their origin in a design process. 2) False positives are those objects that are correctly assessed as exhibiting dFSCI AND did not have their origin in a design process. 3) False negatives are those objects that are correctly assessed as non exhibiting dFSCI AND had their origin in a design process. 4) True negatives are those objects that are correctly assessed as non exhibiting dFSCI AND did not have their origin in a design process. It's a standard two by two table for computing sensitivity and specificity. Specificity is: TN/(TN+FP) If there are no false positives, specificity is 1 (100%). gpuccio
Mark: If the answer is (b) then the no necessity mechanism is not part of the definition of dFSCI – because you have found something with a necessity mechanism and you are still calling it dFSCI The answer is definitely b). And indeed, I have never made the strange requirement you and others seem to always attribute to me. I have never said that no necessity mechanism must exist in order to assess that an object has dFSCI. I have always said that we must verify that no known necessity mechanism exists that can explain that string. I don't know why all of you seem to forget that simple word: "known". Which is an obviouys recognition that we cannot ignore what is known. But that word has always been in my definition, for years, because obviously otherwise I could never assess dFSCI for anything, because it is in principle impossible to exclude any new, unexpected, necessity mechanism. It would be like saying that nobody could have reasoned scientifically in the past centuries without before excluding possible effetcs of quantum mechanics. PS. You often write is if you believe that what you say is perfectly clear and obvious and therefore opponents are being stupid or dishonest. I promise you it is far from clear. Perhaps Joe’s confusion will convince you of this. Neither of that is really true. I may believe that what I wrote is often clear, but I am aware that sometimes it is not. I make errors, and many times I don't express myself clearly enough. But I am always available to clarify, if what is not clear is clearly pointed out to me. The accusation if being stupid or dishonest, which, as you should known, is not my usual way to discuss, was done, with great personal unease, after a situation lasting days and days, where I had repeatedly made some fundamental points, maybe sometime less clearly, but certainly other times very clearly, and practically all of you were still evading them, and insisting in either just repeating wrong statement, clearly contradicted by my points, or sticking to other minor and non pertinent issues. This is not a fair way to communicate, and is very frustrating. That's why I made the accusation. Perfectly justified. The most important point of all is that a design origin is a fact, and cannot be implied in logical circularity. I paste here my definition of design and of designed process: "a) Design is the act by which conscious intelligent beings, such as humans, represent some intelligent form and purposefully output that form into some material system. We call the conscious intelligent being “designer”, and the act by which the conscious representation “models” the material system “design”. We call the material system, after the design, a “designed object”." You can find it here: https://uncommondescent.com/design-inference/it-seems-that-tsz-objector-to-design-af-insists-on-the-long-since-corrected-canard-that-design-is-a-default-inference/ Post numer 5, at the very beginning of all this discussion. September 17, one month ago. And you can find it anywhere in my past posts. I have never changed it, in years. So, to have a design origin means to comply with that definition. It has nothing to do with RV. It has nothing to do with necessity. It has nothing to do with evolution. It has nothing to do with dFSCI. Therefore, it is simply impossible that the dFSCI procedure have any circularity at all, when used empirically to infer a design origin. It's as simple as that. Please, answer! Is that right, or not? And if not, why? For comparison, I quote here the circular example kindly offered by Zachriel: Circular reasoning: ”Wellington is in New Zealand. Therefore, Wellington is in New Zealand.” — Douglas Walton My reasoning: a) Something has a design origin if its form comes from conscious representations an a cosncious agent. b) Designed objects seem to exhibit, sometimes but not always, a singular property that is not observed in non designed objects (empirical observations: we don't really know why that is the case). c) We try, by observation and reasoning, to catch the essence of that property, so that we can recognize it in objects even if we are not aware ot their origin. We call that assessment of that property dFSCI, and we give explicit rules to assess its presence in an object. d) We verify that the definition works: it can detect those strings that truly had their origin in a design process, and gives no false positives. e) Therefore, we assume that dFSCI can be used as a credible tool to diagnose a design origin in objects whose origin is not known. It's simple. It is not circular. It is perfecly valid scientific methodology. Could you please explain cleraly, if upou still don't want to admit that the dFSCI procedure is not circular, where and why my reasoning has anything in common with the circular reasoning offered by Zachriel? But please, be clear and pertinent. gpuccio
Keiths: The formatting is wrong in ,my previous posts, so I will repost it, adding some further clarifications: Keiths:
Saying that unguided evolution can’t produce dFSCI is therefore equivalent to saying “Unguided evolution can’t produce something that unguided evolution can’t produce.” Obviously circular. Do you agree?
Yes. But, just to be fastidious, I must remind you that this is an empirical result, not a logical one. There are still two ways that unguided evolution could produce dFSCI: a) In principle, unguided avolution could produce dFSCI by generating an extremely improbable output b) In principle, a new and completely unexpected necessity mechanism could be found that explains the observed string, either by itself, or by lowering the probabilistic barriers for RV. Both thing, IMO, will never happen for a string where dFSCI has been correctly assessed following my procedure. But that is just mt conviction, not a logical necessity. However, if you accept these reservations, I essentially agree with this steatement of yours: dFSCI is conceived and defined with the explicit purpose of credibly, empirically rejecting RV and necessity as an origin of the observed string. That’s exactly its purpose. I object, however, to the term “unguided evolution” in the definition. The definition makes no use of the term “unguided evolution”. It just refers to the much clearer terms of RV and necessity mechanism. So, please, stick to those clear concepts in your argumentation, whatever it is. RV and necessity are universal concepts in science. Evolution is an ambiguous concept, and the term “unguided” seems to refer to a designer, and is IMO purposefully inputted by you in my definition to suggest circularity. I have never used those terms in my definition. So, please, refer to my definition and to nothing else. So, let's just see if the statement is really circular or not: "Saying that RV and necessity cannot produce dFSCI is what we certainly expect in empirical observations, because dFSCI was defined exactly to get that result. So, if our work in defining dFSCI was good, we should obtain exactly that result, not because it is logically necessary, but because it is extremely likely empirically." This is it. It is still non circular logically. It just measn that dfSCI does what it was defined to do. If you agree, we can call that "empirical consistency" of the dFSCI definition. And still that has nothing to do with the design inference, and its supposed circularity. gpuccio
Keiths:
Saying that unguided evolution can’t produce dFSCI is therefore equivalent to saying “Unguided evolution can’t produce something that unguided evolution can’t produce.” Obviously circular. Do you agree? Yes. But, just to be fastidious, I must remind you that this is an empirical result, not a logical one. There are still two ways that unguided evolution could produce dFSCI: a) In principle, unguided avolution could produce dFSCI by generating an extremely improbable output b) In principle, a new and completely unexpected necessity mechanism could be found that explains the observed string, either by itself, or by lowering the probabilistic barriers for RV. Both thing, IMO, will never happen for a string where dFSCI has been correctly assessed following my procedure. But that is just mt conviction, not a logical necessity. However, if you accept these reservations, I essentially agree with this steatement of yours: dFSCI is conceived and defined with the explicit purpose of credibly, empirically rejecting RV and necessity as an origin of the observed string. That's exactly its purpose. I object, however, to the term "unguided evolution" in the definition. The definition makes no use of the term "unguided evolution". It just refers to the much clearer terms of RV and necessity mechanism. So, please, stick to those clear concepts in your argumentation, whatever it is. RV and necessity are universal concepts in science. Evolution is an ambiguous concept, and the term "unguided" seems to refer to a designer, and is IMO purposefully inputted by you in my definition to suggest circularity. I have never used those terms in my definition. So, please, refer to my definition and to nothing else.
gpuccio
Joe: Thank you for your answer. However you are right, I should have written, to be more precise: "3) No known necessity mechanism that can explain that apparent complexity" Things work more or less this way: a) we see that the string is functional b) we see that it is long enough to have high total complexity (IOWs, we compute the search space) c) we approximate the target space, and compute the functional complexity as the ratio target space/search space. If the functional complexity is high enough, we conclude that the string is potentially functionally complex. d) Finally, before assessing dFSCI, we stop a moment to be sure that the string has no special regularity and order to suggest a necessity origin. That could probably be enough, but just because we are methodologically sound, we do our best to be sure that nobody has offered any convincing and detaile necessity, or mexed (RV + necessity) explanation for that string. Then we assess that the string exhibits dFSCI. The final judgement, if all the procedure has been correctly followed, is a correct diagnosis for the presence of dFSCI in that object. And it brings us to a design inference. As already explained, new facts can confirm it or falsify it. The whole utility of the dFSCI procedure for design inference in the bilogical context, however, relies on its extremely high specificity. Anything that falsifies that specificity, therefore, can be considered as a powerful falsification of the empirical utility of the procedure. As already explained. IOWs, the design inference by dFSCI is a scientific theory that complies perfectly with the classic Popperian requirement. gpuccio
Sigh: Newton, General Scholium to Principia: __________ >> . . . This most beautiful system of the sun, planets, and comets, could only proceed from the counsel and dominion of an intelligent and powerful Being. And if the fixed stars are the centres of other like systems, these, being formed by the like wise counsel, must be all subject to the dominion of One; especially since the light of the fixed stars is of the same nature with the light of the sun, and from every system light passes into all the other systems: and lest the systems of the fixed stars should, by their gravity, fall on each other mutually, he hath placed those systems at immense distances one from another. This Being governs all things, not as the soul of the world, but as Lord over all; and on account of his dominion he is wont to be called Lord God pantokrator , or Universal Ruler; for God is a relative word, and has a respect to servants; and Deity is the dominion of God not over his own body, as those imagine who fancy God to be the soul of the world, but over servants. The Supreme God is a Being eternal, infinite, absolutely perfect; but a being, however perfect, without dominion, cannot be said to be Lord God; for we say, my God, your God, the God of Israel, the God of Gods, and Lord of Lords; but we do not say, my Eternal, your Eternal, the Eternal of Israel, the Eternal of Gods; we do not say, my Infinite, or my Perfect: these are titles which have no respect to servants. The word God usually signifies Lord; but every lord is not a God. It is the dominion of a spiritual being which constitutes a God: a true, supreme, or imaginary dominion makes a true, supreme, or imaginary God. And from his true dominion it follows that the true God is a living, intelligent, and powerful Being; and, from his other perfections, that he is supreme, or most perfect. He is eternal and infinite, omnipotent and omniscient; that is, his duration reaches from eternity to eternity; his presence from infinity to infinity; he governs all things, and knows all things that are or can be done. He is not eternity or infinity, but eternal and infinite; he is not duration or space, but he endures and is present. He endures for ever, and is every where present; and by existing always and every where, he constitutes duration and space. Since every particle of space is always, and every indivisible moment of duration is every where, certainly the Maker and Lord of all things cannot be never and no where. Every soul that has perception is, though in different times and in different organs of sense and motion, still the same indivisible person. There are given successive parts in duration, co-existent puts in space, but neither the one nor the other in the person of a man, or his thinking principle; and much less can they be found in the thinking substance of God. Every man, so far as he is a thing that has perception, is one and the same man during his whole life, in all and each of his organs of sense. God is the same God, always and every where. He is omnipresent not virtually only, but also substantially; for virtue cannot subsist without substance. In him are all things contained and moved [i.e. cites Ac 17, where Paul evidently cites Cleanthes]; yet neither affects the other: God suffers nothing from the motion of bodies; bodies find no resistance from the omnipresence of God. It is allowed by all that the Supreme God exists necessarily; and by the same necessity he exists always, and every where. [i.e accepts the cosmological argument to God.] Whence also he is all similar, all eye, all ear, all brain, all arm, all power to perceive, to understand, and to act; but in a manner not at all human, in a manner not at all corporeal, in a manner utterly unknown to us. As a blind man has no idea of colours, so have we no idea of the manner by which the all-wise God perceives and understands all things. He is utterly void of all body and bodily figure, and can therefore neither be seen, nor heard, or touched; nor ought he to be worshipped under the representation of any corporeal thing. [Cites Exod 20.] We have ideas of his attributes, but what the real substance of any thing is we know not. In bodies, we see only their figures and colours, we hear only the sounds, we touch only their outward surfaces, we smell only the smells, and taste the savours; but their inward substances are not to be known either by our senses, or by any reflex act of our minds: much less, then, have we any idea of the substance of God. We know him only by his most wise and excellent contrivances of things, and final cause [i.e from his designs]: we admire him for his perfections; but we reverence and adore him on account of his dominion: for we adore him as his servants; and a god without dominion, providence, and final causes, is nothing else but Fate and Nature. Blind metaphysical necessity, which is certainly the same always and every where, could produce no variety of things. [i.e necessity does not produce contingency] All that diversity of natural things which we find suited to different times and places could arise from nothing but the ideas and will of a Being necessarily existing. [That is, implicitly rejects chance, Plato's third alternative and explicitly infers to the Designer of the Cosmos.] But, by way of allegory, God is said to see, to speak, to laugh, to love, to hate, to desire, to give, to receive, to rejoice, to be angry, to fight, to frame, to work, to build; for all our notions of God are taken from. the ways of mankind by a certain similitude, which, though not perfect, has some likeness, however. And thus much concerning God; to discourse of whom from the appearances of things, does certainly belong to Natural Philosophy. >> ____________ This is of course the major work that presented the theory of gravity. As in, the interferer -- at many levels -- does not know what he is talking about. KF kairosfocus
Jerad: A clean sustained sine wave source -- const amplitude, phase steadily advances with time, no distortion of consequence, long duration -- for radio would be quite specific and credibly functional, given issues like the difficulty of getting so narrow a bandwidth, ideally a line. Such a source is very hard -- read that, complex -- to do; natural oscillations strongly tend to be damped, or to not be clean --- saturation effects, crossover distortion, intermod effects etc. Even a laser is not a clean sine wave source -- we talk of a 50 nm bandwidth etc. And our lab sources have some harmonic distortion and often a bit of mixing due to nonlinearities. Pulsars are just that, pulsed [thus not clean sine sources], though quite steadily periodic. KF kairosfocus
This is pretty funny, someone has really borked the Wikipedia entry for gravity: http://en.wikipedia.org/wiki/Gravity Here's how it starts, I doubt it will stay up long: The theory of Gravity, like many other ridiculous theories and notions, is a hoax that has been forced on the good and decent Republicans and repressed-Republicans of this nation by Democrats, New York intellectuals, and, of course, their Bear allies. Gravity, like evolution, has damaged the American way of life so badly, God sent the scientists who proved Intelligent Design, to teach everyone of the wonderful science of God's Intelligent Falling. As of June 19, 2007, Stephen takes back everything he has ever said about gravity and is now willing to entertain Isaac Newton's theories, including the notion that particles of matter are attracted to one another in proportion to their mass, and not because they're pulled together by angels. It is not yet known why the Bears have perpetrated this hoax on the world, but it has something to do with keeping the people of the world down. Jerad
Joe:
Stonehenge is different than plain ole stone circles. And if it didn’t exist we would not think people from thousands of years ago were capable of building it.
I guess you've never seen the circle at Avebury. Or some of the ones in Scotland.
Also if we had proof the designer was around then we wouldn’t have a design inference, design would be a given. IOW you are proving that you don’t understand how science works. We infer a designer existed because we observe design in nature. And seeing that natural processes only exist in nature, they cannot account for its orgin, which science says it had. So we infer it was something other than nature that gave us nature.
Natural processes only exist in nature, I like that one. So we infer it was something other than nature that gave us nature is good too.
And in the end if your position had any evidence to support we wouldn’t be talking about proving a designer.
I'm thinking I'm gonna stop talking about it pretty soon actually.
How many mutations to get a mammalian inner ear from a reptilian jaw? Any math, any formula, equation, landscape function algorithm, we can use to tell us?
I can have a look. What have you got to explain it? Jerad
Mung (55): Sorry, screwed up the blockquotes in the above. Sigh. Need more tea.
So? And how do you know that? So, Jerad, you’ve never seen gravity. And yet you believe that it exists and that it’s controlled by some invisible set law, which you’ve also never seen. And can I assume then that from the existence of this invisible set law that you also infer an invisible lawgiver? And your independent proof of this invisible lawgiver is?
Yeah, I think Newton figured out the law of universal gravitation. I recommend it as it beats the alternate theory that the earth sucks.
What’s the rule, law for your designer?
What is the rule/law for your invisible lawgiver? And where did that rule/law come from? Is it invisible lawgivers all the way down for you?
Yeah, they're probably sitting on the backs of the turtles. Jerad
Mung (40):
All this talk from kf asking about where body plans come from and this is the first time I can recall seeing you say evolutionary theory explains where body plans come from. Wow, you really haven't been paying attention then.
That and that new body plans aren’t all that hard to come by because they are all very close together in the configuration space. Talk to KF about that. He thinks they're extremely unlikely to find because they're very sparse in the whole config space.
I’m just really curious about where you’re getting this information from and why you haven’t brought it up before.
Because I have brought it up before?
Living systems don’t do random searches across whole configuration spaces to find new body plans.
So how much of the space do they need to search in order to find a new body plan and how do you know?
They don't need to search the space at all. sigh. You really haven't paid attention to lots and lots of conversations I've already had with KF. And I don't think you've apologised over the P(T|H) stuff.
Jerad
Mung: Thanks for the heads up. Toronto: There is no equivalency and an attempt to pretend that you cannot simply go to the IOSE intro-summary page as I have linked from the very beginning or — for every post I have ever made at UD — link a longstanding reference note through my handle is transparently insincere. It is a patent attempt to find any excuse not to provide a reasonable, empirically grounded case for the blind watchmaker thesis materialist model of origins. The offer as long since made — over a month — is made in good faith, is a more than fair offer and stands on its own terms. Remember, onlookers, every tub must stand on its own bottom. So, Toronto, I suggest you provide your essay. And if you need more than 6,000 words, that would be fine within reason; noting that there is room for onward links. G’day GEM of TKI PS: Mung, the summary was originally quite shorter, it has grown as I have had to respond to the twists and turns of the darwinist mindset and its incredible ability to strawmannise. kairosfocus
petrushka on October 23, 2012 at 5:39 pm said:
I keep forgetting. What is the procedure for correctly calculating or assessing dFSCI? What test or procedure rules out the possibility that a protein domain started as a “random” string with a weak function and became optimized in just a handful of steps?
Ghost of charles darwin! Do you folks never come up with anything new? Speaking of random strings with weak function becoming optimized... http://theskepticalzone.com/wp/?p=576 Not exactly in just a handful of steps though. Now if you could tell us how much initial functional specificity one of her random strings had, how much functional specificity one of her final strings had, and how much gain in functional specificity there was in going from her initial randomly generated string to one that meets her goal, and then show something similar from nature, we might believe that her GA has some relationship to something in nature. Didn't Lenski or Szostak do something like that using intelligent selection? It would be interesting to compare to those results as well. Mung
Toronto:
I would be willing to submit a 6000 word essay for posting at UD but I need to know that KF is also willing to submit a similar essay justifying empirical evidence of the “designer scheme for origins” from OOL on.
lol. Are you sure? kf has entire web site devoted to the topic. So, get to work on your 6,000 word essay! Toronto:
Seriously, a design implies a designer.
ok, so? Toronto:
You simply have to assume a designer existed if you claim you have something that was designed.
What is it with you people over there at TSZ and definitions? onlooker doesn't understand the meaning of arbitrary. keiths doesn't understand the meaning of not compatible. mark doesn't understand what constitutes a circular definition. And you don't understand the meaning of the word assume. You've just said that given some design, a designer is implied. Do you know what that means. Given a design, by implication, a designer. That's not an assumption. http://oxforddictionaries.com/definition/english/implication Toronto:
Mung believes that the ID position does NOT rely on “evolution can’t do it”.
That's because guided evolution can do it. Evolution guided by intelligent choices. Take GA's, for example. Mung
Zachriel:
Circular reasoning: ”Wellington is in New Zealand. Therefore, Wellington is in New Zealand.” — Douglas Walton
The assertion is that gpuccio's definition of dFSCI is circular. Have you given up that assertion in favor of another?
Walton’s syllogism is deductively sound, but proves nothing. The premise contains the conclusion.
Sigh. 1. It may be false that Wellington is in New Zealand. What then? 2. The 'Wellington' in the conclusion may not be the same 'Wellington' in the premise. What then? 3. The 'New Zealand' in the conclusion may not be the same 'New Zealand' in the premise. What then? For your edification: http://www.iep.utm.edu/val-snd/ Mung
Mark Frank:
Patrick of course you are right.
He's right about what? Mark Frank:
Gpuccio’s definition of dFSCI also includes that it must not arise from a necessity mechanism.
So? How does anything Patrick wrote follow from that? For example, Patrick writes:
My understanding from what others have posted is that a non-design source means that dFSCI is not present, by definition.
Which is completely and utterly false, but you can't even be bothered to correct it? Mark Frank:
The IDists would take it of evidence of design being implemented (it couldn’t happen by chance could it – the probability is too low!).
You're wrong. Incredibly low probability events happen all the time and we don't attribute them to design. dead lotto winner Mung
Drumroll. Steve
How many times do we have to tell you that?
Now I know you are not going to believe this, and perhaps it's just a coincidence, but the number of times is 267. Really. Is that totally weird, or what? Mung
toronto:
Yes, how many times have we all asked them to define ID without resorting to a negative position on evolution.
Intelligent Design is the (detection and) study of design in nature.- Wm Dembski And it just so happens that even if evolutionism did not exist, to get to the design inference we would still have to eliminate necessity and chance. And after doing that we would still have to see if the design criteria is met. That said, the DESIGN INFERENCE depends/ relies on the premsie that bind and undirected chemical processes cannot create the specific functional complexity required for living things. How many times do we have to tell you that? Joe
toronto:
“dFSCI” relies on the premise that evolution cannot create the specific functional complexity required for living things, i.e., “evolution can’t do it”.
No, it doesn't. 1. dFSCI as it is being presented and argued by gpuccio is not about OOL. He takes life as a given, just like evolution does. 2. When it come to the origin of life, evolution cannot explain it, because evolution requires living things. That has nothing to do with dFSCI. 3. dFSCI relies on how it is defined and measured, not on some premise about what evolution can or cannot do. It's an open question as to whether or not evolution can create the specific functional complexity required for living things whatever specific instance of dFSCI you care to talk about. So instead of arguing about how circular the definition of dFSCI is, why not pin gpuccio down on something he claims exhibits dFSCI, come to some agreement about whether given his definition of dFSCI it does in fact exhibit dFSCI, and if you get that far, demonstrate that it a false positive because it did in fact come about by Darwinian means. Mung
Mung:
We don’t need a designer. We can just invent a ‘law.’
Flashbacks of "The Island of Dr Moreau"-
What is the law? Not to eat meat, THAT is the law. Are we not men?
And the law that gave us upright bipeds:
Not to go on all fours, THAT is the law. Are we not men?
(hyena laugh, and fade...) Joe
Mung:
Not that really, many. 267, to be exact.
267, that's Tuesday squared, if I am not mistaken. And I'm not because I'm not wearing any underwear. :cool: Joe
Jerad:
What about my other, simple question: if a signal from space was detected that was on a constant frequency at a constant interval from a single location would it be a candidate for being SCI?
If it was a nice sine wave, it would be a good candidate.
Thank you for that clear and direct answer. It conflicts with KF’s but reasonable people disagree at times.
I don't think that it does conflict with KF as he was never given the option of a nice sine wave. Also perhaps you should read the following because it blows your claims away:
Consider pulsars - stellar objects that flash light and radio waves into space with impressive regularity. Pulsars were briefly tagged with the moniker LGM (Little Green Men) upon their discovery in 1967. Of course, these little men didn't have much to say. Regular pulses don't convey any information--no more than the ticking of a clock. But the real kicker is something else: inefficiency. Pulsars flash over the entire spectrum. No matter where you tune your radio telescope, the pulsar can be heard. That's bad design, because if the pulses were intended to convey some sort of message, it would be enormously more efficient (in terms of energy costs) to confine the signal to a very narrow band. Even the most efficient natural radio emitters, interstellar clouds of gas known as masers, are profligate. Their steady signals splash over hundreds of times more radio band than the type of transmissions sought by SETI.
No constant fequency with pulsars- they blast the spectrum.
If SETI were to announce that we're not alone because it had detected a signal, it would be on the basis of artificiality. An endless, sinusoidal signal - a dead simple tone - is not complex; it's artificial. Such a tone just doesn't seem to be generated by natural astrophysical processes. In addition, and unlike other radio emissions produced by the cosmos, such a signal is devoid of the appendages and inefficiencies nature always seems to add - for example, DNA's junk and redundancy.
And although Seth is mistaken, ID is looking for artificiality only. It's just that complex specified information is artificial. So if we receive it we wouldn't say- "Oh that ain't no simple sine wave, so even though it matches everything else we are looking fer, because it is too complex, it ain't from ET" Joe
How many mutations to get a mammalian inner ear from a reptilian jaw?
Not that really, many. 267, to be exact.
We infer a designer existed because we observe design in nature.
We don't need a designer. We can just invent a 'law.' Mung
Jared @700 on the other thread:
And based on what we know, observe, measure, define, is repeatable, has clear powers and limitations AND was clearly in effect at the time in question.
Are you claiming that the types of molecular variation that we empirically detect today within DNA was "clearly in effect" on earth a billion years ago? If so, where is your empirical evidence for that? CentralScrutinizer
Jerad:
Hang on. You raised a challenge, I turned it back on you, and you punted.
The challenge doesn't have anything to do with anything I have claimed. The challenge has everything to do with what YOU are claiming. So by trying to turn it back on me it exposes you as a poseur.
You don’t have an answer either Joe. Best to just admit it really.
No one has an answer. And that is just another reason why universal common descent ain't science. It makes for a good story, but please keep it out of science classrooms and science textbooks. Joe
Jerad, Stonehenge is different than plain ole stone circles. And if it didn't exist we would not think people from thousands of years ago were capable of building it. Also if we had proof the designer was around then we wouldn't have a design inference, design would be a given. IOW you are proving that you don't understand how science works. We infer a designer existed because we observe design in nature. And seeing that natural processes only exist in nature, they cannot account for its orgin, which science says it had. So we infer it was something other than nature that gave us nature. And in the end if your position had any evidence to support we wouldn't be talking about proving a designer. How many mutations to get a mammalian inner ear from a reptilian jaw? Any math, any formula, equation, landscape function algorithm, we can use to tell us? Joe
thanks alan. Mung
Jerad:
Ah well, gravity abides by a set law, it never varies from it’s rule.
So? And how do you know that? So, Jerad, you've never seen gravity. And yet you believe that it exists and that it's controlled by some invisible set law, which you've also never seen. And can I assume then that from the existence of this invisible set law that you also infer an invisible lawgiver? And your independent proof of this invisible lawgiver is?
What’s the rule, law for your designer?
What is the rule/law for your invisible lawgiver? And where did that rule/law come from? Is it invisible lawgivers all the way down for you? Mung
Is it really Jerad answering the question required to comment? Just wondering if he is human and what proof he might offer. The iPhone lady does a better job of conversing and exceeds his powers of reasoning I think. Sorry I can't award a smiley to him on this ether. and thank you Mung for your ability to showcase the inability to reason of such an ideologue. alan
Mung (35):
How do you know that human civilizations didn’t just suddenly appear on earth about 6,000 years ago? What makes you think human civilizations existed prior to then? What’s your independent proof human civilizations existed before human civilizations existed?
What's my proof human civilisations existed before human civilisations existed? I'll give you a chance to rephrase that. While I'll go to bed. I'd reword the whole paragraph myself. Jerad
gpuccio:
That’s correct. But it must also be functional, let’s remind that too.
According to keiths he can ignore that. According to him all those 'qualifiers' aren't needed to define dFSCI and the definition is still circular with or without them. I am still laughing. And laughing. oh my. I need to take a break and get control of myself. bbiab. MUWAHAHAHAHHAHAHAAHH!!!!!!! Mung
Mung (34):
Who said anything about inferring a designer?
You did by inferring design.
Here’s what I wrote: So yes, you can infer the cause if you observe the effect. Do you disagree that a cause can be inferred by it’s effects? Have you ever seen gravity? How do you even know it exists?
Ah well, gravity abides by a set law, it never varies from it's rule. What's the rule, law for your designer? What limitations does 'he' respect? How can we define 'him'? You want to do science? Then do science. Define a law or formula or criteria that your designer is limited by? Heck, Mung, just give us an idea of what designer you are talking about 'cause you've not been particularly forthcoming in what your hypothesis is to be honest. What kind of designer are you talking about? Jerad
gpuccio, Thank you and I see MY mistake:
3) No known necessity mechanism that cam explain that complexity
COMPLEXITY. Now perhaps it is just redundant-> complexity implies necessity cannot account for it(?). But whatever now I fully understand your point and what I said earlier does not apply. Thanks again. Joe
gpuccio, Try not to let them get under your skin. Now they are just venting because they have nothing of substance. Just ask if anyone has a serious argument to make once they are done bashing their straw-men. Mung
Petrushka: I keep forgetting. What is the procedure for correctly calculating or assessing dFSCI? What test or procedure rules out the possibility tha a protein domain started as a “random” string with a weak function and became optimized in just a handful of steps? No problem, I keep reminding it to you. It's not me who have to rule out an imaginary mechanism. It's you who have to show a real mechanism. Show the random string, demobstrate that it is common enough in a random library, and give us the naturally selectable intermediates, each giving a reproductive advantage in some living system. gpuccio
toronto:
Yes, how many times have we all asked them to define ID without resorting to a negative position on evolution.
Yet another great example of the sorts of things we have to deal with. ID claims to offer a better explanation for some features of living things. A better explanation than what? I'll give you one guess. So of course ID has to H into account. But P(H) is non-negative. Even keiths knows that! We give Darwinian evolution credit for what it can do. It just doesn't appear that it's able to do all that much. Now, just to see if you can get back on topic, in what way has gpuccio defined dFSCI in such a way as to resort to a negative position on evolution? Mung
Joe (33):
You just don’t get it. If your position could substantiate its claims then we wouldn’t be having this discussion as Newton’s Four Rules of Scientific Investigation say we do not add entities unnecessarily.
We can quit having this discussion any time. I'm happy to admit I'm right whenever you are.
Also we do not know that humans designed Stonehenge. We may infer it because allegedly they were around when it was built, but that doesn’t mean they did it. And if it wasn’t for Stonehenge’s existence we wouldn’t think that the people of that island could construct such a thing.
Are you serious? Really? Joe, you really, really need to read up on archaeology and stone circles. Seriously. Before you embarrass yourself.
No one has found any plans, nor documentation nor lab experiment.
Pertaining to independent evidence ofr a designer- the evidence for a designer from biology is independent from the evidence for a designer from cosmology with is independent from the evidence for a designer in astronomy which is independent from the evidence for a designer from physics, etc (chemistry, geology)
But they all suffer from the same common fallacy: inferring a cause with has not been proven to been in existence at the time. Joe! Guess what? I think alien astronauts designed the statues on Easter Island. I haven't got any evidence of aliens being around at the time except for these big statues which i can't explain. And I can't say for sure that the local humans weren't able to do it but I don't personally know how they did. What do you think? If we can't explain it within so many years then can we say it's ancient aliens? Jerad
Toronto: I am ot sure I understand your points, that seem to derive from discussions you had with others, and that I had not the time to follow. Your question: "Is “dFSCI” a characteristic of “information” or is it a characteristic of its source?" has no meaning for me, and no correspondence im ,y terminology. For me, dFSCI is a property od the object. Empirically, it is found only in designed objects. If you want to call that "a source", be my guest, but I can't see why. Least of all I can understand what you mean with being "independent of the source". Coud you explain, please? Finally, I would say that dFSCI is a metric only of itself. It is a categorized assessment of the information necessary to express a function. kairosfocus and Upright BiPed both claim “all possible strings of length x”. It would be interesting to see if gpuccio agrees with that. Yes, I agree, but it is an approximation. In principle, shorter or longer strings can express the function. But we assume that length x represents well enough the target space/search space ratio. To evaluate all possible strings, of any length, that can express the funtion as a target space, and all possible strings of any length as search space would be rather intractable. Only “a” depends on the string. No. The function, the target space and the search space all depend on the string. The threshold essentially depends on the probabilistic resources of the system (the time span by te number of states that can be tested for unit of time). Again, I don't understand what you mean with "the source". So if two strings, both of them complex, specific and functional enough to qualify as “dFSCI” before their origins are specified, with the only difference being one’s source was a “designer” and the second was a result of a “necessity mechanism”, they would both qualify as having “dFSCI”, even though only one was the result of an “intelligent designer”. They would both be assessed as having dFSCI. The first would be a true positive. The second (that has never happened) would be a false negative. dFSCI is assessed form the object (and the system). If the two objects are the same, and they appear in the same system, the assessment of dFSCI must necessarily be the same for both. If independent facts can attest a different origin for the two objects, thatwould imply what I have said: one is a true positive, the other a false positive. gpuccio
Joe (30):
And for DNA functional redundancy? And for transposons? And for redundant pseudogenes? And for ERVs? All those things are consistent with universal common descent. And that’s only part of the genetic evidence.
How do you know that is evidence for universal common descent? What part of UCD mandates protein functional redundancy?
I'm not about to spend post after post teaching you basic genetics. If you really want to know go do some reading.
What about the bio-geographic evidence? Why are lemurs naturally endemic to one island? I know you think lots and lots of life was pre-coded so . . . where is that coding and how does it limit lemurs to one island?
Your position can’t explain lemurs. So perhaps you should stop with your “Gish Gallop” and focus on that.
Absolutely my position can explain lemurs. A population of primates migrated to Madagascar and evolved in isolation from the mainland from which they were separated. Easy.
And if you don’t have any idea on the number of mutations it takes, then you don’t have science.
Do you know how many mutations it takes?
The point is there isn’t any evidence that any amount of mutational accumulation can account for the transformations required.
Hang on. You raised a challenge, I turned it back on you, and you punted. You don't have an answer either Joe. Best to just admit it really.
What about my other, simple question: if a signal from space was detected that was on a constant frequency at a constant interval from a single location would it be a candidate for being SCI?
If it was a nice sine wave, it would be a good candidate.
Thank you for that clear and direct answer. It conflicts with KF's but reasonable people disagree at times. Jerad
Mark: In what sense was the protein correctly assessed? You thought there was no necessity mechanism and it turns out there was! How can this be a correct assessment? Please, read again my post #20. And read all! "I will be more clear. But I must say, before going on, what I consider a correct assesment of dFSCI: a) The function must be defined explicitly, and must be objectively measurable. b) The threshold must be appropriate for the sytstem being considered, and for its probabilistic resources. c) The target space/search space ratio must be approximated as well as possible, and must be credible. d) All strings that exhibit high regularity and compressibility should not be considered as exhibiting dFSCI, just to be cautious. Those output can be very likely explained by necessity mechanisms. e) For all strings whose formal appearance is of the “pseudo-random” type, with no apparent order or regularity, we can usually infer dFSCI with safety, if all other conditions are present. However, a thorough consideration of the laws that act in the system must be done, and we must be reasonably sure that those laws have no special connection with the specific string we are considering. If all these conditions are well satisfied, I consider the assessment of DFSCO as correct. As you can see, there is a lot of work to be done to assess a property that you label as “redundant” and “unnecessary”. Now, I do believe that if all those properties are satisfied, no future explanation will ever be found for that dFSCI, except obviously design. That is not a defintion, nor an inference, nor a fact, just to be clear. Let’s call it “a prediction”. Empirical experience will confirm that prediction, or will falsify it. It is not so strange, after all. Even Mark has admitted that he does not really believe that any future necessity mechanism will ever be found to explain that sonnet. Let’s say that I am as sure that no mechanism will ever explain protein domains, as Mark is that no mechanism will ever explain the sonnet. So, let’s say that if such a mechanism is credibly shown, I will consider my theory falsified." This is the sense in which the protein is correctly assessed: we must follow the procedures as I have outlines them. We are confident that, if those procedures are sollowed, no necessity mechanism will be discovered in the future that can explain the string that was assessed as exhibiting dFSCI. Obviously, if that should happen, it is a falsification of the concept or the procedure (or both). What's your problem? gpuccio
Keiths: Are you completely mad? What you say has no meaning.
You only infer design when RV and ‘necessity mechanisms’ have been ruled out. That will create some false negatives, but it’s better to have false negatives than false positives, as you have pointed out. So every functional sequence falls into one of three categories: 1) simple enough to have been produced by RV (and, of course, design) 2) too complex for RV, but could have been produced by ‘necessity mechanisms’ (and, of course, design) 3) out of reach for RV and ‘necessity mechanisms’, so could only be produced by design
But what are you saying here? This is nonsense! A thing is designed if, and only if, a conscious intelligent agent outputted his representation to the object to purposefully shape it! This is the definition of design. A thing is not considered designed if it is "out of reach for RV and ‘necessity mechanisms’, so could only be produced by design". What stupid definition is this? A thing is designed if someone designs it. It is not designed if nobody has designed it. Period. Being designed has nothing to do with RV, necessity or anything else. Design is only inferred if the tests for #1 and #2 are not satisfied, meaning we “fall through” to the default, which is #3 — design. Absolutely not! Again, you must be mad. After all, you could not be a liar, and I eill have to apologize. In the tests, the origin (design or not design) is not inferred: it is known before the tests, becaise the history of the strings is known. So again, are you simply mad?
Now look at your criteria for establishing the presence of dFSCI: a) High functional information in the string (excludes RV as an explanation) b) No known necessity mechanism that can explain the string (excludes necessity explanation) So dFSCI is attributed to a sequence if it can’t be explained by RV or necessity mechanisms.
That's correct. But it must also be functional, let's remind that too.
But we saw earlier that design is attributed to a sequence if it can’t be explained by RV or necessity mechanisms.
No. Absolutely not. You said those silly things, because apparently you have understood absolutely nothing of the discussion, and still go on patronizing everyone! I don't know if you are mad, but you are certainly very arrogant. It's only you, in your confused mind, that attribute design in the same way that I attribute dFSCI. Of course you conclude that it is circular! This is a farce. The origin of a string is a fact, that can be observed. In the testing phase, we only use strings whose origin has been observed to test the specificity of dFSCI (obviously, in blind). It's only in the application of dFSCI to strings whose origin is not known that we make an inference: from the property of dFSCI (observed in the object) to an inference of a design origin (inference of a fact). No circularity. And if you really don't understand it now, what should I think of you? Please, answer to this and only to this, next time. gpuccio
Mung (29):
In which case there could have been multiple meteors and multiple aliens with lunchboxes, and life could have been seeded on earth at independent times and places, and evolutionary theory is perfectly consistent with that. Yes. We know that. Now think about what that means for your argument.
It could have happened that way. The important thing is that a basic replicator got a foothold on earth. It doesn't really change anything to be honest. What have you got in contrast? Aside from bitching and moaning? Jerad
Mung: So evolutionary theory includes a theory about how body plans develop? Do tell. Jerad: Yes it does. What is it? Do tell. Jerad:
Why are you asking me really basic questions about evolutionary theory when I thought you were well versed in the topic?
Because I don't believe you. All this talk from kf asking about where body plans come from and this is the first time I can recall seeing you say evolutionary theory explains where body plans come from. That and that new body plans aren't all that hard to come by because they are all very close together in the configuration space. I'm just really curious about where you're getting this information from and why you haven't brought it up before.
Living systems don’t do random searches across whole configuration spaces to find new body plans.
So how much of the space do they need to search in order to find a new body plan and how do you know? Mung
Mung (28):
Wishful thinking is no a substitute for evidence and arguments.
I could say the same for ID.
You’d certainly like them to be more likely. In fact you need them to be more likely. But what is your evidence that they are more likely? Please provide independent proof! You’re wishing it was so does not make it so.
Please answer a question or two and then please provide a viable, consistent, coherent, parismonious hypothesis instead of just bitching and moaning. Jerad
Mung (27):
Given random mutations, what is constraining the search to only a small subset of the configuration space?
I don't think you're really addressing the evolutionary theory seriously.
Living systems don’t do random searches across whole configuration spaces to find new body plans.
Well, duh! Living systems already have a body plan. So they don’t need to go off looking for one. Are you saying you believe in special creation? If not, where did those body plans come from?
I tell you what Mung. Why don't you address the whole issue with P(T|H) first. Tell us all whether or not you were right about that. You do that and then I'll address your questions. Deal? Jerad
Joe: The elimination of obvious necessity mechanisms is necessary to eliminate compressible strings, or any other ordered output that can be explained by necessity. It is the first step in KF's algorithm, it is an essential part of Dembski's explanatory filter. My idea is that what can be explained by necessity is not complex. That's why I put point 3 in the definition. KF puts it at the beginning. There is no difference. This has nothing to do with the philosophical question that darwinists pose: but if one day a necessity mechanism were found... For pseudo-random strings, that mechanism will never be found, because necessity cannot generate that kind of strings. And, as I have explained, if it were found it would falsify the whole dFSCI procedure. The complexity in pseudo random strings is tied to the fact that they cannot be generated by any simple computation, and therefore a high number of bits is required to express the function. I insist that a string of 500 heads does not exhibit dFSCI: it is highly compressible, and it can easily be generated in a natural system. In the same way, a gene made of 300 identical nucleotides does not exhibit dFSCI: it can be easily generated in the lab, from a pool with only one nucleotide available. So, necessity mechanisms must be excluded in the definition, because otherwise we are not sure of the complexity, and we cannot make the inference. gpuccio
Mung (27):
So evolutionary theory includes a theory about how body plans develop? Do tell. (Not by intelligent design doesn’t count as a theory.) Is there a configuration space? Is there a random walk?
Yes it does. Why are you asking me really basic questions about evolutionary theory when I thought you were well versed in the topic? You tell me: is there a configuration space? Is there a random walk? And why haven't you answered my simple question: if we detect a periodic signal from space at a constant frequency and location is it a candidate for SCI? Jerad
Hi Jerad, How do you know that human civilizations didn't just suddenly appear on earth about 6,000 years ago? What makes you think human civilizations existed prior to then? What's your independent proof human civilizations existed before human civilizations existed? Mung
Jerad:
Sure, if you know there’s deer around at the time.
Here you are once again being intellectually dishonest. If you can't be trusted to be honest there's not much point in debating you. You wrote:
I’m happy to draw inferences to causes known to be operating at the given time or reasonably likely to have been operating at the given time.
You flip flop back and forth in order to immunize yourself against reason. Given deer tracks, it's reasonably likely there was s deer around at the time. Given your own words, this should be enough for you. But when it comes to ID, you want to change the rules.
Do you know there was a designer around when you’re inferring one?
Who said anything about inferring a designer? Here's what I wrote:
So yes, you can infer the cause if you observe the effect.
Do you disagree that a cause can be inferred by it's effects? Have you ever seen gravity? How do you even know it exists?
But you don’t know if there was a designer around at the pertinent time.
So? I don't need to know a designer was around. I look up in the sky and see a contrail. Do I need to know a jet was around at the time before I can make an inference as to what caused the contrail? Do I need to go find independent proof that a jet was around? The answer is no, I don't. You know it, I know it, and everyone reading this thread knows it. Your requirements are bogus.
Prove the cause exists AND is present at the given time if you want to compete with theories which don’t require special pleading.
There's no alternative theory that I'm aware of. Do you have one that you're willing to put forward and defend? We all already know the answer to that question. So, again, intellectual dishonesty. And as I said, even if there is a competing theory that doesn't invalidate the inference we've made. Do you have a counter-argument?
You’re assuming there was a designer around with no independent evidence for one.
That's simply false. I'm making no such assumption. So I don't need independent evidence for some assumption I'm not making.
Show me some physical evidence that a designer was present. Some artefacts. Some living quarters. Some lab equipment. Some documentation.
Those things are not causes. So how on earth would they provide independent proof? I've got no physical evidence that you exist. You've produced no artifacts. I've never seen your living quarters. I've never seen your computer or any documentation proving you exist or even have an internet account. Like I said earlier, you are being completely unreasonable. Mung
Jerad, You just don't get it. If your position could substantiate its claims then we wouldn't be having this discussion as Newton's Four Rules of Scientific Investigation say we do not add entities unnecessarily. Also we do not know that humans designed Stonehenge. We may infer it because allegedly they were around when it was built, but that doesn't mean they did it. And if it wasn't for Stonehenge's existence we wouldn't think that the people of that island could construct such a thing. No one has found any plans, nor documentation nor lab experiment. Pertaining to independent evidence ofr a designer- the evidence for a designer from biology is independent from the evidence for a designer from cosmology with is independent from the evidence for a designer in astronomy which is independent from the evidence for a designer from physics, etc (chemistry, geology) Joe
Mung (26):
You can’t infer to something if you’re not sure it was there…
Yes, you can. If you observe the effects, you can infer something was there. e.g., deer tracks.
Sure, if you know there's deer around at the time. Do you know there was a designer around when you're inferring one?
You can’t infer to something if you’re not sure it was there…
We’re not inferring some thing. We’re inferring a cause known to be capable of producing the effect. So yes, you can infer the cause if you observe the effect. That’s how science works.
But you don't know if there was a designer around at the pertinent time.
You can’t infer to something if you’re not sure it was there when there’s other theories which explain the phenomena which do not require that assumption.
What assumption? No one is making any assumption here.
You're assuming there was a designer around with no independent evidence for one.
You can’t infer to something if you’re not sure it was there when there’s other theories which explain the phenomena which do not require that assumption.
So if there’s no competing theory which explain the phenomena, you can in fact infer to something, even if you’re not sure it was there? And what’s the competing theory for the system KF described, the system that must have been in place for your common descent theory to even be tenable? And if there is none, we’re warranted in inferring design for OOL?
If there's no competing theory then you can try but it's still just a hypothesis and one that needs more evidence. The competing theory is the modern evolutionary synthesis.
You can’t infer to something if you’re not sure it was there when there’s other theories which explain the phenomena which do not require that assumption.
Yes, you can. Then you’d just have two competing theories. But I can’t imagine what that other theory would look like if it too wasn’t operating on inference from effect to cause. Can you give an example?
Of course you'd be operating on effect to cause but to a cause known to be present at the time!!
I’m happy to draw inferences to causes known to be operating at the given time or reasonably likely to have been operating at the given time. As you say, that’s a common method of reasoning in many fields.
If the effect is there, then the cause is known to have been operating at the given time or reasonably likely to have been operating at the given time.
Nope. Erich von Daniken hypothesised ancient astronauts. Wrong. N-rays. Wrong. Ether. Wrong. Prove the cause exists AND is present at the given time if you want to compete with theories which don't require special pleading.
But only in ID are people inferring to a cause that has no independent proof of being in existence at the time in question.
Independent proof? That’s your standard? So in addition to being able to infer the cause from the effect you need independent proof? Proof of what? How do you propose that we separate the cause from the effect such that we can establish independent proof of the cause? You are being completely unreasonable. Once again, your intellectual dishonesty is showing through.
Show me some physical evidence that a designer was present. Some artefacts. Some living quarters. Some lab equipment. Some documentation. We separate the cause from the effect all the time. I'm not being unreasonable when you're asking me to accept an undefined and unobserved designer who did something at some undefined time at some undefined place for some undefined reason. Hey, Mung! I think there's an alien spacecraft that's shadowing the Voyager spacecraft which is exerting a small gravitational pull on it which explains why it's travelling slightly slower than we expect it to. Would you buy that explanation? We know that kind of gravitational effect would work. We know how to build spacecraft. It's a hypothesis. Hey, Mung! I've detected a regularly occurring radio signal from a constant point in space at a fixed frequency. I think it's an alien distress call, a homing beacon. It's the kind of homing beacon our ships and craft send out. We can conceive of doing that kind of thing. It's a hypothesis. Erich von Daniken convinced a lot of people that the lines at Nazca were created by alien astronauts. We have astronauts. We can make spaceships and flying craft. It's a hypothesis. I'm gonna need more evidence before I buy into those things. Jerad
gpuccio:
So, what is in the definition? 1) A functional specification 2) High digital complexity linked to that specification 3) No known necessity mechanism that cam explain that complexity Is that OK?
I would think 3) should be in the inference. If we see 1) and 2) we infer design because of 3) and 4) If we observe 1) and 2) and it turns out that some necessity mechansim produced it, it does not stop having "a functional specification and High digital complexity linked to that specification"- a bacterial flagellum is still a specified functional thingy regardless of how it came to be that way. It doesn't stop exhibiting dFSCI if natural selection didit. However dFSCI does stop being a design indicator if that is ever demonstrated. It would either be dFSCI is no longer a design indicator of dFSCI doesn't exist. Because if you say that if a necessity mechanism produced it, it ain't dFSCI even though it meets the criteria, then you do have a circular definition. Joe
Jerad:
No genetic evidence?
Non that supports the transformations required are even possible. Do try to stay focused.
So what’s your explanation for protein functional redundancy?
What does that have to do with what I said about the transformations required?
And for DNA functional redundancy? And for transposons? And for redundant pseudogenes? And for ERVs? All those things are consistent with universal common descent. And that’s only part of the genetic evidence.
How do you know that is evidence for universal common descent? What part of UCD mandates protein functional redundancy?
What about the bio-geographic evidence? Why are lemurs naturally endemic to one island? I know you think lots and lots of life was pre-coded so . . . where is that coding and how does it limit lemurs to one island?
Your position can't explain lemurs. So perhaps you should stop with your "Gish Gallop" and focus on that. And if you don’t have any idea on the number of mutations it takes, then you don’t have science.
Do you know how many mutations it takes?
The point is there isn't any evidence that any amount of mutational accumulation can account for the transformations required.
What about my other, simple question: if a signal from space was detected that was on a constant frequency at a constant interval from a single location would it be a candidate for being SCI?
If it was a nice sine wave, it would be a good candidate. Joe
Jerad:
Like I’ve said: as far as evolutionary theory is concerned, that first basic replicator could have ridden in on a meteor. Or fallen out of a alien visitor’s lunch box.
In which case there could have been multiple meteors and multiple aliens with lunchboxes, and life could have been seeded on earth at independent times and places, and evolutionary theory is perfectly consistent with that. Yes. We know that. Now think about what that means for your argument. Mung
Jerad:
I think the ‘functional’ configurations are much more likely than you’re guessing in your model.
Wishful thinking is no a substitute for evidence and arguments. You'd certainly like them to be more likely. In fact you need them to be more likely. But what is your evidence that they are more likely? Please provide independent proof! You're wishing it was so does not make it so. Mung
Jerad:
Your argument is based on a random search of a whole configuration space. And that’s NOT how new body plans are developed according to evolutionary theory so the argument is not applicable for anything after the first basic replicator as an argument against universal common descent with modification.
So evolutionary theory includes a theory about how body plans develop? Do tell. (Not by intelligent design doesn't count as a theory.) Is there a configuration space? Is there a random walk?
Your argument is based on a random search of a whole configuration space.
It's not possible to search the whole space! So no, that's not his argument.
...and so there’s no need or cause to search the whole configuration space then either.
Given random mutations, what is constraining the search to only a small subset of the configuration space?
Living systems don’t do random searches across whole configuration spaces to find new body plans.
Well, duh! Living systems already have a body plan. So they don't need to go off looking for one. Are you saying you believe in special creation? If not, where did those body plans come from? Mung
Jerad:
You can’t infer to something if you’re not sure it was there...
Yes, you can. If you observe the effects, you can infer something was there. e.g., deer tracks.
You can’t infer to something if you’re not sure it was there...
We're not inferring some thing. We're inferring a cause known to be capable of producing the effect. So yes, you can infer the cause if you observe the effect. That's how science works.
You can’t infer to something if you’re not sure it was there when there’s other theories which explain the phenomena which do not require that assumption.
What assumption? No one is making any assumption here.
You can’t infer to something if you’re not sure it was there when there’s other theories which explain the phenomena which do not require that assumption.
So if there's no competing theory which explain the phenomena, you can in fact infer to something, even if you’re not sure it was there? And what's the competing theory for the system KF described, the system that must have been in place for your common descent theory to even be tenable? And if there is none, we're warranted in inferring design for OOL?
You can’t infer to something if you’re not sure it was there when there’s other theories which explain the phenomena which do not require that assumption.
Yes, you can. Then you'd just have two competing theories. But I can't imagine what that other theory would look like if it too wasn't operating on inference from effect to cause. Can you give an example?
I’m happy to draw inferences to causes known to be operating at the given time or reasonably likely to have been operating at the given time. As you say, that’s a common method of reasoning in many fields.
If the effect is there, then the cause is known to have been operating at the given time or reasonably likely to have been operating at the given time.
But only in ID are people inferring to a cause that has no independent proof of being in existence at the time in question.
Independent proof? That's your standard? So in addition to being able to infer the cause from the effect you need independent proof? Proof of what? How do you propose that we separate the cause from the effect such that we can establish independent proof of the cause? You are being completely unreasonable. Once again, your intellectual dishonesty is showing through. Mung
Jerad:
...do I get a prize for dragging things out to the third incarnation?
You get a prize. Let's just leave it at that. ;) Mung
KF (22):
Forgot, a signal that is regular would most plainly be attributed to unknown natural cause as the contingency is low. What would be attributed as designed by the EF is a complex aperiodic and plainly functional signal. Remember, false negatives would be cases of design not detected on grounds that there is not sufficient indication of design. Better to toss the little ones back. Back to crashes, incidents and reports, sigh.
Thank you for giving a direct and clear answer. I agree with you and I left out functional intentionally obviously. I hope things are starting to calm down. We're having a big upheaval here in England regarding a now deceased (rather famous) individual who apparently was a serial abuser and he was for decades without anyone getting his behaviour looked into. It's gonna be a while before this works through. Jerad
KF (22):
How many times have I had to point out to you that if you opt for a blindly selected subspace, then you are looking at searching, not the original space blindly, of magnitude W, but its POWER SET, of magnitude 2^W. For the space of 1,000 bits, there are W = 1.07*10^301 possibilities. The search in the power set, gives you the need to explain searching a secondary space so big that its log to base 2 is 1.07*10^301, expressed in decimal digits.
Good thing I'm not opting for that then eh?
In short, you have substituted a much harder second order search. Compared to that, the original search is a conservative estimate.
Good thing I'm not making that substitution then.
The alternative is to already be in the target zone, which leaves the zone unexplained, or to have intelligent choice of the zone of search, which is what you do not want.
The first basic replicator wouldn't be the first basic replicator if it weren't already in a 'target zone', exactly. You don't have to do a search for a zone of search! Like I've said: as far as evolutionary theory is concerned, that first basic replicator could have ridden in on a meteor. Or fallen out of a alien visitor's lunch box. I think those options just push the problem back but they are possibilities. Whatever, first basic replicator that uses our genetic code appears. . . you're on a big island of function (if there is more than one) and life starts covering it with life forms. Simple. No 'islands of function'. Just universal common descent with modification. How did the first basic replicator arise? I don't know. I don't think you have to search a huge configuration space (or it's power space) to get there though. Some chemical bonds aren't gonna happen. Not all configurations are 'sampled'. Some bonds will build on themselves and each other. It's a problem, I agree. People are working on it. They haven't figured it out yet. But I disagree that it's time to throw in the towel and say it couldn't have happened via necessity. Or chance. We don't know yet. I am not dodging the issue, I am saying we don't know. We don't even know what that first basic replicator looked like. You envision it to be too complicated to have arisen via chance or necessity but how do you know that if you don't know what it was? The alternative to design is NOT random searches on huge configuration spaces. You can make that argument as long as you like but you're not attacking evolutionary theory. That's not what evolutionary theory is saying. As far as I know no one is making that argument for the very reasons you lay out. Jerad
Jerad: How many times have I had to point out to you that if you opt for a blindly selected subspace, then you are looking at searching, not the original space blindly, of magnitude W, but its POWER SET, of magnitude 2^W. For the space of 1,000 bits, there are W = 1.07*10^301 possibilities. The search in the power set, gives you the need to explain searching a secondary space so big that its log to base 2 is 1.07*10^301, expressed in decimal digits. In short, you have substituted a much harder second order search. Compared to that, the original search is a conservative estimate. The alternative is to already be in the target zone, which leaves the zone unexplained, or to have intelligent choice of the zone of search, which is what you do not want. KF PS: You are again missing out evidence of common design, and until you can soundly address the OOL-common ancestral cell problem on blind chance and mechanical necessity, you do not have even the root for the proposed tree of life. Forgot, a signal that is regular would most plainly be attributed to unknown natural cause as the contingency is low. What would be attributed as designed by the EF is a complex aperiodic and plainly functional signal. Remember, false negatives would be cases of design not detected on grounds that there is not sufficient indication of design. Better to toss the little ones back. Back to crashes, incidents and reports, sigh. kairosfocus
Petrushka: All that is necessary to invalidate gpuccio’s claim regarding diabetes is one false positive. Same for dFSCI. Which is why I think he is reluctant to give a specific example. The state of research is shifting rapidly, and protein evolution is at the center of a lot of research. Well, I am not affirming that glycemia has exactly 100% specificity. I made that example just to ahow that there in no circularity in that kind of statement. They can be right or wrong, but they are not circular. I don't really believe that hyperglicemia has 100% specificity for diabetes, but at that thershold (300 mg/dl, if I remember well) it must be pretty near. This is another important point: the high specificity can in many cases easily be obtained by setting the diagnostic threshold, but that implies having more false megatives. That's exactly what we do in ID with CSI. That's what I was suggesting with my example of a 100 mg/dl threshold for diabetes. It seems rather odd that gpuccio would cite medical diagnosis as the prototype for diagnosing design. It has not been too long since medical conditions were considered caused by spirits or were punishment for sin. Diagnosis is a poster child for leaky bucket classification. Maybe because I am a medial doctor? However, I can probably share with you many criticisms about my category :) _____ GP you have more than earned the recommendation of all concerned at UD as a first rate practitioner. And BTW, judging by differences in Luke's diagnostic remarks [which distinguish natural and supernatural causes of similar complaints], it seems P is at least 2,000 years out of date attributing such diagnoses across the board to physicians. KF gpuccio
Joe Felsenstein: Thank you for a post that makes sense (I don't think your previous one did). The definition of dFCSI is not circular. Something has dFCSI if it has enough functional information that this cannot have arisen by random processes like mutation, and if that functional information cannot be explained by deterministic processes (which include natural selection). So far nothing circular about that. I am happy that somebody can still use reason correctly.
Drawing from the presence of dFCSI a conclusion that a genotype is the result of Design is * redundant. We already concluded that it cannot be explained by nonintelligent natural processes, which leaves only Design, * unnecessary. For the same reason. * circular, because we used property X of a genotype to conclude that dFCSI was present in it, but then used the presence of dFCSI in that genotype to conclude that it has property X. (Property X is the our inability to explain the genotype’s presence by random or by nonintelligent deterministic means).
Well, the first points are frankly nonsense: a) We infer design exactly because we have concluded that dFSCI is present. The fact that something is unlikely as a random output and is not explained by a necessity mechanism does not logically imply that it is designed. Many designed things could in theory originate for RV, or from a necessity mechanism, if they are simple enough. And we don't know hoe a designer generates things with high functional complexity. Therefore, the connection between dFSCI and a design origin cannot be given fro granted on logical grounds: it must be based on empirical observation, the observation that DFSCI detects design with 100% specificity in all cases where the true historical origin can be ascertained. For the same reason dFSCI is not unnecessary at all. WE must distinguish between simple biological molecules, that can be explained by RV or bnevessity, and highly complex polymers that cannot. We cannot just look at them and decide, we need a metrics. Now, the "circular". You have alredy conceded that the definition is not circular. Thank you for that. So, what is in the definition? 1) A functional specification 2) High digital complexity linked to that specification 3) No known necessity mechanism that cam explain that complexity Is that OK? Now, what is in the inference? 4) The empirical observation that all strings for which we assess dFSCI as present have a designed origin. What in 4) is logically implied by the definition? Nothing. To have a design origin us a fact that is ascertained by empirical observation. It is not a property of the object. It is not an inference. It is not a deduction. It is an observable fact. We observe, by experience, a strong connection (with 100% specificity) between the property of exhibiting dFSCI (that is, point 1,2 and 3), and the fact of having origin in a design process. No circularity, as everybody can see. Now, please, if you go on using the word "circularity", please explain what is wrong in what I have said. As everyone can see, your statement: "but then used the presence of dFCSI in that genotype to conclude that it has property X." is completely wrong. We use property X to infer origin O. Why do you say something completely different, after I have cleraly specified this point a lot of times in the last few days? Is it a misunderstanding on your part? Simple mental confusion on your part? A simple lie on your part? I don't know any more. You tell. I see that gpuccio is quite angered by characterizations like the above and is calling some of the people who make them liars. Yes, I am. If we could come up with even one case in which there was a “known” case of dFCSI that resulted from natural selection, then this would be a Big Problem for the use of dFCSI to infer Design. That's true. But “known” to who? I would say that a simple GA case with enough genes will bring about dFCSI. (But gpuccio rejects GAs as examples, on what I think are insufficient grounds). Yes, I reject them. But that's not the point. I have inferred dFSCI explicitly for many protein domains (all those that, in Durston't paper, exhibit more than 150 bits of functionla information). I am taking my risks. If you can show a credible, detailed explanation for any of them, I will promptly admit that all my theory about the application of dFSCI to biological information has received a very hard, maybe mortal, blow. In any case, if someone does come up with a natural selection mechanism to explain the presence of a putative case of dFCSI, does that case then automatically become not a case of dFCSI? This is a good question, and it deserves a clear answer, also because I have seen a lot of discussion about that, most of it very confused. First of all, I must say that dFSCI is for me a property of the object, which cab be objectively assessed in the object. However, it is not just "observed" in the object, because it is a complex property that needs an assessment through an integrated judgement. If that judgment is given correctly, according to the definition, I would say that any successive falsification of that judgement is a falsification of the utility of dFSCI itself, IOWs, the demonstration of a false positive. I will be more clear. But I must say, before going on, what I consider a correct assesment of dFSCI: a) The function must be defined explicitly, and must be objectively measurable. b) The threshold must be appropriate for the sytstem being considered, and for its probabilistic resources. c) The target space/search space ratio must be approximated as well as possible, and must be credible. d) All strings that exhibit high regularity and compressibility should not be considered as exhibiting dFSCI, just to be cautious. Those output can be very likely explained by necessity mechanisms. e) For all strings whose formal appearance is of the "pseudo-random" type, with no apparent order or regularity, we can usually infer dFSCI with safety, if all other conditions are present. However, a thorough consideration of the laws that act in the system must be done, and we must be reasonably sure that those laws have no special connection with the specific string we are considering. If all these conditions are well satisfied, I consider the assessment of DFSCO as correct. As you can see, there is a lot of work to be done to assess a property that you label as "redundant" and "unnecessary". Now, I do believe that if all those properties are satisfied, no future explanation will ever be found for that dFSCI, except obviously design. That is not a defintion, nor an inference, nor a fact, just to be clear. Let's call it "a prediction". Empirical experience will confirm that prediction, or will falsify it. It is not so strange, after all. Even Mark has admitted that he does not really believe that any future necessity mechanism will ever be found to explain that sonnet. Let's say that I am as sure that no mechanism will ever explain protein domains, as Mark is that no mechanism will ever explain the sonnet. So, let's say that if such a mechanism is credibly shown, I will consider my theory falsified. You ask: but then, has the protein still dFSCI? The answer is, this time, really useless. The protein had dFSCI correctly assessed. With all the available knowledge, it exhibited dFSCI. If a non design explanation is found, this is and remains a false positive. I hope the answer is clear enough. That is what the explanation above, immediately after gpuccio’s question, was assuming. My guess is that the answer is “yes”. And if so, then the argument really is circular. Well, I have not answered "yes", but I would like to add that if I had, the argument would not have become "circualr", but certainly "weaker". dFSCI is a disgnostic procedure. We must assess its specificity by applying it as it is. Any future development that can come into existence can only affect our judgement on that evaluation. I must remind you that we assess the specificity of dFSCI by strings whose origin is known. When we apply it to strings whose origin is not know, we can only "assume" that it will show the same specificity. IOWs, we are making an inference, not a deduction. Ther is not absolute certainty in an inference. If future developments undermine the validity of our inference, we have to admit that our tool did not show, in the applied field, the same specificity we observed in the testing phase. Just wanted to give my own answer to gpuccio’s question. I am saddened that all that gpuccio could make of my previous comment was that “Joe Felsenstein, I must say with great regret, is beyond any sense.” That was referred to your previous post. With all respect, I will maintain that judgement. I am well aware of the limitations of my ability to explain things, but I have written textbooks, including the standard text on inference of phylogenies. Reviews of my writings usually call then “clear” even when I’d prefer to have them called “elegant” or “inspiring”. But “clear” is the adjective people use most often. I fancy my previous couple of comments to have been clear, and am sorry if gpuccio thinks that they are “beyond any sense”, or that I myself am “beyond any sense”. We can have different opinions. This last comment of yours was very clear. I’m also grateful for gpuccio’s conclusion in an earlier case that “At least you have avoided an explicit lie.” Gee, thanks. You're welcome! gpuccio
Joe )18):
No, it doesn’t. There isn’t any genetic evidence that suports the alleged transformations. The fossil evidence shows fish->tetrapods-> fish-a-pods- out of sequence.
No genetic evidence? So what's your explanation for protein functional redundancy? And for DNA functional redundancy? And for transposons? And for redundant pseudogenes? And for ERVs? All those things are consistent with universal common descent. And that's only part of the genetic evidence. What about the bio-geographic evidence? Why are lemurs naturally endemic to one island? I know you think lots and lots of life was pre-coded so . . . where is that coding and how does it limit lemurs to one island?
And if you don’t have any idea on the number of mutations it takes, then you don’t have science.
Do you know how many mutations it takes? What about my other, simple question: if a signal from space was detected that was on a constant frequency at a constant interval from a single location would it be a candidate for being SCI? Jerad
Jerad:
Because the fossil and genetic and morphologic and bio-geographic evidence all point to that.
No, it doesn't. There isn't any genetic evidence that suports the alleged transformations. The fossil evidence shows fish->tetrapods-> fish-a-pods- out of sequence. And if you don't have any idea on the number of mutations it takes, then you don't have science. Joe
Joe (15):
How do YOU know universal common descent is correct?
Because the fossil and genetic and morphologic and bio-geographic evidence all point to that. And when you take them all together the inference is pretty much a lock.
How many mutations to get an upright biped from a knuckle-walker/ quadraped?
No idea. What don't you ask him? :-) No offence Upright BP, I couldn't resist. No one knows Joe. And even if we found A path or way it could happen that doesn't mean it did happen that way. Jerad
KF (OP):
Really! You have repeatedly been advised that we are addressing inference on empirically reliable sign per patterns we investigate in the present. Surely, that we see that reliably, where there is a sign, we have confirmed the presence of the associated cause, is an empirical base of fact that shows something that is at least a good candidate for being a uniform pattern. We back it up with an analysis that shows on well accepted and uncontroversial statistical principles, why this is so. Then we look at cases where we see traces from the past that are comparable to the signs we just confirmed to be reliable indices. Such signs, to any reasonable person not ideologically committed to a contrary position, will count as evidence of similar causes acting in the past. But more tellingly, we can point to other cases such as the reconstructed timeline of the earth's past where on much weaker correlations between effects and putative causes, those who object to the design inference make highly confident conclusions about the past and in so doing, even go so far as to present them as though they were indisputable facts. The inconsistency is glaringly obvious, save to the true believers in the evo mat scheme.
I'm happy to draw inferences to causes known to be operating at the given time or reasonably likely to have been operating at the given time. As you say, that's a common method of reasoning in many fields. But only in ID are people inferring to a cause that has no independent proof of being in existence at the time in question. That does not follow from common practice. Eric von Daniken tried something like that: look, these objects are very complicated and we don't know how to make them (which wasn't true by the way) so I can hardly imagine our ancient ancestors would have known how. It must have been some aliens from other planets! Here's a picture which I think looks like a spaceship. You can't infer to something if you're not sure it was there when there's other theories which explain the phenomena which do not require that assumption. Jerad
Jerad:
Living systems don’t do random searches across whole configuration spaces to find new body plans.
Right because there isn't any such search. How do YOU know universal common descent is correct? How many mutations to get an upright biped from a knuckle-walker/ quadraped? Joe
Toronto:
DNA has “dFSCI” and there is no evidence of a “designer” being involved.
DNA has all the hallmarks of design INCLUDING the fact that there isn't any "necessity mechanism" that can produce it.
Our capabilities as designers have hit a wall when it comes to biology.
And that means the designer9s) of biology had capabilities greater than ours. And our capabilities have proven to be greater than any "necessity mechanism".
Since as designers we have failed to design life-forms, that suggests that life-forms are not designable by methods that we understand.
So what? We already understand that "necessity mechanisms" are useless wrt designing anything.
Since we have failed to design life-forms, why would we accept that they are designable by anyone, much less an unseen entity that left no records of having done so?
Because living organisms fit the design criteria. And the design is evidence for the designer, just as it is with archaeology, forensics and SETI. But nice to see that you are trying to change the subject... Joe
KF (OP):
You know better, a lot better. You full well know that we are looking at complexity AND specificity that confines us to narrow zones T in wide spaces of possibilities W such that the atomic resources of our solar system or the observed cosmos will be swamped by the amount of haystack to be searched. Where you have been given the reasoning on sampling theory as to why we would only expect blind samples comparable to 1 straw to a hay bale 1,000 light years across (as thick as our galaxy) will reliably only pick up the bulk, even if the haystack were superposed on our galaxy near earth. Indeed, just above you had opportunity to see a concrete example of a text string in English and how easily it passes the specificity-complexity criterion.
Living systems don't do random searches across whole configuration spaces to find new body plans. I don't know where this idea comes from. You're assuming universal common descent is not true and then coming up with an argument why 'islands of function' are too hard to find via a random search. How do you know universal common descent is not correct? Let's start with that. Jerad
Jerad:
Ah but the people listening to signals from space did hear something that was confined to a frequency and to a modulation pattern.
When? Not pulsars... Joe
KF (OP):
You know or full well should know, that -- as is true for any significant science -- a single well documented case of FSCO/I reliably coming about by blind chance and/or mechanical necessity would suffice to break the empirical reliability of the inference that eh only observed -- billions of cases -- cause of FSCO/I is design. That you are objecting on projecting question-begging (that is exactly what your assertion means) instead of putting forth clear counter-examples, is strong evidence in itself that the observation is quite correct. That observation is backed by the needle in the haystack analysis that shows why beyond a certain level of complexity joined to the sort of specificity that makes relevant cases come from narrow zones T in large config spaces W, it is utterly unlikely to observe cases E from T based on blind chance and mechanical necessity.
Your argument is based on a random search of a whole configuration space. And that's NOT how new body plans are developed according to evolutionary theory so the argument is not applicable for anything after the first basic replicator as an argument against universal common descent with modification. I don't think it's going to work before then either 'cause chemicals don't form bonds willy-nilly and so there's no need or cause to search the whole configuration space then either. I think the 'functional' configurations are much more likely than you're guessing in your model. Jerad
KF (OP):
There are no, zip, zilch, nada, SETI signals of consequence. And certainly no coded messages. But it is beyond dispute that if such a signal were received, it would be taken very seriously indeed. In the case of dFSCI, we are examining patterns relevant to coded signals. And, we have a highly relevant case in point in the living cell, which points to the origin of life. Which of course is an area that has been highlighted as pivotal on the whole issue of origins, but which is one where you have determined not to tread any more than you have to.
My point is, what if something like the following happens again AND we can't find a natural source. From Wikipedia:
The first pulsar was observed on November 28, 1967, by Jocelyn Bell Burnell and Antony Hewish. The observed emission from the pulsar was pulses separated by 1.33 seconds, originated from the same location on the sky, and kept to sidereal time. In looking for explanations for the pulses, the short period of the pulses eliminated most astrophysical sources of radiation, such as stars, and since the pulses followed sidereal time, it could not be man-made radio frequency interference. When observations with another telescope confirmed the emission, it eliminated any sort of instrumental effects. At this point, Burnell notes of herself and Hewish that "we did not really believe that we had picked up signals from another civilization, but obviously the idea had crossed our minds and we had no proof that it was an entirely natural radio emission. It is an interesting problem—if one thinks one may have detected life elsewhere in the universe, how does one announce the results responsibly?" Even so, they nicknamed the signal LGM-1, for "little green men" (a playful name for intelligent beings of extraterrestrial origin). It was not until a second pulsating source was discovered in a different part of the sky that the "LGM hypothesis" was entirely abandoned. Their pulsar was later dubbed CP 1919, and is now known by a number of designators including PSR 1919+21, PSR B1919+21 and PSR J1921+2153. Although CP 1919 emits in radio wavelengths, pulsars have, subsequently, been found to emit in visible light, X-ray, and/or gamma ray wavelengths.
So, what if it happens again and there is only one source, not multiple sources. One source emitting at regular intervals at a fixed frequency coming from a fixed point in space. Is that a SCI candidate? Jerad
Joe (5):
If a signal is not confined to a frequency and not confined to a modulation pattern, that would be an indication of nature.
Ah but the people listening to signals from space did hear something that was confined to a frequency and to a modulation pattern. And they didn't know what it was. So . . . at that moment, was it a candidate for SCI? What if we pick up another one and we can't find a natural source. A signal at regular intervals at a set frequency. SCI? Jerad
Mark Frank:
True – but our point is that Gpuccio’s definition of dFSCI includes no necessity mechanism clause.
The definition of dFSCI does NOT include any cause. dFSCI is INDEPENDENT of the source. That has been explained to you many times now and you refuse to understand it. What are people supposed to think of you, seeing you act like this? Do you really think you are helping your case by ignoring what is posted? Or do you think people will say that you are a [snip] for doing so? Joe
Mark Frank:
(I admit to a couple of a small diversions from Lizzie’s principles this morning – but given Gpuccio’s tirade against all of us, and having been called a [snip] and “moron” by Joe, I feel I am allowed some license).
Well just stop acting like a [snip] and a moron and I won't be able to report on those observances. Unless of course it isn't an act... _______ Joe, kindly keep questionable words out of UD threads. Warning. KF Joe
Alan Fox:
But how can we look for something that has dFSCI without any clear idea of what dFSCI is in any real object or process that we might care to consider.
Sounds like a personal problem Alan as dFSCI has been properly defined. IOW many people know what dFSCI is. If YOU do not then blame yourself.
Define dFSCI as something that is 100% an indicator of design and, bingo, all objects having dFCSI are designed.
Spoken like a loser. AGAIN dFSCI is a design indicator because every time we have observed dFSCI and knew the cause it was always via some agency. ALL of our observations and experiences demonstrate that only agency can produce dFSCI. And THAT means, Alan, if someone, not you because you are useless, ever steps up and demonstrates some "necessity mechanism" can produce dFSCI then our inference is shot down. But that is going to take work and we know evos are not into that. Joe
Jerad, There are signals that nature, oprating freely cannot produce. We would look for that. If a signal is not confined to a frequency and not confined to a modulation pattern, that would be an indication of nature. Joe
Mark Frank:
see you commented this morning. So maybe you are reading this. I would like to see you have the courage to correct Joe when he writes:
OTOH we over here know that the characteristics say if something has/ exhibits dFSCI, regardless of the source
(A necessity mechanism is a type of source).
LoL! Nice try Mark. Unfortunately for you gpuccio has already agreed with me. Ya see Mark, it is YOU that has been corrected, multiple times and yet you still persist in your nonsense. What's up with that? Joe
Jerad: The regularity of the signal, from the first, led to a natural regularity due to mechanical necessity as the main candidate. Yes, there was a flurry on little green men on the Wow signal, but that was never serious. Next, your suggestion of a homing beacon as a nav signal with a regularity would be classified by the explanatory filter -- as it is designed to -- as natural regularity. At most a false negative. The filter was never designed to detect any and all cases of design (it is not a universal decoder algorithm, and we have good reason to believe such are not feasible), just those that are unequivocal per tested and reliable signs. For those, it is highly reliable, thank you. KF kairosfocus
KF (799 from previous thread . . . do I get a prize for dragging things out to the third incarnation? How many hits do I generate?)
As you should know, the first default is look for mechanical necessity. The neutron star model of pulsars suffices to explain what we see.
Yes, now. But when they were first detected no one knew what they were. So, at that time, were they candidate SCI signals? Some researchers at the time thought they might be signs of alien life. Follow on thought: if we detected a regular signal and could not find a source would that be a candidate of SCI?
Homing beacons come in networks — I here look at DECCA, LORAN and the like up to today’s GPS, and are highly complex nodes. They are parts of communication networks with highly complex and functionally specific communication systems. Where encoders, modulators, transmitters, receivers, demodulators and decoders have to be precisely and exactly matched.
If you detected a regular signal coming from deep space and you couldn't find a source could it be a homing beacon sent out by a space-going civilisation from another planet? How would you decide? Jerad
F/N: I have moved discussion for the TSZ-Jerad continuation thread here, in the main because of bandwidth and loading issues. We should note that a month on, there has been no response to the challenge to supporters of the blind watchmaker scheme for origins to submit to UD a 6,000 word essay justifying the view on empirical evidence from OOL on. KF kairosfocus

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