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Post 140

Thursday, August 18, 2005 - 8:27pmSanction this postReply
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The Grammarian,

A compound change on a molecule resulting in a larger range:
Lets say virtually random change A increases P(copy|context) by .001%.
Lets say virtually random change B decreases P(death|context) by .002%.

What happens if A and B are both applied to the molecule? Surely there exists a case in reality where the application of A and B to a molecule results in a greater increase in expected copy rate then applying A or B alone.

=================================
Your admission that one virtually random change to a molecule that copies increases its expected copy rate is an admission that an increase in information/complexity can result from non-intelligent causes.

Post 141

Thursday, August 18, 2005 - 8:51pmSanction this postReply
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Gram-
I asked you this before and you didn't answer:  Do you believe in god?
I think you are a squirmy snake a la Duane Gish from the Discovery Institure that you posted a link to.
Can you answer a simple question, or are you always this evasively verbose.


Post 142

Thursday, August 18, 2005 - 9:02pmSanction this postReply
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someone beat me to the onion gravity refuted post...

I have nothing else..continue!

(Edited by Donald Talton on 8/18, 9:14pm)


Post 143

Friday, August 19, 2005 - 12:47amSanction this postReply
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None of this proves that a random contribution or change to DNA could not, in theory, produce a new trait or ability in the organism -- either one that’s neutral (e.g., red hair as opposed to brown) or one that’s positive.  But it has never been observed, after many decades of experiments with different animals (mainly fruit flies, which breed quickly and are especially susceptible to mutations from radiation).  The sorts of changes we see in the fruit fly are mainly negative, with a few neutral ones (i.e., some lucky flies get to be born with an extra leg sticking out of the side of their head.  Apparently, normal females find that to be a turn-off and won’t mate with them.)

Another case of the blind leading the clueless.

How about mutations that cause greater longevity? They have been discovered in yeast, flies, worms and mice.


How about mutations that confer antibiotic resistance in bacteria? How about mutations in mice that confer disease resistance?
 
What about them?  I've explained at great length in a post to Teresa Isanhart the situation with bacterial  resistance.  Bacterial resistance to antibiotics is accomplished by decreasing the specificity of a binding site on the the bacteria's ribosome.  The decrease in specificity destroys the "lock and key" geometry needed by the antibiotic to bind with bacterium.  The fact that the mutation confers a survival advantage by decreasing specificity means that it conferred the advantage by decreasing genomic information -- because specificity is a measure of information.  The more we have of the former, the more we have of the latter (and vice versa).  We're all very happy that the bacterium can now survive an attack by an antibiotic molecule.  The problem for you is that this sort of "evolution" -- the "decrease in information" sort -- cannot explain where NEW ADDITIONAL information comes from to change a bacterium into a fruit fly or a tree shrew into an a human through many small gradual random steps.  Bacterial resistance, therefore, is clearly not a model that explains macroevolution.

The experiments with yeast, fruit flies, worms, and mice on longevity rather prove my point.  Mutations were first "induced" and then desired mutant strains selected for THAT SPECIFIC TRAIT; i.e., the ones the researchers felt ought to survive because they were the ones the researchers were interested in studying.  Not a very good example of a neo-Darwinian model that is supposed to convince us that "blind watchmakers" can invent Rolexes from a junk heap.  Additionally, I noticed that in some of the experiments with mice, 1/2 or even an entire gene copy would be deleted through genetic engineering techniques (the researchers then studied the +/- "knockhout mouse" and compared it to the -/- "double knockout mouse" for longevity, mating, feeding, etc.)  The point is not what they found; the point is that to get whatever new trait interested them, they had to remove genomic information.  In some cases, the mutant mouse may have gained a particular survival advantage over the wild type (just as in the example of bacterial resistance).  But it's irrelevant from the standpoint of proving the truth of neo-Darwinism.  You don't go from mice to men by removing information in the genome.


Post 144

Friday, August 19, 2005 - 1:36amSanction this postReply
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I remember when I was attending school many years ago.  When a school was an institution of learning.
Today it seems more of a battleground of special interest groups wanting kids indoctrinated into their way
of thinking.

"We can't let the enemy have their ideas taught in school for (fill in the blank) reasons!!"

I remember both creation and evolution being mentioned.  There was some alchemy covered.  In Social
Sciences we covered Christianity, Islam, Judaism, Confuscism, Taoism, Budhism, and other religions
including their core beliefs.

Mention God today and lynch mobs form calling for your head.

We went into Democracies, Oligarchies, Monarchies, Capitalism, Communism, Socialism, Marxism;
and through all of this, the teachers just taught, no indoctrination.

Not surprisingly, we walked away with a great education.  The same cannot be said for kids today.
I am constantly surprised at how uneducated they are.  I am so glad I went to school when I did.
I am so glad I got to learn about all the things I did.

Recently in Florida, there was a push for a 'final exam' students had to pass before they could graduate.
Students would be allowed to take the test up to fifteen times while in school and once or twice after
leaving school.  The test would have been true or false questions, and the students would have only
had to get a 40% to graduate.

It was theoretically impossible to fail this test 15 times; and yet the idea was attacked.

In listening to all the arguements as to why Intelligent Design/Creation should not be taught in schools,
I can help be reminded that this was the way people argued against teaching evolution in schools.

I am so glad I went to school before the era of politcal correctness, when I could actually get an
education.  When teachers could teach, and there wasn't any indoctrination.


Post 145

Friday, August 19, 2005 - 2:48amSanction this postReply
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Joel Català wrote:
 
The Grammarian,

Congratulations for your knowledge, charm and character, and thank you for the useful information you are providing. A moral, rational debate is a requirement for the spread of science in public arenas, and your priceless efforts in this forum definitely go in that direction.

My guess is that Objectivism can't accept ID because this scientific theory seriously collides with the strictly Materialist basis of the Randian way of thinking. A similar collision appears when we confront the 
Problem of Universals and its flawed definition in Objectivism (you may see the excellent Scott Ryan's book Objectivism and the Corruption of Rationality in that respect.).

Some time ago I posted 
my last message in this forum, but today I decided to post this message to ask you two questions:

1) What do you think are the best books, websites, and papers for anyone interested in learning more on the rebuttal of (Neo-)Darwinism and the case for Intelligent Design?

2) What's your overall opinion on Objectivism?

Thank you,

Joel Català





Joel,

You might be right about Objectivism's unwillingness even to listen to ID arguments.  I suspect the old "Cartesian Prejudice":  Rand herself, I take it, accepted the Cartesian Divide, in which "extended stuff" (matter) and "thinking stuff" (mind) are in counterpoint:  the latter definitely existing, but only inside one's head; the latter definitely existing, but only as an "outside."  The latter is what we're supposed to mean by "external reality."  However, what if the two "stuffs" in fact interpenetrate?  What if our taken-for-granted experience of "mind" as strictly inside and "matter" as strictly outside is a habit of thought, developed over a fairly brief period of time, and accomplished mainly by means of language?  ID, especially the more naturalistic versions of it, in which the source of the design information is taken to be Intelligence immanent in physical nature, would require that we abandon Cartesianism as an operating assumption.

I apprecate your post very much.  I will, indeed, follow up on the links you provided, as well as send a greetings to you privately.  I'll try to answer your questions.

1. To rebutt Neo-Darwinism is not necessarily to embrace Intelligent Design.  Prior to Darwin's publication of "Origin of Species" in 1859, there were many theories of evolution based on entirely different premises:  Adam Sedgwick of Cambridge -- and one of Darwin's teachers, I believe -- accepted a theory of "archetypes"; Cuvier in France accepted a theory of "catastrophism" rather than gradualism;  Bolk, in Holland, claimed that man is morphologically a primate who is permanently arrested at the fetal stage; etc.  Some of these older theories are being revived in modern form because of new discoveries and lack of any convincing explanation from ND models.  I recommend the following books and sites:

1. Read Darwin so that you actually know what he said.  Try, if you can, to get the paperback edition of "Origin of Species" with an introduction by Sir Julian Huxley (relative of Thomas Huxley).  Sir Julian claims that Darwinism is now established as fact, beyond a shadow of a doubt, with as much certainty as any other established theory in science.  Then consider this:  General Relativity and Quantum Electrodynamics are two of physical sciences most well established theories; they both make tight, constrained predictions about the behavior of things in the future and the past, they are both accurate to about 13 decimal places.  Does neo-Darwinism have anything even remotely to compare to this?  Yet many of the theory's advocates continue to assert that the theory has already been proved and is beyond criticism.

2. A good semi-popular introduction to the problems of ND vs. ID is "Darwin's Black Box" by biochemist Michael Behe.  His book introduces the reader to an important notion in complexity studies:  some systems -- even relatively simple ones, like a mousetrap -- resist reductionistic explanation.  He calls such systems "irreducibly complex" and claims that the very existence of such systems is prima facie evidence for design. 

2. A more rigorous treatment of the whole problem of information, information-entropy, complexity, specificity, design, and ND can be found in "No Free Lunch: Why Specified Complexity Cannot Be Purchased Without Intelligence" by mathematician William Dembski.  Parts of it are very mathematical.  You might also look into Dembski's first book, "The Design Inference."

3. A non-ID critique of ND -- in some ways, the book that actually emboldened some of the ID people to speak out, write books, start websites, etc. -- is "Evolution:  A Theory in Crisis" by Michael Denton.  Denton is both a physician and biochemist.

4. An excellent popular introduction to the problems that information theory poses for Darwinism is "Not By Chance! Shattering the Modern Theory of Evolution" by physicist Lee Spetner.

5. Extremely mathematical books that criticize ND from the standpoint of information are (a) "Information Theory and Molecular Biology" by physicist Hubert Yockey; and (b) "The Mathematics of Evolution" by astronomer Fred Hoyle.

Websites:

www.discovery.org

Search especially for articles by David Berlinski and Stephen C. Meyer.  The latter recently published a pro-ID paper in a peer-reviewed journal in Washington.  There was such a flap about it, that the editors on the peer-review board had to resign.

www.iscid.org

Devoted to the more general study of information theory, Kolmogoroff-Chaitn complexity, etc., and how they can be used to explain complex systems (including biological systems).  The "brain storm" part of the site is referreed.  William Dembski often posts new papers he's written, submitting them to the public first for critique before he sends them to peer-review journals.

www.panspermia.com

An excellent site calling itself "Cosmic Ancestry" and dedicated to the ideas of Fred Hoyle (who was anti-ND but not pro-ID).  It's a very robust site with hundreds of links to professional journals.  They favor the idea that life has always existed AS life.  Genetic instructions from one organism can and do combine their "software code" with the "software code" of other genomes through a process called "lateral transfer."  This site also has a very clear explanation of the Neo-Darwinian model, and a very clear explanation of the ideas involved in Shannon information theory (including a very important discussion of information entropy and how it differs from thermodynamic entropy.  Pro-Darwin people always confuse the two notions, and it's important to help them disentangle the two ideas.)

***************

I was an objectivist for many years in my early youth, having discovered Rand in middle school.  Through high school I attended regular meetings with objectist friends, some of whom knew or worked with the much vaunted and ever feared "inner circle."  That's how I came to meet Peikoff, Reisman (and his wife Edith Packer), Harry Binzwanger, etc.  For many reasons, I dropped it entirely:   I put all of AR's books in a big box, along with the complete "Objectivist Newsletter" (back issues, that is; that was actually before my time); the Objectivist; the Ayn Rand Letter; the Intellectual Activist; etc.  I taped the box shut and I put it into storage. 

Then I read everything else I could get my hands on, and tried to do so in a more or less structured way.

I kept up as best as I could with the small scandals within objectivism.  People I knew getting "excommunicated" from the fold ("we repudiate you entirely!!!").  I read online about Peikoff's becoming a sort of tin-pot dictator, kicking out Reisman, then Hessen (he sued the latter, did he not, over the selling of verboten books?).  I read the kookiness of some of R. Stubblefield's dicta regarding criteria for joining his Objectivist Study Group website.  One of the bullet points specified "No Humor!"

Oddly, my best memories of objectivism were of Rand herself; possibly because I didn't know her at all (just had her autograph my copy of AS).  I remember at one of Peikoff's lectures, Rand showed up for a Q&A.  One woman suggested her own definition of "life" and sought Miss Rand's opinion; she got rather cross with the young woman, saying something like "No! Absolutely not!  Life is MUCH too complicated to be defined like that!"  Again, I don't remember the specifics of the question; only how seriously Rand seemed to take the issue. 

Objectivism defintely shaped my politics.  Unfortunately, it also shaped much of my tastes in literature, and I had to "unlearn" much of it before I could profitably read much of the so called "western canon" and learn WHY it's great stuff.  It's one thing not to feel inspired by the present; it's quite another when a whole group of people can't feel inspired by the past.  I can't say I've met (or am likely to meet) a self-proclaimed "New Intellectual" who had read, or desired to read, e.g., Rabelais.  And I remember hearing a taped interview (from someone's collection) of Barbara Branden, who made some rather cutting (and in retrospect, just plain silly) remarks about Cervantes and Don Quixote.  Then again, I remember leaving one of Peikoff's lectures and Peikoff got in the elevator with his.  Someone in the elevator mentioned something about Arthur Koestler.  Peikoff responded "Oh, yes; we don't like him."

Years ago, a very negative book was written about Objectivism titled "With Charity Toward None."  I don't remember the author's name.  He called Objectivism "a failure, but an impressive failure."  Maybe.  I don't think so.  He did say one thing, however, that stayed with me.  He said that while Miss Rand's answers to things might frequently be wrong, her questions are almost always right, and he chided modern philosophers for not having the cojones to ask some tough questions about its premises, methodologies, etc.  There's a certain Randian approach to issues, to asking questions, to demanding a certain level of specificity in the answers, that I've always liked, and that I continue to like -- to admire -- today.  If someone were to ask me "Are you an Objectivist," my first response would be to look around furtively and ask "Who wants to know?"  If the coast were clear, I would answer "It depends whom I'm talking to."  If it's someone sympathetic to my own searches in life, I would answer "Well, I have the sense of life of one.  Does that count?"


Post 146

Friday, August 19, 2005 - 6:50amSanction this postReply
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Grammarian,

I won't start in arguing about ID, but I will say that your Cartesianism point is off.  If you'd care to build up more of an argument I will argue that with you.

The bottom half of post 145 seems to equate Objectivism with Randroidism.  Did you assume that SOLO is a Randroid hangout because you aren't being agreed with?  Or that to escape Randroidism people must be "so open minded their brains fall out?"

Sarah the non-Objectivist who knows ID is worthless on any level


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Post 147

Friday, August 19, 2005 - 9:48amSanction this postReply
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Sarah,

What really pisses me off about these ID creationist poseurs is that when you actually start to confront them with basic scientific facts that disprove their conjecture, they just ignore your post.

Instead, they prefer to keep posting their pseudo-science in their own little fantasy world, while shutting out reality.

If they want to shut out reality and believe in God, then fine. Just please can they go back to their prissy Christian forums and do it there instead!

(Edited by Marcus Bachler on 8/19, 9:49am)


Post 148

Friday, August 19, 2005 - 12:04pmSanction this postReply
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Sarah,

What really pisses me off about these ID creationist poseurs is that when you actually start to confront them with basic scientific facts that disprove their conjecture, they just ignore your post.



What a crank you are, Bachler.  I suppose you think that just by calling yourself "Science Leader" endows your arguments with instant credibility.  You mentioned  bacterial resistance; I answered it.  You mentioned yeast/worm/fly mutations; I answered it.

You, on the other hand, have not answered a single point I've raised regarding the obvious increase in genomic information required to go from bacteria to mammals. It's an intractable problem.  Recently there was a World Summit of Evolutionists (the article is posted on the www.panspermia.com site; I'll copy it here when I get the chance).  They spent much of their time refuting (or trying to refute) ID, because the old guard of evolutionists finally realize the problems that an information-theoretic raises for Neo-Darwinism.  One of the old guard said (paraphrasing) "ID people ask how can genomic information increase in the presence of forces that always tend to degrade information over time.  The answer is lateral transfer."  I.e., already existing software programs getting inserted "laterally" into other already existing software programs (via, e.g., viruses).  ID already recognizes this.  The question is: how did the ORIGINAL software programs come to be written?  And (2) Lateral transfer can increase genomic information within this or that species; it does not create a NET increase in information in the biocosm -- it just rearranges already existing information.  Where did the NET increase in information come from?

I don't expect an answer from you on this.  You're obviously too busy being everyone else's "Science Leader" to take the time to study unfamiliar ideas.


Post 149

Friday, August 19, 2005 - 12:06pmSanction this postReply
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Jason,

Let me address your thesis seriously.

You take a position on something that you are not qualified to argue in favor of
You are correct that is what I am doing on this thread.  I am not qualified to argue this subject and bring the cogent agruments and statistics to bear that grammarian does.  It is not my field.  There is no shame in not knowing everything.  However the assumption that this is my behavior on other less specialized threads is hogwash. Yes I am doing that here, no I do not do that as a rule.

then you sit in the thread taking pot shots at the different posters who are on the other side of the fence.
I only take potshots at the ones who: scornfully dismiss the argument out of hand, or are condescending, rude or whose arguments are so banal that even I can refute them.  Those who argue with the man civily and honestly get no harrassment from me.  Call me old fashioned but I consider that fair. If I see someone being ganged up on, I help.

Then when they ask you to defend yourself on ANY of your opinions or any of the things you say in your posts instead of providing a direct answer you play this game of diversions and that is
I answer these posts directly.  When challenged to provide the answer to this greater problem, I say only what I have said before:



 
Not every theory is scientific; in fact, there are lots of non-scientific theories. A theory that rests on only positive evidence and that invokes or requires an undefined entity is doubly non-scientific.(Chris Phoenix).
This is a good definition, but unfortunately for your argument the 'theory of evolution' relies on just such an 'undefined entity'. i.e., natural selection.  Natural selection is a process upon which there is no agreement among scientists, some attribute it to one thing, some to another, some invent other mechanism altogether, but no one agrees with Darwin on the subject.

It was also believed at one time that Euclidean geometry was a universal law; it is, after all, logically consistent. Again, we now know that the rules of Euclidean geometry are not universal.  Your argument may turn out to be antiquitatem name=antiquitatem>Argumentum ad antiquitatem.

This is all I know for certain. 
----------------

These diversions you refer to are not originated by me.  They are personal attacks and statements about what Objectivists should believe, or how we should be behave on this site.  I answer them openly, honestly and often sarcastically.  Call them diversions, if you like, despise them if you like, but they do not originate with me, I simply reply to them.

Ethan got this response:

"You are free to conform your thinking to respectable beliefs, if that's how you want to live.  Most of the citizens  who have ever existed on this planet chose that path.  Of course, they are not mentioned in history or revered, but their peers thought well of them. 

Everything Rand writes screams take a chance at the brass ring.  Even if you are wrong and never win the prize, it is better than mediocrity."
because that is what I believe he and many of the others who opposed this issue are guilty of.  I beleive their objections to be knee jerks. 

If the theory of evolution, based on the various ideas about natural selection, is the solid rock upon which all these oponents of ID stand, there would be no argument; everyone here would be yawning.  The fact that they are yelping like castrated pups proves how tenuous the arguments for natural selection really are.

Bob





Post 150

Friday, August 19, 2005 - 12:24pmSanction this postReply
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Michael,

Nice post Michael.  It will bring you nothing but scorn of course because our younger members don't understand yet what age has to do with wisdom or how god awful their education truly is (not their fault, they have nothing to compare it to). 


Post 151

Friday, August 19, 2005 - 1:24pmSanction this postReply
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14 July 2005
Grant and Dennettt
Peter Grant (left) and Daniel Dennett – photo by Michael Shermer
The World Summit on Evolution in the Galapagos Islands, 8-12 June, was attended by 210 scientists, students and journalists. "It was a veritable Who's Who of evolutionary theory, including William Calvin, Daniel Dennett, Niles Eldredge, Douglas Futuyma, Peter and Rosemary Grant, Antonio Lazcano, Lynn Margulis, William Provine, William Schopf, Frank Sulloway, Timothy White and others," writes Michael Shermer in Scientific American. The conference addressed many of the live issues within darwinism, including the definition of species, the target of selection (from genes to cells and individuals to species and communities), and just when Darwin became a darwinist. Lynn Margulis even distinguished between darwinism (good) and neo-darwinism (bad). But Shermer considers these disagreements healthy and he concludes, "the theory of evolution has never been stronger." In his own lecture in the Galapagos he had bolstered this conclusion by deconstructing at length the tenets of creationism or Intelligent Design. No other opposition to darwinism was even addressed at the conference, although Shermer's article once mentions "other outsiders." Galapagos 2005 Shermer explains, "Creationists and Intelligent Design theorists like to inquire how information can increase in a world filled with entropy and the decay of information. Symbiogenesis is one answer--incorporating the genome of other organisms." If there are other answers, he doesn't list them. Of course, symbiogenesis is a form of gene transfer — a wholesale one to be sure. Gene transfer adds information to the acquiring species, but not to the world. Shermer appears to have reasoned hastily and badly here. As Founding Publisher of Skeptic magazine and the Director of the Skeptics Society, he could do better. We ask related questions: Can new genetic programs be acquired without gene transfer? Is evolutionary progress in a closed system possible? We wish darwinists like Shermer would carefully consider these questions and the evidence related to them.


Post 152

Friday, August 19, 2005 - 1:27pmSanction this postReply
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Sarah House wrote:

I won't start in arguing about ID, but I will say that your Cartesianism point is off.  If you'd care to build up more of an argument I will argue that with you.

What makes you think the remark is off?


Post 153

Friday, August 19, 2005 - 1:54pmSanction this postReply
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Here's the complete article from the Discovery.org site regarding the publication of Stephen Meyer's paper on information theory and the appearance of the higher taxa during the Cambrian Explosion.
 
Controversial Editor Backed

By: Michael Powell
Washington Post

August 19, 2005

Original Article

For additional information on this story click here.


Editor Explains Reasons for 'Intelligent Design' Article

Evolutionary biologist Richard Sternberg made a fateful decision a year ago.

As editor of the hitherto obscure Proceedings of the Biological Society of Washington, Sternberg decided to publish a paper making the case for "intelligent design," a controversial theory that holds that the machinery of life is so complex as to require the hand -- subtle or not -- of an intelligent creator.

Within hours of publication, senior scientists at the Smithsonian Institution -- which has helped fund and run the journal -- lashed out at Sternberg as a shoddy scientist and a closet Bible thumper.

"They were saying I accepted money under the table, that I was a crypto-priest, that I was a sleeper cell operative for the creationists," said Steinberg, 42 , who is a Smithsonian research associate. "I was basically run out of there."

An independent agency has come to the same conclusion, accusing top scientists at the Smithsonian's National Museum of Natural History of retaliating against Sternberg by investigating his religion and smearing him as a "creationist."

The U.S. Office of Special Counsel, which was established to protect federal employees from reprisals, examined e-mail traffic from these scientists and noted that "retaliation came in many forms . . . misinformation was disseminated through the Smithsonian Institution and to outside sources. The allegations against you were later determined to be false."

"The rumor mill became so infected," James McVay, the principal legal adviser in the Office of Special Counsel, wrote to Sternberg, "that one of your colleagues had to circulate [your résumé] simply to dispel the rumor that you were not a scientist."

The Washington Post and two other media outlets obtained a copy of the still-private report.

McVay, who is a political appointee of the Bush administration, acknowledged in the report that a fuller response from the Smithsonian might have tempered his conclusions. As Sternberg is not a Smithsonian employee -- the National Institutes of Health pays his salary -- the special counsel lacks the power to impose a legal remedy.

A spokeswoman for the Smithsonian Institution declined comment, noting that it has not received McVay's report.

"We do stand by evolution -- we are a scientific organization," said Linda St. Thomas, the spokeswoman. An official privately suggested that McVay might want to embarrass the institution.

It is hard to overstate the passions fired by the debate over intelligent design. President Bush recently said that schoolchildren should learn about the theory alongside Darwin's theory of evolution -- a view that goes beyond even the stance of intelligent design advocates. Dozens of state school boards have attempted to mandate the teaching of anti-Darwinian theories.

A small band of scientists argue for intelligent design, saying evolutionary theory's path is littered with too many gaps and mysteries, and cannot account for the origin of life.

Most evolutionary biologists, not to mention much of the broader scientific community, dismiss intelligent design as a sophisticated version of creationism. To teach it in science classes, they say, would be to overturn hundreds of years of scientific progress. The National Museum of Natural History was drawn into this controversy in June, when protest forced it to withdraw from co-sponsorship of a documentary on intelligent design.

Sternberg's case has sent ripples far beyond the Beltway. The special counsel accused the National Center for Science Education, an Oakland, Calif.-based think tank that defends the teaching of evolution, of orchestrating attacks on Sternberg.

"The NCSE worked closely with" the Smithsonian "in outlining a strategy to have you investigated and discredited," McVay wrote to Sternberg.

NCSE officials accused McVay of playing out a political agenda. "I must say that Mr. McVay flatters us beyond our desserts -- the Smithsonian is a distinguished organization of highly competent scientists, and they're not marionettes," said Eugenie Scott, the group's executive director. "If this was a corporation, and an employee did something that really embarrassed the administration, really blew it, how long do you think that person would be employed?"

Risky Decision

Sternberg is an unlikely revolutionary. He holds two PhDs in evolutionary biology, his graduate work draws praise from his former professors, and in 2000 he gained a coveted research associate appointment at the Smithsonian Institution.

Not long after that, Smithsonian scientists asked Sternberg to become the unpaid editor of Proceedings of the Biological Society of Washington, a sleepy scientific journal affiliated with the Smithsonian. Three years later, Sternberg agreed to consider a paper by Stephen C. Meyer, a Cambridge University-educated philosopher of science who argues that evolutionary theory cannot account for the vast profusion of multicellular species and forms in what is known as the Cambrian "explosion," which occurred about 530 million years ago.

Scientists still puzzle at this great proliferation of life. But Meyer's paper went several long steps further, arguing that an intelligent agent -- God, according to many who espouse intelligent design -- was the best explanation for the rapid appearance of higher life-forms.

Sternberg harbored his own doubts about Darwinian theory. He also acknowledged that this journal had not published such papers in the past and that he wanted to stir the scientific pot.

"I am not convinced by intelligent design but they have brought a lot of difficult questions to the fore," Sternberg said. "Science only moves forward on controversy."

He mailed Meyer's article to three scientists for a peer review. It has been suggested that Sternberg fabricated the peer review or sought unqualified scientists, a claim McVay dismissed.

"They were critical of the paper and gave 50 things to consider," Sternberg said. "But they said that people are talking about this and we should air the views."

When the article appeared, the reaction was near instantaneous and furious. Within days, detailed scientific critiques of Meyer's article appeared on pro-evolution Web sites. "The origin of genetic information is thoroughly understood," said Nick Matzke of the NCSE. "If the arguments were coherent this paper would have been revolutionary-- but they were bogus."

A senior Smithsonian scientist wrote in an e-mail: "We are evolutionary biologists and I am sorry to see us made into the laughing stock of the world, even if this kind of rubbish sells well in backwoods USA."

An e-mail stated, falsely, that Sternberg had "training as an orthodox priest." Another labeled him a "Young Earth Creationist," meaning a person who believes God created the world in the past 10,000 years.

This latter accusation is a reference to Sternberg's service on the board of the Baraminology Study Group, a "young Earth" group. Sternberg insists he does not believe in creationism. "I was rather strong in my criticism of them," he said. "But I agreed to work as a friendly but critical outsider."

Scott, of the NCSE, insisted that Smithsonian scientists had no choice but to explore Sternberg's religious beliefs. "They don't care if you are religious, but they do care a lot if you are a creationist," Scott said. "Sternberg denies it, but if it walks like a duck and quacks like a duck, it argues for zealotry."

Endgame

Sternberg has seen stress piled upon stress in the past year. His marriage has dissolved, and he no longer comes into the Smithsonian. When the biological society issued a statement disavowing Meyer's article, Sternberg was advised not to attend. "I was told that feelings were running so high, they could not guarantee me that they could keep order," Sternberg said.

A former professor of Sternberg's says the researcher has an intellectual penchant for going against the system. Sternberg does not deny it.

"I loathe careerism and the herd mentality," he said. "I really think that objective truth can be discovered and that popular opinion and consensus thinking does more to obscure than to reveal."


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Post 154

Friday, August 19, 2005 - 2:04pmSanction this postReply
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Sorry, I didn't see your response.

What about them?  I've explained at great length in a post to Teresa Isanhart the situation with bacterial  resistance.  Bacterial resistance to antibiotics is accomplished by decreasing the specificity of a binding site on the the bacteria's ribosome.  The decrease in specificity destroys the "lock and key" geometry needed by the antibiotic to bind with bacterium.  The fact that the mutation confers a survival advantage by decreasing specificity means that it conferred the advantage by decreasing genomic information -- because specificity is a measure of information.  The more we have of the former, the more we have of the latter (and vice versa).  We're all very happy that the bacterium can now survive an attack by an antibiotic molecule.  The problem for you is that this sort of "evolution" -- the "decrease in information" sort -- cannot explain where NEW ADDITIONAL information comes from to change a bacterium into a fruit fly or a tree shrew into an a human through many small gradual random steps.  Bacterial resistance, therefore, is clearly not a model that explains macroevolution.

Wrong, not a decrease in information!

A change in structure through mutation allows the protein to avoid binding to an antibiotic, while still performing it's usual function!!! (The normal function is not to bind to antibiotics!!!) No loss of information, but an adaptation for survival. There are also other types of "gain of information" (as you call it) drug resistances that evolve by aquiring a pump, or adapting an existing pump to exclude the antibiotic/ drug from the cell.

No loss of information, but adaptation!!! There is a big difference!!!

The experiments with yeast, fruit flies, worms, and mice on longevity rather prove my point.  Mutations were first "induced" and then desired mutant strains selected for THAT SPECIFIC TRAIT; i.e., the ones the researchers felt ought to survive because they were the ones the researchers were interested in studying.  Not a very good example of a neo-Darwinian model that is supposed to convince us that "blind watchmakers" can invent Rolexes from a junk heap.  Additionally, I noticed that in some of the experiments with mice, 1/2 or even an entire gene copy would be deleted through genetic engineering techniques (the researchers then studied the +/- "knockhout mouse" and compared it to the -/- "double knockout mouse" for longevity, mating, feeding, etc.)  The point is not what they found; the point is that to get whatever new trait interested them, they had to remove genomic information.  In some cases, the mutant mouse may have gained a particular survival advantage over the wild type (just as in the example of bacterial resistance).  But it's irrelevant from the standpoint of proving the truth of neo-Darwinism.  You don't go from mice to men by removing information in the genome.

Wrong again!

I was talking about mutations that have been randomly generated - that is nearly always a point mutation.

Even if you want to highlight the ones that are the result of targeted genetic manipulation, they can be produced not only through a gene disruption (not deletion), but also through overexpression of a gene. When this happens in nature, it would be due to a random event (such as recombination) that causes a gene duplication.

Defining evolution in terms of "information" gained and lost is just another red herring!!!


Post 155

Friday, August 19, 2005 - 2:13pmSanction this postReply
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Grammarian,

I say again: If you'd care to build up more of an argument I will argue that with you.

The ball's in your court bud.

Sarah


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Post 156

Friday, August 19, 2005 - 2:24pmSanction this postReply
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I suppose you think that just by calling yourself "Science Leader" endows your arguments with instant credibility.

I did not appoint myself Science Leader, the creator did.

Do not question his design or he will come down and smite thee!!!


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Post 157

Friday, August 19, 2005 - 2:48pmSanction this postReply
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I don't get this whole fucking pseudonym thing. It's creepy.  It was even creepy when IRC started, and there was half a reason for it there.

Is this Dick Cheyney?


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Post 158

Friday, August 19, 2005 - 5:32pmSanction this postReply
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"His case against evolution is a good example, in fact, of the perils of being "trapped" by a metaphor."

Sound like this might apply to someone we know?

And lest I be accused of not being fair and balanced, take a look at a debate between scientists and the major proponents of I.D. theory, then judge for yourself.

http://www.actionbioscience.org/evolution/nhmag.html


Post 159

Sunday, August 21, 2005 - 7:25amSanction this postReply
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Merlin Jetton wrote:

In post #91 I made three points against Grammarian's assumptions.  About the first, which exposed one (implicitly, a second) of his patently false claims, he granted its validity, and followed with a parody.

Here was your 1st point:

For a given sized packet, more randomness in it implies less information. However, this does not imply that for a given packet, a small random addition or change to it decreases the information. It may increase it (or stay the same).

Your 2nd and 3rd sentences contradict your 1st sentence.  You give no example of what you mean by a small random change adding information to a packet (a bit-string), or leaving the information measure of the packet unchanged.  Give a concrete a example.

Take the following sentence (a "bit string"):

"I love the color of her hair."

We have 29 characters (letters+spaces+ period).  I omit the quotes from the count.

Through a copying error by a typist, a "u" was accidentally inserted into the word "color," so that we have "I love the colour of her hair."  We have a random error that left the meaning of the sentence, its functionality, unchanged.  Obviously, there's some (not much) leeway in the construction of some (but not most) words.  I agree that this is a happy example of a random addition NOT destroying the amount of information in the string.  Now, repeat the process  billions of times, over billions of copying errors, and try to show me how, over time, proofreading errors - whether random additions, random transpositions, or random deletions -- can lead either to increase or stasis of information in this sentence.  If we change "i" to "r" and "r" to "e" in "hair," we get "hare," which destroys the original meaning.  If we rearrange the words as in "of I color hair love the" we get the text equivalent of organic "tar" that often precipitates out in test tubes in so many origin-of-life experiments: syntactic junk.  If we make random changes to the spelling, we will get orthographic junk. 

Which of the following sentences is more specific:

"I love the color of her hair."
"I love the color of her hare."
or,
"I love the color of her [hair or hare]."

The first two are highly specific, though they mean radically different things.  The third, because it could either be "hair" or "hare" is less specific in meaning than the first two, and therefore contains less information.  It obviously contains less information, because we can't determine the exact meaning intended.  This is a simple example of the relation between specificity and information.

Obviously, substitutions of the first kind don't add information, though they don't subtract it either.  But how many words are really susceptible to those sorts of changes?  Not many.  We can replace "judgment" with "judgement" and "supersede" with "supercede" (the latter being a practice I despise, by the way), but the majority of words are pretty invariant in their spelling.  We have some leeway with word order but not much.  If you believe that through successive random additions to a "packet" of information -- a bit string -- you can continuous, and over time, add more and more information, then you're saying (whether you realize it or not) that Atlas Shrugged -- which is a long, intelligible bit string -- could have been produced by small random changes to a page of already existing text (say the front page of the New York Times).  Sorry if you found my example to be a "parody."  It's a reductio ad absurdum of your argument.

Finally, I should add that, while randomness will always tend to degrade information, it isn't the only thing that will degrade information.  Much of this has to do with how we define "information" to begin with.  Consider the following:

You crack open a fortune cookie.  The fortune says "Your name is Merlin Jetton."
You crack open a fortune cookie.  The fortune says "&^%$#jh$r."
You crack open a fortune cooke.  The fortune says "It will rain when you leave this restaurant; or it will not rain when you leave this restaurant."

The information content of each of the messages is zero, despite the fact that the only truly random message was the second one.  Shannon defined (and was able to quantify) information as a message that reduced uncertainty by 1/2.  If a message gives you gibberish, it obviously tells you nothing, so there's no information content.  If a message tells you what you already know, it also has no information content.  If a message simply enumerates all the possibilities of an event ("it will rain or it won't rain) it, again, tells you what you already know, and has no information content.

Just FYI, Shannon defined the unit of information to be a binary digit or bit.  Any message, by definition, that halves the uncertainty of any event (as viewed by the receiver of the message) by 1/2, is defined as 1 bit of information.  Dawkins, a Darwinist True Believer (and hero to some on this board)  has a good example of this.  An expectant father is watching the birth of his first child through a hospital window.  He has pre-arranged with the OR nurse the following code:  if it's a boy, she'll hold up a blue card in front of the window; if it's a girl, a pink card.  All things being equal, there's a 50% chance of getting a boy and a 50% chance of getting a girl.  The uncertainty involved in this event is 1/2.  The moment of truth arrives and the nurse holds up a pink card; "It's a girl!"  Uncertainty reduced by 1/2.  Information content of the message = 1 bit.  Obviously, if the nurse held up a sign that said "It's either a boy or a girl," the message hasn't reduced the uncertainty, and there was no information sent in the message.

The second he granted its truth, called it irrelevant and followed with another parody.

The example of the archers was an analogy, and I think a good one, for your position.  Sorry if you took it as parody.  I used exactly the same example with Teresa Isanhart, who responded favorably to it; she didn't take it as parody.  Perhaps you're overly sensitive.  You brought up a well known issue in probability, and proceeded to draw the wrong conclusions from it.  Here's another example, analogy or parody, as you wish:

It's New Year's Eve.  A million people are crowded into Time Square.  The mayor and the cops have advance warning from the Dept. of Homeland Security that there is definitely a bomb that will go off at midnight.  So as not to cause panic, they don't release the news to the public, but you (being well connected) get wind of it.  Your son is one of the spectators in Times Square, and you enlist the help of a sympathetic MTA worker to find your son and get him out of there.  We'll skip subtleties of dividing the group according to sex:  there's a 1/1,000,000 chance of randomly finding your son in the crowd.  The MTA worker grabs the first person he sees and brings him to your home.  "Here he is," says the friendly man from the MTA.  "That's not him," you say.  He replies "What difference does it make?  He's probably someone's son, and, besides, the chances of finding this guy were exactly the same as the chances of finding your son.  I beat 1/1,000,000 odds by bringing you someone."  You retort "I don't need someone; I need a specific person."

It's the specificity that's important, and not just the "odds."

So you enlist the help of a friendly FBI man, who uses sophisticated image-recognition technology from a secret bunker.  He grabs your son and brings him to you.  (1) if you're honest and good (I was about to say "God fearin', but I won't) you say "THANK YOU, SIR!! How did you do it?" 

The word "how," in this context is a request for an explanation of intelligent design:  what form of intelligence did you bring to bear on this problem in order to target a particular goal; i.e., finding one specific target, your son, out of all of the other possibilities, none of which had any purpose for you.

(2) if you're an intellectually dishonest Darwinian, you say "The MTA worker before you told me that finding my son had exactly the same odds as finding any other other target, so don't expect me to be grateful or say 'thank you' or anything like that.  And don't walk across my lawn when you go back to your car, OK?"

Sorry if you don't understand specificity and how it relates to probability.  The analogy/parody is the best I can do (for now, anyway).

 So in reply I return the favor to his response -- irrelevant. To the third he did not respond.

Your analogy does not mention a key difference. Homeostasis, metabolism, and reproduction are essential properties of all organisms. (First two individual level, 3rd species level.) These are *internal* purposes, and there is no evidence they have been put there by an external, intelligent being.
 
These are rather broad strokes.  Some things about metabolism might have been intelligently designed; some things might be a product of contingency.  ID can (and does) accommodate both; it's only Darwinism that's intellectually bigoted in favor of only undirected processes (because other processes conflict with its apriori materialist worldview).  I don't know what you are willing to accept as "evidence."  If certain systems (like ATP synthesis) appear to be complex in a way that resists logically breaking them down into component parts that appeared sequentially over time, then that is, at the very least, prima facie evidence that the system bears marks of design -- because other things that are designed (like mouse traps) cannot be so broken down either.
 
The purpose of an outboard motor is clearly *externally* placed by an intelligent being.

The purpose of an outboard motor is locomotion.  The construction of the outboard motor clearly bears marks of intelligence.  The fact that, in addition to its purpose, it so happily found its way onto a boat, in just the right spot is another mark of intelligence.  Both of these apply to the bacterial flagellum.  Its purpose is locomotion.  It requires 50 specific proteins to function or it doesn't function at all.  The notion that it could have come about through random mutation + selection is absurd:  if the odds of contructing one specific protein bit string of residue length 100 is 1/20^100, then the odds of constructing 50 different specific proteins of the same length are (1/20^100)^50.  Mathematicians don't even have names for numbers this big.  Consider, too that each protein must be precisely regulated in order for the whole system to function.

What ID is willing to do, of course, is to consider that pre-formed instructions for flagella found their way into pre-formed instructions for bacteria (or into an actual bacterium, for that matter), through some process of lateral gene transfer.  Motorboats are built exactly by such processes:  a pre-formed design for an outboard motor gets inserted into a pre-formed design for a boat; or an already built outboard motor is physically brought and attached to an already existing rowboat.

Grammarian has heavily used the arguments of William Dembski here. So I post these links:
http://www.csicop.org/si/2002-11/dembski.html
http://www.csicop.org/sb/2000-12/reality-check.html

I'll deal only with the first link on this post.

Mark Perakh is, presumably, a physicist who likes to haunt the "letters to the editor" pages of "Commentary" magazine after it publishes articles by David Berlinski.  The latter has to take precious time and space in his replies to the letters in order to debunk the many errors that Perakh unfailingly makes in regard to Berlinksi's articles re Darwinism, information theory, etc.  Perakh is, quite simply, a moron and a pest (though not necessarily in that order; in that regard, he shows a great lack of specificity).  I used to subscribe to the Skeptical Inquirer myself many years ago; I'm sorry to see that its standards have dropped so miserably low.  Here are some of the errors Mark Perakh makes:

Continuing in the same vein, Dembski repeats his often-stated thesis that what he calls "specified complexity" is a necessary indicator of design.
 
True.
 
 The fallacy of that statement has been demonstrated more than once (for example, Edis 2001, Wilkins and Elsberry 2001, Perakh 2001 and 2002, Wein 2001 and 2002, Fitelson et al. 1999, Pennock 2000, Elsberry 2002, and others). Indeed, consider an example discussed several times before (Perakh 2001):
 
Uh, oh.  He's going to quote himself . . .
 
Imagine a pile of pebbles found on a river shore. Usually each of them has an irregular shape, its color varying over its surface, and often its density also varying over its volume. There are no two pebbles which are identical in shape, color, and density distribution. I guess even Dembski would not argue that the irregular shape, color, and density distribution of a particular pebble resulted from intelligent design, regardless of how complex these shapes and distributions may happen to be. Each pebble formed by chance.
 
Probably true, but not necessarily true.  Dembski readily admits that his "explanatory filter," which is meant to filter out chance in order to perceive design might yield a "false negative"; i.e., it might accidentally attribute chance to something that was in fact designed.  For example, we might accidentally infer that a painting with drips and blobs on it was the product of some stochastic process, such as throwing paint at a canvas and letting the drops settle where they may.  If we later learn that the drips and blobs were lovingly put precisely where they are by a Jackson Pollack, then we were wrong:  what appeared to be chance was actually a product of intention.  However, for the sake of argument we'll assume that we take the shape of the pebbles, and their distribution, to be a product of chance.
 
Now, what if among the pebbles we find one that has a perfectly spherical shape, with an ideally uniform distribution of color and density? Not too many people would deny that this piece in all likelihood is a product of design.
 
True.
 
 However, it is much simpler than any other pebble, if, of course, complexity is defined in a logically consistent manner rather than in Dembski’s idiosyncratic way. A logically consistent definition of complexity is given, for example, in the algorithmic theory of randomness-probability-complexity (and is often referred to as Kolmogorov complexity).
 
Dembski takes ample account of Kolmogorov-Chaitin complexity.  I was hoping to post on it later, but I'll try to explain it (briefly) now.  Kolmogorov and Chaitin were two computer scientists studying recursion theory.  They tried to explain the notion of "complexity" by reference to the so-called "compressibility" or "incompressibility" of a computer algorithm.  What does it mean?

Suppose you flip a coin 100 times and on each flip that is not heads, you turn the coin so that it reads "heads."  Your sequence is HHH . . . n n=100.  Suppose you wanted to instruct a computer to reproduce that sequence (and it is, after all, a highly specific sequence, whose odds of appearing are 1/2^100).  What would the instruction consist of?  Probably this:

"Print 'H' 100 times."

You've taken a sequence that is 100 characters long and "compressed" it into a single instruction with 15 characters.  If the sequence were 1,000 "H's" we have relatively more compression, the algorithm being merely "Print 'H' 1,000 times."  This characteristic of "compressibility" is taken as indicating an inherent simplicity to the sequence.

Conversely, if you genuinely toss the coin 100 times, you'll get a random sequence of H's and T's, perhaps something like HHTHTTTHTHHHHTHTHHTHHTHTHTTTTTTHTHHH, etc.  Suppose you wanted  to instruct a computer to reproduce that sequence (and, again, it is also highly specific; it's one unique sequence out of all possible sequences of H's and T's in 100 tosses, whose odds are exactly what we have with the first example, i.e., 1/2^100).  Is there any way of compressing that pattern into a single algorithmic step?  Apparently, the answer is no.  In order to get a computer to reproduce that specific pattern, you have to instruct it with all the original characters of the pattern:

1. print H
2. print H
3. print T
4. print H
5. print T
6 print T
etc. etc. until the entire original pattern is given.  You could, of course, also have one uncompressed step, such as:

1. Print H, then H, then T, then H, then T, then T . . . until you've given it the entire original sequence to reproduce.

This characteristic of "incompressibility" is taken as indicating an inherent complexity to the sequence.

Kolmogorov complexity is not concerned with questions about design.  We all know that a painter could paint like Vermeer or he could paint like Jackson Pollack, and that the works of both are products of design.  A person could honestly flip a random sequence, or, by design, purposely turn over a coin so that the first letter is H, then the second is H, then the 3rd is T, etc., until the entire 100-bit sequence looks random but is not.  Kolmogorov complexity is good at showing the structural differences between two sequences that have the same odds of appearing (such as HHHH or HTHH) but which differ in terms of relative simplicity and complexity.  It has nothing to say about the issue of goals, purposes, design, or intelligence.

The Kolmogorov complexity of a perfectly spherical piece of stone is much lower than it is for any other pebble having irregular shape and non-uniform distribution of density and color.
 
True.
 
Indeed, to describe the perfectly spherical piece one needs a very simple program (or algorithm), actually limited to just one number for the sphere’s diameter, one number for density, and a brief indication of color. For a piece of irregular shape, the program necessarily must be much longer, as it requires many numbers to reproduce the complex shape and the distributions of density and of color.
 
True.
 
This is a very simple example of the fallacy of Dembski’s thesis according to which design is indicated by "specified complexity." Actually, in this example (as well as in an endless number of other situations) it is simplicity which seems to point to design while complexity seems to indicate chance as the antecedent cause of the item’s characteristics.
 
What this indicates is that Kolmogorov complexity is unsuited for distinguishing things that were designed from things were undesigned.  It wasn't meant for that.  It was meant to distinguish simple things from complex things, irrespective of the source of the simplicity or the complexity.  We all know that a perfect sphere amongst pebbles would probably indicate design, and so does Dembski.  No ID person, and certainly not Dembski, has ever said that intelligence only produces complicated things; it can also produce simple things.  It can also produce things that look as if they were produced randomly.  The gravamen of Dembski's argument is that there is a peculiar species of complexity called "specified complexity" -- in his nomenclature, "Complex Specified Information" or "CSI" -- which is only found in designed things, even designed things that are rather simple (such as mousetraps).  Dembski has never said that all designed things exhibit CSI; rather, all instances if CSI point to design.

This supposed refutation of Dembski by Perakh in the Skeptical Inquirer simply shows how far the latter will go to misunderstand, misstate, and mischaracterize the issues involved in the ID/ND debate.

(Edited by The Grammarian on 8/21, 8:57am)

(Edited by The Grammarian on 8/21, 8:58am)

(Edited by The Grammarian on 8/21, 9:00am)

(Edited by The Grammarian on 8/21, 9:34am)


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