Showing posts with label origin of life. Show all posts
Showing posts with label origin of life. Show all posts

Friday, January 17, 2014

The Origin of Life: Programmatically Predestined?

Cross-posted from www.futureandcosmos.blogspot.com
 
Let us now look at one of the great mysteries of the universe, the mystery of the origin of life, something that took place more than three billion years ago.

Some readers may be thinking along these lines: That's not such a mystery. Given a primordial soup and millions of years of time, there developed some self-replicating molecule. Once you had that, the development of everything else was just a case of things evolving from the simple to the more complex.

But such a glib explanation glosses over the great difficulties involved in explaining the origin of life on the early Earth. The fact is that there are huge difficulties in explaining how life began on our planet billions of years ago. In recent decades scientists have made relatively little progress in solving this problem.

Consider the progress of astronomy during the past 50 years. Since the year 1963 we have seen the discovery of the Big Bang, the discovery that the expansion of the universe is accelerating, and the discovery of more than 1000 extrasolar planets. But without doing a Google search, can you name one bit of progress that has been made in the past 50 years regarding the origin of life? You probably can't. When most of us think of scientific work on the origin of life, we think back to the Miller experiments involving amino acids, but they were done in the 1950's.

We can divide up the problem of the origin of life into three different problems: a necessary components problem, a combinatorial problem, and a computation problem.

The Necessary Components Problem

The basic units of life (below the cellular level) are things such as RNA, DNA, and proteins. Proteins are made of building blocks called amino acids. Some proteins are extremely complicated molecules built from very many amino acids. It was calculated long ago that the chance of some of these proteins forming from random combinations of amino acids is incredibly low, even given billions of years. But that's not necessarily a problem, because proteins are formed using the instructions in DNA. A DNA molecule is like a library of recipe books, with each of the recipes being a recipe for making a particular type of protein.

So if there is a mechanism for producing DNA from a chance combination of chemicals, we might have a way of explaining how all those complicated proteins came into existence. Unfortunately it seems DNA molecules appear to be way too complicated to have arisen from a chance combination of their constituent elements of nucleotides (which consist of sugars, phosphates, and nitrogenous bases), without assistance from something more complicated than nucleotides.

So the current leading hypothesis is that the first self-replicating molecule was not DNA but something simpler, presumably some version of RNA. This idea is called the RNA World hypothesis. The idea is that first there was RNA, and that DNA evolved later. However, the RNA World hypothesis is on shaky ground.

One problem is the difficulty of explaining the origin of all the necessary building blocks. The table below shows the various types of building blocks. As indicated below, there are reasons for doubting that the ribose sugars, purines, and nucleotides would have existed in sufficient quantity for DNA or RNA to originate.



Components
RNA, DNA
Ribose sugars Harvard science web site: "In experiments ribose could not be made at the necessary quantities that would explain its abundance on early Earth because it was highly unstable."

Wikipedia article: some scientists have concluded that "the backbone of the first genetic material could not have contained ribose or other sugars because of their instability."
Phosphates

Pyrimidines (type of nitrogenous base) 2009 paper (Powner et. al) suggests possible path for abiotic origin.
Purines (type of nitrogenous base) More complex than pyrimidines. According to this paper, hard to explain abiotic origin, in a way compatible with formation of ribose sugars.
Nucleosides (combination of ribose sugar and pyrimidines or purines) and nucleotides (a nucleoside plus a phosphate) Wikipedia article:No known chemical pathways for the abiogenic synthesis of nucleotides from pyrimidine nucleobases cytosine and uracil under prebiotic conditions."


Proteins
Amino Acids Found in a meteorite. Miller-Urey experiment produced amino acids from gases and continuous electricity.




The Combinatorial Problem

The combinatorial problem is the problem of getting anything like RNA or DNA to appear from the building blocks listed above. This scientific paper by Joyce and Orgel refers to the difficulty of joining together nucleosides (a combination of ribose sugar and pyrimidines or purines) and nucleotides (a nucleoside plus a phosphate). The wikipedia article on the RNA World hypothesis notes that “Joyce and Orgel further argued that nucleotides cannot link unless there is some activation of the phosphate group, whereas the only effective activating groups for this are 'totally implausible in any prebiotic scenario', particularly adenosine triphosphate.”

Well-known scientist Freeman Dyson has stated, “The results of thirty years of intensive chemical experimentation has shown that prebiotic synthesis of amino acids is easy to simulate in a reducing environment, but prebiotic synthesis of nucleotides is difficult in all environments...If it happened, it happened by some process that none of our chemists have been clever enough to reproduce.”

RNA is made of nucleotides, which are made of ribose sugar, phosphates, pyrimidines, and purines. Scientists have not been able to synthesize RNA through a simulation of the early earth, and in such simulations have not been able to make the simpler nucleotides either. As discussed in the table above, there are difficulties in assuming the availability of even some of the building blocks of the building blocks of RNA.

The Computational Problem

Perhaps the biggest problem involving the origin of life is the problem of accounting for the origin of the genetic code. The genetic code is a symbolic representation system used by all earthly life. It has been called a kind of miniature programming language. 

 The Genetic Code

It is fairly easy to explain the basics of how the code works. In the spiral staircase structure of the DNA molecule, the “steps” of the staircase are chemicals called nitrogenous bases: either purines (adenine or guanine) or pyrimidines (cytosine or uracil). Various combinations of three of these chemicals stand for different amino acids (the building blocks of proteins). For example, if there are three consecutive “steps” in the spiral staircase, and the first is cytosine, the second adenine, and the third guanine, that stands for the amino acid glutamine. There are 63 other cases where a sequence of three nitrogenous bases stands for a particular amino acid. (In the diagram above, the chemicals around the four edges of the square are the amino acids.)

Imagine if you liked to write down recipes, but you needed to write down many of them on a single piece of paper. You might invent a little “recipe language” in which MK1 stands for a half a cup of milk, MK2 stands for a full cup of milk, FL1 stands for a half a cup of flour, and so forth, with a total of 64 different three-character symbols (and some other characters standing for “end of recipe”). You might then write out recipes very concisely using this little language. That's quite similar to what the genetic code does, except the recipes are stored in the DNA molecule, and the recipes are instructions for making proteins from the building blocks of amino acids.

The big question is: how did this genetic code ever originate? It's hard to imagine it arising through anything like Darwinian evolution, as the genetic code seems to be required from the very beginning of biological evolution.

The genetic code can be considered an example of code, the term software developers use for the symbolic instructions they create. The baffling question is: how did nature go from chemicals to code? Code seems like something fundamentally different from chemicals, and the two seem as unrelated as an apple is to a bicycle.

The issue was highlighted by a paper by biologists J.T. Trevors and D.L. Abel:

"Peer-reviewed life-origin literature presupposes that, given enough time,
 genetic instructions arose via natural events. Thus far, no paper has provided
 a plausible mechanism for natural-process algorithm-writing...There is an
 immense gap from prebiotic chemistry and the lifeless Earth to a complex DNA  instruction set, code encryption into codonic sequences, and decryption
 (translation) into amino acid sequences...How did inanimate nature write
(1) the conceptual instructions needed to organize
metabolism?
(2) a language/operating system needed to symbolically
represent, record and replicate those instructions?
(3) a bijective coding scheme (a one-to-one correspondence
of symbol meaning) with planned redundancy
so as to reduce noise pollution between triplet codon
‘‘block code’’ symbols (‘‘bytes’’) and amino acid
symbols?
We could even add a fourth question. How did
inanimate nature design and engineer
(4) a cell [Turing machine? (Turing, 1936)] capable of
implementing those coded instructions?" -- Trevors and Abel


In this article the widely read physics professor Paul Davies has discussed other difficulties in the “code from chemicals” scenario, the assumption that the genetic code arose from some kind of chemical evolution: 

"The language of genes is digital, consisting of discrete bits, cast in the language of a four-letter alphabet. By contrast, chemical processes are continuous. Continuous variables can also process information – so-called analogue computers work that way – but less reliably than digital. Whatever chemical system spawned life, it had to feature a transition from analogue to digital. The way life manages information involves a logical structure that differs fundamentally from mere complex chemistry. Therefore chemistry alone will not explain life's origin, any more than a study of silicon, copper and plastic will explain how a computer can execute a program." -- Davies

This problem of the origin of the genetic code recently got even more difficult to explain, because scientists recently announced the discovery of a second genetic code buried in DNA. Apparently many of the triple sequences have a double-meaning. Explaining one genetic code was a nightmare -- how can we explain two of them?

A New Approach to the Origin of Life

We might get around these difficulties by imagining that the origin of life on Earth required external intervention by a divine agent or perhaps extraterrestrials. But that would raise the question: why should our ordinary little rock have deserved such a special blessing? After all, modern astronomy tells us that planets are as common as apples in an apple orchard.

A more intellectually attractive idea is the daring concept that the origin of life was programmatically predestined. We can boldly postulate that long, long before there arose the programming in the genetic code, there was a more general programming woven into the fabric of the universe, a programming that drives the evolution of the universe, causing the frequent occurrence of things that might otherwise have very little or no chance of occurring. Under such a scenario, we can think that life is appearing throughout the universe, because that is the way the universe is programmed to behave. Under such a concept, we no longer have to imagine the origin of the genetic code by supposing a farfetched case of “code from chemicals.” We can instead plausibly imagine the origin of the genetic code as a case of “code from code” – the genetic code being a product of a more general cosmic software that is influencing cosmic destiny, propelling the universe forward towards desirable outcomes.

I speak here of the theory explained in other posts on this site: the theory of a programmed material universe. For more details, see my post The Theory of a Programmed Material Universe and my post Nature's Computation Needs Imply a Programmed Material Universe.

Friday, January 10, 2014

The Theory of a Programmed Material Universe

Cross-posted from www.futureandcosmos.blogspot.com

In my previous blog post Nature's Computation Needs Imply a Programmed Material Universe, I introduced a theory that the universe has a computation layer that includes software. My reasoning was based on the argument that we must assume such a layer in order to properly explain the incredibly high level of computation that nature is apparently doing all of the time. The reasoning I presented in that post was only half of the case for such a theory. The other half of the case (which this blog post will explore) is the need for such a theory to help explain the amazing and improbable evolution of the universe since the time of the Big Bang. I may note that this theory of a programmed material universe postulates that the universe is quite real and not any type of illusion (in contrast to theories imagining that the universe is merely a simulation, theories I reject).
 
First, let us consider: if the universe does have a computation layer that includes software, how old is such a layer? If modern science told us that the universe existed for many billions of years in a state of complete disorder, and then gradually evolved over many, many billions of years to a state of somewhat greater order, then it might be plausible to advance some theory involving the gradual evolution of a computation layer within the lifetime of our universe. But that is not what modern science tells us about the past of our universe. Astronomers tell us that the universe began about 13 billion years ago in the Big Bang, a state of fantastically high density (indeed, infinitely high density if general relativity is to be believed). Cosmologists tell us that the behavior of the Big Bang was in several ways remarkably fine-tuned, and we know that nature has been behaving in an astonishingly orderly way from the very beginning. So if we are going to postulate a computation layer as part of the universe, we must assume that such a layer has existed from the very beginning, from the time of the Big Bang. 
 
Two Diagrams that Visualize the Theory

Below is a diagram showing how the theory of a programmed material universe can be related to the evolution of the universe (click the diagram to expand it):

Programmed Material Universe
Click to Expand

In this diagram we see one block marked “Primordial Programming” which includes constants, laws of nature, and software. The assumption of software existing from the very beginning is a new assumption made by the theory of a programmed material universe. Scientists have assumed that fundamental constants (such as the speed of light, the gravitational constant, and Planck's constant) have existed from the time of the Big Bang, and they have assumed that laws of nature have existed since the time of the Big Bang. But the assumption that software has existed from the beginning is a new theoretical element characteristic of the theory we are discussing (the theory of a programmed material universe). I use the term software to simply mean programming. One way to define programming is processing that produces desirable outputs, typically from a set of inputs. There is probably a better and more general way to define programming, but that definition will do for the moment.

Note that in this diagram I have a single rectangle that mixes together constants, laws of nature, and software. This is intentional, because we apparently need to imagine these things as being intermingled. Many of the laws of nature may need to be conceived as aspects of the software that has existed from the beginning, according to the theory of a programmed material universe. The fundamental constants of nature may also need to be conceived as elements that are part of the universe's software (just as constants are declared within computer programs).

Purely for space reasons, the diagram depicts the Big Bang rectangle as underneath the Primordial Programming rectangle, but from a chronological standpoint we can imagine these both originating at the same time, at the beginning of the observable universe some 13 billion years ago (the Big Bang).

Another diagram that illustrates the theory is the one used in my previous blog post, where I depict a computation layer co-existing with a mass-energy layer, as shown below. I mentioned that we should imagine these two layers as being intermingled (rather than one floating above the other).


Programmed Material Universe

What Could Have Caused Primordial Programming?

If we imagine that the universe has had from the beginning a computation layer that includes software, we then have the question of: where did this software come from? The answer given in the first rectangle of my first diagram is: unknown (as I indicate by using a big question mark). But I can briefly discuss some possibilities mentioned in the first rectangle of my first diagram. I discuss these reasons merely to show that there might be some explanation for why the universe might have a computation layer that includes software.

One possibility is the idea that the computational layer was put in place by a divine creator, perhaps a being with some attributes of great power and wisdom, as imagined by quite a few theologians or philosophers. The fact that the theory of a programmed material universe may lead many to think of such a possibility is no defect of the theory as compared to the regular theory of a Big Bang, because the regular theory of a Big Bang is also suggestive of such a possibility.

A second possibility is that the primordial programming may have been put in place by godlike aliens that arose in a phase of the universe prior to the Big Bang. General relativity indicates that nothing existed prior to the Big Bang, so this possibility is extremely speculative. But if there was some existence of the universe prior to the Big Bang (unlikely as that may be), there conceivably could have evolved some civilization lasting millions of years, and the beings in such a civilization might have developed godlike powers from eons of technological development. Just conceivably, such beings could have caused our universe to acquire the programming that it seems to have. I don't consider this to be a very likely possibility, but I am mentioning it for the sake of completeness.

A third possibility is that somehow the universe could have acquired its current programming (as postulated by the theory of a programmed material universe) through a process of software evolution that might have carried through one or more previous cycles or phases of the universe prior to the Big Bang. As someone who has written automatic code generators more than once, I know that software does not necessarily have to be produced directly by a conscious programmer. Very advanced software can also itself produce other software. So conceivably there could have been previous software in a previous cycle or phase of the universe (prior to the Big Bang), and that might have somehow spawned the programming that seems to have existed in our universe from the time of the Big Bang.

A fourth possibility is the possibility that there simply was some ex nihilo quantum event that brought our current universe into existence at the time of the Big Bang, along with the programming that our universe seems to have had since that time. Such a scenario is admittedly farfetched, but it only seems to be slightly more farfetched than the notion that the whole physical universe could have popped into existence from nothing (a possibility that quite a few physicists take seriously).

To accept the theory of a programmed material universe, it is not at all necessary to take any position on which of these possibilities is the correct one, or whether any of them is likely. We can simply leave the origin of the primordial programming as a great big question mark. That is pretty much what scientists do in regard to the Big Bang itself.

Given this wide range of possibilities, only one of which is theistic, we can say that the theory of a programmed material universe is a religiously neutral theory, and that it does not at all require any belief in the current existence of any deity. It could be argued, however, that the theory is a somewhat “theism-friendly” theory. But you could say the same thing about the Big Bang theory itself, with its unexplained sudden appearance of the universe.

A Software-Assisted Evolution of the Universe

You may note that in my first diagram there are four rectangles containing the phrase “software assisted,” one for the Big Bang, another for the origin of galaxies, another for the origin of life, and another for the origin of Mind. “Software assisted” here means the same as “aided by programming.” Why postulate that such momentous events were software-assisted?

The software that we know of often tends to be goal-oriented. For example, when you go to the Amazon web site, you do not encounter software that is indifferent to whether or not you will place an order at that web site. Instead you encounter software that has a goal, which in this case is the goal of encouraging and recording some purchase by you. So if we assume that the universe has had very complicated programming from the very time of the Big Bang 13 billion years ago, it is reasonable to assume that such software is to some degree goal-oriented. This does not at all mean that we have to assume any self-conscious wishes in such software. Unconscious software can have goals. After I die there will still remain in my computer files some computer programs that have particular goals, but such programs will be utterly unconscious.

But why is it that we might need to postulate that some primordial programming has assisted the universe throughout its evolution? The main reason is because of the great unlikelihood of the universe reaching so many milestones of success without any assistance from any such programming.

Here is a quick summary of the amazing history of the universe. Thirteen billion years ago the universe starts out in the Big Bang, in a state of apparently infinite density (according to general relativity). The universe manages to expand at just the right speed for galaxies to successfully form, even though scientists say that what is called the critical density had to be fine-tuned to fifty decimal places (an issue known as the flatness problem). Somehow even though the opposite regions of the universe were causally disconnected, they managed to somehow conspire to expand at an amazingly coordinated rate (the horizon problem), leaving us with a universe that is remarkably homogenous and suitable for the evolution of life. Then much later, from this explosive event of unimaginable heat and density, there somehow arose not a ruined wreck resembling the aftermath of an H-bomb, but instead a very orderly universe consisting of galaxies, with most stars existing in beautiful spiral galaxies. Billions of years later, there then somehow arose from mere heat and chemicals the marvelous bit of programming called the genetic code, required before biological evolution can even begin. There then arose life. Then much later from mere unconscious matter there somehow arose a completely different type of thing: self-conscious mind, of the type humans have.

This is a story of improbable success more mind-boggling than some Hollywood tale of a penniless street beggar marrying the princess of an exotic land. To make this story more believable, we need to postulate something extra. This is exactly what this theory of a programmed material universe can do, by describing a universe which had its evolution assisted by a computational layer that includes software that has existed since the beginning of the universe.

It is true that scientists have some theories that attempt to explain some of the remarkable evolution of the universe. There is an inflation theory designed to reduce the fine-tuning of the Big Bang. There is also a “lambda cold dark matter” theory designed to explain the origin of galactic structure. There is an RNA World theory designed to explain the origin of life. There are also attempts to explain the origin of human mental faculties from Darwinian evolution (which often resort to arguing that man is basically just a chimp, or man is like a robot, or that self-consciousness is merely a by-product of brain activity similar to the gravy that is a by-product of cooking a turkey).

But in general these theories are weak, cheesy, or insufficient. See my previous post We Do Not Understand How the Universe Came to Look This Way for a discussion of severe difficulties in the “lambda cold dark matter” theory designed to explain the origin of galaxies. See my previous post The Origin of Life: Programmatically Predestined? for a discussion of some severe difficulties in the RNA World theory, one of which is the near impossibility of explaining how the genetic code could have arisen through evolution from mere chemicals. See my previous post Darwinism is Good, But Fails to Explain Man's Higher Faculties for a full discussion of the very great difficulty in explaining the origin of self-conscious Mind from mere natural selection (a point that NYU professor Thomas Nagel has argued at great length in his book Man & Cosmos). I have not yet got around to putting up a post devoted to making a critique of the cosmic inflation theory, but I will do so. The Princeton cosmologist Paul Steinhardt has made some quite severe criticisms of that theory, in articles such as this one. There are so many special requirements of the cosmic inflation theory (for an inflation phase to both begin and end successfully) that even if you accept it you are still left with a great deal of unexplained fine-tuning in the Big Bang.

So we need something extra to explain the universe's amazingly successfully evolution from infinite density to planets where beings like us exist. The theory of a programmed material universe gives us that something extra. We can suppose that again and again throughout its history the universe has reached an outcome that was wildly improbable to occur by pure chance, because the universe behaved as it was programmed to behave from the beginning. 

But how is it that favorable events occurring in the universe's history could have been “software assisted” as I suggest in the first diagram? Think of it as I did in placing constants, laws of nature, and software in a single block labeled “Primordial Programming.” The three of these are intertwined. If there is programming behind the laws of nature (and if many of what we call the laws of nature or fundamental constants are simply aspects of that programming), then cosmic software or primordial programming is a kind of cosmic controller that can achieve any physical results. From this perspective, the programming doesn't have to follow the rules; instead the programming makes the rules, or to a large extent the programming and the rules are the same thing. So if we suppose programming has been behind the laws of nature from the beginning, we can envision that programming as a kind of teleological impetus that can achieve any physical result that is consistent with the programming itself.
 
If there were no reasons for believing in such a theory other than the usefulness of such a theory in explaining the universe's evolution, and the appearance of life and self-conscious Mind, then there might not be a sufficient warrant for such a theory. But in my previous blog post I did explain many other reasons for adopting such a theory. In that post I showed that when we examine the computation requirements of nature, we find again and again that nature seems to be doing almost infinite amounts of rule-based computation, that often bears an uncanny resemblance to what we see going on in computer programs. We therefore have a full spectrum of powerful reasons for postulating this theory of a programmed material universe. 
 
Optional Features of the Theory: “Luxury Accessories”

I will now discuss two additional parts of my first diagram: the “Synchronized Evolution?” box and the “Life After Death?” box. Both of these are very much “luxury accessories” of the theory of a programmed material universe, not at all integral parts of the theory (rather like optional features you may choose when ordering a car from a car dealer).

As for the “Life After Death” box, it is a fact that very many advanced software systems have a feature called auto-save, where the system says: I've detected something worth saving, so let me automatically save it. If we postulate that the universe has a built-in computation layer that includes software, it is then possible to imagine without too great a leap that the universe's primordial programming might include some functionality that automatically causes (or helps to cause) advanced consciousness to somehow survive death. From such a perspective it might conceivably be that life after death is just another feature in the feature set of the universe's programming. I will mainly leave it to others to debate how likely such a possibility may be, and at this time I have nothing but very vague thoughts about the matter.

Another “luxury accessory” of the theory of a programmed material universe is the possibility of synchronized evolution. If we assume that the universe's evolution is being assisted and perhaps even controlled by some computation layer of the universe that includes software, it is possible that rather than occurring at random time intervals, the evolution of intelligent life may occur in a synchronized manner. The universe could be programmed for intelligent life to appear throughout it at the same time. There may be throughout the universe a target date for the evolution of intelligent life, some date close to the present.

Why even consider such a possibility? The main reason is that such a possibility offers a new potential solution to one of the great mysteries of the universe: the “where is everybody?” mystery known as Fermi's Paradox. If intelligent life is appearing simultaneously throughout the universe, then the long-standing Fermi's Paradox mystery dissolves away, and we can say: they are not here, because they are no more evolved than we are. But I think this synchronized evolution possibility is somewhat unlikely, so I suggest it merely as an optional hypothesis.

These two possibilities (life after death and synchronized evolution) are not at all predictions of the theory of a programmed material universe; they are merely possibilities that might be more likely if such a theory is true.

Cosmic Fine Tuning and the Theory of a Programmed Material Universe


One of the most important discoveries during the past 40 years has been the discovery of cosmic fine tuning, the many ways in which the universe seems to be tailor-made for the evolution of intelligent life. Scientists have been extensively discussing the topic for about 40 years, often while discussing what is called the anthropic principle.


You can find a good introduction to the topic in this scientific paper and my long blog post Cosmic Fine Tuning Visualized. In that blog post I used a metaphor of a slot machine with 8 rows that must each have all matching symbols for the universe to be compatible with the appearance of intelligent life (the rows being labeled gravity, particle charges, entropy, expansion rate, particle masses, element abundances, and nuclear forces). The chance of pulling the lever and getting a match on all 8 rows is 1 in 1048, one chance in a trillion trillion trillion trillion.


cosmic fine tuning
Metaphorical Visualization of Cosmic Fine Tuning

The discoveries about cosmic fine tuning don't fit in with the tendency of physicists to regard the universe as being a blind and random thing ruled by chance. Modern physicists have generally reacted to the discoveries of cosmic fine tuning with a combination of interest and complete bafflement, rather like a deer caught in the headlights.

Some physicists have reacted to all the evidence for cosmic fine-tuning by "running scared" to a theory of a multiverse (an ensemble of a vast number of universes). But while the theory of a multiverse might make it seem more likely that some universe (1 in a "zillion") might randomly have the conditions necessary for intelligent life, such a theory does nothing at all to make it seem more likely that this universe would have had by chance the conditions necessary for intelligent life. (Although they sound very similar, there is a world of difference between “some x” and “this x.” For example, the chance of some lottery ticket holder winning the next Powerball lottery is 100%, but the chance of this lottery ticket holder – myself -- winning that lottery is less than 1 in a million.)

We are long, long overdue for a theory of the universe in which cosmic fine-tuning fits in naturally, rather than being some embarrassing exception that stands out like a sore thumb. The theory of a programmed material universe is such a theory. It meshes very well with what we know about cosmic fine-tuning.

Fine-tuning is something that one expects to see in any good software system. So under a theory that the universe has a vitally important computation layer in which software is a very important part, we should expect to see cosmic fine-tuning. In fact, many of the things that are cited as cosmic fine-tuning may simply be considered aspects of the universe's built-in programming.

Cosmic fine-tuning and a theory of a programmed material universe fit together like a hand and a glove, which is a strong advantage of this theory.

The Teleological Nature of the Theory

The theory I have advanced here is clearly teleological, in the sense of imagining nature moving towards goals (not because it is self-conscious, but because it includes goal-oriented programming). But this teleological aspect is no defect in the theory. In his book Mind & Cosmos, NYU Professor Thomas Nagel (himself an atheist) argues with great force that reductionist materialistic explanations for the origin of life and the origin of human consciousness have been insufficient. Nagel argues that we need some new teleological theory, one that postulates "a cosmic predisposition to the formation of life, consciousness, and the value that is inseparable from them." Lengthy excerpts from his book are here and here. The theory I have advanced may fit most of his prescription.