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When I said;

“It is not the genes that code for the specific proteins themselves, that induce either, which combination of acetylation, methylation, and phosphorylation, occurs in the octameric complex, now is it?”

Another way to say it could be;

A specific gene itself, wasn't directly influencing the histones, to turn itself "on" or "off".

Nor was it the the histones alone, that be the root cause of transcription on/off determination, be though as they may, a controlling mechanism of achieving this on/off determination.

You are arguing something else..? But no, not really since you say,

"The chemical composition of the complex (phosphorylation of proteins, methylation of DNA, etc) is indeed accomplished by specific proteins coded for by DNA (using the universal code)."

All right...I'm certainly not disagreeing with that...

This very thread is entitled;

The Histone Code (genetic code not the only code?)

Looks very much like a "code within a code", to me. Why does this bother you so much?
The histone 'code', it is assumed, isn't independently self generating or modulating (since it didn't create itself, all by "itself" in the first place!)...which would leave us looking for the actual root of determining influences elsewhere in the genome, now wouldn't it?

You argue "universal code".
Ok, fine.

I, and many others, still see coding within coding, regardless of how much it is proclaimed "there is only one [universal] code, there is only one code!"

From the article:

“Histones are a group of highly evolutionarily conserved proteins that play a critical role in the proper packaging of DNA within the eukaryotic nucleus. DNA (~146 bp) along with the histones (two each of histones H2A, H2B, H3 and H4) form the fundamental repeating subunit of chromatin, known as the nucleosome (Figure 1). Since the human genome is composed of around three billion bases of DNA (3,000,000,000 bp), it is likely that there are tens of millions of nucleosomes within a single human nucleus. Because of their tight association with DNA, it has long been postulated that the histones directly participate in many different DNA-templated programs including transcription, replication, recombination and DNA repair. But there is a conundrum: if each tiny histone protein contains the same exact amino acid sequence as the other millions of histones in the nucleus, how could they possibly direct distinct and, sometimes, opposing nuclear processes (i.e. transcriptional activation versus inactivation)? One possible answer to this question has gained widespread acceptance within the last decade – the histone code.”

Again, Allmendream’s argument is not with us, but with his fellow evolutionary scientists. If Allmendream is saying that somehow the DNA/Universal Code directs the myriad of functions of millions and millions of histones all by its lonesome, then the burden is on Allmendream to show how the DNA/Universal Code accomplishes this incredible feat. Let me underscore this point. Just describing what happens won’t cut it. He needs to specify HOW the DNA/Universal Code directs the “distinct and, sometimes, opposing nuclear processes” of the histone proteins. That means, Allmendream needs to translate the specific portions of the Universal Code such that he can explain the specific actions and functions of histone proteins. If Allmendream cannot do this, then his insistence that there is only one code operating is pure conjecture. Do computers operate on single code? No, they operate on many codes (ie binary, windows, word, etc)...in other words computers have codes upon codes upon codes. And computers are no match for the sophistication of the nuclear processes of even a single cell.