> The conversion should only be done for PDB files, because
> only in that case is it reading the MODEL line,
> which must be a number.

That is not necessarily true.

Most formats use the modelTag. Other formats could place a number in that
field. I could easily create a .xyz file and use numbers to identify the
models.

A less-contrived example is pdbxml.

> (I didn't check into what CIF
> files do or if .isPDB is absolutely inclusive.)

It is not. (If it is, then the flag is mis-named)

> The issue was the distinction between PDB model
> number listed and sequential model number.

I disagree slightly. I don't see that the issue is specific to .PDB files.

I think the question is ... If any file format uses numbers to distinguish
between the models then would you want to use that number as the
modelTagNumber so that you would see it formatted with %M ?

Look, if the tag presented by other file types is not a number then the
behavior will be exactly the same as you desire. If you believe that no
other file type will ever use a number for a model identifier then the
behavior will be exactly the same as you desire.

I am not saying that I know the absolutely correct answer to this, because
I have struggled with it. But I see no reason to make the change to
restrict the behavior to .pdb files at this point.


Miguel



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