Am 20.04.15 um 20:25 schrieb Robert Hanson:
> Written before the I am not seeing this problem. I tried 14.2 and 14.3
> with a file that for which I changed
>
> _atom_site.auth_asym_id (standard chain designation)
>
> or
>
> _atom_site.label_asym_id (used with FILTER "noAuthorChains")
>
> with numbers like "3480" and "3489" and found no problems.
>
> load t.cif
> select :3489
> select :3480
>
> both selected the right number of atoms.
>
> But now I see it has something to do with your particular file creation.
> If you can direct me to a way to reproduce that, it would be good. But I
> don't see how the reader would ever distinguish between those. An input
> stream is an input stream. I wonder what this is?
>
I would expect that you should be able to reproduce it by first loading
your modified file into a variable and then loading it as a model:
x=load("t.cif");
load "@x";
y={all}.chain.all.count();
show y;
> Jmol does not read MMCIF _struct_conn records.
>
> One could argue that we should, of course....
>
It really should read these records because they are too important...
The wwPDB has announced for example that it will drop the PDB format
totally in 2016. And if Jmol wouldn't read important information like
non-standard bonds it would have to be dropped as PDB entry viewer or
image generator.
But even if it wouldn't read these records in the future it should at
least respect the "set autobond off" setting while loading mmCIF files.
Regards,
Rolf
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