[Biopython] What is our thinking about RCSB BCIF format?

[Peter Cock]

Hello Moth,

In a slightly related discussion on the OBF slack, Joao commented that
a parser for bCIF would be nice (binary CIF).

Being pragmatic, using the RCSB library internally to load into our
existing Bio.PDB object model might be useful?

Peter

On Wed, Feb 21, 2024 at 5:26 PM Moth, Christopher W
<chris.moth at vanderbilt.edu> wrote:
>
> I apologize if this question is already under discussion elsewhere and I am missing it.  Redirection welcome.
>
> After clinging to python2 for ages, the RCSB seems to finally released its own python_3_ based BCIF parser....
>
> https://www.rcsb.org/news/feature/65a1af31c76ca3abcc925d0c
>
> .... and I would thinkbiopython at biopython.org that there would be demand from the Bipython community for a faster cif parser in the current age of huge Cryo-EM structures....
>
> Is there any initiative to bolt-on the RCSB parser to biopython (bolt on our mmcif dictionary or so)?
> .. or perhaps write our own binary parser in pure python?
> ... or perhaps ignore "binary format" as fundamentally utterly non-pythonic?
>
> Thanks for sharing news of directions or wisdom.
>
> _______________________________________________
> Biopython mailing list  -  Biopython at biopython.org
> https://mailman.open-bio.org/mailman/listinfo/biopython