[Biopython] Numbering MODEL sections in PDBIO?

[Rodrigo Faccioli]

 Hi,

We've spoke with Eric Talevich about our intention to contribute with
BioPython project. He helped us to participate in GSoC 2010. This project
can be access in:
https://docs.google.com/fileview?id=0ByNUaKmUm2WoMDVkYWVlMDktZGNlMS00N2UyLThkYTctNDU5MmZlNzhiYjM5&hl=en

Our main contribution is to work with SEQRES section of PDB file.  When we
was analysing the Bio.PDB module, more specific Select class, we would like
to develop a new way more flexible and simple for the users.  So, we create
the FcfrpStructureChains inherited FcfrpStructureSplit. We have the idea to
develop FcfrpStructureModel inherited FcfrpStructureSplit.

if you want to see the project that we're working, please access:

http://github.com/rodrigofaccioli/ContributeToBioPython

The example file to split chains of PDB is:
http://github.com/rodrigofaccioli/ContributeToBioPython/blob/master/examples/splitPDBChains.py

The execution line is: splitPDBChains.py 4HTC 4HTC.PDB <directory where
4HTC.PDB is>

If you want, we can talk in more details.

Our project is still in development version. Apologize for any bugs.

Thanks in advance,

--
Rodrigo Antonio Faccioli
Ph.D Student in Electrical Engineering
University of Sao Paulo - USP
Engineering School of Sao Carlos - EESC
Department of Electrical Engineering - SEL
Intelligent System in Structure Bioinformatics
http://laips.sel.eesc.usp.br
Phone: 55 (16) 3373-9366 Ext 229
Curriculum Lattes - http://lattes.cnpq.br/1025157978990218
Public Profile - http://br.linkedin.com/pub/rodrigo-faccioli/7/589/a5

On Wed, May 12, 2010 at 6:54 AM, Peter <biopython at maubp.freeserve.co.uk>wrote:

> On Wed, May 12, 2010 at 4:38 AM, João Rodrigues <anaryin at gmail.com> wrote:
> > Hello all,
> >
> > I am using Bio.PDB to parse some PDB files and some have multiple MODEL
> > records. I only want to keep the first one so I created a Select class
> that
> > accepts models for model.get_id() == 0. It works :)
> >
>
> This sounds like Bug 2950,
> http://bugzilla.open-bio.org/show_bug.cgi?id=2950
>
> See also:
> http://bugzilla.open-bio.org/show_bug.cgi?id=2951
>
> Peter
>
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