[Biopython-dev] MMCIF Parser

[Lenna Peterson]

I am in the process of implementing the formal grammar of CIF in PLY (python lex yacc). The result should be a strict, robust, extensible CIF parser.

It's going very smoothly, and I plan on continuing it regardless as a learning exercise in lexical analysis. 

Please let me know if PDBe has a robust mmCIF python parser that would make mine redundant. 

Lenna


On Mar 9, 2012, at 10:11, Peter Cock <p.j.a.cock at googlemail.com> wrote:

> On Fri, Mar 9, 2012 at 3:07 PM, João Rodrigues <anaryin at gmail.com> wrote:
>> Hi all,
>> 
>> I was recently in a conference in Heidelberg and I got to know that the
>> PDBe is interested in collaborating with us in building a consolidated
>> Python module for structural bioinformatics. From what I understood they
>> already used our code sometimes.
>> 
>> Since there is some movement on the MMCif parser front, maybe it's a good
>> idea to query them and see if they have something implemented already?
>> Asking first not to step on anyone's toes, but it might save time?
>> 
>> João [...] Rodrigues
>> http://nmr.chem.uu.nl/~joao
> 
> Sounds good - you're one of the experts on the Bio.PDB code now
> after all, so a good person to talk to them.
> 
> Peter
> 
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