[Biopython-dev] [Bug 3069] Support for EMBL-like files from IMGT

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=3069





------- Comment #21 from laserson at mit.edu  2010-05-18 17:53 EST -------
(In reply to comment #19)

> Sorry - I pasted the wrong URL, I mean here:
> http://github.com/peterjc/biopython/tree/seqio-imgt

I'm still not sure where you integrated the regular expression.

> I've found an even worse example of partial location example from
> http://imgt.cines.fr/download/LIGM-DB/imgt.dat.Z
> 
> ID   M97158 IMGT/LIGM annotation : keyword level; RNA; ROD; 1093 BP.
> XX
>
> ...
> 
> You can see the original at EMBL,
> http://www.ebi.ac.uk/cgi-bin/emblfetch?style=html&id=M97158&Submit=Go
> 
> Or in GenBank format at the NCBI,
> http://www.ncbi.nlm.nih.gov/nuccore/200865

That is awful!  And there is no excuse for it either, as they should've just
taken the coords from EMBL.  I feel as though we should leave these problems as
errors, and have IMGT fix them. 


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