Re: [XMLPipeDB-developer] OrderedLocusNames for Mycobacterium

[John D. N. D. <do...@lm...>]

Greetings,

I've released GenMAPP Builder 2.0b51 to SourceForge; this version seeks to implement the changes described for M. tuberculosis.

Not mentioned in the release notes is also a possible compatibility fix for Windows 7.  Please give this release a try on that operating system also and let me know if it runs.  Try the standard gmbuilder.bat first, and if that doesn't work, try gmbuilder-32bit.bat.  Once we have some definites, I can document it in the next release.

Thanks and enjoy!

John David N. Dionisio, PhD
Associate Professor, Computer Science
Loyola Marymount University



On Sep 8, 2010, at 9:30 PM, Kam Dahlquist wrote:

> Hi,
> 
> Kevin and I looked into the OrderedLocusNames for Mycobacterium 
> tuberculosis today.  We need to revise the query to retreive the IDs.
> 
> We only want to take the IDs of type "orded locus" that begin with 
> "Rv" these IDs are usually followed by four numbers, and sometimes by 
> a letter like a or c, or maybe a .# like .1
> 
> We don't want to take the type "ORF" or type "synonym".
> 
> I think it's also safe to say that we want the default UniProt 
> profile to just take IDs of type "ordered locus" and not "ORF" or "synonym".
> 
> Thanks,
> Kam