[Bioperl-l] where to document dependency? AND new SeqIO formats: Bio::SeqIO::strider and Bio::SeqIO::lasergene

Cook, Malcolm MEC at stowers-institute.org
Mon Mar 20 18:07:06 EST 2006


Chris Dagdigian,

Convert::Binary::C is now used by new Bio::SeqIO::strider module.  I've
added this to bioperl's ./MakeFile.PL and ./INSTALL.  Methinks it could
be added to Bundle::BioPerl.  Would you like to do that?

--Malcolm Cook

>-----Original Message-----
>From: Chris Fields [mailto:cjfields at uiuc.edu] 
>Sent: Friday, March 10, 2006 4:59 PM
>To: Cook, Malcolm; 'Brian Osborne'; bioperl-l at lists.open-bio.org
>Subject: RE: [Bioperl-l] where to document dependency? AND new 
>SeqIO formats: Bio::SeqIO::strider and Bio::SeqIO::lasergene
>
>
>> -----Original Message-----
>> From: Cook, Malcolm [mailto:MEC at stowers-institute.org]
>> Sent: Friday, March 10, 2006 4:38 PM
>> To: Chris Fields; Brian Osborne; bioperl-l at lists.open-bio.org
>> Subject: RE: [Bioperl-l] where to document dependency? AND new SeqIO
>> formats: Bio::SeqIO::strider and Bio::SeqIO::lasergene
>> 
>> Getting closer...
>> 
>> So, I added it to the ./Makefile.PL and ./INSTALL with the 
>cvs comment
>> 'added dependency on Convert::Binary::C needed by 
>Bio::SeqIO::strider'
>> 
>> But, re the wiki, it looks to me like the contents of the 
>wiki page are
>> (nearly) identical to the ./INSTALL.  Is one autogenerated from the
>> other, or do the both get editted?
>
>No, at least not at the moment.  I suppose we could get it 
>into POD and use
>pod2wiki.
>
>> Also, the only place I can think to add the dependency in the wiki
>> content is to the list of modules installed by Bundle::CPAN.  Am I
>> missing something, or should I be considering adding 
>Convert::Binary::C
>> to Bundle::CPAN as well?
>
>That's the place, though I think you mean Bundle::Bioperl.  
>
>I'm not sure what you should do about including it with 
>Bundle::Bioperl.
>Looks like Chris Dagdigian is the maintainer for that; his 
>email listed on
>CPAN is dag at sonsorol.org, though I wouldn't be surprised if 
>it's out of
>date.
>
>> 
>> Thanks,
>> 
>> Malcolm
>> 
>
>
>
>Christopher Fields
>Postdoctoral Researcher - Switzer Lab
>Dept. of Biochemistry
>University of Illinois Urbana-Champaign
>
>
>
>



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