[Bioperl-l] fasta2gff_landmark ...
dan.bolser at gmail.com
Thu May 14 04:16:33 EDT 2009
2009/5/13 Scott Cain <scott at scottcain.net>:
> Hi Dan,
> I've already done this; take a look at:
> While it is part of the GMOD/Chado distribution, the only modules it
> uses is Bio::DB::Fasta and GetOpt::Long, and it has some nice
> convenience functions for modifying the resulting GFF.
That is more or less exactly what I need (and a vote for 'wait for the
code audit' I guess ;-).
I'm still seeing a couple of errors:
Use of uninitialized value in pattern match (m//) at
~/perl5/lib/perl5/Bio/DB/Fasta.pm line 1168.
Use of uninitialized value in exists at
~/perl5/lib/perl5/Bio/DB/Fasta.pm line 617.
But the resulting GFF looks fine.
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