[Bioperl-l] Error in bp_genbank2gff3 error

Brian Osborne brian_osborne at cognia.com
Fri Apr 15 14:01:38 EDT 2005



Brian O.

-----Original Message-----
From: bioperl-l-bounces at portal.open-bio.org
[mailto:bioperl-l-bounces at portal.open-bio.org]On Behalf Of Michael
Sent: Friday, April 15, 2005 1:46 PM
To: 'Bioperl List'
Subject: [Bioperl-l] Error in bp_genbank2gff3 error

Not sure if this was fixed yet, but it is broken in my version

#$Id: genbank2gff3.PLS,v 1.5 2005/01/17 19:48:57 cjm Exp $;
Line 248

            $fa_outfile =~ s/gff/fa/;

if the string "gff" is in your --outfile, this creates problems
It should be changed to

            $fa_outfile =~ s/gff$/fa/;

-Michael Cipriano

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