[Bioperl-l] index::abstract on win and unix

Frédéric Romagné frederic.romagne at gmail.com
Wed Apr 16 17:39:07 EDT 2008


Well, if with input file you mean the database used, it's created
with Bio::Index::GenBank from a ncbi FTP's genbank file.

$id is an accession number read from a file but i chomp the line...

I am trying to install the svn version of bioperl under windows to see
if there is an improvement.

Le jeudi 17 avril 2008 à 08:49 +1200, Smithies, Russell a écrit :
> Did you check the format of your input file?
> i.e. DOS or UNIX line endings?
> 
> > -----Original Message-----
> > From: bioperl-l-bounces at lists.open-bio.org [mailto:bioperl-l-bounces at lists.open-
> > bio.org] On Behalf Of Frédéric Romagné
> > Sent: Thursday, 17 April 2008 5:25 a.m.
> > To: bioperl-l at lists.open-bio.org
> > Subject: [Bioperl-l] [bioperl-l] index::abstract on win and unix
> > 
> > Hello,
> > i made a program which use Bio::Index::GenBank and i tested it under
> > unix, that worked well.
> > 
> > But i have to launch it under windows and it seems not to work on.
> > 
> > Here is the problem :
> > 
> > my $dbobj = Bio::Index::Abstract->new("Data/$db");
> > my $seq = $dbobj->get_Seq_by_acc($id);
> > print $seq->display_id."\n";
> > 
> > did not print the same number than $id !!! So i don't work on the
> > sequence expected...
> > 
> > I use the SVN sources on unix and the Perl package manager for
> > windows...
> > 
> > Thanks.
> > 
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/bioperl-l
> 
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