[Bioperl-l] Bio::Annotation::Collection strange behavior

Emmanuel Quevillon tuco at pasteur.fr
Fri Apr 6 09:33:08 EDT 2007


Hi folks,

I have a strange behavior from Bio::SeqIO::embl.
When I read an EMBL file as an input and write to another one, the tags
in the output file (EMBL format) are not in the same order as the original
file.
Is it a normal and expecting result ?

I anyone want to test it as a perl on line here is the code :

perl -MBio::SeqIO -e '$i = Bio::SeqIO->new(-file => "file.embl", -format 
=> "EMBL"); $o = Bio::SeqIO->new(-file => ">new.embl", -format => 
"EMBL"); while($e = $i->next_seq()){ $o->write_seq($e);  }'

I checked in the embl.pm code but was enable to find where this behavior 
came from.

If someone has the solution or any clue.

Thanks

Regards

Emmanuel

-- 
-------------------------
Emmanuel Quevillon
Softwares and data banks
Pasteur Insititue
tuco at_ pasteur dot fr	
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