[Bioperl-l] basic questions

L Xu ryanx07 at hotmail.com
Mon Jun 11 11:24:31 EDT 2007


I just started to learn BioPerl by reading the BioPerl Tutorial on the 
BioPerl website. By trying the 1st example on my window,
use Bio::Perl;
$seq_object = get_sequence('swiss',"ID ROA1_HUMAN");
write_sequence(">roa1.fasta",'fasta',$seq_object);

I got the error as the following:

------------- EXCEPTION: Bio::Root::Exception -------------
MSG: swissprot stream with no ID. Not swissprot in my book
STACK: Error::throw
STACK: Bio::Root::Root::throw C:/Perl/site/lib/Bio/Root/Root.pm:350
STACK: Bio::SeqIO::swiss::next_seq C:/Perl/site/lib/Bio\SeqIO\swiss.pm:178
STACK: Bio::DB::WebDBSeqI::get_Seq_by_id 
C:/Perl/site/lib/Bio/DB/WebDBSeqI.pm:15
3
STACK: Bio::Perl::get_sequence C:/Perl/site/lib/Bio/Perl.pm:510
STACK: t8.pl:7

I cannot figure out where is wrong but cannot find the solution on the web. 
Could someone help me please?

Also, this lead to my 2nd question: is there a way to search in the archieve 
of the current list?

Thanks so much


R

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