[Bioperl-l] Question: creating an empty Bio::Seq object

[Hilmar Lapp]

I checked it. It does work for me (perl 5.6.0, bioperl current checkout). Are you sure your hash contains the right stuff?

	-hilmar

> -----Original Message-----
> From: Scott Cain [mailto:cain@cshl.org]
> Sent: Monday, December 02, 2002 7:49 AM
> To: bioperl-l@bioperl.org
> Subject: [Bioperl-l] Question: creating an empty Bio::Seq object
> 
> 
> Hello all,
> 
> I have a relatively simple question.  I want to create a 
> Bio::Seq object
> before I have the actual DNA sequence, but when I do know the 
> length, so
> I would like to do something like this:
> 
> my $bioseq = Bio::Seq->new ( -alphabet         => 'dna'
>                              -accession_number => $name ,
>                              -length           => 
> $$hash_ref{'seqlen'});
> 
> however, this doesn't appear to work.  Amusingly, if I do 
> this and then
> do $bioseq->length, it answers with '9', since the test 
> accession number
> I am using is 9 characters long (at least I assume that is where the 9
> is coming from). So, is there a way to construct a Bio::Seq 
> and give it
> a length without actually having a DNA sequence?
> 
> Thanks,
> Scott
> 
> 
> -- 
> --------------------------------------------------------------
> ----------
> Scott Cain, Ph. D.                                         
> cain@cshl.org
> GMOD Coordinator (http://www.gmod.org/)                     
> 216-392-3087
> Cold Spring Harbor Laboratory
> 
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