[Bioperl-l] blastall problem

Torsten Seemann torsten.seemann at infotech.monash.edu.au
Wed Apr 4 20:22:37 EDT 2007


> Software error:
> ------------- EXCEPTION  -------------
> MSG:    not Bio::Seq object or array of Bio::Seq objects or file name!
> STACK Bio::Tools::Run::StandAloneBlast::blastpgp
> /usr/perl5/5.6.1/lib/Bio/Tools/Run/StandAloneBlast.pm:611
> STACK toplevel /usr/local/apache2/htdocs/remote_ncbi.pl:50

> my $Seq_in = Bio::SeqIO->new (-file => 'result/fasta.faa', '-format' => 'Fasta');

Does this still happen if you give the full path to the FASTA file?
eg. -file => /usr/local/apache2/htdocs/result/fasta.faa
(I'm guessing what the full path is here)

--Torsten


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