[Bioperl-l] Bio::Tools::Run::StandAloneBlastPlus - remote blast

[Mark A. Jensen]

Hi Rémi
Looks like a bug-- can you report it via http://bugzilla.bioperl.org?
Just enter what you've written here-- I appreciate it-
Mark
----- Original Message ----- 
From: "Remi" <remi.planel at free.fr>
To: "BioPerl List" <bioperl-l at lists.open-bio.org>
Sent: Thursday, May 13, 2010 5:08 AM
Subject: [Bioperl-l] Bio::Tools::Run::StandAloneBlastPlus - remote blast


Hi all,

I'm using Bio::Tools::Run::StandAloneBlastPlus and trying to run a
remote blast using this code :


/my $fac = Bio::Tools::Run::StandAloneBlastPlus->new(
    -db_name => 'nr',
    -remote    => '1',
);
my $result = $fac->blastp( -query  => 'P12996.fasta',
                                            -outfile => 'out.bls',
                      );

/but I got an error message :
"BLAST Database error: Protein BLAST database './nr' does not exist in
the NCBI servers".


But if I'm modifying directly the value of $fac->{'_db_path'} like :

/$fac->{'_db_path'} = 'nr';/

it's working.

Is that a Bug or am I missing something ?

Thanks,


Rémi
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