[Bioperl-l] Blast with GI's

[Ross Gibbs]

Does bioperl parse blast reports when NCBI GI numbers are included?

I'm running reports using "BLAST with client-server support" which creates
an HTML report.

When a try to parse a non_html version of the report I get the output
below.

Suggestions?
Ross




MSG: Unexpected error during read: -------------------- EXCEPTION
-------------------- MSG: Can't determine program type from BLAST report.
STACK Bio::Tools::Blast::_parse_header
/usr/lib/perl5/site_perl/5.6.0/Bio/Tools/Blast.pm:1928 STACK
Bio::Tools::Blast::__ANON__
/usr/lib/perl5/site_perl/5.6.0/Bio/Tools/Blast.pm:1761 STACK (eval)
/usr/lib/perl5/site_perl/5.6.0/Bio/Root/IOManager.pm:752 STACK
Bio::Root::IOManager::read
/usr/lib/perl5/site_perl/5.6.0/Bio/Root/IOManager.pm:736 STACK
Bio::Root::Object::read
/usr/lib/perl5/site_perl/5.6.0/Bio/Root/Object.pm:1511 STACK
Bio::Tools::Blast::_parse_blast_stream
/usr/lib/perl5/site_perl/5.6.0/Bio/Tools/Blast.pm:1615 STACK
Bio::Tools::Blast::parse
/usr/lib/perl5/site_perl/5.6.0/Bio/Tools/Blast.pm:1465 STACK
Bio::Tools::SeqAnal::_initialize
/usr/lib/perl5/site_perl/5.6.0/Bio/Tools/SeqAnal.pm:281 STACK
Bio::Root::Object::new
/usr/lib/perl5/site_perl/5.6.0/Bio/Root/Object.pm:474 STACK toplevel
./bioperl.pl:19 ------------------------------------------- STACK
Bio::Root::IOManager::read
/usr/lib/perl5/site_perl/5.6.0/Bio/Root/IOManager.pm:763 STACK
Bio::Root::Object::read
/usr/lib/perl5/site_perl/5.6.0/Bio/Root/Object.pm:1511 STACK
Bio::Tools::Blast::_parse_blast_stream
/usr/lib/perl5/site_perl/5.6.0/Bio/Tools/Blast.pm:1615 STACK
Bio::Tools::Blast::parse
/usr/lib/perl5/site_perl/5.6.0/Bio/Tools/Blast.pm:1465 STACK
Bio::Tools::SeqAnal::_initialize
/usr/lib/perl5/site_perl/5.6.0/Bio/Tools/SeqAnal.pm:281 STACK
Bio::Root::Object::new
/usr/lib/perl5/site_perl/5.6.0/Bio/Root/Object.pm:474 STACK toplevel
./bioperl.pl:19 -------------------------------------------