[ensembl-dev] ensembl blast problem
Sharon Wei
weix at cshl.edu
Wed Feb 12 18:44:28 GMT 2014
Dear Ensembl Blastview developers,
There seem to be a problem with ensembl blast url
http://useast.ensembl.org/Multi/blastview. If you blast against a non
primary species database such a Zea_mays in the case of ensembl plants,
you would get a blast ticket. However typing in the same ticket url (for
example: http://plants.ensembl.org/Multi/blastview/BLA_DTqOPD0X6) in
another tab, you would always get blast results against Oryza_sativa ie,
the default primary species. Checking in the blastview code, I found the
codes similar to the following that explain the behavior. However I am
wondering whether it would make more sense to look in the blast database
with the ticket token before assigning ensembl species
my $tsp = $ENV{'ENSEMBL_SPECIES'} eq 'Multi' ?
$SPECIES_DEFS->ENSEMBL_PRIMARY_SPECIES : $ENV{'ENSEMBL_SPECIES'};
Thanks,
Sharon
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