Skip to content

GitLab

Commit 32ccf1c2 authored by Magali Ruffier's avatar Magali Ruffier
Browse files

dbtype is an argument, so it can be run on core, vega, otherfeatures...

parent 547d5b7b
Hide whitespace changes
Inline Side-by-side
Showing with 6 additions and 4 deletions
modules/Bio/EnsEMBL/Pipeline/Production/PepStats.pm
View file @ 32ccf1c2
......@@ -10,9 +10,10 @@ use Bio::EnsEMBL::Attribute;
sub run {
my ($self) = @_;
my $species = $self->param('species');
my $dba = Bio::EnsEMBL::Registry->get_DBAdaptor($species, 'core');
my $helper = $dba->dbc()->sql_helper();
my $species = $self->param('species');
my $dbtype = $self->param('dbtype');
my $dba = Bio::EnsEMBL::Registry->get_DBAdaptor($species, $dbtype);
my $helper = $dba->dbc()->sql_helper();
my %attrib_codes = $self->get_attrib_codes();
$self->delete_old_attrib($dba, %attrib_codes);
......@@ -29,7 +30,8 @@ sub run {
sub store_attrib {
my ($self, $translation, $results) = @_;
my $aa = Bio::EnsEMBL::Registry->get_adaptor($self->param('species'), 'core', 'Attribute');
my $dbtype = $self->param('dbtype');
my $aa = Bio::EnsEMBL::Registry->get_adaptor($self->param('species'), $dbtype, 'Attribute');
my $prod_dba = $self->get_production_DBAdaptor();
my $prod_helper = $prod_dba->dbc()->sql_helper();
my @attribs;
......
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment