diff --git a/modules/Bio/EnsEMBL/DBSQL/GeneAdaptor.pm b/modules/Bio/EnsEMBL/DBSQL/GeneAdaptor.pm index e6004e1901abb335210572ab1a1db00ba685bbdb..db17e8dbd03f9adc7fe92ae0c22fa4b56e0ba8de 100644 --- a/modules/Bio/EnsEMBL/DBSQL/GeneAdaptor.pm +++ b/modules/Bio/EnsEMBL/DBSQL/GeneAdaptor.pm @@ -94,12 +94,13 @@ sub _columns { my $created_date = $self->db->dbc->from_date_to_seconds("gsi.created_date"); my $modified_date = $self->db->dbc->from_date_to_seconds("gsi.modified_date"); return ( 'g.gene_id', 'g.seq_region_id', 'g.seq_region_start', 'g.seq_region_end', - 'g.seq_region_strand', 'g.analysis_id' ,'g.biotype', 'g.display_xref_id', - 'g.description', 'g.status', 'g.source', - 'gsi.stable_id', 'gsi.version', $created_date, + 'g.seq_region_strand', 'g.analysis_id' ,'g.biotype', 'g.display_xref_id', + 'g.description', 'g.status', 'g.source', + 'gsi.stable_id', 'gsi.version', $created_date, $modified_date, - 'x.display_label' ,'x.dbprimary_acc', 'x.description', 'x.version', - 'exdb.db_name', 'exdb.status', 'exdb.db_release' ,'exdb.db_display_name' ); + 'x.display_label' ,'x.dbprimary_acc', 'x.description', 'x.version', + 'exdb.db_name', 'exdb.status', 'exdb.db_release' ,'exdb.db_display_name', + 'x.info_type', 'x.info_text'); } @@ -1163,16 +1164,18 @@ sub _objs_from_sth { $gene_description, $stable_id, $version, $created_date, $modified_date, $xref_display_id, $status, $source, $xref_primary_acc, $xref_desc, $xref_version, $external_name, - $external_db, $external_status, $external_release, $external_db_name ); + $external_db, $external_status, $external_release, $external_db_name, + $info_type, $info_text); $sth->bind_columns( \$gene_id, \$seq_region_id, \$seq_region_start, - \$seq_region_end, \$seq_region_strand, \$analysis_id, \$biotype, - \$display_xref_id, \$gene_description, \$status, \$source, - \$stable_id, \$version, - \$created_date, \$modified_date, - \$xref_display_id, \$xref_primary_acc, \$xref_desc, \$xref_version, - \$external_db, \$external_status, - \$external_release, \$external_db_name ); + \$seq_region_end, \$seq_region_strand, \$analysis_id, \$biotype, + \$display_xref_id, \$gene_description, \$status, \$source, + \$stable_id, \$version, + \$created_date, \$modified_date, + \$xref_display_id, \$xref_primary_acc, \$xref_desc, \$xref_version, + \$external_db, \$external_status, + \$external_release, \$external_db_name, + \$info_type, \$info_text); my $asm_cs; my $cmp_cs; @@ -1284,7 +1287,9 @@ sub _objs_from_sth { 'description' => $xref_desc, 'release' => $external_release, 'dbname' => $external_db, - 'db_display_name' => $external_db_name + 'db_display_name' => $external_db_name, + 'info_type' => $info_type, + 'info_text' => $info_text }); $display_xref->status( $external_status ); }