diff --git a/misc-scripts/xref_mapping/XrefParser/HGNCParser.pm b/misc-scripts/xref_mapping/XrefParser/HGNCParser.pm index e23216bfb02d67a52f8296e589c32d84e121695c..d195887ed2d4c5d9497372ae7e77285020e3e8e0 100644 --- a/misc-scripts/xref_mapping/XrefParser/HGNCParser.pm +++ b/misc-scripts/xref_mapping/XrefParser/HGNCParser.pm @@ -64,7 +64,11 @@ sub run { $self->add_to_direct_xrefs($lrg_stable_id, 'gene', $acc, $empty, $symbol, $name, $empty, $source_id, $species_id); - $self->add_synonyms_for_hgnc($source_id, $acc, $species_id, $previous_symbols, $synonyms); + $self->add_synonyms_for_hgnc( {source_id => $source_id, + name => $acc, + species_id => $species_id, + dead => $previous_symbols, + alias => $synonyms}); $name_count{$type}++; } @@ -81,8 +85,11 @@ sub run { $self->add_to_direct_xrefs($id,'gene', $acc, $empty, $symbol, $name, $empty, $source_id, $species_id); - - $self->add_synonyms_for_hgnc($source_id, $acc, $species_id, $previous_symbols, $synonyms); + $self->add_synonyms_for_hgnc( {source_id => $source_id, + name => $acc, + species_id => $species_id, + dead => $previous_symbols, + alias => $synonyms}); } @@ -100,7 +107,11 @@ sub run { $self->add_to_xrefs($xref_id, $acc, $empty, $symbol, $name, $empty, $source_id, $species_id); } - $self->add_synonyms_for_hgnc($source_id, $acc, $species_id, $previous_symbols, $synonyms); + $self->add_synonyms_for_hgnc( {source_id => $source_id, + name => $acc, + species_id => $species_id, + dead => $previous_symbols, + alias => $synonyms}); } } } @@ -119,7 +130,11 @@ sub run { $self->add_to_xrefs($xref_id, $acc, $empty, $symbol, $name, $empty, $source_id, $species_id); } - $self->add_synonyms_for_hgnc($source_id, $acc, $species_id, $previous_symbols, $synonyms); + $self->add_synonyms_for_hgnc( {source_id => $source_id, + name => $acc, + species_id => $species_id, + dead => $previous_symbols, + alias => $synonyms}); } }