Merge pull request #291 from Ensembl/feature/ucsc_parser

ENSCORESW-2792: one UCSC parser per species

misc-scripts/xref_mapping/XrefParser/UCSC_human_parser.pm

+=head1 LICENSE
+
+Copyright [1999-2015] Wellcome Trust Sanger Institute and the EMBL-European Bioinformatics Institute
+Copyright [2016-2018] EMBL-European Bioinformatics Institute
+
+Licensed under the Apache License, Version 2.0 (the "License");
+you may not use this file except in compliance with the License.
+You may obtain a copy of the License at
+
+     http://www.apache.org/licenses/LICENSE-2.0
+
+Unless required by applicable law or agreed to in writing, software
+distributed under the License is distributed on an "AS IS" BASIS,
+WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+See the License for the specific language governing permissions and
+limitations under the License.
+
+=cut
+
+# This module replicates the generic UCSC parser for human specific data
+# This prevents cross-mapping between species by treating each species as a separate source
+
+package XrefParser::UCSC_human_parser;
+
+use base qw( XrefParser::UCSCParser);
+
+1;

misc-scripts/xref_mapping/XrefParser/UCSC_mouse_Parser.pm → misc-scripts/xref_mapping/XrefParser/UCSC_mouse_parser.pm

@@ -20,7 +20,7 @@ limitations under the License.
 # This module replicates the generic UCSC parser for mouse specific data
 # This prevents cross-mapping between species by treating each species as a separate source
 
-package XrefParser::UCSC_mouse_Parser;
+package XrefParser::UCSC_mouse_parser;
 
 use base qw( XrefParser::UCSCParser);
 

misc-scripts/xref_mapping/xref_config.ini

@@ -1993,7 +1993,7 @@ download        = Y
 order           = 70
 priority        = 1
 prio_descr      =
-parser          = UCSCParser
+parser          = UCSC_human_parser
 release_uri     = ftp://hgdownload.cse.ucsc.edu/goldenPath/hg38/database/README.txt
 data_uri        = ftp://hgdownload.cse.ucsc.edu/goldenPath/hg38/database/knownGene.txt.gz
 
@@ -2004,7 +2004,7 @@ download        = Y
 order           = 70
 priority        = 1
 prio_descr      =
-parser          = UCSC_mouse_Parser
+parser          = UCSC_mouse_parser
 release_uri     = ftp://hgdownload.cse.ucsc.edu/goldenPath/mm10/database/README.txt
 data_uri        = ftp://hgdownload.cse.ucsc.edu/goldenPath/mm10/database/knownGene.txt.gz