From ffacd1b1f9bb696772d226685fb7e7825e4c334a Mon Sep 17 00:00:00 2001
From: Magali Ruffier <mr6@ebi.ac.uk>
Date: Wed, 5 Sep 2018 14:56:25 +0100
Subject: [PATCH] ENSCORESW-2853: match Ensembl species casing
---
misc-scripts/xref_mapping/XrefParser/ReactomeParser.pm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/misc-scripts/xref_mapping/XrefParser/ReactomeParser.pm b/misc-scripts/xref_mapping/XrefParser/ReactomeParser.pm
index 23ceeeeb6c..52976e332d 100644
--- a/misc-scripts/xref_mapping/XrefParser/ReactomeParser.pm
+++ b/misc-scripts/xref_mapping/XrefParser/ReactomeParser.pm
@@ -115,7 +115,7 @@ sub run {
my ($ensembl_stable_id, $reactome_id, $url, $description, $evidence, $species) = split /\t+/,$line;
if ($description!~ /^[A-Za-z0-9_,\(\)\/\-\.:\+'&;"\/\?%>\s\[\]]+$/) { next; }
- $species =~ s/\s//;
+ $species =~ s/\s/_/;
$species = lc($species);
if ( $alias2species_id{$species} ){
$parsed_count++;
--
GitLab