From a290c8958ba90fac4a58eabf2c3551a2dec5edb2 Mon Sep 17 00:00:00 2001
From: Alessandro Vullo <avullo@ebi.ac.uk>
Date: Fri, 7 Apr 2017 11:20:28 +0100
Subject: [PATCH] Had problems with Zebrafish due to some entries having
non-digit version.
---
misc-scripts/xref_mapping/XrefParser/RefSeqCoordinateParser.pm | 1 +
1 file changed, 1 insertion(+)
diff --git a/misc-scripts/xref_mapping/XrefParser/RefSeqCoordinateParser.pm b/misc-scripts/xref_mapping/XrefParser/RefSeqCoordinateParser.pm
index d5018e0528..412412d823 100644
--- a/misc-scripts/xref_mapping/XrefParser/RefSeqCoordinateParser.pm
+++ b/misc-scripts/xref_mapping/XrefParser/RefSeqCoordinateParser.pm
@@ -341,6 +341,7 @@ sub run_script {
# If a best match was defined for the refseq transcript, store it as direct xref for ensembl transcript
if ($best_id) {
my ($acc, $version) = split(/\./, $id);
+ $version =~ s/\D//g;
my $source_id = $mrna_source_id;
$source_id = $ncrna_source_id if $acc =~ /^NR_/;
$source_id = $pred_mrna_source_id if $acc =~ /^XM_/;
--
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