From d2738b055261e38ae2d7edd5068464c5bbcaaae9 Mon Sep 17 00:00:00 2001
From: Glenn Proctor <gp1@sanger.ac.uk>
Date: Fri, 23 Mar 2007 11:49:12 +0000
Subject: [PATCH] More checking.
---
misc-scripts/xref_projection/project_display_xrefs.pl | 6 ++++--
1 file changed, 4 insertions(+), 2 deletions(-)
diff --git a/misc-scripts/xref_projection/project_display_xrefs.pl b/misc-scripts/xref_projection/project_display_xrefs.pl
index 98ef3f8e8c..d94d429b7a 100644
--- a/misc-scripts/xref_projection/project_display_xrefs.pl
+++ b/misc-scripts/xref_projection/project_display_xrefs.pl
@@ -266,7 +266,7 @@ sub project_go_terms {
# GO xrefs are linked to translations, not genes
# For historical reasons we only project GO terms between the longest translations of each gene
# TODO - consider projecting *all* GO terms from *all* source translations to one translation of target?
- # TODO - getting the translation's length seem to involve lots of database accesses - some way to do
+ # TODO - getting the translation's length seem to involve lots of database accesses - some way to do
# this quicker? Via SQL?
my $from_translation = get_longest_translation($from_gene);
my $to_translation = get_longest_translation($to_gene);
@@ -275,7 +275,9 @@ sub project_go_terms {
my $to_go_xrefs = $to_translation->get_all_DBEntries("GO");
- DBENTRY: foreach my $dbEntry (@{$from_translation->get_all_DBEntries("GO")}) {
+ DBENTRY: foreach my $dbEntry (@{$from_translation->get_all_DBEntries("GO")}) {
+
+ next if (!$bdEntry || $dbEntry->dbname() ne "GO" || ref($dbEntry) ne "Bio::EnsEMBL::GoXref");
# Skip the whole dbEntry if one or more if its evidence codes isn't in the whitelist
foreach my $et (@{$dbEntry->get_all_linkage_types}){
--
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