From 2c407294ff08dbdd4bf795688ccdc122d6f56f31 Mon Sep 17 00:00:00 2001
From: Kieron Taylor <ktaylor@ebi.ac.uk>
Date: Fri, 26 Jul 2013 10:39:39 +0000
Subject: [PATCH] Inevitable missing bits in get_alt_alleles.
---
misc-scripts/xref_mapping/XrefMapper/BasicMapper.pm | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/misc-scripts/xref_mapping/XrefMapper/BasicMapper.pm b/misc-scripts/xref_mapping/XrefMapper/BasicMapper.pm
index 44eb05cef6..60b9375fff 100644
--- a/misc-scripts/xref_mapping/XrefMapper/BasicMapper.pm
+++ b/misc-scripts/xref_mapping/XrefMapper/BasicMapper.pm
@@ -493,12 +493,12 @@ sub get_alt_alleles {
my $aaga = $self->core->db->get_adaptor('AltAlleleGroupAdaptor');
my $aa_list = $aaga->fetch_all_groups();
- my $count = scalar(@aa_list);
+ my $count = scalar(@$aa_list);
my %alt_id_to_gene_id;
my %gene_id_to_alt_id;
my $max_alt_id = 0;
my %is_reference;
-
+ my $sth;
my $insert_sth = $self->xref->dbc->prepare("insert into alt_allele (alt_allele_id, gene_id, is_reference) values (?, ?,?)");
if($count){
--
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