Merge branch 'postreleasefix/94' into release/94

Ensembl · Sep 17, 2018 · 066b102 · 066b102
2 parents 86e8dcf + 55ef497
commit 066b102
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Showing 3 changed files with 6 additions and 1 deletion.
diff --git a/modules/Bio/EnsEMBL/Variation/VariationFeature.pm b/modules/Bio/EnsEMBL/Variation/VariationFeature.pm
@@ -655,7 +655,10 @@ sub get_all_MotifFeatureVariations {
   }
 
   if(!exists($self->{motif_feature_variations})) {
-    if($self->dbID) {
+    # We couldn't store motif_feature_variation for human in release/94
+    # compute them on the fly instead
+    my $species = lc $self->adaptor->db->species;
+    if($self->dbID && ($species !~ /homo_sapiens|human/)) {
       if (my $db = $self->adaptor->db) {
         my $mfva = $db->get_MotifFeatureVariationAdaptor;
         my $mfvs = $mfva->fetch_all_by_VariationFeatures([$self]);   

diff --git a/modules/t/motifFeatureVariationAdaptor.t b/modules/t/motifFeatureVariationAdaptor.t
@@ -63,6 +63,7 @@ my $vf = Bio::EnsEMBL::Variation::VariationFeature->new(
   -_source_id => 1,
   -is_somatic => 0,
   -variation => $v,
+  -adaptor => $vfa,
 );
 $vfa->store($vf);
 

diff --git a/modules/t/variationFeatureAdaptor.t b/modules/t/variationFeatureAdaptor.t
@@ -396,6 +396,7 @@ my $vf18 = Bio::EnsEMBL::Variation::VariationFeature->new(
   -is_somatic => 0,
   -class_attrib_id => 2,
   -class_SO_term => 'SNV',
+  -adaptor => $vfa,
 );
 
 $vfa->store($vf18);