File gender strikes again

Ensembl · Jan 22, 2016 · 9816bb7 · 9816bb7
1 parent 2e48334
commit 9816bb7
Showing 1 changed file with 5 additions and 1 deletion.
diff --git a/modules/Bio/EnsEMBL/Funcgen/Hive/MergeQCAlignments.pm b/modules/Bio/EnsEMBL/Funcgen/Hive/MergeQCAlignments.pm
@@ -103,7 +103,11 @@ sub fetch_input {
 
   #could have recreated output_dir and merged_file_name from ResultSet and run_controls
   #as we did in MergeChunkResultSetFastqs, but passed for convenience
-  $self->sam_header($rset->cell_type->gender);
+  my $gender = $rset->cell_type->gender;
+  $file_gender = 'female'
+      if ($gender eq 'mixed');
+
+  $self->sam_header($file_gender);
 
   #my $repository = $self->_repository();
   #if(! -d $repository){