NonSense module added to list of analyses to run after variation handover

modules/Bio/EnsEMBL/Pipeline/PipeConfig/Variation_handover_conf.pm

@@ -60,17 +60,16 @@ sub pipeline_analyses {
         -input_ids  => [ {} ],
         -flow_into  => {
           'A->1' => ['Notify'],
-          '4->A' => ['SnpDensity', 'SnpCount'],
+          '4->A' => ['SnpDensity', 'SnpCount', 'NonSense'],
         },
       },
 
       {
         -logic_name => 'SnpCount',
         -module     => 'Bio::EnsEMBL::Pipeline::Production::SnpCount',
-        -max_retry_count  => 1,
+        -max_retry_count  => 2,
         -hive_capacity    => 10,
         -rc_name          => 'default',
-        -can_be_empty     => 1,
       },
 
       {
@@ -80,10 +79,20 @@ sub pipeline_analyses {
           table => 'gene', logic_name => 'snpdensity', value_type => 'sum',
           bin_count => $self->o('bin_count'), max_run => $self->o('max_run'),
         },
-        -max_retry_count  => 1,
+        -max_retry_count  => 2,
+        -hive_capacity    => 10,
+        -rc_name          => 'default',
+      },
+
+      {
+        -logic_name => 'NonSense',
+        -module     => 'Bio::EnsEMBL::Pipeline::Production::NonSense',
+        -parameters => {
+          frequency => 0.1, observation => 20,
+        },
+        -max_retry_count  => 2,
         -hive_capacity    => 10,
         -rc_name          => 'default',
-        -can_be_empty     => 1,
       },
 
       ####### NOTIFICATION