diff --git a/packages/FindContaminatingReadGroupsModule.xml b/packages/FindContaminatingReadGroupsModule.xml new file mode 100644 index 000000000..279524a22 --- /dev/null +++ b/packages/FindContaminatingReadGroupsModule.xml @@ -0,0 +1,11 @@ + + + FindContaminatingReadGroups + + FindContaminatingReadGroups + org.broadinstitute.sting.gatk.CommandLineGATK + + org.broadinstitute.sting.playground.gatk.walkers.contamination.FindContaminatingReadGroupsWalker + + + diff --git a/packages/GATK-GSA-Pipeline.xml b/packages/GATK-GSA-Pipeline.xml index ac37491e7..4d259b64d 100644 --- a/packages/GATK-GSA-Pipeline.xml +++ b/packages/GATK-GSA-Pipeline.xml @@ -12,12 +12,11 @@ UnifiedGenotyperModule.xml VariantFiltrationModule.xml VariantAnnotatorModule.xml + VariantEvalModule.xml + FindContaminatingReadGroupsModule.xml org.broadinstitute.sting.gatk.filters - - org.broadinstitute.sting.playground.gatk.walkers.varianteval.VariantEvalWalker - org.broadinstitute.sting.playground.gatk.walkers.contamination.FindContaminatingReadGroupsWalker diff --git a/packages/VariantEvalModule.xml b/packages/VariantEvalModule.xml new file mode 100644 index 000000000..2cabda8ce --- /dev/null +++ b/packages/VariantEvalModule.xml @@ -0,0 +1,11 @@ + + + VariantEval + + VariantEval + org.broadinstitute.sting.gatk.CommandLineGATK + + org.broadinstitute.sting.playground.gatk.walkers.varianteval.VariantEvalWalker + + +