diff --git a/scala/qscript/playground/HybridSelectionPipeline.scala b/scala/qscript/playground/HybridSelectionPipeline.scala index 3ddf0d9df..533c2f8d3 100644 --- a/scala/qscript/playground/HybridSelectionPipeline.scala +++ b/scala/qscript/playground/HybridSelectionPipeline.scala @@ -137,7 +137,7 @@ class HybridSelectionPipeline extends QScript { combineSNPsIndels.rodBind :+= RodBind("indels", "VCF", filterIndels.out) combineSNPsIndels.rodBind :+= RodBind("snps", "VCF", filterSNPs.out) combineSNPsIndels.rod_priority_list = "indels,snps" - combineSNPsIndels.filteredrecordsmergetype = org.broadinstitute.sting.gatk.contexts.variantcontext.VariantContextUtils.FilteredRecordMergeType.KEEP_IF_ANY_UNFILTERED + combineSNPsIndels.filteredrecordsmergetype = org.broadinstitute.sting.utils.variantcontext.VariantContextUtils.FilteredRecordMergeType.KEEP_IF_ANY_UNFILTERED combineSNPsIndels.assumeIdenticalSamples = true combineSNPsIndels.out = projectBase + ".unannotated.vcf" combineSNPsIndels.jobOutputFile = combineSNPsIndels.out + ".out"