From 13317db8dce5d7fa1265fb37b222bc63dc3bc7fd Mon Sep 17 00:00:00 2001 From: Mark Walker Date: Thu, 11 Jun 2020 12:29:59 -0400 Subject: [PATCH] Fix unflattened output error in CNVGermlineCaseScatteredWorkflow --- .../cnv_wdl/germline/cnv_germline_case_scattered_workflow.wdl | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/scripts/cnv_wdl/germline/cnv_germline_case_scattered_workflow.wdl b/scripts/cnv_wdl/germline/cnv_germline_case_scattered_workflow.wdl index e78376d9426..23cd4dcfa0f 100644 --- a/scripts/cnv_wdl/germline/cnv_germline_case_scattered_workflow.wdl +++ b/scripts/cnv_wdl/germline/cnv_germline_case_scattered_workflow.wdl @@ -209,8 +209,8 @@ workflow CNVGermlineCaseScatteredWorkflow { Array[File] read_counts_entity_id = flatten(CNVGermlineCaseWorkflow.read_counts_entity_id) Array[File] read_counts = flatten(CNVGermlineCaseWorkflow.read_counts) Array[File] sample_contig_ploidy_calls_tars = flatten(CNVGermlineCaseWorkflow.sample_contig_ploidy_calls_tars) - Array[File] gcnv_calls_tars = CNVGermlineCaseWorkflow.gcnv_calls_tars - Array[File] gcnv_tracking_tars = CNVGermlineCaseWorkflow.gcnv_tracking_tars + Array[Array[File]] gcnv_calls_tars = CNVGermlineCaseWorkflow.gcnv_calls_tars + Array[Array[File]] gcnv_tracking_tars = CNVGermlineCaseWorkflow.gcnv_tracking_tars Array[File] genotyped_intervals_vcf = flatten(CNVGermlineCaseWorkflow.genotyped_intervals_vcf) Array[File] genotyped_segments_vcf = flatten(CNVGermlineCaseWorkflow.genotyped_segments_vcf) Array[File] denoised_copy_ratios = flatten(CNVGermlineCaseWorkflow.denoised_copy_ratios)