From 73d0cedd116dfe82d1bd3943da237ee638957b0a Mon Sep 17 00:00:00 2001 From: Stella Date: Mon, 4 Nov 2024 13:39:36 -0500 Subject: [PATCH] fix relative path --- .../pipelines/WholeGenomeGermlineSingleSample.wdl | 2 +- .../tasks/SplitLargeReadGroup.wdl | 8 ++++---- 2 files changed, 5 insertions(+), 5 deletions(-) diff --git a/WholeGenomeGermlineSingleSample/pipelines/WholeGenomeGermlineSingleSample.wdl b/WholeGenomeGermlineSingleSample/pipelines/WholeGenomeGermlineSingleSample.wdl index 0d9800e..ba0637a 100644 --- a/WholeGenomeGermlineSingleSample/pipelines/WholeGenomeGermlineSingleSample.wdl +++ b/WholeGenomeGermlineSingleSample/pipelines/WholeGenomeGermlineSingleSample.wdl @@ -33,7 +33,7 @@ import "../tasks/AggregatedBamQC.wdl" as AggregatedQC import "../tasks/Qc.wdl" as QC import "../tasks/BamToCram.wdl" as ToCram import "../tasks/Utilities.wdl" as Utilities -import "../pipelines/VariantCalling.wdl" as ToGvcf +import "./VariantCalling.wdl" as ToGvcf import "../structs/DNASeqStructs.wdl" # WORKFLOW DEFINITION diff --git a/WholeGenomeGermlineSingleSample/tasks/SplitLargeReadGroup.wdl b/WholeGenomeGermlineSingleSample/tasks/SplitLargeReadGroup.wdl index 94c431c..385a552 100644 --- a/WholeGenomeGermlineSingleSample/tasks/SplitLargeReadGroup.wdl +++ b/WholeGenomeGermlineSingleSample/tasks/SplitLargeReadGroup.wdl @@ -15,10 +15,10 @@ version 1.0 ## page at https://hub.docker.com/r/broadinstitute/genomes-in-the-cloud/ for detailed ## licensing information pertaining to the included programs. -import "./tasks/Alignment.wdl" as Alignment -import "./tasks/DragmapAlignment.wdl" as DragmapAlignment -import "./tasks/BamProcessing.wdl" as Processing -import "./tasks/Utilities.wdl" as Utils +import "./Alignment.wdl" as Alignment +import "./DragmapAlignment.wdl" as DragmapAlignment +import "./BamProcessing.wdl" as Processing +import "./Utilities.wdl" as Utils import "../structs/DNASeqStructs.wdl" as Structs workflow SplitLargeReadGroup {