descattered recalbams & leftalign

mobidic · Sep 26, 2024 · 541006f · 541006f
1 parent 69060c3
commit 541006f
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Showing 2 changed files with 3 additions and 3 deletions.
diff --git a/modules/gatkLeftAlignIndels.wdl b/modules/gatkLeftAlignIndels.wdl
@@ -46,7 +46,7 @@ task gatkLeftAlignIndels {
 	}
 	output {
 		File lAlignedBam = "~{OutDir}~{OutputDirSampleID}/~{WorkflowType}/~{SampleID}.dupmarked.recal.laligned.bam"
-		File lAlignedBamIndex = "~{OutDir}~{OutputDirSampleID}/~{WorkflowType}/recal_bams/~{SampleID}.dupmarked.recal.laligned.bai"
+		File lAlignedBamIndex = "~{OutDir}~{OutputDirSampleID}/~{WorkflowType}/~{SampleID}.dupmarked.recal.laligned.bai"
 		# File lAlignedBam = "~{OutDir}~{OutputDirSampleID}/~{WorkflowType}/recal_bams/~{SampleID}.~{IntervalName}.dupmarked.recal.laligned.bam"
 		# File lAlignedBamIndex = "~{OutDir}~{OutputDirSampleID}/~{WorkflowType}/recal_bams/~{SampleID}.~{IntervalName}.dupmarked.recal.laligned.bai"
 	}

diff --git a/panelCapture.wdl b/panelCapture.wdl
@@ -312,7 +312,7 @@ workflow panelCapture {
 		input:
 			Queue = defQueue,
 			Cpu = cpuLow,
-			Memory = memoryLow,
+			Memory = memoryHigh,
 			SampleID = sampleID,
 			OutDir = outDir,
 			WorkflowType = workflowType,
@@ -329,7 +329,7 @@ workflow panelCapture {
 		input:
 			Queue = defQueue,
 			Cpu = cpuLow,
-			Memory = memoryLow,
+			Memory = memoryHigh,
 			SampleID = sampleID,
 			OutDir = outDir,
 			WorkflowType = workflowType,