From 0f6d75c76ed78cc1847acc732fd78ca44b2646a6 Mon Sep 17 00:00:00 2001
From: DavyCats <davycats.dc@gmail.com>
Date: Mon, 14 Feb 2022 17:04:49 +0100
Subject: [PATCH] fix some issues
---
hmftools.wdl | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/hmftools.wdl b/hmftools.wdl
index c0c835b..27badc9 100644
--- a/hmftools.wdl
+++ b/hmftools.wdl
@@ -312,8 +312,8 @@ task Gripss {
output {
File fullVcf = "~{outputDir}/~{tumorName}.gripss.somatic.vcf.gz"
File fullVcfIndex = "~{outputDir}/~{tumorName}.gripss.somatic.vcf.gz.tbi"
- File filteredVcf = "~{outputDir}/~{tumorName}.gripss.somatic.filtered.vcf.gz"
- File filteredVcfIndex = "~{outputDir}/~{tumorName}.gripss.somatic.filtered.vcf.gz.tbi"
+ File filteredVcf = "~{outputDir}/~{tumorName}.gripss.filtered.somatic.vcf.gz"
+ File filteredVcfIndex = "~{outputDir}/~{tumorName}.gripss.filtered.somatic.vcf.gz.tbi"
}
runtime {
@@ -629,7 +629,7 @@ task Pave {
File referenceFasta
File referenceFastaFai
File referenceFastaDict
- File refGenomeVersion
+ String refGenomeVersion
File driverGenePanel
#The following should be in the same directory.
File geneDataCsv
--
GitLab