From 10e4b9eb824b236455eb347ad5ee4487e614f7c5 Mon Sep 17 00:00:00 2001
From: Ruben Vorderman <r.h.p.vorderman@lumc.nl>
Date: Wed, 26 Jun 2019 09:20:37 +0200
Subject: [PATCH] add reference fasta index

---
 somaticseq.wdl | 4 ++++
 1 file changed, 4 insertions(+)

diff --git a/somaticseq.wdl b/somaticseq.wdl
index 6164e64..d1163b4 100644
--- a/somaticseq.wdl
+++ b/somaticseq.wdl
@@ -8,6 +8,7 @@ task ParallelPaired {
         File? classifierIndel
         String outputDir
         File referenceFasta
+        File referenceFastaFai
         File? inclusionRegion
         File? exclusionRegion
         File tumorBam
@@ -82,6 +83,7 @@ task ParallelPairedTrain {
         File truthIndel
         String outputDir
         File referenceFasta
+        File referenceFastaFai
         File? inclusionRegion
         File? exclusionRegion
         File tumorBam
@@ -155,6 +157,7 @@ task ParallelSingle {
         File? classifierIndel
         String outputDir
         File referenceFasta
+        File referenceFastaFai
         File? inclusionRegion
         File? exclusionRegion
         File bam
@@ -214,6 +217,7 @@ task ParallelSingleTrain {
         File truthIndel
         String outputDir
         File referenceFasta
+        File referenceFastaFai
         File? inclusionRegion
         File? exclusionRegion
         File bam
-- 
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