From 16951e6f99636a2c9d924d49c549a918e403f276 Mon Sep 17 00:00:00 2001
From: l-d-s <distefano.l@wehi.edu.au>
Date: Thu, 29 Nov 2018 12:10:45 +1100
Subject: Correct argument for gridss option file

---
 tools/gridss-annotateVariants.nix | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'tools/gridss-annotateVariants.nix')

diff --git a/tools/gridss-annotateVariants.nix b/tools/gridss-annotateVariants.nix
index adc4958..655b268 100644
--- a/tools/gridss-annotateVariants.nix
+++ b/tools/gridss-annotateVariants.nix
@@ -73,7 +73,7 @@ stdenv.mkDerivation rec {
       INPUT_VCF=input.vcf \
       OUTPUT_VCF=out.vcf \
       WORKING_DIR=$TMPDIR/ \
-      ${optionalString (config != null) ("CONFIGURATION_FILE=" +  bionix.gridss.gridssConfig config)} \
+      ${optionalString (config != null) ("OPTIONS_FILE=" +  bionix.gridss.gridssConfig config)} \
       TMP_DIR=$TMPDIR/
 
     mv out.vcf $out
-- 
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