From f3dc7987e0e841b97fd43160c68f8d09265083bc Mon Sep 17 00:00:00 2001
From: Justin Bedo <cu@cua0.org>
Date: Wed, 2 Sep 2020 14:57:01 +1000
Subject: gridss: add missing flags parameter

---
 tools/gridss-assemble.nix | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

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

diff --git a/tools/gridss-assemble.nix b/tools/gridss-assemble.nix
index 14f39c8..a532f4b 100644
--- a/tools/gridss-assemble.nix
+++ b/tools/gridss-assemble.nix
@@ -55,7 +55,8 @@ stage rec {
       OUTPUT=$out \
       ${optionalString (config != null) ("OPTIONS_FILE=" + bionix.gridss.gridssConfig config)} \
       WORKING_DIR=$TMPDIR/ \
-      TMP_DIR=$TMPDIR/
+      TMP_DIR=$TMPDIR/ \
+      ${optionalString (flags != null) flags}
   '';
   passthru.filetype = filetype.bam { ref = ref; sorting = sort.name {}; };
   passthru.multicore = true;
-- 
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