From d1e8809a15ae74d0b847abb80f9f63f53078e1d6 Mon Sep 17 00:00:00 2001
From: Peter Amstutz
Date: Wed, 19 Aug 2020 15:15:57 -0400
Subject: Scaling pangenome generation

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
---
 workflows/pangenome-generate/sort_fasta_by_quality_and_len.cwl | 3 +++
 1 file changed, 3 insertions(+)

(limited to 'workflows/pangenome-generate/sort_fasta_by_quality_and_len.cwl')

diff --git a/workflows/pangenome-generate/sort_fasta_by_quality_and_len.cwl b/workflows/pangenome-generate/sort_fasta_by_quality_and_len.cwl
index f8da5d3..9d9b31d 100644
--- a/workflows/pangenome-generate/sort_fasta_by_quality_and_len.cwl
+++ b/workflows/pangenome-generate/sort_fasta_by_quality_and_len.cwl
@@ -16,6 +16,9 @@ stdout: $(inputs.readsFA.nameroot).sorted_by_quality_and_len.fasta
 outputs:
   sortedReadsFA:
     type: stdout
+  dups:
+    type: File
+    outputBinding: {glob: dups.txt}
 requirements:
   InlineJavascriptRequirement: {}
   ShellCommandRequirement: {}
-- 
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