From bbc563d1d6d45bcaa15d054f872bb3a448c94734 Mon Sep 17 00:00:00 2001
From: Andrea Guarracino
Date: Thu, 18 Jun 2020 18:08:27 +0200
Subject: removed double sorting

The -s argument in odgi build do the same thing that odgi sort -p s does.---
 workflows/pangenome-generate/odgi-build.cwl | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/workflows/pangenome-generate/odgi-build.cwl b/workflows/pangenome-generate/odgi-build.cwl
index 0bd6a20..b594438 100644
--- a/workflows/pangenome-generate/odgi-build.cwl
+++ b/workflows/pangenome-generate/odgi-build.cwl
@@ -21,6 +21,6 @@ hints:
     listing:
       - entry: $(inputs.inputGFA)
         writable: true
-arguments: [odgi, build, -g, $(inputs.inputGFA), -s, -o, -,
+arguments: [odgi, build, -g, $(inputs.inputGFA), -o, -,
             {shellQuote: false, valueFrom: "|"},
             odgi, sort, -i, -, -p, s, -o, $(inputs.inputGFA.nameroot).odgi]
-- 
cgit v1.2.3