From af1c1a5ec3d96378885cf43638b4ad8f826fc042 Mon Sep 17 00:00:00 2001
From: khalid <khalid.belkhir@umontpellier.fr>
Date: Fri, 3 Dec 2021 15:00:04 +0100
Subject: [PATCH] remove redunant param
---
tools/accel_align/accel_align.rule.snakefile | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/tools/accel_align/accel_align.rule.snakefile b/tools/accel_align/accel_align.rule.snakefile
index 46745566..8b7b96b1 100755
--- a/tools/accel_align/accel_align.rule.snakefile
+++ b/tools/accel_align/accel_align.rule.snakefile
@@ -24,7 +24,7 @@ if config["SeOrPe"] == "PE":
"-t {threads} "
"-l {params.accel_align_seed_length} "
"-p {params.accel_align_insert_size} "
- "{params.accel_align_alignment_free} "
+ "{params.accel_align_softclipping} "
"{params.accel_align_alignment_free} "
"-o {params.tmp_sam} "
"{params.indexPrefix} "
@@ -58,7 +58,7 @@ elif config["SeOrPe"] == "SE":
"{params.command} "
"-t {threads} "
"-l {params.accel_align_seed_length} "
- "{params.accel_align_alignment_free} "
+ "{params.accel_align_softclipping} "
"{params.accel_align_alignment_free} "
"-o {params.tmp_sam} "
"{params.indexPrefix} "
--
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