From 1f72b2c4d0a2c38e08230b382a74b06924fc5c6d Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Wed, 14 Apr 2021 18:40:21 +0200
Subject: [PATCH] fastp: update accel_s1plus protocol

---
 src/nf_modules/fastp/main.nf | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/src/nf_modules/fastp/main.nf b/src/nf_modules/fastp/main.nf
index 14a4391d..428da793 100644
--- a/src/nf_modules/fastp/main.nf
+++ b/src/nf_modules/fastp/main.nf
@@ -108,6 +108,7 @@ process fastp_accel_1splus {
     --disable_quality_filtering \
     --disable_length_filtering \
     --disable_trim_poly_g \
+    --detect_adapter_for_pe \
     --stdout \
     --in1 ${reads[0]} \
     --in2 ${reads[1]} \
@@ -132,6 +133,7 @@ process fastp_accel_1splus {
     --disable_quality_filtering \
     --disable_length_filtering \
     --disable_trim_poly_g \
+    --detect_adapter_for_pe \
     --stdout \
     --in1 ${reads[0]} \
     --out1 ${file_prefix}_R1_trim.fastq.gz \
-- 
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