From 4b449ded088ca4d6a8d77ebaf0b91a53542f3383 Mon Sep 17 00:00:00 2001
From: "Hylke C. Donker" <hylke.donker@gmail.com>
Date: Wed, 10 Mar 2021 13:45:06 +0100
Subject: [PATCH] Bug fix in trimmomatic paired-end flag.

---
 rnaseq/step2_trim/snippet.sh | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/rnaseq/step2_trim/snippet.sh b/rnaseq/step2_trim/snippet.sh
index a65bc51..4a21d2b 100644
--- a/rnaseq/step2_trim/snippet.sh
+++ b/rnaseq/step2_trim/snippet.sh
@@ -33,7 +33,7 @@ java -jar $EBROOTTRIMMOMATIC/trimmomatic.jar PE \
   "${FASTQ_OUT}/sample1_R1_unpaired.fastq.gz" \
   "${FASTQ_OUT}/sample1_R2_paired.fastq.gz" \
   "${FASTQ_OUT}/sample1_R2_unpaired.fastq.gz" \
-  ILLUMINACLIP: TruSeq3-PE.fa:2:30:10 \
+  ILLUMINACLIP:TruSeq3-PE.fa:2:30:10 \
   LEADING:3 \
   TRAILING:3 \
   SLIDINGWINDOW:4:25 \