From 94e9ad1792579da9f43a8575afda2822238ad4e5 Mon Sep 17 00:00:00 2001
From: Xavier Grand <157-xgrand@users.noreply.gitbio.ens-lyon.fr>
Date: Wed, 27 Jul 2022 09:15:46 +0200
Subject: [PATCH] RNAseq_XGR, modif star:main_2.7.8a.nf input index val
---
src/nf_modules/star/main_2.7.8a.nf | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/src/nf_modules/star/main_2.7.8a.nf b/src/nf_modules/star/main_2.7.8a.nf
index e7be9f7..b544b2f 100644
--- a/src/nf_modules/star/main_2.7.8a.nf
+++ b/src/nf_modules/star/main_2.7.8a.nf
@@ -211,7 +211,7 @@ if (reads_id instanceof List){
if (reads.size() == 2)
"""
STAR --runThreadN ${task.cpus} \
---genomeDir ${index} \
+--genomeDir $index \
--readFilesCommand zcat \
--readFilesIn ${reads[0]} ${reads[1]} \
--outFileNamePrefix ${reads_id}. \
@@ -224,7 +224,7 @@ mv ${reads_id}.Aligned.sortedByCoord.out.bam ${reads_id}.bam
else
"""
STAR --runThreadN ${task.cpus} \
---genomeDir ${index} \
+--genomeDir $index \
--readFilesCommand zcat \
--readFilesIn ${reads} \
--outFileNamePrefix ${reads_id}. \
--
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