From 4767397fa84710c9f5e8a984108af9fcac2e93da Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Mon, 9 May 2022 15:24:28 +0200
Subject: [PATCH] gffread: don't delete original gz
---
src/nf_modules/gffread/main.nf | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/src/nf_modules/gffread/main.nf b/src/nf_modules/gffread/main.nf
index e851e659..01bbf5d1 100644
--- a/src/nf_modules/gffread/main.nf
+++ b/src/nf_modules/gffread/main.nf
@@ -54,8 +54,8 @@ process spliced_cds {
file_prefix = file_id
}
"""
-gzip -dc ${fasta} > ${fasta.simpleName}_un.fasta
-gzip -dc ${gtf} > ${gtf.simpleName}_un.gtf
+gzip -dck ${fasta} > ${fasta.simpleName}_un.fasta
+gzip -dck ${gtf} > ${gtf.simpleName}_un.gtf
gffread ${gtf.simpleName}_un.gtf -g ${fasta.simpleName}_un.fasta -M \
-x ${file_prefix}.fasta
"""
--
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