From 6e52ef6c228c13c3397ae41e7e85008091491c30 Mon Sep 17 00:00:00 2001
From: khalid <khalid.belkhir@umontpellier.fr>
Date: Tue, 7 Dec 2021 13:21:38 +0100
Subject: [PATCH] Handle guppy outputs
---
tools/guppy/guppy.rule.snakefile | 6 ++++--
1 file changed, 4 insertions(+), 2 deletions(-)
diff --git a/tools/guppy/guppy.rule.snakefile b/tools/guppy/guppy.rule.snakefile
index 3d0b459e..25be37fc 100644
--- a/tools/guppy/guppy.rule.snakefile
+++ b/tools/guppy/guppy.rule.snakefile
@@ -25,5 +25,7 @@ rule <step_name>__guppy:
"--gpu_runners_per_device {params.gpu_runners_per_device} ; "
"cat {params.output_dir}/pass/*.fastq.gz > {params.output_dir}/guppy_pass.fq.gz ; "
"rm -f {params.output_dir}/pass/*.fastq.gz; "
- "cat {params.output_dir}/fail/*.fastq.gz > {params.output_dir}/guppy_fail.fastq.gz ; "
- "rm -f {params.output_dir}/fail/*.fastq.gz; "
\ No newline at end of file
+ "cat {params.output_dir}/fail/*.fastq.gz > {params.output_dir}/guppy_fail.fq.gz ; "
+ "rm -f {params.output_dir}/fail/*.fastq.gz; "
+ "mkdir {params.output_dir}/logs && mv {params.output_dir}/*.log {params.output_dir}/logs"
+
--
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