From 6ef1fe9f905653994410a74bd28ceb9c06850492 Mon Sep 17 00:00:00 2001
From: khalid <khalid.belkhir@umontpellier.fr>
Date: Fri, 26 Nov 2021 17:05:44 +0100
Subject: [PATCH] debuh guppy
---
tools/guppy/guppy.rule.snakefile | 2 ++
tools/guppy/guppy.yaml | 2 +-
2 files changed, 3 insertions(+), 1 deletion(-)
diff --git a/tools/guppy/guppy.rule.snakefile b/tools/guppy/guppy.rule.snakefile
index 0aa8f31d..a6220d20 100644
--- a/tools/guppy/guppy.rule.snakefile
+++ b/tools/guppy/guppy.rule.snakefile
@@ -1,6 +1,8 @@
rule <step_name>__guppy:
input:
**<step_name>__guppy_inputs()
+ output:
+ sequencing_summary = config["results_dir"] + "/" + config["<step_name>__guppy_output_dir"]+ "/sequencing_summary.txt" ,
params:
output_dir = config["results_dir"] + "/" + config["<step_name>__guppy_output_dir"]+ "/",
command = config["<step_name>__guppy_command"],
diff --git a/tools/guppy/guppy.yaml b/tools/guppy/guppy.yaml
index 8ed727a1..4feec09f 100644
--- a/tools/guppy/guppy.yaml
+++ b/tools/guppy/guppy.yaml
@@ -20,7 +20,7 @@
],
outputs:
[
- { name: sequencing_summary.txt, type: "tsv", file: "markers_table.txt", description: "Table containing sequencing summary" },
+ { name: sequencing_summary, type: "tsv", file: "sequencing_summary.txt", description: "Table containing sequencing summary" },
{ name: readPass, type: "reads", file: "guppy_pass.fastq.gz", description: "File containing reads with an average quality score > Q7" },
{ name: readFail, type: "reads", file: "guppy_fail.fastq.gz", description: "File containing reads with an average quality score < Q7" },
],
--
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