From 2fc45b33d9e7ca7d32f2e52798e8cae13a63afae Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Tue, 23 Apr 2019 10:14:04 -0500
Subject: [PATCH] Get tagging of fastqc working
---
workflow/main.nf | 7 ++++---
1 file changed, 4 insertions(+), 3 deletions(-)
diff --git a/workflow/main.nf b/workflow/main.nf
index 958f582..1df1d57 100755
--- a/workflow/main.nf
+++ b/workflow/main.nf
@@ -100,11 +100,12 @@ process mkfastq {
process fastqc {
tag "$bclName"
queue 'super'
- publishDir "$outDir/misc/${task.process}", mode: 'copy', pattern: "{*fastqc.zip}"
+ publishDir "$outDir/misc/${task.process}/$name/$bclName", mode: 'copy', pattern: "{*fastqc.zip}"
module 'fastqc/0.11.5:parallel'
input:
file fastqPaths
+ val bclName
output:
@@ -147,9 +148,9 @@ process versions {
process multiqc {
- tag "$bclName}"
+ tag "$name"
queue 'super'
- publishDir "$outDir/${task.process}", mode: 'copy'
+ publishDir "$outDir/${task.process}/$name", mode: 'copy'
module 'multiqc/1.7'
input:
--
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