From 991c35f4b1ab0982961323c1a171813b65bcda43 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Fri, 3 May 2019 20:19:36 -0500
Subject: [PATCH] Add run name param
---
workflow/main.nf | 4 +++-
1 file changed, 3 insertions(+), 1 deletion(-)
diff --git a/workflow/main.nf b/workflow/main.nf
index 43933ba..78f6fa5 100755
--- a/workflow/main.nf
+++ b/workflow/main.nf
@@ -4,6 +4,7 @@
// Note - $baseDir is the location of this workflow file main.nf
// Define Input variables
+params.name = "run"
params.fastq = "$baseDir/../test_data/*.fastq.gz"
params.designFile = "$baseDir/../test_data/design.csv"
params.genome = 'GRCh38-3.0.0'
@@ -36,6 +37,7 @@ if (params.astrocyte) {
params.genomeLocationFull = params.genomeLocation+params.genome
// Define regular variables
+name = params.name
designLocation = Channel
.fromPath(params.designFile)
.ifEmpty { exit 1, "design file not found: ${params.designFile}" }
@@ -55,7 +57,7 @@ outDir = params.outDir
process checkDesignFile {
- publishDir "$outDir/${task.process}", mode: 'copy'
+ publishDir "$outDir/${task.process}/$name", mode: 'copy'
input:
--
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