From 4aa87b890e2c0e4b0ff19f08b7e851541381c857 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Mon, 20 May 2019 10:38:28 -0500
Subject: [PATCH] Make copy process symlink also output
---
workflow/main.nf | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/workflow/main.nf b/workflow/main.nf
index 1fe0163..189372a 100755
--- a/workflow/main.nf
+++ b/workflow/main.nf
@@ -8,7 +8,7 @@ params.run = "TRUE"
process copy {
- publishDir "$baseDir/output/", mode: 'copy'
+ publishDir "$baseDir/output/", mode: 'symlink'
input:
@@ -22,6 +22,6 @@ process copy {
script:
"""
- cp -r /project/shared/bicf_workflow_ref/tcga_shiny_app_data/* .
+ ln -s /project/shared/bicf_workflow_ref/tcga_shiny_app_data/* .
"""
}
--
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