From 5a036f512b3bc04f7c6a9c0ac63a74b81bb90a08 Mon Sep 17 00:00:00 2001
From: fmalmeida <felipemarques89@gmail.com>
Date: Fri, 23 Feb 2024 22:27:58 +0100
Subject: [PATCH] add lines to avoid saving versions.yml files

---
 modules/local/QualityAssessment/quast.nf | 1 +
 nextflow.config                          | 3 +++
 2 files changed, 4 insertions(+)

diff --git a/modules/local/QualityAssessment/quast.nf b/modules/local/QualityAssessment/quast.nf
index 91251f21..5df669ba 100644
--- a/modules/local/QualityAssessment/quast.nf
+++ b/modules/local/QualityAssessment/quast.nf
@@ -1,6 +1,7 @@
 process quast {
   publishDir "${params.output}", mode: 'copy', saveAs: { filename ->
     if ( filename.tokenize('/').contains('input_assembly') ) "final_assemblies/${asm_copy_prefix}_${filename.tokenize('/')[1]}"
+    else if ( filename == 'versions.yml' ) null
     else "${prefix}/00_quality_assessment/${filename}"
   }
   tag "${id}"
diff --git a/nextflow.config b/nextflow.config
index 657b5789..8809af2e 100644
--- a/nextflow.config
+++ b/nextflow.config
@@ -11,6 +11,9 @@ includeConfig 'conf/base.config'
 // fix type of variable expected
 params.hybrid_strategy = params.hybrid_strategy.toString()
 
+// not save version by default
+process { publishDir = [ saveAs: { filename -> filename.equals('versions.yml') ? null : filename } ] }
+
 
 // Nextflow management
 params {