From 8453f6b41a31146d512694175490b9e478a44a0d Mon Sep 17 00:00:00 2001
From: Emil <raysloks@gmail.com>
Date: Mon, 30 May 2022 12:58:12 +0200
Subject: [PATCH] Moves qualimap arg to pipeline-specific config

---
 conf/hasta.config                      | 4 ----
 conf/pipeline/raredisease/hasta.config | 3 +++
 2 files changed, 3 insertions(+), 4 deletions(-)

diff --git a/conf/hasta.config b/conf/hasta.config
index 862676a..7e97e5a 100644
--- a/conf/hasta.config
+++ b/conf/hasta.config
@@ -22,10 +22,6 @@ params {
 process {
     executor = 'slurm'
     clusterOptions = { "-A $params.priority ${params.clusterOptions ?: ''}" }    
-    
-    withName: QUALIMAP_BAMQC {
-        ext.args = { "--java-mem-size=${task.memory.giga / 1.15 as long}G" }
-    }
 }
 
 profiles {
diff --git a/conf/pipeline/raredisease/hasta.config b/conf/pipeline/raredisease/hasta.config
index 96e3332..a076dbc 100644
--- a/conf/pipeline/raredisease/hasta.config
+++ b/conf/pipeline/raredisease/hasta.config
@@ -7,4 +7,7 @@ process {
         cpus   = { check_max( 16      * task.attempt, 'cpus' ) }
         memory = { check_max( 80.GB   * task.attempt, 'memory' ) }
     }
+    withName:'QUALIMAP_BAMQC' {
+        ext.args = { "--java-mem-size=${task.memory.giga / 1.15 as long}G" }
+    }
 }
\ No newline at end of file