From 8b9744723caf27536d42814ce4a150d31faba8f3 Mon Sep 17 00:00:00 2001
From: Emil <raysloks@gmail.com>
Date: Wed, 4 May 2022 14:13:24 +0200
Subject: [PATCH] Fixes hasta java memory issues

---
 conf/hasta.config | 8 ++++++++
 1 file changed, 8 insertions(+)

diff --git a/conf/hasta.config b/conf/hasta.config
index c5dd5e4..7db9b4c 100644
--- a/conf/hasta.config
+++ b/conf/hasta.config
@@ -21,6 +21,14 @@ params {
 process {
     executor = 'slurm'
     clusterOptions = { "-A $params.priority ${params.clusterOptions ?: ''}" }    
+    
+    withName: QUALIMAP_BAMQC {
+        memory = 64.GB
+        ext.args = "--java-mem-size=60G"
+    }
+    withName: 'PICARD_COLLECTHSMETRICS|PICARD_COLLECTMULTIPLEMETRICS|COLLECTREADCOUNTS|DENOISEREADCOUNTS' {
+        clusterOptions = { task.memory ? "-l h_vmem=${task.memory.bytes/task.cpus}+2" : null }
+    }
 }
 
 profiles {