From 6e201a71f44ea928ab367f9ae989b620517aab25 Mon Sep 17 00:00:00 2001
From: ameynert <alison.meynert@igmm.ed.ac.uk>
Date: Tue, 30 Mar 2021 16:31:00 +0100
Subject: [PATCH] ATAC-seq pipeline config

Java processes with overhead memory requirements
---
 conf/pipeline/atacseq/eddie.config | 14 ++++++++++++++
 1 file changed, 14 insertions(+)
 create mode 100644 conf/pipeline/atacseq/eddie.config

diff --git a/conf/pipeline/atacseq/eddie.config b/conf/pipeline/atacseq/eddie.config
new file mode 100644
index 0000000..5e2b96b
--- /dev/null
+++ b/conf/pipeline/atacseq/eddie.config
@@ -0,0 +1,14 @@
+process {
+  withName : "FASTQC" {
+    clusterOptions = {"-l h_vmem=${(task.memory + 4.GB).bytes/task.cpus}"}
+  }
+  withName : "MERGED_LIB_BAM" {
+    clusterOptions = {"-l h_vmem=${(task.memory + 4.GB).bytes/task.cpus}"}
+  }
+  withName : "MERGED_LIB_PICARD_METRICS" {
+    clusterOptions = {"-l h_vmem=${(task.memory + 4.GB).bytes/task.cpus}"}
+  }
+  withName : "MERGED_REP_BAM" {
+    clusterOptions = {"-l h_vmem=${(task.memory + 4.GB).bytes/task.cpus}"}
+  }
+}