From 7db296e70f162c68ce3c8b05c86618c749e7f9a5 Mon Sep 17 00:00:00 2001
From: Ruben Vorderman <r.h.p.vorderman@lumc.nl>
Date: Tue, 16 Jun 2020 08:58:37 +0200
Subject: [PATCH] resource requirements for multiqc
---
multiqc.wdl | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
diff --git a/multiqc.wdl b/multiqc.wdl
index 6a967b3..7dcf333 100644
--- a/multiqc.wdl
+++ b/multiqc.wdl
@@ -51,11 +51,11 @@ task MultiQC {
Boolean megaQCUpload = false # This must be actively enabled in my opinion. The tools default is to upload.
File? config # A directory
String? clConfig
-
- String memory = "4G"
- Int timeMinutes = 120
+ String? memory
+ Int timeMinutes = 2 + ceil(size(reports, "G") * 8)
String dockerImage = "quay.io/biocontainers/multiqc:1.7--py_1"
}
+ Int memoryGb = 2 + ceil(size(reports, "G"))
# This is where the reports end up. It does not need to be changed by the
# user. It is full of symbolic links, so it is not of any use to the user
@@ -132,7 +132,7 @@ task MultiQC {
}
runtime {
- memory: memory
+ memory: select_first([memory, "~{memoryGb}G"])
time_minutes: timeMinutes
docker: dockerImage
}
--
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