From 3babebedf6db9fae8afcd0b4c97ecd12930eaec9 Mon Sep 17 00:00:00 2001
From: Ruben Vorderman <r.h.p.vorderman@lumc.nl>
Date: Mon, 12 Mar 2018 15:22:02 +0100
Subject: [PATCH] require memory and threads
---
spades.wdl | 8 ++++----
unicycler.wdl | 10 +++++-----
2 files changed, 9 insertions(+), 9 deletions(-)
diff --git a/spades.wdl b/spades.wdl
index 408ea08..49c095c 100644
--- a/spades.wdl
+++ b/spades.wdl
@@ -22,8 +22,8 @@ task spades {
Boolean? disableGzipOutput
Boolean? disableRepeatResolution
File? dataset
- Int? threads = 1
- Int? memoryGb = 4
+ Int threads
+ Int memoryGb
File? tmpDir
String? k
Float? covCutoff
@@ -73,7 +73,7 @@ task spades {
File log = outputDir + "/spades.log"
}
runtime {
- cpu: select_first([threads])
- memory: select_first([memoryGb])
+ cpu: threads
+ memory: memoryGb
}
}
\ No newline at end of file
diff --git a/unicycler.wdl b/unicycler.wdl
index e9da297..ff3d2b5 100644
--- a/unicycler.wdl
+++ b/unicycler.wdl
@@ -4,13 +4,13 @@ task unicycler {
File short2
File? unpaired
File? long
- String out
+ String out,
Int? verbosity
Int? minFastaLength
Int? keep
Boolean? vcf
- Int? threads = 1
- Int? memory = 4
+ Int threads
+ Int memory
String? mode
Float? minBridgeQual
Int? linearSeqs
@@ -90,7 +90,7 @@ task unicycler {
}
runtime {
- cpu: select_first([threads])
- memory: select_first([memory])
+ cpu: threads
+ memory: memory
}
}
\ No newline at end of file
--
GitLab