From ebbf979ad043c53ae57a8c491cb9279777efe802 Mon Sep 17 00:00:00 2001
From: DavyCats <davycats.dc@gmail.com>
Date: Tue, 14 Jan 2020 14:05:29 +0100
Subject: [PATCH] add parameter_meta to SortVcf
---
picard.wdl | 14 +++++++++++++-
1 file changed, 13 insertions(+), 1 deletion(-)
diff --git a/picard.wdl b/picard.wdl
index ea11a27..f1f0772 100644
--- a/picard.wdl
+++ b/picard.wdl
@@ -574,7 +574,7 @@ task SortVcf {
String memory = "24G"
String javaXmx = "8G"
String dockerImage = "quay.io/biocontainers/picard:2.20.5--0"
- }
+ }
command {
@@ -596,4 +596,16 @@ task SortVcf {
docker: dockerImage
memory: memory
}
+
+ parameter_meta {
+ vcfFiles: {description: "The VCF files to merge and sort.", category: "required"}
+ outputVcfPath: {description: "The location the sorted VCF files should be written to.", category: "required"}
+ dict: {description: "A sequence dictionary matching the VCF files.", category: "advanced"}
+
+ memory: {description: "The amount of memory this job will use.", category: "advanced"}
+ javaXmx: {description: "The maximum memory available to the program. Should be lower than `memory` to accommodate JVM overhead.",
+ category: "advanced"}
+ dockerImage: {description: "The docker image used for this task. Changing this may result in errors which the developers may choose not to address.",
+ category: "advanced"}
+ }
}
\ No newline at end of file
--
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