From 33cdf52e284dd503054f2668b178662e2f7ff152 Mon Sep 17 00:00:00 2001
From: DavyCats <davycats.dc@gmail.com>
Date: Wed, 9 Sep 2020 13:34:35 +0200
Subject: [PATCH] update collect-columns to 1.0.0
---
collect-columns.wdl | 5 ++++-
1 file changed, 4 insertions(+), 1 deletion(-)
diff --git a/collect-columns.wdl b/collect-columns.wdl
index e4e3a94..fe41c5e 100644
--- a/collect-columns.wdl
+++ b/collect-columns.wdl
@@ -29,13 +29,14 @@ task CollectColumns {
Int? separator
Array[String]? sampleNames
Boolean header = false
+ Boolean sumOnDuplicateId = false
Array[String]? additionalAttributes
File? referenceGtf
String? featureAttribute
Int memoryGb = 4 + ceil(0.5 * length(inputTables))
Int timeMinutes = 10
- String dockerImage = "quay.io/biocontainers/collect-columns:0.2.0--py_1"
+ String dockerImage = "quay.io/biocontainers/collect-columns:1.0.0--py_0"
}
command {
@@ -49,6 +50,7 @@ task CollectColumns {
~{"-s " + separator} \
~{true="-n" false="" defined(sampleNames)} ~{sep=" " sampleNames} \
~{true="-H" false="" header} \
+ ~{true="-S" false="" sumOnDuplicateId} \
~{true="-a" false="" defined(additionalAttributes)} ~{sep=" " additionalAttributes} \
~{"-g " + referenceGtf} \
~{"-F " + featureAttribute}
@@ -72,6 +74,7 @@ task CollectColumns {
separator: {description: "Equivalent to the -s option of collect-columns.", category: "advanced"}
sampleNames: {description: "Equivalent to the -n option of collect-columns.", category: "advanced"}
header: {description: "Equivalent to the -H flag of collect-columns.", category: "advanced"}
+ sumOnDuplicateId: {description: "Equivalent to the -S flag of collect-columns.", category: "advanced"}
additionalAttributes: {description: "Equivalent to the -a option of collect-columns.", category: "advanced"}
referenceGtf: {description: "Equivalent to the -g option of collect-columns.", category: "advanced"}
featureAttribute: {description: "Equivalent to the -F option of collect-columns.", category: "advanced"}
--
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