From 4edc1284f86c713dd5e23e8dba79c8a0f3a20219 Mon Sep 17 00:00:00 2001
From: cagaser <c.agaser@lumc.nl>
Date: Thu, 4 Mar 2021 17:03:12 +0100
Subject: [PATCH] update umi-tools.wdl
---
CHANGELOG.md | 1 +
umi-tools.wdl | 2 +-
2 files changed, 2 insertions(+), 1 deletion(-)
diff --git a/CHANGELOG.md b/CHANGELOG.md
index 5e175c6..437294c 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -10,6 +10,7 @@ that users understand how the changes affect the new version.
version 5.0.0-dev
---------------------------
++ UMI-tools (dedup): Add tempdir
+ Update BCFTOOLS view: add options for filtering (include, exclude, excludeUncalled).
+ Duphold: add duphold.wdl.
+ Add new wdl file prepareShiny.wdl for creating input files for shiny app.
diff --git a/umi-tools.wdl b/umi-tools.wdl
index b05fcac..db88860 100644
--- a/umi-tools.wdl
+++ b/umi-tools.wdl
@@ -126,7 +126,7 @@ task Dedup {
inputBam: {description: "The input BAM file.", categrory: "required"}
inputBamIndex: {description: "The index for the ipnut BAM file.", cateogry: "required"}
outputBamPath: {description: "The location to write the output BAM file to.", category: "required"}
- outputBamPath: {description: "Temporary directory.", category: "advanced"}
+ tmpDir: {description: "Temporary directory.", category: "advanced"}
paired: {description: "Whether or not the data is paired.", category: "common"}
umiSeparator: {description: "Seperator used for UMIs in the read names.", category: "advanced"}
statsPrefix: {description: "The prefix for the stats files.", category: "advanced"}
--
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