From f768788a1024ea5b5f394bc9b391dfa791a7a9f1 Mon Sep 17 00:00:00 2001
From: Keiran Raine <kr2@sanger.ac.uk>
Date: Tue, 7 May 2019 11:35:38 +0000
Subject: [PATCH] Version update for pindel speedup

---
 CHANGES.md         | 4 ++++
 Dockerfile         | 2 +-
 build/opt-build.sh | 2 +-
 cwls/cgpwxs.cwl    | 2 +-
 4 files changed, 7 insertions(+), 3 deletions(-)

diff --git a/CHANGES.md b/CHANGES.md
index 649099a..d1ac260 100644
--- a/CHANGES.md
+++ b/CHANGES.md
@@ -1,5 +1,9 @@
 # CHANGES
 
+## 3.1.6
+
+* Update to cgpPindel [v3.2.0](https://github.com/cancerit/cgpPindel/releases/tag/v3.2.0)
+
 ## 3.1.5
 
 * Update cgpCaVEManWrapper to allow parallel flagging in cgpwgs layer
diff --git a/Dockerfile b/Dockerfile
index 6267936..7506013 100644
--- a/Dockerfile
+++ b/Dockerfile
@@ -33,7 +33,7 @@ MAINTAINER  cgphelp@sanger.ac.uk
 
 LABEL vendor="CASM/Cancer IT, Wellcome Sanger Institute"
 LABEL uk.ac.sanger.cgp.description="CGP WXS pipeline for dockstore.org"
-LABEL uk.ac.sanger.cgp.version="3.1.5"
+LABEL uk.ac.sanger.cgp.version="3.1.6"
 
 RUN apt-get -yq update
 RUN apt-get install -yq --no-install-recommends \
diff --git a/build/opt-build.sh b/build/opt-build.sh
index c5c9d70..e75cef0 100644
--- a/build/opt-build.sh
+++ b/build/opt-build.sh
@@ -13,7 +13,7 @@ VER_CGPVCF="v2.2.1"
 VER_VCFTOOLS="0.1.16"
 
 # cgpPindel
-VER_CGPPINDEL="v3.1.2"
+VER_CGPPINDEL="v3.2.0"
 
 # cgpCaVEManPostProcessing
 VER_CGPCAVEPOSTPROC="1.8.7"
diff --git a/cwls/cgpwxs.cwl b/cwls/cgpwxs.cwl
index 4e2c694..1334b76 100644
--- a/cwls/cgpwxs.cwl
+++ b/cwls/cgpwxs.cwl
@@ -24,7 +24,7 @@ doc: |
 
 requirements:
   - class: DockerRequirement
-    dockerPull: "quay.io/wtsicgp/dockstore-cgpwxs:3.1.5"
+    dockerPull: "quay.io/wtsicgp/dockstore-cgpwxs:3.1.6"
 
 hints:
   - class: ResourceRequirement