From c91340d55027bff1484c2dfd6e2b9a4131f388fe Mon Sep 17 00:00:00 2001
From: Ruben Vorderman <r.h.p.vorderman@lumc.nl>
Date: Wed, 20 Feb 2019 17:08:07 +0100
Subject: [PATCH] correctly use gatk4
---
gatk.wdl | 10 +++++-----
1 file changed, 5 insertions(+), 5 deletions(-)
diff --git a/gatk.wdl b/gatk.wdl
index 79e22b0..b2c268e 100644
--- a/gatk.wdl
+++ b/gatk.wdl
@@ -42,7 +42,7 @@ task ApplyBQSR {
}
runtime {
- docker: "quay.io/biocontainers/gatk:" + dockerTag
+ docker: "quay.io/biocontainers/gatk4:" + dockerTag
memory: ceil(memory * memoryMultiplier)
}
}
@@ -84,7 +84,7 @@ task BaseRecalibrator {
}
runtime {
- docker: "quay.io/biocontainers/gatk:" + dockerTag
+ docker: "quay.io/biocontainers/gatk4:" + dockerTag
memory: ceil(memory * memoryMultiplier)
}
}
@@ -123,7 +123,7 @@ task CombineGVCFs {
}
runtime {
- docker: "quay.io/biocontainers/gatk:" + dockerTag
+ docker: "quay.io/biocontainers/gatk4:" + dockerTag
memory: ceil(memory * memoryMultiplier)
}
}
@@ -152,7 +152,7 @@ task GatherBqsrReports {
}
runtime {
- docker: "quay.io/biocontainers/gatk:" + dockerTag
+ docker: "quay.io/biocontainers/gatk4:" + dockerTag
memory: ceil(memory * memoryMultiplier)
}
}
@@ -198,7 +198,7 @@ task GenotypeGVCFs {
}
runtime {
- docker: "quay.io/biocontainers/gatk:" + dockerTag
+ docker: "quay.io/biocontainers/gatk4:" + dockerTag
memory: ceil(memory * memoryMultiplier)
}
}
--
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