From: Sarah Wait Zaranek <swz@curii.com>
Date: Tue, 7 Jul 2020 15:48:30 +0000 (+0000)
Subject: Updating docker reference
X-Git-Url: https://git.arvados.org/arvados-tutorial.git/commitdiff_plain/27e83cbd6629b3fc133ee03f64f5d6aab3ac51f9

Updating docker reference
Arvados-DCO-1.1-Signed-off-by: Sarah Wait Zaranek <swz@curii.com>
no issue #
---

diff --git a/WGS-processing/cwl/helper/bwamem-samtools-view.cwl b/WGS-processing/cwl/helper/bwamem-samtools-view.cwl
index 32eb5ce..cf9210c 100644
--- a/WGS-processing/cwl/helper/bwamem-samtools-view.cwl
+++ b/WGS-processing/cwl/helper/bwamem-samtools-view.cwl
@@ -4,16 +4,16 @@ label: Align FASTQs with BWA
 
 requirements:
   DockerRequirement:
-    dockerPull: curii/bwa-samtools-picard
+    dockerPull: curii/bwa-samtools
   ShellCommandRequirement: {}
-  ResourceRequirement:
-    ramMin: 50000
-    coresMin: 16
 
 hints:
   arv:RuntimeConstraints:
     keep_cache: 1024
     outputDirType: keep_output_dir
+  ResourceRequirement:
+    ramMin: 50000
+    coresMin: 16
   SoftwareRequirement:
     packages:
       BWA:
diff --git a/WGS-processing/cwl/helper/samtools-index.cwl b/WGS-processing/cwl/helper/samtools-index.cwl
index ca6afc7..f43e27a 100644
--- a/WGS-processing/cwl/helper/samtools-index.cwl
+++ b/WGS-processing/cwl/helper/samtools-index.cwl
@@ -4,7 +4,7 @@ label: Index BAM
 
 requirements:
   DockerRequirement:
-    dockerPull: curii/bwa-samtools-picard
+    dockerPull: curii/bwa-samtools
   InitialWorkDirRequirement:
     listing:
       - $(inputs.bam)
diff --git a/WGS-processing/cwl/helper/samtools-sort.cwl b/WGS-processing/cwl/helper/samtools-sort.cwl
index fa9c0e9..7f51678 100644
--- a/WGS-processing/cwl/helper/samtools-sort.cwl
+++ b/WGS-processing/cwl/helper/samtools-sort.cwl
@@ -4,7 +4,7 @@ label: Sort BAM
 
 requirements:
   DockerRequirement:
-    dockerPull: curii/bwa-samtools-picard
+    dockerPull: curii/bwa-samtools
   ShellCommandRequirement: {}
   ResourceRequirement:
     ramMin: 20000