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 32eb5ce0ab53cfbc4b421905ba59bff2b52df716..cf9210cc2dca7078fe22e27cd0605cb27332db9f 100644 (file)
--- 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 ca6afc726e246866fad71d17ac7bf93bc57c02c1..f43e27ae44a575fc6595ecd11a868ff5cbb63d6b 100644 (file)
--- 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 fa9c0e95c9c28b242c9a9ce01394209031f0a263..7f51678de8b99240ccebe4fe4f1f8cefd9611e6e 100644 (file)
--- 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