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Removing white spaces and commenting schemas
[arvados-tutorial.git]
/
WGS-processing
/
cwl
/
helper
/
gatk-applyBSQR-with-interval.cwl
diff --git
a/WGS-processing/cwl/helper/gatk-applyBSQR-with-interval.cwl
b/WGS-processing/cwl/helper/gatk-applyBSQR-with-interval.cwl
index f9c0fe3ed471cc19b9557c29c5fb0fb28633eae3..d8f6afd07ecc684d30a4739f9f5cabc39a56eb47 100644
(file)
--- a/
WGS-processing/cwl/helper/gatk-applyBSQR-with-interval.cwl
+++ b/
WGS-processing/cwl/helper/gatk-applyBSQR-with-interval.cwl
@@
-41,10
+41,10
@@
inputs:
- .sa
- .fai
- ^.dict
- .sa
- .fai
- ^.dict
- sample:
+ sample:
type: string
label: Sample Name
type: string
label: Sample Name
- recaltable:
+ recaltable:
type: File
label: Recalibration table
intervallist:
type: File
label: Recalibration table
intervallist:
@@
-56,7
+56,7
@@
outputs:
type: File
format: edam:format_2572 # BAM
label: Recalibrated BAM for given interval
type: File
format: edam:format_2572 # BAM
label: Recalibrated BAM for given interval
- secondaryFiles:
+ secondaryFiles:
- .bai
outputBinding:
glob: "*nodups_BQSR.bam"
- .bai
outputBinding:
glob: "*nodups_BQSR.bam"
@@
-87,6
+87,6
@@
$namespaces:
arv: "http://arvados.org/cwl#"
cwltool: "http://commonwl.org/cwltool#"
arv: "http://arvados.org/cwl#"
cwltool: "http://commonwl.org/cwltool#"
-$schemas:
- - https://schema.org/version/latest/schema.rdf
- - http://edamontology.org/EDAM_1.18.owl
+
#
$schemas:
+
#
- https://schema.org/version/latest/schema.rdf
+
#
- http://edamontology.org/EDAM_1.18.owl