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Moving #
[arvados-tutorial.git]
/
WGS-processing
/
cwl
/
wgs-processing-wf.cwl
diff --git
a/WGS-processing/cwl/wgs-processing-wf.cwl
b/WGS-processing/cwl/wgs-processing-wf.cwl
index a6218bdaa79bd28f83a2cd91087fca673999cf8a..6ad2b134a59398ebb9c6622848f898d0c9d60fe1 100644
(file)
--- a/
WGS-processing/cwl/wgs-processing-wf.cwl
+++ b/
WGS-processing/cwl/wgs-processing-wf.cwl
@@
-22,9
+22,6
@@
inputs:
- .sa
- .fai
- ^.dict
- .sa
- .fai
- ^.dict
- sample:
- type: string
- label: Sample name
knownsites:
type: File
format: edam:format_3016 # VCF
knownsites:
type: File
format: edam:format_3016 # VCF
@@
-43,11
+40,11
@@
inputs:
label: Function used to create HTML report
headhtml:
type: File
label: Function used to create HTML report
headhtml:
type: File
- format: edam:format_
1964
# HTML
+ format: edam:format_
2331
# HTML
label: Header for HTML report
tailhtml:
type: File
label: Header for HTML report
tailhtml:
type: File
- format: edam:format_
1964
# HTML
+ format: edam:format_
2331
# HTML
label: Footer for HTML report
outputs:
label: Footer for HTML report
outputs:
@@
-55,8
+52,7
@@
outputs:
type: File[]
outputSource: bwamem-gatk-report/gvcf
format: edam:format_3016 # GVCF
type: File[]
outputSource: bwamem-gatk-report/gvcf
format: edam:format_3016 # GVCF
- label: GVCFs generated from sets of fastqs
-
+ label: GVCFs generated from GATK
report:
type: File[]
outputSource: bwamem-gatk-report/report
report:
type: File[]
outputSource: bwamem-gatk-report/report
@@
-94,6
+90,6
@@
$namespaces:
s: https://schema.org/
edam: http://edamontology.org/
s: https://schema.org/
edam: http://edamontology.org/
-$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