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Updating cwl and yml for intervals and other changes
[arvados-tutorial.git]
/
WGS-processing
/
cwl
/
helper
/
scatter-gatk-wf-with-interval.cwl
diff --git
a/WGS-processing/cwl/helper/scatter-gatk-wf-with-interval.cwl
b/WGS-processing/cwl/helper/scatter-gatk-wf-with-interval.cwl
index 9752edb90f3efb83f3221ca22c9a33b402a050e7..80d7601115c8ef2cb1839e273266cdc1947ce4dd 100644
(file)
--- a/
WGS-processing/cwl/helper/scatter-gatk-wf-with-interval.cwl
+++ b/
WGS-processing/cwl/helper/scatter-gatk-wf-with-interval.cwl
@@
-25,6
+25,9
@@
inputs:
- .sa
- .fai
- ^.dict
- .sa
- .fai
- ^.dict
+ fullintervallist:
+ type: File
+ label: Full list of intervals to operate over
sample:
type: string
label: Sample Name
sample:
type: string
label: Sample Name
@@
-52,6
+55,7
@@
steps:
run: gatk-splitintervals.cwl
in:
reference: reference
run: gatk-splitintervals.cwl
in:
reference: reference
+ fullintervallist: fullintervallist
sample: sample
scattercount: scattercount
out: [intervalfiles]
sample: sample
scattercount: scattercount
out: [intervalfiles]