projects
/
arvados-tutorial.git
/ blobdiff
summary
|
shortlog
|
log
|
commit
|
commitdiff
|
tree
raw
|
inline
| side by side
Adding metadata, updating variables
[arvados-tutorial.git]
/
WGS-processing
/
cwl
/
helper
/
report-wf.cwl
diff --git
a/WGS-processing/cwl/helper/report-wf.cwl
b/WGS-processing/cwl/helper/report-wf.cwl
index 0029018394d7aa1c2dd170860196efef9ed39a3a..6a0f18d8fa0eedf7b0d90cf3defc942e72114317 100644
(file)
--- a/
WGS-processing/cwl/helper/report-wf.cwl
+++ b/
WGS-processing/cwl/helper/report-wf.cwl
@@
-7,7
+7,7
@@
inputs:
type: File
format: edam:format_3016 # GVCF
label: Gathered GVCF
type: File
format: edam:format_3016 # GVCF
label: Gathered GVCF
- sample
name
:
+ sample:
type: string
label: Sample Name
clinvarvcf:
type: string
label: Sample Name
clinvarvcf:
@@
-38,16
+38,14
@@
steps:
run: gvcf-to-vcf.cwl
in:
gvcf: gvcf
run: gvcf-to-vcf.cwl
in:
gvcf: gvcf
- sample
name: samplenam
e
+ sample
: sampl
e
out: [vcf]
out: [vcf]
-
annotate:
run: annotate-vcf.cwl
in:
vcf: gvcf-to-vcf/vcf
clinvarvcf: clinvarvcf
out: [reporttxt]
annotate:
run: annotate-vcf.cwl
in:
vcf: gvcf-to-vcf/vcf
clinvarvcf: clinvarvcf
out: [reporttxt]
-
generate-report:
run: generate-report.cwl
in:
generate-report:
run: generate-report.cwl
in: