projects
/
arvados-tutorial.git
/ blobdiff
summary
|
shortlog
|
log
|
commit
|
commitdiff
|
tree
raw
|
inline
| side by side
Switching variable knownsites1 to knownsites
[arvados-tutorial.git]
/
WGS-processing
/
cwl
/
helper
/
gatk-wf-with-interval.cwl
diff --git
a/WGS-processing/cwl/helper/gatk-wf-with-interval.cwl
b/WGS-processing/cwl/helper/gatk-wf-with-interval.cwl
index cf815a5178cb9ab03c769f5acc11de7fe5f8fd8e..38e185d5b67e26f299bb39a4b1419cd5893fd9e8 100644
(file)
--- a/
WGS-processing/cwl/helper/gatk-wf-with-interval.cwl
+++ b/
WGS-processing/cwl/helper/gatk-wf-with-interval.cwl
@@
-27,7
+27,7
@@
inputs:
sample:
type: string
label: Sample Name
sample:
type: string
label: Sample Name
- knownsites
1
:
+ knownsites:
type: File
format: edam:format_3016 # VCF
label: VCF of known polymorphic sites for BQSR
type: File
format: edam:format_3016 # VCF
label: VCF of known polymorphic sites for BQSR
@@
-51,7
+51,7
@@
steps:
bam: bam
reference: reference
sample: sample
bam: bam
reference: reference
sample: sample
- knownsites
1: knownsites1
+ knownsites
: knownsites
intervallist: intervallist
out: [recaltable]
applyBQSR:
intervallist: intervallist
out: [recaltable]
applyBQSR: