run: ./helper/getfastq.cwl
in:
fastqdir: fastqdir
- out: [fastq1, fastq2]
+ out: [fastq1, fastq2, sample]
bwamem-gatk-report:
run: ./helper/bwamem-gatk-report-wf.cwl
- scatter: [fastq1, fastq2]
+ scatter: [fastq1, fastq2, sample]
scatterMethod: dotproduct
in:
fastq1: getfastq/fastq1
fastq2: getfastq/fastq2
reference: reference
- sample: sample
+ sample: getfastq/sample
knownsites: knownsites
scattercount: scattercount
clinvarvcf: clinvarvcf