ShellCommandRequirement: {}
ResourceRequirement:
ramMin: 50000
- coresMin: 16
+ coresMin: 16
hints:
arv:RuntimeConstraints:
- keep_cache: 1024
+ keep_cache: 1024
outputDirType: keep_output_dir
SoftwareRequirement:
packages:
- .sa
- .fai
- ^.dict
- fastq1:
+ fastq1:
type: File
format: edam:format_1930 # FASTQ
label: One of set of pair-end FASTQs (R1)
- fastq2:
+ fastq2:
type: File
format: edam:format_1930 # FASTQ
label: One of set of pair-end FASTQs (R2)
- sample:
+ sample:
type: string
label: Sample Name
- $(runtime.cores)
- $(inputs.reference)
- -R
- - '@RG\tID:sample\tSM:sample\tLB:sample\tPL:ILLUMINA\tPU:sample1'
+ - '@RG\tID:sample\tSM:sample\tLB:sample\tPL:ILLUMINA\tPU:sample1'
- -c
- '250'
- $(inputs.fastq1)
arv: "http://arvados.org/cwl#"
cwltool: "http://commonwl.org/cwltool#"
-$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