+#!/usr/bin/env cwl-runner
+cwlVersion: v1.0
+class: CommandLineTool
+
+requirements:
+ DockerRequirement:
+ dockerPull: "quay.io/biocontainers/star:2.7.5c--0"
+ ResourceRequirement:
+ coresMin: 2
+ ramMin: 12000
+
+inputs:
+
+ InputFiles:
+ format: http://edamontology.org/format_1930
+ type: File[]
+ inputBinding:
+ prefix: "--genomeFastaFiles"
+
+ IndexName:
+ type: string
+ inputBinding:
+ prefix: "--genomeDir"
+ valueFrom: ./$(self)
+
+#Optional Inputs
+
+ Gtf:
+ type: File?
+ inputBinding:
+ prefix: "--sjdbGTFfile"
+
+ Overhang:
+ type: int?
+ inputBinding:
+ prefix: "--sjdbOverhang"
+
+ Junctions:
+ type: File?
+ inputBinding:
+ prefix: "--sjdbFileChrStartEnd"
+
+ GenomeSize:
+ type: int?
+ inputBinding:
+ prefix: "--genomeSAindexNbases"
+
+ GenomeBits:
+ type: int?
+ inputBinding:
+ prefix: "--genomeChrBinNbits"
+
+baseCommand: [STAR, --runMode, genomeGenerate]
+
+arguments: [--runThreadN, $(runtime.cores)]
+
+outputs:
+ indexes:
+ type: Directory
+ outputBinding:
+ glob: ./$(inputs.IndexName)/