cwlVersion: v1.2 class: CommandLineTool inputs: gtf: File counts_input_bam: File baseCommand: featureCounts arguments: [-T, $(runtime.cores), -a, $(inputs.gtf), -o, featurecounts.tsv, $(inputs.counts_input_bam)] outputs: featurecounts: type: File outputBinding: glob: featurecounts.tsv hints: DockerRequirement: dockerPull: quay.io/biocontainers/subread:1.5.0p3--0