{"@id":"https://w3id.org/cwl/view/git/92b8d41bab2661919aa11aa84e1923748f8503c4/subworkflows/exomeseq-gatk4-03-organizedirectories.cwl","retrievedFrom":{"repoUrl":"https://github.com/Duke-GCB/bespin-cwl.git","branch":"92b8d41bab2661919aa11aa84e1923748f8503c4","path":"subworkflows/exomeseq-gatk4-03-organizedirectories.cwl","packedId":null,"type":"GITHUB","rawUrl":"https://raw.githubusercontent.com/Duke-GCB/bespin-cwl/92b8d41bab2661919aa11aa84e1923748f8503c4/subworkflows/exomeseq-gatk4-03-organizedirectories.cwl","url":"https://github.com/Duke-GCB/bespin-cwl/blob/92b8d41bab2661919aa11aa84e1923748f8503c4/subworkflows/exomeseq-gatk4-03-organizedirectories.cwl"},"retrievedOn":"2026-10-25T14:42:07.605+00:00","lastCommit":"92b8d41bab2661919aa11aa84e1923748f8503c4","label":"exomeseq-gatk4-03-organizedirectories.cwl","inputs":{"raw_variants":{"type":"File[]"},"trim_reports":{"type":"4e800cdbdf4a40ac308ebd6b845b5460[]"},"fastqc_reports":{"type":"f20ca1810d6a12f72dfe85a60b69b111[]"},"bams_recalibrated":{"type":"File[]"},"bams_markduplicates":{"type":"File[]"}},"outputs":{"raw_variants_dir":{"type":"Directory"},"trim_reports_dir":{"type":"Directory"},"fastqc_reports_dir":{"type":"Directory"},"bams_recalibrated_dir":{"type":"Directory"},"bams_markduplicates_dir":{"type":"Directory"}},"steps":{"org_raw_variants":{"label":"Moves 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