{"@id":"https://w3id.org/cwl/view/git/233f026ffce240071edda526391be0c03186fce8/definitions/subworkflows/strelka_process_vcf.cwl","retrievedFrom":{"repoUrl":"https://github.com/tmooney/cancer-genomics-workflow.git","branch":"233f026ffce240071edda526391be0c03186fce8","path":"definitions/subworkflows/strelka_process_vcf.cwl","packedId":null,"type":"GITHUB","rawUrl":"https://raw.githubusercontent.com/tmooney/cancer-genomics-workflow/233f026ffce240071edda526391be0c03186fce8/definitions/subworkflows/strelka_process_vcf.cwl","url":"https://github.com/tmooney/cancer-genomics-workflow/blob/233f026ffce240071edda526391be0c03186fce8/definitions/subworkflows/strelka_process_vcf.cwl"},"retrievedOn":"2023-01-04T00:05:22.164+00:00","lastCommit":"233f026ffce240071edda526391be0c03186fce8","label":"process VCF workflow","inputs":{"vcf":{"type":"File"}},"outputs":{"processed_vcf":{"type":"File"}},"steps":{"bgzip":{"label":"bgzip VCF","run":"../tools/bgzip.cwl","runType":"COMMANDLINETOOL","sources":{"bgzip":{"sourceIDs":["add_gt"]}}},"index":{"label":"vcf index","run":"../tools/index_vcf.cwl","runType":"COMMANDLINETOOL","sources":{"index":{"sourceIDs":["bgzip"]}}},"add_gt":{"label":"add GT tags","run":"../tools/add_strelka_gt.cwl","runType":"COMMANDLINETOOL","sources":{"add_gt":{"sourceIDs":["vcf"]}}}},"cwltoolVersion":"3.1.20221201130942","visualisationDot":"digraph workflow {\n  graph [\n    bgcolor = \"#eeeeee\"\n    color = \"black\"\n    fontsize = \"10\"\n    labeljust = \"left\"\n    clusterrank = \"local\"\n    ranksep = \"0.22\"\n    nodesep = \"0.05\"\n  ]\n  node [\n    fontname = \"Helvetica\"\n    fontsize = \"10\"\n    fontcolor = \"black\"\n    shape = \"record\"\n    height = \"0\"\n    width = \"0\"\n    color = \"black\"\n    fillcolor = \"lightgoldenrodyellow\"\n    style = \"filled\"\n  ];\n  edge [\n    fontname=\"Helvetica\"\n    fontsize=\"8\"\n    fontcolor=\"black\"\n    color=\"black\"\n    arrowsize=\"0.7\"\n  ];\n  subgraph cluster_inputs {\n    rank = \"same\";\n    style = \"dashed\";\n    label = \"Workflow Inputs\";\n    \"vcf\" [fillcolor=\"#94DDF4\",label=\"vcf\"];\n  }\n  subgraph cluster_outputs {\n    rank = \"same\";\n    style = \"dashed\";\n    labelloc = \"b\";\n    label = \"Workflow Outputs\";\n    \"processed_vcf\" [fillcolor=\"#94DDF4\",label=\"processed_vcf\"];\n  }\n  \"add_gt\" [label=\"add GT tags\"];\n  \"bgzip\" [label=\"bgzip VCF\"];\n  \"index\" [label=\"vcf index\"];\n  \"vcf\" -> \"add_gt\" [label=\"vcf\"];\n  \"add_gt\" -> \"bgzip\" [label=\"file\"];\n  \"bgzip\" -> \"index\" [label=\"vcf\"];\n  \"index\" -> \"processed_vcf\";\n}\n","licenseLink":"https://spdx.org/licenses/MIT","permalink":"https://w3id.org/cwl/view/git/233f026ffce240071edda526391be0c03186fce8/definitions/subworkflows/strelka_process_vcf.cwl","packed":false,"visualisationXdot":"/graph/xdot/github.com/tmooney/cancer-genomics-workflow/blob/233f026ffce240071edda526391be0c03186fce8/definitions/subworkflows/strelka_process_vcf.cwl","visualisationPng":"/graph/png/github.com/tmooney/cancer-genomics-workflow/blob/233f026ffce240071edda526391be0c03186fce8/definitions/subworkflows/strelka_process_vcf.cwl","visualisationSvg":"/graph/svg/github.com/tmooney/cancer-genomics-workflow/blob/233f026ffce240071edda526391be0c03186fce8/definitions/subworkflows/strelka_process_vcf.cwl","roBundle":"/robundle/github.com/tmooney/cancer-genomics-workflow/blob/233f026ffce240071edda526391be0c03186fce8/definitions/subworkflows/strelka_process_vcf.cwl","licenseName":"MIT License"}