{"@id":"https://w3id.org/cwl/view/git/4533a5e930305c674057bc4cf5dda4f39d39b5df/ani.cwl","retrievedFrom":{"repoUrl":"https://github.com/ncbi/pgap.git","branch":"4533a5e930305c674057bc4cf5dda4f39d39b5df","path":"ani.cwl","packedId":null,"type":"GITHUB","rawUrl":"https://raw.githubusercontent.com/ncbi/pgap/4533a5e930305c674057bc4cf5dda4f39d39b5df/ani.cwl","url":"https://github.com/ncbi/pgap/blob/4533a5e930305c674057bc4cf5dda4f39d39b5df/ani.cwl"},"retrievedOn":"2026-09-23T13:52:45.415+00:00","lastCommit":"4533a5e930305c674057bc4cf5dda4f39d39b5df","label":"ani.cwl","doc":"Perform taxonomic identification tasks on an input genome\n","inputs":{"fasta":{"type":"File"},"submol":{"type":"File"},"no_internet":{"type":"Boolean (Optional)"},"gc_assm_name":{"type":"String"},"report_usage":{"type":"Boolean"},"ignore_all_errors":{"type":"Boolean 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rank = \"same\";\n    style = \"dashed\";\n    labelloc = \"b\";\n    label = \"Workflow Outputs\";\n    \"ani_tax_report_text\" [fillcolor=\"#94DDF4\",label=\"ani_tax_report_text\"];\n    \"ani_tax_report\" [fillcolor=\"#94DDF4\",label=\"ani_tax_report\"];\n    \"kmer_tax_report\" [fillcolor=\"#94DDF4\",label=\"kmer_tax_report\"];\n    \"annot\" [fillcolor=\"#94DDF4\",label=\"annot\"];\n  }\n  \"passdata\" [label=\"Split input directory into subpath flows for top level user workflow ani.cwl\"];\n  \"ping_start\" [label=\"pinger\"];\n  \"bacterial_kmer\" [label=\"bacterial_kmer\", fillcolor=\"#F3CEA1\"];\n  \"ping_stop\" [label=\"pinger\"];\n  \"Prepare_Seq_entries\" [label=\"prepare_seq_entry_input\"];\n  \"prepare_input_template\" [label=\"Prepare user input\", fillcolor=\"#F3CEA1\"];\n  \"fastaval\" [label=\"fastaval\"];\n  \"genomic_source\" [label=\"Create Genomic Collection for Bacterial Pipeline, ASN.1 input\", fillcolor=\"#F3CEA1\"];\n  \"supplemental_data\" -> \"passdata\" [label=\"data\"];\n  \"gc_assm_name\" -> \"ping_start\" [label=\"instring\"];\n  \"default1\" -> \"ping_start\" [label=\"workflow\"];\n  \"default1\" [label=\"\\\"ani-analysis\\\"\", fillcolor=\"#D5AEFC\"];\n  \"default2\" -> \"ping_start\" [label=\"state\"];\n  \"default2\" [label=\"\\\"start\\\"\", fillcolor=\"#D5AEFC\"];\n  \"report_usage\" -> \"ping_start\" [label=\"report_usage\"];\n  \"default3\" -> \"ping_start\" [label=\"make_uuid\"];\n  \"default3\" [label=\"true\", fillcolor=\"#D5AEFC\"];\n  \"passdata\" -> \"bacterial_kmer\" [label=\"kmer_reference_assemblies\"];\n  \"genomic_source\" -> \"bacterial_kmer\" [label=\"asn_cache\"];\n  \"default4\" -> \"bacterial_kmer\" [label=\"ref_assembly_id\"];\n  \"default4\" [label=\"0\", fillcolor=\"#D5AEFC\"];\n  \"Prepare_Seq_entries\" -> \"bacterial_kmer\" [label=\"Extract_Kmers_From_Input___entry\"];\n  \"prepare_input_template\" -> \"bacterial_kmer\" [label=\"ref_assembly_taxid\"];\n  \"passdata\" -> \"bacterial_kmer\" 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\"annot\";\n}\n","licenseLink":"https://raw.githubusercontent.com/ncbi/pgap/4533a5e930305c674057bc4cf5dda4f39d39b5df/LICENSE.md","permalink":"https://w3id.org/cwl/view/git/4533a5e930305c674057bc4cf5dda4f39d39b5df/ani.cwl","packed":false,"visualisationXdot":"/graph/xdot/github.com/ncbi/pgap/blob/4533a5e930305c674057bc4cf5dda4f39d39b5df/ani.cwl","visualisationPng":"/graph/png/github.com/ncbi/pgap/blob/4533a5e930305c674057bc4cf5dda4f39d39b5df/ani.cwl","visualisationSvg":"/graph/svg/github.com/ncbi/pgap/blob/4533a5e930305c674057bc4cf5dda4f39d39b5df/ani.cwl","roBundle":"/robundle/github.com/ncbi/pgap/blob/4533a5e930305c674057bc4cf5dda4f39d39b5df/ani.cwl","licenseName":"https://raw.githubusercontent.com/ncbi/pgap/4533a5e930305c674057bc4cf5dda4f39d39b5df/LICENSE.md"}