Mercurial > repos > scisjnu123 > ngsap_vc
view ngsap-vc/Haplotypecaller.ga @ 3:0d10255b5434 draft default tip
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author | scisjnu123 |
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date | Thu, 03 Oct 2019 10:42:15 -0400 |
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{ "a_galaxy_workflow": "true", "annotation": "Haplotypecaller workflow.", "format-version": "0.1", "name": "Haplotypecaller", "steps": { "0": { "annotation": "", "id": 0, "input_connections": {}, "inputs": [ { "description": "", "name": "Input Dataset" } ], "label": null, "name": "Input dataset", "outputs": [], "position": { "left": 198, "top": 208.1666717529297 }, "tool_errors": null, "tool_id": null, "tool_state": "{\"name\": \"Input Dataset\"}", "tool_version": null, "type": "data_input", "user_outputs": [], "uuid": "b9fb671f-f07f-498c-8c85-619987501313" }, "1": { "annotation": "", "id": 1, "input_connections": { "analysis_type|cond_bam_input|input": { "id": 0, "output_name": "output" } }, "inputs": [], "label": null, "name": "GATK", "outputs": [ { "name": "rtc_output_intervals", "type": "gatk_interval" }, { "name": "ir_output_bam", "type": "bam" }, { "name": "br_table", "type": "tabular" }, { "name": "ac_plotsReportFile", "type": "pdf" }, { "name": "pr_output_bam", "type": "bam" }, { "name": "hc_output_gvcf", "type": "vcf" }, { "name": "gg_output_gvcf", "type": "vcf" }, { "name": "cg_output_vcf", "type": "vcf" }, { "name": "cv_output_vcf", "type": "vcf" }, { "name": "output_log", "type": "txt" } ], "position": { "left": 484.83331298828125, "top": 200 }, "post_job_actions": {}, "tool_errors": null, "tool_id": "toolshed.g2.bx.psu.edu/repos/avowinkel/gatk/gatk/3.4-0.d9", "tool_state": "{\"__page__\": 0, \"cond_threads\": \"{\\\"cond_threads_enabled\\\": \\\"False\\\", \\\"__current_case__\\\": 1}\", \"ref_file\": \"{\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"\\\"}\", \"__rerun_remap_job_id__\": null, \"cond_BQSR\": \"{\\\"cond_BQSR_enabled\\\": \\\"False\\\", \\\"__current_case__\\\": 1}\", \"analysis_type\": \"{\\\"analysis_type_selector\\\": \\\"HaplotypeCaller\\\", \\\"cond_usage\\\": {\\\"emitRefConfidence\\\": \\\"GVCF\\\", \\\"__current_case__\\\": 0, \\\"cond_usage_selector\\\": \\\"GVCF\\\"}, \\\"optional_parameters\\\": {\\\"optional_parameters_enabled\\\": \\\"False\\\", \\\"__current_case__\\\": 1}, \\\"cond_bam_input\\\": {\\\"input\\\": null, \\\"all_in_one\\\": \\\"False\\\", \\\"__current_case__\\\": 1}, \\\"__current_case__\\\": 5}\", \"cond_intervals\": \"{\\\"cond_intervals_enabled\\\": \\\"False\\\", \\\"__current_case__\\\": 1}\"}", "tool_version": "3.4-0.d9", "type": "tool", "user_outputs": [], "uuid": "5988799c-5658-4475-89ee-86f267cfbee1" } }, "uuid": "e4f99de3-d6b0-4554-9562-60b2b0eed2d3" }