Mercurial > repos > scisjnu123 > ngsap_vc
comparison 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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2:2c7824a8d764 | 3:0d10255b5434 |
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1 { | |
2 "a_galaxy_workflow": "true", | |
3 "annotation": "Haplotypecaller workflow.", | |
4 "format-version": "0.1", | |
5 "name": "Haplotypecaller", | |
6 "steps": { | |
7 "0": { | |
8 "annotation": "", | |
9 "id": 0, | |
10 "input_connections": {}, | |
11 "inputs": [ | |
12 { | |
13 "description": "", | |
14 "name": "Input Dataset" | |
15 } | |
16 ], | |
17 "label": null, | |
18 "name": "Input dataset", | |
19 "outputs": [], | |
20 "position": { | |
21 "left": 198, | |
22 "top": 208.1666717529297 | |
23 }, | |
24 "tool_errors": null, | |
25 "tool_id": null, | |
26 "tool_state": "{\"name\": \"Input Dataset\"}", | |
27 "tool_version": null, | |
28 "type": "data_input", | |
29 "user_outputs": [], | |
30 "uuid": "b9fb671f-f07f-498c-8c85-619987501313" | |
31 }, | |
32 "1": { | |
33 "annotation": "", | |
34 "id": 1, | |
35 "input_connections": { | |
36 "analysis_type|cond_bam_input|input": { | |
37 "id": 0, | |
38 "output_name": "output" | |
39 } | |
40 }, | |
41 "inputs": [], | |
42 "label": null, | |
43 "name": "GATK", | |
44 "outputs": [ | |
45 { | |
46 "name": "rtc_output_intervals", | |
47 "type": "gatk_interval" | |
48 }, | |
49 { | |
50 "name": "ir_output_bam", | |
51 "type": "bam" | |
52 }, | |
53 { | |
54 "name": "br_table", | |
55 "type": "tabular" | |
56 }, | |
57 { | |
58 "name": "ac_plotsReportFile", | |
59 "type": "pdf" | |
60 }, | |
61 { | |
62 "name": "pr_output_bam", | |
63 "type": "bam" | |
64 }, | |
65 { | |
66 "name": "hc_output_gvcf", | |
67 "type": "vcf" | |
68 }, | |
69 { | |
70 "name": "gg_output_gvcf", | |
71 "type": "vcf" | |
72 }, | |
73 { | |
74 "name": "cg_output_vcf", | |
75 "type": "vcf" | |
76 }, | |
77 { | |
78 "name": "cv_output_vcf", | |
79 "type": "vcf" | |
80 }, | |
81 { | |
82 "name": "output_log", | |
83 "type": "txt" | |
84 } | |
85 ], | |
86 "position": { | |
87 "left": 484.83331298828125, | |
88 "top": 200 | |
89 }, | |
90 "post_job_actions": {}, | |
91 "tool_errors": null, | |
92 "tool_id": "toolshed.g2.bx.psu.edu/repos/avowinkel/gatk/gatk/3.4-0.d9", | |
93 "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}\"}", | |
94 "tool_version": "3.4-0.d9", | |
95 "type": "tool", | |
96 "user_outputs": [], | |
97 "uuid": "5988799c-5658-4475-89ee-86f267cfbee1" | |
98 } | |
99 }, | |
100 "uuid": "e4f99de3-d6b0-4554-9562-60b2b0eed2d3" | |
101 } |