Mercurial > repos > stemcellcommons > qualimap_bamqc_workflow
comparison Qualimap_BAM_QC.ga @ 0:064dbe5f3b2f draft default tip
planemo upload commit 96bf4e03fcbbbc1eb0e4b5af12c7da8aa4477fa8
author | scottx611x |
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date | Tue, 04 Sep 2018 13:53:32 -0400 |
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-1:000000000000 | 0:064dbe5f3b2f |
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1 { | |
2 "a_galaxy_workflow": "true", | |
3 "annotation": "{ \n \"description\": \"Quality control of mapped reads\", \n \"file_relationship\": { \n \"file_relationship\": {}, \n \"value_type\": \"LIST\", \n \"name\": \"List of BAM Files\", \n \"input_files\": [ \n { \n \"allowed_filetypes\": [{\"name\": \"BAM\"}], \n \"name\": \"Input File\", \n \"description\": \"File to run Qualimap BAM QC on\" \n } \n ] \n } \n}", | |
4 "format-version": "0.1", | |
5 "name": "Qualimap Bam QC", | |
6 "steps": { | |
7 "0": { | |
8 "annotation": "", | |
9 "content_id": null, | |
10 "errors": null, | |
11 "id": 0, | |
12 "input_connections": {}, | |
13 "inputs": [], | |
14 "label": null, | |
15 "name": "Input dataset", | |
16 "outputs": [], | |
17 "position": { | |
18 "left": 494, | |
19 "top": 304.5 | |
20 }, | |
21 "tool_id": null, | |
22 "tool_state": "{}", | |
23 "tool_version": null, | |
24 "type": "data_input", | |
25 "uuid": "354d9a2d-aadd-4c58-886f-5cf9659df944", | |
26 "workflow_outputs": [ | |
27 { | |
28 "label": null, | |
29 "output_name": "output", | |
30 "uuid": "6e6fd3a9-4d85-4095-9e25-e868020b97f7" | |
31 } | |
32 ] | |
33 }, | |
34 "1": { | |
35 "annotation": "", | |
36 "content_id": "toolshed.g2.bx.psu.edu/repos/refinery-platform/qualimap2_bamqc/qualimap_bamqc/2.2", | |
37 "errors": null, | |
38 "id": 1, | |
39 "input_connections": { | |
40 "input_realigned_bam_file": { | |
41 "id": 0, | |
42 "output_name": "output" | |
43 } | |
44 }, | |
45 "inputs": [ | |
46 { | |
47 "description": "runtime parameter for tool QualiMap BamQC", | |
48 "name": "input_realigned_bam_file" | |
49 } | |
50 ], | |
51 "label": null, | |
52 "name": "QualiMap BamQC", | |
53 "outputs": [ | |
54 { | |
55 "name": "genome_results", | |
56 "type": "txt" | |
57 }, | |
58 { | |
59 "name": "raw_data_qualimapReport", | |
60 "type": "zip" | |
61 } | |
62 ], | |
63 "position": { | |
64 "left": 872, | |
65 "top": 359.5 | |
66 }, | |
67 "post_job_actions": { | |
68 "RenameDatasetActiongenome_results": { | |
69 "action_arguments": { | |
70 "newname": "genome_results" | |
71 }, | |
72 "action_type": "RenameDatasetAction", | |
73 "output_name": "genome_results" | |
74 }, | |
75 "RenameDatasetActionraw_data_qualimapReport": { | |
76 "action_arguments": { | |
77 "newname": "raw_data_qualimapReport" | |
78 }, | |
79 "action_type": "RenameDatasetAction", | |
80 "output_name": "raw_data_qualimapReport" | |
81 } | |
82 }, | |
83 "tool_id": "toolshed.g2.bx.psu.edu/repos/refinery-platform/qualimap2_bamqc/qualimap_bamqc/2.2", | |
84 "tool_shed_repository": { | |
85 "changeset_revision": "a2438e0f1bbf", | |
86 "name": "qualimap2_bamqc", | |
87 "owner": "refinery-platform", | |
88 "tool_shed": "toolshed.g2.bx.psu.edu" | |
89 }, | |
90 "tool_state": "{\"mem_size\": \"\\\"8G\\\"\", \"__rerun_remap_job_id__\": null, \"input_realigned_bam_file\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"__page__\": null}", | |
91 "tool_version": "2.2", | |
92 "type": "tool", | |
93 "uuid": "8e63fbd9-22df-4b7b-a0d1-88e8be17bf16", | |
94 "workflow_outputs": [ | |
95 { | |
96 "label": null, | |
97 "output_name": "raw_data_qualimapReport", | |
98 "uuid": "71d23433-f0ef-452d-9c4b-b4376e2665de" | |
99 }, | |
100 { | |
101 "label": null, | |
102 "output_name": "genome_results", | |
103 "uuid": "d5f56231-b611-425a-b2e1-d2a9072111f9" | |
104 } | |
105 ] | |
106 } | |
107 }, | |
108 "uuid": "27bccc25-073c-4061-b573-9cfe9ed47324" | |
109 } |