Mercurial > repos > stemcellcommons > merging_workflows

comparison Merge_BAM.ga @ 0:5703e64e15e9 draft default tip

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Initial upload
author stemcellcommons
date Tue, 05 Dec 2017 14:58:39 -0500
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-1:000000000000 0:5703e64e15e9
1 {
2 "a_galaxy_workflow": "true",
3 "annotation": "{\n \"description\": \"Merge a list of BAM files into a single BAM.\",\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 be merged\"\n }\n ]\n }\n}",
4 "format-version": "0.1",
5 "name": "Merge BAM",
6 "steps": {
7 "0": {
8 "annotation": "",
9 "content_id": null,
10 "id": 0,
11 "input_connections": {},
12 "inputs": [
13 {
14 "description": "",
15 "name": "Input Dataset Collection"
16 }
17 ],
18 "label": null,
19 "name": "Input dataset collection",
20 "outputs": [],
21 "position": {
22 "left": 200.5,
23 "top": 284.5
24 },
25 "tool_errors": null,
26 "tool_id": null,
27 "tool_state": "{\"collection_type\": \"list\", \"name\": \"Input Dataset Collection\"}",
28 "tool_version": null,
29 "type": "data_collection_input",
30 "uuid": "d9e52442-15c8-45ba-a07e-fdf9de76ac43",
31 "workflow_outputs": [
32 {
33 "label": null,
34 "output_name": "output",
35 "uuid": "463f98ce-580f-4a70-8d89-1be510478bb9"
36 }
37 ]
38 },
39 "1": {
40 "annotation": "",
41 "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MergeSamFiles/1.126.0",
42 "id": 1,
43 "input_connections": {
44 "inputFile": {
45 "id": 0,
46 "output_name": "output"
47 }
48 },
49 "inputs": [],
50 "label": null,
51 "name": "MergeSamFiles",
52 "outputs": [
53 {
54 "name": "outFile",
55 "type": "bam"
56 }
57 ],
58 "position": {
59 "left": 575,
60 "top": 285
61 },
62 "post_job_actions": {
63 "RenameDatasetActionoutFile": {
64 "action_arguments": {
65 "newname": "merged"
66 },
67 "action_type": "RenameDatasetAction",
68 "output_name": "outFile"
69 }
70 },
71 "tool_errors": null,
72 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MergeSamFiles/1.126.0",
73 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"comments\": \"[]\", \"assume_sorted\": \"\\\"False\\\"\", \"merge_sequence_dictionaries\": \"\\\"False\\\"\", \"validation_stringency\": \"\\\"LENIENT\\\"\", \"inputFile\": \"null\"}",
74 "tool_version": "1.126.0",
75 "type": "tool",
76 "uuid": "0f22ffbb-d375-4d1f-9b53-0abce7390f66",
77 "workflow_outputs": [
78 {
79 "label": null,
80 "output_name": "outFile",
81 "uuid": "82e3ef46-e532-4e2f-bafb-f0875211282f"
82 }
83 ]
84 }
85 },
86 "uuid": "a920711d-9852-4048-9694-eda710a7513a"
87 }