Mercurial > repos > galaxyp > abrf2017_workshop

annotate Galaxy-Workflow-ABRF_2017_Taxonomy_Comparison_Workflow.ga @ 1:338a6d724774 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit e81bd1614788b8bfe8752c4a4279abdcc34e9777
author galaxyp
date Thu, 16 Mar 2017 08:45:23 -0400
parents eb71034189fb
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
1 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
2 "a_galaxy_workflow": "true",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
3 "annotation": "",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
4 "format-version": "0.1",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
5 "name": "ABRF 2017:Taxonomy Comparison Workflow",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
6 "steps": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
7 "0": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
8 "annotation": "",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
9 "content_id": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
10 "id": 0,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
11 "input_connections": {},
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
12 "inputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
13 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
14 "description": "",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
15 "name": "PSM Report (Bering Strait)"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
16 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
17 ],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
18 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
19 "name": "Input dataset",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
20 "outputs": [],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
21 "position": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
22 "left": 296,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
23 "top": 186
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
24 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
25 "tool_errors": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
26 "tool_id": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
27 "tool_state": "{\"name\": \"PSM Report (Bering Strait)\"}",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
28 "tool_version": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
29 "type": "data_input",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
30 "uuid": "c404eaed-7c90-4b48-82c4-9083bdb6db29",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
31 "workflow_outputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
32 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
33 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
34 "output_name": "output",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
35 "uuid": "0bfee776-11e1-4553-a7ee-25fd0c628891"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
36 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
37 ]
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
38 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
39 "1": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
40 "annotation": "",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
41 "content_id": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
42 "id": 1,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
43 "input_connections": {},
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
44 "inputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
45 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
46 "description": "",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
47 "name": "PSM Report (Chukchi Sea)"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
48 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
49 ],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
50 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
51 "name": "Input dataset",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
52 "outputs": [],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
53 "position": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
54 "left": 352,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
55 "top": 596.5
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
56 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
57 "tool_errors": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
58 "tool_id": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
59 "tool_state": "{\"name\": \"PSM Report (Chukchi Sea)\"}",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
60 "tool_version": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
61 "type": "data_input",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
62 "uuid": "c6e42b4c-4116-48eb-92a2-bebdbceaba1d",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
63 "workflow_outputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
64 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
65 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
66 "output_name": "output",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
67 "uuid": "0d4f355a-1f05-49a9-a5a3-2f58fc25ca32"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
68 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
69 ]
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
70 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
71 "2": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
72 "annotation": "",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
73 "content_id": "toolshed.g2.bx.psu.edu/repos/jjohnson/query_tabular/query_tabular/2.0.0",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
74 "id": 2,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
75 "input_connections": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
76 "tables_0|table": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
77 "id": 0,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
78 "output_name": "output"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
79 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
80 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
81 "inputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
82 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
83 "description": "runtime parameter for tool Query Tabular",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
84 "name": "add_to_database"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
85 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
86 ],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
87 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
88 "name": "Query Tabular",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
89 "outputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
90 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
91 "name": "sqlitedb",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
92 "type": "sqlite"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
93 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
94 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
95 "name": "output",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
96 "type": "tabular"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
97 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
98 ],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
99 "position": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
100 "left": 453,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
101 "top": 335
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
102 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
103 "post_job_actions": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
104 "HideDatasetActionsqlitedb": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
105 "action_arguments": {},
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
106 "action_type": "HideDatasetAction",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
107 "output_name": "sqlitedb"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
108 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
109 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
110 "tool_errors": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
111 "tool_id": "toolshed.g2.bx.psu.edu/repos/jjohnson/query_tabular/query_tabular/2.0.0",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
112 "tool_shed_repository": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
113 "changeset_revision": "e84d1c3bf4fe",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
114 "name": "query_tabular",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
115 "owner": "jjohnson",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
116 "tool_shed": "toolshed.g2.bx.psu.edu"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
117 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
118 "tool_state": "{\"tables\": \"[{\\\"tbl_opts\\\": {\\\"load_named_columns\\\": \\\"true\\\", \\\"pkey_autoincr\\\": \\\"\\\", \\\"table_name\\\": \\\"psm\\\", \\\"col_names\\\": \\\"id,,sequence,,,,,,,,,,,,,,,,,,,,confidence,validation\\\", \\\"indexes\\\": []}, \\\"__index__\\\": 0, \\\"input_opts\\\": {\\\"linefilters\\\": [{\\\"filter\\\": {\\\"regex_action\\\": \\\"include_match\\\", \\\"regex_pattern\\\": \\\"^\\\\\\\\d\\\", \\\"__current_case__\\\": 2, \\\"filter_type\\\": \\\"regex\\\"}, \\\"__index__\\\": 0}]}, \\\"table\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}]\", \"save_db\": \"\\\"true\\\"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"no_header\": \"\\\"true\\\"\", \"sqlquery\": \"\\\"SELECT distinct sequence \\\\nFROM psm \\\\nWHERE validation IS NOT 'Confident' AND confidence >= 95 \\\\nORDER BY sequence\\\"\", \"add_to_database\": \"{\\\"withdb\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}\", \"workdb\": \"\\\"workdb.sqlite\\\"\"}",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
119 "tool_version": "2.0.0",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
120 "type": "tool",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
121 "uuid": "90d1308d-cd0a-4dc7-8da8-eb1a311e3825",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
122 "workflow_outputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
123 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
124 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
125 "output_name": "output",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
126 "uuid": "cb6d774d-7930-4c42-b3dd-7e523acc58a2"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
127 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
128 ]
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
129 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
130 "3": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
131 "annotation": "",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
132 "content_id": "toolshed.g2.bx.psu.edu/repos/jjohnson/query_tabular/query_tabular/2.0.0",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
133 "id": 3,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
134 "input_connections": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
135 "tables_0|table": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
136 "id": 1,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
137 "output_name": "output"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
138 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
139 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
140 "inputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
141 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
142 "description": "runtime parameter for tool Query Tabular",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
143 "name": "add_to_database"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
144 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
145 ],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
146 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
147 "name": "Query Tabular",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
148 "outputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
149 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
150 "name": "sqlitedb",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
151 "type": "sqlite"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
152 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
153 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
154 "name": "output",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
155 "type": "tabular"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
156 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
157 ],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
158 "position": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
159 "left": 562,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
160 "top": 646.5
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
161 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
162 "post_job_actions": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
163 "HideDatasetActionsqlitedb": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
164 "action_arguments": {},
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
165 "action_type": "HideDatasetAction",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
166 "output_name": "sqlitedb"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
167 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
168 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
169 "tool_errors": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
170 "tool_id": "toolshed.g2.bx.psu.edu/repos/jjohnson/query_tabular/query_tabular/2.0.0",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
171 "tool_shed_repository": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
172 "changeset_revision": "e84d1c3bf4fe",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
173 "name": "query_tabular",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
174 "owner": "jjohnson",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
175 "tool_shed": "toolshed.g2.bx.psu.edu"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
176 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
177 "tool_state": "{\"tables\": \"[{\\\"tbl_opts\\\": {\\\"load_named_columns\\\": \\\"true\\\", \\\"pkey_autoincr\\\": \\\"\\\", \\\"table_name\\\": \\\"psm\\\", \\\"col_names\\\": \\\"id,,sequence,,,,,,,,,,,,,,,,,,,,confidence,validation\\\", \\\"indexes\\\": []}, \\\"__index__\\\": 0, \\\"input_opts\\\": {\\\"linefilters\\\": [{\\\"filter\\\": {\\\"regex_action\\\": \\\"include_match\\\", \\\"regex_pattern\\\": \\\"^\\\\\\\\d\\\", \\\"__current_case__\\\": 2, \\\"filter_type\\\": \\\"regex\\\"}, \\\"__index__\\\": 0}]}, \\\"table\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}]\", \"save_db\": \"\\\"true\\\"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"no_header\": \"\\\"false\\\"\", \"sqlquery\": \"\\\"SELECT distinct sequence \\\\nFROM psm \\\\nWHERE validation IS NOT 'Confident' AND confidence >= 95 \\\\nORDER BY sequence\\\"\", \"add_to_database\": \"{\\\"withdb\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}\", \"workdb\": \"\\\"workdb.sqlite\\\"\"}",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
178 "tool_version": "2.0.0",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
179 "type": "tool",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
180 "uuid": "f512a71f-f718-4eca-9879-95c876274d57",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
181 "workflow_outputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
182 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
183 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
184 "output_name": "output",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
185 "uuid": "b2c1c6ac-672f-471f-8f81-1e9d7aaf1b18"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
186 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
187 ]
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
188 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
189 "4": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
190 "annotation": "",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
191 "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/unipept/unipept/2.0.1",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
192 "id": 4,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
193 "input_connections": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
194 "peptide_src|input_tsv": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
195 "id": 2,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
196 "output_name": "output"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
197 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
198 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
199 "inputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
200 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
201 "description": "runtime parameter for tool Unipept",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
202 "name": "peptide_src"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
203 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
204 ],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
205 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
206 "name": "Unipept",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
207 "outputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
208 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
209 "name": "output_json",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
210 "type": "d3_hierarchy"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
211 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
212 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
213 "name": "output_tsv",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
214 "type": "tabular"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
215 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
216 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
217 "name": "output_csv",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
218 "type": "csv"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
219 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
220 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
221 "name": "output_unmatched",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
222 "type": "tabular"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
223 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
224 ],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
225 "position": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
226 "left": 754.5,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
227 "top": 327.5
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
228 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
229 "post_job_actions": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
230 "HideDatasetActionoutput_csv": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
231 "action_arguments": {},
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
232 "action_type": "HideDatasetAction",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
233 "output_name": "output_csv"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
234 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
235 "HideDatasetActionoutput_unmatched": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
236 "action_arguments": {},
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
237 "action_type": "HideDatasetAction",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
238 "output_name": "output_unmatched"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
239 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
240 "RenameDatasetActionoutput_json": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
241 "action_arguments": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
242 "newname": "Unipept: TAXONOMY Phylogenetic Tree (Bering Strait)"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
243 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
244 "action_type": "RenameDatasetAction",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
245 "output_name": "output_json"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
246 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
247 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
248 "tool_errors": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
249 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/unipept/unipept/2.0.1",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
250 "tool_shed_repository": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
251 "changeset_revision": "34758ab8aaa4",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
252 "name": "unipept",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
253 "owner": "galaxyp",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
254 "tool_shed": "toolshed.g2.bx.psu.edu"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
255 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
256 "tool_state": "{\"__page__\": 0, \"outputs\": \"[\\\"tsv\\\", \\\"json\\\"]\", \"__rerun_remap_job_id__\": null, \"peptide_src\": \"{\\\"column\\\": \\\"1\\\", \\\"fmt\\\": \\\"tabular\\\", \\\"input_tsv\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}, \\\"__current_case__\\\": 1}\", \"strict\": \"\\\"false\\\"\", \"unipept\": \"{\\\"allfields\\\": \\\"false\\\", \\\"extra\\\": \\\"false\\\", \\\"api\\\": \\\"pept2lca\\\", \\\"names\\\": \\\"true\\\", \\\"__current_case__\\\": 0, \\\"equate_il\\\": \\\"true\\\"}\"}",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
257 "tool_version": "2.0.1",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
258 "type": "tool",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
259 "uuid": "829dee5e-7a29-4dce-857a-2c73f5967fc6",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
260 "workflow_outputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
261 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
262 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
263 "output_name": "output_tsv",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
264 "uuid": "3b30dfdc-5778-4862-8d14-819c4a1c81a5"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
265 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
266 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
267 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
268 "output_name": "output_json",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
269 "uuid": "d1d13d17-c7b2-4ebc-a4e6-822b05a99eea"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
270 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
271 ]
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
272 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
273 "5": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
274 "annotation": "",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
275 "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/unipept/unipept/2.0.1",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
276 "id": 5,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
277 "input_connections": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
278 "peptide_src|input_tsv": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
279 "id": 3,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
280 "output_name": "output"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
281 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
282 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
283 "inputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
284 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
285 "description": "runtime parameter for tool Unipept",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
286 "name": "peptide_src"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
287 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
288 ],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
289 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
290 "name": "Unipept",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
291 "outputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
292 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
293 "name": "output_json",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
294 "type": "d3_hierarchy"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
295 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
296 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
297 "name": "output_tsv",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
298 "type": "tabular"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
299 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
300 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
301 "name": "output_csv",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
302 "type": "csv"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
303 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
304 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
305 "name": "output_unmatched",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
306 "type": "tabular"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
307 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
308 ],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
309 "position": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
310 "left": 869,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
311 "top": 628.5
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
312 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
313 "post_job_actions": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
314 "HideDatasetActionoutput_csv": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
315 "action_arguments": {},
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
316 "action_type": "HideDatasetAction",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
317 "output_name": "output_csv"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
318 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
319 "HideDatasetActionoutput_unmatched": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
320 "action_arguments": {},
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
321 "action_type": "HideDatasetAction",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
322 "output_name": "output_unmatched"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
323 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
324 "RenameDatasetActionoutput_json": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
325 "action_arguments": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
326 "newname": "Unipept: TAXONOMY Phylogenetic Tree (Chukchi Sea)"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
327 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
328 "action_type": "RenameDatasetAction",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
329 "output_name": "output_json"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
330 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
331 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
332 "tool_errors": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
333 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/unipept/unipept/2.0.1",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
334 "tool_shed_repository": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
335 "changeset_revision": "34758ab8aaa4",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
336 "name": "unipept",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
337 "owner": "galaxyp",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
338 "tool_shed": "toolshed.g2.bx.psu.edu"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
339 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
340 "tool_state": "{\"__page__\": 0, \"outputs\": \"[\\\"tsv\\\", \\\"json\\\"]\", \"__rerun_remap_job_id__\": null, \"peptide_src\": \"{\\\"column\\\": \\\"1\\\", \\\"fmt\\\": \\\"tabular\\\", \\\"input_tsv\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}, \\\"__current_case__\\\": 1}\", \"strict\": \"\\\"false\\\"\", \"unipept\": \"{\\\"allfields\\\": \\\"false\\\", \\\"extra\\\": \\\"false\\\", \\\"api\\\": \\\"pept2lca\\\", \\\"names\\\": \\\"true\\\", \\\"__current_case__\\\": 0, \\\"equate_il\\\": \\\"true\\\"}\"}",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
341 "tool_version": "2.0.1",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
342 "type": "tool",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
343 "uuid": "a9912f29-258c-4327-9b45-67cccb557cf3",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
344 "workflow_outputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
345 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
346 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
347 "output_name": "output_tsv",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
348 "uuid": "cc2030a9-5328-445a-bc90-5ce555b57275"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
349 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
350 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
351 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
352 "output_name": "output_json",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
353 "uuid": "d1495e86-d619-4bf5-b573-b0afcb5aebbc"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
354 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
355 ]
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
356 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
357 "6": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
358 "annotation": "",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
359 "content_id": "toolshed.g2.bx.psu.edu/repos/jjohnson/query_tabular/query_tabular/2.0.0",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
360 "id": 6,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
361 "input_connections": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
362 "tables_0|table": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
363 "id": 0,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
364 "output_name": "output"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
365 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
366 "tables_1|table": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
367 "id": 4,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
368 "output_name": "output_tsv"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
369 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
370 "tables_2|table": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
371 "id": 1,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
372 "output_name": "output"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
373 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
374 "tables_3|table": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
375 "id": 5,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
376 "output_name": "output_tsv"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
377 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
378 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
379 "inputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
380 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
381 "description": "runtime parameter for tool Query Tabular",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
382 "name": "add_to_database"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
383 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
384 ],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
385 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
386 "name": "Query Tabular",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
387 "outputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
388 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
389 "name": "sqlitedb",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
390 "type": "sqlite"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
391 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
392 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
393 "name": "output",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
394 "type": "tabular"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
395 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
396 ],
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
397 "position": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
398 "left": 1342,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
399 "top": 298.5
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
400 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
401 "post_job_actions": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
402 "HideDatasetActionsqlitedb": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
403 "action_arguments": {},
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
404 "action_type": "HideDatasetAction",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
405 "output_name": "sqlitedb"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
406 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
407 "RenameDatasetActionoutput": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
408 "action_arguments": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
409 "newname": "Unipept: TAXONOMY GENUS PSMs Peptides (Bering Strait and Chukchi Sea)"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
410 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
411 "action_type": "RenameDatasetAction",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
412 "output_name": "output"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
413 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
414 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
415 "tool_errors": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
416 "tool_id": "toolshed.g2.bx.psu.edu/repos/jjohnson/query_tabular/query_tabular/2.0.0",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
417 "tool_shed_repository": {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
418 "changeset_revision": "e84d1c3bf4fe",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
419 "name": "query_tabular",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
420 "owner": "jjohnson",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
421 "tool_shed": "toolshed.g2.bx.psu.edu"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
422 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
423 "tool_state": "{\"tables\": \"[{\\\"tbl_opts\\\": {\\\"load_named_columns\\\": \\\"true\\\", \\\"pkey_autoincr\\\": \\\"\\\", \\\"table_name\\\": \\\"bering_psm\\\", \\\"col_names\\\": \\\"id,,sequence,,,,,,,,,,,,,,,,,,,,confidence,validation\\\", \\\"indexes\\\": []}, \\\"__index__\\\": 0, \\\"input_opts\\\": {\\\"linefilters\\\": [{\\\"filter\\\": {\\\"regex_action\\\": \\\"include_match\\\", \\\"regex_pattern\\\": \\\"^\\\\\\\\d\\\", \\\"__current_case__\\\": 2, \\\"filter_type\\\": \\\"regex\\\"}, \\\"__index__\\\": 0}]}, \\\"table\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}, {\\\"tbl_opts\\\": {\\\"load_named_columns\\\": \\\"true\\\", \\\"pkey_autoincr\\\": \\\"\\\", \\\"table_name\\\": \\\"bering_lca\\\", \\\"col_names\\\": \\\"peptide,,,,,,,,,,,,,,,,,,,,,genus\\\", \\\"indexes\\\": []}, \\\"__index__\\\": 1, \\\"input_opts\\\": {\\\"linefilters\\\": [{\\\"filter\\\": {\\\"comment_char\\\": \\\"#\\\", \\\"__current_case__\\\": 1, \\\"filter_type\\\": \\\"comment\\\"}, \\\"__index__\\\": 0}]}, \\\"table\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}, {\\\"tbl_opts\\\": {\\\"load_named_columns\\\": \\\"true\\\", \\\"pkey_autoincr\\\": \\\"\\\", \\\"table_name\\\": \\\"chukchi_psm\\\", \\\"col_names\\\": \\\"id,,sequence,,,,,,,,,,,,,,,,,,,,confidence,validation\\\", \\\"indexes\\\": []}, \\\"__index__\\\": 2, \\\"input_opts\\\": {\\\"linefilters\\\": [{\\\"filter\\\": {\\\"regex_action\\\": \\\"include_match\\\", \\\"regex_pattern\\\": \\\"^\\\\\\\\d\\\", \\\"__current_case__\\\": 2, \\\"filter_type\\\": \\\"regex\\\"}, \\\"__index__\\\": 0}]}, \\\"table\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}, {\\\"tbl_opts\\\": {\\\"load_named_columns\\\": \\\"true\\\", \\\"pkey_autoincr\\\": \\\"\\\", \\\"table_name\\\": \\\"chukchi_lca\\\", \\\"col_names\\\": \\\"peptide,,,,,,,,,,,,,,,,,,,,,genus\\\", \\\"indexes\\\": []}, \\\"__index__\\\": 3, \\\"input_opts\\\": {\\\"linefilters\\\": [{\\\"filter\\\": {\\\"comment_char\\\": \\\"#\\\", \\\"__current_case__\\\": 1, \\\"filter_type\\\": \\\"comment\\\"}, \\\"__index__\\\": 0}]}, \\\"table\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}]\", \"save_db\": \"\\\"true\\\"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"no_header\": \"\\\"false\\\"\", \"sqlquery\": \"\\\"SELECT taxon.genus, bering.psms as \\\\\\\"BeringStrait_PSMs\\\\\\\", chukchi.psms as \\\\\\\"ChukchiSea_PSMs\\\\\\\",\\\\nbering.peptides as \\\\\\\"BeringStrait_Peptides\\\\\\\", chukchi.peptides as \\\\\\\"ChukchiSea_Peptides\\\\\\\"\\\\nFROM\\\\n (SELECT distinct genus FROM bering_lca WHERE genus IS NOT NULL\\\\n UNION\\\\n SELECT distinct genus FROM chukchi_lca WHERE genus IS NOT NULL) as taxon\\\\n LEFT OUTER JOIN\\\\n (SELECT bering_lca.genus,count(bering_psm.sequence) as \\\\\\\"psms\\\\\\\",count(distinct bering_psm.sequence) as \\\\\\\"peptides\\\\\\\"\\\\n FROM bering_psm LEFT JOIN bering_lca ON bering_psm.sequence = bering_lca.peptide\\\\n WHERE validation IS NOT 'Confident'\\\\n AND confidence >= 95\\\\n GROUP BY bering_lca.genus ) as bering\\\\n ON taxon.genus = bering.genus\\\\n LEFT OUTER JOIN\\\\n (SELECT chukchi_lca.genus,count(chukchi_psm.sequence) as \\\\\\\"psms\\\\\\\",count(distinct chukchi_psm.sequence) as \\\\\\\"peptides\\\\\\\"\\\\n FROM chukchi_psm LEFT JOIN chukchi_lca ON chukchi_psm.sequence = chukchi_lca.peptide\\\\n WHERE validation IS NOT 'Confident'\\\\n AND confidence >= 95\\\\n GROUP BY chukchi_lca.genus) as chukchi\\\\n ON taxon.genus = chukchi.genus\\\\nWHERE bering.psms IS NOT NULL OR chukchi.psms IS NOT NULL\\\\nORDER BY taxon.genus\\\\n\\\"\", \"add_to_database\": \"{\\\"withdb\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}\", \"workdb\": \"\\\"workdb.sqlite\\\"\"}",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
424 "tool_version": "2.0.0",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
425 "type": "tool",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
426 "uuid": "c8b14d06-f3a3-46db-b3c6-01f5c50bc16e",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
427 "workflow_outputs": [
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
428 {
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
429 "label": null,
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
430 "output_name": "output",
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
431 "uuid": "ea8853c6-d1e2-4c04-a795-4b1af5e50ff4"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
432 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
433 ]
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
434 }
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
435 },
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
436 "uuid": "8fac309b-4ea6-4c20-9e40-651b2346b3e8"
eb71034189fb planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
galaxyp
parents:
diff changeset
437 }