Skip to content
Snippets Groups Projects
Commit ef439df0 authored by Arthur Le Bars's avatar Arthur Le Bars
Browse files

Interproscan workflow WIP

parent 5cdc9275
No related branches found
No related tags found
2 merge requests!20Release 2.1,!18Release v2.1.0
This diff is collapsed.
{
"a_galaxy_workflow": "true",
"annotation": "",
"format-version": "0.1",
"name": "load_inteproscan_1org1_v1",
"steps": {
"0": {
"annotation": "",
"content_id": null,
"errors": null,
"id": 0,
"input_connections": {},
"inputs": [
{
"description": "",
"name": "inteproscan file org1"
}
],
"label": "inteproscan file org1",
"name": "Input dataset",
"outputs": [],
"position": {
"bottom": 319.1999969482422,
"height": 82.19999694824219,
"left": 287,
"right": 487,
"top": 237,
"width": 200,
"x": 287,
"y": 237
},
"tool_id": null,
"tool_state": "{\"optional\": false}",
"tool_version": null,
"type": "data_input",
"uuid": "3b13466d-1b81-475a-b652-183ed9d24bfa",
"workflow_outputs": [
{
"label": null,
"output_name": "output",
"uuid": "aff82f29-1971-4283-bfe8-cdab4857a215"
}
]
},
"1": {
"annotation": "",
"content_id": "toolshed.g2.bx.psu.edu/repos/gga/chado_load_interpro/load_interpro/2.3.6+galaxy0",
"errors": null,
"id": 1,
"input_connections": {
"input": {
"id": 0,
"output_name": "output"
}
},
"inputs": [
{
"description": "runtime parameter for tool Chado load InterProScan results",
"name": "analysis_id"
},
{
"description": "runtime parameter for tool Chado load InterProScan results",
"name": "input"
},
{
"description": "runtime parameter for tool Chado load InterProScan results",
"name": "organism_id"
},
{
"description": "runtime parameter for tool Chado load InterProScan results",
"name": "wait_for"
}
],
"label": "interproscan load org 1",
"name": "Chado load InterProScan results",
"outputs": [
{
"name": "results",
"type": "json"
}
],
"position": {
"bottom": 371.3999938964844,
"height": 164.39999389648438,
"left": 595,
"right": 795,
"top": 207,
"width": 200,
"x": 595,
"y": 207
},
"post_job_actions": {},
"tool_id": "toolshed.g2.bx.psu.edu/repos/gga/chado_load_interpro/load_interpro/2.3.6+galaxy0",
"tool_shed_repository": {
"changeset_revision": "1e54f2717e74",
"name": "chado_load_interpro",
"owner": "gga",
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"analysis_id\": {\"__class__\": \"RuntimeValue\"}, \"input\": {\"__class__\": \"RuntimeValue\"}, \"match_on_name\": \"false\", \"organism_id\": {\"__class__\": \"RuntimeValue\"}, \"parse_go\": \"false\", \"psql_target\": {\"method\": \"remote\", \"__current_case__\": 0}, \"query_type\": \"polypeptide\", \"re_name\": \"\", \"skip_missing\": \"false\", \"wait_for\": {\"__class__\": \"RuntimeValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "2.3.6+galaxy0",
"type": "tool",
"uuid": "a084abdc-a0f4-4670-a486-4aed4e0f61fa",
"workflow_outputs": [
{
"label": null,
"output_name": "results",
"uuid": "dbaab44d-1494-4fbe-bd15-455f7cbf7307"
}
]
},
"2": {
"annotation": "",
"content_id": "toolshed.g2.bx.psu.edu/repos/gga/tripal_db_populate_mviews/db_populate_mviews/3.2.1.0",
"errors": null,
"id": 2,
"input_connections": {
"wait_for": {
"id": 1,
"output_name": "results"
}
},
"inputs": [],
"label": null,
"name": "Populate materialized views",
"outputs": [
{
"name": "results",
"type": "txt"
}
],
"position": {
"bottom": 360.3999938964844,
"height": 154.39999389648438,
"left": 876,
"right": 1076,
"top": 206,
"width": 200,
"x": 876,
"y": 206
},
"post_job_actions": {},
"tool_id": "toolshed.g2.bx.psu.edu/repos/gga/tripal_db_populate_mviews/db_populate_mviews/3.2.1.0",
"tool_shed_repository": {
"changeset_revision": "3c08f32a3dc1",
"name": "tripal_db_populate_mviews",
"owner": "gga",
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"mview\": \"\", \"wait_for\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "3.2.1.0",
"type": "tool",
"uuid": "2acbe412-1318-46e8-a178-72f50df36a07",
"workflow_outputs": [
{
"label": "Populate Tripal materialized view(s)",
"output_name": "results",
"uuid": "08a4eec2-b95a-4c75-8116-b0fc9477812f"
}
]
},
"3": {
"annotation": "",
"content_id": "toolshed.g2.bx.psu.edu/repos/gga/tripal_db_index/db_index/3.2.1.1",
"errors": null,
"id": 3,
"input_connections": {
"wait_for": {
"id": 2,
"output_name": "results"
}
},
"inputs": [],
"label": null,
"name": "Index Tripal data",
"outputs": [
{
"name": "results",
"type": "txt"
}
],
"position": {
"bottom": 340.6000061035156,
"height": 113.60000610351562,
"left": 1150,
"right": 1350,
"top": 227,
"width": 200,
"x": 1150,
"y": 227
},
"post_job_actions": {},
"tool_id": "toolshed.g2.bx.psu.edu/repos/gga/tripal_db_index/db_index/3.2.1.1",
"tool_shed_repository": {
"changeset_revision": "d55a39f12dda",
"name": "tripal_db_index",
"owner": "gga",
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"expose\": {\"do_expose\": \"no\", \"__current_case__\": 0}, \"queues\": \"10\", \"table\": {\"mode\": \"website\", \"__current_case__\": 0}, \"tokenizer\": \"standard\", \"wait_for\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "3.2.1.1",
"type": "tool",
"uuid": "42d782ff-9e6b-49d8-bd17-37dc67f31a18",
"workflow_outputs": [
{
"label": "Index Tripal data",
"output_name": "results",
"uuid": "8b38b48f-5d4e-49e6-ad70-748ad64dc901"
}
]
}
},
"tags": [],
"uuid": "9912daac-c00e-4d5e-a93e-a747bd1b3499",
"version": 3
}
\ No newline at end of file
{
"a_galaxy_workflow": "true",
"annotation": "",
"format-version": "0.1",
"name": "load_interproscan_2org_v1",
"steps": {
"0": {
"annotation": "",
"content_id": null,
"errors": null,
"id": 0,
"input_connections": {},
"inputs": [
{
"description": "",
"name": "interproscan file org 1"
}
],
"label": "interproscan file org 1",
"name": "Input dataset",
"outputs": [],
"position": {
"bottom": 350.1999969482422,
"height": 82.19999694824219,
"left": 414,
"right": 614,
"top": 268,
"width": 200,
"x": 414,
"y": 268
},
"tool_id": null,
"tool_state": "{\"optional\": false}",
"tool_version": null,
"type": "data_input",
"uuid": "bfce9a38-df8a-46ef-af2e-390a4982ebfc",
"workflow_outputs": [
{
"label": null,
"output_name": "output",
"uuid": "d5d96afa-8dcc-4322-89fa-df56fd503d89"
}
]
},
"1": {
"annotation": "",
"content_id": null,
"errors": null,
"id": 1,
"input_connections": {},
"inputs": [
{
"description": "",
"name": "interproscan file org 2"
}
],
"label": "interproscan file org 2",
"name": "Input dataset",
"outputs": [],
"position": {
"bottom": 451.1999969482422,
"height": 82.19999694824219,
"left": 437,
"right": 637,
"top": 369,
"width": 200,
"x": 437,
"y": 369
},
"tool_id": null,
"tool_state": "{\"optional\": false}",
"tool_version": null,
"type": "data_input",
"uuid": "45f57c7f-f08c-4b3b-879d-1acd246868fb",
"workflow_outputs": [
{
"label": null,
"output_name": "output",
"uuid": "f5e4ae10-fdbf-47e9-99d8-0644bf8bb46f"
}
]
},
"2": {
"annotation": "",
"content_id": "toolshed.g2.bx.psu.edu/repos/gga/chado_load_interpro/load_interpro/2.3.6+galaxy0",
"errors": null,
"id": 2,
"input_connections": {
"input": {
"id": 0,
"output_name": "output"
}
},
"inputs": [
{
"description": "runtime parameter for tool Chado load InterProScan results",
"name": "analysis_id"
},
{
"description": "runtime parameter for tool Chado load InterProScan results",
"name": "input"
},
{
"description": "runtime parameter for tool Chado load InterProScan results",
"name": "organism_id"
},
{
"description": "runtime parameter for tool Chado load InterProScan results",
"name": "wait_for"
}
],
"label": "inteproscan load org 1",
"name": "Chado load InterProScan results",
"outputs": [
{
"name": "results",
"type": "json"
}
],
"position": {
"bottom": 365.3999938964844,
"height": 164.39999389648438,
"left": 790,
"right": 990,
"top": 201,
"width": 200,
"x": 790,
"y": 201
},
"post_job_actions": {},
"tool_id": "toolshed.g2.bx.psu.edu/repos/gga/chado_load_interpro/load_interpro/2.3.6+galaxy0",
"tool_shed_repository": {
"changeset_revision": "1e54f2717e74",
"name": "chado_load_interpro",
"owner": "gga",
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"analysis_id\": {\"__class__\": \"RuntimeValue\"}, \"input\": {\"__class__\": \"RuntimeValue\"}, \"match_on_name\": \"false\", \"organism_id\": {\"__class__\": \"RuntimeValue\"}, \"parse_go\": \"false\", \"psql_target\": {\"method\": \"remote\", \"__current_case__\": 0}, \"query_type\": \"polypeptide\", \"re_name\": \"\", \"skip_missing\": \"false\", \"wait_for\": {\"__class__\": \"RuntimeValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "2.3.6+galaxy0",
"type": "tool",
"uuid": "e6c509b4-ea16-4fda-b171-3dc781a54759",
"workflow_outputs": [
{
"label": null,
"output_name": "results",
"uuid": "bfff8893-5c92-45a0-88ca-594b33a8b4e2"
}
]
},
"3": {
"annotation": "",
"content_id": "toolshed.g2.bx.psu.edu/repos/gga/chado_load_interpro/load_interpro/2.3.6+galaxy0",
"errors": null,
"id": 3,
"input_connections": {
"input": {
"id": 1,
"output_name": "output"
},
"wait_for": {
"id": 2,
"output_name": "results"
}
},
"inputs": [
{
"description": "runtime parameter for tool Chado load InterProScan results",
"name": "analysis_id"
},
{
"description": "runtime parameter for tool Chado load InterProScan results",
"name": "input"
},
{
"description": "runtime parameter for tool Chado load InterProScan results",
"name": "organism_id"
},
{
"description": "runtime parameter for tool Chado load InterProScan results",
"name": "wait_for"
}
],
"label": "interproscan load org 2",
"name": "Chado load InterProScan results",
"outputs": [
{
"name": "results",
"type": "json"
}
],
"position": {
"bottom": 555.3999938964844,
"height": 164.39999389648438,
"left": 819,
"right": 1019,
"top": 391,
"width": 200,
"x": 819,
"y": 391
},
"post_job_actions": {},
"tool_id": "toolshed.g2.bx.psu.edu/repos/gga/chado_load_interpro/load_interpro/2.3.6+galaxy0",
"tool_shed_repository": {
"changeset_revision": "1e54f2717e74",
"name": "chado_load_interpro",
"owner": "gga",
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"analysis_id\": {\"__class__\": \"RuntimeValue\"}, \"input\": {\"__class__\": \"RuntimeValue\"}, \"match_on_name\": \"false\", \"organism_id\": {\"__class__\": \"RuntimeValue\"}, \"parse_go\": \"false\", \"psql_target\": {\"method\": \"remote\", \"__current_case__\": 0}, \"query_type\": \"polypeptide\", \"re_name\": \"\", \"skip_missing\": \"false\", \"wait_for\": {\"__class__\": \"RuntimeValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "2.3.6+galaxy0",
"type": "tool",
"uuid": "1832aceb-851c-4020-9c07-8193e8b2299a",
"workflow_outputs": [
{
"label": null,
"output_name": "results",
"uuid": "be9f442f-7f19-4b84-94cf-9c2c28d9a6a5"
}
]
},
"4": {
"annotation": "",
"content_id": "toolshed.g2.bx.psu.edu/repos/gga/tripal_db_populate_mviews/db_populate_mviews/3.2.1.0",
"errors": null,
"id": 4,
"input_connections": {
"wait_for": {
"id": 3,
"output_name": "results"
}
},
"inputs": [
{
"description": "runtime parameter for tool Populate materialized views",
"name": "wait_for"
}
],
"label": null,
"name": "Populate materialized views",
"outputs": [
{
"name": "results",
"type": "txt"
}
],
"position": {
"bottom": 459.3999938964844,
"height": 154.39999389648438,
"left": 1118,
"right": 1318,
"top": 305,
"width": 200,
"x": 1118,
"y": 305
},
"post_job_actions": {},
"tool_id": "toolshed.g2.bx.psu.edu/repos/gga/tripal_db_populate_mviews/db_populate_mviews/3.2.1.0",
"tool_shed_repository": {
"changeset_revision": "3c08f32a3dc1",
"name": "tripal_db_populate_mviews",
"owner": "gga",
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"mview\": \"\", \"wait_for\": {\"__class__\": \"RuntimeValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "3.2.1.0",
"type": "tool",
"uuid": "a819f33b-e566-43e5-a467-e3410ce431ec",
"workflow_outputs": [
{
"label": "Populate Tripal materialized view(s)",
"output_name": "results",
"uuid": "96483655-995e-4d4e-b8c6-7f602c974ee3"
}
]
},
"5": {
"annotation": "",
"content_id": "toolshed.g2.bx.psu.edu/repos/gga/tripal_db_index/db_index/3.2.1.1",
"errors": null,
"id": 5,
"input_connections": {
"wait_for": {
"id": 4,
"output_name": "results"
}
},
"inputs": [
{
"description": "runtime parameter for tool Index Tripal data",
"name": "wait_for"
}
],
"label": null,
"name": "Index Tripal data",
"outputs": [
{
"name": "results",
"type": "txt"
}
],
"position": {
"bottom": 442.6000061035156,
"height": 113.60000610351562,
"left": 1382,
"right": 1582,
"top": 329,
"width": 200,
"x": 1382,
"y": 329
},
"post_job_actions": {},
"tool_id": "toolshed.g2.bx.psu.edu/repos/gga/tripal_db_index/db_index/3.2.1.1",
"tool_shed_repository": {
"changeset_revision": "d55a39f12dda",
"name": "tripal_db_index",
"owner": "gga",
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"expose\": {\"do_expose\": \"no\", \"__current_case__\": 0}, \"queues\": \"10\", \"table\": {\"mode\": \"website\", \"__current_case__\": 0}, \"tokenizer\": \"standard\", \"wait_for\": {\"__class__\": \"RuntimeValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "3.2.1.1",
"type": "tool",
"uuid": "489483da-c7c7-49a5-b5d4-353db41b1240",
"workflow_outputs": [
{
"label": "Index Tripal data",
"output_name": "results",
"uuid": "3df4fd46-5dd9-49d6-b0d2-24425d9ba91e"
}
]
}
},
"tags": [],
"uuid": "ac96d70e-60b6-4455-8d14-9219d0674950",
"version": 1
}
\ No newline at end of file
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment