Mercurial > repos > tduigou > basic_assembly_workflow
view BASIC_Assembly_Workflow.ga @ 0:7d42adefc60a draft default tip
"planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
author | tduigou |
---|---|
date | Wed, 15 Dec 2021 15:59:19 +0000 |
parents | |
children |
line wrap: on
line source
{ "a_galaxy_workflow": "true", "annotation": "", "format-version": "0.1", "name": "BASIC_Assembly_Workflow", "steps": { "0": { "annotation": "", "content_id": null, "errors": null, "id": 0, "input_connections": {}, "inputs": [ { "description": "", "name": "SBML pathways" } ], "label": "SBML pathways", "name": "Input dataset", "outputs": [], "position": { "bottom": 335.8000030517578, "height": 61.80000305175781, "left": -118.5, "right": 81.5, "top": 274, "width": 200, "x": -118.5, "y": 274 }, "tool_id": null, "tool_state": "{\"optional\": false}", "tool_version": null, "type": "data_input", "uuid": "274db529-8d38-4f2b-84ce-8bc14e5fc35e", "workflow_outputs": [ { "label": null, "output_name": "output", "uuid": "0058aece-8f90-4470-ba24-ba9cf7a08fdc" } ] }, "1": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/tduigou/selenzy/selenzy-wrapper/0.1.0", "errors": null, "id": 1, "input_connections": { "pathway": { "id": 0, "output_name": "output" } }, "inputs": [], "label": null, "name": "Selenzyme", "outputs": [ { "name": "uniprot_ids", "type": "xml" }, { "name": "uniprot_ids_csv", "type": "csv" } ], "position": { "bottom": 464.6000061035156, "height": 123.60000610351562, "left": 117.5, "right": 317.5, "top": 341, "width": 200, "x": 117.5, "y": 341 }, "post_job_actions": {}, "tool_id": "toolshed.g2.bx.psu.edu/repos/tduigou/selenzy/selenzy-wrapper/0.1.0", "tool_shed_repository": { "changeset_revision": "481f7c35323d", "name": "selenzy", "owner": "tduigou", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"adv\": {\"nb_ids\": \"-1\", \"nb_targets\": \"500\", \"direction\": \"0.0\", \"NoMSA\": \"true\", \"taxonIDs\": \"83333\"}, \"pathway\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "0.1.0", "type": "tool", "uuid": "b8f4e97e-a3e1-4743-80bf-29b3bf2c41eb", "workflow_outputs": [ { "label": "Uniprot IDs", "output_name": "uniprot_ids", "uuid": "93661860-776f-4cb8-baa7-eda965d2c194" }, { "label": "Uniprot IDs", "output_name": "uniprot_ids_csv", "uuid": "a62113ab-6728-48d5-acb4-14bc2bc6795d" } ] }, "2": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/tduigou/rpbasicdesign/rpbasicdesign/0.3.4", "errors": null, "id": 2, "input_connections": { "rpsbml_file": { "id": 1, "output_name": "uniprot_ids" } }, "inputs": [ { "description": "runtime parameter for tool BasicDesign", "name": "adv" }, { "description": "runtime parameter for tool BasicDesign", "name": "rpsbml_file" } ], "label": null, "name": "BasicDesign", "outputs": [ { "name": "sbol_dir", "type": "input" }, { "name": "Constructs", "type": "csv" }, { "name": "User parts plate", "type": "csv" }, { "name": "Biolegio plate", "type": "csv" } ], "position": { "bottom": 583.8000030517578, "height": 214.8000030517578, "left": 386, "right": 586, "top": 369, "width": 200, "x": 386, "y": 369 }, "post_job_actions": {}, "tool_id": "toolshed.g2.bx.psu.edu/repos/tduigou/rpbasicdesign/rpbasicdesign/0.3.4", "tool_shed_repository": { "changeset_revision": "de9f53630349", "name": "rpbasicdesign", "owner": "tduigou", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"adv\": {\"parts_files\": {\"__class__\": \"RuntimeValue\"}, \"lms_id\": \"LMS\", \"lmp_id\": \"LMP\", \"cds_permutation\": \"true\"}, \"backbone_id\": \"BASIC_SEVA_37_CmR-p15A.1\", \"rpsbml_file\": {\"__class__\": \"RuntimeValue\"}, \"sample_size\": \"88\", \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "0.3.4", "type": "tool", "uuid": "678a53d3-1241-4f82-8d40-3da99f2be890", "workflow_outputs": [ { "label": null, "output_name": "Biolegio plate", "uuid": "a34be5bd-9da4-461c-bec5-1c4dc5a8c18f" }, { "label": null, "output_name": "sbol_dir", "uuid": "469241a2-0ecb-42f5-bcea-53aca636bb46" }, { "label": null, "output_name": "Constructs", "uuid": "8755e80f-1ebe-4210-b0df-8acf8218a62c" }, { "label": null, "output_name": "User parts plate", "uuid": "ff9e10e0-bfd3-4d0f-98f1-87fd94771293" } ] }, "3": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/tduigou/dnabot/dnabot/3.0.0", "errors": null, "id": 3, "input_connections": { "construct_file": { "id": 2, "output_name": "Constructs" }, "plate_files": [ { "id": 2, "output_name": "User parts plate" }, { "id": 2, "output_name": "Biolegio plate" } ] }, "inputs": [ { "description": "runtime parameter for tool DNA-Bot", "name": "adv" } ], "label": null, "name": "DNA-Bot", "outputs": [ { "name": "dnabot_scripts", "type": "tar" } ], "position": { "bottom": 644.8000030517578, "height": 194.8000030517578, "left": 641.5, "right": 841.5, "top": 450, "width": 200, "x": 641.5, "y": 450 }, "post_job_actions": {}, "tool_id": "toolshed.g2.bx.psu.edu/repos/tduigou/dnabot/dnabot/3.0.0", "tool_shed_repository": { "changeset_revision": "6d55c77a17ab", "name": "dnabot", "owner": "tduigou", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"adv\": {\"default_settings_file\": {\"__class__\": \"RuntimeValue\"}, \"etoh_well\": \"A11\", \"soc_column\": \"1\"}, \"construct_file\": {\"__class__\": \"ConnectedValue\"}, \"plate_files\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "3.0.0", "type": "tool", "uuid": "d5a18d74-8189-48d7-83ca-a63f6f8e1d39", "workflow_outputs": [ { "label": "DNA-Bot scripts", "output_name": "dnabot_scripts", "uuid": "e0eabfa3-2dbd-44bc-9471-f8589a1a1861" } ] } }, "tags": [], "uuid": "64390e96-9d57-441a-81cf-7544414ea50c", "version": 4 }