Skip to content

Updating workflows/genome_annotation/functional-annotation/functional-annotation-of-sequences from 0.2 to 0.3 #1193

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Open
gxydevbot wants to merge 1 commit into
base: main
Choose a base branch
from
Open

Updating workflows/genome_annotation/functional-annotation/functional-annotation-of-sequences from 0.2 to 0.3 #1193

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
7 changes: 7 additions & 0 deletions ...nnotation/functional-annotation/functional-annotation-of-sequences/CHANGELOG.md
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,5 +1,12 @@
# Changelog

## [0.4] - 2026-04-20

### Automatic update
- `toolshed.g2.bx.psu.edu/repos/iuc/collection_element_identifiers/collection_element_identifiers/0.0.2` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/collection_element_identifiers/collection_element_identifiers/0.0.3`
- `toolshed.g2.bx.psu.edu/repos/bgruening/interproscan/interproscan/5.59-91.0+galaxy3` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/interproscan/interproscan/1.2`
- `toolshed.g2.bx.psu.edu/repos/iuc/kegg_pathways_completeness/kegg_pathways_completeness/1.3.0+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/kegg_pathways_completeness/kegg_pathways_completeness/1.4.3+galaxy0`

## [0.3] - 2026-03-27

- Set a parameter from Add toolshed.g2.bx.psu.edu/repos/iuc/kegg_pathways_completeness/kegg_pathways_completeness/1.3.0+galaxy0 to true to have a second and more detailed per contig output
Expand Down
36 changes: 14 additions & 22 deletions ...ional-annotation/functional-annotation-of-sequences/Functional_annotation_of_sequences.ga
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -39,7 +39,6 @@
],
"format-version": "0.1",
"license": "MIT",
"release": "0.3",
"name": "Functional annotation of sequences",
"report": {
"markdown": "\n# Workflow Execution Report\n\n## Workflow Inputs\n```galaxy\ninvocation_inputs()\n```\n\n## Workflow Outputs\n```galaxy\ninvocation_outputs()\n```\n\n## Workflow\n```galaxy\nworkflow_display()\n```\n"
Expand Down Expand Up @@ -797,7 +796,7 @@
}
},
"tags": [],
"uuid": "e109aec1-e620-4101-ba74-97c00a7b2159"
"uuid": "a5a7dc54-b22a-40ab-b167-b849b85f79d8"
},
"tool_id": null,
"type": "subworkflow",
Expand All @@ -807,7 +806,7 @@
},
"6": {
"annotation": "",
"content_id": "toolshed.g2.bx.psu.edu/repos/iuc/collection_element_identifiers/collection_element_identifiers/0.0.2",
"content_id": "toolshed.g2.bx.psu.edu/repos/iuc/collection_element_identifiers/collection_element_identifiers/0.0.3",
"errors": null,
"id": 6,
"input_connections": {
Expand Down Expand Up @@ -838,16 +837,16 @@
"output_name": "output"
}
},
"tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/collection_element_identifiers/collection_element_identifiers/0.0.2",
"tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/collection_element_identifiers/collection_element_identifiers/0.0.3",
"tool_shed_repository": {
"changeset_revision": "d3c07d270a50",
"changeset_revision": "3e27acfa4830",
"name": "collection_element_identifiers",
"owner": "iuc",
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"input_collection\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": 0, \"__rerun_remap_job_id__\": null}",
"tool_uuid": null,
"tool_version": "0.0.2",
"tool_version": "0.0.3",
"type": "tool",
"uuid": "53019ea6-e2ff-449d-9d21-75425a4bc29c",
"when": null,
Expand Down Expand Up @@ -1210,7 +1209,7 @@
},
"15": {
"annotation": "",
"content_id": "toolshed.g2.bx.psu.edu/repos/iuc/kegg_pathways_completeness/kegg_pathways_completeness/1.3.0+galaxy0",
"content_id": "toolshed.g2.bx.psu.edu/repos/iuc/kegg_pathways_completeness/kegg_pathways_completeness/1.4.3+galaxy0",
"errors": null,
"id": 15,
"input_connections": {
Expand All @@ -1230,15 +1229,7 @@
},
{
"description": "runtime parameter for tool Calculate KEGG Pathways completeness",
"name": "usr_ref_files"
},
{
"description": "runtime parameter for tool Calculate KEGG Pathways completeness",
"name": "usr_ref_files"
},
{
"description": "runtime parameter for tool Calculate KEGG Pathways completeness",
"name": "usr_ref_files"
"name": "t"
}
],
"label": null,
Expand Down Expand Up @@ -1273,16 +1264,16 @@
"output_name": "kegg_pathways_table"
}
},
"tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/kegg_pathways_completeness/kegg_pathways_completeness/1.3.0+galaxy0",
"tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/kegg_pathways_completeness/kegg_pathways_completeness/1.4.3+galaxy0",
"tool_shed_repository": {
"changeset_revision": "9933e2f91584",
"changeset_revision": "78990897aa94",
"name": "kegg_pathways_completeness",
"owner": "iuc",
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"input_type\": {\"select_input_type\": \"input_file\", \"__current_case__\": 0, \"i\": {\"__class__\": \"ConnectedValue\"}, \"m\": true}, \"p\": false, \"usr_ref_files\": {\"definitions\": {\"__class__\": \"RuntimeValue\"}, \"names\": {\"__class__\": \"RuntimeValue\"}, \"classes\": {\"__class__\": \"RuntimeValue\"}}, \"w\": false, \"__page__\": 0, \"__rerun_remap_job_id__\": null}",
"tool_state": "{\"input_type\": {\"select_input_type\": \"input_file\", \"__current_case__\": 0, \"i\": {\"__class__\": \"ConnectedValue\"}, \"m\": true}, \"p\": false, \"t\": {\"__class__\": \"RuntimeValue\"}, \"usr_ref_files\": {\"classes\": {\"__class__\": \"RuntimeValue\"}, \"definitions\": {\"__class__\": \"RuntimeValue\"}, \"names\": {\"__class__\": \"RuntimeValue\"}}, \"w\": false, \"__page__\": 0, \"__rerun_remap_job_id__\": null}",
"tool_uuid": null,
"tool_version": "1.3.0+galaxy0",
"tool_version": "1.4.3+galaxy0",
"type": "tool",
"uuid": "1dd5a227-60ed-48ca-b5e3-ea3914d3f2b5",
"when": "$(inputs.when)",
Expand All @@ -1301,6 +1292,7 @@
}
},
"tags": [],
"uuid": "e1e6ce2d-d7c5-45a6-93eb-d730768f7c06",
"version": 1
"uuid": "005f5d67-79e0-4385-bbbc-cbc84ef88160",
"version": 1,
"release": "0.4"
}
Loading