Skip to content
Open
Show file tree
Hide file tree
Changes from all commits
Commits
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
5 changes: 5 additions & 0 deletions workflows/metabolomics/gcms-metams/CHANGELOG.md
Original file line number Diff line number Diff line change
@@ -1,5 +1,10 @@
# Changelog

## [0.3] - 2026-07-06

### Automatic update
- `toolshed.g2.bx.psu.edu/repos/ethevenot/checkformat/checkFormat/3.0.0` was updated to `toolshed.g2.bx.psu.edu/repos/ethevenot/checkformat/checkFormat/4.0.0+galaxy0`

## [0.2] - 2025-05-05

### Automatic update
Expand Down
Original file line number Diff line number Diff line change
Expand Up @@ -34,7 +34,7 @@
"top": 101
},
"tool_id": null,
"tool_state": "{\"optional\": false, \"tag\": null, \"collection_type\": \"list\"}",
"tool_state": "{\"optional\": false, \"tag\": null, \"collection_type\": \"list\", \"fields\": null, \"column_definitions\": null}",
"tool_version": null,
"type": "data_collection_input",
"uuid": "27aea272-13ef-4ab2-81ef-329830985fe0",
Expand Down Expand Up @@ -101,6 +101,7 @@
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"input\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_uuid": null,
"tool_version": "2.16.1+galaxy3",
"type": "tool",
"uuid": "60192f76-c4a8-4505-a24e-e730fe87694e",
Expand Down Expand Up @@ -148,6 +149,7 @@
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"file_load_section\": {\"file_load_conditional\": {\"file_load_select\": \"no\", \"__current_case__\": 0}}, \"filterSection\": {\"filterAcquisitionNum\": \"\", \"filterRt\": \"\", \"filterMz\": \"\"}, \"image\": {\"__class__\": \"ConnectedValue\"}, \"methods\": {\"method\": \"MatchedFilter\", \"__current_case__\": 1, \"fwhm\": \"5\", \"binSize\": \"0.5\", \"MatchedFilterAdv\": {\"impute_cond\": {\"impute\": \"none\", \"__current_case__\": 0}, \"sigma\": null, \"max\": \"500\", \"snthresh\": \"2\", \"steps\": \"2\", \"mzdiff\": \"0.5\", \"peaklist\": false}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_uuid": null,
"tool_version": "3.12.0+galaxy3",
"type": "tool",
"uuid": "117244c7-a9b0-4143-bfba-48c6cca56ee5",
Expand Down Expand Up @@ -195,6 +197,7 @@
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"__input_ext\": \"rdata.xcms.findchrompeaks\", \"chromInfo\": \"/shared/ifbstor1/galaxy/mutable-config/tool-data/shared/ucsc/chrom/?.len\", \"file_load_section\": {\"file_load_conditional\": {\"file_load_select\": \"no\", \"__current_case__\": 0}}, \"images\": {\"__class__\": \"ConnectedValue\"}, \"sampleMetadata\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_uuid": null,
"tool_version": "3.12.0+galaxy3",
"type": "tool",
"uuid": "a5e5e89e-4521-49b4-9554-1004cefb3842",
Expand Down Expand Up @@ -249,6 +252,7 @@
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"__input_ext\": \"rdata.xcms.findchrompeaks\", \"chromInfo\": \"/shared/ifbstor1/galaxy/mutable-config/tool-data/shared/ucsc/chrom/?.len\", \"file_load_section\": {\"file_load_conditional\": {\"file_load_select\": \"no\", \"__current_case__\": 0}}, \"images\": {\"__class__\": \"ConnectedValue\"}, \"sampleMetadata\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_uuid": null,
"tool_version": "3.12.0+galaxy3",
"type": "tool",
"uuid": "cb2b0664-f992-4e0b-8a40-58c83a0e47f9",
Expand Down Expand Up @@ -308,6 +312,7 @@
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"input\": {\"__class__\": \"ConnectedValue\"}, \"options_rifilter\": {\"option\": \"false\", \"__current_case__\": 1}, \"settings\": {\"setting\": \"usersettings\", \"__current_case__\": 1, \"options_rtrange\": {\"option\": \"hide\", \"__current_case__\": 1}, \"rtdiff\": \"0.05\", \"minfeat\": \"5\", \"simthreshold\": \"0.7\", \"minclassfraction\": \"0.5\", \"minclasssize\": \"3\", \"options_db\": {\"option\": \"hide\", \"__current_case__\": 1}, \"options_ri\": {\"option\": \"hide\", \"__current_case__\": 1}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_uuid": null,
"tool_version": "3.0.0+metaMS1.24.0-galaxy0",
"type": "tool",
"uuid": "4f636be8-c31f-474e-8c47-8fd644710863",
Expand All @@ -327,7 +332,7 @@
},
"7": {
"annotation": "",
"content_id": "toolshed.g2.bx.psu.edu/repos/ethevenot/checkformat/checkFormat/3.0.0",
"content_id": "toolshed.g2.bx.psu.edu/repos/ethevenot/checkformat/checkFormat/4.0.0+galaxy0",
"errors": null,
"id": 7,
"input_connections": {
Expand Down Expand Up @@ -370,15 +375,16 @@
"top": 281
},
"post_job_actions": {},
"tool_id": "toolshed.g2.bx.psu.edu/repos/ethevenot/checkformat/checkFormat/3.0.0",
"tool_id": "toolshed.g2.bx.psu.edu/repos/ethevenot/checkformat/checkFormat/4.0.0+galaxy0",
"tool_shed_repository": {
"changeset_revision": "e7c5811ec12f",
"changeset_revision": "f19a3307db9b",
"name": "checkformat",
"owner": "ethevenot",
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"dataMatrix_in\": {\"__class__\": \"ConnectedValue\"}, \"makeNameL\": \"FALSE\", \"sampleMetadata_in\": {\"__class__\": \"ConnectedValue\"}, \"variableMetadata_in\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "3.0.0",
"tool_uuid": null,
"tool_version": "4.0.0+galaxy0",
"type": "tool",
"uuid": "a3701788-b7fd-4eb9-adf1-d3834a935567",
"when": null,
Expand Down Expand Up @@ -437,6 +443,7 @@
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"advCpt\": {\"opcC\": \"full\", \"__current_case__\": 1, \"scaleC\": \"standard\", \"permI\": \"20\", \"log10L\": \"FALSE\", \"algoC\": \"default\", \"crossvalI\": \"3\"}, \"advGph\": {\"opgC\": \"full\", \"__current_case__\": 1, \"typeC\": \"summary\", \"parMahalC\": \"NA\", \"parAsColC\": \"class\", \"parLabVc\": \"none\", \"parPc1I\": \"1\", \"parPc2I\": \"2\", \"parCexN\": \"0.8\"}, \"dataMatrix_in\": {\"__class__\": \"ConnectedValue\"}, \"orthoI\": \"0\", \"predI\": \"NA\", \"respC\": \"none\", \"sampleMetadata_in\": {\"__class__\": \"ConnectedValue\"}, \"save_rdata\": false, \"testL\": \"FALSE\", \"variableMetadata_in\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_uuid": null,
"tool_version": "2.3.10",
"type": "tool",
"uuid": "52e89249-a543-441c-8da6-60b7e40178b2",
Expand All @@ -463,7 +470,7 @@
"GTN",
"metaMS"
],
"uuid": "7abd10fb-d083-4732-b11f-56581e23905d",
"uuid": "aad5b57f-a526-4f3f-910a-c9ee9bb92839",
"version": 1,
"release": "0.2"
"release": "0.3"
}
Loading