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galaxyproject / galaxy Public

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Add User-Defined Tools#19434

Merged

jmchilton merged 88 commits into

galaxyproject:devgalaxyproject/galaxy:devfrom

mvdbeek:user_defined_toolsmvdbeek/galaxy:user_defined_toolsCopy head branch name to clipboard

May 12, 2025

Conversation Commits88 (88)Checks Files changed

Merged

Add User-Defined Tools#19434
jmchilton merged 88 commits into
galaxyproject:devfrom
mvdbeek:user_defined_tools

Commits

Commits on May 12, 2025

Add an experimental non-cheetah way of building command lines
mvdbeek
committed
Create UserToolSource pydantic model
mvdbeek
committed
Minor fix to restore admin-style dynamic tools
mvdbeek
committed
Add user_tool role types
mvdbeek
committed
Add unprivileged tools endpoint and models
mvdbeek
committed
Add user_dynamic_tool_association migration
mvdbeek
committed
Add separate unprivileged tools endpoint
mvdbeek
committed
Test tool run
mvdbeek
committed
Bypass global toolbox for unprivileged tools
mvdbeek
committed
Refactor InvocationScrollList to generic ScrollList + Invocation specific component
mvdbeek
committed
Return unprivileged tool api return types
mvdbeek
committed
Enable access to dynamic tools via toolbox.get_tool
mvdbeek
committed
YamlToolSource parser fixes
mvdbeek
committed
Add UserToolPanel
mvdbeek
committed
Pass tool uuid along tool form and workflow editor
mvdbeek
committed
Add monaco-based tool editor with json schema support
mvdbeek
committed
Fetch dynamic tool for job
mvdbeek
committed
Fix admin-only dynamic tools
mvdbeek
committed
Provide intellisense for inline javascript
mvdbeek
committed
Parse rest of document as yaml
mvdbeek
committed
Enable unprivileged tool preview endpoint
mvdbeek
committed
Enable single container key
mvdbeek
committed
Mix yaml and js intellisense functions
mvdbeek
committed
Convert yaml-with-js to typescript
mvdbeek
committed
Lock environment down to es2017
mvdbeek
committed
Add runtime model to API
mvdbeek
committed
Use runtime model to guide expression authoring
mvdbeek
committed
Fix synchronization between tool inputs and js diagnostics provider
mvdbeek
committed
Use native type discriminator for UserToolSource model
mvdbeek
committed
Exclude defaults from unprivileged tool api response
mvdbeek
committed
Dropme: tool schema model builder
mvdbeek
committed
Fix model sync for completion suggestion
mvdbeek
committed
Install schema-to-ts from my package
mvdbeek
committed
Correctly dispose of resource when unmounting editor
mvdbeek
committed
Add Syntax highlighting for JS embedded in $()
mvdbeek
committed
Move monarch language config to separate file
mvdbeek
committed
Rename expressionLib code extraction function
mvdbeek
committed
Add function that extracts embedded JS fragments
mvdbeek
committed
Skip ahead to relevant key
mvdbeek
committed
Refactor fragment model creation
mvdbeek
committed
Implement provideHover for embedded js fragments
mvdbeek
committed
Implement diagnostics for js fragments
mvdbeek
committed
Drop log
mvdbeek
committed
Consume @eos token
mvdbeek
committed
Include $() in bracket definition
mvdbeek
committed
Fix model management
mvdbeek
committed
log
mvdbeek
committed
Add an explicit end sequence for embedded fragments
mvdbeek
committed
Pop out of jsEmbedded on end of line
mvdbeek
committed
Document limitations of syntax highlighting on embedded fragments
mvdbeek
committed
Enable (Javascript) requirements on frontend/backend
mvdbeek
committed
Fix token colorization for shell_command / expression_lib
mvdbeek
committed
Separate tool name and description vertically
mvdbeek
committed
Add a few annotations to test out schema info rendering
mvdbeek
committed
Type fixes for workflow_run_dict
mvdbeek
committed
Fix duplicate import
mvdbeek
committed
Fix admin tool deactivation, dynamic tool endpoint mixup
mvdbeek
committed
Fix toolbox.get_tool return type annotation
mvdbeek
committed
Add required name and version to embedded tool
mvdbeek
committed
Transform yaml for jest tests
mvdbeek
committed
Fix linting issues with new API routes
mvdbeek
committed
Exclude sass for monaco
mvdbeek
committed
Move dynamic tool models to tool_util
mvdbeek
committed
Fix local import in __resolvers_dict
mvdbeek
committed
Tweak default template
mvdbeek
committed
Separate newTool and editTool
mvdbeek
committed
Use model_json_schema instead of deprecated method
mvdbeek
committed
Fix display of schema validation errors
mvdbeek
committed
Push errors one level higher
mvdbeek
committed
Don't require validators for select parameters
mvdbeek
committed
Add missing ``Literal`` import
mvdbeek
committed
Update import path
mvdbeek
committed
Move dynamic_tool_models to tool_util_models
mvdbeek
committed
Use logo imports
mvdbeek
committed
Fix client linting
mvdbeek
committed
Adjust scroll list to new card
mvdbeek
committed
Fix up tool source display for user tools
mvdbeek
committed
Implement roles to restrict custom tool permissions
mvdbeek
committed
Skip unprivileged tool resolution if we don't have appropriate permissions
mvdbeek
committed
Subclass generic for readable model title
mvdbeek
committed
Rebuild client schema
mvdbeek
committed
Build ToolSourceSchema
mvdbeek
committed
Update yarn.lock
mvdbeek
committed
Disable custom tool activity if user can't list custom tools
mvdbeek
committed
Don't set tool if we don't have a tool dir
mvdbeek
committed
Make to_cwl compatible with pulsar
mvdbeek
committed
Add basic documentation for admins
mvdbeek
committed
Fix unit test import
mvdbeek
committed

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