mahdahar
40ecb4e6e8
This commit marks a significant architectural shift, transitioning the CLQMS backend to a fully headless REST API. All view-related components have been removed to focus solely on providing a robust, stateless API for clinical laboratory workflows.
### Architectural Changes
- **Headless API Transition:**
- Removed all view files (`app/Views/v2`), associated page controllers (`PagesController`), and routes (`Routes.php`). The application no longer serves a front-end UI.
- The root endpoint (`/`) now returns a simple "Backend Running" status message.
- **Developer Tooling & Guidance:**
- Replaced `CLAUDE.md` with `GEMINI.md` to provide updated context and instructional guidelines for Gemini agents.
- Updated `.serena/project.yml` with project configuration.
### Feature Enhancements
- **Advanced Order Management (`OrderTestModel`):**
- **Test Expansion:** The `createOrder` process now automatically expands `GROUP` (panel) tests into their individual components and recursively includes all parameter dependencies for `CALC` (calculated) tests.
- **Order Comments:** Added support for attaching comments to an order via the `ordercom` table.
- **Status Tracking:** Order status updates are now correctly recorded in the `orderstatus` table.
- **Schema Alignment:** Switched from `OrderID` to `InternalOID` as the primary key for internal operations.
- **Reference Range Refactor (`TestsController`):**
- Simplified reference range logic by consolidating `refthold` and `refvset` into the main `refnum` and `reftxt` tables.
- Standardized `RefType` handling to support `NMRC`, `TEXT`, `THOLD`, and `VSET` codes from the `reference_type` ValueSet.
### Other Changes
- **Documentation:**
- `PRD.md`, `README.md`, and `TODO.md` were updated to reflect the headless architecture, refined scope, and current project priorities.
- **Database:**
- Removed obsolete `RefTHoldID` and `RefVSetID` columns from the `patres` table migration.
- **Testing:**
- Added new feature tests for `ContactController`, `OrganizationController`, and `TestsController`.
111 lines
7.2 KiB
YAML
111 lines
7.2 KiB
YAML
# list of languages for which language servers are started; choose from:
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# al bash clojure cpp csharp
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# csharp_omnisharp dart elixir elm erlang
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# fortran fsharp go groovy haskell
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# java julia kotlin lua markdown
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# matlab nix pascal perl php
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# powershell python python_jedi r rego
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# ruby ruby_solargraph rust scala swift
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# terraform toml typescript typescript_vts vue
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# yaml zig
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# (This list may be outdated. For the current list, see values of Language enum here:
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# https://github.com/oraios/serena/blob/main/src/solidlsp/ls_config.py
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# For some languages, there are alternative language servers, e.g. csharp_omnisharp, ruby_solargraph.)
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# Note:
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# - For C, use cpp
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# - For JavaScript, use typescript
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# - For Free Pascal/Lazarus, use pascal
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# Special requirements:
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# - csharp: Requires the presence of a .sln file in the project folder.
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# - pascal: Requires Free Pascal Compiler (fpc) and optionally Lazarus.
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# When using multiple languages, the first language server that supports a given file will be used for that file.
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# The first language is the default language and the respective language server will be used as a fallback.
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# Note that when using the JetBrains backend, language servers are not used and this list is correspondingly ignored.
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languages:
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- php
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# the encoding used by text files in the project
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# For a list of possible encodings, see https://docs.python.org/3.11/library/codecs.html#standard-encodings
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encoding: "utf-8"
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# whether to use project's .gitignore files to ignore files
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ignore_all_files_in_gitignore: true
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# list of additional paths to ignore in all projects
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# same syntax as gitignore, so you can use * and **
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ignored_paths: []
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# whether the project is in read-only mode
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# If set to true, all editing tools will be disabled and attempts to use them will result in an error
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# Added on 2025-04-18
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read_only: false
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# list of tool names to exclude. We recommend not excluding any tools, see the readme for more details.
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# Below is the complete list of tools for convenience.
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# To make sure you have the latest list of tools, and to view their descriptions,
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# execute `uv run scripts/print_tool_overview.py`.
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#
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# * `activate_project`: Activates a project by name.
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# * `check_onboarding_performed`: Checks whether project onboarding was already performed.
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# * `create_text_file`: Creates/overwrites a file in the project directory.
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# * `delete_lines`: Deletes a range of lines within a file.
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# * `delete_memory`: Deletes a memory from Serena's project-specific memory store.
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# * `execute_shell_command`: Executes a shell command.
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# * `find_referencing_code_snippets`: Finds code snippets in which the symbol at the given location is referenced.
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# * `find_referencing_symbols`: Finds symbols that reference the symbol at the given location (optionally filtered by type).
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# * `find_symbol`: Performs a global (or local) search for symbols with/containing a given name/substring (optionally filtered by type).
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# * `get_current_config`: Prints the current configuration of the agent, including the active and available projects, tools, contexts, and modes.
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# * `get_symbols_overview`: Gets an overview of the top-level symbols defined in a given file.
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# * `initial_instructions`: Gets the initial instructions for the current project.
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# Should only be used in settings where the system prompt cannot be set,
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# e.g. in clients you have no control over, like Claude Desktop.
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# * `insert_after_symbol`: Inserts content after the end of the definition of a given symbol.
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# * `insert_at_line`: Inserts content at a given line in a file.
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# * `insert_before_symbol`: Inserts content before the beginning of the definition of a given symbol.
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# * `list_dir`: Lists files and directories in the given directory (optionally with recursion).
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# * `list_memories`: Lists memories in Serena's project-specific memory store.
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# * `onboarding`: Performs onboarding (identifying the project structure and essential tasks, e.g. for testing or building).
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# * `prepare_for_new_conversation`: Provides instructions for preparing for a new conversation (in order to continue with the necessary context).
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# * `read_file`: Reads a file within the project directory.
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# * `read_memory`: Reads the memory with the given name from Serena's project-specific memory store.
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# * `remove_project`: Removes a project from the Serena configuration.
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# * `replace_lines`: Replaces a range of lines within a file with new content.
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# * `replace_symbol_body`: Replaces the full definition of a symbol.
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# * `restart_language_server`: Restarts the language server, may be necessary when edits not through Serena happen.
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# * `search_for_pattern`: Performs a search for a pattern in the project.
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# * `summarize_changes`: Provides instructions for summarizing the changes made to the codebase.
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# * `switch_modes`: Activates modes by providing a list of their names
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# * `think_about_collected_information`: Thinking tool for pondering the completeness of collected information.
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# * `think_about_task_adherence`: Thinking tool for determining whether the agent is still on track with the current task.
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# * `think_about_whether_you_are_done`: Thinking tool for determining whether the task is truly completed.
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# * `write_memory`: Writes a named memory (for future reference) to Serena's project-specific memory store.
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excluded_tools: []
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# initial prompt for the project. It will always be given to the LLM upon activating the project
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# (contrary to the memories, which are loaded on demand).
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initial_prompt: ""
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# the name by which the project can be referenced within Serena
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project_name: "clqms01"
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# list of tools to include that would otherwise be disabled (particularly optional tools that are disabled by default)
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included_optional_tools: []
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# list of mode names to that are always to be included in the set of active modes
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# The full set of modes to be activated is base_modes + default_modes.
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# If the setting is undefined, the base_modes from the global configuration (serena_config.yml) apply.
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# Otherwise, this setting overrides the global configuration.
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# Set this to [] to disable base modes for this project.
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# Set this to a list of mode names to always include the respective modes for this project.
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base_modes:
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# list of mode names that are to be activated by default.
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# The full set of modes to be activated is base_modes + default_modes.
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# If the setting is undefined, the default_modes from the global configuration (serena_config.yml) apply.
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# Otherwise, this overrides the setting from the global configuration (serena_config.yml).
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# This setting can, in turn, be overridden by CLI parameters (--mode).
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default_modes:
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# fixed set of tools to use as the base tool set (if non-empty), replacing Serena's default set of tools.
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# This cannot be combined with non-empty excluded_tools or included_optional_tools.
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fixed_tools: []
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