feat: Bump version to 1.6.1 in Makefile, pyproject.toml, and CHANGELOG.md

feat: Remove outdated testing documentation and add comprehensive development and feature guides
- Deleted `TESTING_SETUP.md` and `TEST_UPDATES_SUMMARY.md` as they were outdated. - Introduced `CHANGELOG.md` to document notable changes and version history. - Added `DEVELOPMENT.md` for detailed development setup, testing framework, and debugging guidance. - Created `FEATURES.md` to outline core features and functionalities of TheChart. - Established `README.md` as a centralized documentation index for users and developers.
2025-07-31 11:42:13 -07:00 · 2025-07-31 11:39:12 -07:00 · 2025-07-31 11:20:18 -07:00 · 2025-07-31 11:11:21 -07:00 · 2025-07-31 10:18:09 -07:00 · 2025-07-31 10:06:25 -07:00
38 changed files with 7454 additions and 552 deletions
@@ -14,6 +14,8 @@ jobs:
    steps:
      - name: Check out repository code
        uses: actions/checkout@v4
        with:
          fetch-depth: 0 # Fetch full history for release notes generation
      - name: Install Docker
        run: curl -fsSL https://get.docker.com | sh
@@ -55,3 +57,49 @@ jobs:
          labels: ${{ steps.meta.outputs.labels }}
          cache-from: type=registry,ref=gitea-http.taildb3494.ts.net/will/thechart:buildcache
          cache-to: type=registry,ref=gitea-http.taildb3494.ts.net/will/thechart:buildcache,mode=max
      - name: Generate release notes
        id: release_notes
        if: startsWith(gitea.ref, 'refs/tags/')
        run: |
          # Get the current tag
          CURRENT_TAG=${GITEA_REF#refs/tags/}
          # Get the previous tag
          PREVIOUS_TAG=$(git describe --tags --abbrev=0 HEAD^ 2>/dev/null || echo "")
          # Generate release notes from commits
          if [ -n "$PREVIOUS_TAG" ]; then
            echo "## Changes from $PREVIOUS_TAG to $CURRENT_TAG" > release_notes.md
            echo "" >> release_notes.md
            git log --pretty=format:"- %s (%h)" $PREVIOUS_TAG..$CURRENT_TAG >> release_notes.md
          else
            echo "## Initial Release $CURRENT_TAG" > release_notes.md
            echo "" >> release_notes.md
            git log --pretty=format:"- %s (%h)" >> release_notes.md
          fi
          # Add Docker image information
          echo "" >> release_notes.md
          echo "## Docker Images" >> release_notes.md
          echo "" >> release_notes.md
          echo "This release includes multi-platform Docker images:" >> release_notes.md
          echo "- \`gitea-http.taildb3494.ts.net/will/thechart:$CURRENT_TAG\`" >> release_notes.md
          echo "- \`gitea-http.taildb3494.ts.net/will/thechart:latest\`" >> release_notes.md
          # Output the release notes content for use in next step
          echo "release_notes<<EOF" >> $GITEA_OUTPUT
          cat release_notes.md >> $GITEA_OUTPUT
          echo "EOF" >> $GITEA_OUTPUT
      - name: Create Release
        if: startsWith(gitea.ref, 'refs/tags/')
        uses: actions/create-release@v1
        env:
          RELEASE_TOKEN: ${{ secrets.RELEASE_TOKEN }}
        with:
          tag_name: ${{ gitea.ref_name }}
          release_name: Release ${{ gitea.ref_name }}
          body: ${{ steps.release_notes.outputs.release_notes }}
          draft: false
          prerelease: false
@@ -1,13 +1,83 @@
-*.csv
+# Data files (except example data)
 thechart_data.csv
 ### !thechart_data.csv
 # Environment files
 .env
 .env.local
 .env.*.local
 # Build and distribution
 build/
 dist/
 *.egg-info/
 # Python bytecode
 *.pyc
 *.pyo
 *.pyd
 __pycache__/
 # PyInstaller
 *.spec
 # Logs
 *.log
 logs/
 # Virtual environments
 .venv/
 .poetry/
 venv/
 env/
 ENV/
 # Testing
 .pytest_cache/
 .coverage
 .coverage.*
 coverage.xml
 htmlcov/
 .tox/
 .nox/
 # Code quality tools
 .ruff_cache/
 .mypy_cache/
 .pylint.d/
 # IDEs and editors
 #.vscode/
 !.vscode/tasks.json
 !.vscode/launch.json
 .idea/
 *.swp
 *.swo
 *~
 .DS_Store
 Thumbs.db
 # Databases
 *.db
 *.sqlite3
 *.sqlite
 # uv lock files (keep for reproducibility)
 # uv.lock
 # Docker
 .dockerignore.bak
 # Temporary files
 *.tmp
 *.temp
 .cache/
 # OS generated files
 .DS_Store
 .DS_Store?
 ._*
 .Spotlight-V100
 .Trashes
 ehthumbs.db
 Thumbs.db
@@ -65,3 +65,23 @@ repos:
      # - id: uv-export
      # - id: pip-compile
      #   args: [requirements.in, -o, requirements.txt]
  ########################################################
  # Run core tests before commit to ensure basic functionality
  - repo: local
    hooks:
      - id: pytest-check
        name: pytest-check (core tests)
        entry: uv run pytest
        language: system
        pass_filenames: false
        always_run: true
        args:
          [
            --tb=short,
            --quiet,
            --no-cov,
            "tests/test_data_manager.py::TestDataManager::test_init",
            "tests/test_data_manager.py::TestDataManager::test_initialize_csv_creates_file_with_headers",
            "tests/test_data_manager.py::TestDataManager::test_load_data_with_valid_data",
          ]
        stages: [pre-commit]
@@ -11,7 +11,7 @@
        },
        "editor.autoIndent": "advanced"
    },
-    "ansible.python.interpreterPath": "/home/will/Code/thechart/.venv/bin/python",
+    "ansible.python.interpreterPath": "${workspaceFolder}/.venv/bin/python",
    "makefile.configureOnOpen": true,
    "vs-kubernetes": {
        "vs-kubernetes.crd-code-completion": "enabled",
@@ -4,10 +4,30 @@
 		{
 			"label": "Run TheChart App",
 			"type": "shell",
-			"command": "cd /home/will/Code/thechart && python -m src.main",
+			"command": "/home/will/Code/thechart/.venv/bin/python",
 			"args": [
 				"src/main.py"
 			],
 			"options": {
 				"cwd": "/home/will/Code/thechart"
 			},
 			"group": "build",
 			"isBackground": false,
 			"problemMatcher": []
 		},
 		{
 			"label": "Test Dose Tracking UI",
 			"type": "shell",
 			"command": "/home/will/Code/thechart/.venv/bin/python",
 			"args": [
 				"scripts/test_dose_tracking_ui.py"
 			],
 			"options": {
 				"cwd": "/home/will/Code/thechart"
 			},
 			"group": "test",
 			"isBackground": false,
 			"problemMatcher": []
 		}
 	]
 }
@@ -53,6 +53,11 @@ RUN sh -c "pyinstaller --name ${TARGET} --optimize 2 --onefile --windowed --hidd
 RUN chown -R ${UID}:${GUID} /home/docker_user/
 RUN chmod -R 777 /home/docker_user/${TARGET}
 RUN mkdir -p /app/logs && \
    touch /app/logs/app.log && \
    chown -R ${UID}:${GUID} /app/logs && \
    chmod 666 /app/logs/app.log
 # Set environment variables for X11 forwarding
 ENV DISPLAY=:0
 ENV XAUTHORITY=/tmp/.docker.xauth
@@ -1,32 +1,105 @@
 TARGET=thechart
-VERSION=1.0.0
+VERSION=1.6.1
 ROOT=/home/will
 ICON=chart-671.png
-SHELL=/bin/fish
+SHELL=fish
 # Virtual environment variables
 VENV_DIR=.venv
 VENV_ACTIVATE=$(VENV_DIR)/bin/activate
 PYTHON=$(VENV_DIR)/bin/python
 help: ## Show this help
 	@grep -E -h '\s##\s' $(MAKEFILE_LIST) | sort | awk 'BEGIN {FS = ":.*?## "}; {printf "\033[36m%-20s\033[0m %s\n", $$1, $$2}'
 clean: ## Clean up build artifacts and virtual environment
 	@echo "Cleaning up build artifacts and virtual environment..."
 	@rm -rf $(VENV_DIR)
 	@rm -rf build/
 	@rm -rf dist/
 	@rm -rf htmlcov/
 	@rm -rf .pytest_cache/
 	@rm -rf .ruff_cache/
 	@rm -rf src/__pycache__/
 	@rm -rf tests/__pycache__/
 	@rm -f .coverage
 	@rm -f coverage.xml
 	@echo "✅ Cleanup complete!"
 reinstall: clean install ## Clean and reinstall the development environment
 check-env: ## Check if the development environment is properly set up
 	@echo "Checking development environment..."
 	@bash -c 'if [ ! -d "$(VENV_DIR)" ]; then \
 		echo "❌ Virtual environment not found at $(VENV_DIR)"; \
 		echo "   Run \"make install\" to set up the environment"; \
 		exit 1; \
 	fi'
 	@bash -c 'if [ ! -f "$(PYTHON)" ]; then \
 		echo "❌ Python executable not found at $(PYTHON)"; \
 		echo "   Run \"make install\" to set up the environment"; \
 		exit 1; \
 	fi'
 	@echo "✅ Virtual environment: $(VENV_DIR)"
 	@echo "✅ Python executable: $(PYTHON)"
 	@$(PYTHON) --version
 	@$(PYTHON) -c "import sys; print(f'✅ Python path: {sys.executable}')"
 	@bash -c 'if cd /home/will/Code/thechart && $(PYTHON) -c "import sys; sys.path.insert(0, \"src\"); import main" 2>/dev/null; then \
 		echo "✅ Main module imports successfully"; \
 	else \
 		echo "❌ Main module import failed"; \
 		exit 1; \
 	fi'
 	@bash -c 'if $(PYTHON) -c "import pre_commit" 2>/dev/null; then \
 		echo "✅ Pre-commit is installed"; \
 	else \
 		echo "⚠️  Pre-commit not found (run \"make install\" to fix)"; \
 	fi'
 	@echo "✅ Environment check completed successfully!"
 install: ## Set up the development environment
 	@echo "Setting up the development environment..."
-# 	poetry env use 3.13
+	@echo "Creating virtual environment..."
-# 	eval $(poetry env use 3.13) # bash/zsh/csh
+	@bash -c 'if [ -d "$(VENV_DIR)" ]; then \
-	eval (poetry env activate)
+		echo "Virtual environment already exists. Recreating..."; \
-	poetry install --no-root
+		rm -rf $(VENV_DIR); \
-	poetry run pre-commit install --install-hooks --overwrite
+	fi'
-	poetry run pre-commit autoupdate
+	uv venv $(VENV_DIR) --python=python3.13
-	poetry run pre-commit run --all-files
+	@echo "Installing dependencies..."
 	uv sync --dev --no-cache-dir
 	@echo "Installing pre-commit hooks..."
 	$(PYTHON) -m pre_commit install
 	@echo "Verifying installation..."
 	@$(PYTHON) --version
 	@$(PYTHON) -c "import sys; print(f'Python executable: {sys.executable}')"
 	@echo "Testing module imports..."
 	@cd /home/will/Code/thechart && $(PYTHON) -c "import sys; sys.path.insert(0, 'src'); import main; print('✅ Main module imports successfully')"
 	@echo "Development environment setup complete!"
 	@echo ""
 	@echo "🐟 For Fish shell users:"
 	@echo "  source $(VENV_DIR)/bin/activate.fish"
 	@echo ""
 	@echo "🐚 For Bash/Zsh shell users:"
 	@echo "  source $(VENV_ACTIVATE)"
 	@echo ""
 	@echo "To run the application: make run"
 	@echo "To run tests: make test"
 build: ## Build the Docker image
 	@echo "Building the Docker image..."
 	docker buildx build --platform linux/amd64,linux/arm64 -t ${IMAGE} --push .
 deploy: ## Deploy the application as a standalone executable
 	@echo "Deploying the application..."
-	pyinstaller --name ${TARGET} --optimize 2 --onefile --windowed --hidden-import='PIL._tkinter_finder' --icon='${ICON}' --add-data="./.env:." --add-data='./chart-671.png:.' --add-data='./thechart_data.csv:.' src/main.py
+	pyinstaller --name ${TARGET} --optimize 2 --onefile --windowed --hidden-import='PIL._tkinter_finder' --icon='${ICON}' --add-data="./.env:." --add-data='./chart-671.png:.' --add-data='./thechart_data.csv:.' --log-level=DEBUG src/main.py
 	cp -f ./thechart_data.csv ${ROOT}/Documents/
 	cp -f ./dist/${TARGET} ${ROOT}/Applications/
 	cp -f ./deploy/${TARGET}.desktop ${ROOT}/.local/share/applications/
 	desktop-file-validate ${ROOT}/.local/share/applications/${TARGET}.desktop
-run: ## Run the application
+run: $(VENV_ACTIVATE) ## Run the application
 	@echo "Running the application..."
-	python src/main.py
+	@bash -c 'if [ ! -f "$(VENV_ACTIVATE)" ]; then \
 		echo "❌ Virtual environment not found. Run \"make install\" first."; \
 		exit 1; \
 	fi'
 	$(PYTHON) src/main.py
 start: ## Start the application
 	@echo "Starting the application..."
 	docker-compose up -d --build
@@ -35,7 +108,34 @@ stop: ## Stop the application
 	docker-compose down
 test: ## Run the tests
 	@echo "Running the tests..."
-	docker-compose exec ${TARGET} pipenv run pytest -v --tb=short
+	.venv/bin/python -m pytest tests/ -v --cov=src --cov-report=term-missing --cov-report=html:htmlcov
 test-unit: ## Run unit tests only
 	@echo "Running unit tests..."
 	.venv/bin/python -m pytest tests/ -v --tb=short
 test-coverage: ## Run tests with detailed coverage report
 	@echo "Running tests with coverage..."
 	.venv/bin/python -m pytest tests/ --cov=src --cov-report=html:htmlcov --cov-report=xml --cov-report=term-missing
 test-watch: ## Run tests in watch mode
 	@echo "Running tests in watch mode..."
 	.venv/bin/python -m pytest-watch tests/ -- -v --cov=src
 test-debug: ## Run tests with debug output
 	@echo "Running tests with debug output..."
 	.venv/bin/python -m pytest tests/ -v -s --tb=long --cov=src
 test-dose-tracking: ## Test the dose tracking functionality
 	@echo "Testing dose tracking functionality..."
 	.venv/bin/python scripts/test_dose_tracking.py
 test-scrollable-input: ## Test the scrollable input frame UI
 	@echo "Testing scrollable input frame..."
 	.venv/bin/python scripts/test_scrollable_input.py
 test-edit-functionality: ## Test the enhanced edit functionality
 	@echo "Testing edit functionality..."
 	.venv/bin/python scripts/test_edit_functionality.py
 test-edit-window: $(VENV_ACTIVATE)  ## Test edit window functionality (save and delete)
 	@echo "Running edit window functionality test..."
 	$(PYTHON) scripts/test_edit_window_functionality.py
 test-dose-editing: $(VENV_ACTIVATE)  ## Test dose editing functionality in edit window
 	@echo "Running dose editing functionality test..."
 	$(PYTHON) scripts/test_dose_editing_functionality.py
 lint: ## Run the linter
 	@echo "Running the linter..."
 	docker-compose exec ${TARGET} pipenv run pre-commit run --all-files
@@ -47,8 +147,14 @@ attach: ## Open a shell in the container
 	docker-compose exec -it ${TARGET} /bin/bash
 shell: ## Open a shell in the local environment
 	@echo "Opening a shell in the local environment..."
-	${SHELL} -c "eval (poetry env activate)"
+	source .venv/bin/activate.${SHELL}; /bin/${SHELL}
 requirements: ## Export the requirements to a file
 	@echo "Exporting requirements to requirements.txt..."
 	poetry export --without-hashes -f requirements.txt -o requirements.txt
-.PHONY: install build attach deploy run start stop test lint format shell requirements help
+commit-emergency: ## Emergency commit (bypasses pre-commit hooks) - USE SPARINGLY
 	@echo "⚠️  WARNING: Emergency commit bypasses all pre-commit checks!"
 	@echo "This should only be used in true emergencies."
 	@read -p "Enter commit message: " msg; \
 	git add . && git commit --no-verify -m "$$msg"
 	@echo "✅ Emergency commit completed. Please run tests manually when possible."
 .PHONY: install clean reinstall check-env build attach deploy run start stop test lint format shell requirements commit-emergency test-dose-tracking test-scrollable-input test-edit-functionality test-edit-window test-dose-editing migrate-csv help
@@ -1,15 +1,34 @@
-# Thechart
+# TheChart
-App to manage medication and see the evolution of its effects.
+Advanced medication tracking application for monitoring treatment progress and symptom evolution.
 ## Quick Start
 ```bash
 # Install dependencies
 make install
 # Run the application
 make run
 # Run tests
 make test
 ```
 ## 📚 Documentation
 - **[Features Guide](docs/FEATURES.md)** - Complete feature documentation
 - **[Development Guide](docs/DEVELOPMENT.md)** - Testing, development, and architecture
 - **[Changelog](docs/CHANGELOG.md)** - Version history and feature evolution
 - **[Quick Reference](#quick-reference)** - Common commands and shortcuts
 ## Table of Contents
 - [Prerequisites](#prerequisites)
 - [Installation](#installation)
 - [Running the Application](#running-the-application)
 - [Key Features](#key-features)
 - [Development](#development)
 - [Deployment](#deployment)
 - [Docker Usage](#docker-usage)
 - [Troubleshooting](#troubleshooting)
- [Make Commands Reference](#make-commands-reference)
+- [Quick Reference](#quick-reference)
 ## Prerequisites
@@ -179,75 +198,85 @@ python src/main.py
 On first run, the application will:
 - Create a default CSV data file (`thechart_data.csv`) if it doesn't exist
 - Set up logging in the `logs/` directory
- Create necessary configuration files
+- Initialize medicine and pathology configuration files (`medicines.json`, `pathologies.json`)
 - Create necessary directory structure
 ## Key Features
 ### 🏥 Modular Medicine System
 - **Dynamic Medicine Management**: Add, edit, and remove medicines through the UI
 - **Configurable Properties**: Customize names, dosages, colors, and quick-dose options
 - **JSON Configuration**: Easy management through `medicines.json`
 - **Automatic UI Updates**: All components update when medicines change
 ### 💊 Advanced Dose Tracking
 - **Precise Timestamps**: Record exact time and dose amounts
 - **Multiple Daily Doses**: Track multiple doses of the same medicine
 - **Comprehensive Interface**: Dedicated dose management in edit windows
 - **Historical Data**: Complete dose history with CSV persistence
 ### 📊 Enhanced Visualizations
 - **Interactive Graphs**: Toggle visibility of symptoms and medicines
 - **Dose Bar Charts**: Visual representation of daily medication intake
 - **Enhanced Legends**: Multi-column layout with average dosage information
 - **Professional Styling**: Clean, informative chart design
 ### 📈 Data Management
 - **Robust CSV Storage**: Human-readable and portable data format
 - **Automatic Backups**: Data protection during updates
 - **Backward Compatibility**: Seamless upgrades without data loss
 - **Dynamic Columns**: Adapts to new medicines and pathologies
 For complete feature documentation, see **[docs/FEATURES.md](docs/FEATURES.md)**.
 ## Development
-### Code Quality Tools
+### Testing Framework
-The project includes several code quality tools that are automatically set up:
+TheChart includes a comprehensive testing suite with **93% code coverage**:
-#### Formatting and Linting
+```bash
-```shell
+# Run all tests
-make format  # Format code with ruff
+make test
-make lint    # Run linter checks
+
 # Run tests with coverage report
 uv run pytest --cov=src --cov-report=html
 # Run specific test file
 uv run pytest tests/test_graph_manager.py -v
 ```
-**With uv directly:**
+**Testing Statistics:**
-```shell
+- **112 total tests** across 6 test modules
-uv run ruff format .  # Format code
+- **93% overall coverage** (482 statements, 33 missed)
-uv run ruff check .   # Check for issues
+- **Pre-commit testing** prevents broken commits
 ```
-#### Running Tests
+### Code Quality
-```shell
+```bash
-make test    # Run unit tests
+# Format code
-```
+make format
-**With uv directly:**
+# Check code quality
-```shell
+make lint
-uv run pytest  # Run tests with pytest
+
 # Run pre-commit checks
 pre-commit run --all-files
 ```
 ### Package Management with uv
-
+```bash
-#### Adding Dependencies
+# Add dependencies
 ```shell
 # Add a runtime dependency
 uv add package-name
-# Add a development dependency
+# Add development dependencies
 uv add --dev package-name
-# Add specific version
+# Update dependencies
-uv add "package-name>=1.0.0"
+uv sync --upgrade
 ```
-#### Removing Dependencies
+# Remove dependencies
 ```shell
 uv remove package-name
 ```
-#### Updating Dependencies
+For detailed development information, see **[docs/DEVELOPMENT.md](docs/DEVELOPMENT.md)**.
 ```shell
 # Update all dependencies
 uv sync --upgrade
 # Update specific package
 uv add "package-name>=new-version"
 ```
 #### Pre-commit Hooks
 Pre-commit hooks are automatically installed and will run on every commit to ensure code quality. They include:
 - Code formatting with ruff
 - Linting checks
 - Import sorting
 - Basic file checks
 ### Development Dependencies
 The following development tools are included:
 - **ruff** - Fast Python linter and formatter
 - **pre-commit** - Git hook management
 - **pyinstaller** - For creating standalone executables
 ## Deployment
@@ -312,43 +341,33 @@ python src/main.py
 ## Docker Usage
-## Docker Usage
+### Quick Start with Docker
-
+```bash
-### Building the Container Image
+# Build and start the application
 Build a multi-platform Docker image:
 ```shell
 make build
 ```
 ### Running with Docker Compose
 The project includes Docker Compose configuration for easy container management:
 1. **Start the application:**
 ```shell
 make start
 ```
-2. **Stop the application:**
+# Stop the application
 ```shell
 make stop
 ```
-3. **Access container shell:**
+# Access container shell
 ```shell
 make attach
 ```
 ### Manual Docker Commands
-If you prefer using Docker directly:
+```bash
 ```shell
 # Build image
 docker build -t thechart .
-# Run container
+# Run container with X11 forwarding (Linux)
-docker run -it --rm thechart
+docker run -it --rm \
  -e DISPLAY=$DISPLAY \
  -v /tmp/.X11-unix:/tmp/.X11-unix:rw \
  thechart
 ```
 **Note:** Docker support is primarily for development. For production use, consider the standalone executable deployment.
 ## Troubleshooting
 ### Common Issues
@@ -407,34 +426,10 @@ If you encounter issues not covered here:
 3. Try rebuilding the virtual environment
 4. Verify file permissions for deployment directories
-## Make Commands Reference
+## Quick Reference
-The project uses a Makefile to simplify common development and deployment tasks.
+### Essential Commands
-
+```bash
 ### Show Help Menu
 ```shell
 make help
 ```
 ### Available Commands
 | Command | Description |
 |---------|-------------|
 | `install` | Set up the development environment |
 | `run` | Run the application |
 | `shell` | Open a shell in the local environment |
 | `format` | Format the code with ruff |
 | `lint` | Run the linter |
 | `test` | Run the tests |
 | `requirements` | Export the requirements to a file |
 | `build` | Build the Docker image |
 | `start` | Start the app (Docker) |
 | `stop` | Stop the app (Docker) |
 | `attach` | Open a shell in the container |
 | `deploy` | Deploy standalone app executable |
 | `help` | Show this help |
 ### Quick Reference
 ```shell
 # Development workflow
 make install    # One-time setup
 make run        # Run application
@@ -451,6 +446,35 @@ make start      # Start containerized app
 make stop       # Stop containerized app
 ```
 ### Project Structure
 ```
 src/                 # Main application source code
 ├── main.py         # Application entry point
 ├── ui_manager.py   # User interface management
 ├── data_manager.py # CSV data operations
 ├── graph_manager.py # Visualization and plotting
 ├── medicine_manager.py # Medicine system
 └── pathology_manager.py # Symptom tracking
 docs/               # Documentation
 ├── FEATURES.md     # Complete feature guide
 └── DEVELOPMENT.md  # Development guide
 logs/               # Application logs
 deploy/             # Deployment configuration
 tests/              # Test suite
 medicines.json      # Medicine configuration
 pathologies.json    # Pathology configuration
 thechart_data.csv   # User data (created on first run)
 ```
 ### Key Files
 - **`medicines.json`**: Configure available medicines
 - **`pathologies.json`**: Configure tracked symptoms
 - **`thechart_data.csv`**: Your medication and symptom data
 - **`pyproject.toml`**: Project configuration and dependencies
 - **`uv.lock`**: Dependency lock file
 ---
 ## Why uv?
@@ -471,13 +495,3 @@ make stop       # Stop containerized app
 | Add package | `uv add package` | `poetry add package` |
 | Run command | `uv run command` | `poetry run command` |
 | Activate environment | `source .venv/bin/activate` | `poetry shell` |
 **Project Structure:**
 - `src/` - Main application source code
 - `logs/` - Application log files
 - `deploy/` - Deployment configuration files
 - `build/` - Build artifacts (created during deployment)
 - `.venv/` - Virtual environment (created by uv)
 - `uv.lock` - Lock file with exact dependency versions
 - `pyproject.toml` - Project configuration and dependencies
 - `thechart_data.csv` - Application data file
@@ -0,0 +1,200 @@
 # Changelog
 All notable changes to TheChart project are documented in this file.
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 ## [1.6.1] - 2025-07-31
 ### 📚 Documentation Overhaul
 - **BREAKING**: Consolidated scattered documentation into organized structure
 - **Added**: Comprehensive `docs/FEATURES.md` with complete feature documentation
 - **Added**: Detailed `docs/DEVELOPMENT.md` with testing and development guide
 - **Updated**: Streamlined `README.md` with quick-start focus and navigation
 - **Removed**: 10 redundant/outdated markdown files
 - **Improved**: Clear separation between user and developer documentation
 ### 🏗️ Documentation Structure
 ```
 docs/
 ├── FEATURES.md     # Complete feature guide (new)
 ├── DEVELOPMENT.md  # Development & testing guide (new)
 └── CHANGELOG.md    # This changelog (new)
 README.md          # Streamlined quick-start guide (updated)
 ```
 ## [1.3.3] - Previous Releases
 ### 🏥 Modular Medicine System
 - **Added**: Dynamic medicine management system
 - **Added**: JSON-based medicine configuration (`medicines.json`)
 - **Added**: Medicine management UI (`Tools` → `Manage Medicines...`)
 - **Added**: Configurable medicine properties (colors, doses, names)
 - **Added**: Automatic UI updates when medicines change
 - **Added**: Backward compatibility with existing data
 ### 💊 Advanced Dose Tracking System
 - **Added**: Precise timestamp recording for medicine doses
 - **Added**: Multiple daily dose support for same medicine
 - **Added**: Comprehensive dose tracking interface in edit windows
 - **Added**: Quick-dose buttons for common amounts
 - **Added**: Real-time dose display and feedback
 - **Added**: Historical dose data persistence in CSV
 - **Improved**: Dose format parsing with robust error handling
 #### Punch Button Redesign
 - **Moved**: Dose tracking from main input to edit window
 - **Added**: Individual dose entry fields per medicine
 - **Added**: "Take [Medicine]" buttons with immediate recording
 - **Added**: Editable dose display areas with history
 - **Improved**: User experience with centralized dose management
 ### 📊 Enhanced Graph Visualization
 - **Added**: Medicine dose bar charts with distinct colors
 - **Added**: Interactive toggle controls for symptoms and medicines
 - **Added**: Enhanced legend with multi-column layout
 - **Added**: Average dosage calculations and displays
 - **Added**: Professional styling with transparency and shadows
 - **Improved**: Graph layout with dynamic positioning
 #### Medicine Dose Plotting
 - **Added**: Visual representation of daily medication intake
 - **Added**: Scaled dose display (mg/10) for chart compatibility
 - **Added**: Color-coded bars for each medicine
 - **Added**: Semi-transparent rendering to preserve symptom visibility
 - **Fixed**: Dose calculation logic for complex timestamp formats
 #### Legend Enhancements
 - **Added**: Multi-column legend layout (2 columns)
 - **Added**: Average dosage information per medicine
 - **Added**: Tracking status for medicines without current doses
 - **Added**: Frame, shadow, and transparency effects
 - **Improved**: Space utilization and readability
 ### 🧪 Comprehensive Testing Framework
 - **Added**: Professional testing infrastructure with pytest
 - **Added**: 93% code coverage across 112 tests
 - **Added**: Coverage reporting (HTML, XML, terminal)
 - **Added**: Pre-commit testing hooks
 - **Added**: Comprehensive dose calculation testing
 - **Added**: UI component testing with mocking
 - **Added**: Medicine plotting and legend testing
 #### Test Infrastructure
 - **Added**: `tests/conftest.py` with shared fixtures
 - **Added**: Sample data generators for realistic testing
 - **Added**: Mock loggers and temporary file management
 - **Added**: Environment variable mocking
 #### Pre-commit Testing
 - **Added**: Automated testing before commits
 - **Added**: Core functionality validation (3 essential tests)
 - **Added**: Commit blocking on test failures
 - **Configured**: `.pre-commit-config.yaml` with testing hooks
 ### 🏗️ Technical Architecture Improvements
 - **Added**: Modular component architecture
 - **Added**: MedicineManager and PathologyManager classes
 - **Added**: Dynamic UI generation based on configuration
 - **Improved**: Separation of concerns across modules
 - **Enhanced**: Error handling and logging throughout
 ### 📈 Data Management Enhancements
 - **Added**: Automatic data migration and backup system
 - **Added**: Dynamic CSV column management
 - **Added**: Robust dose string parsing
 - **Improved**: Data validation and error handling
 - **Enhanced**: Backward compatibility preservation
 ### 🔧 Development Tools & Workflow
 - **Added**: uv integration for fast package management
 - **Added**: Comprehensive Makefile with development commands
 - **Added**: Docker support with multi-platform builds
 - **Added**: Pre-commit hooks for code quality
 - **Added**: Ruff for fast Python formatting and linting
 - **Improved**: Virtual environment management
 ### 🚀 Deployment & Distribution
 - **Added**: PyInstaller integration for standalone executables
 - **Added**: Linux desktop integration
 - **Added**: Automatic file installation and desktop entries
 - **Added**: Docker containerization support
 - **Improved**: Build and deployment automation
 ## Technical Details
 ### Dependencies
 - **Runtime**: Python 3.13+, matplotlib, pandas, tkinter, colorlog
 - **Development**: pytest, pytest-cov, ruff, pre-commit, pyinstaller
 - **Package Management**: uv (Rust-based, 10-100x faster than pip/Poetry)
 ### Architecture
 - **Frontend**: Tkinter-based GUI with dynamic component generation
 - **Backend**: Pandas for data manipulation, Matplotlib for visualization
 - **Storage**: CSV-based with JSON configuration files
 - **Testing**: pytest with comprehensive mocking and coverage
 ### File Structure
 ```
 src/                    # Main application code
 ├── main.py            # Application entry point
 ├── ui_manager.py      # User interface management
 ├── data_manager.py    # CSV operations and data persistence
 ├── graph_manager.py   # Visualization and plotting
 ├── medicine_manager.py # Medicine system management
 └── pathology_manager.py # Symptom tracking
 tests/                 # Comprehensive test suite (112 tests, 93% coverage)
 docs/                  # Organized documentation
 ├── FEATURES.md        # Complete feature documentation
 ├── DEVELOPMENT.md     # Development and testing guide
 └── CHANGELOG.md       # This changelog
 Configuration Files:
 ├── medicines.json     # Medicine definitions (auto-generated)
 ├── pathologies.json   # Symptom categories (auto-generated)
 ├── pyproject.toml     # Project configuration
 └── uv.lock           # Dependency lock file
 ```
 ## Migration Notes
 ### From Previous Versions
 - **Data Compatibility**: All existing CSV data continues to work
 - **Automatic Migration**: Data structure updates handled automatically
 - **Backup Creation**: Automatic backups before major changes
 - **No Data Loss**: Existing functionality preserved during updates
 ### Configuration Migration
 - **Medicine System**: Hard-coded medicines converted to JSON configuration
 - **UI Updates**: Interface automatically adapts to new medicine definitions
 - **Graph Integration**: Visualization system updated for dynamic medicines
 ## Future Roadmap
 ### Planned Features (v2.0)
 - **Mobile App**: Companion mobile application for dose tracking
 - **Cloud Sync**: Multi-device data synchronization
 - **Advanced Analytics**: Machine learning-based trend analysis
 - **Reminder System**: Intelligent medication reminders
 - **Doctor Integration**: Healthcare provider report generation
 ### Platform Expansion
 - **macOS Support**: Native macOS application
 - **Windows Support**: Windows executable and installer
 - **Web Interface**: Browser-based version for universal access
 ### API Development
 - **REST API**: External system integration
 - **Plugin Architecture**: Third-party extension support
 - **Data Export**: Multiple format support (JSON, XML, etc.)
 ---
 ## Contributing
 This project follows semantic versioning and maintains comprehensive documentation.
 For development guidelines, see [docs/DEVELOPMENT.md](docs/DEVELOPMENT.md).
 For feature information, see [docs/FEATURES.md](docs/FEATURES.md).
@@ -0,0 +1,340 @@
 # TheChart - Development Documentation
 ## Development Environment Setup
 ### Prerequisites
 - **Python 3.13+**: Required for the application
 - **uv**: Fast Python package manager (10-100x faster than pip/Poetry)
 - **Git**: Version control
 ### Quick Setup
 ```bash
 # Clone and setup
 git clone <repository-url>
 cd thechart
 # Install with uv (recommended)
 make install
 # Or manual setup
 uv venv --python 3.13
 uv sync
 uv run pre-commit install --install-hooks --overwrite
 ```
 ### Environment Activation
 ```bash
 # fish shell (default)
 source .venv/bin/activate.fish
 # or
 make shell
 # bash/zsh
 source .venv/bin/activate
 # Using uv run (recommended)
 uv run python src/main.py
 ```
 ## Testing Framework
 ### Test Infrastructure
 Professional testing setup with comprehensive coverage and automation.
 #### Testing Tools
 - **pytest**: Modern Python testing framework
 - **pytest-cov**: Coverage reporting (HTML, XML, terminal)
 - **pytest-mock**: Mocking support for isolated testing
 - **coverage**: Detailed coverage analysis
 #### Test Statistics
 - **93% Overall Code Coverage** (482 total statements, 33 missed)
 - **112 Total Tests** across 6 test modules
 - **80 Tests Passing** (71.4% pass rate)
 #### Coverage by Module
 | Module | Coverage | Status |
 |--------|----------|--------|
 | constants.py | 100% | ✅ Complete |
 | logger.py | 100% | ✅ Complete |
 | graph_manager.py | 97% | ✅ Excellent |
 | init.py | 95% | ✅ Excellent |
 | ui_manager.py | 93% | ✅ Very Good |
 | main.py | 91% | ✅ Very Good |
 | data_manager.py | 87% | ✅ Good |
 ### Test Structure
 #### Test Files
 - **`tests/test_data_manager.py`** (16 tests): CSV operations, validation, error handling
 - **`tests/test_graph_manager.py`** (14 tests): Matplotlib integration, dose calculations
 - **`tests/test_ui_manager.py`** (21 tests): Tkinter UI components, user interactions
 - **`tests/test_main.py`** (18 tests): Application integration, workflow testing
 - **`tests/test_constants.py`** (12 tests): Configuration validation
 - **`tests/test_logger.py`** (8 tests): Logging functionality
 - **`tests/test_init.py`** (23 tests): Initialization and setup
 #### Test Fixtures (`tests/conftest.py`)
 - **Temporary Files**: Safe testing without affecting real data
 - **Sample Data**: Comprehensive test datasets with realistic dose information
 - **Mock Loggers**: Isolated logging for testing
 - **Environment Mocking**: Controlled test environments
 ### Running Tests
 #### Basic Testing
 ```bash
 # Run all tests
 make test
 # or
 uv run pytest
 # Run specific test file
 uv run pytest tests/test_graph_manager.py -v
 # Run tests with specific pattern
 uv run pytest -k "dose_calculation" -v
 ```
 #### Coverage Testing
 ```bash
 # Generate coverage report
 uv run pytest --cov=src --cov-report=html
 # Coverage with specific module
 uv run pytest tests/test_graph_manager.py --cov=src.graph_manager --cov-report=term-missing
 ```
 #### Continuous Testing
 ```bash
 # Watch for changes and re-run tests
 uv run pytest --watch
 # Quick test runner script
 ./scripts/run_tests.py
 ```
 ### Pre-commit Testing
 Automated testing prevents commits when core functionality is broken.
 #### Configuration
 Located in `.pre-commit-config.yaml`:
 - **Core Tests**: 3 essential tests run before each commit
 - **Fast Execution**: Only critical functionality tested
 - **Commit Blocking**: Prevents commits when tests fail
 #### Core Tests
 1. **`test_init`**: DataManager initialization
 2. **`test_initialize_csv_creates_file_with_headers`**: CSV file creation
 3. **`test_load_data_with_valid_data`**: Data loading functionality
 #### Usage
 ```bash
 # Automatic on commit
 git commit -m "Your changes"
 # Manual pre-commit check
 pre-commit run --all-files
 # Run just test check
 pre-commit run pytest-check --all-files
 ```
 ### Dose Calculation Testing
 Comprehensive testing for the complex dose parsing and calculation system.
 #### Test Categories
 - **Standard Format**: `2025-07-28 18:59:45:150mg` → 150.0mg
 - **Multiple Doses**: `2025-07-28 18:59:45:150mg|2025-07-28 19:34:19:75mg` → 225.0mg
 - **With Symbols**: `• • • • 2025-07-30 07:50:00:300` → 300.0mg
 - **Decimal Values**: `2025-07-28 18:59:45:12.5mg|2025-07-28 19:34:19:7.5mg` → 20.0mg
 - **No Timestamps**: `100mg|50mg` → 150.0mg
 - **Mixed Formats**: `• 2025-07-30 22:50:00:10|75mg` → 85.0mg
 - **Edge Cases**: Empty strings, NaN values, malformed data → 0.0mg
 #### Test Implementation
 ```python
 # Example test case
 def test_calculate_daily_dose_standard_format(self, graph_manager):
    dose_str = "2025-07-28 18:59:45:150mg|2025-07-28 19:34:19:75mg"
    result = graph_manager._calculate_daily_dose(dose_str)
    assert result == 225.0
 ```
 ### Medicine Plotting Tests
 Testing for the enhanced graph functionality with medicine dose visualization.
 #### Test Areas
 - **Toggle Functionality**: Medicine show/hide controls
 - **Dose Plotting**: Bar chart generation for medicine doses
 - **Color Coding**: Proper color assignment and consistency
 - **Legend Enhancement**: Multi-column layout and average calculations
 - **Data Integration**: Proper data flow from CSV to visualization
 ### UI Testing Strategy
 Testing user interface components with mock frameworks to avoid GUI dependencies.
 #### UI Test Coverage
 - **Component Creation**: Widget creation and configuration
 - **Event Handling**: User interactions and callbacks
 - **Data Binding**: Variable synchronization and updates
 - **Layout Management**: Grid and frame arrangements
 - **Error Handling**: User input validation and error messages
 #### Mocking Strategy
 ```python
 # Example UI test with mocking
@patch('tkinter.Tk')
 def test_create_input_frame(self, mock_tk, ui_manager):
    parent = Mock()
    result = ui_manager.create_input_frame(parent, {}, {})
    assert result is not None
    assert isinstance(result, dict)
 ```
 ## Code Quality
 ### Tools and Standards
 - **ruff**: Fast Python linter and formatter (Rust-based)
 - **pre-commit**: Git hook management for code quality
 - **Type Hints**: Comprehensive type annotations
 - **Docstrings**: Detailed function and class documentation
 ### Code Formatting
 ```bash
 # Format code
 make format
 # or
 uv run ruff format .
 # Check formatting
 make lint
 # or
 uv run ruff check .
 ```
 ### Pre-commit Hooks
 Automatically installed hooks ensure code quality:
 - **Code Formatting**: ruff formatting
 - **Linting Checks**: Code quality validation
 - **Import Sorting**: Consistent import organization
 - **Basic File Checks**: Trailing whitespace, file endings
 ## Development Workflow
 ### Feature Development
 1. **Create Feature Branch**: `git checkout -b feature/new-feature`
 2. **Implement Changes**: Follow existing patterns and architecture
 3. **Add Tests**: Ensure new functionality is tested
 4. **Run Tests**: `make test` to verify functionality
 5. **Code Quality**: `make format && make lint`
 6. **Commit Changes**: Pre-commit hooks run automatically
 7. **Create Pull Request**: For code review
 ### Medicine System Development
 Adding new medicines or modifying the medicine system:
 ```python
 # Example: Adding a new medicine programmatically
 from medicine_manager import MedicineManager, Medicine
 medicine_manager = MedicineManager()
 new_medicine = Medicine(
    key="sertraline",
    display_name="Sertraline",
    dosage_info="50mg",
    quick_doses=["25", "50", "100"],
    color="#9B59B6",
    default_enabled=False
 )
 medicine_manager.add_medicine(new_medicine)
 ```
 ### Testing New Features
 1. **Unit Tests**: Add tests for new functionality
 2. **Integration Tests**: Test feature integration with existing system
 3. **UI Tests**: Test user interface changes
 4. **Dose Calculation Tests**: If affecting dose calculations
 5. **Regression Tests**: Ensure existing functionality still works
 ## Debugging and Troubleshooting
 ### Logging
 Application logs are stored in `logs/` directory:
 - **`app.log`**: General application logs
 - **`app.error.log`**: Error messages only
 - **`app.warning.log`**: Warning messages only
 ### Debug Mode
 Enable debug logging by modifying `src/logger.py` configuration.
 ### Common Issues
 #### Test Failures
 - **Matplotlib Mocking**: Ensure proper matplotlib component mocking
 - **Tkinter Dependencies**: Use headless testing for UI components
 - **File Path Issues**: Use absolute paths in tests
 - **Mock Configuration**: Proper mock setup for external dependencies
 #### Development Environment
 - **Python Version**: Ensure Python 3.13+ is used
 - **Virtual Environment**: Always work within the virtual environment
 - **Dependencies**: Keep dependencies up to date with `uv sync --upgrade`
 ### Performance Testing
 - **Dose Calculation Performance**: Test with large datasets
 - **UI Responsiveness**: Test with extensive medicine lists
 - **Memory Usage**: Monitor memory consumption with large CSV files
 - **Graph Rendering**: Test graph performance with large datasets
 ## Architecture Documentation
 ### Core Components
 - **MedTrackerApp**: Main application class
 - **MedicineManager**: Medicine CRUD operations
 - **PathologyManager**: Pathology/symptom management
 - **GraphManager**: Visualization and plotting
 - **UIManager**: User interface creation
 - **DataManager**: Data persistence and CSV operations
 ### Data Flow
 1. **User Input** → UIManager → DataManager → CSV
 2. **Data Loading** → DataManager → pandas DataFrame → GraphManager
 3. **Visualization** → GraphManager → matplotlib → UI Display
 ### Extension Points
 - **Medicine System**: Add new medicine properties
 - **Graph Types**: Add new visualization types
 - **Export Formats**: Add new data export options
 - **UI Components**: Add new interface elements
 ## Deployment Testing
 ### Standalone Executable
 ```bash
 # Build executable
 make deploy
 # Test deployment
 ./dist/thechart
 ```
 ### Docker Testing
 ```bash
 # Build container
 make build
 # Test container
 make start
 make attach
 ```
 ### Cross-platform Testing
 - **Linux**: Primary development and testing platform
 - **macOS**: Planned support (testing needed)
 - **Windows**: Planned support (testing needed)
 ---
 For user documentation, see [README.md](../README.md).
 For feature details, see [docs/FEATURES.md](FEATURES.md).
@@ -0,0 +1,232 @@
 # TheChart - Features Documentation
 ## Overview
 TheChart is a comprehensive medication tracking application that allows users to monitor medication intake, symptom tracking, and visualize treatment progress over time.
 ## Core Features
 ### 🏥 Modular Medicine System
 TheChart features a dynamic medicine management system that allows complete customization without code modifications.
 #### Features:
 - **Dynamic Medicine Management**: Add, edit, and remove medicines through the UI
 - **Configurable Properties**: Each medicine has customizable display names, dosages, colors, and quick-dose options
 - **Automatic UI Updates**: All interface elements update automatically when medicines change
 - **JSON Configuration**: Human-readable `medicines.json` file for easy management
 #### Medicine Configuration:
 Each medicine includes:
 - **Key**: Internal identifier (e.g., "bupropion")
 - **Display Name**: User-friendly name (e.g., "Bupropion")
 - **Dosage Info**: Dosage information (e.g., "150/300 mg")
 - **Quick Doses**: Common dose amounts for quick selection
 - **Color**: Hex color for graph display (e.g., "#FF6B6B")
 - **Default Enabled**: Whether to show in graphs by default
 #### Default Medicines:
 | Medicine | Dosage | Default Graph | Color |
 |----------|--------|---------------|--------|
 | Bupropion | 150/300 mg | ✅ | Red (#FF6B6B) |
 | Hydroxyzine | 25 mg | ❌ | Teal (#4ECDC4) |
 | Gabapentin | 100 mg | ❌ | Blue (#45B7D1) |
 | Propranolol | 10 mg | ✅ | Green (#96CEB4) |
 | Quetiapine | 25 mg | ❌ | Yellow (#FFEAA7) |
 #### Usage:
 1. **Through UI**: Go to `Tools` → `Manage Medicines...`
 2. **Manual Configuration**: Edit `medicines.json` directly
 3. **Programmatically**: Use the MedicineManager API
 ### 💊 Advanced Dose Tracking
 Comprehensive dose tracking system that records exact timestamps and dosages throughout the day.
 #### Core Capabilities:
 - **Timestamp Recording**: Exact time when medicine is taken
 - **Dose Amount Tracking**: Record specific doses (150mg, 10mg, etc.)
 - **Multiple Doses Per Day**: Take the same medicine multiple times
 - **Real-time Display**: See today's doses immediately
 - **Data Persistence**: All doses saved to CSV with full history
 #### Dose Management Interface:
 Located in the edit window (double-click any entry):
 - **Individual Dose Entry Fields**: For each medicine
 - **"Take [Medicine]" Buttons**: Immediate dose recording with timestamps
 - **Editable Dose Display Areas**: View and modify existing doses
 - **Quick Dose Buttons**: Pre-configured common dose amounts
 - **Format Consistency**: All doses displayed in HH:MM: dose format
 #### Data Format:
 - **Timestamp Format**: `YYYY-MM-DD HH:MM:SS`
 - **Dose Separator**: `|` (pipe) for multiple doses
 - **Dose Format**: `timestamp:dose`
 - **CSV Storage**: Additional columns in existing CSV file
 #### Example CSV Format:
 ```csv
 date,depression,anxiety,sleep,appetite,bupropion,bupropion_doses,hydroxyzine,hydroxyzine_doses,propranolol,propranolol_doses,note
 07/28/2025,4,5,3,3,1,"2025-07-28 14:30:00:150mg|2025-07-28 18:30:00:150mg",0,"",1,"2025-07-28 12:30:00:10mg","Multiple doses today"
 ```
 ### 📊 Enhanced Graph Visualization
 Advanced graphing system with comprehensive data visualization and interactive controls.
 #### Medicine Dose Visualization:
 - **Colored Bar Charts**: Each medicine has distinct colors
 - **Daily Dose Totals**: Automatically calculated from individual doses
 - **Scaled Display**: Doses scaled by 1/10 for better visibility (labeled as "mg/10")
 - **Dynamic Positioning**: Bars positioned below main chart area
 - **Semi-transparent Bars**: Alpha=0.6 to avoid overwhelming symptom data
 #### Interactive Controls:
 - **Toggle Buttons**: Independent show/hide for each medicine and symptom
 - **Organized Sections**: "Symptoms" and "Medicines" sections
 - **Real-time Updates**: Changes take effect immediately
 #### Enhanced Legend:
 - **Multi-column Layout**: Efficient use of graph space (2 columns)
 - **Average Dosage Display**: Shows average dose for each medicine
 - **Color Coding**: Consistent color scheme matching graph elements
 - **Professional Styling**: Frame, shadow, and transparency effects
 - **Tracking Status**: Shows medicines being monitored but without current dose data
 #### Dose Calculation Features:
 - **Multiple Format Support**: Handles various dose string formats
 - **Robust Parsing**: Handles timestamps, symbols (•), and mixed formats
 - **Edge Case Handling**: Manages empty strings, NaN values, malformed data
 - **Daily Totals**: Sums all individual doses for comprehensive daily tracking
 ### 🏥 Pathology Management
 Comprehensive symptom tracking with configurable pathologies.
 #### Features:
 - **Dynamic Pathology System**: Similar to medicine management
 - **Configurable Symptoms**: Add, edit, and remove symptom categories
 - **Scale-based Rating**: 0-10 rating system for symptom severity
 - **Historical Tracking**: Full symptom history with trend analysis
 ### 📝 Data Management
 Robust data handling with comprehensive backup and migration support.
 #### Data Features:
 - **CSV-based Storage**: Human-readable and portable data format
 - **Automatic Backups**: Created before major migrations
 - **Backward Compatibility**: Existing data continues to work with updates
 - **Dynamic Column Management**: Automatically adapts to new medicines/pathologies
 - **Data Validation**: Ensures data integrity and handles edge cases
 #### Migration Support:
 - **Automatic Migration**: Data structure updates handled automatically
 - **Backup Creation**: `thechart_data.csv.backup_YYYYMMDD_HHMMSS` format
 - **No Data Loss**: All existing functionality and data preserved
 - **Version Compatibility**: Seamless updates across application versions
 ### 🧪 Comprehensive Testing Framework
 Professional testing infrastructure with high code coverage.
 #### Testing Statistics:
 - **93% Overall Code Coverage** (482 total statements, 33 missed)
 - **112 Total Tests** across 6 test modules
 - **80 Tests Passing** (71.4% pass rate)
 - **Pre-commit Testing**: Core functionality tests run before each commit
 #### Test Coverage by Module:
 - **100% Coverage**: constants.py, logger.py
 - **97% Coverage**: graph_manager.py
 - **95% Coverage**: init.py
 - **93% Coverage**: ui_manager.py
 - **91% Coverage**: main.py
 - **87% Coverage**: data_manager.py
 #### Testing Tools:
 - **pytest**: Modern Python testing framework
 - **pytest-cov**: Coverage reporting with HTML, XML, and terminal output
 - **pytest-mock**: Mocking support for isolated testing
 - **pre-commit hooks**: Automated testing before commits
 ## User Interface Features
 ### 🖥️ Intuitive Design
 - **Clean Main Interface**: Simplified new entry form focused on essential inputs
 - **Organized Edit Windows**: Comprehensive dose management in dedicated edit interface
 - **Scrollable Interface**: Vertical scrollbar for expanded UI components
 - **Responsive Design**: Interface adapts to window size and content
 - **Visual Feedback**: Success messages and clear status indicators
 ### 🎯 User Experience Improvements
 - **Centralized Dose Management**: All dose operations consolidated in edit windows
 - **Quick Entry Options**: Pre-configured dose buttons for common amounts
 - **Format Guidance**: Clear instructions and format examples
 - **Real-time Updates**: Immediate feedback and data updates
 - **Error Handling**: Comprehensive error messages and recovery options
 ## Technical Architecture
 ### 🏗️ Modular Design
 - **MedicineManager**: Core medicine CRUD operations
 - **PathologyManager**: Symptom and pathology management
 - **GraphManager**: All graph-related operations and visualizations
 - **UIManager**: User interface creation and management
 - **DataManager**: CSV operations and data persistence
 ### 🔧 Configuration Management
 - **JSON-based Configuration**: `medicines.json` and `pathologies.json`
 - **Dynamic Loading**: Runtime configuration updates
 - **Validation**: Input validation and error handling
 - **Backward Compatibility**: Seamless updates and migrations
 ### 📈 Data Processing
 - **Pandas Integration**: Efficient data manipulation and analysis
 - **Matplotlib Visualization**: Professional graph rendering
 - **Robust Parsing**: Handles various data formats and edge cases
 - **Real-time Calculations**: Dynamic dose totals and averages
 ## Deployment and Distribution
 ### 📦 Standalone Executable
 - **PyInstaller Integration**: Creates self-contained executables
 - **Cross-platform Support**: Linux deployment with desktop integration
 - **Automatic Installation**: Installs to `~/Applications/` with desktop entry
 - **Data Migration**: Copies data files to appropriate user directories
 ### 🐳 Docker Support
 - **Multi-platform Images**: Docker container support
 - **Docker Compose**: Easy container management
 - **Development Environment**: Consistent development setup across platforms
 ### 🔄 Package Management
 - **UV Integration**: Fast Python package management with Rust performance
 - **Virtual Environment**: Isolated dependency management
 - **Lock Files**: Reproducible builds with `uv.lock`
 - **Development Dependencies**: Separate dev dependencies for clean production builds
 ## Integration Features
 ### 🔄 Import/Export
 - **CSV Import**: Import existing medication data
 - **Data Export**: Export data for backup or analysis
 - **Format Compatibility**: Standard CSV format for portability
 ### 🔌 API Integration
 - **Extensible Architecture**: Plugin system for future enhancements
 - **Medicine API**: Programmatic medicine management
 - **Data API**: Direct data access and manipulation
 ## Future Enhancements
 ### 🚀 Planned Features
 - **Mobile Companion App**: Mobile dose tracking and reminders
 - **Cloud Synchronization**: Multi-device data synchronization
 - **Advanced Analytics**: Machine learning-based trend analysis
 - **Reminder System**: Intelligent dose reminders and scheduling
 - **Doctor Integration**: Export reports for healthcare providers
 ### 🎯 Development Roadmap
 - **macOS/Windows Support**: Extended platform support
 - **Plugin Architecture**: Third-party extension support
 - **API Development**: RESTful API for external integrations
 - **Advanced Visualizations**: Additional chart types and analysis tools
 ---
 For detailed usage instructions, see the main [README.md](../README.md).
 For development information, see [DEVELOPMENT.md](DEVELOPMENT.md).
@@ -0,0 +1,76 @@
 # TheChart Documentation
 Welcome to TheChart documentation! This guide will help you navigate the available documentation.
 ## 📖 Documentation Index
 ### For Users
 - **[README.md](../README.md)** - Quick start guide and installation
 - **[Features Guide](FEATURES.md)** - Complete feature documentation
  - Modular Medicine System
  - Advanced Dose Tracking
  - Graph Visualizations
  - Data Management
 ### For Developers
 - **[Development Guide](DEVELOPMENT.md)** - Development setup and testing
  - Testing Framework (93% coverage)
  - Code Quality Tools
  - Architecture Overview
  - Debugging Guide
 ### Project History
 - **[Changelog](CHANGELOG.md)** - Version history and feature evolution
  - Recent updates and improvements
  - Migration notes
  - Future roadmap
 ## 🚀 Quick Navigation
 ### Getting Started
 1. **Installation**: See [README.md - Installation](../README.md#installation)
 2. **First Run**: See [README.md - Running the Application](../README.md#running-the-application)
 3. **Key Features**: See [FEATURES.md](FEATURES.md)
 ### Development
 1. **Setup**: See [DEVELOPMENT.md - Development Environment Setup](DEVELOPMENT.md#development-environment-setup)
 2. **Testing**: See [DEVELOPMENT.md - Testing Framework](DEVELOPMENT.md#testing-framework)
 3. **Contributing**: See [DEVELOPMENT.md - Development Workflow](DEVELOPMENT.md#development-workflow)
 ### Advanced Usage
 1. **Medicine Management**: See [FEATURES.md - Modular Medicine System](FEATURES.md#-modular-medicine-system)
 2. **Dose Tracking**: See [FEATURES.md - Advanced Dose Tracking](FEATURES.md#-advanced-dose-tracking)
 3. **Visualizations**: See [FEATURES.md - Enhanced Graph Visualization](FEATURES.md#-enhanced-graph-visualization)
 ## 📋 Documentation Standards
 All documentation follows these principles:
 - **Clear Structure**: Hierarchical organization with clear headings
 - **Practical Examples**: Code snippets and usage examples
 - **Up-to-date**: Synchronized with current codebase
 - **Comprehensive**: Covers all major features and workflows
 - **Cross-referenced**: Links between related sections
 ## 🔍 Finding Information
 ### By Topic
 - **Installation & Setup** → [README.md](../README.md)
 - **Feature Usage** → [FEATURES.md](FEATURES.md)
 - **Development** → [DEVELOPMENT.md](DEVELOPMENT.md)
 - **Version History** → [CHANGELOG.md](CHANGELOG.md)
 ### By User Type
 - **End Users** → Start with [README.md](../README.md), then [FEATURES.md](FEATURES.md)
 - **Developers** → [DEVELOPMENT.md](DEVELOPMENT.md) and [CHANGELOG.md](CHANGELOG.md)
 - **Contributors** → All documentation, especially [DEVELOPMENT.md](DEVELOPMENT.md)
 ### By Task
 - **Install TheChart** → [README.md - Installation](../README.md#installation)
 - **Add New Medicine** → [FEATURES.md - Modular Medicine System](FEATURES.md#-modular-medicine-system)
 - **Track Doses** → [FEATURES.md - Advanced Dose Tracking](FEATURES.md#-advanced-dose-tracking)
 - **Run Tests** → [DEVELOPMENT.md - Testing Framework](DEVELOPMENT.md#testing-framework)
 - **Deploy Application** → [README.md - Deployment](../README.md#deployment)
 ---
 **Need help?** Check the troubleshooting sections in [README.md](../README.md#troubleshooting) and [DEVELOPMENT.md](DEVELOPMENT.md#debugging-and-troubleshooting).
@@ -0,0 +1,62 @@
 {
  "medicines": [
    {
      "key": "bupropion",
      "display_name": "Bupropion",
      "dosage_info": "150/300 mg",
      "quick_doses": [
        "150",
        "300"
      ],
      "color": "#FF6B6B",
      "default_enabled": false
    },
    {
      "key": "hydroxyzine",
      "display_name": "Hydroxyzine",
      "dosage_info": "25 mg",
      "quick_doses": [
        "25",
        "50"
      ],
      "color": "#4ECDC4",
      "default_enabled": false
    },
    {
      "key": "gabapentin",
      "display_name": "Gabapentin",
      "dosage_info": "100 mg",
      "quick_doses": [
        "100",
        "300",
        "600"
      ],
      "color": "#45B7D1",
      "default_enabled": false
    },
    {
      "key": "propranolol",
      "display_name": "Propranolol",
      "dosage_info": "10 mg",
      "quick_doses": [
        "10",
        "20",
        "40"
      ],
      "color": "#96CEB4",
      "default_enabled": false
    },
    {
      "key": "quetiapine",
      "display_name": "Quetiapine",
      "dosage_info": "25 mg",
      "quick_doses": [
        "25",
        "50",
        "100"
      ],
      "color": "#FFEAA7",
      "default_enabled": false
    }
  ]
 }
@@ -0,0 +1 @@
 date,depression,anxiety,sleep,appetite,bupropion,bupropion_doses,hydroxyzine,hydroxyzine_doses,gabapentin,gabapentin_doses,propranolol,propranolol_doses,quetiapine,quetiapine_doses,note
@@ -0,0 +1,44 @@
 {
    "pathologies": [
        {
            "key": "depression",
            "display_name": "Depression",
            "scale_info": "0:good, 10:bad",
            "color": "#FF6B6B",
            "default_enabled": true,
            "scale_min": 0,
            "scale_max": 10,
            "scale_orientation": "normal"
        },
        {
            "key": "anxiety",
            "display_name": "Anxiety",
            "scale_info": "0:good, 10:bad",
            "color": "#FFA726",
            "default_enabled": true,
            "scale_min": 0,
            "scale_max": 10,
            "scale_orientation": "normal"
        },
        {
            "key": "sleep",
            "display_name": "Sleep Quality",
            "scale_info": "0:bad, 10:good",
            "color": "#66BB6A",
            "default_enabled": true,
            "scale_min": 0,
            "scale_max": 10,
            "scale_orientation": "inverted"
        },
        {
            "key": "appetite",
            "display_name": "Appetite",
            "scale_info": "0:bad, 10:good",
            "color": "#42A5F5",
            "default_enabled": true,
            "scale_min": 0,
            "scale_max": 10,
            "scale_orientation": "inverted"
        }
    ]
 }
@@ -1,6 +1,6 @@
 [project]
 name = "thechart"
-version = "1.0.1"
+version = "1.6.1"
 description = "Chart to monitor your medication intake over time."
 readme = "README.md"
 requires-python = ">=3.13"
@@ -13,7 +13,47 @@ dependencies = [
 ]
 [dependency-groups]
-dev = ["pre-commit>=4.2.0", "pyinstaller>=6.14.2", "ruff>=0.12.5"]
+dev = [
    "pre-commit>=4.2.0",
    "pyinstaller>=6.14.2",
    "ruff>=0.12.5",
    "pytest>=8.0.0",
    "pytest-cov>=4.0.0",
    "pytest-mock>=3.12.0",
    "coverage>=7.3.0",
 ]
 [tool.pytest.ini_options]
 testpaths = ["tests"]
 python_files = ["test_*.py", "*_test.py"]
 python_classes = ["Test*"]
 python_functions = ["test_*"]
 addopts = [
    "--verbose",
    "--cov=src",
    "--cov-report=term-missing",
    "--cov-report=html:htmlcov",
    "--cov-report=xml",
 ]
 minversion = "8.0"
 [tool.coverage.run]
 source = ["src"]
 omit = ["tests/*", "*/test_*", "*/__pycache__/*", ".venv/*"]
 [tool.coverage.report]
 exclude_lines = [
    "pragma: no cover",
    "def __repr__",
    "if self.debug:",
    "if settings.DEBUG",
    "raise AssertionError",
    "raise NotImplementedError",
    "if 0:",
    "if __name__ == .__main__.:",
    "class .*\\bProtocol\\):",
    "@(abc\\.)?abstractmethod",
 ]
 [tool.ruff]
 target-version = "py313" # Target Python 3.13
@@ -3,3 +3,7 @@
 pre-commit
 pyinstaller
 pytest>=8.0.0
 pytest-cov>=4.0.0
 pytest-mock>=3.12.0
 coverage>=7.3.0
@@ -0,0 +1,45 @@
 #!/usr/bin/env python3
 """
 Test runner script for TheChart application.
 Run this script to execute all tests with coverage reporting.
 """
 import os
 import subprocess
 import sys
 def run_tests():
    """Run all tests with coverage reporting."""
    # Change to project root directory
    project_root = os.path.dirname(os.path.dirname(os.path.abspath(__file__)))
    os.chdir(project_root)
    print("Running TheChart tests with coverage...")
    print(f"Project root: {project_root}")
    # Run pytest with coverage
    cmd = [
        sys.executable,
        "-m",
        "pytest",
        "tests/",
        "--verbose",
        "--cov=src",
        "--cov-report=term-missing",
        "--cov-report=html:htmlcov",
        "--cov-report=xml",
    ]
    try:
        result = subprocess.run(cmd, check=False)
        return result.returncode
    except Exception as e:
        print(f"Error running tests: {e}")
        return 1
 if __name__ == "__main__":
    exit_code = run_tests()
    sys.exit(exit_code)
@@ -1,8 +1,12 @@
 import os
 import sys
 from dotenv import load_dotenv
-load_dotenv(override=True)
+extDataDir = os.getcwd()
 if getattr(sys, "frozen", False):
    extDataDir = sys._MEIPASS
 load_dotenv(dotenv_path=os.path.join(extDataDir, ".env"))
 LOG_LEVEL = os.getenv("LOG_LEVEL", "INFO").upper()
 LOG_PATH = os.getenv("LOG_PATH", "/tmp/logs/thechart")
@@ -4,34 +4,47 @@ import os
 import pandas as pd
 from medicine_manager import MedicineManager
 from pathology_manager import PathologyManager
 class DataManager:
    """Handle all data operations for the application."""
-    def __init__(self, filename: str, logger: logging.Logger) -> None:
+    def __init__(
        self,
        filename: str,
        logger: logging.Logger,
        medicine_manager: MedicineManager,
        pathology_manager: PathologyManager,
    ) -> None:
        self.filename: str = filename
        self.logger: logging.Logger = logger
-        self.initialize_csv()
+        self.medicine_manager = medicine_manager
        self.pathology_manager = pathology_manager
        self._initialize_csv_file()
-    def initialize_csv(self) -> None:
+    def _get_csv_headers(self) -> list[str]:
-        """Create CSV file with headers if it doesn't exist."""
+        """Get CSV headers based on current pathology and medicine configuration."""
-        if not os.path.exists(self.filename):
+        # Start with date
        headers = ["date"]
        # Add pathology headers
        for pathology_key in self.pathology_manager.get_pathology_keys():
            headers.append(pathology_key)
        # Add medicine headers
        for medicine_key in self.medicine_manager.get_medicine_keys():
            headers.extend([medicine_key, f"{medicine_key}_doses"])
        return headers + ["note"]
    def _initialize_csv_file(self) -> None:
        """Create CSV file with headers if it doesn't exist or is empty."""
        if not os.path.exists(self.filename) or os.path.getsize(self.filename) == 0:
            with open(self.filename, mode="w", newline="") as file:
                writer = csv.writer(file)
-                writer.writerow(
+                writer.writerow(self._get_csv_headers())
                    [
                        "date",
                        "depression",
                        "anxiety",
                        "sleep",
                        "appetite",
                        "bupropion",
                        "hydroxyzine",
                        "gabapentin",
                        "propranolol",
                        "note",
                    ]
                )
    def load_data(self) -> pd.DataFrame:
        """Load data from CSV file."""
@@ -40,21 +53,19 @@ class DataManager:
            return pd.DataFrame()
        try:
-            df: pd.DataFrame = pd.read_csv(
+            # Build dtype dictionary dynamically
-                self.filename,
+            dtype_dict = {"date": str, "note": str}
-                dtype={
+
-                    "depression": int,
+            # Add pathology types
-                    "anxiety": int,
+            for pathology_key in self.pathology_manager.get_pathology_keys():
-                    "sleep": int,
+                dtype_dict[pathology_key] = int
-                    "appetite": int,
+
-                    "bupropion": int,
+            # Add medicine types
-                    "hydroxyzine": int,
+            for medicine_key in self.medicine_manager.get_medicine_keys():
-                    "gabapentin": int,
+                dtype_dict[medicine_key] = int
-                    "propranolol": int,
+                dtype_dict[f"{medicine_key}_doses"] = str
-                    "note": str,
+
-                    "date": str,
+            df: pd.DataFrame = pd.read_csv(self.filename, dtype=dtype_dict).fillna("")
                },
            ).fillna("")
            return df.sort_values(by="date").reset_index(drop=True)
        except pd.errors.EmptyDataError:
            self.logger.warning("CSV file is empty. No data to load.")
@@ -66,6 +77,14 @@ class DataManager:
    def add_entry(self, entry_data: list[str | int]) -> bool:
        """Add a new entry to the CSV file."""
        try:
            # Check if date already exists
            df: pd.DataFrame = self.load_data()
            date_to_add: str = str(entry_data[0])
            if not df.empty and date_to_add in df["date"].values:
                self.logger.warning(f"Entry with date {date_to_add} already exists.")
                return False
            with open(self.filename, mode="a", newline="") as file:
                writer = csv.writer(file)
                writer.writerow(entry_data)
@@ -74,26 +93,37 @@ class DataManager:
            self.logger.error(f"Error adding entry: {str(e)}")
            return False
-    def update_entry(self, date: str, values: list[str | int]) -> bool:
+    def update_entry(self, original_date: str, values: list[str | int]) -> bool:
-        """Update an existing entry identified by date."""
+        """Update an existing entry identified by original_date."""
        try:
            df: pd.DataFrame = self.load_data()
-            # Find the row to update using date as a unique identifier
+            new_date: str = str(values[0])
-            df.loc[
+
-                df["date"] == date,
+            # If the date is being changed, check if the new date already exists
-                [
+            if original_date != new_date and new_date in df["date"].values:
-                    "date",
+                self.logger.warning(
-                    "depression",
+                    f"Cannot update: entry with date {new_date} already exists."
-                    "anxiety",
+                )
-                    "sleep",
+                return False
-                    "appetite",
+
-                    "bupropion",
+            # Get current CSV headers to match with values
-                    "hydroxyzine",
+            headers = self._get_csv_headers()
-                    "gabapentin",
+
-                    "propranolol",
+            # Ensure we have the right number of values
-                    "note",
+            if len(values) != len(headers):
-                ],
+                self.logger.warning(
-            ] = values
+                    f"Value count mismatch: expected {len(headers)}, got {len(values)}"
                )
                # Pad with defaults if too few values
                while len(values) < len(headers):
                    header = headers[len(values)]
                    if header == "note" or header.endswith("_doses"):
                        values.append("")
                    else:
                        values.append(0)
            # Update the row using column names
            df.loc[df["date"] == original_date, headers] = values
            df.to_csv(self.filename, index=False)
            return True
        except Exception as e:
@@ -112,3 +142,29 @@ class DataManager:
        except Exception as e:
            self.logger.error(f"Error deleting entry: {str(e)}")
            return False
    def get_today_medicine_doses(
        self, date: str, medicine_name: str
    ) -> list[tuple[str, str]]:
        """Get list of (timestamp, dose) tuples for a medicine on a given date."""
        try:
            df: pd.DataFrame = self.load_data()
            if df.empty or date not in df["date"].values:
                return []
            dose_column = f"{medicine_name}_doses"
            doses_str = df.loc[df["date"] == date, dose_column].iloc[0]
            if not doses_str:
                return []
            doses = []
            for dose_entry in doses_str.split("|"):
                if ":" in dose_entry:
                    timestamp, dose = dose_entry.split(":", 1)
                    doses.append((timestamp, dose))
            return doses
        except Exception as e:
            self.logger.error(f"Error getting medicine doses: {str(e)}")
            return []
@@ -7,31 +7,54 @@ import pandas as pd
 from matplotlib.axes import Axes
 from matplotlib.backends.backend_tkagg import FigureCanvasTkAgg
 from medicine_manager import MedicineManager
 from pathology_manager import PathologyManager
 class GraphManager:
    """Handle all graph-related operations for the application."""
-    def __init__(self, parent_frame: ttk.LabelFrame) -> None:
+    def __init__(
        self,
        parent_frame: ttk.LabelFrame,
        medicine_manager: MedicineManager,
        pathology_manager: PathologyManager,
    ) -> None:
        self.parent_frame: ttk.LabelFrame = parent_frame
        self.medicine_manager = medicine_manager
        self.pathology_manager = pathology_manager
        # Configure graph frame to expand
        self.parent_frame.grid_rowconfigure(0, weight=1)
        self.parent_frame.grid_columnconfigure(0, weight=1)
-        # Initialize toggle variables for chart elements
+        self._initialize_toggle_vars()
-        self.toggle_vars: dict[str, tk.BooleanVar] = {
+        self._setup_ui()
            "depression": tk.BooleanVar(value=True),
            "anxiety": tk.BooleanVar(value=True),
            "sleep": tk.BooleanVar(value=True),
            "appetite": tk.BooleanVar(value=True),
        }
    def _initialize_toggle_vars(self) -> None:
        """Initialize toggle variables for chart elements."""
        self.toggle_vars: dict[str, tk.BooleanVar] = {}
        # Initialize pathology toggles dynamically
        for pathology_key in self.pathology_manager.get_pathology_keys():
            pathology = self.pathology_manager.get_pathology(pathology_key)
            default_value = pathology.default_enabled if pathology else True
            self.toggle_vars[pathology_key] = tk.BooleanVar(value=default_value)
        # Add medicine toggles dynamically
        for medicine_key in self.medicine_manager.get_medicine_keys():
            medicine = self.medicine_manager.get_medicine(medicine_key)
            default_value = medicine.default_enabled if medicine else False
            self.toggle_vars[medicine_key] = tk.BooleanVar(value=default_value)
    def _setup_ui(self) -> None:
        """Set up the UI components."""
        # Create control frame for toggles
        self.control_frame: ttk.Frame = ttk.Frame(self.parent_frame)
        self.control_frame.grid(row=0, column=0, sticky="ew", padx=5, pady=5)
        # Create toggle checkboxes
-        self._create_toggle_controls()
+        self._create_chart_toggles()
        # Create graph frame
        self.graph_frame: ttk.Frame = ttk.Frame(self.parent_frame)
@@ -53,29 +76,43 @@ class GraphManager:
        # Store current data for replotting
        self.current_data: pd.DataFrame = pd.DataFrame()
-    def _create_toggle_controls(self) -> None:
+    def _create_chart_toggles(self) -> None:
        """Create toggle controls for chart elements."""
        ttk.Label(self.control_frame, text="Show/Hide Elements:").pack(
            side="left", padx=5
        )
-        toggle_configs = [
+        # Pathologies toggles - dynamic based on pathology manager
-            ("depression", "Depression"),
+        pathologies_frame = ttk.LabelFrame(self.control_frame, text="Pathologies")
-            ("anxiety", "Anxiety"),
+        pathologies_frame.pack(side="left", padx=5, pady=2)
            ("sleep", "Sleep"),
            ("appetite", "Appetite"),
        ]
-        for key, label in toggle_configs:
+        for pathology_key in self.pathology_manager.get_pathology_keys():
-            checkbox = ttk.Checkbutton(
+            pathology = self.pathology_manager.get_pathology(pathology_key)
-                self.control_frame,
+            if pathology:
-                text=label,
+                checkbox = ttk.Checkbutton(
-                variable=self.toggle_vars[key],
+                    pathologies_frame,
-                command=self._on_toggle_changed,
+                    text=pathology.display_name,
-            )
+                    variable=self.toggle_vars[pathology_key],
-            checkbox.pack(side="left", padx=5)
+                    command=self._handle_toggle_changed,
                )
                checkbox.pack(side="left", padx=3)
-    def _on_toggle_changed(self) -> None:
+        # Medicines toggles - dynamic based on medicine manager
        medicines_frame = ttk.LabelFrame(self.control_frame, text="Medicines")
        medicines_frame.pack(side="left", padx=5, pady=2)
        for medicine_key in self.medicine_manager.get_medicine_keys():
            medicine = self.medicine_manager.get_medicine(medicine_key)
            if medicine:
                checkbox = ttk.Checkbutton(
                    medicines_frame,
                    text=medicine.display_name,
                    variable=self.toggle_vars[medicine_key],
                    command=self._handle_toggle_changed,
                )
                checkbox.pack(side="left", padx=3)
    def _handle_toggle_changed(self) -> None:
        """Handle toggle changes by replotting the graph."""
        if not self.current_data.empty:
            self._plot_graph_data(self.current_data)
@@ -98,30 +135,110 @@ class GraphManager:
            # Track if any series are plotted
            has_plotted_series = False
-            # Plot data series based on toggle states
+            # Plot pathology data series based on toggle states
-            if self.toggle_vars["depression"].get():
+            for pathology_key in self.pathology_manager.get_pathology_keys():
-                self._plot_series(
+                if self.toggle_vars[pathology_key].get():
-                    df, "depression", "Depression (0:good, 10:bad)", "o", "-"
+                    pathology = self.pathology_manager.get_pathology(pathology_key)
-                )
+                    if pathology and pathology_key in df.columns:
-                has_plotted_series = True
+                        label = f"{pathology.display_name} ({pathology.scale_info})"
-            if self.toggle_vars["anxiety"].get():
+                        linestyle = (
-                self._plot_series(df, "anxiety", "Anxiety (0:good, 10:bad)", "o", "-")
+                            "dashed"
-                has_plotted_series = True
+                            if pathology.scale_orientation == "inverted"
-            if self.toggle_vars["sleep"].get():
+                            else "-"
-                self._plot_series(df, "sleep", "Sleep (0:bad, 10:good)", "o", "dashed")
+                        )
-                has_plotted_series = True
+                        self._plot_series(df, pathology_key, label, "o", linestyle)
-            if self.toggle_vars["appetite"].get():
+                        has_plotted_series = True
-                self._plot_series(
+
-                    df, "appetite", "Appetite (0:bad, 10:good)", "o", "dashed"
+            # Plot medicine dose data
-                )
+            # Get medicine colors from medicine manager
-                has_plotted_series = True
+            medicine_colors = self.medicine_manager.get_graph_colors()
            # Get medicines dynamically from medicine manager
            medicines = self.medicine_manager.get_medicine_keys()
            # Track medicines with and without data for legend
            medicines_with_data = []
            medicines_without_data = []
            for medicine in medicines:
                dose_column = f"{medicine}_doses"
                if self.toggle_vars[medicine].get() and dose_column in df.columns:
                    # Calculate daily dose totals
                    daily_doses = []
                    for dose_str in df[dose_column]:
                        total_dose = self._calculate_daily_dose(dose_str)
                        daily_doses.append(total_dose)
                    # Only plot if there are non-zero doses
                    if any(dose > 0 for dose in daily_doses):
                        medicines_with_data.append(medicine)
                        # Scale doses for better visibility
                        # (divide by 10 to fit with 0-10 scale)
                        scaled_doses = [dose / 10 for dose in daily_doses]
                        # Calculate total dosage for this medicine across all days
                        total_medicine_dose = sum(daily_doses)
                        non_zero_doses = [d for d in daily_doses if d > 0]
                        avg_dose = total_medicine_dose / len(non_zero_doses)
                        # Create more informative label
                        label = f"{medicine.capitalize()} (avg: {avg_dose:.1f}mg)"
                        self.ax.bar(
                            df.index,
                            scaled_doses,
                            alpha=0.6,
                            color=medicine_colors.get(medicine, "#DDA0DD"),
                            label=label,
                            width=0.6,
                            bottom=-max(scaled_doses) * 1.1 if scaled_doses else -1,
                        )
                        has_plotted_series = True
                    else:
                        # Medicine is toggled on but has no dose data
                        if self.toggle_vars[medicine].get():
                            medicines_without_data.append(medicine)
            # Configure graph appearance
            if has_plotted_series:
-                self.ax.legend()
+                # Get current legend handles and labels
                handles, labels = self.ax.get_legend_handles_labels()
                # Add information about medicines without data if any are toggled on
                if medicines_without_data:
                    # Add a text note about medicines without dose data
                    med_list = ", ".join(medicines_without_data)
                    info_text = f"Tracked (no doses): {med_list}"
                    labels.append(info_text)
                    # Create a dummy handle for the info text (invisible)
                    from matplotlib.patches import Rectangle
                    dummy_handle = Rectangle(
                        (0, 0), 1, 1, fc="w", fill=False, edgecolor="none", linewidth=0
                    )
                    handles.append(dummy_handle)
                # Create an expanded legend with better formatting
                self.ax.legend(
                    handles,
                    labels,
                    loc="upper left",
                    bbox_to_anchor=(0, 1),
                    ncol=2,  # Display in 2 columns for better space usage
                    fontsize="small",
                    frameon=True,
                    fancybox=True,
                    shadow=True,
                    framealpha=0.9,
                )
            self.ax.set_title("Medication Effects Over Time")
            self.ax.set_xlabel("Date")
-            self.ax.set_ylabel("Rating (0-10)")
+            self.ax.set_ylabel("Rating (0-10) / Dose (mg)")
            # Adjust y-axis to accommodate medicine bars at bottom
            current_ylim = self.ax.get_ylim()
            self.ax.set_ylim(bottom=current_ylim[0], top=max(10, current_ylim[1]))
            self.fig.autofmt_xdate()
        # Redraw the canvas
@@ -144,6 +261,42 @@ class GraphManager:
            label=label,
        )
    def _calculate_daily_dose(self, dose_str: str) -> float:
        """Calculate total daily dose from dose string format."""
        if not dose_str or pd.isna(dose_str) or str(dose_str).lower() == "nan":
            return 0.0
        total_dose = 0.0
        # Handle different separators and clean the string
        dose_str = str(dose_str).replace("•", "").strip()
        # Split by | or by spaces if no | present
        dose_entries = dose_str.split("|") if "|" in dose_str else [dose_str]
        for entry in dose_entries:
            entry = entry.strip()
            if not entry:
                continue
            try:
                # Extract dose part after the last colon (timestamp:dose format)
                dose_part = entry.split(":")[-1] if ":" in entry else entry
                # Extract numeric part from dose (e.g., "150mg" -> 150)
                dose_value = ""
                for char in dose_part:
                    if char.isdigit() or char == ".":
                        dose_value += char
                    elif dose_value:  # Stop at first non-digit after finding digits
                        break
                if dose_value:
                    total_dose += float(dose_value)
            except (ValueError, IndexError):
                continue
        return total_dose
    def close(self) -> None:
        """Clean up resources."""
        plt.close(self.fig)
@@ -2,7 +2,7 @@ import os
 import sys
 import tkinter as tk
 from collections.abc import Callable
-from tkinter import messagebox
+from tkinter import messagebox, ttk
 from typing import Any
 import pandas as pd
@@ -11,6 +11,10 @@ from constants import LOG_LEVEL, LOG_PATH
 from data_manager import DataManager
 from graph_manager import GraphManager
 from init import logger
 from medicine_management_window import MedicineManagementWindow
 from medicine_manager import MedicineManager
 from pathology_management_window import PathologyManagementWindow
 from pathology_manager import PathologyManager
 from ui_manager import UIManager
@@ -19,7 +23,7 @@ class MedTrackerApp:
        self.root: tk.Tk = root
        self.root.resizable(True, True)
        self.root.title("Thechart - medication tracker")
-        self.root.protocol("WM_DELETE_WINDOW", self.on_closing)
+        self.root.protocol("WM_DELETE_WINDOW", self.handle_window_closing)
        # Set up data file
        self.filename: str = "thechart_data.csv"
@@ -42,18 +46,27 @@ class MedTrackerApp:
            logger.debug(f"First argument: {first_argument}")
        # Initialize managers
-        self.ui_manager: UIManager = UIManager(root, logger)
+        self.medicine_manager: MedicineManager = MedicineManager(logger=logger)
-        self.data_manager: DataManager = DataManager(self.filename, logger)
+        self.pathology_manager: PathologyManager = PathologyManager(logger=logger)
        self.ui_manager: UIManager = UIManager(
            root, logger, self.medicine_manager, self.pathology_manager
        )
        self.data_manager: DataManager = DataManager(
            self.filename, logger, self.medicine_manager, self.pathology_manager
        )
        # Set up application icon
        icon_path: str = "chart-671.png"
        if not os.path.exists(icon_path) and os.path.exists("./chart-671.png"):
            icon_path = "./chart-671.png"
-        self.ui_manager.setup_icon(img_path=icon_path)
+        self.ui_manager.setup_application_icon(img_path=icon_path)
        # Set up the main application UI
        self._setup_main_ui()
        # Add menu bar
        self._setup_menu()
    def _setup_main_ui(self) -> None:
        """Set up the main UI components."""
        import tkinter.ttk as ttk
@@ -74,41 +87,104 @@ class MedTrackerApp:
        # --- Create Graph Frame ---
        graph_frame: ttk.Frame = self.ui_manager.create_graph_frame(main_frame)
-        self.graph_manager: GraphManager = GraphManager(graph_frame)
+        self.graph_manager: GraphManager = GraphManager(
            graph_frame, self.medicine_manager, self.pathology_manager
        )
        # --- Create Input Frame ---
        input_ui: dict[str, Any] = self.ui_manager.create_input_frame(main_frame)
        self.input_frame: ttk.Frame = input_ui["frame"]
-        self.symptom_vars: dict[str, tk.IntVar] = input_ui["symptom_vars"]
+        self.pathology_vars: dict[str, tk.IntVar] = input_ui["pathology_vars"]
-        self.medicine_vars: dict[str, list[tk.IntVar | ttk.Spinbox]] = input_ui[
+        self.medicine_vars: dict[str, tuple[tk.IntVar, str]] = input_ui["medicine_vars"]
            "medicine_vars"
        ]
        self.note_var: tk.StringVar = input_ui["note_var"]
        self.date_var: tk.StringVar = input_ui["date_var"]
        # Add buttons to input frame
-        self.ui_manager.add_buttons(
+        self.ui_manager.add_action_buttons(
            self.input_frame,
            [
                {
                    "text": "Add Entry",
-                    "command": self.add_entry,
+                    "command": self.add_new_entry,
                    "fill": "both",
                    "expand": True,
                },
-                {"text": "Quit", "command": self.on_closing},
+                {"text": "Quit", "command": self.handle_window_closing},
            ],
        )
        # --- Create Table Frame ---
        table_ui: dict[str, Any] = self.ui_manager.create_table_frame(main_frame)
        self.tree: ttk.Treeview = table_ui["tree"]
-        self.tree.bind("<Double-1>", self.on_double_click)
+        self.tree.bind("<Double-1>", self.handle_double_click)
        # Load data
-        self.load_data()
+        self.refresh_data_display()
-    def on_double_click(self, event: tk.Event) -> None:
+    def _setup_menu(self) -> None:
        """Set up the menu bar."""
        menubar = tk.Menu(self.root)
        self.root.config(menu=menubar)
        # Tools menu
        tools_menu = tk.Menu(menubar, tearoff=0)
        menubar.add_cascade(label="Tools", menu=tools_menu)
        tools_menu.add_command(
            label="Manage Pathologies...", command=self._open_pathology_manager
        )
        tools_menu.add_command(
            label="Manage Medicines...", command=self._open_medicine_manager
        )
    def _open_pathology_manager(self) -> None:
        """Open the pathology management window."""
        PathologyManagementWindow(
            self.root, self.pathology_manager, self._refresh_ui_after_config_change
        )
    def _open_medicine_manager(self) -> None:
        """Open the medicine management window."""
        MedicineManagementWindow(
            self.root, self.medicine_manager, self._refresh_ui_after_config_change
        )
    def _refresh_ui_after_config_change(self) -> None:
        """Refresh UI components after pathology or medicine configuration changes."""
        # Recreate the input frame with new pathologies and medicines
        self.input_frame.destroy()
        input_ui: dict[str, Any] = self.ui_manager.create_input_frame(
            self.input_frame.master
        )
        self.input_frame: ttk.Frame = input_ui["frame"]
        self.pathology_vars: dict[str, tk.IntVar] = input_ui["pathology_vars"]
        self.medicine_vars: dict[str, tuple[tk.IntVar, str]] = input_ui["medicine_vars"]
        # Add buttons to input frame
        self.ui_manager.add_action_buttons(
            self.input_frame,
            [
                {
                    "text": "Add Entry",
                    "command": self.add_new_entry,
                    "fill": "both",
                    "expand": True,
                },
                {"text": "Quit", "command": self.handle_window_closing},
            ],
        )
        # Recreate the table with new columns
        self.tree.destroy()
        table_ui: dict[str, Any] = self.ui_manager.create_table_frame(
            self.tree.master.master
        )
        self.tree: ttk.Treeview = table_ui["tree"]
        self.tree.bind("<Double-1>", self.handle_double_click)
        # Refresh data display
        self.refresh_data_display()
    def handle_double_click(self, event: tk.Event) -> None:
        """Handle double-click event to edit an entry."""
        logger.debug("Double-click event triggered on treeview.")
        if len(self.tree.get_children()) > 0:
@@ -119,84 +195,187 @@ class MedTrackerApp:
    def _create_edit_window(self, item_id: str, values: tuple[str, ...]) -> None:
        """Create a new Toplevel window for editing an entry."""
        original_date = values[0]  # Store the original date
        # Get the full row data from the CSV (including dose columns)
        df = self.data_manager.load_data()
        if not df.empty and original_date in df["date"].values:
            full_row = df[df["date"] == original_date].iloc[0]
            # Convert to tuple in the expected order for the edit window
            full_values = [full_row["date"]]
            # Add pathology data dynamically
            for pathology_key in self.pathology_manager.get_pathology_keys():
                if pathology_key in full_row:
                    full_values.append(full_row[pathology_key])
                else:
                    full_values.append(0)
            # Add medicine data dynamically
            for medicine_key in self.medicine_manager.get_medicine_keys():
                if medicine_key in full_row:
                    full_values.append(full_row[medicine_key])
                    full_values.append(full_row.get(f"{medicine_key}_doses", ""))
                else:
                    full_values.extend([0, ""])
            full_values.append(full_row["note"])
            full_values = tuple(full_values)
        else:
            # Fallback to the table values if full data not found
            full_values = values
        # Define callbacks for edit window buttons
        callbacks: dict[str, Callable] = {
-            "save": self._save_edit,
+            "save": lambda win, *args: self._save_edit(win, original_date, *args),
            "delete": lambda win: self._delete_entry(win, item_id),
        }
-        # Create edit window using UI manager
+        # Create edit window using UI manager with full data
-        _: tk.Toplevel = self.ui_manager.create_edit_window(values, callbacks)
+        _: tk.Toplevel = self.ui_manager.create_edit_window(full_values, callbacks)
    def _save_edit(
        self,
        edit_win: tk.Toplevel,
-        date: str,
+        original_date: str,
-        dep: int,
+        *args,
        anx: int,
        slp: int,
        app: int,
        bup: int,
        hydro: int,
        gaba: int,
        prop: int,
        note: str,
    ) -> None:
-        """Save the edited data to the CSV file."""
+        """Save edited data to CSV file with dynamic pathology/medicine support."""
-        values: list[str | int] = [
+        # Parse dynamic arguments
-            date,
+        # Format: date, pathology1, pathology2, ..., medicine1, medicine2,
-            dep,
+        # ..., note, dose_data
            anx,
            slp,
            app,
            bup,
            hydro,
            gaba,
            prop,
            note,
        ]
-        if self.data_manager.update_entry(date, values):
+        if len(args) < 2:  # At minimum need date and note
            messagebox.showerror("Error", "Invalid save data format", parent=edit_win)
            return
        # Extract arguments
        date = args[0]
        # Get pathology count to extract values
        pathology_keys = self.pathology_manager.get_pathology_keys()
        medicine_keys = self.medicine_manager.get_medicine_keys()
        # Expected format: date, pathology_values..., medicine_values...,
        # note, dose_data
        expected_pathology_count = len(pathology_keys)
        expected_medicine_count = len(medicine_keys)
        # Extract pathology values
        pathology_values = []
        for i in range(expected_pathology_count):
            if i + 1 < len(args):
                pathology_values.append(args[i + 1])
            else:
                pathology_values.append(0)
        # Extract medicine values
        medicine_values = []
        medicine_start_idx = 1 + expected_pathology_count
        for i in range(expected_medicine_count):
            if medicine_start_idx + i < len(args):
                medicine_values.append(args[medicine_start_idx + i])
            else:
                medicine_values.append(0)
        # Extract note and dose data (last two arguments)
        note = args[-2] if len(args) >= 2 else ""
        dose_data = args[-1] if len(args) >= 1 else {}
        # Build the values list for data manager
        values = [date]
        values.extend(pathology_values)
        # Add medicine data dynamically
        for i, medicine_key in enumerate(medicine_keys):
            values.append(medicine_values[i] if i < len(medicine_values) else 0)
            values.append(dose_data.get(medicine_key, ""))
        values.append(note)
        if self.data_manager.update_entry(original_date, values):
            edit_win.destroy()
            messagebox.showinfo(
                "Success", "Entry updated successfully!", parent=self.root
            )
            self._clear_entries()
-            self.load_data()
+            self.refresh_data_display()
        else:
-            messagebox.showerror("Error", "Failed to save changes", parent=edit_win)
+            # Check if it's a duplicate date issue
            df = self.data_manager.load_data()
            if original_date != date and not df.empty and date in df["date"].values:
                messagebox.showerror(
                    "Error",
                    f"An entry for date '{date}' already exists. "
                    "Please use a different date.",
                    parent=edit_win,
                )
            else:
                messagebox.showerror("Error", "Failed to save changes", parent=edit_win)
-    def on_closing(self) -> None:
+    def handle_window_closing(self) -> None:
        if messagebox.askokcancel(
            "Quit", "Do you want to quit the application?", parent=self.root
        ):
            self.graph_manager.close()
            self.root.destroy()
-    def add_entry(self) -> None:
+    def add_new_entry(self) -> None:
        """Add a new entry to the CSV file."""
-        entry: list[str | int] = [
+        # Get current doses for today
-            self.date_var.get(),
+        today = self.date_var.get()
-            self.symptom_vars["depression"].get(),
+        dose_values = {}
-            self.symptom_vars["anxiety"].get(),
+
-            self.symptom_vars["sleep"].get(),
+        if today:
-            self.symptom_vars["appetite"].get(),
+            # Get doses for all medicines dynamically
-            self.medicine_vars["bupropion"][0].get(),
+            for medicine_key in self.medicine_manager.get_medicine_keys():
-            self.medicine_vars["hydroxyzine"][0].get(),
+                doses = self.data_manager.get_today_medicine_doses(today, medicine_key)
-            self.medicine_vars["gabapentin"][0].get(),
+                dose_values[f"{medicine_key}_doses"] = "|".join(
-            self.medicine_vars["propranolol"][0].get(),
+                    [f"{ts}:{dose}" for ts, dose in doses]
-            self.note_var.get(),
+                )
-        ]
+        else:
            # Set empty doses for all medicines
            for medicine_key in self.medicine_manager.get_medicine_keys():
                dose_values[f"{medicine_key}_doses"] = ""
        # Build entry dynamically
        entry: list[str | int] = [self.date_var.get()]
        # Add pathology data dynamically
        for pathology_key in self.pathology_manager.get_pathology_keys():
            entry.append(self.pathology_vars[pathology_key].get())
        # Add medicine data
        for medicine_key in self.medicine_manager.get_medicine_keys():
            entry.append(self.medicine_vars[medicine_key][0].get())
            entry.append(dose_values[f"{medicine_key}_doses"])
        entry.append(self.note_var.get())
        logger.debug(f"Adding entry: {entry}")
        # Check if date is empty
        if not self.date_var.get().strip():
            messagebox.showerror("Error", "Please enter a date.", parent=self.root)
            return
        if self.data_manager.add_entry(entry):
            messagebox.showinfo(
                "Success", "Entry added successfully!", parent=self.root
            )
            self._clear_entries()
-            self.load_data()
+            self.refresh_data_display()
        else:
-            messagebox.showerror("Error", "Failed to add entry", parent=self.root)
+            # Check if it's a duplicate date by trying to load existing data
            df = self.data_manager.load_data()
            if not df.empty and self.date_var.get() in df["date"].values:
                messagebox.showerror(
                    "Error",
                    f"An entry for date '{self.date_var.get()}' already exists. "
                    "Please use a different date or edit the existing entry.",
                    parent=self.root,
                )
            else:
                messagebox.showerror("Error", "Failed to add entry", parent=self.root)
    def _delete_entry(self, edit_win: tk.Toplevel, item_id: str) -> None:
        """Delete the selected entry from the CSV file."""
@@ -213,9 +392,9 @@ class MedTrackerApp:
            if self.data_manager.delete_entry(date):
                edit_win.destroy()
                messagebox.showinfo(
-                    "Success", "Entry deleted successfully!", parent=edit_win
+                    "Success", "Entry deleted successfully!", parent=self.root
                )
-                self.load_data()
+                self.refresh_data_display()
            else:
                messagebox.showerror("Error", "Failed to delete entry", parent=edit_win)
@@ -223,13 +402,13 @@ class MedTrackerApp:
        """Clear all input fields."""
        logger.debug("Clearing input fields.")
        self.date_var.set("")
-        for key in self.symptom_vars:
+        for key in self.pathology_vars:
-            self.symptom_vars[key].set(0)
+            self.pathology_vars[key].set(0)
        for key in self.medicine_vars:
            self.medicine_vars[key][0].set(0)
        self.note_var.set("")
-    def load_data(self) -> None:
+    def refresh_data_display(self) -> None:
        """Load data from the CSV file into the table and graph."""
        logger.debug("Loading data from CSV.")
@@ -242,9 +421,25 @@ class MedTrackerApp:
        # Update the treeview with the data
        if not df.empty:
-            for _index, row in df.iterrows():
+            # Build display columns dynamically (exclude dose columns for table view)
            display_columns = ["date", "depression", "anxiety", "sleep", "appetite"]
            # Add medicine columns (without dose columns)
            for medicine_key in self.medicine_manager.get_medicine_keys():
                display_columns.append(medicine_key)
            display_columns.append("note")
            # Filter to only the columns we want to display
            if all(col in df.columns for col in display_columns):
                display_df = df[display_columns]
            else:
                # Fallback - just use all columns
                display_df = df
            for _index, row in display_df.iterrows():
                self.tree.insert(parent="", index="end", values=list(row))
-            logger.debug(f"Loaded {len(df)} entries into treeview.")
+            logger.debug(f"Loaded {len(display_df)} entries into treeview.")
        # Update the graph
        self.graph_manager.update_graph(df)
@@ -0,0 +1,401 @@
 """
 Medicine management window for adding, editing, and removing medicines.
 """
 import tkinter as tk
 from tkinter import messagebox, ttk
 from medicine_manager import Medicine, MedicineManager
 class MedicineManagementWindow:
    """Window for managing medicine configurations."""
    def __init__(
        self, parent: tk.Tk, medicine_manager: MedicineManager, refresh_callback
    ):
        self.parent = parent
        self.medicine_manager = medicine_manager
        self.refresh_callback = refresh_callback
        # Create the window
        self.window = tk.Toplevel(parent)
        self.window.title("Manage Medicines")
        self.window.geometry("600x500")
        self.window.resizable(True, True)
        # Make window modal
        self.window.transient(parent)
        self.window.grab_set()
        self._setup_ui()
        self._populate_medicine_list()
        # Center window
        self.window.update_idletasks()
        x = (self.window.winfo_screenwidth() // 2) - (600 // 2)
        y = (self.window.winfo_screenheight() // 2) - (500 // 2)
        self.window.geometry(f"600x500+{x}+{y}")
    def _setup_ui(self):
        """Set up the user interface."""
        main_frame = ttk.Frame(self.window, padding="10")
        main_frame.grid(row=0, column=0, sticky="nsew")
        self.window.grid_rowconfigure(0, weight=1)
        self.window.grid_columnconfigure(0, weight=1)
        main_frame.grid_rowconfigure(1, weight=1)
        main_frame.grid_columnconfigure(0, weight=1)
        # Title
        title_label = ttk.Label(
            main_frame, text="Medicine Management", font=("Arial", 14, "bold")
        )
        title_label.grid(row=0, column=0, columnspan=2, pady=(0, 10))
        # Medicine list
        list_frame = ttk.LabelFrame(main_frame, text="Current Medicines")
        list_frame.grid(row=1, column=0, columnspan=2, sticky="nsew", pady=(0, 10))
        list_frame.grid_rowconfigure(0, weight=1)
        list_frame.grid_columnconfigure(0, weight=1)
        # Treeview for medicines
        columns = ("key", "name", "dosage", "quick_doses", "color", "default")
        self.tree = ttk.Treeview(list_frame, columns=columns, show="headings")
        # Column headings
        self.tree.heading("key", text="Key")
        self.tree.heading("name", text="Name")
        self.tree.heading("dosage", text="Dosage Info")
        self.tree.heading("quick_doses", text="Quick Doses")
        self.tree.heading("color", text="Color")
        self.tree.heading("default", text="Default Enabled")
        # Column widths
        self.tree.column("key", width=80)
        self.tree.column("name", width=100)
        self.tree.column("dosage", width=100)
        self.tree.column("quick_doses", width=120)
        self.tree.column("color", width=70)
        self.tree.column("default", width=100)
        self.tree.grid(row=0, column=0, sticky="nsew", padx=5, pady=5)
        # Scrollbar for treeview
        scrollbar = ttk.Scrollbar(
            list_frame, orient="vertical", command=self.tree.yview
        )
        scrollbar.grid(row=0, column=1, sticky="ns")
        self.tree.configure(yscrollcommand=scrollbar.set)
        # Buttons
        button_frame = ttk.Frame(main_frame)
        button_frame.grid(row=2, column=0, columnspan=2, pady=(10, 0))
        ttk.Button(button_frame, text="Add Medicine", command=self._add_medicine).grid(
            row=0, column=0, padx=(0, 5)
        )
        ttk.Button(
            button_frame, text="Edit Medicine", command=self._edit_medicine
        ).grid(row=0, column=1, padx=5)
        ttk.Button(
            button_frame, text="Remove Medicine", command=self._remove_medicine
        ).grid(row=0, column=2, padx=5)
        ttk.Button(button_frame, text="Close", command=self._close_window).grid(
            row=0, column=3, padx=(5, 0)
        )
    def _populate_medicine_list(self):
        """Populate the medicine list."""
        # Clear existing items
        for item in self.tree.get_children():
            self.tree.delete(item)
        # Add medicines
        for medicine in self.medicine_manager.get_all_medicines().values():
            self.tree.insert(
                "",
                "end",
                values=(
                    medicine.key,
                    medicine.display_name,
                    medicine.dosage_info,
                    ", ".join(medicine.quick_doses),
                    medicine.color,
                    "Yes" if medicine.default_enabled else "No",
                ),
            )
    def _add_medicine(self):
        """Add a new medicine."""
        MedicineEditDialog(
            self.window, self.medicine_manager, None, self._on_medicine_changed
        )
    def _edit_medicine(self):
        """Edit selected medicine."""
        selection = self.tree.selection()
        if not selection:
            messagebox.showwarning("No Selection", "Please select a medicine to edit.")
            return
        item = self.tree.item(selection[0])
        medicine_key = item["values"][0]
        medicine = self.medicine_manager.get_medicine(medicine_key)
        if medicine:
            MedicineEditDialog(
                self.window, self.medicine_manager, medicine, self._on_medicine_changed
            )
    def _remove_medicine(self):
        """Remove selected medicine."""
        selection = self.tree.selection()
        if not selection:
            messagebox.showwarning(
                "No Selection", "Please select a medicine to remove."
            )
            return
        item = self.tree.item(selection[0])
        medicine_key = item["values"][0]
        medicine_name = item["values"][1]
        if messagebox.askyesno(
            "Confirm Removal",
            f"Are you sure you want to remove '{medicine_name}'?\n\n"
            "This will also remove all associated data from your records!",
        ):
            if self.medicine_manager.remove_medicine(medicine_key):
                messagebox.showinfo(
                    "Success", f"'{medicine_name}' removed successfully!"
                )
                self._populate_medicine_list()
                self._refresh_main_app()
            else:
                messagebox.showerror("Error", f"Failed to remove '{medicine_name}'.")
    def _on_medicine_changed(self):
        """Called when a medicine is added or edited."""
        self._populate_medicine_list()
        self._refresh_main_app()
    def _refresh_main_app(self):
        """Refresh the main application after medicine changes."""
        if self.refresh_callback:
            self.refresh_callback()
    def _close_window(self):
        """Close the window."""
        self.window.destroy()
 class MedicineEditDialog:
    """Dialog for adding/editing a medicine."""
    def __init__(
        self,
        parent: tk.Toplevel,
        medicine_manager: MedicineManager,
        medicine: Medicine | None,
        callback,
    ):
        self.parent = parent
        self.medicine_manager = medicine_manager
        self.medicine = medicine
        self.callback = callback
        self.is_edit = medicine is not None
        # Create dialog
        self.dialog = tk.Toplevel(parent)
        self.dialog.title("Edit Medicine" if self.is_edit else "Add Medicine")
        self.dialog.geometry("400x350")
        self.dialog.resizable(False, False)
        # Make modal
        self.dialog.transient(parent)
        self.dialog.grab_set()
        self._setup_dialog()
        self._populate_fields()
        # Center dialog
        self.dialog.update_idletasks()
        x = parent.winfo_x() + (parent.winfo_width() // 2) - (400 // 2)
        y = parent.winfo_y() + (parent.winfo_height() // 2) - (350 // 2)
        self.dialog.geometry(f"400x350+{x}+{y}")
    def _setup_dialog(self):
        """Set up the dialog UI."""
        main_frame = ttk.Frame(self.dialog, padding="15")
        main_frame.grid(row=0, column=0, sticky="nsew")
        self.dialog.grid_rowconfigure(0, weight=1)
        self.dialog.grid_columnconfigure(0, weight=1)
        # Fields
        fields_frame = ttk.Frame(main_frame)
        fields_frame.grid(row=0, column=0, sticky="ew", pady=(0, 15))
        fields_frame.grid_columnconfigure(1, weight=1)
        row = 0
        # Key
        ttk.Label(fields_frame, text="Key:").grid(row=row, column=0, sticky="w", pady=5)
        self.key_var = tk.StringVar()
        key_entry = ttk.Entry(fields_frame, textvariable=self.key_var)
        key_entry.grid(row=row, column=1, sticky="ew", padx=(10, 0), pady=5)
        if self.is_edit:
            key_entry.configure(state="readonly")
        row += 1
        # Display Name
        ttk.Label(fields_frame, text="Display Name:").grid(
            row=row, column=0, sticky="w", pady=5
        )
        self.name_var = tk.StringVar()
        ttk.Entry(fields_frame, textvariable=self.name_var).grid(
            row=row, column=1, sticky="ew", padx=(10, 0), pady=5
        )
        row += 1
        # Dosage Info
        ttk.Label(fields_frame, text="Dosage Info:").grid(
            row=row, column=0, sticky="w", pady=5
        )
        self.dosage_var = tk.StringVar()
        ttk.Entry(fields_frame, textvariable=self.dosage_var).grid(
            row=row, column=1, sticky="ew", padx=(10, 0), pady=5
        )
        row += 1
        # Quick Doses
        ttk.Label(fields_frame, text="Quick Doses:").grid(
            row=row, column=0, sticky="w", pady=5
        )
        self.doses_var = tk.StringVar()
        ttk.Entry(fields_frame, textvariable=self.doses_var).grid(
            row=row, column=1, sticky="ew", padx=(10, 0), pady=5
        )
        ttk.Label(
            fields_frame, text="(comma-separated, e.g. 25,50,100)", font=("Arial", 8)
        ).grid(row=row + 1, column=1, sticky="w", padx=(10, 0))
        row += 2
        # Color
        ttk.Label(fields_frame, text="Graph Color:").grid(
            row=row, column=0, sticky="w", pady=5
        )
        self.color_var = tk.StringVar()
        ttk.Entry(fields_frame, textvariable=self.color_var).grid(
            row=row, column=1, sticky="ew", padx=(10, 0), pady=5
        )
        ttk.Label(
            fields_frame, text="(hex color, e.g. #FF6B6B)", font=("Arial", 8)
        ).grid(row=row + 1, column=1, sticky="w", padx=(10, 0))
        row += 2
        # Default Enabled
        self.default_var = tk.BooleanVar()
        ttk.Checkbutton(
            fields_frame,
            text="Show in graph by default",
            variable=self.default_var,
        ).grid(row=row, column=0, columnspan=2, sticky="w", pady=5)
        # Buttons
        button_frame = ttk.Frame(main_frame)
        button_frame.grid(row=1, column=0)
        ttk.Button(button_frame, text="Save", command=self._save_medicine).grid(
            row=0, column=0, padx=(0, 10)
        )
        ttk.Button(button_frame, text="Cancel", command=self.dialog.destroy).grid(
            row=0, column=1
        )
    def _populate_fields(self):
        """Populate fields if editing."""
        if self.medicine:
            self.key_var.set(self.medicine.key)
            self.name_var.set(self.medicine.display_name)
            self.dosage_var.set(self.medicine.dosage_info)
            self.doses_var.set(",".join(self.medicine.quick_doses))
            self.color_var.set(self.medicine.color)
            self.default_var.set(self.medicine.default_enabled)
    def _save_medicine(self):
        """Save the medicine."""
        # Validate fields
        key = self.key_var.get().strip()
        name = self.name_var.get().strip()
        dosage = self.dosage_var.get().strip()
        doses_str = self.doses_var.get().strip()
        color = self.color_var.get().strip()
        if not all([key, name, dosage, doses_str, color]):
            messagebox.showerror("Error", "All fields are required.")
            return
        # Validate key format (alphanumeric and underscores only)
        if not key.replace("_", "").replace("-", "").isalnum():
            messagebox.showerror(
                "Error",
                "Key must contain only letters, numbers, underscores, and hyphens.",
            )
            return
        # Parse quick doses
        try:
            quick_doses = [dose.strip() for dose in doses_str.split(",")]
            quick_doses = [dose for dose in quick_doses if dose]  # Remove empty strings
            if not quick_doses:
                raise ValueError("At least one quick dose is required.")
        except Exception:
            messagebox.showerror("Error", "Quick doses must be comma-separated values.")
            return
        # Validate color format
        if not color.startswith("#") or len(color) != 7:
            messagebox.showerror(
                "Error", "Color must be in hex format (e.g., #FF6B6B)."
            )
            return
        try:
            int(color[1:], 16)  # Validate hex color
        except ValueError:
            messagebox.showerror("Error", "Invalid hex color format.")
            return
        # Create medicine object
        new_medicine = Medicine(
            key=key,
            display_name=name,
            dosage_info=dosage,
            quick_doses=quick_doses,
            color=color,
            default_enabled=self.default_var.get(),
        )
        # Save medicine
        success = False
        if self.is_edit:
            success = self.medicine_manager.update_medicine(
                self.medicine.key, new_medicine
            )
        else:
            success = self.medicine_manager.add_medicine(new_medicine)
        if success:
            action = "updated" if self.is_edit else "added"
            messagebox.showinfo("Success", f"Medicine {action} successfully!")
            self.callback()
            self.dialog.destroy()
        else:
            action = "update" if self.is_edit else "add"
            messagebox.showerror("Error", f"Failed to {action} medicine.")
@@ -0,0 +1,195 @@
 """
 Medicine configuration manager for the MedTracker application.
 Handles dynamic loading and saving of medicine configurations.
 """
 import json
 import logging
 import os
 from dataclasses import asdict, dataclass
 from typing import Any
@dataclass
 class Medicine:
    """Data class representing a medicine."""
    key: str  # Internal key (e.g., "bupropion")
    display_name: str  # Display name (e.g., "Bupropion")
    dosage_info: str  # Dosage information (e.g., "150/300 mg")
    quick_doses: list[str]  # Common dose amounts for quick selection
    color: str  # Color for graph display
    default_enabled: bool = False  # Whether to show in graph by default
 class MedicineManager:
    """Manages medicine configurations and provides access to medicine data."""
    def __init__(
        self, config_file: str = "medicines.json", logger: logging.Logger = None
    ):
        self.config_file = config_file
        self.logger = logger or logging.getLogger(__name__)
        self.medicines: dict[str, Medicine] = {}
        self._load_medicines()
    def _get_default_medicines(self) -> list[Medicine]:
        """Get the default medicine configuration."""
        return [
            Medicine(
                key="bupropion",
                display_name="Bupropion",
                dosage_info="150/300 mg",
                quick_doses=["150", "300"],
                color="#FF6B6B",
                default_enabled=True,
            ),
            Medicine(
                key="hydroxyzine",
                display_name="Hydroxyzine",
                dosage_info="25 mg",
                quick_doses=["25", "50"],
                color="#4ECDC4",
                default_enabled=False,
            ),
            Medicine(
                key="gabapentin",
                display_name="Gabapentin",
                dosage_info="100 mg",
                quick_doses=["100", "300", "600"],
                color="#45B7D1",
                default_enabled=False,
            ),
            Medicine(
                key="propranolol",
                display_name="Propranolol",
                dosage_info="10 mg",
                quick_doses=["10", "20", "40"],
                color="#96CEB4",
                default_enabled=True,
            ),
            Medicine(
                key="quetiapine",
                display_name="Quetiapine",
                dosage_info="25 mg",
                quick_doses=["25", "50", "100"],
                color="#FFEAA7",
                default_enabled=False,
            ),
        ]
    def _load_medicines(self) -> None:
        """Load medicines from configuration file."""
        if os.path.exists(self.config_file):
            try:
                with open(self.config_file) as f:
                    data = json.load(f)
                self.medicines = {}
                for medicine_data in data.get("medicines", []):
                    medicine = Medicine(**medicine_data)
                    self.medicines[medicine.key] = medicine
                self.logger.info(
                    f"Loaded {len(self.medicines)} medicines from {self.config_file}"
                )
            except Exception as e:
                self.logger.error(f"Error loading medicines config: {e}")
                self._create_default_config()
        else:
            self._create_default_config()
    def _create_default_config(self) -> None:
        """Create default medicine configuration."""
        default_medicines = self._get_default_medicines()
        self.medicines = {med.key: med for med in default_medicines}
        self.save_medicines()
        self.logger.info("Created default medicine configuration")
    def save_medicines(self) -> bool:
        """Save current medicines to configuration file."""
        try:
            data = {
                "medicines": [asdict(medicine) for medicine in self.medicines.values()]
            }
            with open(self.config_file, "w") as f:
                json.dump(data, f, indent=2)
            self.logger.info(
                f"Saved {len(self.medicines)} medicines to {self.config_file}"
            )
            return True
        except Exception as e:
            self.logger.error(f"Error saving medicines config: {e}")
            return False
    def get_all_medicines(self) -> dict[str, Medicine]:
        """Get all medicines."""
        return self.medicines.copy()
    def get_medicine(self, key: str) -> Medicine | None:
        """Get a specific medicine by key."""
        return self.medicines.get(key)
    def add_medicine(self, medicine: Medicine) -> bool:
        """Add a new medicine."""
        if medicine.key in self.medicines:
            self.logger.warning(f"Medicine with key '{medicine.key}' already exists")
            return False
        self.medicines[medicine.key] = medicine
        return self.save_medicines()
    def update_medicine(self, key: str, medicine: Medicine) -> bool:
        """Update an existing medicine."""
        if key not in self.medicines:
            self.logger.warning(f"Medicine with key '{key}' does not exist")
            return False
        # If key is changing, remove old entry
        if key != medicine.key:
            del self.medicines[key]
        self.medicines[medicine.key] = medicine
        return self.save_medicines()
    def remove_medicine(self, key: str) -> bool:
        """Remove a medicine."""
        if key not in self.medicines:
            self.logger.warning(f"Medicine with key '{key}' does not exist")
            return False
        del self.medicines[key]
        return self.save_medicines()
    def get_medicine_keys(self) -> list[str]:
        """Get list of all medicine keys."""
        return list(self.medicines.keys())
    def get_display_names(self) -> dict[str, str]:
        """Get mapping of keys to display names."""
        return {key: med.display_name for key, med in self.medicines.items()}
    def get_quick_doses(self, key: str) -> list[str]:
        """Get quick dose options for a medicine."""
        medicine = self.medicines.get(key)
        return medicine.quick_doses if medicine else ["25", "50"]
    def get_graph_colors(self) -> dict[str, str]:
        """Get mapping of medicine keys to graph colors."""
        return {key: med.color for key, med in self.medicines.items()}
    def get_default_enabled_medicines(self) -> list[str]:
        """Get list of medicines that should be enabled by default in graphs."""
        return [key for key, med in self.medicines.items() if med.default_enabled]
    def get_medicine_vars_dict(self) -> dict[str, tuple[Any, str]]:
        """Get medicine variables dictionary for UI compatibility."""
        # This maintains compatibility with existing UI code
        import tkinter as tk
        return {
            key: (tk.IntVar(value=0), f"{med.display_name} {med.dosage_info}")
            for key, med in self.medicines.items()
        }
@@ -0,0 +1,425 @@
 """
 Pathology management window for adding, editing, and removing pathologies.
 """
 import tkinter as tk
 from tkinter import messagebox, ttk
 from pathology_manager import Pathology, PathologyManager
 class PathologyManagementWindow:
    """Window for managing pathology configurations."""
    def __init__(
        self, parent: tk.Tk, pathology_manager: PathologyManager, refresh_callback
    ):
        self.parent = parent
        self.pathology_manager = pathology_manager
        self.refresh_callback = refresh_callback
        # Create the window
        self.window = tk.Toplevel(parent)
        self.window.title("Manage Pathologies")
        self.window.geometry("800x500")
        self.window.resizable(True, True)
        # Make window modal
        self.window.transient(parent)
        self.window.grab_set()
        self._setup_ui()
        self._populate_pathology_list()
        # Center window
        self.window.update_idletasks()
        x = (self.window.winfo_screenwidth() // 2) - (800 // 2)
        y = (self.window.winfo_screenheight() // 2) - (500 // 2)
        self.window.geometry(f"800x500+{x}+{y}")
    def _setup_ui(self):
        """Set up the UI components."""
        # Main frame
        main_frame = ttk.Frame(self.window, padding="10")
        main_frame.grid(row=0, column=0, sticky="nsew")
        self.window.grid_rowconfigure(0, weight=1)
        self.window.grid_columnconfigure(0, weight=1)
        # Pathology list
        list_frame = ttk.LabelFrame(main_frame, text="Pathologies", padding="5")
        list_frame.grid(row=0, column=0, sticky="nsew", pady=(0, 10))
        main_frame.grid_rowconfigure(0, weight=1)
        main_frame.grid_columnconfigure(0, weight=1)
        # Treeview for pathology list
        columns = (
            "Key",
            "Display Name",
            "Scale Info",
            "Color",
            "Default Enabled",
            "Scale Range",
        )
        self.tree = ttk.Treeview(list_frame, columns=columns, show="headings")
        # Configure columns
        self.tree.heading("Key", text="Key")
        self.tree.heading("Display Name", text="Display Name")
        self.tree.heading("Scale Info", text="Scale Info")
        self.tree.heading("Color", text="Color")
        self.tree.heading("Default Enabled", text="Default Enabled")
        self.tree.heading("Scale Range", text="Scale Range")
        self.tree.column("Key", width=120)
        self.tree.column("Display Name", width=150)
        self.tree.column("Scale Info", width=150)
        self.tree.column("Color", width=80)
        self.tree.column("Default Enabled", width=100)
        self.tree.column("Scale Range", width=100)
        # Scrollbar for treeview
        scrollbar = ttk.Scrollbar(
            list_frame, orient="vertical", command=self.tree.yview
        )
        self.tree.configure(yscrollcommand=scrollbar.set)
        self.tree.grid(row=0, column=0, sticky="nsew")
        scrollbar.grid(row=0, column=1, sticky="ns")
        list_frame.grid_rowconfigure(0, weight=1)
        list_frame.grid_columnconfigure(0, weight=1)
        # Buttons frame
        button_frame = ttk.Frame(main_frame)
        button_frame.grid(row=1, column=0, sticky="ew")
        ttk.Button(
            button_frame, text="Add Pathology", command=self._add_pathology
        ).pack(side="left", padx=(0, 5))
        ttk.Button(
            button_frame, text="Edit Pathology", command=self._edit_pathology
        ).pack(side="left", padx=(0, 5))
        ttk.Button(
            button_frame, text="Remove Pathology", command=self._remove_pathology
        ).pack(side="left", padx=(0, 5))
        ttk.Button(button_frame, text="Close", command=self.window.destroy).pack(
            side="right"
        )
    def _populate_pathology_list(self):
        """Populate the pathology list."""
        # Clear existing items
        for item in self.tree.get_children():
            self.tree.delete(item)
        # Add pathologies
        for pathology in self.pathology_manager.get_all_pathologies().values():
            scale_range = f"{pathology.scale_min}-{pathology.scale_max}"
            self.tree.insert(
                "",
                "end",
                values=(
                    pathology.key,
                    pathology.display_name,
                    pathology.scale_info,
                    pathology.color,
                    "Yes" if pathology.default_enabled else "No",
                    scale_range,
                ),
            )
    def _add_pathology(self):
        """Add a new pathology."""
        PathologyEditDialog(
            self.window, self.pathology_manager, None, self._on_pathology_changed
        )
    def _edit_pathology(self):
        """Edit selected pathology."""
        selection = self.tree.selection()
        if not selection:
            messagebox.showwarning("No Selection", "Please select a pathology to edit.")
            return
        item = self.tree.item(selection[0])
        pathology_key = item["values"][0]
        pathology = self.pathology_manager.get_pathology(pathology_key)
        if pathology:
            PathologyEditDialog(
                self.window,
                self.pathology_manager,
                pathology,
                self._on_pathology_changed,
            )
    def _remove_pathology(self):
        """Remove selected pathology."""
        selection = self.tree.selection()
        if not selection:
            messagebox.showwarning(
                "No Selection", "Please select a pathology to remove."
            )
            return
        item = self.tree.item(selection[0])
        pathology_key = item["values"][0]
        pathology_name = item["values"][1]
        if messagebox.askyesno(
            "Confirm Removal",
            f"Are you sure you want to remove '{pathology_name}'?\n\n"
            "This will also remove all associated data from your records!",
        ):
            if self.pathology_manager.remove_pathology(pathology_key):
                messagebox.showinfo(
                    "Success", f"'{pathology_name}' removed successfully!"
                )
                self._populate_pathology_list()
                self._refresh_main_app()
            else:
                messagebox.showerror("Error", f"Failed to remove '{pathology_name}'.")
    def _on_pathology_changed(self):
        """Handle pathology changes."""
        self._populate_pathology_list()
        self._refresh_main_app()
    def _refresh_main_app(self):
        """Refresh the main application."""
        if self.refresh_callback:
            self.refresh_callback()
 class PathologyEditDialog:
    """Dialog for adding/editing a pathology."""
    def __init__(
        self,
        parent: tk.Toplevel,
        pathology_manager: PathologyManager,
        pathology: Pathology | None,
        callback,
    ):
        self.parent = parent
        self.pathology_manager = pathology_manager
        self.pathology = pathology
        self.callback = callback
        self.is_edit = pathology is not None
        # Create dialog
        self.dialog = tk.Toplevel(parent)
        self.dialog.title("Edit Pathology" if self.is_edit else "Add Pathology")
        self.dialog.geometry("450x400")
        self.dialog.resizable(False, False)
        # Make modal
        self.dialog.transient(parent)
        self.dialog.grab_set()
        self._setup_dialog()
        self._populate_fields()
        # Center dialog
        self.dialog.update_idletasks()
        x = parent.winfo_x() + (parent.winfo_width() // 2) - (450 // 2)
        y = parent.winfo_y() + (parent.winfo_height() // 2) - (400 // 2)
        self.dialog.geometry(f"450x400+{x}+{y}")
    def _setup_dialog(self):
        """Set up the dialog UI."""
        # Main frame
        main_frame = ttk.Frame(self.dialog, padding="15")
        main_frame.grid(row=0, column=0, sticky="nsew")
        self.dialog.grid_rowconfigure(0, weight=1)
        self.dialog.grid_columnconfigure(0, weight=1)
        # Form fields
        self.key_var = tk.StringVar()
        self.name_var = tk.StringVar()
        self.scale_info_var = tk.StringVar()
        self.color_var = tk.StringVar()
        self.default_var = tk.BooleanVar()
        self.scale_min_var = tk.IntVar(value=0)
        self.scale_max_var = tk.IntVar(value=10)
        self.orientation_var = tk.StringVar(value="normal")
        # Key field
        ttk.Label(main_frame, text="Key:").grid(
            row=0, column=0, sticky="w", pady=(0, 5)
        )
        key_entry = ttk.Entry(main_frame, textvariable=self.key_var, width=40)
        key_entry.grid(row=0, column=1, sticky="ew", pady=(0, 5))
        ttk.Label(main_frame, text="(alphanumeric, underscores, hyphens only)").grid(
            row=0, column=2, sticky="w", padx=(5, 0), pady=(0, 5)
        )
        # Display name field
        ttk.Label(main_frame, text="Display Name:").grid(
            row=1, column=0, sticky="w", pady=(0, 5)
        )
        ttk.Entry(main_frame, textvariable=self.name_var, width=40).grid(
            row=1, column=1, sticky="ew", pady=(0, 5)
        )
        # Scale info field
        ttk.Label(main_frame, text="Scale Info:").grid(
            row=2, column=0, sticky="w", pady=(0, 5)
        )
        ttk.Entry(main_frame, textvariable=self.scale_info_var, width=40).grid(
            row=2, column=1, sticky="ew", pady=(0, 5)
        )
        ttk.Label(main_frame, text='(e.g., "0:good, 10:bad")').grid(
            row=2, column=2, sticky="w", padx=(5, 0), pady=(0, 5)
        )
        # Scale range
        scale_frame = ttk.Frame(main_frame)
        scale_frame.grid(row=3, column=1, sticky="ew", pady=(0, 5))
        ttk.Label(main_frame, text="Scale Range:").grid(
            row=3, column=0, sticky="w", pady=(0, 5)
        )
        ttk.Label(scale_frame, text="Min:").grid(row=0, column=0, sticky="w")
        ttk.Entry(scale_frame, textvariable=self.scale_min_var, width=5).grid(
            row=0, column=1, padx=(5, 10)
        )
        ttk.Label(scale_frame, text="Max:").grid(row=0, column=2, sticky="w")
        ttk.Entry(scale_frame, textvariable=self.scale_max_var, width=5).grid(
            row=0, column=3, padx=5
        )
        # Scale orientation
        ttk.Label(main_frame, text="Scale Orientation:").grid(
            row=4, column=0, sticky="w", pady=(0, 5)
        )
        orientation_frame = ttk.Frame(main_frame)
        orientation_frame.grid(row=4, column=1, sticky="ew", pady=(0, 5))
        ttk.Radiobutton(
            orientation_frame,
            text="Normal (0=good)",
            variable=self.orientation_var,
            value="normal",
        ).grid(row=0, column=0, sticky="w")
        ttk.Radiobutton(
            orientation_frame,
            text="Inverted (0=bad)",
            variable=self.orientation_var,
            value="inverted",
        ).grid(row=0, column=1, sticky="w", padx=(20, 0))
        # Color field
        ttk.Label(main_frame, text="Color:").grid(
            row=5, column=0, sticky="w", pady=(0, 5)
        )
        ttk.Entry(main_frame, textvariable=self.color_var, width=40).grid(
            row=5, column=1, sticky="ew", pady=(0, 5)
        )
        ttk.Label(main_frame, text="(hex format, e.g., #FF6B6B)").grid(
            row=5, column=2, sticky="w", padx=(5, 0), pady=(0, 5)
        )
        # Default enabled checkbox
        ttk.Checkbutton(
            main_frame, text="Show in graph by default", variable=self.default_var
        ).grid(row=6, column=1, sticky="w", pady=(10, 15))
        # Buttons
        button_frame = ttk.Frame(main_frame)
        button_frame.grid(row=7, column=0, columnspan=3, sticky="ew", pady=(10, 0))
        ttk.Button(button_frame, text="Save", command=self._save_pathology).pack(
            side="right", padx=(5, 0)
        )
        ttk.Button(button_frame, text="Cancel", command=self.dialog.destroy).pack(
            side="right"
        )
        # Configure column weights
        main_frame.grid_columnconfigure(1, weight=1)
        # Focus on first field
        key_entry.focus()
    def _populate_fields(self):
        """Populate fields if editing."""
        if self.pathology:
            self.key_var.set(self.pathology.key)
            self.name_var.set(self.pathology.display_name)
            self.scale_info_var.set(self.pathology.scale_info)
            self.color_var.set(self.pathology.color)
            self.default_var.set(self.pathology.default_enabled)
            self.scale_min_var.set(self.pathology.scale_min)
            self.scale_max_var.set(self.pathology.scale_max)
            self.orientation_var.set(self.pathology.scale_orientation)
    def _save_pathology(self):
        """Save the pathology."""
        # Validate fields
        key = self.key_var.get().strip()
        name = self.name_var.get().strip()
        scale_info = self.scale_info_var.get().strip()
        color = self.color_var.get().strip()
        scale_min = self.scale_min_var.get()
        scale_max = self.scale_max_var.get()
        if not all([key, name, scale_info, color]):
            messagebox.showerror("Error", "All fields are required.")
            return
        # Validate key format (alphanumeric and underscores only)
        if not key.replace("_", "").replace("-", "").isalnum():
            messagebox.showerror(
                "Error",
                "Key must contain only letters, numbers, underscores, and hyphens.",
            )
            return
        # Validate scale range
        if scale_min >= scale_max:
            messagebox.showerror("Error", "Scale minimum must be less than maximum.")
            return
        # Validate color format
        if not color.startswith("#") or len(color) != 7:
            messagebox.showerror(
                "Error", "Color must be in hex format (e.g., #FF6B6B)."
            )
            return
        try:
            int(color[1:], 16)  # Validate hex color
        except ValueError:
            messagebox.showerror("Error", "Invalid hex color format.")
            return
        # Create pathology object
        new_pathology = Pathology(
            key=key,
            display_name=name,
            scale_info=scale_info,
            color=color,
            default_enabled=self.default_var.get(),
            scale_min=scale_min,
            scale_max=scale_max,
            scale_orientation=self.orientation_var.get(),
        )
        # Save pathology
        success = False
        if self.is_edit:
            success = self.pathology_manager.update_pathology(
                self.pathology.key, new_pathology
            )
        else:
            success = self.pathology_manager.add_pathology(new_pathology)
        if success:
            action = "updated" if self.is_edit else "added"
            messagebox.showinfo("Success", f"Pathology {action} successfully!")
            self.callback()
            self.dialog.destroy()
        else:
            action = "update" if self.is_edit else "add"
            messagebox.showerror("Error", f"Failed to {action} pathology.")
@@ -0,0 +1,199 @@
 """
 Pathology configuration manager for the MedTracker application.
 Handles dynamic loading and saving of pathology/symptom configurations.
 """
 import json
 import logging
 import os
 from dataclasses import asdict, dataclass
 from typing import Any
@dataclass
 class Pathology:
    """Data class representing a pathology/symptom."""
    key: str  # Internal key (e.g., "depression")
    display_name: str  # Display name (e.g., "Depression")
    scale_info: str  # Scale information (e.g., "0:good, 10:bad")
    color: str  # Color for graph display
    default_enabled: bool = True  # Whether to show in graph by default
    scale_min: int = 0  # Minimum scale value
    scale_max: int = 10  # Maximum scale value
    scale_orientation: str = "normal"  # "normal" (0=good) or "inverted" (0=bad)
 class PathologyManager:
    """Manages pathology configurations and provides access to pathology data."""
    def __init__(
        self, config_file: str = "pathologies.json", logger: logging.Logger = None
    ):
        self.config_file = config_file
        self.logger = logger or logging.getLogger(__name__)
        self.pathologies: dict[str, Pathology] = {}
        self._load_pathologies()
    def _get_default_pathologies(self) -> list[Pathology]:
        """Get the default pathology configuration."""
        return [
            Pathology(
                key="depression",
                display_name="Depression",
                scale_info="0:good, 10:bad",
                color="#FF6B6B",
                default_enabled=True,
                scale_orientation="normal",
            ),
            Pathology(
                key="anxiety",
                display_name="Anxiety",
                scale_info="0:good, 10:bad",
                color="#FFA726",
                default_enabled=True,
                scale_orientation="normal",
            ),
            Pathology(
                key="sleep",
                display_name="Sleep Quality",
                scale_info="0:bad, 10:good",
                color="#66BB6A",
                default_enabled=True,
                scale_orientation="inverted",
            ),
            Pathology(
                key="appetite",
                display_name="Appetite",
                scale_info="0:bad, 10:good",
                color="#42A5F5",
                default_enabled=True,
                scale_orientation="inverted",
            ),
        ]
    def _load_pathologies(self) -> None:
        """Load pathologies from configuration file."""
        if os.path.exists(self.config_file):
            try:
                with open(self.config_file) as f:
                    data = json.load(f)
                self.pathologies = {}
                for pathology_data in data.get("pathologies", []):
                    pathology = Pathology(**pathology_data)
                    self.pathologies[pathology.key] = pathology
                self.logger.info(
                    f"Loaded {len(self.pathologies)} pathologies from "
                    f"{self.config_file}"
                )
            except Exception as e:
                self.logger.error(f"Error loading pathologies config: {e}")
                self._create_default_config()
        else:
            self._create_default_config()
    def _create_default_config(self) -> None:
        """Create default pathology configuration."""
        default_pathologies = self._get_default_pathologies()
        self.pathologies = {path.key: path for path in default_pathologies}
        self.save_pathologies()
        self.logger.info("Created default pathology configuration")
    def save_pathologies(self) -> bool:
        """Save current pathologies to configuration file."""
        try:
            data = {
                "pathologies": [
                    asdict(pathology) for pathology in self.pathologies.values()
                ]
            }
            with open(self.config_file, "w") as f:
                json.dump(data, f, indent=2)
            self.logger.info(
                f"Saved {len(self.pathologies)} pathologies to {self.config_file}"
            )
            return True
        except Exception as e:
            self.logger.error(f"Error saving pathologies config: {e}")
            return False
    def get_all_pathologies(self) -> dict[str, Pathology]:
        """Get all pathologies."""
        return self.pathologies.copy()
    def get_pathology(self, key: str) -> Pathology | None:
        """Get a specific pathology by key."""
        return self.pathologies.get(key)
    def add_pathology(self, pathology: Pathology) -> bool:
        """Add a new pathology."""
        if pathology.key in self.pathologies:
            self.logger.warning(f"Pathology with key '{pathology.key}' already exists")
            return False
        self.pathologies[pathology.key] = pathology
        return self.save_pathologies()
    def update_pathology(self, key: str, pathology: Pathology) -> bool:
        """Update an existing pathology."""
        if key not in self.pathologies:
            self.logger.warning(f"Pathology with key '{key}' does not exist")
            return False
        # If key is changing, remove old entry
        if key != pathology.key:
            del self.pathologies[key]
        self.pathologies[pathology.key] = pathology
        return self.save_pathologies()
    def remove_pathology(self, key: str) -> bool:
        """Remove a pathology."""
        if key not in self.pathologies:
            self.logger.warning(f"Pathology with key '{key}' does not exist")
            return False
        del self.pathologies[key]
        return self.save_pathologies()
    def get_pathology_keys(self) -> list[str]:
        """Get list of all pathology keys."""
        return list(self.pathologies.keys())
    def get_display_names(self) -> dict[str, str]:
        """Get mapping of keys to display names."""
        return {key: path.display_name for key, path in self.pathologies.items()}
    def get_graph_colors(self) -> dict[str, str]:
        """Get mapping of pathology keys to graph colors."""
        return {key: path.color for key, path in self.pathologies.items()}
    def get_default_enabled_pathologies(self) -> list[str]:
        """Get list of pathologies that should be enabled by default in graphs."""
        return [key for key, path in self.pathologies.items() if path.default_enabled]
    def get_pathology_vars_dict(self) -> dict[str, tuple[Any, str]]:
        """Get pathology variables dictionary for UI compatibility."""
        # This maintains compatibility with existing UI code
        import tkinter as tk
        return {
            key: (tk.IntVar(value=0), path.display_name)
            for key, path in self.pathologies.items()
        }
    def get_scale_info(self, key: str) -> tuple[int, int, str, str]:
        """Get scale information for a pathology."""
        pathology = self.get_pathology(key)
        if pathology:
            return (
                pathology.scale_min,
                pathology.scale_max,
                pathology.scale_info,
                pathology.scale_orientation,
            )
        return (0, 10, "0-10", "normal")
@@ -0,0 +1 @@
 # Tests for TheChart application
@@ -0,0 +1,196 @@
 """
 Fixtures and configuration for pytest tests.
 """
 import os
 import tempfile
 import pytest
 import pandas as pd
 from unittest.mock import Mock
 import logging
 # Add src to path for imports
 import sys
 sys.path.insert(0, os.path.join(os.path.dirname(__file__), '..', 'src'))
 from src.medicine_manager import MedicineManager, Medicine
@pytest.fixture
 def temp_csv_file():
    """Create a temporary CSV file for testing."""
    fd, path = tempfile.mkstemp(suffix='.csv')
    os.close(fd)
    yield path
    # Cleanup
    if os.path.exists(path):
        os.unlink(path)
@pytest.fixture
 def mock_medicine_manager():
    """Create a mock medicine manager with default medicines for testing."""
    mock_manager = Mock(spec=MedicineManager)
    # Default medicines matching the original system
    default_medicines = {
        "bupropion": Medicine(
            key="bupropion",
            display_name="Bupropion",
            dosage_info="150/300 mg",
            quick_doses=["150", "300"],
            color="#FF6B6B",
            default_enabled=True
        ),
        "hydroxyzine": Medicine(
            key="hydroxyzine",
            display_name="Hydroxyzine",
            dosage_info="25 mg",
            quick_doses=["25", "50"],
            color="#4ECDC4",
            default_enabled=False
        ),
        "gabapentin": Medicine(
            key="gabapentin",
            display_name="Gabapentin",
            dosage_info="100 mg",
            quick_doses=["100", "300", "600"],
            color="#45B7D1",
            default_enabled=False
        ),
        "propranolol": Medicine(
            key="propranolol",
            display_name="Propranolol",
            dosage_info="10 mg",
            quick_doses=["10", "20", "40"],
            color="#96CEB4",
            default_enabled=True
        ),
        "quetiapine": Medicine(
            key="quetiapine",
            display_name="Quetiapine",
            dosage_info="25 mg",
            quick_doses=["25", "50", "100"],
            color="#FFEAA7",
            default_enabled=False
        )
    }
    mock_manager.get_medicine_keys.return_value = list(default_medicines.keys())
    mock_manager.get_all_medicines.return_value = default_medicines
    mock_manager.get_medicine.side_effect = lambda key: default_medicines.get(key)
    mock_manager.get_graph_colors.return_value = {k: v.color for k, v in default_medicines.items()}
    mock_manager.get_quick_doses.side_effect = lambda key: default_medicines.get(key, Medicine("", "", "", [], "", False)).quick_doses
    return mock_manager
@pytest.fixture
 def mock_pathology_manager():
    """Create a mock pathology manager with default pathologies for testing."""
    mock_manager = Mock()
    # Default pathologies matching the original system
    mock_manager.get_pathology_keys.return_value = ["depression", "anxiety", "sleep", "appetite"]
    return mock_manager
@pytest.fixture
 def sample_data():
    """Sample data for testing."""
    return [
        ["2024-01-01", 3, 2, 4, 3, 1, "", 0, "", 2, "", 1, "", 0, "", "Test note 1"],
        ["2024-01-02", 2, 3, 3, 4, 1, "", 1, "", 2, "", 0, "", 1, "", "Test note 2"],
        ["2024-01-03", 4, 1, 5, 2, 0, "", 0, "", 1, "", 1, "", 0, "", ""],
    ]
@pytest.fixture
 def sample_dataframe():
    """Sample DataFrame for testing."""
    return pd.DataFrame({
        'date': ['2024-01-01', '2024-01-02', '2024-01-03'],
        'depression': [3, 2, 4],
        'anxiety': [2, 3, 1],
        'sleep': [4, 3, 5],
        'appetite': [3, 4, 2],
        'bupropion': [1, 1, 0],
        'bupropion_doses': ['2024-01-01 08:00:00:150mg', '2024-01-02 08:00:00:300mg', ''],
        'hydroxyzine': [0, 1, 0],
        'hydroxyzine_doses': ['', '2024-01-02 20:00:00:25mg', ''],
        'gabapentin': [2, 2, 1],
        'gabapentin_doses': ['2024-01-01 12:00:00:100mg|2024-01-01 20:00:00:100mg',
                            '2024-01-02 12:00:00:100mg|2024-01-02 20:00:00:100mg',
                            '2024-01-03 12:00:00:100mg'],
        'propranolol': [1, 0, 1],
        'propranolol_doses': ['2024-01-01 12:00:00:10mg', '', '2024-01-03 12:00:00:20mg'],
        'quetiapine': [0, 1, 0],
        'quetiapine_doses': ['', '2024-01-02 22:00:00:50mg', ''],
        'note': ['Test note 1', 'Test note 2', '']
    })
@pytest.fixture
 def mock_logger():
    """Mock logger for testing."""
    return Mock(spec=logging.Logger)
@pytest.fixture
 def temp_log_dir():
    """Create a temporary directory for log files."""
    with tempfile.TemporaryDirectory() as temp_dir:
        yield temp_dir
@pytest.fixture
 def mock_env_vars(monkeypatch):
    """Mock environment variables."""
    monkeypatch.setenv("LOG_LEVEL", "DEBUG")
    monkeypatch.setenv("LOG_PATH", "/tmp/test_logs")
    monkeypatch.setenv("LOG_CLEAR", "False")
@pytest.fixture
 def sample_dose_data():
    """Sample dose data for testing dose calculation."""
    return {
        'standard_format': '2025-07-28 18:59:45:150mg|2025-07-28 19:34:19:75mg',  # Should sum to 225
        'with_bullets': '• • • • 2025-07-30 07:50:00:300',  # Should be 300
        'decimal_doses': '2025-07-28 18:59:45:12.5mg|2025-07-28 19:34:19:7.5mg',  # Should sum to 20
        'no_timestamp': '100mg|50mg',  # Should sum to 150
        'mixed_format': '• 2025-07-30 22:50:00:10|75mg',  # Should sum to 85
        'empty_string': '',  # Should be 0
        'nan_value': 'nan',  # Should be 0
        'no_units': '2025-07-28 18:59:45:10|2025-07-28 19:34:19:5',  # Should sum to 15
    }
@pytest.fixture
 def legend_test_dataframe():
    """DataFrame specifically designed for testing legend functionality."""
    return pd.DataFrame({
        'date': ['2024-01-01', '2024-01-02', '2024-01-03'],
        'depression': [3, 2, 4],
        'anxiety': [2, 3, 1],
        'sleep': [4, 3, 5],
        'appetite': [3, 4, 2],
        # Medicine with consistent doses for average testing
        'bupropion': [1, 1, 1],
        'bupropion_doses': ['2024-01-01 08:00:00:100mg',
                           '2024-01-02 08:00:00:200mg',
                           '2024-01-03 08:00:00:150mg'],  # Average: 150mg
        # Medicine with varying doses
        'propranolol': [1, 1, 0],
        'propranolol_doses': ['2024-01-01 12:00:00:10mg',
                             '2024-01-02 12:00:00:20mg',
                             ''],  # Average: 15mg (10+20)/2
        # Medicines without dose data
        'hydroxyzine': [0, 0, 0],
        'hydroxyzine_doses': ['', '', ''],
        'gabapentin': [0, 0, 0],
        'gabapentin_doses': ['', '', ''],
        'quetiapine': [0, 0, 0],
        'quetiapine_doses': ['', '', ''],
        'note': ['Test note 1', 'Test note 2', 'Test note 3']
    })
@@ -0,0 +1,129 @@
 """
 Tests for constants module.
 """
 import os
 from unittest.mock import patch
 import sys
 sys.path.insert(0, os.path.join(os.path.dirname(__file__), '..', 'src'))
 class TestConstants:
    """Test cases for the constants module."""
    def test_default_log_level(self):
        """Test default LOG_LEVEL when not set in environment."""
        with patch.dict(os.environ, {}, clear=True):
            # Re-import to get fresh values
            import importlib
            if 'constants' in sys.modules:
                importlib.reload(sys.modules['constants'])
            else:
                import src.constants
            assert src.constants.LOG_LEVEL == "INFO"
    def test_custom_log_level(self):
        """Test custom LOG_LEVEL from environment."""
        with patch.dict(os.environ, {'LOG_LEVEL': 'debug'}, clear=True):
            import importlib
            if 'constants' in sys.modules:
                importlib.reload(sys.modules['constants'])
            else:
                import src.constants
            assert src.constants.LOG_LEVEL == "DEBUG"
    def test_default_log_path(self):
        """Test default LOG_PATH when not set in environment."""
        with patch.dict(os.environ, {}, clear=True):
            import importlib
            if 'constants' in sys.modules:
                importlib.reload(sys.modules['constants'])
            else:
                import src.constants
            assert src.constants.LOG_PATH == "/tmp/logs/thechart"
    def test_custom_log_path(self):
        """Test custom LOG_PATH from environment."""
        with patch.dict(os.environ, {'LOG_PATH': '/custom/log/path'}, clear=True):
            import importlib
            if 'constants' in sys.modules:
                importlib.reload(sys.modules['constants'])
            else:
                import src.constants
            assert src.constants.LOG_PATH == "/custom/log/path"
    def test_default_log_clear(self):
        """Test default LOG_CLEAR when not set in environment."""
        with patch.dict(os.environ, {}, clear=True):
            import importlib
            if 'constants' in sys.modules:
                importlib.reload(sys.modules['constants'])
            else:
                import src.constants
            assert src.constants.LOG_CLEAR == "False"
    def test_custom_log_clear_true(self):
        """Test LOG_CLEAR when set to true in environment."""
        with patch.dict(os.environ, {'LOG_CLEAR': 'true'}, clear=True):
            import importlib
            if 'constants' in sys.modules:
                importlib.reload(sys.modules['constants'])
            else:
                import src.constants
            assert src.constants.LOG_CLEAR == "True"
    def test_custom_log_clear_false(self):
        """Test LOG_CLEAR when set to false in environment."""
        with patch.dict(os.environ, {'LOG_CLEAR': 'false'}, clear=True):
            import importlib
            if 'constants' in sys.modules:
                importlib.reload(sys.modules['constants'])
            else:
                import src.constants
            assert src.constants.LOG_CLEAR == "False"
    def test_log_level_case_insensitive(self):
        """Test that LOG_LEVEL is converted to uppercase."""
        with patch.dict(os.environ, {'LOG_LEVEL': 'warning'}, clear=True):
            import importlib
            if 'constants' in sys.modules:
                importlib.reload(sys.modules['constants'])
            else:
                import src.constants
            assert src.constants.LOG_LEVEL == "WARNING"
    def test_dotenv_override(self):
        """Test that dotenv override parameter is set to True."""
        # This is a structural test since dotenv is loaded during import
        with patch('constants.load_dotenv') as mock_load_dotenv:
            import importlib
            if 'constants' in sys.modules:
                importlib.reload(sys.modules['constants'])
            else:
                import src.constants
            mock_load_dotenv.assert_called_once_with(override=True)
    def test_all_constants_are_strings(self):
        """Test that all constants are string type."""
        import src.constants
        assert isinstance(src.constants.LOG_LEVEL, str)
        assert isinstance(src.constants.LOG_PATH, str)
        assert isinstance(src.constants.LOG_CLEAR, str)
    def test_constants_not_empty(self):
        """Test that constants are not empty strings."""
        import src.constants
        assert src.constants.LOG_LEVEL != ""
        assert src.constants.LOG_PATH != ""
        assert src.constants.LOG_CLEAR != ""
@@ -0,0 +1,303 @@
 """
 Tests for the DataManager class.
 """
 import os
 import csv
 from unittest.mock import patch
 import sys
 sys.path.insert(0, os.path.join(os.path.dirname(__file__), '..', 'src'))
 from src.data_manager import DataManager
 class TestDataManager:
    """Test cases for the DataManager class."""
    def test_init(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager):
        """Test DataManager initialization."""
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        assert dm.filename == temp_csv_file
        assert dm.logger == mock_logger
        assert dm.medicine_manager == mock_medicine_manager
        assert os.path.exists(temp_csv_file)
    def test_initialize_csv_creates_file_with_headers(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager):
        """Test that initialize_csv creates a file with proper headers."""
        # Remove the file if it exists
        if os.path.exists(temp_csv_file):
            os.unlink(temp_csv_file)
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        # Check file exists and has correct headers
        assert os.path.exists(temp_csv_file)
        with open(temp_csv_file, 'r') as f:
            reader = csv.reader(f)
            headers = next(reader)
            expected_headers = [
                "date", "depression", "anxiety", "sleep", "appetite",
                "bupropion", "bupropion_doses", "hydroxyzine", "hydroxyzine_doses",
                "gabapentin", "gabapentin_doses", "propranolol", "propranolol_doses",
                "quetiapine", "quetiapine_doses", "note"
            ]
            assert headers == expected_headers
    def test_initialize_csv_does_not_overwrite_existing_file(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager):
        """Test that initialize_csv does not overwrite existing file."""
        # Write some data to the file first
        with open(temp_csv_file, 'w') as f:
            f.write("existing,data\n1,2\n")
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        # Check that existing data is preserved
        with open(temp_csv_file, 'r') as f:
            content = f.read()
            assert "existing,data" in content
    def test_load_data_empty_file(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager):
        """Test loading data from an empty file."""
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        df = dm.load_data()
        assert df.empty
    def test_load_data_nonexistent_file(self, mock_logger, mock_medicine_manager, mock_pathology_manager):
        """Test loading data from a nonexistent file."""
        dm = DataManager("nonexistent.csv", mock_logger, mock_medicine_manager, mock_pathology_manager)
        df = dm.load_data()
        assert df.empty
        mock_logger.warning.assert_called()
    def test_load_data_with_valid_data(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager, sample_data):
        """Test loading valid data from CSV file."""
        # Write sample data to file
        with open(temp_csv_file, 'w', newline='') as f:
            writer = csv.writer(f)
            # Write headers first
            writer.writerow([
                "date", "depression", "anxiety", "sleep", "appetite",
                "bupropion", "bupropion_doses", "hydroxyzine", "hydroxyzine_doses",
                "gabapentin", "gabapentin_doses", "propranolol", "propranolol_doses",
                "quetiapine", "quetiapine_doses", "note"
            ])
            # Write sample data
            writer.writerows(sample_data)
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        df = dm.load_data()
        assert not df.empty
        assert len(df) == 3
        assert list(df.columns) == [
            "date", "depression", "anxiety", "sleep", "appetite",
            "bupropion", "bupropion_doses", "hydroxyzine", "hydroxyzine_doses",
            "gabapentin", "gabapentin_doses", "propranolol", "propranolol_doses",
            "quetiapine", "quetiapine_doses", "note"
        ]
        # Check data types
        assert df["depression"].dtype == int
        assert df["anxiety"].dtype == int
        assert df["note"].dtype == object
    def test_load_data_sorted_by_date(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager):
        """Test that loaded data is sorted by date."""
        # Write data in random order
        unsorted_data = [
            ["2024-01-03", 1, 1, 1, 1, 1, "", 1, "", 1, "", 1, "", 0, "", "third"],
            ["2024-01-01", 2, 2, 2, 2, 2, "", 2, "", 2, "", 2, "", 1, "", "first"],
            ["2024-01-02", 3, 3, 3, 3, 3, "", 3, "", 3, "", 3, "", 0, "", "second"],
        ]
        with open(temp_csv_file, 'w', newline='') as f:
            writer = csv.writer(f)
            writer.writerow([
                "date", "depression", "anxiety", "sleep", "appetite",
                "bupropion", "bupropion_doses", "hydroxyzine", "hydroxyzine_doses",
                "gabapentin", "gabapentin_doses", "propranolol", "propranolol_doses",
                "quetiapine", "quetiapine_doses", "note"
            ])
            writer.writerows(unsorted_data)
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        df = dm.load_data()
        # Check that data is sorted by date
        assert df.iloc[0]["note"] == "first"
        assert df.iloc[1]["note"] == "second"
        assert df.iloc[2]["note"] == "third"
    def test_add_entry_success(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager):
        """Test successfully adding an entry."""
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        entry = ["2024-01-01", 3, 2, 4, 3, 1, "", 0, "", 2, "", 1, "", 0, "", "Test note"]
        result = dm.add_entry(entry)
        assert result is True
        # Verify entry was added
        df = dm.load_data()
        assert len(df) == 1
        assert df.iloc[0]["date"] == "2024-01-01"
        assert df.iloc[0]["note"] == "Test note"
    def test_add_entry_duplicate_date(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager, sample_data):
        """Test adding entry with duplicate date."""
        # Add initial data
        with open(temp_csv_file, 'w', newline='') as f:
            writer = csv.writer(f)
            writer.writerow([
                "date", "depression", "anxiety", "sleep", "appetite",
                "bupropion", "bupropion_doses", "hydroxyzine", "hydroxyzine_doses",
                "gabapentin", "gabapentin_doses", "propranolol", "propranolol_doses",
                "quetiapine", "quetiapine_doses", "note"
            ])
            writer.writerows(sample_data)
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        # Try to add entry with existing date
        duplicate_entry = ["2024-01-01", 5, 5, 5, 5, 1, "", 1, "", 1, "", 1, "", 0, "", "Duplicate"]
        result = dm.add_entry(duplicate_entry)
        assert result is False
        mock_logger.warning.assert_called_with("Entry with date 2024-01-01 already exists.")
    def test_update_entry_success(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager, sample_data):
        """Test successfully updating an entry."""
        # Add initial data
        with open(temp_csv_file, 'w', newline='') as f:
            writer = csv.writer(f)
            writer.writerow([
                "date", "depression", "anxiety", "sleep", "appetite",
                "bupropion", "bupropion_doses", "hydroxyzine", "hydroxyzine_doses",
                "gabapentin", "gabapentin_doses", "propranolol", "propranolol_doses",
                "quetiapine", "quetiapine_doses", "note"
            ])
            writer.writerows(sample_data)
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        updated_values = ["2024-01-01", 5, 5, 5, 5, 2, "", 2, "", 2, "", 2, "", 1, "", "Updated note"]
        result = dm.update_entry("2024-01-01", updated_values)
        assert result is True
        # Verify entry was updated
        df = dm.load_data()
        updated_row = df[df["date"] == "2024-01-01"].iloc[0]
        assert updated_row["depression"] == 5
        assert updated_row["note"] == "Updated note"
    def test_update_entry_change_date(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager, sample_data):
        """Test updating an entry with a date change."""
        # Add initial data
        with open(temp_csv_file, 'w', newline='') as f:
            writer = csv.writer(f)
            writer.writerow([
                "date", "depression", "anxiety", "sleep", "appetite",
                "bupropion", "bupropion_doses", "hydroxyzine", "hydroxyzine_doses",
                "gabapentin", "gabapentin_doses", "propranolol", "propranolol_doses",
                "quetiapine", "quetiapine_doses", "note"
            ])
            writer.writerows(sample_data)
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        updated_values = ["2024-01-05", 5, 5, 5, 5, 2, "", 2, "", 2, "", 2, "", 1, "", "Updated note"]
        result = dm.update_entry("2024-01-01", updated_values)
        assert result is True
        # Verify old date is gone and new date exists
        df = dm.load_data()
        assert not any(df["date"] == "2024-01-01")
        assert any(df["date"] == "2024-01-05")
    def test_update_entry_duplicate_date(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager, sample_data):
        """Test updating entry to a date that already exists."""
        # Add initial data
        with open(temp_csv_file, 'w', newline='') as f:
            writer = csv.writer(f)
            writer.writerow([
                "date", "depression", "anxiety", "sleep", "appetite",
                "bupropion", "bupropion_doses", "hydroxyzine", "hydroxyzine_doses",
                "gabapentin", "gabapentin_doses", "propranolol", "propranolol_doses",
                "quetiapine", "quetiapine_doses", "note"
            ])
            writer.writerows(sample_data)
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        # Try to change date to one that already exists
        updated_values = ["2024-01-02", 5, 5, 5, 5, 2, "", 2, "", 2, "", 2, "", 1, "", "Updated note"]
        result = dm.update_entry("2024-01-01", updated_values)
        assert result is False
        mock_logger.warning.assert_called_with(
            "Cannot update: entry with date 2024-01-02 already exists."
        )
    def test_delete_entry_success(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager, sample_data):
        """Test successfully deleting an entry."""
        # Add initial data
        with open(temp_csv_file, 'w', newline='') as f:
            writer = csv.writer(f)
            writer.writerow([
                "date", "depression", "anxiety", "sleep", "appetite",
                "bupropion", "bupropion_doses", "hydroxyzine", "hydroxyzine_doses",
                "gabapentin", "gabapentin_doses", "propranolol", "propranolol_doses",
                "quetiapine", "quetiapine_doses", "note"
            ])
            writer.writerows(sample_data)
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        result = dm.delete_entry("2024-01-02")
        assert result is True
        # Verify entry was deleted
        df = dm.load_data()
        assert len(df) == 2
        assert not any(df["date"] == "2024-01-02")
    def test_delete_entry_nonexistent(self, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager, sample_data):
        """Test deleting a nonexistent entry."""
        # Add initial data
        with open(temp_csv_file, 'w', newline='') as f:
            writer = csv.writer(f)
            writer.writerow([
                "date", "depression", "anxiety", "sleep", "appetite",
                "bupropion", "bupropion_doses", "hydroxyzine", "hydroxyzine_doses",
                "gabapentin", "gabapentin_doses", "propranolol", "propranolol_doses",
                "quetiapine", "quetiapine_doses", "note"
            ])
            writer.writerows(sample_data)
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        result = dm.delete_entry("2024-01-10")
        assert result is True  # Should return True even if no matching entry
        # Verify no data was lost
        df = dm.load_data()
        assert len(df) == 3
    @patch('pandas.read_csv')
    def test_load_data_exception_handling(self, mock_read_csv, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager):
        """Test exception handling in load_data."""
        mock_read_csv.side_effect = Exception("Test error")
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        df = dm.load_data()
        assert df.empty
        mock_logger.error.assert_called_with("Error loading data: Test error")
    @patch('builtins.open')
    def test_add_entry_exception_handling(self, mock_open, temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager):
        """Test exception handling in add_entry."""
        mock_open.side_effect = Exception("Test error")
        dm = DataManager(temp_csv_file, mock_logger, mock_medicine_manager, mock_pathology_manager)
        entry = ["2024-01-01", 3, 2, 4, 3, 1, 0, 2, 1, "Test note"]
        result = dm.add_entry(entry)
        assert result is False
        mock_logger.error.assert_called_with("Error adding entry: Test error")
@@ -0,0 +1,50 @@
 import pytest
 import tkinter as tk
 from src.ui_manager import UIManager
@pytest.fixture
 def root_window():
    root = tk.Tk()
    yield root
    root.destroy()
@pytest.fixture
 def ui_manager(root_window):
    class DummyLogger:
        def debug(self, *a, **k): pass
        def warning(self, *a, **k): pass
        def error(self, *a, **k): pass
    return UIManager(root_window, DummyLogger())
 def test_parse_dose_history_for_saving_bullet_and_delete(ui_manager):
    # Simulate user editing: add, delete, and custom lines
    date_str = "07/30/2025"
    # User deletes one line, adds a custom one
    text = """
 • 09:00 AM - 150mg
 • 06:00 PM - 150mg
 Custom note
 """.strip()
    result = ui_manager._parse_dose_history_for_saving(text, date_str)
    # Should parse both bullets and keep the custom line
    assert "2025-07-30 09:00:00:150mg" in result
    assert "2025-07-30 18:00:00:150mg" in result
    assert "Custom note" in result
    # If user deletes all, should return empty string
    assert ui_manager._parse_dose_history_for_saving("", date_str) == ""
    assert ui_manager._parse_dose_history_for_saving("No doses recorded today", date_str) == ""
 def test_parse_dose_history_for_saving_simple_time(ui_manager):
    date_str = "07/30/2025"
    text = "09:00 150mg\n18:00 150mg"
    result = ui_manager._parse_dose_history_for_saving(text, date_str)
    assert "2025-07-30 09:00:00:150mg" in result
    assert "2025-07-30 18:00:00:150mg" in result
 def test_parse_dose_history_for_saving_mixed(ui_manager):
    date_str = "07/30/2025"
    text = "• 09:00 AM - 150mg\n18:00 150mg\nJust a note"
    result = ui_manager._parse_dose_history_for_saving(text, date_str)
    assert "2025-07-30 09:00:00:150mg" in result
    assert "2025-07-30 18:00:00:150mg" in result
    assert "Just a note" in result
@@ -0,0 +1,788 @@
 """
 Tests for the GraphManager class.
 """
 import os
 import pytest
 import pandas as pd
 import tkinter as tk
 from tkinter import ttk
 from unittest.mock import Mock, patch
 import sys
 sys.path.insert(0, os.path.join(os.path.dirname(__file__), '..', 'src'))
 from src.graph_manager import GraphManager
 class TestGraphManager:
    """Test cases for the GraphManager class."""
    @pytest.fixture
    def root_window(self):
        """Create a root window for testing."""
        root = tk.Tk()
        yield root
        root.destroy()
    @pytest.fixture
    def parent_frame(self, root_window):
        """Create a parent frame for testing."""
        frame = ttk.LabelFrame(root_window, text="Test Frame")
        frame.pack()
        return frame
    def test_init(self, parent_frame):
        """Test GraphManager initialization."""
        gm = GraphManager(parent_frame)
        assert gm.parent_frame == parent_frame
        assert isinstance(gm.toggle_vars, dict)
        # Check symptom toggles
        assert "depression" in gm.toggle_vars
        assert "anxiety" in gm.toggle_vars
        assert "sleep" in gm.toggle_vars
        assert "appetite" in gm.toggle_vars
        # Check medicine toggles
        assert "bupropion" in gm.toggle_vars
        assert "hydroxyzine" in gm.toggle_vars
        assert "gabapentin" in gm.toggle_vars
        assert "propranolol" in gm.toggle_vars
        assert "quetiapine" in gm.toggle_vars
        # Check that symptom toggles are initially True
        for symptom in ["depression", "anxiety", "sleep", "appetite"]:
            assert gm.toggle_vars[symptom].get() is True
        # Check that some medicine toggles are True by default
        assert gm.toggle_vars["bupropion"].get() is True
        assert gm.toggle_vars["propranolol"].get() is True
        # Check that some medicine toggles are False by default
        assert gm.toggle_vars["hydroxyzine"].get() is False
        assert gm.toggle_vars["gabapentin"].get() is False
        assert gm.toggle_vars["quetiapine"].get() is False
    def test_toggle_controls_creation(self, parent_frame):
        """Test that toggle controls are created properly."""
        gm = GraphManager(parent_frame)
        # Check that control frame exists
        assert hasattr(gm, 'control_frame')
        assert isinstance(gm.control_frame, ttk.Frame)
        # Check that all toggle variables exist
        expected_toggles = ["depression", "anxiety", "sleep", "appetite",
                           "bupropion", "hydroxyzine", "gabapentin", "propranolol", "quetiapine"]
        for toggle in expected_toggles:
            assert toggle in gm.toggle_vars
            assert isinstance(gm.toggle_vars[toggle], tk.BooleanVar)
    def test_graph_frame_creation(self, parent_frame):
        """Test that graph frame is created properly."""
        gm = GraphManager(parent_frame)
        assert hasattr(gm, 'graph_frame')
        assert isinstance(gm.graph_frame, ttk.Frame)
    @patch('matplotlib.pyplot.subplots')
    def test_matplotlib_initialization(self, mock_subplots, parent_frame):
        """Test matplotlib figure and canvas initialization."""
        mock_fig = Mock()
        mock_ax = Mock()
        mock_subplots.return_value = (mock_fig, mock_ax)
        with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
            mock_canvas = Mock()
            mock_canvas_class.return_value = mock_canvas
            gm = GraphManager(parent_frame)
            assert gm.fig == mock_fig
            assert gm.ax == mock_ax
            assert gm.canvas == mock_canvas
            mock_canvas_class.assert_called_once_with(figure=mock_fig, master=gm.graph_frame)
    def test_update_graph_empty_dataframe(self, parent_frame):
        """Test updating graph with empty DataFrame."""
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg'):
                gm = GraphManager(parent_frame)
                # Test with empty DataFrame
                empty_df = pd.DataFrame()
                gm.update_graph(empty_df)
                # Verify ax.clear() was called
                mock_ax.clear.assert_called()
    def test_update_graph_with_data(self, parent_frame, sample_dataframe):
        """Test updating graph with valid data."""
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                gm = GraphManager(parent_frame)
                gm.update_graph(sample_dataframe)
                # Verify methods were called
                mock_ax.clear.assert_called()
                mock_canvas.draw.assert_called()
    def test_toggle_functionality(self, parent_frame, sample_dataframe):
        """Test that toggle variables affect graph display."""
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                gm = GraphManager(parent_frame)
                # Turn off depression toggle
                gm.toggle_vars["depression"].set(False)
                gm.update_graph(sample_dataframe)
                # The graph should still update (specific plotting logic would need more detailed testing)
                mock_ax.clear.assert_called()
                mock_canvas.draw.assert_called()
    def test_close_method(self, parent_frame):
        """Test the close method."""
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                with patch('matplotlib.pyplot.close') as mock_plt_close:
                    gm = GraphManager(parent_frame)
                    gm.close()
                    mock_plt_close.assert_called_once_with(mock_fig)
    def test_date_parsing_in_update_graph(self, parent_frame):
        """Test that date parsing works correctly in update_graph."""
        # Create a DataFrame with date strings
        df_with_dates = pd.DataFrame({
            'date': ['2024-01-01', '2024-01-02', '2024-01-03'],
            'depression': [3, 2, 4],
            'anxiety': [2, 3, 1],
            'sleep': [4, 3, 5],
            'appetite': [3, 4, 2],
            'bupropion': [1, 1, 0],
            'hydroxyzine': [0, 1, 0],
            'gabapentin': [2, 2, 1],
            'propranolol': [1, 0, 1],
            'note': ['Test note 1', 'Test note 2', '']
        })
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                with patch('pandas.to_datetime') as mock_to_datetime:
                    gm = GraphManager(parent_frame)
                    gm.update_graph(df_with_dates)
                    # Verify pandas.to_datetime was called
                    mock_to_datetime.assert_called()
    @patch('matplotlib.pyplot.subplots')
    def test_exception_handling_in_update_graph(self, mock_subplots, parent_frame, sample_dataframe):
        """Test exception handling in update_graph method."""
        mock_fig = Mock()
        mock_ax = Mock()
        mock_ax.plot.side_effect = Exception("Plot error")
        mock_subplots.return_value = (mock_fig, mock_ax)
        with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
            mock_canvas = Mock()
            mock_canvas_class.return_value = mock_canvas
            gm = GraphManager(parent_frame)
            # This should not raise an exception, but handle it gracefully
            try:
                gm.update_graph(sample_dataframe)
            except Exception as e:
                pytest.fail(f"update_graph should handle exceptions gracefully, but raised: {e}")
    def test_grid_configuration(self, parent_frame):
        """Test that grid configuration is set up correctly."""
        gm = GraphManager(parent_frame)
        # The parent frame should have grid configuration
        # Note: In a real test, you might need to check grid_info() or similar
        # This is a basic structure test
        assert hasattr(gm, 'parent_frame')
        assert hasattr(gm, 'control_frame')
        assert hasattr(gm, 'graph_frame')
    def test_canvas_widget_packing(self, parent_frame):
        """Test that canvas widget is properly packed."""
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas.get_tk_widget.return_value = Mock()
                mock_canvas_class.return_value = mock_canvas
                gm = GraphManager(parent_frame)
                # Verify get_tk_widget was called (for packing)
                mock_canvas.get_tk_widget.assert_called()
    def test_multiple_toggle_combinations(self, parent_frame, sample_dataframe):
        """Test various combinations of toggle states."""
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                gm = GraphManager(parent_frame)
                # Test all toggles off
                for toggle in gm.toggle_vars.values():
                    toggle.set(False)
                gm.update_graph(sample_dataframe)
                # Test mixed toggles
                gm.toggle_vars["depression"].set(True)
                gm.toggle_vars["anxiety"].set(False)
                gm.update_graph(sample_dataframe)
                # Verify the graph was updated in each case
                assert mock_ax.clear.call_count >= 2
                assert mock_canvas.draw.call_count >= 2
    def test_calculate_daily_dose_empty_input(self, parent_frame):
        """Test dose calculation with empty/invalid input."""
        gm = GraphManager(parent_frame)
        # Test empty string
        assert gm._calculate_daily_dose("") == 0.0
        # Test NaN values
        assert gm._calculate_daily_dose("nan") == 0.0
        assert gm._calculate_daily_dose("NaN") == 0.0
        # Test None (will be converted to string)
        assert gm._calculate_daily_dose(None) == 0.0
    def test_calculate_daily_dose_standard_format(self, parent_frame):
        """Test dose calculation with standard timestamp:dose format."""
        gm = GraphManager(parent_frame)
        # Single dose
        dose_str = "2025-07-28 18:59:45:150mg"
        assert gm._calculate_daily_dose(dose_str) == 150.0
        # Multiple doses
        dose_str = "2025-07-28 18:59:45:150mg|2025-07-28 19:34:19:75mg"
        assert gm._calculate_daily_dose(dose_str) == 225.0
        # Doses without units
        dose_str = "2025-07-28 18:59:45:10|2025-07-28 19:34:19:5"
        assert gm._calculate_daily_dose(dose_str) == 15.0
    def test_calculate_daily_dose_with_symbols(self, parent_frame):
        """Test dose calculation with bullet symbols."""
        gm = GraphManager(parent_frame)
        # With bullet symbols
        dose_str = "• • • • 2025-07-30 07:50:00:300"
        assert gm._calculate_daily_dose(dose_str) == 300.0
        # Multiple bullets
        dose_str = "• 2025-07-30 22:50:00:10|• 2025-07-30 23:50:00:5"
        assert gm._calculate_daily_dose(dose_str) == 15.0
    def test_calculate_daily_dose_no_timestamp(self, parent_frame):
        """Test dose calculation without timestamp."""
        gm = GraphManager(parent_frame)
        # Just dose value
        dose_str = "150mg"
        assert gm._calculate_daily_dose(dose_str) == 150.0
        # Multiple values without timestamp
        dose_str = "100|50"
        assert gm._calculate_daily_dose(dose_str) == 150.0
    def test_calculate_daily_dose_decimal_values(self, parent_frame):
        """Test dose calculation with decimal values."""
        gm = GraphManager(parent_frame)
        # Decimal dose
        dose_str = "2025-07-28 18:59:45:12.5mg"
        assert gm._calculate_daily_dose(dose_str) == 12.5
        # Multiple decimal doses
        dose_str = "2025-07-28 18:59:45:12.5mg|2025-07-28 19:34:19:7.5mg"
        assert gm._calculate_daily_dose(dose_str) == 20.0
    def test_medicine_dose_plotting(self, parent_frame):
        """Test that medicine doses are plotted correctly."""
        # Create a DataFrame with dose data
        df_with_doses = pd.DataFrame({
            'date': ['2024-01-01', '2024-01-02', '2024-01-03'],
            'depression': [3, 2, 4],
            'anxiety': [2, 3, 1],
            'sleep': [4, 3, 5],
            'appetite': [3, 4, 2],
            'bupropion': [1, 1, 0],
            'bupropion_doses': ['2024-01-01 08:00:00:150mg', '2024-01-02 08:00:00:300mg', ''],
            'hydroxyzine': [0, 1, 0],
            'hydroxyzine_doses': ['', '2024-01-02 20:00:00:25mg', ''],
            'gabapentin': [0, 0, 0],
            'gabapentin_doses': ['', '', ''],
            'propranolol': [1, 0, 1],
            'propranolol_doses': ['2024-01-01 12:00:00:10mg', '', '2024-01-03 12:00:00:20mg'],
            'quetiapine': [0, 0, 0],
            'quetiapine_doses': ['', '', ''],
        })
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                gm = GraphManager(parent_frame)
                gm.update_graph(df_with_doses)
                # Verify that bar plots were called (for medicines with doses)
                mock_ax.bar.assert_called()
                # Verify canvas was redrawn
                mock_canvas.draw.assert_called()
    def test_medicine_toggle_functionality(self, parent_frame):
        """Test that medicine toggles affect dose display."""
        df_with_doses = pd.DataFrame({
            'date': ['2024-01-01'],
            'depression': [3],
            'anxiety': [2],
            'sleep': [4],
            'appetite': [3],
            'bupropion': [1],
            'bupropion_doses': ['2024-01-01 08:00:00:150mg'],
            'hydroxyzine': [0],
            'hydroxyzine_doses': [''],
            'gabapentin': [0],
            'gabapentin_doses': [''],
            'propranolol': [1],
            'propranolol_doses': ['2024-01-01 12:00:00:10mg'],
            'quetiapine': [0],
            'quetiapine_doses': [''],
        })
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                gm = GraphManager(parent_frame)
                # Turn off bupropion toggle
                gm.toggle_vars["bupropion"].set(False)
                gm.update_graph(df_with_doses)
                # Turn on hydroxyzine toggle (though it has no doses)
                gm.toggle_vars["hydroxyzine"].set(True)
                gm.update_graph(df_with_doses)
                # Verify the graph was updated
                assert mock_ax.clear.call_count >= 2
                assert mock_canvas.draw.call_count >= 2
    def test_enhanced_legend_functionality(self, parent_frame):
        """Test that the enhanced legend displays correctly with medicine data."""
        df_with_doses = pd.DataFrame({
            'date': ['2024-01-01', '2024-01-02'],
            'depression': [3, 2],
            'anxiety': [2, 3],
            'sleep': [4, 3],
            'appetite': [3, 4],
            'bupropion': [1, 1],
            'bupropion_doses': ['2024-01-01 08:00:00:150mg', '2024-01-02 08:00:00:200mg'],
            'hydroxyzine': [0, 0],
            'hydroxyzine_doses': ['', ''],
            'gabapentin': [0, 0],
            'gabapentin_doses': ['', ''],
            'propranolol': [1, 1],
            'propranolol_doses': ['2024-01-01 12:00:00:10mg', '2024-01-02 12:00:00:15mg'],
            'quetiapine': [0, 0],
            'quetiapine_doses': ['', ''],
        })
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_ax.get_legend_handles_labels.return_value = ([], [])
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                gm = GraphManager(parent_frame)
                # Enable some medicine toggles
                gm.toggle_vars["bupropion"].set(True)
                gm.toggle_vars["propranolol"].set(True)
                gm.toggle_vars["hydroxyzine"].set(True)  # No dose data
                gm.update_graph(df_with_doses)
                # Verify that legend is called with enhanced parameters
                mock_ax.legend.assert_called()
                legend_call = mock_ax.legend.call_args
                # Check that enhanced legend parameters are used
                assert 'ncol' in legend_call.kwargs
                assert legend_call.kwargs['ncol'] == 2
                assert 'fontsize' in legend_call.kwargs
                assert legend_call.kwargs['fontsize'] == 'small'
                assert 'frameon' in legend_call.kwargs
                assert legend_call.kwargs['frameon'] is True
    def test_legend_with_medicines_without_data(self, parent_frame):
        """Test that medicines without dose data are properly tracked in legend."""
        df_with_partial_doses = pd.DataFrame({
            'date': ['2024-01-01'],
            'depression': [3],
            'anxiety': [2],
            'sleep': [4],
            'appetite': [3],
            'bupropion': [1],
            'bupropion_doses': ['2024-01-01 08:00:00:150mg'],
            'hydroxyzine': [0],
            'hydroxyzine_doses': [''],  # No dose data
            'gabapentin': [0],
            'gabapentin_doses': [''],  # No dose data
            'propranolol': [0],
            'propranolol_doses': [''],
            'quetiapine': [0],
            'quetiapine_doses': [''],
        })
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            # Mock the legend handles and labels
            original_handles = [Mock()]
            original_labels = ['Bupropion (avg: 150.0mg)']
            mock_ax.get_legend_handles_labels.return_value = (original_handles, original_labels)
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                gm = GraphManager(parent_frame)
                # Enable medicines with and without data
                gm.toggle_vars["bupropion"].set(True)  # Has data
                gm.toggle_vars["hydroxyzine"].set(True)  # No data
                gm.toggle_vars["gabapentin"].set(True)  # No data
                gm.update_graph(df_with_partial_doses)
                # Verify legend was called
                mock_ax.legend.assert_called()
                # Check that the legend call includes additional handles/labels
                legend_call = mock_ax.legend.call_args
                handles, labels = legend_call.args[:2]
                # Should have more labels than just the original ones
                assert len(labels) > len(original_labels)
    def test_average_dose_calculation_in_legend(self, parent_frame):
        """Test that average doses are correctly calculated and displayed in legend."""
        df_with_varying_doses = pd.DataFrame({
            'date': ['2024-01-01', '2024-01-02', '2024-01-03'],
            'depression': [3, 2, 4],
            'anxiety': [2, 3, 1],
            'sleep': [4, 3, 5],
            'appetite': [3, 4, 2],
            'bupropion': [1, 1, 1],
            'bupropion_doses': ['2024-01-01 08:00:00:100mg',
                               '2024-01-02 08:00:00:200mg',
                               '2024-01-03 08:00:00:150mg'],  # Average should be 150mg
            'propranolol': [1, 1, 0],
            'propranolol_doses': ['2024-01-01 12:00:00:10mg',
                                 '2024-01-02 12:00:00:20mg',
                                 ''],  # Average should be 15mg
            'hydroxyzine': [0, 0, 0],
            'hydroxyzine_doses': ['', '', ''],
            'gabapentin': [0, 0, 0],
            'gabapentin_doses': ['', '', ''],
            'quetiapine': [0, 0, 0],
            'quetiapine_doses': ['', '', ''],
        })
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                gm = GraphManager(parent_frame)
                # Test the average calculation directly
                bup_avg = gm._calculate_daily_dose('2024-01-01 08:00:00:100mg')
                assert bup_avg == 100.0
                prop_avg = gm._calculate_daily_dose('2024-01-01 12:00:00:10mg')
                assert prop_avg == 10.0
                # Test with full data
                gm.toggle_vars["bupropion"].set(True)
                gm.toggle_vars["propranolol"].set(True)
                gm.update_graph(df_with_varying_doses)
                # Verify that bars were plotted (indicating dose data was processed)
                mock_ax.bar.assert_called()
    def test_legend_positioning_and_styling(self, parent_frame):
        """Test that legend positioning and styling parameters are correctly applied."""
        df_simple = pd.DataFrame({
            'date': ['2024-01-01'],
            'depression': [3],
            'anxiety': [2],
            'sleep': [4],
            'appetite': [3],
            'bupropion': [1],
            'bupropion_doses': ['2024-01-01 08:00:00:150mg'],
            'hydroxyzine': [0],
            'hydroxyzine_doses': [''],
            'gabapentin': [0],
            'gabapentin_doses': [''],
            'propranolol': [0],
            'propranolol_doses': [''],
            'quetiapine': [0],
            'quetiapine_doses': [''],
        })
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_ax.get_legend_handles_labels.return_value = ([Mock()], ['Test Label'])
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                gm = GraphManager(parent_frame)
                gm.update_graph(df_simple)
                # Verify legend styling parameters
                mock_ax.legend.assert_called()
                legend_call = mock_ax.legend.call_args
                expected_params = {
                    'loc': 'upper left',
                    'bbox_to_anchor': (0, 1),
                    'ncol': 2,
                    'fontsize': 'small',
                    'frameon': True,
                    'fancybox': True,
                    'shadow': True,
                    'framealpha': 0.9
                }
                for param, expected_value in expected_params.items():
                    assert param in legend_call.kwargs
                    assert legend_call.kwargs[param] == expected_value
    def test_medicine_tracking_lists(self, parent_frame):
        """Test that medicines are correctly categorized into with_data and without_data lists."""
        df_mixed_data = pd.DataFrame({
            'date': ['2024-01-01', '2024-01-02'],
            'depression': [3, 2],
            'anxiety': [2, 3],
            'sleep': [4, 3],
            'appetite': [3, 4],
            # Medicines with data
            'bupropion': [1, 1],
            'bupropion_doses': ['2024-01-01 08:00:00:150mg', '2024-01-02 08:00:00:200mg'],
            'propranolol': [1, 1],
            'propranolol_doses': ['2024-01-01 12:00:00:10mg', '2024-01-02 12:00:00:15mg'],
            # Medicines without data (but toggled on)
            'hydroxyzine': [0, 0],
            'hydroxyzine_doses': ['', ''],
            'gabapentin': [0, 0],
            'gabapentin_doses': ['', ''],
            'quetiapine': [0, 0],
            'quetiapine_doses': ['', ''],
        })
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_ax.get_legend_handles_labels.return_value = ([], [])
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                gm = GraphManager(parent_frame)
                # Enable all medicines
                gm.toggle_vars["bupropion"].set(True)      # Has data
                gm.toggle_vars["propranolol"].set(True)    # Has data
                gm.toggle_vars["hydroxyzine"].set(True)    # No data
                gm.toggle_vars["gabapentin"].set(True)     # No data
                gm.toggle_vars["quetiapine"].set(False)    # Disabled
                gm.update_graph(df_mixed_data)
                # Verify that the method was called and plotting occurred
                mock_ax.bar.assert_called()  # Should be called for medicines with data
                mock_ax.legend.assert_called()  # Legend should be created
    def test_legend_dummy_handle_creation(self, parent_frame):
        """Test that dummy handles are created for medicines without data."""
        df_no_dose_data = pd.DataFrame({
            'date': ['2024-01-01'],
            'depression': [3],
            'anxiety': [2],
            'sleep': [4],
            'appetite': [3],
            'bupropion': [0],
            'bupropion_doses': [''],
            'hydroxyzine': [0],
            'hydroxyzine_doses': [''],
            'gabapentin': [0],
            'gabapentin_doses': [''],
            'propranolol': [0],
            'propranolol_doses': [''],
            'quetiapine': [0],
            'quetiapine_doses': [''],
        })
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_ax.get_legend_handles_labels.return_value = ([Mock()], ['Depression'])
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                # Mock Rectangle import for dummy handle creation
                with patch('matplotlib.patches.Rectangle') as mock_rectangle:
                    mock_dummy_handle = Mock()
                    mock_rectangle.return_value = mock_dummy_handle
                    gm = GraphManager(parent_frame)
                    # Enable some medicines without data
                    gm.toggle_vars["hydroxyzine"].set(True)
                    gm.toggle_vars["gabapentin"].set(True)
                    gm.update_graph(df_no_dose_data)
                    # If there are medicines without data, Rectangle should be called
                    # to create dummy handles
                    if gm.toggle_vars["hydroxyzine"].get() or gm.toggle_vars["gabapentin"].get():
                        mock_rectangle.assert_called()
    def test_empty_dataframe_legend_handling(self, parent_frame):
        """Test that legend is handled correctly with empty DataFrame."""
        empty_df = pd.DataFrame()
        with patch('matplotlib.pyplot.subplots') as mock_subplots:
            mock_fig = Mock()
            mock_ax = Mock()
            mock_subplots.return_value = (mock_fig, mock_ax)
            with patch('graph_manager.FigureCanvasTkAgg') as mock_canvas_class:
                mock_canvas = Mock()
                mock_canvas_class.return_value = mock_canvas
                gm = GraphManager(parent_frame)
                gm.update_graph(empty_df)
                # With empty data, legend should not be called
                mock_ax.legend.assert_not_called()
                mock_ax.clear.assert_called()
                mock_canvas.draw.assert_called()
    def test_dose_calculation_comprehensive(self, parent_frame, sample_dose_data):
        """Test dose calculation with comprehensive test cases."""
        gm = GraphManager(parent_frame)
        # Test all sample dose data cases
        assert gm._calculate_daily_dose(sample_dose_data['standard_format']) == 225.0
        assert gm._calculate_daily_dose(sample_dose_data['with_bullets']) == 300.0
        assert gm._calculate_daily_dose(sample_dose_data['decimal_doses']) == 20.0
        assert gm._calculate_daily_dose(sample_dose_data['no_timestamp']) == 150.0
        assert gm._calculate_daily_dose(sample_dose_data['mixed_format']) == 85.0
        assert gm._calculate_daily_dose(sample_dose_data['empty_string']) == 0.0
        assert gm._calculate_daily_dose(sample_dose_data['nan_value']) == 0.0
        assert gm._calculate_daily_dose(sample_dose_data['no_units']) == 15.0
    def test_dose_calculation_edge_cases(self, parent_frame):
        """Test dose calculation with edge cases."""
        gm = GraphManager(parent_frame)
        # Test with malformed data
        assert gm._calculate_daily_dose("malformed:data") == 0.0
        assert gm._calculate_daily_dose("::::") == 0.0
        assert gm._calculate_daily_dose("2025-07-28:") == 0.0
        assert gm._calculate_daily_dose("2025-07-28::mg") == 0.0
        # Test with partial data
        assert gm._calculate_daily_dose("2025-07-28 18:59:45:150") == 150.0  # no units
        assert gm._calculate_daily_dose("150mg") == 150.0  # no timestamp
        # Test with spaces and special characters
        assert gm._calculate_daily_dose("  2025-07-28 18:59:45:150mg  ") == 150.0
        assert gm._calculate_daily_dose("••• 2025-07-28 18:59:45:150mg •••") == 150.0
@@ -0,0 +1,257 @@
 """
 Tests for init module.
 """
 import os
 import pytest
 from unittest.mock import patch, Mock
 import sys
 sys.path.insert(0, os.path.join(os.path.dirname(__file__), '..', 'src'))
 class TestInit:
    """Test cases for the init module."""
    def test_log_directory_creation(self, temp_log_dir):
        """Test that log directory is created if it doesn't exist."""
        with patch('init.LOG_PATH', temp_log_dir + '/new_dir'), \
             patch('os.path.exists', return_value=False), \
             patch('os.mkdir') as mock_mkdir:
            # Re-import to trigger the directory creation logic
            import importlib
            if 'init' in sys.modules:
                importlib.reload(sys.modules['init'])
            else:
                import src.init
            mock_mkdir.assert_called_once()
    def test_log_directory_exists(self, temp_log_dir):
        """Test behavior when log directory already exists."""
        with patch('init.LOG_PATH', temp_log_dir), \
             patch('os.path.exists', return_value=True), \
             patch('os.mkdir') as mock_mkdir:
            import importlib
            if 'init' in sys.modules:
                importlib.reload(sys.modules['init'])
            else:
                import src.init
            mock_mkdir.assert_not_called()
    def test_log_directory_creation_error(self, temp_log_dir):
        """Test handling of errors during log directory creation."""
        with patch('init.LOG_PATH', '/invalid/path'), \
             patch('os.path.exists', return_value=False), \
             patch('os.mkdir', side_effect=PermissionError("Permission denied")), \
             patch('builtins.print') as mock_print:
            import importlib
            if 'init' in sys.modules:
                importlib.reload(sys.modules['init'])
            else:
                import src.init
            mock_print.assert_called()
    def test_logger_initialization(self, temp_log_dir):
        """Test that logger is initialized correctly."""
        with patch('init.LOG_PATH', temp_log_dir), \
             patch('init.LOG_LEVEL', 'INFO'), \
             patch('init.init_logger') as mock_init_logger:
            mock_logger = Mock()
            mock_init_logger.return_value = mock_logger
            import importlib
            if 'init' in sys.modules:
                importlib.reload(sys.modules['init'])
            else:
                import src.init
            mock_init_logger.assert_called_once_with('init', testing_mode=False)
    def test_logger_initialization_debug_mode(self, temp_log_dir):
        """Test logger initialization in debug mode."""
        with patch('init.LOG_PATH', temp_log_dir), \
             patch('init.LOG_LEVEL', 'DEBUG'), \
             patch('init.init_logger') as mock_init_logger:
            mock_logger = Mock()
            mock_init_logger.return_value = mock_logger
            import importlib
            if 'init' in sys.modules:
                importlib.reload(sys.modules['init'])
            else:
                import src.init
            mock_init_logger.assert_called_once_with('init', testing_mode=True)
    def test_log_files_definition(self, temp_log_dir):
        """Test that log files tuple is defined correctly."""
        with patch('init.LOG_PATH', temp_log_dir):
            import importlib
            if 'init' in sys.modules:
                importlib.reload(sys.modules['init'])
            else:
                import src.init
            expected_files = (
                f"{temp_log_dir}/thechart.log",
                f"{temp_log_dir}/thechart.warning.log",
                f"{temp_log_dir}/thechart.error.log",
            )
            assert src.init.log_files == expected_files
    def test_testing_mode_detection(self, temp_log_dir):
        """Test that testing mode is detected correctly."""
        with patch('init.LOG_PATH', temp_log_dir):
            # Test with DEBUG level
            with patch('init.LOG_LEVEL', 'DEBUG'):
                import importlib
                if 'init' in sys.modules:
                    importlib.reload(sys.modules['init'])
                else:
                    import src.init
                assert src.init.testing_mode is True
            # Test with non-DEBUG level
            with patch('init.LOG_LEVEL', 'INFO'):
                importlib.reload(sys.modules['init'])
                assert src.init.testing_mode is False
    def test_log_clear_true(self, temp_log_dir):
        """Test log file clearing when LOG_CLEAR is True."""
        # Create some test log files
        log_files = [
            os.path.join(temp_log_dir, "thechart.log"),
            os.path.join(temp_log_dir, "thechart.warning.log"),
            os.path.join(temp_log_dir, "thechart.error.log"),
        ]
        for log_file in log_files:
            with open(log_file, 'w') as f:
                f.write("Old log content")
        with patch('init.LOG_PATH', temp_log_dir), \
             patch('init.LOG_CLEAR', 'True'), \
             patch('init.log_files', log_files):
            import importlib
            if 'init' in sys.modules:
                importlib.reload(sys.modules['init'])
            else:
                import src.init
            # Check that files were truncated
            for log_file in log_files:
                with open(log_file, 'r') as f:
                    assert f.read() == ""
    def test_log_clear_false(self, temp_log_dir):
        """Test that log files are not cleared when LOG_CLEAR is False."""
        # Create some test log files
        log_files = [
            os.path.join(temp_log_dir, "thechart.log"),
            os.path.join(temp_log_dir, "thechart.warning.log"),
            os.path.join(temp_log_dir, "thechart.error.log"),
        ]
        original_content = "Original log content"
        for log_file in log_files:
            with open(log_file, 'w') as f:
                f.write(original_content)
        with patch('init.LOG_PATH', temp_log_dir), \
             patch('init.LOG_CLEAR', 'False'), \
             patch('init.log_files', log_files):
            import importlib
            if 'init' in sys.modules:
                importlib.reload(sys.modules['init'])
            else:
                import src.init
            # Check that files were not truncated
            for log_file in log_files:
                with open(log_file, 'r') as f:
                    assert f.read() == original_content
    def test_log_clear_nonexistent_files(self, temp_log_dir):
        """Test log clearing when some log files don't exist."""
        log_files = [
            os.path.join(temp_log_dir, "thechart.log"),
            os.path.join(temp_log_dir, "nonexistent.log"),
        ]
        # Create only one of the files
        with open(log_files[0], 'w') as f:
            f.write("Content")
        with patch('init.LOG_PATH', temp_log_dir), \
             patch('init.LOG_CLEAR', 'True'), \
             patch('init.log_files', log_files):
            # This should not raise an exception
            import importlib
            if 'init' in sys.modules:
                importlib.reload(sys.modules['init'])
            else:
                import src.init
    def test_log_clear_permission_error(self, temp_log_dir):
        """Test handling of permission errors during log clearing."""
        log_files = [os.path.join(temp_log_dir, "thechart.log")]
        with open(log_files[0], 'w') as f:
            f.write("Content")
        with patch('init.LOG_PATH', temp_log_dir), \
             patch('init.LOG_CLEAR', 'True'), \
             patch('init.log_files', log_files), \
             patch('builtins.open', side_effect=PermissionError("Permission denied")), \
             patch('init.logger') as mock_logger:
            mock_logger.error = Mock()
            # Should raise the exception after logging
            with pytest.raises(PermissionError):
                import importlib
                if 'init' in sys.modules:
                    importlib.reload(sys.modules['init'])
                else:
                    import src.init
    def test_module_exports(self, temp_log_dir):
        """Test that module exports expected objects."""
        with patch('init.LOG_PATH', temp_log_dir):
            import importlib
            if 'init' in sys.modules:
                importlib.reload(sys.modules['init'])
            else:
                import src.init
            # Check that expected objects are available
            assert hasattr(src.init, 'logger')
            assert hasattr(src.init, 'log_files')
            assert hasattr(src.init, 'testing_mode')
    def test_log_path_printing(self, temp_log_dir):
        """Test that LOG_PATH is printed when directory is created."""
        with patch('init.LOG_PATH', temp_log_dir + '/new_dir'), \
             patch('os.path.exists', return_value=False), \
             patch('os.mkdir'), \
             patch('builtins.print') as mock_print:
            import importlib
            if 'init' in sys.modules:
                importlib.reload(sys.modules['init'])
            else:
                import src.init
            mock_print.assert_called_with(temp_log_dir + '/new_dir')
@@ -0,0 +1,179 @@
 """
 Tests for logger module.
 """
 import os
 import logging
 import pytest
 from unittest.mock import patch
 import sys
 sys.path.insert(0, os.path.join(os.path.dirname(__file__), '..', 'src'))
 from src.logger import init_logger
 class TestLogger:
    """Test cases for the logger module."""
    def test_init_logger_basic(self, temp_log_dir):
        """Test basic logger initialization."""
        with patch('logger.LOG_PATH', temp_log_dir):
            logger = init_logger("test_logger", testing_mode=False)
            assert isinstance(logger, logging.Logger)
            assert logger.name == "test_logger"
            assert logger.level == logging.INFO
    def test_init_logger_testing_mode(self, temp_log_dir):
        """Test logger initialization in testing mode."""
        with patch('logger.LOG_PATH', temp_log_dir):
            logger = init_logger("test_logger", testing_mode=True)
            assert logger.level == logging.DEBUG
    def test_init_logger_production_mode(self, temp_log_dir):
        """Test logger initialization in production mode."""
        with patch('logger.LOG_PATH', temp_log_dir):
            logger = init_logger("test_logger", testing_mode=False)
            assert logger.level == logging.INFO
    def test_file_handlers_created(self, temp_log_dir):
        """Test that file handlers are created correctly."""
        with patch('logger.LOG_PATH', temp_log_dir):
            logger = init_logger("test_logger", testing_mode=False)
            # Check that handlers were added
            assert len(logger.handlers) >= 3  # At least 3 file handlers
    def test_file_handler_levels(self, temp_log_dir):
        """Test that file handlers have correct log levels."""
        with patch('logger.LOG_PATH', temp_log_dir):
            logger = init_logger("test_logger", testing_mode=False)
            handler_levels = [handler.level for handler in logger.handlers if isinstance(handler, logging.FileHandler)]
            # Should have handlers for DEBUG, WARNING, and ERROR levels
            assert logging.DEBUG in handler_levels
            assert logging.WARNING in handler_levels
            assert logging.ERROR in handler_levels
    def test_log_file_paths(self, temp_log_dir):
        """Test that log files are created with correct paths."""
        with patch('logger.LOG_PATH', temp_log_dir):
            logger = init_logger("test_logger", testing_mode=False)
            # Log something to trigger file creation
            logger.debug("Test debug message")
            logger.warning("Test warning message")
            logger.error("Test error message")
            # Check that log files would be created (paths are correct)
            expected_files = [
                os.path.join(temp_log_dir, "app.log"),
                os.path.join(temp_log_dir, "app.warning.log"),
                os.path.join(temp_log_dir, "app.error.log")
            ]
            # The files should exist or be ready to be created
            for handler in logger.handlers:
                if isinstance(handler, logging.FileHandler):
                    assert handler.baseFilename in expected_files
    def test_formatter_format(self, temp_log_dir):
        """Test that formatters are set correctly."""
        with patch('logger.LOG_PATH', temp_log_dir):
            logger = init_logger("test_logger", testing_mode=False)
            expected_format = "%(asctime)s - %(name)s - %(funcName)s - %(levelname)s - %(message)s"
            for handler in logger.handlers:
                if isinstance(handler, logging.FileHandler):
                    assert handler.formatter._fmt == expected_format
    @patch('colorlog.basicConfig')
    def test_colorlog_configuration(self, mock_basicConfig, temp_log_dir):
        """Test that colorlog is configured correctly."""
        with patch('logger.LOG_PATH', temp_log_dir):
            init_logger("test_logger", testing_mode=False)
            mock_basicConfig.assert_called_once()
            # Check that format includes color and bold formatting
            call_args = mock_basicConfig.call_args
            assert 'format' in call_args[1]
            format_string = call_args[1]['format']
            assert '%(log_color)s' in format_string
            assert '\033[1m' in format_string  # Bold sequence
    def test_multiple_logger_instances(self, temp_log_dir):
        """Test creating multiple logger instances."""
        with patch('logger.LOG_PATH', temp_log_dir):
            logger1 = init_logger("logger1", testing_mode=False)
            logger2 = init_logger("logger2", testing_mode=True)
            assert logger1.name == "logger1"
            assert logger2.name == "logger2"
            assert logger1.level == logging.INFO
            assert logger2.level == logging.DEBUG
    def test_logger_inheritance(self, temp_log_dir):
        """Test that logger follows Python logging hierarchy."""
        with patch('logger.LOG_PATH', temp_log_dir):
            logger = init_logger("test.module.logger", testing_mode=False)
            assert logger.name == "test.module.logger"
    @patch('logging.FileHandler')
    def test_file_handler_error_handling(self, mock_file_handler, temp_log_dir):
        """Test error handling when file handler creation fails."""
        mock_file_handler.side_effect = PermissionError("Cannot create log file")
        with patch('logger.LOG_PATH', temp_log_dir):
            # Should not raise an exception, but handle gracefully
            try:
                logger = init_logger("test_logger", testing_mode=False)
                # Logger should still be created, just without file handlers
                assert isinstance(logger, logging.Logger)
            except PermissionError:
                pytest.fail("init_logger should handle file creation errors gracefully")
    def test_logger_name_parameter(self, temp_log_dir):
        """Test that logger name is set correctly from parameter."""
        with patch('logger.LOG_PATH', temp_log_dir):
            test_name = "my.custom.logger.name"
            logger = init_logger(test_name, testing_mode=False)
            assert logger.name == test_name
    def test_testing_mode_boolean(self, temp_log_dir):
        """Test that testing_mode parameter accepts boolean values."""
        with patch('logger.LOG_PATH', temp_log_dir):
            logger_true = init_logger("test1", testing_mode=True)
            logger_false = init_logger("test2", testing_mode=False)
            assert logger_true.level == logging.DEBUG
            assert logger_false.level == logging.INFO
    def test_log_format_contains_required_fields(self, temp_log_dir):
        """Test that log format contains all required fields."""
        with patch('logger.LOG_PATH', temp_log_dir):
            logger = init_logger("test_logger", testing_mode=False)
            log_format = "%(asctime)s - %(name)s - %(funcName)s - %(levelname)s - %(message)s"
            # Check that format contains all expected fields
            expected_fields = ['%(asctime)s', '%(name)s', '%(funcName)s', '%(levelname)s', '%(message)s']
            for field in expected_fields:
                assert field in log_format
    def test_handler_file_mode(self, temp_log_dir):
        """Test that file handlers use append mode by default."""
        with patch('logger.LOG_PATH', temp_log_dir):
            logger = init_logger("test_logger", testing_mode=False)
            # File handlers should be in append mode by default
            for handler in logger.handlers:
                if isinstance(handler, logging.FileHandler):
                    # FileHandler uses 'a' mode by default
                    assert hasattr(handler, 'mode')  # Basic check that it's a file handler
@@ -0,0 +1,411 @@
 """
 Tests for the main application and MedTrackerApp class.
 """
 import os
 import pytest
 import tkinter as tk
 from unittest.mock import Mock, patch
 import pandas as pd
 import sys
 sys.path.insert(0, os.path.join(os.path.dirname(__file__), '..', 'src'))
 from src.main import MedTrackerApp
 class TestMedTrackerApp:
    """Test cases for the MedTrackerApp class."""
    @pytest.fixture
    def root_window(self):
        """Create a root window for testing."""
        root = tk.Tk()
        yield root
        root.destroy()
    @pytest.fixture
    def mock_managers(self):
        """Mock the manager classes."""
        with patch('main.UIManager') as mock_ui, \
             patch('main.DataManager') as mock_data, \
             patch('main.GraphManager') as mock_graph:
            yield {
                'ui': mock_ui,
                'data': mock_data,
                'graph': mock_graph
            }
    def test_init_default_filename(self, root_window, mock_managers):
        """Test initialization with default filename."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            assert app.filename == "thechart_data.csv"
            assert app.root == root_window
            assert root_window.title() == "Thechart - medication tracker"
    def test_init_custom_filename_exists(self, root_window, mock_managers):
        """Test initialization with custom filename that exists."""
        with patch('sys.argv', ['main.py', 'custom_data.csv']), \
             patch('os.path.exists', return_value=True):
            app = MedTrackerApp(root_window)
            assert app.filename == "custom_data.csv"
    def test_init_custom_filename_not_exists(self, root_window, mock_managers):
        """Test initialization with custom filename that doesn't exist."""
        with patch('sys.argv', ['main.py', 'nonexistent.csv']), \
             patch('os.path.exists', return_value=False):
            app = MedTrackerApp(root_window)
            assert app.filename == "thechart_data.csv"
    @patch('main.LOG_LEVEL', 'DEBUG')
    def test_debug_logging(self, root_window, mock_managers):
        """Test debug logging when LOG_LEVEL is DEBUG."""
        with patch('sys.argv', ['main.py', 'test.csv']), \
             patch('os.path.exists', return_value=True), \
             patch('main.logger') as mock_logger:
            app = MedTrackerApp(root_window)
            # Check that debug messages were logged
            mock_logger.debug.assert_called()
    def test_setup_main_ui_components(self, root_window, mock_managers):
        """Test that main UI components are set up correctly."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            # Check that managers were instantiated
            mock_managers['ui'].assert_called()
            mock_managers['data'].assert_called()
    def test_icon_setup(self, root_window, mock_managers):
        """Test icon setup functionality."""
        with patch('sys.argv', ['main.py']), \
             patch('os.path.exists', return_value=True):
            app = MedTrackerApp(root_window)
            # Check that setup_application_icon was called on UI manager
            app.ui_manager.setup_application_icon.assert_called()
    def test_icon_setup_fallback_path(self, root_window, mock_managers):
        """Test icon setup with fallback path."""
        def mock_exists(path):
            return path == "./chart-671.png"
        with patch('sys.argv', ['main.py']), \
             patch('os.path.exists', side_effect=mock_exists):
            app = MedTrackerApp(root_window)
            # Check that setup_application_icon was called with fallback path
            app.ui_manager.setup_application_icon.assert_called_with(img_path="./chart-671.png")
    def test_add_new_entry_success(self, root_window, mock_managers):
        """Test successful entry addition."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            # Mock the UI variables
            app.date_var = Mock()
            app.date_var.get.return_value = "2024-01-01"
            app.symptom_vars = {
                "depression": Mock(), "anxiety": Mock(),
                "sleep": Mock(), "appetite": Mock()
            }
            for var in app.symptom_vars.values():
                var.get.return_value = 3
            app.medicine_vars = {
                "bupropion": [Mock()], "hydroxyzine": [Mock()],
                "gabapentin": [Mock()], "propranolol": [Mock()]
            }
            for med_var in app.medicine_vars.values():
                med_var[0].get.return_value = 1
            app.note_var = Mock()
            app.note_var.get.return_value = "Test note"
            # Mock data manager to return success
            app.data_manager.add_entry.return_value = True
            with patch('tkinter.messagebox.showinfo') as mock_info, \
                 patch.object(app, '_clear_entries') as mock_clear, \
                 patch.object(app, 'refresh_data_display') as mock_load:
                app.add_new_entry()
                mock_info.assert_called_once()
                mock_clear.assert_called_once()
                mock_load.assert_called_once()
    def test_add_new_entry_empty_date(self, root_window, mock_managers):
        """Test adding entry with empty date."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            app.date_var = Mock()
            app.date_var.get.return_value = "   "  # Empty/whitespace date
            with patch('tkinter.messagebox.showerror') as mock_error:
                app.add_new_entry()
                mock_error.assert_called_once_with(
                    "Error", "Please enter a date.", parent=app.root
                )
    def test_add_new_entry_duplicate_date(self, root_window, mock_managers):
        """Test adding entry with duplicate date."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            # Set up UI variables
            app.date_var = Mock()
            app.date_var.get.return_value = "2024-01-01"
            app.symptom_vars = {"depression": Mock(), "anxiety": Mock(),
                              "sleep": Mock(), "appetite": Mock()}
            for var in app.symptom_vars.values():
                var.get.return_value = 3
            app.medicine_vars = {"bupropion": [Mock()], "hydroxyzine": [Mock()],
                               "gabapentin": [Mock()], "propranolol": [Mock()]}
            for med_var in app.medicine_vars.values():
                med_var[0].get.return_value = 1
            app.note_var = Mock()
            app.note_var.get.return_value = "Test"
            # Mock data manager to return failure (duplicate)
            app.data_manager.add_entry.return_value = False
            # Mock load_data to return DataFrame with existing date
            mock_df = pd.DataFrame({'date': ['2024-01-01']})
            app.data_manager.load_data.return_value = mock_df
            with patch('tkinter.messagebox.showerror') as mock_error:
                app.add_new_entry()
                mock_error.assert_called_once()
                assert "already exists" in mock_error.call_args[0][1]
    def test_handle_double_click(self, root_window, mock_managers):
        """Test double-click event handling."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            # Mock tree with selection
            app.tree = Mock()
            app.tree.get_children.return_value = ['item1']
            app.tree.selection.return_value = ['item1']
            app.tree.item.return_value = {'values': ('2024-01-01', '3', '2', '4', '3', '1', '0', '2', '1', 'Note')}
            mock_event = Mock()
            with patch.object(app, '_create_edit_window') as mock_create_edit:
                app.handle_double_click(mock_event)
                mock_create_edit.assert_called_once()
    def test_handle_double_click_empty_tree(self, root_window, mock_managers):
        """Test double-click when tree is empty."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            app.tree = Mock()
            app.tree.get_children.return_value = []
            mock_event = Mock()
            with patch.object(app, '_create_edit_window') as mock_create_edit:
                app.handle_double_click(mock_event)
                mock_create_edit.assert_not_called()
    def test_save_edit_success(self, root_window, mock_managers):
        """Test successful save edit operation."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            # Mock edit window
            mock_edit_win = Mock()
            # Mock data manager to return success
            app.data_manager.update_entry.return_value = True
            with patch('tkinter.messagebox.showinfo') as mock_info, \
                 patch.object(app, '_clear_entries') as mock_clear, \
                 patch.object(app, 'refresh_data_display') as mock_load:
                app._save_edit(
                    mock_edit_win, "2024-01-01", "2024-01-01",
                    3, 2, 4, 3, 1, 0, 2, 1, "Updated note"
                )
                mock_edit_win.destroy.assert_called_once()
                mock_info.assert_called_once()
                mock_clear.assert_called_once()
                mock_load.assert_called_once()
    def test_save_edit_duplicate_date(self, root_window, mock_managers):
        """Test save edit with duplicate date."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            mock_edit_win = Mock()
            # Mock data manager to return failure
            app.data_manager.update_entry.return_value = False
            # Mock load_data to return DataFrame with existing date
            mock_df = pd.DataFrame({'date': ['2024-01-02']})
            app.data_manager.load_data.return_value = mock_df
            with patch('tkinter.messagebox.showerror') as mock_error:
                app._save_edit(
                    mock_edit_win, "2024-01-01", "2024-01-02",  # Different dates
                    3, 2, 4, 3, 1, 0, 2, 1, "Updated note"
                )
                mock_error.assert_called_once()
                assert "already exists" in mock_error.call_args[0][1]
    def test_delete_entry_success(self, root_window, mock_managers):
        """Test successful entry deletion."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            mock_edit_win = Mock()
            app.tree = Mock()
            app.tree.item.return_value = {'values': ['2024-01-01']}
            # Mock data manager to return success
            app.data_manager.delete_entry.return_value = True
            with patch('tkinter.messagebox.askyesno', return_value=True) as mock_confirm, \
                 patch('tkinter.messagebox.showinfo') as mock_info, \
                 patch.object(app, 'refresh_data_display') as mock_load:
                app._delete_entry(mock_edit_win, 'item1')
                mock_confirm.assert_called_once()
                mock_edit_win.destroy.assert_called_once()
                mock_info.assert_called_once()
                mock_load.assert_called_once()
    def test_delete_entry_cancelled(self, root_window, mock_managers):
        """Test deletion when user cancels."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            mock_edit_win = Mock()
            with patch('tkinter.messagebox.askyesno', return_value=False) as mock_confirm:
                app._delete_entry(mock_edit_win, 'item1')
                mock_confirm.assert_called_once()
                mock_edit_win.destroy.assert_not_called()
    def test_clear_entries(self, root_window, mock_managers):
        """Test clearing input entries."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            # Mock variables
            app.date_var = Mock()
            app.symptom_vars = {"depression": Mock(), "anxiety": Mock()}
            app.medicine_vars = {"bupropion": [Mock()], "hydroxyzine": [Mock()]}
            app.note_var = Mock()
            app._clear_entries()
            app.date_var.set.assert_called_with("")
            app.note_var.set.assert_called_with("")
            for var in app.symptom_vars.values():
                var.set.assert_called_with(0)
            for med_var in app.medicine_vars.values():
                med_var[0].set.assert_called_with(0)
    def test_refresh_data_display(self, root_window, mock_managers):
        """Test loading data into tree and graph."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            # Mock tree
            app.tree = Mock()
            app.tree.get_children.return_value = ['item1', 'item2']
            # Mock data
            mock_df = pd.DataFrame({
                'date': ['2024-01-01', '2024-01-02'],
                'depression': [3, 2],
                'note': ['Note1', 'Note2']
            })
            app.data_manager.load_data.return_value = mock_df
            app.refresh_data_display()
            # Check that tree was cleared and populated
            app.tree.delete.assert_called()
            app.tree.insert.assert_called()
            # Check that graph was updated
            app.graph_manager.update_graph.assert_called_with(mock_df)
    def test_refresh_data_display_empty_dataframe(self, root_window, mock_managers):
        """Test loading empty data."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            app.tree = Mock()
            app.tree.get_children.return_value = []
            # Mock empty DataFrame
            empty_df = pd.DataFrame()
            app.data_manager.load_data.return_value = empty_df
            app.refresh_data_display()
            # Graph should still be updated even with empty data
            app.graph_manager.update_graph.assert_called_with(empty_df)
    def test_handle_window_closing_confirmed(self, root_window, mock_managers):
        """Test application closing when confirmed."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            with patch('tkinter.messagebox.askokcancel', return_value=True) as mock_confirm:
                app.handle_window_closing()
                mock_confirm.assert_called_once()
                app.graph_manager.close.assert_called_once()
    def test_handle_window_closing_cancelled(self, root_window, mock_managers):
        """Test application closing when cancelled."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            with patch('tkinter.messagebox.askokcancel', return_value=False) as mock_confirm:
                app.handle_window_closing()
                mock_confirm.assert_called_once()
                app.graph_manager.close.assert_not_called()
    def test_protocol_handler_setup(self, root_window, mock_managers):
        """Test that window close protocol is set up."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            # The protocol should be set during initialization
            # This is more of a structural test
            assert app.root is root_window
    def test_window_properties(self, root_window, mock_managers):
        """Test window properties are set correctly."""
        with patch('sys.argv', ['main.py']):
            app = MedTrackerApp(root_window)
            assert root_window.title() == "Thechart - medication tracker"
            # Note: Testing resizable would require more complex mocking
@@ -0,0 +1,293 @@
 """
 Tests for the UIManager class.
 """
 import os
 import pytest
 import tkinter as tk
 from tkinter import ttk
 from unittest.mock import Mock, patch
 import sys
 sys.path.insert(0, os.path.join(os.path.dirname(__file__), '..', 'src'))
 from src.ui_manager import UIManager
 class TestUIManager:
    """Test cases for the UIManager class."""
    @pytest.fixture
    def root_window(self):
        """Create a root window for testing."""
        root = tk.Tk()
        yield root
        root.destroy()
    @pytest.fixture
    def ui_manager(self, root_window, mock_logger):
        """Create a UIManager instance for testing."""
        return UIManager(root_window, mock_logger)
    def test_init(self, root_window, mock_logger):
        """Test UIManager initialization."""
        ui = UIManager(root_window, mock_logger)
        assert ui.root == root_window
        assert ui.logger == mock_logger
    @patch('os.path.exists')
    @patch('PIL.Image.open')
    def test_setup_application_icon_success(self, mock_image_open, mock_exists, ui_manager):
        """Test successful icon setup."""
        mock_exists.return_value = True
        mock_image = Mock()
        mock_image.resize.return_value = mock_image
        mock_image_open.return_value = mock_image
        with patch('PIL.ImageTk.PhotoImage') as mock_photo:
            mock_photo_instance = Mock()
            mock_photo.return_value = mock_photo_instance
            with patch.object(ui_manager.root, 'iconphoto') as mock_iconphoto, \
                 patch.object(ui_manager.root, 'wm_iconphoto') as mock_wm_iconphoto:
                result = ui_manager.setup_application_icon("test_icon.png")
                assert result is True
                mock_image_open.assert_called_once_with("test_icon.png")
                mock_image.resize.assert_called_once()
                ui_manager.logger.info.assert_called_with("Trying to load icon from: test_icon.png")
    @patch('os.path.exists')
    def test_setup_application_icon_file_not_found(self, mock_exists, ui_manager):
        """Test icon setup when file is not found."""
        mock_exists.return_value = False
        result = ui_manager.setup_application_icon("nonexistent_icon.png")
        assert result is False
        ui_manager.logger.warning.assert_called_with("Icon file not found at nonexistent_icon.png")
    @patch('os.path.exists')
    @patch('PIL.Image.open')
    def test_setup_application_icon_exception(self, mock_image_open, mock_exists, ui_manager):
        """Test icon setup with exception."""
        mock_exists.return_value = True
        mock_image_open.side_effect = Exception("Test error")
        result = ui_manager.setup_application_icon("test_icon.png")
        assert result is False
        ui_manager.logger.error.assert_called_with("Error setting icon: Test error")
    @patch('sys._MEIPASS', '/test/bundle/path', create=True)
    @patch('os.path.exists')
    @patch('PIL.Image.open')
    def test_setup_application_icon_pyinstaller_bundle(self, mock_image_open, mock_exists, ui_manager):
        """Test icon setup in PyInstaller bundle."""
        # Mock exists to return False for original path, True for bundle path
        def mock_exists_side_effect(path):
            if 'test_icon.png' in path and '/test/bundle/path' in path:
                return True
            return False
        mock_exists.side_effect = mock_exists_side_effect
        mock_image = Mock()
        mock_image.resize.return_value = mock_image
        mock_image_open.return_value = mock_image
        with patch('PIL.ImageTk.PhotoImage') as mock_photo:
            mock_photo_instance = Mock()
            mock_photo.return_value = mock_photo_instance
            with patch.object(ui_manager.root, 'iconphoto') as mock_iconphoto, \
                 patch.object(ui_manager.root, 'wm_iconphoto') as mock_wm_iconphoto:
                result = ui_manager.setup_application_icon("test_icon.png")
                assert result is True
            ui_manager.logger.info.assert_called_with("Found icon in PyInstaller bundle: /test/bundle/path/test_icon.png")
    def test_create_graph_frame(self, ui_manager, root_window):
        """Test creation of graph frame."""
        main_frame = ttk.Frame(root_window)
        graph_frame = ui_manager.create_graph_frame(main_frame)
        assert isinstance(graph_frame, ttk.LabelFrame)
        assert graph_frame.winfo_parent() == str(main_frame)
    def test_create_input_frame(self, ui_manager, root_window):
        """Test creation of input frame."""
        main_frame = ttk.Frame(root_window)
        input_ui = ui_manager.create_input_frame(main_frame)
        assert isinstance(input_ui, dict)
        assert "frame" in input_ui
        assert "symptom_vars" in input_ui
        assert "medicine_vars" in input_ui
        assert "note_var" in input_ui
        assert "date_var" in input_ui
        assert isinstance(input_ui["frame"], ttk.LabelFrame)
        assert isinstance(input_ui["symptom_vars"], dict)
        assert isinstance(input_ui["medicine_vars"], dict)
        assert isinstance(input_ui["note_var"], tk.StringVar)
        assert isinstance(input_ui["date_var"], tk.StringVar)
    def test_create_input_frame_symptom_vars(self, ui_manager, root_window):
        """Test that symptom variables are created correctly."""
        main_frame = ttk.Frame(root_window)
        input_ui = ui_manager.create_input_frame(main_frame)
        symptom_vars = input_ui["symptom_vars"]
        expected_symptoms = ["depression", "anxiety", "sleep", "appetite"]
        for symptom in expected_symptoms:
            assert symptom in symptom_vars
            assert isinstance(symptom_vars[symptom], tk.IntVar)
    def test_create_input_frame_medicine_vars(self, ui_manager, root_window):
        """Test that medicine variables are created correctly."""
        main_frame = ttk.Frame(root_window)
        input_ui = ui_manager.create_input_frame(main_frame)
        medicine_vars = input_ui["medicine_vars"]
        expected_medicines = ["bupropion", "hydroxyzine", "gabapentin", "propranolol", "quetiapine"]
        for medicine in expected_medicines:
            assert medicine in medicine_vars
            assert isinstance(medicine_vars[medicine], tuple)
            assert len(medicine_vars[medicine]) == 2  # IntVar and display text
            assert isinstance(medicine_vars[medicine][0], tk.IntVar)
            assert isinstance(medicine_vars[medicine][1], str)
    @patch('src.ui_manager.datetime')
    def test_create_input_frame_default_date(self, mock_datetime, ui_manager, root_window):
        """Test that default date is set to today."""
        mock_datetime.now.return_value.strftime.return_value = "07/30/2025"
        main_frame = ttk.Frame(root_window)
        input_ui = ui_manager.create_input_frame(main_frame)
        # The actual date will be today's date, not the mocked value
        # because the datetime import is within the function
        assert input_ui["date_var"].get() == "07/30/2025"
    def test_create_table_frame(self, ui_manager, root_window):
        """Test creation of table frame."""
        main_frame = ttk.Frame(root_window)
        table_ui = ui_manager.create_table_frame(main_frame)
        assert isinstance(table_ui, dict)
        assert "tree" in table_ui
        assert isinstance(table_ui["tree"], ttk.Treeview)
    def test_create_table_frame_columns(self, ui_manager, root_window):
        """Test that table columns are set up correctly."""
        main_frame = ttk.Frame(root_window)
        table_ui = ui_manager.create_table_frame(main_frame)
        tree = table_ui["tree"]
        expected_columns = [
            "Date", "Depression", "Anxiety", "Sleep", "Appetite",
            "Bupropion", "Hydroxyzine", "Gabapentin", "Propranolol", "Quetiapine", "Note"
        ]
        # Check that columns are configured
        assert tree["columns"] == tuple(expected_columns)
    def test_add_buttons(self, ui_manager, root_window):
        """Test adding buttons to a frame."""
        frame = ttk.Frame(root_window)
        buttons_config = [
            {"text": "Test Button 1", "command": lambda: None},
            {"text": "Test Button 2", "command": lambda: None, "fill": "x"},
        ]
        ui_manager.add_buttons(frame, buttons_config)
        # Check that a button frame was added
        children = frame.winfo_children()
        assert len(children) >= 1  # At least the button frame should be added
    def test_create_edit_window(self, ui_manager):
        """Test creation of edit window."""
        values = ("2024-01-01", "3", "2", "4", "3", "1", "0", "2", "1", "Test note")
        callbacks = {
            "save": lambda win, *args: None,
            "delete": lambda win: None
        }
        edit_window = ui_manager.create_edit_window(values, callbacks)
        assert isinstance(edit_window, tk.Toplevel)
        assert edit_window.title() == "Edit Entry"
    def test_create_edit_window_widgets(self, ui_manager):
        """Test that edit window contains expected widgets."""
        values = ("2024-01-01", "3", "2", "4", "3", "1", "0", "2", "1", "Test note")
        callbacks = {
            "save": lambda win, *args: None,
            "delete": lambda win: None
        }
        edit_window = ui_manager.create_edit_window(values, callbacks)
        # Check that window has children (widgets)
        children = edit_window.winfo_children()
        assert len(children) > 0
    def test_create_edit_window_initial_values(self, ui_manager):
        """Test that edit window is populated with initial values."""
        values = ("2024-01-01", "3", "2", "4", "3", "1", "0", "2", "1", "Test note")
        callbacks = {
            "save": lambda win, *args: None,
            "delete": lambda win: None
        }
        edit_window = ui_manager.create_edit_window(values, callbacks)
        # The window should be created successfully
        assert edit_window is not None
        # More detailed testing would require examining the internal widgets
    def test_frame_positioning(self, ui_manager, root_window):
        """Test that frames are positioned correctly."""
        main_frame = ttk.Frame(root_window)
        # Create multiple frames
        graph_frame = ui_manager.create_graph_frame(main_frame)
        input_ui = ui_manager.create_input_frame(main_frame)
        table_ui = ui_manager.create_table_frame(main_frame)
        # All frames should be created successfully
        assert graph_frame is not None
        assert input_ui["frame"] is not None
        assert table_ui["tree"] is not None
    def test_widget_configuration(self, ui_manager, root_window):
        """Test that widgets are configured with appropriate properties."""
        main_frame = ttk.Frame(root_window)
        input_ui = ui_manager.create_input_frame(main_frame)
        # Check that variables have default values
        for var in input_ui["symptom_vars"].values():
            assert var.get() == 0
        for medicine_data in input_ui["medicine_vars"].values():
            assert medicine_data[0].get() == 0  # IntVar should be 0
    @patch('tkinter.messagebox.showerror')
    def test_error_handling_in_setup_application_icon(self, mock_showerror, ui_manager):
        """Test error handling in setup_application_icon method."""
        with patch('PIL.Image.open') as mock_open:
            mock_open.side_effect = Exception("Image error")
            result = ui_manager.setup_application_icon("test.png")
            assert result is False
            ui_manager.logger.error.assert_called()
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Author	SHA1	Message	Date
William Valentin	949e43ac6c	feat: Bump version to 1.6.1 in Makefile, pyproject.toml, and CHANGELOG.md Build and Push Docker Image / build-and-push (push) Has been cancelled Details	2025-07-31 11:42:13 -07:00
William Valentin	33d7ae8d9f	feat: Remove outdated testing documentation and add comprehensive development and feature guides - Deleted `TESTING_SETUP.md` and `TEST_UPDATES_SUMMARY.md` as they were outdated. - Introduced `CHANGELOG.md` to document notable changes and version history. - Added `DEVELOPMENT.md` for detailed development setup, testing framework, and debugging guidance. - Created `FEATURES.md` to outline core features and functionalities of TheChart. - Established `README.md` as a centralized documentation index for users and developers.	2025-07-31 11:39:12 -07:00
William Valentin	e5e654a0b3	fix: Correct shell activation command in Makefile for proper environment setup Build and Push Docker Image / build-and-push (push) Has been cancelled Details	2025-07-31 11:20:18 -07:00
William Valentin	00443a540f	chore: Remove obsolete test scripts and unused methods from the data manager - Deleted test scripts for dose tracking, UI functionality, dynamic data, edit functionality, and final workflow. - Removed the `add_medicine_dose` method from the DataManager class as it is no longer needed.	2025-07-31 11:11:21 -07:00
William Valentin	59251ced31	chore: moved tests scripts	2025-07-31 10:18:09 -07:00
William Valentin	9471b91f4c	feat: Update default_enabled states for bupropion and propranolol to false	2025-07-31 10:06:25 -07:00
William Valentin	c755f0affc	Add comprehensive tests for dose tracking functionality - Implemented `test_dose_parsing_simple.py` to validate the dose parsing workflow. - Created `test_dose_save.py` to verify the saving functionality of dose tracking. - Added `test_dose_save_simple.py` for programmatic testing of dose saving without UI interaction. - Developed `test_final_workflow.py` to test the complete dose tracking workflow, ensuring doses are preserved during edits. - Enhanced `conftest.py` with a mock pathology manager for testing. - Updated `test_data_manager.py` to include pathology manager in DataManager tests and ensure compatibility with new features.	2025-07-31 09:50:45 -07:00
William Valentin	b8600ae57a	feat: Remove unused imports from test files for cleaner code	2025-07-30 16:02:26 -07:00
William Valentin	d7d4b332d4	Add medicine management functionality with UI and data handling - Implemented MedicineManagementWindow for adding, editing, and removing medicines. - Created MedicineManager to handle medicine configurations, including loading and saving to JSON. - Updated UIManager to dynamically generate medicine-related UI components based on the MedicineManager. - Enhanced test suite with mock objects for MedicineManager to ensure proper functionality in DataManager tests. - Added validation for medicine input fields in the UI. - Introduced default medicine configurations for initial setup.	2025-07-30 16:01:02 -07:00
William Valentin	ea30cb88c9	feat: Update default toggle states for bupropion and propranolol to false	2025-07-30 14:46:25 -07:00
William Valentin	b76191d66d	feat: Implement dose calculation fix and enhance legend feature Build and Push Docker Image / build-and-push (push) Has been cancelled Details - Fixed dose calculation logic in `_calculate_daily_dose` to correctly parse timestamps with multiple colons. - Added comprehensive test cases for various dose formats and edge cases in `test_dose_calculation.py`. - Enhanced graph legend to display individual medicines with average dosages and track medicines without dose data. - Updated legend styling and positioning for better readability and organization. - Created new tests for enhanced legend functionality, including handling of medicines with and without data. - Improved mocking for matplotlib components in tests to prevent TypeErrors.	2025-07-30 14:22:07 -07:00
William Valentin	d14d19e7d9	feat: add medicine dose graph plotting and toggle functionality with comprehensive tests Build and Push Docker Image / build-and-push (push) Has been cancelled Details	2025-07-30 13:18:25 -07:00
William Valentin	0a8d27957f	feat: enhance symptom scale creation with improved layout and dynamic value display	2025-07-30 12:41:25 -07:00
William Valentin	7e04aebd5d	feat: update version to 1.3.4 in pyproject.toml and uv.lock	2025-07-30 12:35:07 -07:00
William Valentin	b7c01bc373	Refactor method names for clarity and consistency across the application Build and Push Docker Image / build-and-push (push) Has been cancelled Details - Renamed `initialize_csv` to `_initialize_csv_file` in `DataManager` for better clarity. - Updated method calls in `GraphManager` from `_create_toggle_controls` to `_create_chart_toggles` and `_on_toggle_changed` to `_handle_toggle_changed`. - Changed method names in `MedTrackerApp` from `on_closing` to `handle_window_closing`, `add_entry` to `add_new_entry`, and `load_data` to `refresh_data_display`. - Adjusted corresponding test method names in `TestMedTrackerApp` to reflect the new method names. - Updated `UIManager` method names from `setup_icon` to `setup_application_icon` and adjusted related tests accordingly.	2025-07-30 12:32:17 -07:00
William Valentin	e0faf20a56	feat: Remove obsolete CSV migration target from Makefile	2025-07-30 11:31:34 -07:00
William Valentin	7380d9a8a9	feat: Add logging directory and initialize app log file in Dockerfile	2025-07-30 11:21:44 -07:00
William Valentin	85e30671d4	feat: Enhance dose history parsing and add unit tests for improved functionality Build and Push Docker Image / build-and-push (push) Has been cancelled Details	2025-07-30 10:02:17 -07:00
William Valentin	b259837af4	feat: Add test script for mouse wheel scrolling functionality in entry and edit windows Build and Push Docker Image / build-and-push (push) Has been cancelled Details	2025-07-29 17:44:14 -07:00
William Valentin	aad02f0d36	feat: Improve canvas scrolling functionality with enhanced mouse wheel event handling	2025-07-29 17:42:38 -07:00
William Valentin	30750710b8	feat: Enhance edit window UI with improved layout and scrolling functionality	2025-07-29 17:28:52 -07:00
William Valentin	fd1f9a43c6	feat: Add release notes generation and Docker image information to build workflow	2025-07-29 17:09:57 -07:00
William Valentin	21dd1fc9c8	refactor: Update import statements to include 'src' prefix for module paths Build and Push Docker Image / build-and-push (push) Has been cancelled Details	2025-07-29 16:52:46 -07:00
William Valentin	5243352867	refactor: Remove coverage.xml file to streamline project structure	2025-07-29 16:41:40 -07:00
William Valentin	387981aa47	refactor: Remove __init__.py file and associated metadata	2025-07-29 16:41:29 -07:00
William Valentin	13b2c9c416	fix: Correct dotenv loading to use dynamic directory based on execution context	2025-07-29 16:38:21 -07:00
William Valentin	4c04bfb92e	feat: Add debug logging to PyInstaller deployment process	2025-07-29 16:36:04 -07:00
William Valentin	2fe45e65eb	chore: Bump version to 1.2.1 in project files	2025-07-29 14:52:41 -07:00
William Valentin	036b4d1215	feat: Update MedTrackerApp to correctly handle quetiapine and its dosage data	2025-07-29 14:51:29 -07:00
William Valentin	ce986db27b	feat: Update DataManager to support new quetiapine medication format and adjust VSCode task command Build and Push Docker Image / build-and-push (push) Has been cancelled Details	2025-07-29 14:00:33 -07:00
William Valentin	188fb542be	chore: Remove outdated backup of thechart_data.csv Build and Push Docker Image / build-and-push (push) Has been cancelled Details	2025-07-29 13:44:45 -07:00
William Valentin	206cee5cb1	fix: Update import paths for DataManager and UIManager in test files	2025-07-29 13:27:00 -07:00
William Valentin	2b037a83e8	Feat: Add quetiapine support to medication tracking - Implement migration script to add quetiapine and quetiapine_doses columns to existing CSV data. - Update DataManager to include quetiapine and quetiapine_doses in data handling. - Modify MedTrackerApp to manage quetiapine entries and doses. - Enhance UIManager to include quetiapine in the user interface for medication selection and display. - Update tests to cover new quetiapine functionality, including sample data and DataManager tests.	2025-07-29 13:22:35 -07:00
William Valentin	1a6fb9fcd4	feat: Enhance Makefile with improved environment setup and cleanup commands	2025-07-29 00:07:48 -07:00
William Valentin	2a1edeb76e	feat: Add comprehensive tests for punch button functionality and multiple dose handling	2025-07-28 23:12:50 -07:00
William Valentin	bce6c8c27d	feat: Add comprehensive tests for punch button functionality and multiple dose handling	2025-07-28 23:10:04 -07:00
William Valentin	26fc74b580	fix: Update path for dose editing functionality test script	2025-07-28 22:06:37 -07:00
William Valentin	187096870c	feat: Add comprehensive test scripts for multiple dose functionality and save behavior	2025-07-28 22:05:50 -07:00
William Valentin	3df610fc95	feat: Add tests for verifying multiple dose functionality and CSV saving	2025-07-28 22:04:33 -07:00
William Valentin	a4a71380ef	feat: Add test script for verifying multiple dose punching and saving behavior	2025-07-28 21:51:34 -07:00
William Valentin	01a341130e	fix: Add parent window reference to dose entry error and success messages	2025-07-28 21:39:53 -07:00
William Valentin	cbf01ad3dd	refactor: Remove redundant dose entry clearing and updating in save process	2025-07-28 21:35:28 -07:00
William Valentin	760aa40a8c	feat: Enhance dose tracking functionality in edit window and add punch button support	2025-07-28 21:31:38 -07:00
William Valentin	e35a8af5c1	Implement dose tracking functionality and enhance CSV migration - Added a new migration script to introduce dose tracking columns in the CSV. - Updated DataManager to handle new dose tracking columns and methods for adding doses. - Enhanced MedTrackerApp to support dose entry and display for each medicine. - Modified UIManager to create a scrollable input frame with dose tracking elements. - Implemented tests for delete functionality, dose tracking, edit functionality, and scrollable input. - Updated existing tests to ensure compatibility with the new CSV format and dose tracking features.	2025-07-28 20:52:29 -07:00
William Valentin	d5423e98c0	feat: Enhance .gitignore for improved file exclusion and organization	2025-07-28 18:28:24 -07:00
William Valentin	100a4af72d	feat: Update run_tests.py script path for better organization	2025-07-28 18:28:11 -07:00
William Valentin	4c7da343eb	feat: Add test scripts and runner for TheChart application - Created demo_failing_test.py to demonstrate pre-commit blocking with a failing test. - Added run_tests.py for executing all tests with coverage reporting. - Introduced test.py as a quick test runner for the application, providing coverage reports and user-friendly output.	2025-07-28 18:21:40 -07:00
William Valentin	c20c4478a6	feat: Add coverage, iniconfig, pluggy, pygments, pytest, pytest-cov, and pytest-mock as dependencies - Added coverage version 7.10.1 with multiple wheel distributions. - Added iniconfig version 2.1.0 with its wheel distribution. - Added pluggy version 1.6.0 with its wheel distribution. - Added pygments version 2.19.2 with its wheel distribution. - Added pytest version 8.4.1 with its wheel distribution and dependencies. - Added pytest-cov version 6.2.1 with its wheel distribution and dependencies. - Added pytest-mock version 3.14.1 with its wheel distribution and dependencies. - Updated dev-dependencies to include coverage, pytest, pytest-cov, and pytest-mock. - Updated requires-dist to specify minimum versions for coverage, pytest, pytest-cov, and pytest-mock.	2025-07-28 17:53:19 -07:00
William Valentin	9aa1188c98	Implement date uniqueness validation in DataManager and update MedTrackerApp for duplicate checks	2025-07-28 17:28:00 -07:00
William Valentin	f0dd47d433	Fix shell variable assignment and update shell activation command in Makefile	2025-07-28 16:22:17 -07:00
William Valentin	f1976a8006	Update Ansible interpreter path to use workspace variable for portability	2025-07-28 14:45:51 -07:00
		`@@ -0,0 +1 @@`
							`date,depression,anxiety,sleep,appetite,bupropion,bupropion_doses,hydroxyzine,hydroxyzine_doses,gabapentin,gabapentin_doses,propranolol,propranolol_doses,quetiapine,quetiapine_doses,note`