refactor: ontology manager compose

- Add automatic polling every 5 minutes for Google Sheets changes
- Implement smart change detection using file hashing
- Add git automation with pull/rebase and push
- Configure GitHub PAT authentication for auto-commits
- Add APScheduler for background task scheduling
- Update Docker configuration for git operations
- Add comprehensive documentation (AUTOMATION.md)
- Update API to v2.0.0 with scheduler status endpoints

Author: AREMA Ontology Bot

.dockerignore

@@ -0,0 +1,43 @@
+# Git
+.git
+.gitignore
+
+# Python
+__pycache__
+*.pyc
+*.pyo
+*.pyd
+.Python
+*.so
+*.egg
+*.egg-info
+dist
+build
+.venv
+venv/
+
+# IDE
+.vscode
+.idea
+*.swp
+*.swo
+*~
+
+# Documentation
+docs/
+public/
+README.md
+
+# External dependencies
+external/
+
+# Environment
+.env
+.env.*
+!.env.dist
+
+# Fuseki data
+tools/fuseki/data/
+
+# GitHub
+.github/

.env.dist

@@ -3,3 +3,13 @@ ONTOLOGY_SPARQL_ENDPOINT=
 GRAPHDB_USERNAME=
 GRAPHDB_PASSWORD=
 GRAPH_URI=
+
+# Fuseki Configuration (required for docker-compose)
+FUSEKI_URL=http://localhost:3030/arema/data
+FUSEKI_USERNAME=admin
+FUSEKI_PASSWORD=changeme
+
+# GitHub Personal Access Token (required for auto-commit feature)
+# Create at: https://github.com/settings/tokens
+# Required scope: repo (Full control of private repositories)
+GITHUB_TOKEN=your_github_pat_here

.gitignore

@@ -1,3 +1,5 @@
 external/skohub-vocabs
 .env
-/tools/fuseki/data/
+/tools/fuseki/data/
+tools/python/converter/__pycache__/csv2ont.cpython-311.pyc
+tools/python/converter/__pycache__/csv2ont.cpython-312.pyc

Dockerfile

@@ -0,0 +1,36 @@
+FROM python:3.11-slim
+
+# Install system dependencies (git for auto-commit)
+RUN apt-get update && \
+    apt-get install -y --no-install-recommends git && \
+    apt-get clean && \
+    rm -rf /var/lib/apt/lists/*
+
+# Install uv for fast dependency management
+RUN pip install --no-cache-dir uv
+
+WORKDIR /app
+
+# Copy dependency files
+COPY pyproject.toml uv.lock ./
+
+# Export and install dependencies
+RUN uv export --format requirements-txt > requirements.txt && \
+    pip install --no-cache-dir -r requirements.txt && \
+    pip install --no-cache-dir fastapi uvicorn requests
+
+# Copy application code
+COPY . .
+
+# Create data directory for mock inputs
+RUN mkdir -p /app/data
+
+# Expose port
+EXPOSE 8000
+
+# Health check
+HEALTHCHECK --interval=30s --timeout=10s --start-period=5s --retries=3 \
+    CMD python -c "import requests; requests.get('http://localhost:8000/health')" || exit 1
+
+# Start Service
+CMD ["uvicorn", "main:app", "--host", "0.0.0.0", "--port", "8000"]

docker-compose.yml

@@ -0,0 +1,39 @@
+services:
+  arema-ontology:
+    build: .
+    container_name: arema-ontology-service
+    ports:
+      - "8000:8000"
+    environment:
+      - FUSEKI_URL=http://fuseki:3030/arema/data
+      - FUSEKI_UPDATE_URL=http://fuseki:3030/arema/data
+      - FUSEKI_USERNAME=${FUSEKI_USERNAME}
+      - FUSEKI_PASSWORD=${FUSEKI_PASSWORD}
+      - GITHUB_TOKEN=${GITHUB_TOKEN}
+    volumes:
+      - ./data:/app/data
+      - ./src:/app/src
+      - ./tools:/app/tools
+      - ./.git:/app/.git
+    depends_on:
+      - fuseki
+    networks:
+      - arema-network
+
+  fuseki:
+    image: stain/jena-fuseki:5.1.0
+    container_name: arema-fuseki
+    ports:
+      - "3030:3030"
+    environment:
+      - ADMIN_PASSWORD=${FUSEKI_PASSWORD}
+    volumes:
+      - ./tools/fuseki/data:/fuseki/databases
+      - ./tools/fuseki/config.ttl:/fuseki/config.ttl
+    command: ["/jena-fuseki/fuseki-server", "--config=/fuseki/config.ttl"]
+    networks:
+      - arema-network
+
+networks:
+  arema-network:
+    driver: bridge