chore: Reorganize dependencies structure and fix deptry configuration

DEVELOPER.md

@@ -4,20 +4,45 @@
 
 ```
 .
-├── app.py              # Main Chainlit application
-├── requirements.txt    # Project dependencies
-└── README.md          # User documentation
+├── app.py                # Main Chainlit application
+├── app_simple_rag.py     # Simplified RAG application 
+├── pyproject.toml        # Project configuration and dependencies
+├── pstuts_rag/           # Core package
+│   └── pstuts_rag/       # Source code
+│       ├── __init__.py
+│       ├── datastore.py  # Vector database management
+│       ├── loader.py     # Data loading utilities
+│       ├── rag.py        # RAG implementation
+│       ├── agents.py     # Team agent implementation
+│       └── ...
+├── data/                 # Dataset files
+└── README.md             # User documentation
+```
+
+## 🧩 Dependency Structure
+
+Dependencies are organized into logical groups:
+
+- **Core**: Basic dependencies needed for the RAG system (includes Jupyter support)
+- **Dev**: Development tools (linting, testing, etc.)
+- **Web**: Dependencies for web server functionality
+- **Extras**: Additional optional packages (numpy, ragas, tavily)
+
+You can install different combinations using pip's extras syntax:
+```bash
+pip install -e ".[dev,web]"  # Install core + dev + web dependencies
 ```
 
 ## 🔧 Technical Details
 
-The application uses Chainlit (v0.7.700+) to create a simple chat interface. The main functionality is implemented in `app.py` using the `@cl.on_message` decorator to handle incoming messages.
+The application uses LangChain, LangGraph, and Chainlit to create an agentic RAG system:
 
 ### Key Components
 
-- `@cl.on_message`: Decorator that handles incoming messages from the chat interface
-- `cl.Message`: Class for creating and sending messages back to the user
-- Async/await pattern for handling message processing
+- **DatastoreManager**: Manages the Qdrant vector store and document retrieval
+- **RAGChainFactory**: Creates retrieval-augmented generation chains
+- **PsTutsTeamState**: Manages the state of the agent-based system
+- **Langgraph**: Implements the routing logic between different agents
 
 ## 🚀 Running Locally
 
@@ -29,22 +54,36 @@ source venv/bin/activate  # On Windows: venv\Scripts\activate
 
 2. Install dependencies:
 ```bash
-pip install -r requirements.txt
+pip install -e ".[dev]"  # Install with development tools
 ```
 
-3. Run the development server:
+3. Set up API keys:
+```bash
+export OPENAI_API_KEY="your-openai-key"
+export TAVILY_API_KEY="your-tavily-key"  # Optional, for web search
+```
+
+4. Run the application:
 ```bash
 chainlit run app.py
 ```
 
-## 🔍 Debugging
+## 🧪 Code Quality
+
+To check for dependency issues:
+```bash
+deptry .
+```
 
-- Chainlit provides a built-in debug mode. Run with:
+For linting:
 ```bash
-chainlit run app.py --debug
+black .
+ruff check .
+mypy .
 ```
 
 ## 📚 Resources
 
 - [Chainlit Documentation](https://docs.chainlit.io)
-- [Chainlit GitHub Repository](https://github.com/Chainlit/chainlit) 
+- [LangChain Documentation](https://python.langchain.com/docs/get_started/introduction)
+- [LangGraph Documentation](https://langchain-ai.github.io/langgraph/) 

README.md

@@ -11,15 +11,29 @@ short_description: Agentic RAG that interrogates the PsTuts dataset.
 
 Check out the configuration reference at https://huggingface.co/docs/hub/spaces-config-reference
 
-# 🤖 Chainlit Hello World App
+# 🤖 PsTuts RAG System
 
-A minimal Chainlit application that demonstrates basic chat functionality.
+An agentic RAG system for the PsTuts dataset that provides AI-powered answers to Adobe Photoshop questions using video tutorial transcripts.
 
 ## 🚀 Getting Started
 
 1. Install dependencies:
+
 ```bash
-pip install -r requirements.txt
+# Basic installation (includes Jupyter support)
+pip install -e .
+
+# With development tools
+pip install -e ".[dev]"
+
+# With web server components
+pip install -e ".[web]"
+
+# With additional extras (numpy, ragas, tavily)
+pip install -e ".[extras]"
+
+# Full installation with all features
+pip install -e ".[dev,web,extras]"
 ```
 
 2. Run the app:
@@ -31,5 +45,8 @@ chainlit run app.py
 
 ## 💡 Features
 
-- Simple chat interface
-- Echo functionality that repeats back your messages
+- Retrieval-augmented generation (RAG) for Photoshop tutorials
+- Multi-agent system with team supervisor
+- Web search integration via Tavily
+- Semantic chunking for better context retrieval
+- Interactive chat interface through Chainlit

pyproject.toml

@@ -5,39 +5,29 @@ description = "Agentic RAG system for PsTuts dataset"
 readme = "README.md"
 requires-python = ">=3.11"
 dependencies = [
-    "aiohttp>=3.8.0",
-    "chainlit==2.0.4",
-    "dotenv>=0.9.9",
-    "fastapi>=0.115.3,<0.116",
-    "httpx==0.27.0",
-    "ipykernel>=6.29.5",
-    "ipywidgets>=8.1.7",
-    "jq>=1.8.0",
-    "jupyter>=1.1.1",
+    # Core RAG and LLM dependencies
+    "langchain>=0.3.25",
+    "langchain-core>=0.3.59",
     "langchain-community>=0.3.23",
     "langchain-experimental>=0.3.4",
     "langchain-openai",
     "langchain-qdrant>=0.2.0",
-    "langchain>=0.3.25",
     "langgraph>=0.4.3",
-    "numpy==2.2.2",
-    "openai==1.59.9",
-    "pip>=25.0.1",
-    "pydantic==2.10.1",
-    "python-multipart>=0.0.18,<0.0.19",
-    "ragas>=0.2.15",
+    "qdrant-client>=1.8.0",
+    
+    # API integration
+    "chainlit==2.0.4",
     "requests>=2.31.0",
-    "tavily-python>=0.7.2",
-    "tqdm",
-    "typing-extensions>=4.0.0",
-    "unstructured>=0.17.2",
-    "uvicorn>=0.25.0,<0.26.0",
-    "websockets==14.2",
-    "langchain-core>=0.3.59",
-    "isort>=6.0.1",
-    "pylint-venv>=3.0.4",
-    "pyppeteer>=0.0.25",
-    "grandalf>=0.8",
+    "python-dotenv>=0.9.9",
+    
+    # Utilities
+    "nest-asyncio>=1.5.6",
+    "aiofiles>=23.1.0",
+    
+    # Jupyter/notebook dependencies
+    "ipykernel>=6.29.5",
+    "ipywidgets>=8.1.7",
+    "jupyter>=1.1.1",
     "jupyter-contrib-nbextensions>=0.7.0",
 ]
 authors = [{ name = "Marko Budisic", email = "[email protected]" }]
@@ -56,6 +46,24 @@ dev = [
     "black>=22.0.0",
     "flake8>=4.0.0",
     "mypy>=0.900",
+    "isort>=6.0.1",
+    "pylint-venv>=3.0.4",
+    "ipdb>=0.13.13",
+    "deptry>=0.23.0",
+]
+
+web = [
+    "fastapi>=0.115.3,<0.116",
+    "uvicorn>=0.25.0,<0.26.0",
+    "python-multipart>=0.0.18,<0.0.19",
+    "websockets==14.2",
+    "httpx==0.27.0",
+]
+
+extras = [
+    "numpy==2.2.2",
+    "ragas>=0.2.15",
+    "tavily-python>=0.7.2",
 ]
 
 [tool.ruff]
@@ -71,14 +79,6 @@ known-first-party = ["src"]
 line-length = 79
 target-version = ["py311"]
 
-# [tool.mypy]
-# python_version = "3.13"
-# warn_return_any = true
-# warn_unused_configs = true
-# disallow_untyped_defs = true
-# mypy_path           = ["pstuts_rag/pstuts_rag"]
-# namespace_packages  = true
-# explicit_package_bases = true
 [tool.mypy]
 ignore_errors = true
 
@@ -94,7 +94,33 @@ extension-pkg-allow-list = "numpy, torch"  # compiled deps that astroid cannot p
 [tool.pylint.TYPECHECK]
 ignored-modules   = "pkg_resources"        # suppress noisy vendored imports
 
-[dependency-groups]
-dev = [
-    "ipdb>=0.13.13",
+[tool.deptry.per_rule_ignores]
+DEP002 = [
+    # Jupyter packages
+    "ipykernel",
+    "ipywidgets",
+    "jupyter",
+    "jupyter-contrib-nbextensions",
+    # Development packages
+    "pytest",
+    "black",
+    "flake8",
+    "mypy",
+    "isort",
+    "pylint-venv",
+    "ipdb",
+    "deptry",
+    # Web packages
+    "fastapi",
+    "uvicorn",
+    "python-multipart",
+    "websockets",
+    "httpx",
+    # Other packages
+    "numpy",
+    "tavily-python",
+]
+DEP003 = [
+    "huggingface_hub",
+    "setuptools",
 ]

requirements.txt

@@ -1 +1,2 @@
-chainlit>=0.7.700 
+chainlit>=0.7.700 
+-e . 

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@@ -2840,16 +2639,10 @@ name = "pstuts-rag"
 version = "2025.5.12"
 source = { editable = "." }
 dependencies = [
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+    { name = "aiofiles" },
     { name = "chainlit" },
-    { name = "dotenv" },
-    { name = "fastapi" },
-    { name = "grandalf" },
-    { name = "httpx" },
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@@ -2859,50 +2652,49 @@ dependencies = [
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-    { name = "pylint-venv" },
-    { name = "pyppeteer" },
-    { name = "python-multipart" },
-    { name = "ragas" },
+    { name = "nest-asyncio" },
+    { name = "python-dotenv" },
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-    { name = "typing-extensions" },
-    { name = "unstructured" },
-    { name = "uvicorn" },
-    { name = "websockets" },
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 [package.optional-dependencies]
 dev = [
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+    { name = "deptry" },
     { name = "flake8" },
+    { name = "ipdb" },
+    { name = "isort" },
     { name = "mypy" },
+    { name = "pylint-venv" },
     { name = "pytest" },
 ]
-
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+extras = [
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+    { name = "ragas" },
+    { name = "tavily-python" },
+]
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+    { name = "fastapi" },
+    { name = "httpx" },
+    { name = "python-multipart" },
+    { name = "uvicorn" },
+    { name = "websockets" },
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+    { name = "httpx", marker = "extra == 'web'", specifier = "==0.27.0" },
+    { name = "ipdb", marker = "extra == 'dev'", specifier = ">=0.13.13" },
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-    { name = "jq", specifier = ">=1.8.0" },
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-    { name = "pyppeteer", specifier = ">=0.0.25" },
+    { name = "nest-asyncio", specifier = ">=1.5.6" },
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+    { name = "python-dotenv", specifier = ">=0.9.9" },
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-    { name = "uvicorn", specifier = ">=0.25.0,<0.26.0" },
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+    { name = "tavily-python", marker = "extra == 'extras'", specifier = ">=0.7.2" },
+    { name = "uvicorn", marker = "extra == 'web'", specifier = ">=0.25.0,<0.26.0" },
+    { name = "websockets", marker = "extra == 'web'", specifier = "==14.2" },
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-provides-extras = ["dev"]
-
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-dev = [{ name = "ipdb", specifier = ">=0.13.13" }]
+provides-extras = ["dev", "web", "extras"]
 
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