switched to uv and minimized the toml file

Author: simulkade

.flake8

@@ -6,6 +6,8 @@ __pycache__/
 # C extensions
 *.so
 
+.vscode/
+
 # Distribution / packaging
 .Python
 build/

.gitignore

@@ -18,7 +18,7 @@ PyCompTox provides a simple and intuitive Python interface to interact with the
 ### Quick Install
 
 ```bash
-pip install comptox-python[all]
+pip install comptox-python
 ```
 
 install the latest released version.  
@@ -37,20 +37,19 @@ pip install -e .
 # Or with development tools
 pip install -e ".[dev]"
 
-# Or with notebook support
-pip install -e ".[notebook]"
+# Or with docs tools
+pip install -e ".[docs]"
 ```
 
 PyCompTox now uses modern Python packaging with `pyproject.toml`. See [INSTALLATION.md](docs/INSTALLATION.md) for detailed installation options.
 
 ### Optional Dependencies
 
-- **dev**: Development tools (pytest, black, mypy, flake8)
-- **notebook**: Jupyter notebook support with pandas and matplotlib
-- **all**: All optional dependencies
+- **dev**: Testing and typing helpers (pytest, pytest-cov, pytest-mock, types-requests)
+- **docs**: Documentation build tools (mkdocs, mkdocs-material, mkdocstrings)
 
 ```bash
-pip install -e ".[all]"
+pip install -e ".[dev]"
 ```
 
 ## API Key Setup

README.md

@@ -13,11 +13,8 @@ pip install .
 # Install with development dependencies
 pip install -e ".[dev]"
 
-# Install with notebook support
-pip install -e ".[notebook]"
-
-# Install everything
-pip install -e ".[all]"
+# Install with documentation tools
+pip install -e ".[docs]"
 ```
 
 ### Install Options
@@ -34,25 +31,17 @@ pip install -e ".[dev]"
 ```
 Includes:
 - pytest, pytest-cov (testing)
-- black (code formatting)
-- flake8 (linting)
-- mypy (type checking)
+- pytest-mock (test mocking)
 - types-requests (type stubs)
 
-**Notebook Support:**
+**Documentation Support:**
 ```bash
-pip install -e ".[notebook]"
+pip install -e ".[docs]"
 ```
 Includes:
-- jupyter (notebooks)
-- pandas (data analysis)
-- matplotlib (visualization)
-
-**Everything:**
-```bash
-pip install -e ".[all]"
-```
-Includes all optional dependencies.
+- mkdocs (documentation site)
+- mkdocs-material (theme)
+- mkdocstrings[python] (API docs)
 
 ### Editable Install
 
@@ -88,7 +77,7 @@ This creates:
 All project metadata and build configuration is in `pyproject.toml`:
 - Package metadata (name, version, description)
 - Dependencies
-- Optional dependencies (dev, notebook, all)
+- Optional dependencies (dev, docs)
 - Tool configurations (black, mypy, pytest, coverage)
 
 ### setup.py

docs/INSTALLATION.md

@@ -56,29 +56,19 @@ pip install -e ".[dev]"
 
 Includes:
 - pytest, pytest-cov (testing)
-- black (formatting)
-- flake8 (linting)
-- mypy (type checking)
+- pytest-mock (test mocking)
 - types-requests (type stubs)
 
-### Notebook Support
+### Documentation Tools
 
 ```bash
-pip install -e ".[notebook]"
+pip install -e ".[docs]"
 ```
 
 Includes:
-- jupyter (notebooks)
-- pandas (data analysis)
-- matplotlib (visualization)
-
-### All Optional Dependencies
-
-```bash
-pip install -e ".[all]"
-```
-
-Includes everything (dev + notebook).
+- mkdocs (documentation site)
+- mkdocs-material (theme)
+- mkdocstrings[python] (API docs)
 
 ## Tool Configurations
 
@@ -175,11 +165,8 @@ Installs in editable mode - changes to source code are immediately available wit
 # Development tools
 pip install -e ".[dev]"
 
-# Notebook support
-pip install -e ".[notebook]"
-
-# Everything
-pip install -e ".[all]"
+# Documentation tools
+pip install -e ".[docs]"
 ```
 
 ## Building Distribution

docs/MODERN_SETUP.md

@@ -1,7 +1,3 @@
-[build-system]
-requires = ["setuptools>=61.0", "wheel"]
-build-backend = "setuptools.build_meta"
-
 [project]
 name = "comptox-python"
 version = "0.6.0"
@@ -50,38 +46,13 @@ dev = [
     "pytest>=7.0",
     "pytest-cov>=4.0",
     "pytest-mock>=3.12.0",
-    "pytest-timeout>=2.2.0",
-    "pytest-xdist>=3.5.0",
-    "black>=23.0",
-    "isort>=5.12.0",
-    "flake8>=6.0",
-    "mypy>=1.0",
     "types-requests>=2.31.0",
 ]
-notebook = [
-    "jupyter>=1.0.0",
-    "pandas>=2.0.0",
-    "matplotlib>=3.7.0",
-]
 docs = [
     "mkdocs>=1.5.0",
     "mkdocs-material>=9.4.0",
     "mkdocstrings[python]>=0.24.0",
 ]
-all = [
-    "pytest>=7.0",
-    "pytest-cov>=4.0",
-    "black>=23.0",
-    "flake8>=6.0",
-    "mypy>=1.0",
-    "types-requests>=2.31.0",
-    "jupyter>=1.0.0",
-    "pandas>=2.0.0",
-    "matplotlib>=3.7.0",
-    "mkdocs>=1.5.0",
-    "mkdocs-material>=9.4.0",
-    "mkdocstrings[python]>=0.24.0",
-]
 
 [project.urls]
 Homepage = "https://github.com/USEtox/PyCompTox"
@@ -190,3 +161,7 @@ exclude_lines = [
 
 [tool.coverage.html]
 directory = "htmlcov"
+
+[build-system]
+requires = ["setuptools>=61.0", "wheel"]
+build-backend = "setuptools.build_meta"