More poetry related updates and dependencies updated

.pre-commit-config.yaml

@@ -1,26 +1,24 @@
 repos:
-  - repo: https://github.com/facebook/pyrefly
-    rev: main
-    hooks:
-      - id: pyrefly-typecheck
-  - repo: https://github.com/psf/black
-    rev: 25.1.0
+  - repo: local
     hooks:
+      - id: pyrefly
+        name: pyrefly
+        entry: poetry run pyrefly check
+        language: system
+        types_or: [python, pyi]
+        pass_filenames: false
       - id: black
+        name: black
+        entry: poetry run black
+        language: system
         types_or: [python, pyi]
-  - repo: https://github.com/PyCQA/isort
-    rev: 5.13.2
-    hooks:
       - id: isort
+        name: isort
+        entry: poetry run isort
+        language: system
         types_or: [python, pyi]
-  - repo: https://github.com/PyCQA/flake8
-    rev: 7.2.0
-    hooks:
       - id: flake8
+        name: flake8
+        entry: poetry run flake8
+        language: system
         types_or: [python, pyi]
-        additional_dependencies:
-          - flake8-bugbear
-          - flake8-unused-arguments
-          - flake8-print
-          - flake8-type-checking
-          - flake8-pyproject

CLAUDE.md

@@ -70,7 +70,7 @@ This is an AI-centric Python application with a clean, modular structure:
    - Pydantic for data validation and settings management
    - Structured logging with structlog
    - Async-first design with httpx for HTTP operations
-   - Type safety enforced through Basedpyright and Pyrefly
+   - Type safety enforced through Pyrefly
 
 4. **AI/ML Integration Points**:
    - Anthropic Claude API integration
@@ -85,11 +85,11 @@ This project uses Nix for reproducible development environments. Enter the dev s
 nix develop
 ```
 
-The environment includes:
+The Nix environment provides:
 - Python 3.13
-- All development tools (black, isort, flake8, pytest, pyrefly, etc.)
-- Pre-configured pre-commit hooks
-- Environment file support (`.env`, `.test.env`, `.deploy.env`)
+- Poetry
+
+Run `poetry install` after entering the shell to install all development tools (black, isort, flake8, pytest, pyrefly, pre-commit, etc.).
 
 ## Code Quality Standards
 

README.md

@@ -42,8 +42,12 @@ This template provides a complete development environment for AI/ML applications
 
 3. The Nix environment will automatically provide:
    - Python 3.13
-   - All development tools (poetry, black, isort, flake8, pyrefly, etc.)
-   - Pre-commit hooks
+   - Poetry
+
+4. Install all development tools (black, isort, flake8, pyrefly, pre-commit, etc.) via Poetry:
+   ```bash
+   poetry install
+   ```
 
 #### Option 2: Without Nix (You already have Python)
 
@@ -90,7 +94,7 @@ poetry run pyrefly check    # Type checking
 
 #### Pre-commit Hooks
 ```bash
-pre-commit run --all-files
+poetry run pre-commit run --all-files
 ```
 
 ## Configuration
@@ -134,9 +138,9 @@ poetry add --group dev <package-name>
 
 ## Type Checking
 
-This template uses Pyrefly (and Basedpyright) for type checking. Run type checks with:
+This template uses Pyrefly for type checking. Run type checks with:
 ```bash
-pyrefly check
+poetry run pyrefly check
 ```
 
 ## Tips for Development

devshell.toml

@@ -1,12 +1,7 @@
 # https://numtide.github.io/devshell
 # https://numtide.github.io/devshell/getting_started.html
-[[commands]]
-package = "python313"
-
 [devshell]
-packages = [
-  "poetry"
-]
+packages = []
 
 [[commands]]
 name = "runLint"

flake.nix

@@ -23,8 +23,12 @@
             overlays = [ devshell.overlays.default ];
           };
         in
+        let
+          poetryWithPlugins = pkgs.poetry.withPlugins (ps: [ ps.poetry-plugin-up ]);
+        in
         pkgs.devshell.mkShell {
           imports = [ (pkgs.devshell.importTOML ./devshell.toml) ];
+          packages = [ pkgs.python313 poetryWithPlugins ];
         };
     });
 }

pyproject.toml

@@ -8,16 +8,16 @@ authors = [
 ]
 requires-python = ">=3.13"
 dependencies = [
-    "anthropic>=0.55.0",
+    "anthropic (>=0.86.0)",
     "httpx>=0.28.1",
-    "huggingface-hub>=0.33.1",
-    "mcp[cli]>=1.10.1",
-    "openai>=1.93.0",
-    "pydantic>=2.11.7",
-    "pydantic-settings>=2.10.1",
-    "rich>=14.0.0",
-    "structlog>=25.4.0",
-    "tenacity>=9.1.2",
+    "huggingface-hub (>=1.7.2)",
+    "mcp[cli] (>=1.26.0)",
+    "openai (>=2.29.0)",
+    "pydantic (>=2.12.5)",
+    "pydantic-settings (>=2.13.1)",
+    "rich (>=14.3.3)",
+    "structlog (>=25.5.0)",
+    "tenacity (>=9.1.4)",
 ]
 
 [project.scripts]
@@ -31,24 +31,24 @@ requires = ["poetry-core"]
 build-backend = "poetry.core.masonry.api"
 
 [tool.poetry.group.dev.dependencies]
-coverage = ">=7.9.1"
-debugpy = ">=1.8.14"
-pre-commit = ">=4.2.0"
-pyrefly = ">=0.21.0"
-pytest = ">=8.4.1"
-pytest-asyncio = ">=1.0.0"
-pytest-cov = ">=6.2.1"
+coverage = ">=7.13.5"
+debugpy = ">=1.8.20"
+pre-commit = ">=4.5.1"
+pyrefly = ">=0.57.1"
+pytest = ">=9.0.2"
+pytest-asyncio = ">=1.3.0"
+pytest-cov = ">=7.1.0"
 pytest-dotenv = ">=0.5.2"
-pytest-mock = ">=3.14.1"
-pytest-sugar = ">=1.0.0"
-black = ">=24.0.0"
-isort = ">=5.13.0"
-flake8 = ">=7.0.0"
-flake8-bugbear = ">=24.0.0"
-flake8-unused-arguments = ">=0.0.13"
+pytest-mock = ">=3.15.1"
+pytest-sugar = ">=1.1.1"
+black = ">=26.3.1"
+isort = ">=8.0.1"
+flake8 = ">=7.3.0"
+flake8-bugbear = ">=25.11.29"
+flake8-unused-arguments = ">=0.0.14"
 flake8-print = ">=5.0.0"
-flake8-type-checking = ">=2.9.0"
-flake8-pyproject = ">=1.2.0"
+flake8-type-checking = ">=3.2.0"
+flake8-pyproject = ">=1.2.4"
 
 [tool.pyrefly]
 project_includes = ["**/*"]
@@ -89,7 +89,9 @@ per-file-ignores = [
     "bin/*.py:T201,T203",
     "scripts/*.py:T201,T203",
     "tests/*.py:T201,T203",
+    "tests/**/*.py:T201,T203",
     "examples/*.py:T201,T203",
+    "examples/**/*.py:T201,T203",
 ]
 
 [tool.pytest.ini_options]