Replace poetry with uv

.github/workflows/ci.yml

@@ -2,40 +2,58 @@ name: CI
 
 on:
   push:
-    branches: master
+    branches: [ main ]
   pull_request:
-    branches: master
+    branches: [ main ]
   workflow_dispatch:
 
 jobs:
-  test:
-    name: Run tests
+  ci:
+    name: Run tests and handle coverage
     runs-on: ubuntu-latest
     steps:
-    - name: Check out repository
-      uses: actions/checkout@v2
-    - name: Set up Python
-      uses: actions/setup-python@v2
-      with:
-        python-version: 3.10.7
-    - name: Install dependencies
-      run: |
-        python -m pip install --upgrade pip
-        pip install -r requirements.txt
-        pip install pytest pytest-cov pytest-shell
-        python setup.py install
-    - name: Install Python Poetry
-      run: |
-        python -m pip install --upgrade pip
-        pip install poetry
-        poetry install --with dev
-    - name: Generate coverage report
-      run: rm -rf zoutput && poetry run pytest --cov=causalspyne tests/ --cov-report=xml
-    - name: Upload coverage to Codecov
-      uses: codecov/codecov-action@v1
-      with:
-        flags: unittests
-        env_vars: OS,PYTHON
-        fail_ci_if_error: true
-      env:
-        CODECOV_TOKEN: 02ecb3ac-b7ce-4ea4-90a2-961c3d1a1030
+      - name: Check out repository
+        uses: actions/checkout@v4
+
+      - name: Install uv
+        uses: astral-sh/setup-uv@v5
+        with:
+          enable-cache: true
+
+      - name: Install dependencies (including dev)
+        run: uv sync --dev
+
+      - name: Run tests and generate coverage reports
+        run: |
+          rm -rf htmlcov coverage.xml
+          uv run pytest \
+            --cov=causalspyne \
+            --cov-report=xml:coverage.xml \
+            --cov-report=html:htmlcov
+
+      - name: Deploy coverage preview
+        if: github.event_name == 'pull_request'
+        uses: JamesIves/github-pages-deploy-action@v4
+        with:
+          folder: htmlcov
+          clean: false
+          token: ${{ secrets.GITHUB_TOKEN }}
+          target-folder: pr-${{ github.event.number }}
+
+      - name: "View coverage report: https://${{ github.repository_owner }}.github.io/${{ github.event.repository.name }}/pr-${{ github.event.number }}/index.html"
+        if: github.event_name == 'pull_request'
+        run: echo "Preview deployed at https://${{ github.repository_owner }}.github.io/${{ github.event.repository.name }}/pr-${{ github.event.number }}/index.html"
+
+      - name: Generate coverage badge
+        if: github.ref == 'refs/heads/main'
+        run: |
+          python -m pip install genbadge[coverage]
+          genbadge coverage -i - < coverage.xml > coverage-badge.svg
+
+      - name: Deploy production coverage
+        if: github.ref == 'refs/heads/main'
+        uses: JamesIves/github-pages-deploy-action@v4
+        with:
+          folder: htmlcov
+          clean: true
+          token: ${{ secrets.GITHUB_TOKEN }}

.gitignore

@@ -0,0 +1 @@
+.pypi_token

devenv.lock

@@ -0,0 +1,155 @@
+{
+  "nodes": {
+    "devenv": {
+      "locked": {
+        "dir": "src/modules",
+        "lastModified": 1760560333,
+        "owner": "cachix",
+        "repo": "devenv",
+        "rev": "0a4043938f540027e562c5a0feebbe6be872c3ea",
+        "type": "github"
+      },
+      "original": {
+        "dir": "src/modules",
+        "owner": "cachix",
+        "repo": "devenv",
+        "type": "github"
+      }
+    },
+    "flake-compat": {
+      "flake": false,
+      "locked": {
+        "lastModified": 1747046372,
+        "owner": "edolstra",
+        "repo": "flake-compat",
+        "rev": "9100a0f413b0c601e0533d1d94ffd501ce2e7885",
+        "type": "github"
+      },
+      "original": {
+        "owner": "edolstra",
+        "repo": "flake-compat",
+        "type": "github"
+      }
+    },
+    "flake-compat_2": {
+      "flake": false,
+      "locked": {
+        "lastModified": 1747046372,
+        "owner": "edolstra",
+        "repo": "flake-compat",
+        "rev": "9100a0f413b0c601e0533d1d94ffd501ce2e7885",
+        "type": "github"
+      },
+      "original": {
+        "owner": "edolstra",
+        "repo": "flake-compat",
+        "type": "github"
+      }
+    },
+    "git-hooks": {
+      "inputs": {
+        "flake-compat": "flake-compat",
+        "gitignore": "gitignore",
+        "nixpkgs": [
+          "nixpkgs"
+        ]
+      },
+      "locked": {
+        "lastModified": 1760392170,
+        "owner": "cachix",
+        "repo": "git-hooks.nix",
+        "rev": "46d55f0aeb1d567a78223e69729734f3dca25a85",
+        "type": "github"
+      },
+      "original": {
+        "owner": "cachix",
+        "repo": "git-hooks.nix",
+        "type": "github"
+      }
+    },
+    "gitignore": {
+      "inputs": {
+        "nixpkgs": [
+          "git-hooks",
+          "nixpkgs"
+        ]
+      },
+      "locked": {
+        "lastModified": 1709087332,
+        "owner": "hercules-ci",
+        "repo": "gitignore.nix",
+        "rev": "637db329424fd7e46cf4185293b9cc8c88c95394",
+        "type": "github"
+      },
+      "original": {
+        "owner": "hercules-ci",
+        "repo": "gitignore.nix",
+        "type": "github"
+      }
+    },
+    "nixpkgs": {
+      "locked": {
+        "lastModified": 1758532697,
+        "owner": "cachix",
+        "repo": "devenv-nixpkgs",
+        "rev": "207a4cb0e1253c7658c6736becc6eb9cace1f25f",
+        "type": "github"
+      },
+      "original": {
+        "owner": "cachix",
+        "ref": "rolling",
+        "repo": "devenv-nixpkgs",
+        "type": "github"
+      }
+    },
+    "nixpkgs-python": {
+      "inputs": {
+        "flake-compat": "flake-compat_2",
+        "nixpkgs": [
+          "nixpkgs"
+        ]
+      },
+      "locked": {
+        "lastModified": 1760045435,
+        "owner": "cachix",
+        "repo": "nixpkgs-python",
+        "rev": "5dd936b1ce299f6d230774a88b1052e47f71ab91",
+        "type": "github"
+      },
+      "original": {
+        "owner": "cachix",
+        "repo": "nixpkgs-python",
+        "type": "github"
+      }
+    },
+    "nixpkgs-unstable": {
+      "locked": {
+        "lastModified": 1760533177,
+        "owner": "nixos",
+        "repo": "nixpkgs",
+        "rev": "35f590344ff791e6b1d6d6b8f3523467c9217caf",
+        "type": "github"
+      },
+      "original": {
+        "owner": "nixos",
+        "ref": "nixpkgs-unstable",
+        "repo": "nixpkgs",
+        "type": "github"
+      }
+    },
+    "root": {
+      "inputs": {
+        "devenv": "devenv",
+        "git-hooks": "git-hooks",
+        "nixpkgs": "nixpkgs",
+        "nixpkgs-python": "nixpkgs-python",
+        "nixpkgs-unstable": "nixpkgs-unstable",
+        "pre-commit-hooks": [
+          "git-hooks"
+        ]
+      }
+    }
+  },
+  "root": "root",
+  "version": 7
+}

devenv.nix

@@ -0,0 +1,25 @@
+{ pkgs, lib, config, inputs, ... }:
+let
+  pkgs-unstable = import inputs.nixpkgs-unstable { system = pkgs.stdenv.system; };
+in
+{
+  # https://devenv.sh/packages/
+  packages = [ pkgs.git ];
+
+  # https://devenv.sh/languages/
+  languages.python = {
+    enable = true;
+    version = "3.12";
+    uv = {
+      enable = true;
+      package = pkgs-unstable.uv;
+      sync.enable = true;
+    };
+    venv.enable = true;
+  };
+
+  enterShell = ''
+  '';
+
+  # See full reference at https://devenv.sh/reference/options/
+}

devenv.yaml

@@ -0,0 +1,22 @@
+# yaml-language-server: $schema=https://devenv.sh/devenv.schema.json
+inputs:
+  nixpkgs:
+    url: github:cachix/devenv-nixpkgs/rolling
+  nixpkgs-unstable:
+    url: github:nixos/nixpkgs/nixpkgs-unstable
+  nixpkgs-python:
+    url: github:cachix/nixpkgs-python
+    inputs:
+      nixpkgs:
+        follows: nixpkgs
+
+# If you're using non-OSS software, you can set allowUnfree to true.
+# allowUnfree: true
+
+# If you're willing to use a package that's vulnerable
+# permittedInsecurePackages:
+#  - "openssl-1.1.1w"
+
+# If you have more than one devenv you can merge them
+#imports:
+# - ./backend

main.py

@@ -0,0 +1,6 @@
+def main():
+    print("Hello from causalspyne!")
+
+
+if __name__ == "__main__":
+    main()