feature: add support for uv

.coveragerc

@@ -1,8 +1,11 @@
 [run]
-include = */benchbuild/*
+include = benchbuild/*
 omit =
+  ./venv/*
+  */bin/benchbuild*
   */benchbuild/lib/*
   */benchbuild/bin/*
+  .venv/*
 branch = True
 parallel = True
 

.github/workflows/ci.yml

@@ -9,27 +9,27 @@ jobs:
   unittests:
     runs-on: ubuntu-latest
     strategy:
+      fail-fast: false
       matrix:
-        python-version: ["3.9", "3.10"]
+        python-version: ["3.11", "3.12", "3.13", "3.14"]
 
     steps:
-    - uses: actions/checkout@v3
-
-    - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v4
-      with:
-        python-version: ${{ matrix.python-version }}
+    - name: Checkout
+      uses: actions/checkout@v5
 
     - name: Install system dependencies for CI
       run: |
-        sudo apt-get install time unionfs-fuse libfuse-dev clang
+        sudo apt-get install time unionfs-fuse libfuse-dev clang libgit2-dev
 
-    - name: Install dependencies
+    - name: Install uv
+      uses: astral-sh/setup-uv@v6
+      with:
+        python-version: ${{ matrix.python-version }}
+        enable-cache: true
+
+    - name: Install the project
       run: |
-        python -m pip install --upgrade pip wheel
-        pip install .
-        pip install -r requirements.txt
-        pip install -r test-requirements.txt
+        uv sync --locked --all-extras --dev
 
     - name: Run unittests
       env:
@@ -40,8 +40,8 @@ jobs:
       run: |
         git config --global protocol.file.allow always
 
-        pytest --cov-config=./.coveragerc --cov=benchbuild --ignore=tests/integration benchbuild tests
-        pytest --cov-config=./.coveragerc --cov=benchbuild tests/integration
+        uv run pytest --cov-config=./.coveragerc --cov=benchbuild --ignore=tests/integration benchbuild tests
+        uv run pytest --cov-config=./.coveragerc --cov=benchbuild tests/integration
 
     - uses: actions/upload-artifact@master
       with:
@@ -53,27 +53,26 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ["3.9", "3.10"]
+        python-version: ["3.11", "3.12", "3.13", "3.14"]
         db_support: [true, false]
 
     steps:
-    - uses: actions/checkout@v2
-
-    - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v2
-      with:
-        python-version: ${{ matrix.python-version }}
+    - name: Checkout
+      uses: actions/checkout@v5
 
     - name: Install system dependencies for CI
       run: |
         sudo apt-get install time unionfs-fuse libfuse-dev clang slurm-client
 
-    - name: Install dependencies
+    - name: Install uv
+      uses: astral-sh/setup-uv@v6
+      with:
+        python-version: ${{ matrix.python-version }}
+        enable-cache: true
+
+    - name: Install the project
       run: |
-        python -m pip install --upgrade pip wheel
-        pip install .
-        pip install -r requirements.txt
-        pip install -r test-requirements.txt
+        uv sync --locked --all-extras --dev
 
     - name: Run integration tests
       env:
@@ -86,18 +85,19 @@ jobs:
         BB_CONTAINER_RUNROOT: ${{ runner.temp }}
         BB_VERBOSITY: 5
       run: |
-        coverage run -p `which benchbuild` bootstrap -s
-        coverage run -p `which benchbuild` config view
-        coverage run -p `which benchbuild` experiment view
-        coverage run -p `which benchbuild` project view
-        coverage run -p `which benchbuild` run --full test
-        coverage run -p `which benchbuild` slurm -E empty test
-        coverage run -p `which benchbuild` slurm -E raw bzip2/benchbuild -- container --runroot /foo/bar
-        coverage run -p `which benchbuild` run -E raw bzip2/benchbuild
-        coverage run -p `which benchbuild` container run -E raw bzip2/benchbuild
-        coverage run -p `which benchbuild` container bases --export -E raw bzip2/benchbuild
-        coverage run -p `which benchbuild` container bases --import -E raw bzip2/benchbuild
-        coverage run -p `which benchbuild` container rmi --with-projects -E raw bzip2/benchbuild
+        source .venv/bin/activate
+        coverage run -p .venv/bin/benchbuild bootstrap -s
+        coverage run -p .venv/bin/benchbuild config view
+        coverage run -p .venv/bin/benchbuild experiment view
+        coverage run -p .venv/bin/benchbuild project view
+        coverage run -p .venv/bin/benchbuild run --full test
+        coverage run -p .venv/bin/benchbuild slurm -E empty test
+        coverage run -p .venv/bin/benchbuild slurm -E raw bzip2/benchbuild -- container --runroot /foo/bar
+        coverage run -p .venv/bin/benchbuild run -E raw bzip2/benchbuild
+        coverage run -p .venv/bin/benchbuild container run -E raw bzip2/benchbuild
+        coverage run -p .venv/bin/benchbuild container bases --export -E raw bzip2/benchbuild
+        coverage run -p .venv/bin/benchbuild container bases --import -E raw bzip2/benchbuild
+        coverage run -p .venv/bin/benchbuild container rmi --with-projects -E raw bzip2/benchbuild
         coverage combine
         coverage report -m
 
@@ -111,15 +111,10 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ["3.10"]
+        python-version: ["3.11", "3.12", "3.13", "3.14"]
 
     steps:
-    - uses: actions/checkout@v2
-
-    - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v2
-      with:
-        python-version: ${{ matrix.python-version }}
+    - uses: actions/checkout@v5
 
     - uses: actions/download-artifact@master
       with:
@@ -131,15 +126,21 @@ jobs:
         name: coverage-integration-${{ matrix.python-version }}
         path: ./.coverage.integration
 
+    - name: Install uv
+      uses: astral-sh/setup-uv@v6
+      with:
+        python-version: ${{ matrix.python-version }}
+        enable-cache: true
+
     - run: |
         ls -lah .
-        python -m pip install --upgrade pip wheel
-        pip install coverage
-        coverage combine -a ./.coverage.integration/.coverage ./.coverage.unittests/.coverage
-        coverage xml
+        uv sync --locked --all-extras --dev
+        uv pip install coverage
+        uv run coverage combine -a ./.coverage.integration/.coverage ./.coverage.unittests/.coverage
+        uv run coverage xml
 
     - name: Upload coverage report
-      uses: codecov/codecov-action@v1
+      uses: codecov/codecov-action@v5
       with:
         token: ${{ secrets.CODECOV_TOKEN }}
         file: ./coverage.xml
@@ -149,25 +150,24 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ["3.10"]
+        python-version: ["3.11", "3.12", "3.13", "3.14"]
 
     steps:
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v4
       with:
         fetch-depth: 0
 
-    - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v4
+    - name: Install uv
+      uses: astral-sh/setup-uv@v6
       with:
         python-version: ${{ matrix.python-version }}
+        enable-cache: true
 
     - name: Setup a git user
       run: |
         git config user.name github-actions
         git config user.email github-actions@github.com
 
-    - name: Install dependencies
+    - name: Install the project
       run: |
-        python -m pip install --upgrade pip
-        pip install .
-        pip install -r docs/requirements.txt
+        uv sync --locked --all-extras --group docs

.github/workflows/docs.yml

@@ -12,58 +12,30 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       # https://github.com/marketplace/actions/checkout
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           fetch-depth: 0
           lfs: true
 
       # https://github.com/marketplace/actions/setup-python
       # ^-- This gives info on matrix testing.
-      - name: Install Python
+      - name: Set up Python
         uses: actions/setup-python@v4
         with:
-          python-version: '3.10'
+          python-version-file: ".python-version"
 
-      # https://docs.github.com/en/actions/guides/building-and-testing-python#caching-dependencies
-      # ^-- How to set up caching for pip on Ubuntu
-      - name: Cache pip
-        uses: actions/cache@v2
-        with:
-          path: ~/.cache/pip
-          key: ${{ runner.os }}-pip-${{ hashFiles('requirements.txt') }}
-          restore-keys: |
-            ${{ runner.os }}-pip-
-            ${{ runner.os }}-
-
-      # https://docs.github.com/en/actions/guides/building-and-testing-python#installing-dependencies
-      # ^-- This gives info on installing dependencies with pip
-      - name: Install dependencies
-        run: |
-          python -m pip install --upgrade pip
-          pip install -r requirements.txt
-          pip install -r docs/requirements.txt
-          pip install .
+      - name: Install uv
+        uses: astral-sh/setup-uv@v6
 
-      - name: Debugging information
+      - name: Install the project
         run: |
-          echo "github.ref:" ${{github.ref}}
-          echo "github.event_name:" ${{github.event_name}}
-          echo "github.head_ref:" ${{github.head_ref}}
-          echo "github.base_ref:" ${{github.base_ref}}
-          set -x
-          git rev-parse --abbrev-ref HEAD
-          git branch
-          git branch -a
-          git remote -v
-          python -V
-          pip list --not-required
-          pip list
+          uv sync --locked --all-extras --dev --group docs
 
       # Build
       - uses: ammaraskar/sphinx-problem-matcher@master
       - name: Build Sphinx docs
         run: |
-          make -Cdocs dirhtml
+          uv run make -Cdocs dirhtml
           # This fixes broken copy button icons, as explained in
           #   https://github.com/coderefinery/sphinx-lesson/issues/50
           #   https://github.com/executablebooks/sphinx-copybutton/issues/110

.github/workflows/reviewdog.yml

@@ -5,12 +5,12 @@ jobs:
     name: reviewdog
     runs-on: ubuntu-latest
     steps:
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v4
 
-    - name: Set up Python 3.10
+    - name: Set up Python 3.12
       uses: actions/setup-python@v4
       with:
-        python-version: "3.10"
+        python-version: "3.12"
 
     - name: Install dependencies
       run: |

.gitignore

@@ -16,3 +16,4 @@ __pycache__/
 .vim/coc-settings.json
 .pheasant_cache/
 build/
+benchbuild/_version.py

.isort.cfg

@@ -1,5 +1,5 @@
 [settings]
-known_third_party = attr,dill,faker,git,jinja2,mock,parse,pkg_resources,plumbum,psutil,pygtrie,pyparsing,pytest,pytest_git,result,rich,schema,setuptools,six,sqlalchemy,yaml
+known_third_party = attr,dill,faker,git,jinja2,mock,parse,plumbum,psutil,pygtrie,pyparsing,pytest,pytest_git,result,rich,schema,setuptools,six,sqlalchemy,yaml
 multi_line_output=3
 use_parentheses = True
 include_trailing_comma: True

.pre-commit-config.yaml

@@ -5,26 +5,23 @@ repos:
       - id: commitizen
         stages: [commit-msg]
 -   repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.4.0
+    rev: v6.0.0
     hooks:
     -   id: check-yaml
     -   id: end-of-file-fixer
     -   id: trailing-whitespace
     -   id: requirements-txt-fixer
--   repo: https://github.com/asottile/seed-isort-config
-    rev: v2.2.0
-    hooks:
-    -   id: seed-isort-config
--   repo: https://github.com/timothycrosley/isort.git
-    rev: 5.12.0
-    hooks:
-      - id: isort
-        args: ['-nis']
 -   repo: https://github.com/MarcoGorelli/auto-walrus
     rev: v0.2.2
     hooks:
     -   id: auto-walrus
--   repo: https://github.com/pre-commit/mirrors-yapf
-    rev: 'v0.32.0'
+-   repo: https://github.com/astral-sh/ruff-pre-commit
+    rev: "v0.12.5"
     hooks:
-      - id: yapf
+      - id: ruff-check
+        args: [ "--fix" ]
+
+      - id: ruff-check
+        args: [ "--select", "I", "--fix"]
+
+      - id: ruff-format

.python-version

@@ -0,0 +1 @@
+3.12

benchbuild/__init__.py

@@ -2,6 +2,7 @@
 """
 Public API of benchbuild.
 """
+
 import sys
 
 # Project utilities
@@ -11,16 +12,20 @@
 from . import plugins as __PLUGINS__
 from . import source as source
 from .experiment import Experiment as Experiment
+
 # Export: Project
 from .project import Project as Project
+
 # Export: Configuration
 from .settings import CFG as CFG
+
 # Don't Export, just init.
 # Export: compiler, download, run and wrapping modules
 from .utils import compiler as compiler
 from .utils import download as download
 from .utils import settings as __SETTINGS__
 from .utils import wrapping as wrapping
+
 # Wrapping / Execution utilities
 from .utils.run import watch as watch
 from .utils.wrapping import wrap as wrap

benchbuild/cli/__init__.py

@@ -1,5 +1,12 @@
 """The CLI package."""
+
 __all__ = [
-    "main", "bootstrap", "config", "log", "project", "experiment", "run",
-    "slurm"
+    "main",
+    "bootstrap",
+    "config",
+    "log",
+    "project",
+    "experiment",
+    "run",
+    "slurm",
 ]