diff --git a/.flake8 b/.flake8 deleted file mode 100644 index acb8d849..00000000 --- a/.flake8 +++ /dev/null @@ -1,10 +0,0 @@ -# Taken directly from https://github.com/ambv/black/blob/master/.flake8 -[flake8] -ignore = E203, E266, E501, W503, C901, D104, D100 -max-line-length = 88 -max-complexity = 18 -select = B,C,E,F,W,T4,B9,D -enable-extensions = flake8-docstrings -per-file-ignores = - tests/**:D101,D102,D103 -docstring-convention = numpy diff --git a/.gitattributes b/.gitattributes index 8678f7e0..378c366d 100644 --- a/.gitattributes +++ b/.gitattributes @@ -4,3 +4,4 @@ *.{py,yaml,yml,sh} text eol=lf *.bat text eol=crlf +pixi.lock linguist-language=YAML linguist-generated=true diff --git a/.github/actions/setup/action.yml b/.github/actions/setup/action.yml deleted file mode 100644 index f47eb483..00000000 --- a/.github/actions/setup/action.yml +++ /dev/null @@ -1,29 +0,0 @@ -name: "Setup Environment" -description: "Setup Environment for Testing" -inputs: - python-version: - required: true - poetry-flags: - description: 'Poetry flags' - required: false - default: '' -runs: - using: composite - steps: - - name: Install Poetry - uses: snok/install-poetry@v1 - with: - virtualenvs-create: true - virtualenvs-in-project: true - installer-parallel: true - - - name: Set up Python ${{ inputs.python-version }} - uses: actions/setup-python@v4 - with: - python-version: ${{ inputs.python-version }} - cache: 'poetry' - - - name: Install dependencies - shell: bash - run: poetry install -vv ${{ inputs.poetry-flags }} --no-interaction - diff --git a/.github/actions/test/action.yml b/.github/actions/test/action.yml deleted file mode 100644 index af1629c0..00000000 --- a/.github/actions/test/action.yml +++ /dev/null @@ -1,14 +0,0 @@ -name: "Run Tests" -inputs: - arguments: - description: 'Pytest arguments' - required: false - default: '' -runs: - using: composite - steps: - - name: Test - shell: bash - run: | - poetry run pytest tests -ra -v -s ${DEBUG:+-s} ${{ inputs.arguments }} - diff --git a/.github/dependabot.yml b/.github/dependabot.yml index a11949d4..38918485 100644 --- a/.github/dependabot.yml +++ b/.github/dependabot.yml @@ -1,8 +1,10 @@ version: 2 updates: - - package-ecosystem: "github-actions" - directory: "/" + - package-ecosystem: github-actions + directory: / schedule: - interval: "weekly" - reviewers: - - "quantco/ci" + interval: monthly + groups: + gh-actions: + patterns: + - "*" diff --git a/.github/workflows/resources/docker_compose_ready.sh b/.github/scripts/docker_compose_ready.sh similarity index 100% rename from .github/workflows/resources/docker_compose_ready.sh rename to .github/scripts/docker_compose_ready.sh diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 196bb0a5..df7006cb 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -2,30 +2,54 @@ name: Release on: push: + branches: + - main tags: - '*.*.*' + pull_request: jobs: - release: - name: 'Build and Release on PyPi' + build: + name: Build Package runs-on: ubuntu-latest steps: - name: Checkout branch - uses: actions/checkout@v3 + uses: actions/checkout@v4 - - name: Setup Environment - uses: ./.github/actions/setup + - name: Set up pixi + uses: prefix-dev/setup-pixi@v0.8.1 with: - python-version: '3.11' - + environments: release + - name: Build - run: poetry build + run: pixi run -e release hatch build - - name: Check distributions - run: ls -la dist + - name: List files + run: ls -l dist/ - - name: Publish to PyPI - env: - POETRY_PYPI_TOKEN_PYPI: ${{ secrets.PYPI_TOKEN }} - run: poetry publish + - name: Upload package + uses: actions/upload-artifact@v4 + with: + name: artifact + path: dist/* + release: + name: Publish Package + if: startsWith(github.ref, 'refs/tags/') + needs: [build] + runs-on: ubuntu-latest + permissions: + id-token: write + contents: write + environment: pypi + steps: + - uses: actions/download-artifact@v4 + with: + name: artifact + path: dist + - name: Publish package on TestPyPi + uses: pypa/gh-action-pypi-publish@ec4db0b4ddc65acdf4bff5fa45ac92d78b56bdf0 + with: + repository-url: https://test.pypi.org/legacy/ + - name: Publish package on PyPi + uses: pypa/gh-action-pypi-publish@ec4db0b4ddc65acdf4bff5fa45ac92d78b56bdf0 diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml index adc601ef..674eb275 100644 --- a/.github/workflows/tests.yml +++ b/.github/workflows/tests.yml @@ -13,56 +13,62 @@ on: - '**' jobs: - - Linting: - name: "Linting - pre-commit hooks - Python 3.9" + lint: + name: Pre-commit Checks runs-on: ubuntu-latest - timeout-minutes: 15 + timeout-minutes: 10 steps: - name: Checkout branch - uses: actions/checkout@v3 + uses: actions/checkout@v4 - name: Install Python 3.9 - uses: actions/setup-python@v4 + uses: actions/setup-python@v5 with: python-version: 3.9 - name: Linting - Run pre-commit checks - uses: pre-commit/action@v3.0.0 + uses: pre-commit/action@v3.0.1 - Tests: - name: "${{ matrix.os }} / ${{ matrix.python-version }}" - runs-on: ${{ matrix.os }}-latest + test: + name: pytest + runs-on: ${{ matrix.os }} strategy: matrix: - os: [Ubuntu] - python-version: ['3.9', '3.10', '3.11'] + os: + - ubuntu-latest + environment: + - py39 + - py310 + - py311 + - py312ibmdb + timeout-minutes: 20 steps: - - uses: actions/checkout@v3 + - uses: actions/checkout@v4 - - name: Setup Environment - uses: ./.github/actions/setup + - name: Setup Pixi + uses: prefix-dev/setup-pixi@v0.8.1 with: - python-version: ${{ matrix.python-version }} - poetry-flags: --all-extras --with=tests + environments: ${{ matrix.environment }} - name: Start Docker Compose - uses: isbang/compose-action@v1.4.1 + uses: isbang/compose-action@e5813a5909aca4ae36058edae58f6e52b9c971f8 with: - compose-file: ./docker-compose.yaml + compose-file: docker-compose.yaml - name: Install Microsoft ODBC run: sudo ACCEPT_EULA=Y apt-get install -y msodbcsql18 - name: Wait for Docker Servers - timeout-minutes: 1 - shell: bash run: | - until bash ./.github/workflows/resources/docker_compose_ready.sh; do - sleep 2 + until bash ./.github/scripts/docker_compose_ready.sh; do + sleep 1 done - - name: Run Tests - uses: ./.github/actions/test - with: - arguments: --postgres --mssql + - name: Run tests + env: + SNOWFLAKE_PASSWORD: ${{ secrets.SNOWFLAKE_PASSWORD }} + SNOWFLAKE_ACCOUNT: ${{ secrets.SNOWFLAKE_ACCOUNT }} + SNOWFLAKE_USER: ${{ secrets.SNOWFLAKE_USER }} + run: | + pixi run -e ${{ matrix.environment }} pytest tests -ra ${RUNNER_DEBUG:+-v} --color=yes --workers=4 --postgres --mssql + \ No newline at end of file diff --git a/.github/workflows/update-lockfiles.yml b/.github/workflows/update-lockfiles.yml new file mode 100644 index 00000000..e36b30a1 --- /dev/null +++ b/.github/workflows/update-lockfiles.yml @@ -0,0 +1,36 @@ +name: Update lockfiles + +permissions: + contents: write + pull-requests: write + +on: + workflow_dispatch: + schedule: + - cron: 0 5 1 * * + +jobs: + pixi-update: + runs-on: ubuntu-latest + steps: + - uses: actions/checkout@v4 + - name: Set up pixi + uses: prefix-dev/setup-pixi@v0.8.1 + with: + run-install: false + - name: Update lockfiles + run: | + set -euo pipefail + pixi update --json --no-install | pixi exec pixi-diff-to-markdown >> diff.md + - name: Create pull request + uses: peter-evans/create-pull-request@v6 + with: + token: ${{ secrets.GITHUB_TOKEN }} + commit-message: Update pixi lockfile + title: Update pixi lockfile + body-path: diff.md + branch: update-pixi + base: main + labels: pixi + delete-branch: true + add-paths: pixi.lock diff --git a/.gitignore b/.gitignore index 1bdf3a7f..09116387 100644 --- a/.gitignore +++ b/.gitignore @@ -120,3 +120,6 @@ mlruns # direnv .envrc +# pixi environments +.pixi +*.egg-info diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index cb518e40..da6deb44 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -1,16 +1,6 @@ repos: - - repo: https://github.com/psf/black - rev: 23.3.0 - hooks: - - id: black - language_version: python3.9 - repo: https://github.com/charliermarsh/ruff-pre-commit - rev: v0.0.270 + rev: v0.5.7 hooks: - id: ruff - - repo: https://github.com/asottile/pyupgrade - rev: v3.3.1 - hooks: - - id: pyupgrade - args: - - --py39-plus + - id: ruff-format diff --git a/.readthedocs.yaml b/.readthedocs.yaml index a3802273..7c14bff0 100644 --- a/.readthedocs.yaml +++ b/.readthedocs.yaml @@ -2,21 +2,16 @@ # See https://docs.readthedocs.io/en/stable/config-file/v2.html for details version: 2 - build: os: ubuntu-22.04 tools: - python: "3.11" - jobs: - post_create_environment: - - pip install poetry - post_install: - # Install dependencies with 'docs' dependency group - # https://python-poetry.org/docs/managing-dependencies/#dependency-groups - # VIRTUAL_ENV needs to be set manually for now. - # See https://github.com/readthedocs/readthedocs.org/pull/11152/ - - VIRTUAL_ENV=$READTHEDOCS_VIRTUALENV_PATH poetry install --with docs - + python: mambaforge-latest + commands: + - mamba install -c conda-forge -c nodefaults pixi + - pixi run -e docs postinstall + - pixi run -e docs docs + - pixi run -e docs readthedocs sphinx: - builder: html - configuration: docs/source/conf.py \ No newline at end of file + configuration: docs/source/conf.py +formats: + - pdf \ No newline at end of file diff --git a/README.md b/README.md index 5f77d4f1..06245dd4 100644 --- a/README.md +++ b/README.md @@ -15,9 +15,8 @@ git clone https://github.com/pydiverse/pydiverse.transform.git cd pydiverse.transform # Create the environment, activate it and install the pre-commit hooks -poetry install -poetry shell -pre-commit install +pixi install +pixi run pre-commit install ``` ## Testing @@ -25,36 +24,9 @@ pre-commit install After installation, you should be able to run: ```bash -poetry run pytest +pixi run pytest ``` -## Packaging - -For publishing with poetry to pypi, see: -https://www.digitalocean.com/community/tutorials/how-to-publish-python-packages-to-pypi-using-poetry-on-ubuntu-22-04 - -Packages are first released on test.pypi.org: - -- see https://stackoverflow.com/questions/68882603/using-python-poetry-to-publish-to-test-pypi-org -- `poetry version prerelease` or `poetry version patch` -- push increased version number to `main` branch -- `poetry build` -- `poetry publish -r test-pypi` -- verify with https://test.pypi.org/search/?q=pydiverse.transform - -Finally, they are published via: - -- `git tag `\ -- `git push --tags` -- `poetry publish` - -Conda-forge packages are updated via: - -- https://github.com/conda-forge/pydiverse-transform-feedstock#updating-pydiverse-transform-feedstock -- update `recipe/meta.yaml` -- test meta.yaml in transform repo: `conda-build build ../pydiverse-transform-feedstock/recipe/meta.yaml` -- commit `recipe/meta.yaml` to branch of fork and submit PR - ## Testing more database backends To facilitate easy testing, we provide a Docker Compose file to start all required servers. @@ -85,8 +57,39 @@ poetry run pytest --ibm_db2 ## Packaging and publishing to pypi and conda-forge using github actions -- `poetry version prerelease` or `poetry version patch` -- set correct release date in changelog.md +- bump version number in [pyproject.toml](pyproject.toml) +- set correct release date in [changelog.md](docs/source/changelog.md) - push increased version number to `main` branch - tag commit with `git tag `, e.g. `git tag 0.7.0` - `git push --tags` + +The package should appear on https://pypi.org/project/pydiverse-transform/ in a timely manner. It is normal that it takes +a few hours until the new package version is available on https://conda-forge.org/packages/. + +### Packaging and publishing to Pypi manually + +Packages are first released on test.pypi.org: + +- bump version number in [pyproject.toml](pyproject.toml) (check consistency with [changelog.md](docs/source/changelog.md)) +- push increased version number to `main` branch +- `pixi run -e release hatch build` +- `pixi run -e release twine upload --repository testpypi dist/*` +- verify with https://test.pypi.org/search/?q=pydiverse.transform + +Finally, they are published via: + +- `git tag ` +- `git push --tags` +- Attention: Please, only continue here, if automatic publishing fails for some reason! +- `pixi run -e release hatch build` +- `pixi run -e release twine upload --repository pypi dist/*` + +### Publishing package on conda-forge manually + +Conda-forge packages are updated via: + +- Attention: Please, only continue here, if automatic conda-forge publishing fails for longer than 24h! +- https://github.com/conda-forge/pydiverse-transform-feedstock#updating-pydiverse-transform-feedstock +- update `recipe/meta.yaml` +- test meta.yaml in transform repo: `conda-build build ../pydiverse-transform-feedstock/recipe/meta.yaml` +- commit `recipe/meta.yaml` to branch of fork and submit PR diff --git a/pixi.lock b/pixi.lock new file mode 100644 index 00000000..cdf30d9b --- /dev/null +++ b/pixi.lock @@ -0,0 +1,17916 @@ +version: 5 +environments: + default: + channels: + - 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"Nicolas Camenisch ", - "Martin Trautmann ", + {name = "QuantCo, Inc."}, + {name = "Nicolas Camenisch", email = "garnele007@gmail.com"}, + {name = "Martin Trautmann", email = "windiana@users.sf.net"}, ] license = "BSD-3-Clause" readme = "docs/package/README.md" -packages = [ - { include = "pydiverse", from = "src" } -] classifiers = [ "Development Status :: 3 - Alpha", "Intended Audience :: Developers", @@ -19,59 +16,19 @@ classifiers = [ "Programming Language :: SQL", "Topic :: Database", ] +requires-python = ">=3.9" +dependencies = [ + "numpy>=1.23.1", + "pandas>=1.4.3", + "SQLAlchemy>=1.4.27", +] +[project.optional-dependencies] +pyarrow = [ + "pyarrow>=11.0.0", +] -[tool.poetry.dependencies] -python = ">=3.9" -numpy = ">=1.23.1" -pandas = ">=1.4.3" -SQLAlchemy = ">=1.4.27" -pyarrow = {version = ">=11.0.0", optional=true} - -[tool.poetry.extras] -pyarrow = ["pyarrow"] - -[tool.poetry.group.dev.dependencies] -pytest = ">=7.1.2" -pytest-xdist = ">=2.5.0" - -black = { version = "23.3.0", extras = ["d"] } -ruff = "^0.1" -pre-commit = ">=2.20.0" - 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