From e01b65b33227f67d9e08fc9705ff4b1d28af3bce Mon Sep 17 00:00:00 2001 From: Saul Shanabrook Date: Wed, 23 Oct 2024 19:13:02 -0400 Subject: [PATCH 1/9] Try switching to UV The goal of this is to be able to use pinned versions of all files for reproducible development --- .github/workflows/CI.yml | 43 +- .pre-commit-config.yaml | 29 +- .readthedocs.yaml | 23 +- Makefile | 11 + docs/how-to-guides.md | 9 - docs/reference/contributing.md | 20 +- pyproject.toml | 6 +- uv.lock | 2819 ++++++++++++++++++++++++++++++++ 8 files changed, 2883 insertions(+), 77 deletions(-) create mode 100644 uv.lock diff --git a/.github/workflows/CI.yml b/.github/workflows/CI.yml index 16b73482..1954dd77 100644 --- a/.github/workflows/CI.yml +++ b/.github/workflows/CI.yml @@ -25,56 +25,69 @@ jobs: - "3.10" steps: - uses: actions/checkout@v4 + - uses: astral-sh/setup-uv@v3 + with: + enable-cache: true - uses: dtolnay/rust-toolchain@1.79.0 - uses: Swatinem/rust-cache@v2 - name: Setup python ${{ matrix.py }} uses: actions/setup-python@v5 with: python-version: ${{ matrix.py }} - cache: "pip" - - run: pip install -e .[test] - - run: pytest --benchmark-disable -vvv + - run: uv sync --extra test + - run: uv run pytest --benchmark-disable -vvv + - run: uv cache prune --ci mypy: runs-on: ubuntu-latest steps: - uses: actions/checkout@v4 + - uses: astral-sh/setup-uv@v3 + with: + enable-cache: true - uses: dtolnay/rust-toolchain@1.79.0 - uses: Swatinem/rust-cache@v2 - uses: actions/setup-python@v5 with: + # Run on oldest Python version to catch more errors python-version: "3.10" - cache: "pip" - - run: pip install -e .[test] mypy pre-commit - - run: pre-commit run --hook-stage manual --all-files mypy - - run: pre-commit run --hook-stage manual --all-files stubtest + - run: uv sync --extra test + - run: make mypy + - run: make stubtest + - run: uv cache prune --ci + benchmark: runs-on: ubuntu-latest steps: - uses: actions/checkout@v4 + - uses: astral-sh/setup-uv@v3 + with: + enable-cache: true - uses: dtolnay/rust-toolchain@1.79.0 - uses: Swatinem/rust-cache@v2 - uses: actions/setup-python@v5 with: - python-version: "3.12" - cache: "pip" - - run: pip install -e .[test] + python-version-file: ".python-version" + - run: uv sync --extra test - uses: CodSpeedHQ/action@v3 with: token: ${{ secrets.CODSPEED_TOKEN }} - run: pytest -vvv -n auto + run: uv run pytest -vvv -n auto + - run: uv cache prune --ci + docs: runs-on: ubuntu-latest steps: - uses: actions/checkout@v4 + - uses: astral-sh/setup-uv@v3 - uses: dtolnay/rust-toolchain@1.79.0 - uses: Swatinem/rust-cache@v2 - uses: actions/setup-python@v5 with: - python-version: "3.10" - cache: "pip" + python-version-file: ".python-version" - name: Install graphviz run: | sudo apt-get update sudo apt-get install -y graphviz - - run: pip install -e .[docs] pre-commit - - run: pre-commit run --hook-stage manual --all-files docs + - run: uv sync --extra docs + - run: make docs + - run: uv cache prune --ci diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index d5bd35b5..d5e38d7d 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -10,30 +10,7 @@ repos: - id: ruff args: [--fix, --exit-non-zero-on-fix] - id: ruff-format - - repo: local + - repo: https://github.com/astral-sh/uv-pre-commit + rev: 0.4.25 hooks: - - id: mypy - name: mypy - entry: dmypy run -- python/ - language: system - require_serial: true - pass_filenames: false - stages: [manual] - - repo: local - hooks: - - id: stubtest - name: stubtest - entry: python -m mypy.stubtest egglog.bindings --allowlist stubtest_allow - language: system - pass_filenames: false - require_serial: true - stages: [manual] - - repo: local - hooks: - - id: docs - name: docs - entry: sphinx-build -T -b html docs docs/_build/html - language: system - pass_filenames: false - require_serial: true - stages: [manual] + - id: uv-lock diff --git a/.readthedocs.yaml b/.readthedocs.yaml index 28591fa3..3212c061 100644 --- a/.readthedocs.yaml +++ b/.readthedocs.yaml @@ -12,24 +12,17 @@ build: python: "3.12" # # You can also specify other tool versions: # # nodejs: "16" - rust: "1.70" + rust: "1.78" # golang: "1.17" apt_packages: - graphviz + commands: + - asdf plugin add uv + - asdf install uv latest + - asdf global uv latest + - uv sync --extra docs --frozen + - uv run -m sphinx -T -b html -d docs/_build/doctrees -D language=en docs $READTHEDOCS_OUTPUT/html + # Build documentation in the docs/ directory with Sphinx sphinx: configuration: docs/conf.py - -# If using Sphinx, optionally build your docs in additional formats such as PDF -# formats: -# - pdf - -# Optionally declare the Python requirements required to build your docs -python: - install: - - method: pip - path: . - extra_requirements: - - docs -# conda: -# environment: docs/environment.yml diff --git a/Makefile b/Makefile index 3429ee72..0462987c 100644 --- a/Makefile +++ b/Makefile @@ -26,3 +26,14 @@ clean: from-local: cp ../egraph-visualizer/dist/index.js python/egglog/visualizer.js cp ../egraph-visualizer/dist/style.css python/egglog/visualizer.css + +# remove once https://github.com/astral-sh/uv/issues/5903 + +mypy: + uv run dmypy run -- python/ + +stubtest: + uv run python -m mypy.stubtest egglog.bindings --allowlist stubtest_allow + +docs: + uv run sphinx-build -T -b html docs docs/_build/html diff --git a/docs/how-to-guides.md b/docs/how-to-guides.md index 87d5c308..9f237ff9 100644 --- a/docs/how-to-guides.md +++ b/docs/how-to-guides.md @@ -19,12 +19,3 @@ commands ```{code-cell} egraph.run_program(*commands) ``` - -## Developing this package - -To get started developing on this package: - -1. Create a Python environment to develop on, either with virtualenv or conda. -2. Install this package in editable mode: `pip install -e .[dev,test]` -3. Run the tests: `pytest` -4. Run the pre-commit hooks: `pre-commit run --all-files` diff --git a/docs/reference/contributing.md b/docs/reference/contributing.md index cf4617ae..2848053b 100644 --- a/docs/reference/contributing.md +++ b/docs/reference/contributing.md @@ -20,22 +20,20 @@ gh repo fork egraphs-good/egglog-python --clone cd egglog-python ``` -Then [install Rust](https://www.rust-lang.org/tools/install) and get a Python environment set up with a compatible version. Using [miniconda](https://formulae.brew.sh/cask/miniconda) this would be: +Then [install Rust](https://www.rust-lang.org/tools/install) and get a Python environment set up with a compatible version. Using [uv](https://docs.astral.sh/uv/getting-started/installation/) this would be: ```bash curl --proto '=https' --tlsv1.2 -sSf https://sh.rustup.rs | sh -brew install --cask miniconda -conda create -n egglog-python python -conda activate egglog-python +curl -LsSf https://astral.sh/uv/install.sh | sh ``` Then install the package in editable mode with the development dependencies: ```bash -maturin develop -E dev,docs,test,array +uv sync --all-extras ``` -Anytime you change the rust code, you can run `maturin develop` to recompile the rust code. +Anytime you change the rust code, you can run `uv sync` to recompile the rust code. If you would like to download a new version of the visualizer source, run `make clean; make`. This will download the most recent released version from the github actions artifact in the [egraph-visualizer](https://github.com/egraphs-good/egraph-visualizer) repo. It is checked in because it's a pain to get cargo to include only one git ignored file while ignoring the rest of the files that were ignored. @@ -45,7 +43,7 @@ the most recent released version from the github actions artifact in the [egraph To run the tests, you can use the `pytest` command: ```bash -pytest +uv run pytest ``` All code must pass ruff linters and formaters. This will be checked automatically by the pre-commit if you run `pre-commit install`. @@ -53,25 +51,25 @@ All code must pass ruff linters and formaters. This will be checked automaticall To run it manually, you can use: ```bash -pre-commit run --all-files ruff +uv run pre-commit run --all-files ruff ``` If you make changes to the rust bindings, you can check that the stub files accurately reflect the rust code by running: ```bash -pre-commit run --all-files --hook-stage manual stubtest +make stubtest ``` All code must all pass MyPy type checking. To run that locally use: ```bash -pre-commit run --all-files --hook-stage manual mypy +make mypy ``` Finally, to build the docs locally and test that they work, you can run: ```bash -pre-commit run --all-files --hook-stage manual docs +make docs ``` ## Making changes diff --git a/pyproject.toml b/pyproject.toml index 0cf7db30..69955f70 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -35,7 +35,7 @@ array = [ "numba==0.59.1", "llvmlite==0.42.0", ] -dev = ["pre-commit", "ruff", "mypy", "anywidget[dev]", "egglog[docs,test]"] +dev = ["ruff", "pre-commit", "mypy", "anywidget[dev]", "egglog[docs,test]"] test = [ "pytest", @@ -62,6 +62,7 @@ docs = [ "ablog", ] + [tool.ruff.lint] ignore = [ # Allow uppercase vars @@ -243,3 +244,6 @@ exclude_also = [ "@(abc\\.)?abstractmethod", "assert_never\\(", ] + +[tool.uv.workspace] +members = ["egglog"] diff --git a/uv.lock b/uv.lock new file mode 100644 index 00000000..7c99793c --- /dev/null +++ b/uv.lock @@ -0,0 +1,2819 @@ +version = 1 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-0400 Subject: [PATCH 3/9] Try fixing pre-commit again --- .pre-commit-config.yaml | 2 -- 1 file changed, 2 deletions(-) diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index c16e2f70..19180d7c 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -1,6 +1,4 @@ exclude: ^python/tests/__snapshots__/ -default_language_version: - python: python3.12 repos: - repo: https://github.com/astral-sh/ruff-pre-commit rev: v0.7.0 From 69fe30559c124411ad5e0660b4b3bf4f011197d9 Mon Sep 17 00:00:00 2001 From: Saul Shanabrook Date: Wed, 23 Oct 2024 19:28:55 -0400 Subject: [PATCH 4/9] Check if lockfile is correct in actions not pre commit --- .github/workflows/CI.yml | 8 ++++---- .pre-commit-config.yaml | 4 ---- 2 files changed, 4 insertions(+), 8 deletions(-) diff --git a/.github/workflows/CI.yml b/.github/workflows/CI.yml index 1954dd77..f214ec1b 100644 --- a/.github/workflows/CI.yml +++ b/.github/workflows/CI.yml @@ -34,7 +34,7 @@ jobs: uses: actions/setup-python@v5 with: python-version: ${{ matrix.py }} - - run: uv sync --extra test + - run: uv sync --extra test --frozen --locked - run: uv run pytest --benchmark-disable -vvv - run: uv cache prune --ci mypy: @@ -50,7 +50,7 @@ jobs: with: # Run on oldest Python version to catch more errors python-version: "3.10" - - run: uv sync --extra test + - run: uv sync --extra test --frozen --locked - run: make mypy - run: make stubtest - run: uv cache prune --ci @@ -67,7 +67,7 @@ jobs: - uses: actions/setup-python@v5 with: python-version-file: ".python-version" - - run: uv sync --extra test + - run: uv sync --extra test --frozen --locked - uses: CodSpeedHQ/action@v3 with: token: ${{ secrets.CODSPEED_TOKEN }} @@ -88,6 +88,6 @@ jobs: run: | sudo apt-get update sudo apt-get install -y graphviz - - run: uv sync --extra docs + - run: uv sync --extra docs --frozen --locked - run: make docs - run: uv cache prune --ci diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 19180d7c..750b81b2 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -6,7 +6,3 @@ repos: - id: ruff args: [--fix, --exit-non-zero-on-fix] - id: ruff-format - - repo: https://github.com/astral-sh/uv-pre-commit - rev: 0.4.25 - hooks: - - id: uv-lock From 502a40aead9b2c6843e61cdc9b51073a6685b551 Mon Sep 17 00:00:00 2001 From: Saul Shanabrook Date: Wed, 23 Oct 2024 19:29:58 -0400 Subject: [PATCH 5/9] Enable cache with docs --- .github/workflows/CI.yml | 2 ++ 1 file changed, 2 insertions(+) diff --git a/.github/workflows/CI.yml b/.github/workflows/CI.yml index f214ec1b..ca7a86c1 100644 --- a/.github/workflows/CI.yml +++ b/.github/workflows/CI.yml @@ -79,6 +79,8 @@ jobs: steps: - uses: actions/checkout@v4 - uses: astral-sh/setup-uv@v3 + with: + enable-cache: true - uses: dtolnay/rust-toolchain@1.79.0 - uses: Swatinem/rust-cache@v2 - uses: actions/setup-python@v5 From c16c6128edc9b216fb7778015b1b8930989ab7f4 Mon Sep 17 00:00:00 2001 From: Saul Shanabrook Date: Wed, 23 Oct 2024 19:30:36 -0400 Subject: [PATCH 6/9] Commit python version --- .gitignore | 1 - .python-version | 1 + 2 files changed, 1 insertion(+), 1 deletion(-) create mode 100644 .python-version diff --git a/.gitignore b/.gitignore index 8f6f4cbc..94e71e19 100644 --- a/.gitignore +++ b/.gitignore @@ -69,7 +69,6 @@ docs/_build/ .vscode/ # Pyenv -.python-version TODO *.code-workspace diff --git a/.python-version b/.python-version new file mode 100644 index 00000000..e4fba218 --- /dev/null +++ b/.python-version @@ -0,0 +1 @@ +3.12 From 19276a4beea8ea146688764720d1a32cb849f82f Mon Sep 17 00:00:00 2001 From: Saul Shanabrook Date: Wed, 23 Oct 2024 19:31:30 -0400 Subject: [PATCH 7/9] just. locked --- .github/workflows/CI.yml | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/.github/workflows/CI.yml b/.github/workflows/CI.yml index ca7a86c1..c148c9ac 100644 --- a/.github/workflows/CI.yml +++ b/.github/workflows/CI.yml @@ -34,7 +34,7 @@ jobs: uses: actions/setup-python@v5 with: python-version: ${{ matrix.py }} - - run: uv sync --extra test --frozen --locked + - run: uv sync --extra test --locked - run: uv run pytest --benchmark-disable -vvv - run: uv cache prune --ci mypy: @@ -50,7 +50,7 @@ jobs: with: # Run on oldest Python version to catch more errors python-version: "3.10" - - run: uv sync --extra test --frozen --locked + - run: uv sync --extra test --locked - run: make mypy - run: make stubtest - run: uv cache prune --ci @@ -67,7 +67,7 @@ jobs: - uses: actions/setup-python@v5 with: python-version-file: ".python-version" - - run: uv sync --extra test --frozen --locked + - run: uv sync --extra test --locked - uses: CodSpeedHQ/action@v3 with: token: ${{ secrets.CODSPEED_TOKEN }} @@ -90,6 +90,6 @@ jobs: run: | sudo apt-get update sudo apt-get install -y graphviz - - run: uv sync --extra docs --frozen --locked + - run: uv sync --extra docs --locked - run: make docs - run: uv cache prune --ci From 83ea6b7b107c9437ebe51dcbe83b5c52f3f505e2 Mon Sep 17 00:00:00 2001 From: Saul Shanabrook Date: Wed, 23 Oct 2024 19:34:18 -0400 Subject: [PATCH 8/9] Add phony to makefile --- Makefile | 1 + 1 file changed, 1 insertion(+) diff --git a/Makefile b/Makefile index 0462987c..42ac1bc3 100644 --- a/Makefile +++ b/Makefile @@ -1,3 +1,4 @@ +.PHONY: all clean from-local mypy stubtest docs all: python/egglog/visualizer.js From 3d92a94f0de069afe879e544b9c6a82659e6d798 Mon Sep 17 00:00:00 2001 From: Saul Shanabrook Date: Wed, 23 Oct 2024 19:37:57 -0400 Subject: [PATCH 9/9] Try not pruning cache --- .github/workflows/CI.yml | 4 ---- 1 file changed, 4 deletions(-) diff --git a/.github/workflows/CI.yml b/.github/workflows/CI.yml index c148c9ac..f3f1fd74 100644 --- a/.github/workflows/CI.yml +++ b/.github/workflows/CI.yml @@ -36,7 +36,6 @@ jobs: python-version: ${{ matrix.py }} - run: uv sync --extra test --locked - run: uv run pytest --benchmark-disable -vvv - - run: uv cache prune --ci mypy: runs-on: ubuntu-latest steps: @@ -53,7 +52,6 @@ jobs: - run: uv sync --extra test --locked - run: make mypy - run: make stubtest - - run: uv cache prune --ci benchmark: runs-on: ubuntu-latest @@ -72,7 +70,6 @@ jobs: with: token: ${{ secrets.CODSPEED_TOKEN }} run: uv run pytest -vvv -n auto - - run: uv cache prune --ci docs: runs-on: ubuntu-latest @@ -92,4 +89,3 @@ jobs: sudo apt-get install -y graphviz - run: uv sync --extra docs --locked - run: make docs - - run: uv cache prune --ci