From bb1d2172962dd0bb6b959ab9e1b0553eacdf1b31 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Thu, 4 Jul 2024 19:08:01 +0000 Subject: [PATCH 01/24] Switch from pdm to poetry Signed-off-by: Fabrice Normandin --- .devcontainer/devcontainer.json | 35 +- .github/workflows/build.yml | 18 +- .github/workflows/docs.yml | 7 +- .pre-commit-config.yaml | 6 +- poetry.lock | 4058 +++++++++++++++++++++++++++++++ poetry.toml | 3 + pyproject.toml | 127 +- 7 files changed, 4149 insertions(+), 105 deletions(-) create mode 100644 poetry.lock create mode 100644 poetry.toml diff --git a/.devcontainer/devcontainer.json b/.devcontainer/devcontainer.json index 358276b0..27f6080b 100644 --- a/.devcontainer/devcontainer.json +++ b/.devcontainer/devcontainer.json @@ -6,7 +6,7 @@ "image": "mcr.microsoft.com/devcontainers/python:1-3.12-bullseye", // Features to add to the dev container. More info: https://containers.dev/features. "features": { - "ghcr.io/devcontainers-contrib/features/pdm:2": {}, + "ghcr.io/devcontainers-contrib/features/poetry:2": {"version": "1.8.3"}, "ghcr.io/devcontainers-contrib/features/pre-commit:2": {}, "ghcr.io/devcontainers-contrib/features/apt-get-packages": { "packages": "vim" @@ -65,22 +65,26 @@ }, "mounts": [ // https://code.visualstudio.com/remote/advancedcontainers/add-local-file-mount - // Mount a directory which will contain the pdm installation cache (shared with the host machine). - // This will use $SCRATCH/.cache/pdm, otherwise + // Mount a directory which will contain the poetry installation cache (shared with the host machine). // Mount a "$SCRATCH" directory in the host to ~/scratch in the container. "source=${localEnv:SCRATCH},target=/home/vscode/scratch,type=bind,consistency=cached", - "source=${localEnv:SCRATCH}/.cache/pdm,target=/home/vscode/.pdm_install_cache,type=bind,consistency=cached", + // NOTE: Mounting the hosts's ~/.cache/pypoetry dir to ~/.poetry_cache in the container because + // it causes issues to try to map it to ~/.cache/pypoetry directly (since ~/.cache doesn't + // exist initially, it seems to cause some permission issues?). Later below we + // `mkdir -p ~/.cache` and make a symlink to from ~/.cache/pypoetry to ~/.poetry_cache. + "source=${localEnv:SCRATCH}/.cache/pypoetry,target=/home/vscode/.poetry_cache,type=bind,consistency=cached", // Mount a /network to match the /network directory on the host. // FIXME: This assumes that either the NETWORK_DIR environment variable is set on the host, or // that the /network directory exists. "source=${localEnv:NETWORK_DIR:/network},target=/network,type=bind,readonly", // Mount $SLURM_TMPDIR on the host machine to /tmp/slurm_tmpdir in the container. // note: there's also a SLURM_TMPDIR env variable set to /tmp/slurm_tmpdir in the container. - // NOTE: this assumes that either $SLURM_TMPDIR is set on the host machine (e.g. a compute node) + // This assumes that either $SLURM_TMPDIR is set on the host machine (e.g. a compute node) // or that `/tmp/slurm_tmpdir` exists on the host machine. "source=${localEnv:SLURM_TMPDIR:/tmp/slurm_tmpdir},target=/tmp,type=bind,consistency=cached", // Mount the ssh directory on the host machine to the container. "source=${localEnv:HOME}/.ssh,target=/home/vscode/.ssh,type=bind,readonly" + ], "runArgs": [ "--gpus", @@ -90,28 +94,29 @@ // create the pdm cache dir on the host machine if it doesn exist yet so the mount above // doesn't fail. "initializeCommand": { - "create pdm install cache": "mkdir -p ${SCRATCH?need the SCRATCH environment variable to be set.}/.cache/pdm", // todo: put this on $SCRATCH on the host (e.g. compute node) + "create the poetry install cache dir if needed": "mkdir -p ${SCRATCH?need the SCRATCH environment variable to be set.}/.cache/pypoetry", // todo: put this on $SCRATCH on the host (e.g. compute node) + // Create the dirs so the mount above doesn't fail. + // Note: here we use /tmp/slurm_tmpdir if $SLURM_TMPDIR is not set. This is fine for Mila compute nodes. "create fake SLURM_TMPDIR": "mkdir -p ${SLURM_TMPDIR:-/tmp/slurm_tmpdir}", // this is fine on compute nodes + // Create the ssh cache dir where ssh multiplexing sockets will be placed (to reuse connections). "create ssh cache dir": "mkdir -p ~/.cache/ssh" }, - // NOTE: Getting some permission issues with the .cache dir if mounting .cache/pdm to - // .cache/pdm in the container. Therefore, here I'm making a symlink from ~/.cache/pdm to - // ~/.pdm_install_cache so the ~/.cache directory is writeable by the container. + // NOTE: Getting some permission issues with the .cache dir if mounting .cache/pypoetry to + // .cache/pypoetry in the container. Therefore, here I'm making a symlink from ~/.cache/pypoetry to + // ~/.poetry_cache so the ~/.cache directory is writeable by the container. "onCreateCommand": { - "setup_pdm_install_cache": "mkdir -p ~/.cache && ln -s /home/vscode/.pdm_install_cache /home/vscode/.cache/pdm", + "setup_pdm_install_cache": "mkdir -p ~/.cache && ln -s /home/vscode/.poetry_install_cache /home/vscode/.cache/pypoetry", "pre-commit": "pre-commit install --install-hooks", - "setup_pdm_config": "pdm config install.cache true && pdm config venv.with_pip true && pdm config venv.in_project false" + "setup_pdm_config": "poetry config cache-dir /home/vscode/.poetry_cache && poetry config virtualenvs.in-project false " }, "updateContentCommand": { - "pdm_install": "pdm install" + "pdm_install": "poetry install" }, // Use 'postCreateCommand' to run commands after the container is created. // "postCreateCommand": "pip3 install --user -r requirements.txt", "postCreateCommand": { - // NOTE: This sets up the python interpreter correctly, but the shell doesn't show the - // environment name, which isn't a big deal. - "setup_venv_shell": "pdm venv activate >> ~/.bash_aliases && chmod +x ~/.bash_aliases", + "setup_venv_shell": "echo \"source `poetry env info --path`/bin/activate\" >> ~/.bash_aliases && chmod +x ~/.bash_aliases", // "pdm-pep-582": "pdm --pep582 >> ~/.bash_profile", // "pdm": "pdm config install.cache false && pdm config venv.in_project false && pdm install", // "pre-commit": "pre-commit install --install-hooks" diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml index cd76d79b..bbe51482 100644 --- a/.github/workflows/build.yml +++ b/.github/workflows/build.yml @@ -48,17 +48,18 @@ jobs: uses: actions/setup-python@v5 with: python-version: ${{ matrix.python-version }} - - run: pip install pdm + cache: poetry + - run: pip install poetry - name: Install dependencies - run: pdm install + run: poetry install - name: Test with pytest (very fast) env: JAX_PLATFORMS: cpu - run: pdm run pytest -v --shorter-than=1.0 --cov=project --cov-report=xml --cov-append + run: poetry run pytest -v --shorter-than=1.0 --cov=project --cov-report=xml --cov-append - name: Test with pytest (fast) env: JAX_PLATFORMS: cpu - run: pdm run pytest -v --cov=project --cov-report=xml --cov-append + run: poetry run pytest -v --cov=project --cov-report=xml --cov-append - name: Store coverage report as an artifact uses: actions/upload-artifact@v4 @@ -79,12 +80,15 @@ jobs: uses: actions/setup-python@v5 with: python-version: ${{ matrix.python-version }} - - run: pip install pdm + cache: poetry + - name: Install poetry + run: pip install poetry - name: Install dependencies - run: pdm config install.cache true && pdm install + run: poetry install - name: Test with pytest - run: pdm run pytest -v --cov=project --cov-report=xml --cov-append + shell: poetry run + run: pytest -v --cov=project --cov-report=xml --cov-append # TODO: this is taking too long to run, and is failing consistently. Need to debug this before making it part of the CI again. # - name: Test with pytest (only slow tests) diff --git a/.github/workflows/docs.yml b/.github/workflows/docs.yml index f954e84e..476acfb6 100644 --- a/.github/workflows/docs.yml +++ b/.github/workflows/docs.yml @@ -11,14 +11,15 @@ jobs: steps: - name: Checkout uses: actions/checkout@v4 + - name: Install poetry + run: pip install poetry - name: Set up Python 3.12 uses: actions/setup-python@v5 with: python-version: 3.12 - - name: Install pdm - run: pip install pdm + cache: poetry - name: Install dependencies - run: pdm install + run: poetry install - name: Deploy docs run: mkdocs gh-deploy --force diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 03f67b11..50cb80f4 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -63,10 +63,10 @@ repos: require_serial: true # Dependency management - - repo: https://github.com/pdm-project/pdm - rev: 2.12.4 + - repo: https://github.com/python-poetry/poetry + 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+doc = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-lint"] +test = ["big-O", "importlib-resources", "jaraco.functools", "jaraco.itertools", "jaraco.test", "more-itertools", "pytest (>=6,!=8.1.*)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=2.2)", "pytest-ignore-flaky", "pytest-mypy", "pytest-ruff (>=0.2.1)"] + +[metadata] +lock-version = "2.0" +python-versions = "^3.12" +content-hash = "d95aca706d9c7a69a3fa5a1dad87570134f882b2d64ae6503909a8b116eaf29e" diff --git a/poetry.toml b/poetry.toml new file mode 100644 index 00000000..13648c21 --- /dev/null +++ b/poetry.toml @@ -0,0 +1,3 @@ +cache-dir = "/home/vscode/.poetry_cache" +[virtualenvs] +in-project = false diff --git a/pyproject.toml b/pyproject.toml index bc90bb48..e9e5f8ac 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,88 +1,61 @@ -[project] +[tool.poetry] name = "research_project_template" version = "0.0.1" description = "Research Project Template" -authors = [ - {name = "Fabrice Normandin", email = "normandf@mila.quebec"}, -] -dependencies = [ - "torch>=2.2.1", - "torchvision>=0.17.1", - "hydra-core>=1.3.2", - "rich>=13.7.1", - "tqdm>=4.66.2", - "hydra-zen>=0.12.1", - "gym==0.26.2", - "lightning>=2.3.0", - "gdown>=5.1.0", - "hydra-submitit-launcher>=1.2.0", - "wandb>=0.16.4", - "hydra-colorlog>=1.2.0", - "matplotlib>=3.8.3", - "moviepy>=1.0.3", - "pygame==2.5.2", - "jax[cuda12]>=0.4.28", - "brax>=0.10.3", - "tensorboard>=2.16.2", - "gymnax>=0.0.8", - "torch-jax-interop>=0.0.6", - "tensor-regression>=0.0.4", - "simple-parsing>=0.1.5", - "pydantic==2.7.4", - "milatools>=0.0.18", -] -requires-python = ">=3.12" +authors = ["Fabrice Normandin "] readme = "README.md" -license = {text = "MIT"} +license = "MIT" -[project.scripts] +[tool.poetry.dependencies] +python = "^3.12" +torch = "^2.3.1" +torchvision = "^0.18.1" +hydra-core = "^1.3.2" +rich = "^13.7.1" +tqdm = "^4.66.4" +hydra-zen = "^0.13.0" +lightning = "^2.3.2" +gdown = "^5.2.0" +hydra-submitit-launcher = "^1.2.0" +wandb = "^0.17.4" +hydra-colorlog = "^1.2.0" +matplotlib = "^3.9.1" +jax = {version = ">=0.4.28", extras = ["cuda12"]} +tensorboard = "^2.17.0" +torch-jax-interop = "^0.0.6" +tensor-regression = "^0.0.4" +pydantic = "^2.8.2" + +[tool.poetry.scripts] +# TODO: Add a script that opens the project remotely with mila code? project = "project:main.main" +[tool.poetry.group.dev.dependencies] +pytest = "^8.2.2" +pytest-timeout = "^2.3.1" +pytest-regressions = "^2.5.0" +pytest-skip-slow = "^0.0.5" +pytest-env = "^1.1.3" +pytest-xdist = "^3.6.1" +ruff = "^0.5.0" +pytest-benchmark = "^4.0.0" +pytest-cov = "^5.0.0" +tensor-regression = "^0.0.4" +pytest-testmon = "^2.1.1" +mkdocs = "^1.6.0" +pymdown-extensions = "^10.8.1" +mkdocstrings = {extras = ["python"], version = "^0.25.1"} +mkdocs-gen-files = "^0.5.0" +black = "^24.4.2" +mkdocs-awesome-pages-plugin = "^2.9.2" +mkdocs-literate-nav = "^0.6.1" +mkdocs-material = "^9.5.28" + [tool.setuptools] packages = ["project"] -[tool.pdm] -distribution = true - -[tool.pdm.dev-dependencies] -dev = [ - "pytest>=8.1.1", - "pytest-timeout>=2.3.1", - "pytest-regressions>=2.5.0", - "pytest-skip-slow>=0.0.5", - "pytest-env>=1.1.3", - "pytest-xdist>=3.5.0", - "ruff>=0.3.3", - "pytest-benchmark>=4.0.0", - "pytest-cov>=5.0.0", - "tensor-regression>=0.0.2.post3.dev0", - "pytest-testmon>=2.1.1", - "mkdocs>=1.6.0", - "pymdown-extensions>=10.8.1", - "mkdocstrings[python]>=0.25.1", - "mkdocs-gen-files>=0.5.0", - "black>=24.4.2", - "mkdocs-awesome-pages-plugin>=2.9.2", - "mkdocs-literate-nav>=0.6.1", - "mkdocs-material>=9.5.28", -] - -[[tool.pdm.source]] -name = "jax" -url = "https://storage.googleapis.com/jax-releases/jax_cuda_releases.html" -verify_ssl = true -type = "find_links" +[tool.poetry-dynamic-versioning] +enable = true [build-system] -requires = ["setuptools>=61", "wheel"] -build-backend = "setuptools.build_meta" - -[tool.pytest.ini_options] -testpaths = ["project"] -# todo: look into using https://github.com/scientific-python/pytest-doctestplus -addopts = ["--doctest-modules", "--stats-rounding-precision=3"] - -[tool.ruff] -line-length = 99 -indent-width = 4 -# Add the pyupgrade and isort options in addition to the defaults. -lint.select = ["E4", "E7", "E9", "F", "I", "UP"] +requires = ["poetry-core>=1.0.0", "poetry-dynamic-versioning>=1.0.0,<2.0.0"] +build-backend = "poetry_dynamic_versioning.backend" From 6439fd03d05d756ccbc33b6ae4f21389b0b5f266 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Thu, 4 Jul 2024 19:43:27 +0000 Subject: [PATCH 02/24] Fix `poetry install` issues Signed-off-by: Fabrice Normandin --- poetry.lock | 18 +----------------- pyproject.toml | 10 +++++----- 2 files changed, 6 insertions(+), 22 deletions(-) diff --git a/poetry.lock b/poetry.lock index 53e8fa91..ec77514e 100644 --- a/poetry.lock +++ b/poetry.lock @@ -3539,22 +3539,6 @@ files = [ {file = "tbb-2021.13.0-py3-none-win_amd64.whl", hash = "sha256:3528a53e4bbe64b07a6112b4c5a00ff3c61924ee46c9c68e004a1ac7ad1f09c3"}, ] -[[package]] -name = "tensor-regression" -version = "0.0.4" -description = "A small wrapper around pytest_regressions for Tensors" -optional = false -python-versions = "<4.0,>=3.10" -files = [ - {file = "tensor_regression-0.0.4-py3-none-any.whl", hash = "sha256:a638b11b6cc2e2f2543fc939cd4729917588894842e661c7b5e431c2cbde146f"}, - {file = "tensor_regression-0.0.4.tar.gz", hash = "sha256:fc0a3d754e0a6f20b5764e371fefde7aae013374a0bab9887082e719f478c89c"}, -] - -[package.dependencies] -numpy = ">=1.26.4,<2.0.0" -pytest-regressions = ">=2.5.0,<3.0.0" -torch = ">=2.0.0,<3.0.0" - [[package]] name = "tensorboard" version = "2.17.0" @@ -4055,4 +4039,4 @@ test = ["big-O", "importlib-resources", "jaraco.functools", "jaraco.itertools", [metadata] lock-version = "2.0" python-versions = "^3.12" -content-hash = "d95aca706d9c7a69a3fa5a1dad87570134f882b2d64ae6503909a8b116eaf29e" +content-hash = "3061fc1c4210daf3ab74dea8a2fe2a19059ace92e17ba84d8a42188cef0c5a9a" diff --git a/pyproject.toml b/pyproject.toml index e9e5f8ac..e2506dab 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -5,6 +5,10 @@ description = "Research Project Template" authors = ["Fabrice Normandin "] readme = "README.md" license = "MIT" +documentation = "https://mila-iqia.github.io/ResearchTemplate/" +packages = [ + {include = "project", from = "."}, +] [tool.poetry.dependencies] python = "^3.12" @@ -23,7 +27,6 @@ matplotlib = "^3.9.1" jax = {version = ">=0.4.28", extras = ["cuda12"]} tensorboard = "^2.17.0" torch-jax-interop = "^0.0.6" -tensor-regression = "^0.0.4" pydantic = "^2.8.2" [tool.poetry.scripts] @@ -40,7 +43,6 @@ pytest-xdist = "^3.6.1" ruff = "^0.5.0" pytest-benchmark = "^4.0.0" pytest-cov = "^5.0.0" -tensor-regression = "^0.0.4" pytest-testmon = "^2.1.1" mkdocs = "^1.6.0" pymdown-extensions = "^10.8.1" @@ -51,11 +53,9 @@ mkdocs-awesome-pages-plugin = "^2.9.2" mkdocs-literate-nav = "^0.6.1" mkdocs-material = "^9.5.28" -[tool.setuptools] -packages = ["project"] - [tool.poetry-dynamic-versioning] enable = true + [build-system] requires = ["poetry-core>=1.0.0", "poetry-dynamic-versioning>=1.0.0,<2.0.0"] build-backend = "poetry_dynamic_versioning.backend" From c071b2ec08eb5ef4bcc4b02408c4ce60925d5924 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Thu, 4 Jul 2024 19:45:48 +0000 Subject: [PATCH 03/24] Update installation instructions Signed-off-by: Fabrice Normandin --- .gitignore | 1 - docs/getting_started/install.md | 6 +++--- 2 files changed, 3 insertions(+), 4 deletions(-) diff --git a/.gitignore b/.gitignore index a9d16bb7..45b6a1a1 100644 --- a/.gitignore +++ b/.gitignore @@ -162,7 +162,6 @@ cython_debug/ #.idea/ # ADDED: .vscode -.pdm-python wandb logs lightning_logs diff --git a/docs/getting_started/install.md b/docs/getting_started/install.md index 2384c9ff..094fd4a9 100644 --- a/docs/getting_started/install.md +++ b/docs/getting_started/install.md @@ -40,11 +40,11 @@ You need to have [Conda](https://docs.conda.io/en/latest/) installed on your mac pip install -e . ``` - Optionally, you can also install the package using [PDM](https://pdm-project.org/en/latest/). This makes it easier to add or change the dependencies later on: + Optionally, you can also install the package using [Poetry](https://python-poetry.org/). This makes it easier to add or change the package dependencies later on: ```bash - pip install pdm - pdm install + pip install poetry + poetry install ``` ## Using a development container From 0136c9a10c90328dc286f5ba5ff53c7bf5258554 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Thu, 4 Jul 2024 19:56:06 +0000 Subject: [PATCH 04/24] Simplify / rename stuff in the devcontainer.json Signed-off-by: Fabrice Normandin --- .devcontainer/devcontainer.json | 16 +++++----------- 1 file changed, 5 insertions(+), 11 deletions(-) diff --git a/.devcontainer/devcontainer.json b/.devcontainer/devcontainer.json index 27f6080b..a6d2daee 100644 --- a/.devcontainer/devcontainer.json +++ b/.devcontainer/devcontainer.json @@ -52,9 +52,9 @@ "ms-python.vscode-pylance", "charliermarsh.ruff", "GitHub.copilot", - "knowsuchagency.pdm-task-provider", "GitHub.copilot-chat", - "mutantdino.resourcemonitor" + "mutantdino.resourcemonitor", + "tamasfe.even-better-toml" ] } }, @@ -105,22 +105,16 @@ // .cache/pypoetry in the container. Therefore, here I'm making a symlink from ~/.cache/pypoetry to // ~/.poetry_cache so the ~/.cache directory is writeable by the container. "onCreateCommand": { - "setup_pdm_install_cache": "mkdir -p ~/.cache && ln -s /home/vscode/.poetry_install_cache /home/vscode/.cache/pypoetry", - "pre-commit": "pre-commit install --install-hooks", - "setup_pdm_config": "poetry config cache-dir /home/vscode/.poetry_cache && poetry config virtualenvs.in-project false " + "Setup the poetry install cache": "mkdir -p ~/.cache && ln -s /home/vscode/.poetry_install_cache /home/vscode/.cache/pypoetry", + "Install pre-commit hooks": "pre-commit install --install-hooks" }, "updateContentCommand": { "pdm_install": "poetry install" }, // Use 'postCreateCommand' to run commands after the container is created. - // "postCreateCommand": "pip3 install --user -r requirements.txt", "postCreateCommand": { - "setup_venv_shell": "echo \"source `poetry env info --path`/bin/activate\" >> ~/.bash_aliases && chmod +x ~/.bash_aliases", - // "pdm-pep-582": "pdm --pep582 >> ~/.bash_profile", - // "pdm": "pdm config install.cache false && pdm config venv.in_project false && pdm install", - // "pre-commit": "pre-commit install --install-hooks" - // "activate_venv": "source .venv/bin/activate" + "Setup shell to use the venv": "echo \"source `poetry env info --path`/bin/activate\" >> ~/.bash_aliases && chmod +x ~/.bash_aliases", } // Uncomment to connect as root instead. More info: https://aka.ms/dev-containers-non-root. // "remoteUser": "root" From 41c77db701b3b051f67a1b3b89676d3b7c55c4dc Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Thu, 4 Jul 2024 20:13:00 +0000 Subject: [PATCH 05/24] Install poetry before setup-python for 'cache' Signed-off-by: Fabrice Normandin --- .github/workflows/build.yml | 12 +++++++++++- 1 file changed, 11 insertions(+), 1 deletion(-) diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml index bbe51482..8782c891 100644 --- a/.github/workflows/build.yml +++ b/.github/workflows/build.yml @@ -44,12 +44,17 @@ jobs: python-version: ['3.12'] steps: - uses: actions/checkout@v4 + - name: Install poetry + # needs to be installed for the cache below to be used, which seems a bit weird (since the + # python version might be wrong?) + run: pip install poetry + - name: Set up Python ${{ matrix.python-version }} uses: actions/setup-python@v5 with: python-version: ${{ matrix.python-version }} cache: poetry - - run: pip install poetry + - name: Install dependencies run: poetry install - name: Test with pytest (very fast) @@ -76,6 +81,11 @@ jobs: python-version: ['3.12'] steps: - uses: actions/checkout@v4 + + - name: Install poetry + # See note above. + run: pip install poetry + - name: Set up Python ${{ matrix.python-version }} uses: actions/setup-python@v5 with: From 07680d6512d1f7242d9c058caff95daf712454e9 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Thu, 4 Jul 2024 20:27:00 +0000 Subject: [PATCH 06/24] Remove bad poetry config value from poetry.toml Signed-off-by: Fabrice Normandin --- poetry.toml | 1 - 1 file changed, 1 deletion(-) diff --git a/poetry.toml b/poetry.toml index 13648c21..c0c340ac 100644 --- a/poetry.toml +++ b/poetry.toml @@ -1,3 +1,2 @@ -cache-dir = "/home/vscode/.poetry_cache" [virtualenvs] in-project = false From b6e4a3167737ed272d98cf4a551f33248128b165 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Thu, 4 Jul 2024 20:28:26 +0000 Subject: [PATCH 07/24] Remove the poetry.toml file entirely (for now) Signed-off-by: Fabrice Normandin --- poetry.toml | 2 -- 1 file changed, 2 deletions(-) delete mode 100644 poetry.toml diff --git a/poetry.toml b/poetry.toml deleted file mode 100644 index c0c340ac..00000000 --- a/poetry.toml +++ /dev/null @@ -1,2 +0,0 @@ -[virtualenvs] -in-project = false From 5ada229855d7eb42fbc0da79211ebec68809c46e Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Thu, 4 Jul 2024 21:11:45 +0000 Subject: [PATCH 08/24] Add missing tensor-regression dev dependency Signed-off-by: Fabrice Normandin --- poetry.lock | 18 +++++++++++++++++- pyproject.toml | 1 + 2 files changed, 18 insertions(+), 1 deletion(-) diff --git a/poetry.lock b/poetry.lock index ec77514e..10c29522 100644 --- a/poetry.lock +++ b/poetry.lock @@ -3539,6 +3539,22 @@ files = [ {file = "tbb-2021.13.0-py3-none-win_amd64.whl", hash = "sha256:3528a53e4bbe64b07a6112b4c5a00ff3c61924ee46c9c68e004a1ac7ad1f09c3"}, ] +[[package]] +name = "tensor-regression" +version = "0.0.4" +description = "A small wrapper around pytest_regressions for Tensors" +optional = false +python-versions = "<4.0,>=3.10" +files = [ + {file = "tensor_regression-0.0.4-py3-none-any.whl", hash = "sha256:a638b11b6cc2e2f2543fc939cd4729917588894842e661c7b5e431c2cbde146f"}, + {file = "tensor_regression-0.0.4.tar.gz", hash = "sha256:fc0a3d754e0a6f20b5764e371fefde7aae013374a0bab9887082e719f478c89c"}, +] + +[package.dependencies] +numpy = ">=1.26.4,<2.0.0" +pytest-regressions = ">=2.5.0,<3.0.0" +torch = ">=2.0.0,<3.0.0" + [[package]] name = "tensorboard" version = "2.17.0" @@ -4039,4 +4055,4 @@ test = ["big-O", "importlib-resources", "jaraco.functools", "jaraco.itertools", [metadata] lock-version = "2.0" python-versions = "^3.12" -content-hash = "3061fc1c4210daf3ab74dea8a2fe2a19059ace92e17ba84d8a42188cef0c5a9a" +content-hash = "5f7a79c9aaf80ba241ae9aaf69b46e70b58f927b888bb38f42026598daacf86b" diff --git a/pyproject.toml b/pyproject.toml index e2506dab..18dd82e1 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -52,6 +52,7 @@ black = "^24.4.2" mkdocs-awesome-pages-plugin = "^2.9.2" mkdocs-literate-nav = "^0.6.1" mkdocs-material = "^9.5.28" +tensor-regression = "^0.0.4" [tool.poetry-dynamic-versioning] enable = true From 72a6c0c48c05a60fe2bf106eb4f2e7f490ba392d Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Thu, 4 Jul 2024 23:20:51 +0000 Subject: [PATCH 09/24] Don't try to use `poetry run` as the shell Signed-off-by: Fabrice Normandin --- .github/workflows/build.yml | 3 +-- 1 file changed, 1 insertion(+), 2 deletions(-) diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml index 8782c891..d70f66bf 100644 --- a/.github/workflows/build.yml +++ b/.github/workflows/build.yml @@ -97,8 +97,7 @@ jobs: run: poetry install - name: Test with pytest - shell: poetry run - run: pytest -v --cov=project --cov-report=xml --cov-append + run: poetry run pytest -v --cov=project --cov-report=xml --cov-append # TODO: this is taking too long to run, and is failing consistently. Need to debug this before making it part of the CI again. # - name: Test with pytest (only slow tests) From 1f61ce622c2055ddd849a0ff2434d7df73b5563a Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Fri, 5 Jul 2024 17:02:07 +0000 Subject: [PATCH 10/24] Fix the docs workflow Signed-off-by: Fabrice Normandin --- .github/workflows/docs.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/docs.yml b/.github/workflows/docs.yml index 476acfb6..892e8361 100644 --- a/.github/workflows/docs.yml +++ b/.github/workflows/docs.yml @@ -22,7 +22,7 @@ jobs: run: poetry install - name: Deploy docs - run: mkdocs gh-deploy --force + run: poetry run mkdocs gh-deploy --force # note: Checking if we really need the one below: # uses: mhausenblas/mkdocs-deploy-gh-pages@1.9 # # Or use mhausenblas/mkdocs-deploy-gh-pages@nomaterial to build without the mkdocs-material theme From e1649b34ef258fdee393541b71bb3e711159219c Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Fri, 5 Jul 2024 17:06:57 +0000 Subject: [PATCH 11/24] Fix pre-commit stuff Signed-off-by: Fabrice Normandin --- .devcontainer/devcontainer.json | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/.devcontainer/devcontainer.json b/.devcontainer/devcontainer.json index a6d2daee..d7d27a64 100644 --- a/.devcontainer/devcontainer.json +++ b/.devcontainer/devcontainer.json @@ -84,7 +84,7 @@ "source=${localEnv:SLURM_TMPDIR:/tmp/slurm_tmpdir},target=/tmp,type=bind,consistency=cached", // Mount the ssh directory on the host machine to the container. "source=${localEnv:HOME}/.ssh,target=/home/vscode/.ssh,type=bind,readonly" - + ], "runArgs": [ "--gpus", @@ -96,7 +96,7 @@ "initializeCommand": { "create the poetry install cache dir if needed": "mkdir -p ${SCRATCH?need the SCRATCH environment variable to be set.}/.cache/pypoetry", // todo: put this on $SCRATCH on the host (e.g. compute node) // Create the dirs so the mount above doesn't fail. - // Note: here we use /tmp/slurm_tmpdir if $SLURM_TMPDIR is not set. This is fine for Mila compute nodes. + // Note: here we use /tmp/slurm_tmpdir if $SLURM_TMPDIR is not set. This is fine for Mila compute nodes. "create fake SLURM_TMPDIR": "mkdir -p ${SLURM_TMPDIR:-/tmp/slurm_tmpdir}", // this is fine on compute nodes // Create the ssh cache dir where ssh multiplexing sockets will be placed (to reuse connections). "create ssh cache dir": "mkdir -p ~/.cache/ssh" From 10a2999b8566c8115b8d52611de9d46d980841e3 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Fri, 5 Jul 2024 17:18:29 +0000 Subject: [PATCH 12/24] Add poetry vscode extension and remove pdm.lock Signed-off-by: Fabrice Normandin --- .devcontainer/devcontainer.json | 3 +- pdm.lock | 3600 ------------------------------- 2 files changed, 2 insertions(+), 3601 deletions(-) delete mode 100644 pdm.lock diff --git a/.devcontainer/devcontainer.json b/.devcontainer/devcontainer.json index d7d27a64..07220707 100644 --- a/.devcontainer/devcontainer.json +++ b/.devcontainer/devcontainer.json @@ -54,7 +54,8 @@ "GitHub.copilot", "GitHub.copilot-chat", "mutantdino.resourcemonitor", - "tamasfe.even-better-toml" + "tamasfe.even-better-toml", + "zeshuaro.vscode-python-poetry" ] } }, diff --git a/pdm.lock b/pdm.lock deleted file mode 100644 index 38d82b1e..00000000 --- a/pdm.lock +++ /dev/null @@ -1,3600 +0,0 @@ -# This file is @generated by PDM. -# It is not intended for manual editing. - 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+#SBATCH --signal=B:TERM@60 # tells the controller to send SIGTERM to the job 1 + # min before its time ends to give it a chance for + # better cleanup. If you cancel the job manually, + # make sure that you specify the signal as TERM like + # so `scancel --signal=TERM `. + # https://dhruveshp.com/blog/2021/signal-propagation-on-slurm/ set -euo pipefail From 7075954039f9e4fadc5d227ea8e1a481c8aa35cd Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Fri, 5 Jul 2024 17:37:54 +0000 Subject: [PATCH 14/24] Move the actions-runner-job.sh script to .github Signed-off-by: Fabrice Normandin --- actions-runner-job.sh => .github/actions-runner-job.sh | 0 .github/workflows/build.yml | 2 +- 2 files changed, 1 insertion(+), 1 deletion(-) rename actions-runner-job.sh => .github/actions-runner-job.sh (100%) diff --git a/actions-runner-job.sh b/.github/actions-runner-job.sh similarity index 100% rename from actions-runner-job.sh rename to .github/actions-runner-job.sh diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml index d70f66bf..d1a1859d 100644 --- a/.github/workflows/build.yml +++ b/.github/workflows/build.yml @@ -120,7 +120,7 @@ jobs: job_id: ${{ steps.sbatch.outputs.stdout }} steps: - name: Copy job script to the cluster - run: "scp actions-runner-job.sh ${{ matrix.cluster }}:actions-runner-job.sh" + run: "scp .github/actions-runner-job.sh ${{ matrix.cluster }}:" - name: Launch Slurm Actions Runner id: sbatch From 062bd36152fa817017452817faabbc51db28e1ca Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Fri, 5 Jul 2024 17:45:43 +0000 Subject: [PATCH 15/24] Add section in pyproject for ruff config Signed-off-by: Fabrice Normandin --- pyproject.toml | 6 ++++++ 1 file changed, 6 insertions(+) diff --git a/pyproject.toml b/pyproject.toml index 18dd82e1..165c257b 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -60,3 +60,9 @@ enable = true [build-system] requires = ["poetry-core>=1.0.0", "poetry-dynamic-versioning>=1.0.0,<2.0.0"] build-backend = "poetry_dynamic_versioning.backend" + +[tool.ruff] +line-length = 99 +indent-width = 4 +# Add the pyupgrade and isort options in addition to the defaults. +select = ["E4", "E7", "E9", "F", "I", "UP"] From 047d180f105c37842a592b9bb49b12dcc70965a3 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Fri, 5 Jul 2024 17:46:45 +0000 Subject: [PATCH 16/24] Fix ruff config Signed-off-by: Fabrice Normandin --- pyproject.toml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/pyproject.toml b/pyproject.toml index 165c257b..6985f297 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -65,4 +65,4 @@ build-backend = "poetry_dynamic_versioning.backend" line-length = 99 indent-width = 4 # Add the pyupgrade and isort options in addition to the defaults. -select = ["E4", "E7", "E9", "F", "I", "UP"] +lint.select = ["E4", "E7", "E9", "F", "I", "UP"] From 330c312470cf7d48507e84121bc16c66daa4aaf5 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Fri, 5 Jul 2024 17:59:30 +0000 Subject: [PATCH 17/24] Fix the build workflow for the cluster step Signed-off-by: Fabrice Normandin --- .github/workflows/build.yml | 13 ++++++------- 1 file changed, 6 insertions(+), 7 deletions(-) diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml index d1a1859d..d9870275 100644 --- a/.github/workflows/build.yml +++ b/.github/workflows/build.yml @@ -81,18 +81,14 @@ jobs: python-version: ['3.12'] steps: - uses: actions/checkout@v4 - - name: Install poetry # See note above. run: pip install poetry - - name: Set up Python ${{ matrix.python-version }} uses: actions/setup-python@v5 with: python-version: ${{ matrix.python-version }} cache: poetry - - name: Install poetry - run: pip install poetry - name: Install dependencies run: poetry install @@ -145,16 +141,19 @@ jobs: cluster: ['mila'] steps: - uses: actions/checkout@v4 + - name: Install poetry + # See note above. + run: pip install poetry - name: Set up Python 3.12 uses: actions/setup-python@v5 with: python-version: 3.12 - - run: pip install pdm + cache: poetry - name: Install dependencies - run: pdm install + run: poetry install - name: Test with pytest - run: pdm run pytest -v --cov=project --cov-report=xml --cov-append + run: poetry run pytest -v --cov=project --cov-report=xml --cov-append # TODO: Re-enable this later # - name: Test with pytest (only slow tests) From 1aec7868630778d4d2c87edc79f8e56f6da03511 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Fri, 5 Jul 2024 18:02:52 +0000 Subject: [PATCH 18/24] Setup the poetry cache on $SCRATCH in job Signed-off-by: Fabrice Normandin --- .github/workflows/build.yml | 2 ++ 1 file changed, 2 insertions(+) diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml index d9870275..c222de0a 100644 --- a/.github/workflows/build.yml +++ b/.github/workflows/build.yml @@ -144,6 +144,8 @@ jobs: - name: Install poetry # See note above. run: pip install poetry + - name: Setup the installation cache in $SCRATCH for Poetry + run: mkdir -p $SCRATCH/.cache && poetry config cache-dir $SCRATCH/.cache/pypoetry - name: Set up Python 3.12 uses: actions/setup-python@v5 with: From edb4d95293c3a40f0a4c893e8f22db57412ca81b Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Fri, 5 Jul 2024 18:24:23 +0000 Subject: [PATCH 19/24] Re-add the pytest ini options in pyproject.toml Signed-off-by: Fabrice Normandin --- pyproject.toml | 3 +++ 1 file changed, 3 insertions(+) diff --git a/pyproject.toml b/pyproject.toml index 6985f297..c281c8ed 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -66,3 +66,6 @@ line-length = 99 indent-width = 4 # Add the pyupgrade and isort options in addition to the defaults. lint.select = ["E4", "E7", "E9", "F", "I", "UP"] + +[tool.pytest.ini_options] +addopts = "--doctest-modules" From f3b8b51248983994bc17eb6e1d54ffa6064a1445 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Fri, 5 Jul 2024 15:03:22 -0400 Subject: [PATCH 20/24] Add todo in devcontainer for dynamic-versioning Signed-off-by: Fabrice Normandin --- .devcontainer/devcontainer.json | 6 +++++- 1 file changed, 5 insertions(+), 1 deletion(-) diff --git a/.devcontainer/devcontainer.json b/.devcontainer/devcontainer.json index 07220707..e616f309 100644 --- a/.devcontainer/devcontainer.json +++ b/.devcontainer/devcontainer.json @@ -106,11 +106,15 @@ // .cache/pypoetry in the container. Therefore, here I'm making a symlink from ~/.cache/pypoetry to // ~/.poetry_cache so the ~/.cache directory is writeable by the container. "onCreateCommand": { + "Setup poetry completions": "poetry completions bash >> ~/.bash_completion", + // todo: doesn't work, getting some permission issues: https://github.com/orgs/python-poetry/discussions/8182 + // "setup dynamic versioning": "pipx run poetry self add poetry-dynamic-versioning[plugin] && pipx run poetry dynamic-versioning enable", "Setup the poetry install cache": "mkdir -p ~/.cache && ln -s /home/vscode/.poetry_install_cache /home/vscode/.cache/pypoetry", "Install pre-commit hooks": "pre-commit install --install-hooks" }, "updateContentCommand": { - "pdm_install": "poetry install" + "pdm_install": "poetry install", + // "poetry dynamic versioning": "poetry dynamic-versioning" }, // Use 'postCreateCommand' to run commands after the container is created. From 3f60e3a93279d54d093d66c40862f81de81c914a Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Fri, 5 Jul 2024 15:04:36 -0400 Subject: [PATCH 21/24] Add pre-commit as a dev dependency Signed-off-by: Fabrice Normandin --- poetry.lock | 88 ++++++++++++++++++++++++++++++++++++++++++++++++-- pyproject.toml | 1 + 2 files changed, 87 insertions(+), 2 deletions(-) diff --git a/poetry.lock b/poetry.lock index 10c29522..05d93dd2 100644 --- a/poetry.lock +++ b/poetry.lock @@ -261,6 +261,17 @@ files = [ {file = "certifi-2024.7.4.tar.gz", hash = "sha256:5a1e7645bc0ec61a09e26c36f6106dd4cf40c6db3a1fb6352b0244e7fb057c7b"}, ] +[[package]] +name = "cfgv" +version = "3.4.0" +description = "Validate configuration and produce human readable error messages." +optional = false +python-versions = ">=3.8" +files = [ + {file = "cfgv-3.4.0-py2.py3-none-any.whl", hash = "sha256:b7265b1f29fd3316bfcd2b330d63d024f2bfd8bcb8b0272f8e19a504856c48f9"}, + {file = "cfgv-3.4.0.tar.gz", hash = "sha256:e52591d4c5f5dead8e0f673fb16db7949d2cfb3f7da4582893288f0ded8fe560"}, +] + [[package]] name = "charset-normalizer" version = "3.3.2" @@ -575,6 +586,17 @@ files = [ docs = ["ipython", "matplotlib", "numpydoc", "sphinx"] tests = ["pytest", "pytest-cov", "pytest-xdist"] +[[package]] +name = "distlib" +version = "0.3.8" +description = "Distribution utilities" +optional = false +python-versions = "*" +files = [ + {file = "distlib-0.3.8-py2.py3-none-any.whl", hash = "sha256:034db59a0b96f8ca18035f36290806a9a6e6bd9d1ff91e45a7f172eb17e51784"}, + {file = "distlib-0.3.8.tar.gz", hash = "sha256:1530ea13e350031b6312d8580ddb6b27a104275a31106523b8f123787f494f64"}, +] + [[package]] name = "docker-pycreds" version = "0.4.0" @@ -1083,6 +1105,20 @@ beartype = ["beartype (>=0.8.0)"] pydantic = ["pydantic (>=1.10.14,<2.0.0)"] test = ["hypothesis (>=6.28.0)", "pytest (>=3.8)", "pytest-trio (>=0.8.0)"] +[[package]] +name = "identify" +version = "2.5.36" +description = "File identification library for Python" +optional = false +python-versions = ">=3.8" +files = [ + {file = "identify-2.5.36-py2.py3-none-any.whl", hash = "sha256:37d93f380f4de590500d9dba7db359d0d3da95ffe7f9de1753faa159e71e7dfa"}, + {file = "identify-2.5.36.tar.gz", hash = "sha256:e5e00f54165f9047fbebeb4a560f9acfb8af4c88232be60a488e9b68d122745d"}, +] + +[package.extras] +license = ["ukkonen"] + [[package]] name = "idna" version = "3.7" @@ -2104,6 +2140,17 @@ doc = ["myst-nb (>=1.0)", "numpydoc (>=1.7)", "pillow (>=9.4)", "pydata-sphinx-t extra = ["lxml (>=4.6)", "pydot (>=2.0)", "pygraphviz (>=1.12)", "sympy (>=1.10)"] test = ["pytest (>=7.2)", "pytest-cov (>=4.0)"] +[[package]] +name = "nodeenv" +version = "1.9.1" +description = "Node.js virtual environment builder" +optional = false +python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,!=3.6.*,>=2.7" +files = [ + {file = "nodeenv-1.9.1-py2.py3-none-any.whl", hash = "sha256:ba11c9782d29c27c70ffbdda2d7415098754709be8a7056d79a737cd901155c9"}, + {file = "nodeenv-1.9.1.tar.gz", hash = "sha256:6ec12890a2dab7946721edbfbcd91f3319c6ccc9aec47be7c7e6b7011ee6645f"}, +] + [[package]] name = "numpy" version = "1.26.4" @@ -2546,6 +2593,24 @@ files = [ dev = ["pre-commit", "tox"] testing = ["pytest", "pytest-benchmark"] +[[package]] +name = "pre-commit" +version = "3.7.1" +description = "A framework for managing and maintaining multi-language pre-commit hooks." +optional = false +python-versions = ">=3.9" +files = [ + {file = "pre_commit-3.7.1-py2.py3-none-any.whl", hash = "sha256:fae36fd1d7ad7d6a5a1c0b0d5adb2ed1a3bda5a21bf6c3e5372073d7a11cd4c5"}, + {file = "pre_commit-3.7.1.tar.gz", hash = "sha256:8ca3ad567bc78a4972a3f1a477e94a79d4597e8140a6e0b651c5e33899c3654a"}, +] + +[package.dependencies] +cfgv = ">=2.0.0" +identify = ">=1.0.0" +nodeenv = ">=0.11.1" +pyyaml = ">=5.1" +virtualenv = ">=20.10.0" + [[package]] name = "protobuf" version = "4.25.3" @@ -3050,7 +3115,6 @@ files = [ {file = "PyYAML-6.0.1-cp311-cp311-win_amd64.whl", hash = "sha256:bf07ee2fef7014951eeb99f56f39c9bb4af143d8aa3c21b1677805985307da34"}, {file = "PyYAML-6.0.1-cp312-cp312-macosx_10_9_x86_64.whl", hash = "sha256:855fb52b0dc35af121542a76b9a84f8d1cd886ea97c84703eaa6d88e37a2ad28"}, {file = "PyYAML-6.0.1-cp312-cp312-macosx_11_0_arm64.whl", hash = "sha256:40df9b996c2b73138957fe23a16a4f0ba614f4c0efce1e9406a184b6d07fa3a9"}, - {file = "PyYAML-6.0.1-cp312-cp312-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:a08c6f0fe150303c1c6b71ebcd7213c2858041a7e01975da3a99aed1e7a378ef"}, {file = "PyYAML-6.0.1-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:6c22bec3fbe2524cde73d7ada88f6566758a8f7227bfbf93a408a9d86bcc12a0"}, {file = "PyYAML-6.0.1-cp312-cp312-musllinux_1_1_x86_64.whl", hash = "sha256:8d4e9c88387b0f5c7d5f281e55304de64cf7f9c0021a3525bd3b1c542da3b0e4"}, {file = "PyYAML-6.0.1-cp312-cp312-win32.whl", hash = "sha256:d483d2cdf104e7c9fa60c544d92981f12ad66a457afae824d146093b8c294c54"}, @@ -3817,6 +3881,26 @@ h2 = ["h2 (>=4,<5)"] socks = ["pysocks (>=1.5.6,!=1.5.7,<2.0)"] zstd = ["zstandard (>=0.18.0)"] +[[package]] +name = "virtualenv" +version = "20.26.3" +description = "Virtual Python Environment builder" +optional = false +python-versions = ">=3.7" +files = [ + {file = "virtualenv-20.26.3-py3-none-any.whl", hash = "sha256:8cc4a31139e796e9a7de2cd5cf2489de1217193116a8fd42328f1bd65f434589"}, + {file = "virtualenv-20.26.3.tar.gz", hash = "sha256:4c43a2a236279d9ea36a0d76f98d84bd6ca94ac4e0f4a3b9d46d05e10fea542a"}, +] + +[package.dependencies] +distlib = ">=0.3.7,<1" +filelock = ">=3.12.2,<4" +platformdirs = ">=3.9.1,<5" + +[package.extras] +docs = ["furo (>=2023.7.26)", "proselint (>=0.13)", "sphinx (>=7.1.2,!=7.3)", "sphinx-argparse (>=0.4)", "sphinxcontrib-towncrier (>=0.2.1a0)", "towncrier (>=23.6)"] +test = ["covdefaults (>=2.3)", "coverage (>=7.2.7)", "coverage-enable-subprocess (>=1)", "flaky (>=3.7)", "packaging (>=23.1)", "pytest (>=7.4)", "pytest-env (>=0.8.2)", "pytest-freezer (>=0.4.8)", "pytest-mock (>=3.11.1)", "pytest-randomly (>=3.12)", "pytest-timeout (>=2.1)", "setuptools (>=68)", "time-machine (>=2.10)"] + [[package]] name = "wandb" version = "0.17.4" @@ -4055,4 +4139,4 @@ test = ["big-O", "importlib-resources", "jaraco.functools", "jaraco.itertools", [metadata] lock-version = "2.0" python-versions = "^3.12" -content-hash = "5f7a79c9aaf80ba241ae9aaf69b46e70b58f927b888bb38f42026598daacf86b" +content-hash = "50daa1945dfe2088f88de149a9fdcde482db65a4d2de61ca6845cb40a3bb1a5e" diff --git a/pyproject.toml b/pyproject.toml index c281c8ed..2edfee4a 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -53,6 +53,7 @@ mkdocs-awesome-pages-plugin = "^2.9.2" mkdocs-literate-nav = "^0.6.1" mkdocs-material = "^9.5.28" tensor-regression = "^0.0.4" +pre-commit = "^3.7.1" [tool.poetry-dynamic-versioning] enable = true From 83858bd078127e17baf318a57607edfa8eb4701a Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Fri, 5 Jul 2024 15:05:40 -0400 Subject: [PATCH 22/24] Add some specifiers for the version scheme Signed-off-by: Fabrice Normandin --- pyproject.toml | 2 ++ 1 file changed, 2 insertions(+) diff --git a/pyproject.toml b/pyproject.toml index 2edfee4a..7382522d 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -57,6 +57,8 @@ pre-commit = "^3.7.1" [tool.poetry-dynamic-versioning] enable = true +vcs = "git" +style = "semver" [build-system] requires = ["poetry-core>=1.0.0", "poetry-dynamic-versioning>=1.0.0,<2.0.0"] From fdb30083aa0c01721c3e38afc430df0410e7e6c8 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Mon, 8 Jul 2024 14:29:39 +0000 Subject: [PATCH 23/24] Setup python just to install poetry Signed-off-by: Fabrice Normandin --- .github/workflows/build.yml | 10 +++++++++- 1 file changed, 9 insertions(+), 1 deletion(-) diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml index c222de0a..4b8722ec 100644 --- a/.github/workflows/build.yml +++ b/.github/workflows/build.yml @@ -141,11 +141,19 @@ jobs: cluster: ['mila'] steps: - uses: actions/checkout@v4 + + - name: Set up Python 3.12 (to install poetry) + uses: actions/setup-python@v5 + with: + python-version: 3.12 + - name: Install poetry # See note above. run: pip install poetry - - name: Setup the installation cache in $SCRATCH for Poetry + + - name: Setup the installation cache in $SCRATCH run: mkdir -p $SCRATCH/.cache && poetry config cache-dir $SCRATCH/.cache/pypoetry + - name: Set up Python 3.12 uses: actions/setup-python@v5 with: From 6f73d614006805079e0563270fc36826c60e2356 Mon Sep 17 00:00:00 2001 From: Fabrice Normandin Date: Thu, 11 Jul 2024 16:49:11 -0400 Subject: [PATCH 24/24] Add missing checkout step in launch workflow Signed-off-by: Fabrice Normandin --- .github/workflows/build.yml | 2 ++ 1 file changed, 2 insertions(+) diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml index 4b8722ec..a272f836 100644 --- a/.github/workflows/build.yml +++ b/.github/workflows/build.yml @@ -115,6 +115,8 @@ jobs: outputs: job_id: ${{ steps.sbatch.outputs.stdout }} steps: + - uses: actions/checkout@v4 + - name: Copy job script to the cluster run: "scp .github/actions-runner-job.sh ${{ matrix.cluster }}:"