From 982805dd10eefc5551200a6f80104e6c5709f93e Mon Sep 17 00:00:00 2001 From: Han Wang Date: Fri, 14 Nov 2025 00:32:04 +0000 Subject: [PATCH 1/8] Remove fs from tune --- .devcontainer/devcontainer.json | 100 +- .pre-commit-config.yaml | 33 +- Makefile | 15 +- docs/conf.py | 1 - pyproject.toml | 126 + setup.cfg | 26 - setup.py | 82 +- tests/tune/concepts/test_checkpoint.py | 13 +- tests/tune/iterative/test_asha.py | 13 +- tests/tune/iterative/test_objective.py | 18 +- tests/tune/iterative/test_sha.py | 13 +- tune/api/optimize.py | 6 +- tune/concepts/checkpoint.py | 27 +- tune/concepts/dataset.py | 10 +- tune/iterative/objective.py | 30 +- tune/iterative/sha.py | 13 +- tune/iterative/study.py | 13 +- tune_sklearn/objective.py | 8 +- tune_tensorflow/objective.py | 14 +- tune_tensorflow/spec.py | 17 +- uv.lock | 7225 ++++++++++++++++++++++++ 21 files changed, 7548 insertions(+), 255 deletions(-) create mode 100644 pyproject.toml delete mode 100644 setup.cfg create mode 100644 uv.lock diff --git a/.devcontainer/devcontainer.json b/.devcontainer/devcontainer.json index afd5392..6637551 100644 --- a/.devcontainer/devcontainer.json +++ b/.devcontainer/devcontainer.json @@ -1,46 +1,64 @@ { "name": "Fugue Development Environment", - "image": "mcr.microsoft.com/vscode/devcontainers/python:3.10", - "customizations": { - "vscode": { - "settings": { - "terminal.integrated.shell.linux": "/bin/bash", - "python.pythonPath": "/usr/local/bin/python", - "python.defaultInterpreterPath": "/usr/local/bin/python", - "editor.defaultFormatter": "ms-python.black-formatter", - "isort.interpreter": [ - "/usr/local/bin/python" - ], - "flake8.interpreter": [ - "/usr/local/bin/python" - ], - "pylint.interpreter": [ - "/usr/local/bin/python" - ], - "black-formatter.interpreter": [ - "/usr/local/bin/python" - ] - }, - "extensions": [ - "ms-python.python", - "ms-python.isort", - "ms-python.flake8", - "ms-python.pylint", - "ms-python.mypy", - "ms-python.black-formatter", - "GitHub.copilot", - "njpwerner.autodocstring" - ] - } - }, - "forwardPorts": [ - 8888 - ], - "postCreateCommand": "make devenv", - "features": { - "ghcr.io/devcontainers/features/docker-in-docker:2.11.0": {}, + "image": "mcr.microsoft.com/vscode/devcontainers/python:3.11-bookworm", + "hostRequirements": { + "cpus": 4, + "memory": "16gb", + "storage": "32gb" + }, + "customizations": { + "vscode": { + "settings": { + "terminal.integrated.shell.linux": "/bin/bash", + "python.terminal.activateEnvInCurrentTerminal": true, + "python.defaultInterpreterPath": ".venv/bin/python", + "python.pythonPath": ".venv/bin/python", + "[python]": { + "editor.defaultFormatter": "charliermarsh.ruff", + "editor.formatOnSave": true, + "editor.codeActionsOnSave": { + "source.fixAll": "explicit", + "source.organizeImports": "explicit" + } + }, + "notebook.python.defaultInterpreterPath": ".venv/bin/python", + "notebook.codeActionsOnSave": { + "source.fixAll": "explicit", + "source.organizeImports": "explicit" + }, + "ruff.nativeServer": "on", + "python.languageServer": "Default", + "debug.internalConsoleOptions": "neverOpen", + "extensions.ignoreRecommendations": true, + "files.insertFinalNewline": true + }, + "extensions": [ + "ms-python.python", + "ms-python.mypy", + "ms-python.vscode-pylance", + "ms-toolsai.jupyter@2025.2.0", + "charliermarsh.ruff@2025.22.0", + "GitHub.copilot", + "tamasfe.even-better-toml", + "anthropic.claude-code" + ] + } + }, + "forwardPorts": [ + 8888 + ], + "containerEnv": { + "UV_NO_SYNC": "1" + }, + "onCreateCommand": "make devenv", + "postCreateCommand": "make init_codespace", + "waitFor": "postCreateCommand", + "features": { + "ghcr.io/devcontainers/features/docker-in-docker:2.12.4": {}, + "ghcr.io/va-h/devcontainers-features/uv:1.1.4": {}, "ghcr.io/devcontainers/features/java:1": { "version": "11" - } - } + }, + "ghcr.io/devcontainers/features/node:1.6.3": {} + } } diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 0a15b5a..9a39ff1 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -20,30 +20,11 @@ repos: - id: end-of-file-fixer - id: trailing-whitespace - id: check-vcs-permalinks - - repo: https://github.com/pycqa/flake8 - rev: '3.8.3' + - repo: https://github.com/astral-sh/ruff-pre-commit + rev: v0.6.9 hooks: - - id: flake8 - types: [python] - additional_dependencies: - - flake8-bugbear - - flake8-builtins - # - flake8-docstrings # TODO: add back! - # - flake8-rst-docstrings - - flake8-comprehensions - - flake8-tidy-imports - - pycodestyle - - repo: https://github.com/pre-commit/mirrors-mypy - rev: v0.971 - hooks: - - id: mypy - - repo: https://github.com/pre-commit/mirrors-pylint - rev: v2.6.0 - hooks: - - id: pylint - - repo: https://github.com/ambv/black - rev: 22.3.0 - hooks: - - id: black - types: [python] - language_version: python3 + - id: ruff + files: api + args: [--fix] + - id: ruff-format + files: api diff --git a/Makefile b/Makefile index 4c3ab9c..cdc6fa1 100644 --- a/Makefile +++ b/Makefile @@ -9,8 +9,14 @@ help: @echo " test run all tests with coverage (assumes venv is present)" devenv: - pip3 install -r requirements.txt - pre-commit install + uv sync --quiet --all-groups --all-extras --frozen + uv run --no-sync pre-commit install + +init_codespace: + npm install -g @anthropic-ai/claude-code + npm i -g mint + git pull || true + uv sync --quiet --all-groups --all-extras --frozen dev: pip3 install -r requirements.txt @@ -22,7 +28,6 @@ docs: sphinx-apidoc --no-toc -f -t=docs/_templates -o docs/api tune_hyperopt/ sphinx-apidoc --no-toc -f -t=docs/_templates -o docs/api tune_optuna/ sphinx-apidoc --no-toc -f -t=docs/_templates -o docs/api tune_sklearn/ - sphinx-apidoc --no-toc -f -t=docs/_templates -o docs/api tune_tensorflow/ sphinx-apidoc --no-toc -f -t=docs/_templates -o docs/api tune_notebook/ sphinx-apidoc --no-toc -f -t=docs/_templates -o docs/api tune_test/ sphinx-build -b html docs/ docs/build/ @@ -41,7 +46,7 @@ lab: jupyter lab --port=8888 --ip=0.0.0.0 --no-browser --allow-root --NotebookApp.token='' --NotebookApp.password='' --NotebookApp.allow_origin='*' test: - python3 -bb -m pytest tests + uv run pytest tests testcore: - python3 -bb -m pytest tests/tune tests/tune_notebook tests/tune_hyperopt tests/tune_optuna + uv run pytest tests/tune tests/tune_notebook tests/tune_hyperopt tests/tune_optuna diff --git a/docs/conf.py b/docs/conf.py index f2925ac..f15230a 100644 --- a/docs/conf.py +++ b/docs/conf.py @@ -91,7 +91,6 @@ "fugue": ("https://fugue.readthedocs.io/en/latest", None), "tutorial": ("https://fugue-tutorials.readthedocs.io/en/latest", None), "pa": ("https://arrow.apache.org/docs", None), - "fs": ("https://docs.pyfilesystem.org/en/latest", None), "spark": ("https://spark.apache.org/docs/latest/api/python", None), "dask": ("https://docs.dask.org/en/latest", None), "np": ("https://numpy.org/doc/stable", None), diff --git a/pyproject.toml b/pyproject.toml new file mode 100644 index 0000000..88f5415 --- /dev/null +++ b/pyproject.toml @@ -0,0 +1,126 @@ +[build-system] +requires = ["setuptools>=61.0"] +build-backend = "setuptools.build_meta" + +[project] +name = "tune" +dynamic = ["version"] +description = "An abstraction layer for hyper parameter tuning" +readme = "README.md" +requires-python = ">=3.9" +license = { text = "Apache-2.0" } +authors = [{ name = "Han Wang", email = "goodwanghan@gmail.com" }] +keywords = [ + "hyper parameter", + "hyperparameter", + "tuning", + "tune", + "tuner", + "optimzation", +] +classifiers = [ + "Development Status :: 3 - Alpha", + "Intended Audience :: Developers", + "Topic :: Software Development :: Libraries :: Python Modules", + "License :: OSI Approved :: Apache Software License", + "Programming Language :: Python :: 3.8", + "Programming Language :: Python :: 3.9", + "Programming Language :: Python :: 3.10", + "Programming Language :: Python :: 3.11", + "Programming Language :: Python :: 3.12", + "Programming Language :: Python :: 3 :: Only", +] +dependencies = ["fugue>=0.9.2", "cloudpickle", "triad>=1.0.0"] + +[project.urls] +Homepage = "http://github.com/fugue-project/tune" +Repository = "http://github.com/fugue-project/tune" + +[project.optional-dependencies] +hyperopt = ["hyperopt"] +optuna = ["optuna"] +tensorflow = ["tensorflow"] +notebook = ["fugue-jupyter", "seaborn"] +sklearn = ["scikit-learn"] +mlflow = ["mlflow"] +all = [ + "hyperopt", + "optuna", + "seaborn", + "tensorflow", + "fugue-jupyter", + "scikit-learn", + "mlflow", +] + +[project.entry-points."tune.plugins"] +mlflow = "tune_mlflow" +wandb = "tune_wandb" +hyperopt = "tune_hyperopt" +optuna = "tune_optuna" +monitor = "tune_notebook" + +[tool.setuptools] +packages = { find = {} } + +[tool.setuptools.dynamic] +version = { attr = "tune_version.__version__" } + +# pytest configuration (migrated from setup.cfg) +[tool.pytest.ini_options] +addopts = [ + "--cov=tune", + "--cov=tune_sklearn", + "--cov=tune_tensorflow", + "--cov=tune_hyperopt", + "--cov=tune_optuna", + "--cov-report=term-missing:skip-covered", + "-vvv", +] +spark_options = [ + "spark.master: local[2]", + "spark.sql.catalogImplementation: in-memory", + "spark.sql.shuffle.partitions: 4", + "spark.default.parallelism: 4", + "spark.executor.cores: 4", + "spark.sql.adaptive.enabled: false", +] + +# flake8 configuration (migrated from setup.cfg) +[tool.flake8] +ignore = ["E24", "E203", "W503", "C408", "A003", "A005", "W504", "C407", "C405"] +max-line-length = 88 +format = "pylint" +exclude = [ + ".svc", + "CVS", + ".bzr", + ".hg", + ".git", + "__pycache__", + "venv", + "tests/*", + "docs/*", +] +max-complexity = 10 + +[dependency-groups] +dev = [ + "flake8>=7.3.0", + "flask>=3.1.2", + "fugue[dask,spark]>=0.9.2", + "furo>=2025.9.25", + "nbsphinx>=0.9.7", + "pandoc>=2.4", + "pre-commit>=3.5.0", + "pytest>=8.3.5", + "pytest-cov>=5.0.0", + "pytest-mock>=3.15.1", + "pytest-spark>=0.8.0", + "sphinx>=7.4.7", + "sphinx-autodoc-typehints>=2.3.0", + "sphinx-rtd-theme>=3.0.2", +] + +[tool.ruff] +line-length = 88 diff --git a/setup.cfg b/setup.cfg deleted file mode 100644 index 62d35e9..0000000 --- a/setup.cfg +++ /dev/null @@ -1,26 +0,0 @@ -[metadata] -description-file = README.md - -[tool:pytest] -addopts = - --cov=tune - --cov=tune_sklearn - --cov=tune_tensorflow - --cov=tune_hyperopt - --cov=tune_optuna - --cov-report=term-missing:skip-covered - -vvv -spark_options = - spark.master: local[2] - spark.sql.catalogImplementation: in-memory - spark.sql.shuffle.partitions: 4 - spark.default.parallelism: 4 - spark.executor.cores: 4 - spark.sql.adaptive.enabled: false - -[flake8] -ignore = E24,E203,W503,C408,A003,A005,W504,C407,C405 -max-line-length = 88 -format = pylint -exclude = .svc,CVS,.bzr,.hg,.git,__pycache__,venv,tests/*,docs/* -max-complexity = 10 diff --git a/setup.py b/setup.py index 88f1d57..a38ba6e 100644 --- a/setup.py +++ b/setup.py @@ -1,74 +1,8 @@ -import os - -from setuptools import find_packages, setup - -from tune_version import __version__ - -with open("README.md") as f: - _text = ["# Tune"] + f.read().splitlines()[1:] - LONG_DESCRIPTION = "\n".join(_text) - - -def get_version() -> str: - tag = os.environ.get("RELEASE_TAG", "") - if "dev" in tag.split(".")[-1]: - return tag - if tag != "": - assert tag == __version__, "release tag and version mismatch" - return __version__ - - -setup( - name="tune", - version=get_version(), - packages=find_packages(), - description="An abstraction layer for hyper parameter tuning", - long_description=LONG_DESCRIPTION, - long_description_content_type="text/markdown", - license="Apache-2.0", - author="Han Wang", - author_email="goodwanghan@gmail.com", - keywords="hyper parameter hyperparameter tuning tune tuner optimzation", - url="http://github.com/fugue-project/tune", - install_requires=["fugue", "cloudpickle", "triad>=0.8.4", "fs"], - extras_require={ - "hyperopt": ["hyperopt"], - "optuna": ["optuna"], - "tensorflow": ["tensorflow"], - "notebook": ["fugue-jupyter", "seaborn"], - "sklearn": ["scikit-learn"], - "mlflow": ["mlflow"], - "all": [ - "hyperopt", - "optuna", - "seaborn", - "tensorflow", - "fugue-jupyter", - "scikit-learn", - "mlflow", - ], - }, - classifiers=[ - # "3 - Alpha", "4 - Beta" or "5 - Production/Stable" - "Development Status :: 3 - Alpha", - "Intended Audience :: Developers", - "Topic :: Software Development :: Libraries :: Python Modules", - "License :: OSI Approved :: Apache Software License", - "Programming Language :: Python :: 3.8", - "Programming Language :: Python :: 3.9", - "Programming Language :: Python :: 3.10", - "Programming Language :: Python :: 3.11", - "Programming Language :: Python :: 3.12", - "Programming Language :: Python :: 3 :: Only", - ], - python_requires=">=3.8", - entry_points={ - "tune.plugins": [ - "mlflow = tune_mlflow[mlflow]", - "wandb = tune_wandb[wandb]", - "hyperopt = tune_hyperopt[hyperopt]", - "optuna = tune_optuna[optuna]", - "monitor = tune_notebook[notebook]", - ] - }, -) +""" +Minimal setup.py for backwards compatibility. +All configuration is in pyproject.toml. +""" +from setuptools import setup + +# All configuration is in pyproject.toml +setup() diff --git a/tests/tune/concepts/test_checkpoint.py b/tests/tune/concepts/test_checkpoint.py index 49481aa..94caa56 100644 --- a/tests/tune/concepts/test_checkpoint.py +++ b/tests/tune/concepts/test_checkpoint.py @@ -1,10 +1,10 @@ from tune import Checkpoint -from triad import FileSystem from pytest import raises +from fsspec.implementations.dirfs import DirFileSystem def test_checkpoint(tmpdir): - fs = FileSystem().opendir(str(tmpdir)) + fs = DirFileSystem(str(tmpdir)) cp = Checkpoint(fs) assert 0 == len(cp) with raises(AssertionError): @@ -12,15 +12,18 @@ def test_checkpoint(tmpdir): try: for i in range(4): with cp.create() as sfs: - sfs.writetext("a.txt", str(i)) + with sfs.open("a.txt", "w") as f: + f.write(str(i)) if i == 3: raise Exception except Exception: pass assert 3 == len(cp) - assert "2" == cp.latest.readtext("a.txt") + with cp.latest.open("a.txt", "r") as f: + assert "2" == f.read() files = fs.listdir(".") assert 4 == len(files) cp2 = Checkpoint(fs) assert 3 == len(cp2) - assert "2" == cp2.latest.readtext("a.txt") + with cp2.latest.open("a.txt", "r") as f: + assert "2" == f.read() diff --git a/tests/tune/iterative/test_asha.py b/tests/tune/iterative/test_asha.py index 30dad89..88522ec 100644 --- a/tests/tune/iterative/test_asha.py +++ b/tests/tune/iterative/test_asha.py @@ -2,13 +2,14 @@ from typing import Any, Dict, Iterable from fugue import FugueWorkflow + from tune import optimize_by_continuous_asha -from tune.constants import TUNE_REPORT_METRIC from tune.concepts.dataset import TuneDatasetBuilder +from tune.concepts.flow import Monitor, Trial, TrialReport +from tune.concepts.space import Grid, Space +from tune.constants import TUNE_REPORT_METRIC from tune.iterative.asha import ASHAJudge, RungHeap from tune.iterative.objective import IterativeObjectiveFunc -from tune.concepts.space import Grid, Space -from tune.concepts.flow import Monitor, Trial, TrialReport def test_rung_heap(): @@ -182,10 +183,12 @@ def __init__(self): ] def save_checkpoint(self, fs): - fs.writetext("x", str(self._it)) + with fs.open("x", "w") as f: + f.write(str(self._it)) def load_checkpoint(self, fs): - self._it = int(fs.readtext("x")) + with fs.open("x", "r") as f: + self._it = int(f.read()) def run_single_iteration(self): trial = self.current_trial diff --git a/tests/tune/iterative/test_objective.py b/tests/tune/iterative/test_objective.py index 06c5af4..dca7dea 100644 --- a/tests/tune/iterative/test_objective.py +++ b/tests/tune/iterative/test_objective.py @@ -1,10 +1,10 @@ -from fs.base import FS as FSBase -from triad import FileSystem +from fsspec.implementations.dirfs import DirFileSystem + +from tune.concepts.flow import Monitor, Trial, TrialDecision, TrialJudge, TrialReport from tune.iterative.objective import ( IterativeObjectiveFunc, validate_iterative_objective, ) -from tune.concepts.flow import Trial, TrialDecision, TrialJudge, TrialReport, Monitor class F(IterativeObjectiveFunc): @@ -21,11 +21,13 @@ def initialize(self) -> None: def finalize(self) -> None: self.v = -10 - def load_checkpoint(self, fs: FSBase) -> None: - self.v = int(fs.readtext("x")) + def load_checkpoint(self, fs: DirFileSystem) -> None: + with fs.open("x", "r") as f: + self.v = int(f.read()) - def save_checkpoint(self, fs: FSBase) -> None: - fs.writetext("x", str(self.v)) + def save_checkpoint(self, fs: DirFileSystem) -> None: + with fs.open("x", "w") as f: + f.write(str(self.v)) def run_single_iteration(self) -> TrialReport: self.v += 1 @@ -65,7 +67,7 @@ def on_report(self, report: TrialReport) -> None: def test_objective_func(tmpdir): - fs = FileSystem().opendir(str(tmpdir)) + fs = DirFileSystem(str(tmpdir)) j = J([3, 3, 2]) f = F().copy() t = Trial("abc", {"a": 1}) diff --git a/tests/tune/iterative/test_sha.py b/tests/tune/iterative/test_sha.py index 385388e..3291944 100644 --- a/tests/tune/iterative/test_sha.py +++ b/tests/tune/iterative/test_sha.py @@ -1,12 +1,13 @@ from typing import Any, Dict, Iterable from fugue import FugueWorkflow + +from tune import optimize_by_hyperband, optimize_by_sha from tune.concepts.dataset import TuneDatasetBuilder -from tune.iterative.objective import IterativeObjectiveFunc -from tune import optimize_by_sha, optimize_by_hyperband -from tune.concepts.space import Grid, Space from tune.concepts.flow import TrialReport +from tune.concepts.space import Grid, Space from tune.constants import TUNE_REPORT_METRIC +from tune.iterative.objective import IterativeObjectiveFunc class F(IterativeObjectiveFunc): @@ -21,10 +22,12 @@ def __init__(self): ] def save_checkpoint(self, fs): - fs.writetext("x", str(self._it)) + with fs.open("x", "w") as f: + f.write(str(self._it)) def load_checkpoint(self, fs): - self._it = int(fs.readtext("x")) + with fs.open("x", "r") as f: + self._it = int(f.read()) def run_single_iteration(self): trial = self.current_trial diff --git a/tune/api/optimize.py b/tune/api/optimize.py index e50eafd..4920538 100644 --- a/tune/api/optimize.py +++ b/tune/api/optimize.py @@ -2,7 +2,8 @@ from typing import Any, Callable, List, Optional, Tuple from uuid import uuid4 -from triad import FileSystem +import fsspec + from tune.api.factory import ( TUNE_OBJECT_FACTORY, parse_iterative_objective, @@ -118,6 +119,7 @@ def optimize_by_continuous_asha( monitor=_monitor, ) path = os.path.join(checkpoint_path, str(uuid4())) - FileSystem().makedirs(path, recreate=True) + fs, uri = fsspec.core.url_to_fs(path) + fs.makedirs(uri, exist_ok=True) study = IterativeStudy(_objective, checkpoint_path=path) return study.optimize(dataset, judge=judge) diff --git a/tune/concepts/checkpoint.py b/tune/concepts/checkpoint.py index 596a819..4d2a495 100644 --- a/tune/concepts/checkpoint.py +++ b/tune/concepts/checkpoint.py @@ -2,7 +2,7 @@ from typing import Any, List from uuid import uuid4 -from fs.base import FS as FSBase +from fsspec.implementations.dirfs import DirFileSystem from triad import assert_or_throw _CHECKPOINT_STATE_FILE = "STATE" @@ -11,7 +11,7 @@ class Checkpoint: """An abstraction for tuning checkpoint - :param fs: the file system + :param fs: the file system with base directory for checkpoint .. attention:: @@ -20,12 +20,11 @@ class Checkpoint: if you want to understand how it works. """ - def __init__(self, fs: FSBase): + def __init__(self, fs: DirFileSystem): self._fs = fs try: - self._iterations: List[str] = json.loads( - fs.readtext(_CHECKPOINT_STATE_FILE) - ) + with self._fs.open(_CHECKPOINT_STATE_FILE, "r") as f: + self._iterations: List[str] = json.load(f) except Exception: self._iterations = [] @@ -34,13 +33,13 @@ def __len__(self) -> int: return len(self._iterations) @property - def latest(self) -> FSBase: + def latest(self) -> DirFileSystem: """latest checkpoint folder :raises AssertionError: if there was no checkpoint """ assert_or_throw(len(self) > 0, "checkpoint history is empty") - return self._fs.opendir(self._iterations[-1]) + return DirFileSystem(path=self._iterations[-1], fs=self._fs) def create(self) -> "NewCheckpoint": """Create a new checkpoint""" @@ -63,18 +62,18 @@ def __init__(self, checkpoint: Checkpoint): self._parent = checkpoint self._name = str(uuid4()) - def __enter__(self) -> FSBase: - return self._parent._fs.makedir(self._name) + def __enter__(self) -> DirFileSystem: + self._parent._fs.makedir(self._name) + return DirFileSystem(path=self._name, fs=self._parent._fs) def __exit__(self, exc_type: Any, exc_value: Any, exc_traceback: Any) -> None: if exc_type is not None: try: - self._parent._fs.removetree(self._name) + self._parent._fs.rm(self._name, recursive=True) except Exception: # pragma: no cover pass else: new_iterations = self._parent._iterations + [self._name] - self._parent._fs.writetext( - _CHECKPOINT_STATE_FILE, json.dumps(new_iterations) - ) + with self._parent._fs.open(_CHECKPOINT_STATE_FILE, "w") as f: + json.dump(new_iterations, f) self._parent._iterations = new_iterations diff --git a/tune/concepts/dataset.py b/tune/concepts/dataset.py index 01e7673..f30b00f 100644 --- a/tune/concepts/dataset.py +++ b/tune/concepts/dataset.py @@ -4,6 +4,7 @@ from uuid import uuid4 import cloudpickle +import fsspec import numpy as np import pandas as pd from fugue import ( @@ -17,7 +18,8 @@ WorkflowDataFrame, WorkflowDataFrames, ) -from triad import FileSystem, ParamDict, assert_or_throw, to_uuid +from triad import ParamDict, assert_or_throw, to_uuid + from tune._utils import from_base64, to_base64 from tune.concepts.flow import Trial from tune.concepts.space import Space @@ -264,7 +266,7 @@ def transform(self, df: LocalDataFrame) -> LocalDataFrame: fp = os.path.join(p, str(uuid4()) + ".parquet") first = df.peek_dict() keys = [first[x] for x in self.key_schema.names] - fs = FileSystem() + fs, _ = fsspec.core.url_to_fs(fp) with fs.open(fp, "wb") as handler: df.as_pandas().to_parquet(handler) return ArrayDataFrame([keys + [fp]], self.output_schema) @@ -389,12 +391,12 @@ def _get_trials_from_row(row: Dict[str, Any], with_dfs: bool = True) -> Iterable yield from from_base64(row[TUNE_DATASET_TRIALS]) else: dfs: Dict[str, Any] = {} - fs = FileSystem() for k, v in row.items(): if k.startswith(TUNE_DATASET_DF_PREFIX): key = k[len(TUNE_DATASET_DF_PREFIX) :] if v is not None: - with fs.open(v, "rb") as handler: + fs, uri = fsspec.core.url_to_fs(v) + with fs.open(uri, "rb") as handler: dfs[key] = pd.read_parquet(handler) for params in from_base64(row[TUNE_DATASET_TRIALS]): yield params.with_dfs(dfs) diff --git a/tune/iterative/objective.py b/tune/iterative/objective.py index 92ced24..bced79a 100644 --- a/tune/iterative/objective.py +++ b/tune/iterative/objective.py @@ -1,11 +1,11 @@ -import os import tempfile from typing import Callable, List, Optional from uuid import uuid4 import cloudpickle -from fs.base import FS as FSBase -from triad import FileSystem +import fsspec +from fsspec.implementations.dirfs import DirFileSystem + from tune.concepts.checkpoint import Checkpoint from tune.concepts.flow import Monitor, Trial, TrialDecision, TrialJudge, TrialReport @@ -30,10 +30,10 @@ def rung(self) -> int: def generate_sort_metric(self, value: float) -> float: return value - def load_checkpoint(self, fs: FSBase) -> None: # pragma: no cover + def load_checkpoint(self, fs: DirFileSystem) -> None: # pragma: no cover return - def save_checkpoint(self, fs: FSBase) -> None: # pragma: no cover + def save_checkpoint(self, fs: DirFileSystem) -> None: # pragma: no cover return def initialize(self) -> None: # pragma: no cover @@ -57,10 +57,11 @@ def run( self, trial: Trial, judge: TrialJudge, - checkpoint_basedir_fs: FSBase, + checkpoint_basedir_fs: DirFileSystem, ) -> None: + checkpoint_basedir_fs.makedirs(trial.trial_id, exist_ok=True) checkpoint = Checkpoint( - checkpoint_basedir_fs.makedir(trial.trial_id, recreate=True) + DirFileSystem(path=trial.trial_id, fs=checkpoint_basedir_fs) ) if not judge.can_accept(trial): return @@ -68,7 +69,8 @@ def run( self.initialize() try: if len(checkpoint) > 0: - self._rung = int(checkpoint.latest.readtext("__RUNG__")) + 1 + with checkpoint.latest.open("__RUNG__", "r") as f: + self._rung = int(f.read()) + 1 self.load_checkpoint(checkpoint.latest) budget = judge.get_budget(trial, self.rung) while budget > 0: @@ -79,7 +81,8 @@ def run( decision = judge.judge(report) if decision.should_checkpoint: with checkpoint.create() as fs: - fs.writetext("__RUNG__", str(self.rung)) + with fs.open("__RUNG__", "w") as f: + f.write(str(self.rung)) self.save_checkpoint(fs) budget = decision.budget self._rung += 1 @@ -97,8 +100,12 @@ def validate_iterative_objective( monitor: Optional[Monitor] = None, ) -> None: path = checkpoint_path if checkpoint_path != "" else tempfile.gettempdir() - _basefs = FileSystem() - basefs = _basefs.makedirs(os.path.join(path, str(uuid4())), recreate=True) + fs, uri = fsspec.core.url_to_fs(path) + fs.makedirs(uri, exist_ok=True) + dfs = DirFileSystem(path=uri, fs=fs) + uid = str(uuid4()) + dfs.makedirs(uid, exist_ok=True) + basefs = DirFileSystem(path=uid, fs=dfs) j = _Validator(monitor, budgets, continuous=continuous) if continuous: f = cloudpickle.loads(cloudpickle.dumps(func)).copy() @@ -124,7 +131,6 @@ def reports(self) -> List[TrialReport]: return self._reports def can_accept(self, trial: Trial) -> bool: - return True def get_budget(self, trial: Trial, rung: int) -> float: diff --git a/tune/iterative/sha.py b/tune/iterative/sha.py index c9f4605..2182e12 100644 --- a/tune/iterative/sha.py +++ b/tune/iterative/sha.py @@ -1,9 +1,11 @@ from typing import Optional -from triad import FileSystem +import fsspec +from fsspec.implementations.dirfs import DirFileSystem + +from tune.concepts.flow import Trial, TrialDecision, TrialJudge, TrialReport from tune.iterative.objective import IterativeObjectiveFunc from tune.noniterative.objective import NonIterativeObjectiveFunc -from tune.concepts.flow import Trial, TrialDecision, TrialJudge, TrialReport class _NonIterativeObjectiveWrapper(NonIterativeObjectiveFunc): @@ -23,10 +25,11 @@ def generate_sort_metric(self, value: float) -> float: def run(self, trial: Trial) -> TrialReport: # pragma: no cover judge = _NonIterativeJudgeWrapper(self._budget) - base_fs = FileSystem() - fs = base_fs.makedirs(self._checkpoint_path, recreate=True) + base_fs, uri = fsspec.core.url_to_fs(self._checkpoint_path) + fs = base_fs.makedirs(uri, exist_ok=True) + cfs = DirFileSystem(path=uri, fs=fs) self._func = self._func.copy() - self._func.run(trial, judge=judge, checkpoint_basedir_fs=fs) + self._func.run(trial, judge=judge, checkpoint_basedir_fs=cfs) return judge.report diff --git a/tune/iterative/study.py b/tune/iterative/study.py index c0ddee3..fd52ad1 100644 --- a/tune/iterative/study.py +++ b/tune/iterative/study.py @@ -1,10 +1,12 @@ from typing import Any, Callable, Dict, Iterable -from triad import FileSystem -from tune.constants import TUNE_REPORT_ADD_SCHEMA +import fsspec +from fsspec.implementations.dirfs import DirFileSystem + from tune.concepts.dataset import StudyResult, TuneDataset, _get_trials_from_row -from tune.iterative.objective import IterativeObjectiveFunc from tune.concepts.flow import RemoteTrialJudge, TrialCallback, TrialJudge +from tune.constants import TUNE_REPORT_ADD_SCHEMA +from tune.iterative.objective import IterativeObjectiveFunc class IterativeStudy: @@ -28,8 +30,9 @@ def _compute( df: Iterable[Dict[str, Any]], entrypoint: Callable[[str, Dict[str, Any]], Any], ) -> Iterable[Dict[str, Any]]: - fs = FileSystem() - ck_fs = fs.makedirs(self._checkpoint_path, recreate=True) + fs, uri = fsspec.core.url_to_fs(self._checkpoint_path) + fs.makedirs(uri, exist_ok=True) + ck_fs = DirFileSystem(path=uri, fs=fs) for row in df: for trial in _get_trials_from_row(row): rjudge = RemoteTrialJudge(entrypoint) diff --git a/tune_sklearn/objective.py b/tune_sklearn/objective.py index b938d65..258edb7 100644 --- a/tune_sklearn/objective.py +++ b/tune_sklearn/objective.py @@ -3,11 +3,11 @@ from uuid import uuid4 import cloudpickle +import fsspec import numpy as np import pandas as pd from sklearn.metrics import get_scorer from sklearn.model_selection import cross_val_score -from triad import FileSystem from tune import NonIterativeObjectiveFunc, Trial, TrialReport from tune.api.factory import TUNE_OBJECT_FACTORY @@ -65,7 +65,8 @@ def run(self, trial: Trial) -> TrialReport: metadata = dict(model=self._model_expr) if self._checkpoint_path is not None: fp = os.path.join(self._checkpoint_path, str(uuid4()) + ".pkl") - with FileSystem().openbin(fp, mode="wb") as f: + fs, uri = fsspec.core.url_to_fs(fp) + with fs.open(uri, mode="wb") as f: cloudpickle.dump(model, f) metadata["checkpoint_path"] = fp return TrialReport( @@ -120,7 +121,8 @@ def run(self, trial: Trial) -> TrialReport: if self._checkpoint_path is not None: model.fit(self._train_x, self._train_y) fp = os.path.join(self._checkpoint_path, str(uuid4()) + ".pkl") - with FileSystem().openbin(fp, mode="wb") as f: + fs, uri = fsspec.core.url_to_fs(fp) + with fs.open(uri, mode="wb") as f: cloudpickle.dump(model, f) metadata["checkpoint_path"] = fp metric = float(np.mean(s)) diff --git a/tune_tensorflow/objective.py b/tune_tensorflow/objective.py index 02821f5..64e5120 100644 --- a/tune_tensorflow/objective.py +++ b/tune_tensorflow/objective.py @@ -1,9 +1,9 @@ from typing import Dict, Optional, Type -from fs.base import FS as FSBase +from fsspec.implementations.dirfs import DirFileSystem from tensorflow import keras -from tune import IterativeObjectiveFunc, TrialReport +from tune import IterativeObjectiveFunc, TrialReport from tune_tensorflow.spec import KerasTrainingSpec from tune_tensorflow.utils import extract_keras_spec @@ -32,13 +32,15 @@ def copy(self) -> "KerasObjective": def generate_sort_metric(self, value: float) -> float: return self.spec.generate_sort_metric(value) - def save_checkpoint(self, fs: FSBase) -> None: + def save_checkpoint(self, fs: DirFileSystem) -> None: self.spec.save_checkpoint(fs, self.model) - fs.writetext("epoch", str(self._epochs)) + with fs.open("epoch", "w") as f: + f.write(str(self._epochs)) - def load_checkpoint(self, fs: FSBase) -> None: + def load_checkpoint(self, fs: DirFileSystem) -> None: self.spec.load_checkpoint(fs, self.model) - self._epochs = int(fs.readtext("epoch")) + with fs.open("epoch", "r") as f: + self._epochs = int(f.read()) def run_single_rung(self, budget: float) -> TrialReport: trial = self.current_trial diff --git a/tune_tensorflow/spec.py b/tune_tensorflow/spec.py index 989716b..f6460cd 100644 --- a/tune_tensorflow/spec.py +++ b/tune_tensorflow/spec.py @@ -1,10 +1,10 @@ import tempfile from typing import Any, Dict, List, Tuple -from fs.base import FS as FSBase +from fsspec.implementations.dirfs import DirFileSystem from tensorflow import keras -from triad import FileSystem -from tune.concepts.space import to_template, TuningParametersTemplate + +from tune.concepts.space import TuningParametersTemplate, to_template class KerasTrainingSpec: @@ -38,17 +38,18 @@ def get_compile_params(self) -> Dict[str, Any]: def get_model(self) -> keras.models.Model: raise NotImplementedError # pragma: no cover - def save_checkpoint(self, fs: FSBase, model: keras.models.Model) -> None: + def save_checkpoint(self, fs: DirFileSystem, model: keras.models.Model) -> 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+- Makefile | 2 +- 5 files changed, 28 insertions(+), 12 deletions(-) diff --git a/.github/workflows/lint.yml b/.github/workflows/lint.yml index 13f04ff..ac81a32 100644 --- a/.github/workflows/lint.yml +++ b/.github/workflows/lint.yml @@ -9,20 +9,29 @@ on: pull_request: branches: [ master ] +env: + UV_NO_SYNC: 1 + jobs: build: runs-on: ubuntu-latest strategy: matrix: - python-version: [3.8] + python-version: ["3.10"] steps: - - uses: actions/checkout@v2 - - name: Set up Python ${{ matrix.python-version }} - uses: actions/setup-python@v1 + - name: Clone repo + uses: actions/checkout@v5 + + - name: Setup uv ${{ matrix.python-version }} + uses: astral-sh/setup-uv@v5 with: + enable-cache: false + cache-dependency-glob: "pyproject.toml" python-version: ${{ matrix.python-version }} + - name: Install dependencies run: make devenv + - name: Lint run: make lint diff --git a/.github/workflows/publish.yml b/.github/workflows/publish.yml index e31bb51..d34744d 100644 --- a/.github/workflows/publish.yml +++ b/.github/workflows/publish.yml @@ -16,7 +16,7 @@ jobs: - name: Set up Python uses: actions/setup-python@v1 with: - python-version: '3.8' + python-version: '3.11' - name: Install dependencies run: make devenv - name: Test diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml index bf023fe..a1b9fa8 100644 --- a/.github/workflows/test.yml +++ b/.github/workflows/test.yml @@ -14,20 +14,27 @@ jobs: runs-on: ubuntu-latest strategy: matrix: - python-version: [3.8, 3.9, "3.10", "3.11", "3.12"] + python-version: [3.9, "3.10", "3.11", "3.12"] steps: - - uses: actions/checkout@v2 - - name: Set up Python ${{ matrix.python-version }} - uses: actions/setup-python@v1 + - name: Clone repo + uses: actions/checkout@v5 + + - name: Setup uv ${{ matrix.python-version }} + uses: astral-sh/setup-uv@v5 with: + enable-cache: false + cache-dependency-glob: "pyproject.toml" python-version: ${{ matrix.python-version }} + - name: Install dependencies run: make devenv + - name: Test run: make test + - name: "Upload coverage to Codecov" - if: matrix.python-version == '3.10' + if: matrix.python-version == '3.11' uses: codecov/codecov-action@v4 with: fail_ci_if_error: false diff --git a/.github/workflows/testwin.yml b/.github/workflows/testwin.yml index 286d36d..bac725b 100644 --- a/.github/workflows/testwin.yml +++ b/.github/workflows/testwin.yml @@ -14,7 +14,7 @@ jobs: runs-on: windows-latest strategy: matrix: - python-version: [ 3.8, 3.9, "3.10", "3.11", "3.12"] + python-version: [ 3.9, "3.10", "3.11", "3.12"] steps: - uses: actions/checkout@v2 diff --git a/Makefile b/Makefile index cdc6fa1..896242c 100644 --- a/Makefile +++ b/Makefile @@ -33,7 +33,7 @@ docs: sphinx-build -b html docs/ docs/build/ lint: - pre-commit run --all-files + uv run pre-commit run --all-files package: rm -rf dist/* From d9a1eb8af743626986ce9fbf0a7791bd0c81ef82 Mon Sep 17 00:00:00 2001 From: Han Wang Date: Fri, 14 Nov 2025 00:49:11 +0000 Subject: [PATCH 3/8] update --- .github/workflows/testwin.yml | 12 +++++++++--- 1 file changed, 9 insertions(+), 3 deletions(-) diff --git a/.github/workflows/testwin.yml b/.github/workflows/testwin.yml index bac725b..0a4398d 100644 --- a/.github/workflows/testwin.yml +++ b/.github/workflows/testwin.yml @@ -17,12 +17,18 @@ jobs: python-version: [ 3.9, "3.10", "3.11", "3.12"] steps: - - uses: actions/checkout@v2 - - name: Set up Python ${{ matrix.python-version }} - uses: actions/setup-python@v1 + - name: Clone repo + uses: actions/checkout@v5 + + - name: Setup uv ${{ matrix.python-version }} + uses: astral-sh/setup-uv@v5 with: + enable-cache: false + cache-dependency-glob: "pyproject.toml" python-version: ${{ matrix.python-version }} + - name: Install dependencies run: make devenv + - name: Test run: make testcore From ba6114593d958257ecb72e6c6061156e3ac7aee0 Mon Sep 17 00:00:00 2001 From: Han Wang Date: Fri, 14 Nov 2025 05:24:00 +0000 Subject: [PATCH 4/8] fix workflows --- .github/workflows/publish.yml | 61 +++++++++++++++++++++-------------- Makefile | 10 ++++++ RELEASE.md | 5 +++ pyproject.toml | 2 +- scripts/validate_release.py | 41 +++++++++++++++++++++++ tune_version/__init__.py | 2 +- 6 files changed, 94 insertions(+), 27 deletions(-) create mode 100644 scripts/validate_release.py diff --git a/.github/workflows/publish.yml b/.github/workflows/publish.yml index d34744d..19a2f7a 100644 --- a/.github/workflows/publish.yml +++ b/.github/workflows/publish.yml @@ -1,32 +1,43 @@ -# This workflows will upload a Python Package using Twine when a release is created -# For more information see: https://help.github.com/en/actions/language-and-framework-guides/using-python-with-github-actions#publishing-to-package-registries - -name: Publish +name: Publish to PyPI on: - release: - types: [created] + push: + tags: + - 'v*' jobs: - deploy: + publish: + name: Publish to PyPI runs-on: ubuntu-latest + environment: + name: pypi + url: https://pypi.org/p/tune + permissions: + contents: read + id-token: write # Required for trusted publishing (OIDC) + env: + UV_PYTHON: "3.11" steps: - - uses: actions/checkout@v2 - - name: Set up Python - uses: actions/setup-python@v1 - with: - python-version: '3.11' - - name: Install dependencies - run: make devenv - - name: Test - if: "!github.event.release.prerelease" - run: make test - - name: Build and publish - env: - RELEASE_TAG: ${{ github.event.release.tag_name }} - TWINE_USERNAME: __token__ - TWINE_PASSWORD: ${{ secrets.PYPI_TOKEN }} - run: | - make package - twine upload dist/* + - name: Checkout code + uses: actions/checkout@v5 + + - name: Setup uv + uses: astral-sh/setup-uv@v5 + with: + enable-cache: true + cache-dependency-glob: "pyproject.toml" + + - name: Setup devenv + run: > + make devenv + + - name: Validate release tag + run: > + uv run -m scripts.validate_release + + - name: Build package + run: uv build + + - name: Publish to PyPI + run: uv publish diff --git a/Makefile b/Makefile index 896242c..0aeff75 100644 --- a/Makefile +++ b/Makefile @@ -50,3 +50,13 @@ test: testcore: uv run pytest tests/tune tests/tune_notebook tests/tune_hyperopt tests/tune_optuna + +release_branch: + $(eval VERSION := $(shell python -c "import tune_version; print(tune_version.__version__)")) + @if echo "$(VERSION)" | grep -q "dev"; then \ + git tag v$(VERSION); \ + git push origin v$(VERSION); \ + else \ + echo "Error: Can only release dev versions (current: $(VERSION))"; \ + exit 1; \ + fi diff --git a/RELEASE.md b/RELEASE.md index 935dba5..3f1fcb8 100644 --- a/RELEASE.md +++ b/RELEASE.md @@ -1,5 +1,10 @@ # Release Notes +## 0.1.7 + +- Remove dependency on package `fs` +- Move to uv + ## 0.1.6 - Support Python 3.12 diff --git a/pyproject.toml b/pyproject.toml index 88f5415..23584d8 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -61,7 +61,7 @@ optuna = "tune_optuna" monitor = "tune_notebook" [tool.setuptools] -packages = { find = {} } +packages = { find = { where = ["."], include = ["tune*"] } } [tool.setuptools.dynamic] version = { attr = "tune_version.__version__" } diff --git a/scripts/validate_release.py b/scripts/validate_release.py new file mode 100644 index 0000000..74c7d0b --- /dev/null +++ b/scripts/validate_release.py @@ -0,0 +1,41 @@ +#!/usr/bin/env python3 +"""Setup script that validates GitHub release tag matches package version.""" + +import os +import sys + +from tune_version import __version__ + + +def validate_release_tag(): + """Validate that GITHUB_REF matches the package version.""" + github_ref = os.environ.get("GITHUB_REF", "") + + # Skip validation if not in a GitHub release context + if not github_ref.startswith("refs/tags/"): + raise Exception( + "⚠️ Not running in a GitHub release context - skipping tag validation" + ) + + tag = github_ref.replace("refs/tags/", "") + + # Remove 'v' prefix if present + tag_version = tag.lstrip("v") + package_version = __version__ + + print(f"GitHub release tag: {tag}") + print(f"Package version: {package_version}") + + if tag_version != package_version: + print( + f"❌ ERROR: Tag version '{tag_version}' does not match package version '{package_version}'" + ) + print( + f" Please update tsmp/__init__.py to __version__ = '{tag_version}'") + sys.exit(1) + + print(f"✅ Version validation passed: {tag_version}") + + +if __name__ == "__main__": + validate_release_tag() diff --git a/tune_version/__init__.py b/tune_version/__init__.py index 0a8da88..80c80ae 100644 --- a/tune_version/__init__.py +++ b/tune_version/__init__.py @@ -1 +1 @@ -__version__ = "0.1.6" +__version__ = "0.1.7.dev0" From 17645feeffb3813ba86b9d9a5dc724dbd0edbeb7 Mon Sep 17 00:00:00 2001 From: Han Wang Date: Fri, 14 Nov 2025 05:25:41 +0000 Subject: [PATCH 5/8] update --- tune_version/__init__.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/tune_version/__init__.py b/tune_version/__init__.py index 80c80ae..1d12efb 100644 --- a/tune_version/__init__.py +++ b/tune_version/__init__.py @@ -1 +1 @@ -__version__ = "0.1.7.dev0" +__version__ = "0.1.7.dev1" From 393432b46a3e2109c2109a7cb04ea0e7820163bc Mon Sep 17 00:00:00 2001 From: Han Wang Date: Fri, 14 Nov 2025 05:28:04 +0000 Subject: [PATCH 6/8] update --- .github/workflows/publish.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/publish.yml b/.github/workflows/publish.yml index 19a2f7a..5e37823 100644 --- a/.github/workflows/publish.yml +++ b/.github/workflows/publish.yml @@ -10,7 +10,7 @@ jobs: name: Publish to PyPI runs-on: ubuntu-latest environment: - name: pypi + name: release url: https://pypi.org/p/tune permissions: contents: read From 09832cb7399c81ec61ec27849934067a54bea72e Mon Sep 17 00:00:00 2001 From: Han Wang Date: Fri, 14 Nov 2025 05:28:29 +0000 Subject: [PATCH 7/8] update --- tune_version/__init__.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/tune_version/__init__.py b/tune_version/__init__.py index 1d12efb..045f1fa 100644 --- a/tune_version/__init__.py +++ b/tune_version/__init__.py @@ -1 +1 @@ -__version__ = "0.1.7.dev1" +__version__ = "0.1.7.dev2" From de8a6d3b399249b1f5ee895714f8f9ac2eae9764 Mon Sep 17 00:00:00 2001 From: Han Wang Date: Fri, 14 Nov 2025 05:35:10 +0000 Subject: [PATCH 8/8] update --- .github/workflows/publish.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/publish.yml b/.github/workflows/publish.yml index 5e37823..49d7ba7 100644 --- a/.github/workflows/publish.yml +++ b/.github/workflows/publish.yml @@ -25,7 +25,7 @@ jobs: - name: Setup uv uses: astral-sh/setup-uv@v5 with: - enable-cache: true + enable-cache: false cache-dependency-glob: "pyproject.toml" - name: Setup devenv