From 3bf380c3e9f8e4fbba72d67368a337c26a25491e Mon Sep 17 00:00:00 2001 From: Richard Eckart de Castilho Date: Sat, 4 May 2024 20:53:48 +0200 Subject: [PATCH] #314 - Switch to poetry - Remove setup.py - Switch to pyproject.toml - Update GitHub actions to use poetry - Clean up code a bit according to feedback from flake8 - Update release guide --- .coveragerc | 2 - .github/workflows/publish_to_pypi.yml | 9 +- .github/workflows/run_tests.yml | 15 +- Makefile | 47 +- README.rst | 5 +- cassis/__version__.py | 1 - cassis/cas.py | 4 +- cassis/xmi.py | 4 +- poetry.lock | 1018 +++++++++++++++++++++++++ pyproject.toml | 70 ++ setup.py | 127 --- tests/test_cas.py | 8 +- tests/test_json.py | 2 +- tests/test_typesystem.py | 11 +- tests/test_util.py | 2 - tests/test_xmi.py | 33 +- 16 files changed, 1173 insertions(+), 185 deletions(-) delete mode 100644 cassis/__version__.py create mode 100644 poetry.lock create mode 100644 pyproject.toml delete mode 100644 setup.py diff --git a/.coveragerc b/.coveragerc index 4be8c55..af167bc 100644 --- a/.coveragerc +++ b/.coveragerc @@ -1,8 +1,6 @@ [run] source=cassis omit= - setup.py cassis/__init__.py - cassis/__version__.py tests/* docs/* diff --git a/.github/workflows/publish_to_pypi.yml b/.github/workflows/publish_to_pypi.yml index db28dfa..90c710e 100644 --- a/.github/workflows/publish_to_pypi.yml +++ b/.github/workflows/publish_to_pypi.yml @@ -15,13 +15,12 @@ jobs: python-version: '3.11' - name: Install dependencies run: | - pip install --upgrade -e .[test] + pip install poetry + make dependencies - name: Run tests - run: | - pytest + run: make unit-tests - name: Build package - run: | - python setup.py sdist + run: make build - name: Publish package to TestPyPI if: github.event_name == 'push' && startsWith(github.ref, 'refs/tags') uses: pypa/gh-action-pypi-publish@release/v1 diff --git a/.github/workflows/run_tests.yml b/.github/workflows/run_tests.yml index 30844f5..59bdb45 100644 --- a/.github/workflows/run_tests.yml +++ b/.github/workflows/run_tests.yml @@ -22,17 +22,14 @@ jobs: python-version: ${{ matrix.python-version }} - name: Install dependencies run: | - pip install --upgrade -e .[test] - pip install flake8 + pip install poetry + make dependencies + - name: Lint with flake8 - run: | - # stop the build if there are Python syntax errors or undefined names - flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics - # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide - flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics + run: make lint + - name: Run tests - run: | - pytest --cov=./ --cov-report=xml + run: make coverage - name: Upload coverage to Codecov uses: codecov/codecov-action@v4 diff --git a/Makefile b/Makefile index d5528c4..04d6bf0 100644 --- a/Makefile +++ b/Makefile @@ -1,13 +1,50 @@ +.PHONY: docs tests PYTHON_FILES = cassis tests -test: - python -m pytest -m "not performance" tests/ +# Dependencies +dependencies: + poetry install +# Tests +unit-tests: + poetry run py.test --cov=cassis --cov-branch --cov-fail-under=90 tests + +tests: unit-tests integ-tests + +coverage: + poetry run py.test --cov=cassis --cov-branch --cov-fail-under=90 --cov-report=xml:coverage.xml -m "not performance" tests + +# Static analysis/linting format: - black -l 120 cassis/ - black -l 120 tests/ + black cassis/ + black tests/ isort --profile black $(PYTHON_FILES) --multi-line=3 --trailing-comma --force-grid-wrap=0 --use-parentheses --line-width=120 +lint: + # stop the build if there are Python syntax errors or undefined names + poetry run flake8 --select=E9,F63,F7,F82 --show-source $(PYTHON_FILES) + # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide + # flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics + poetry run flake8 --exit-zero $(PYTHON_FILES) + +# Docs +docs: + poetry run mkdocs serve html: - cd docs && make html \ No newline at end of file + cd docs && make html + +# Building and publishing +build: unit-tests lint + poetry build + +publish: build + poetry publish + +# CI + +ci-publish: + poetry publish --build --username "${PYPI_USERNAME}" --password "${PYPI_PASSWORD}" --no-interaction + +ci-bump-version: + poetry run bump2version patch diff --git a/README.rst b/README.rst index 288f32f..bac2d79 100644 --- a/README.rst +++ b/README.rst @@ -489,9 +489,8 @@ Release - Make sure all issues for the milestone are completed, otherwise move them to the next - Checkout the ``main`` branch -- Bump the version in ``cassis/__version__.py`` to a stable one, e.g. ``__version__ = "0.6.0"``, commit and push, wait until the build completed. An example commit message would be ``No issue. Release 0.6.0`` +- Bump the version in ``pyproject.toml`` to a stable one, e.g. ``__version__ = "0.6.0"``, commit and push, wait until the build completed. An example commit message would be ``No issue. Release 0.6.0`` - Create a tag for that version via e.g. ``git tag v0.6.0`` and push the tags via ``git push --tags``. Pushing a tag triggers the release to pypi -- Bump the version in ``cassis/__version__.py`` to the next development version, e.g. ``0.7.0-dev``, commit and push that. An example commit message would be ``No issue. Bump version after release`` +- Bump the version in ``pyproject.toml`` to the next development version, e.g. ``0.7.0-dev``, commit and push that. An example commit message would be ``No issue. Bump version after release`` - Once the build has completed and pypi accepted the new version, go to the Github release and write the changelog based on the issues in the respective milestone - Create a new milestone for the next version - diff --git a/cassis/__version__.py b/cassis/__version__.py deleted file mode 100644 index 2aceaf4..0000000 --- a/cassis/__version__.py +++ /dev/null @@ -1 +0,0 @@ -__version__ = "0.10.0-dev" diff --git a/cassis/cas.py b/cassis/cas.py index a6206ff..1125abc 100644 --- a/cassis/cas.py +++ b/cassis/cas.py @@ -13,6 +13,8 @@ from cassis.typesystem import ( FEATURE_BASE_NAME_HEAD, + FEATURE_BASE_NAME_LANGUAGE, + TYPE_NAME_DOCUMENT_ANNOTATION, TYPE_NAME_FS_ARRAY, TYPE_NAME_FS_LIST, TYPE_NAME_SOFA, @@ -21,8 +23,6 @@ TypeCheckError, TypeSystem, TypeSystemMode, - TYPE_NAME_DOCUMENT_ANNOTATION, - FEATURE_BASE_NAME_LANGUAGE, ) _validator_optional_string = validators.optional(validators.instance_of(str)) diff --git a/cassis/xmi.py b/cassis/xmi.py index d9d7b35..2e1bfe2 100644 --- a/cassis/xmi.py +++ b/cassis/xmi.py @@ -12,7 +12,6 @@ from cassis.typesystem import ( _LIST_TYPES, _PRIMITIVE_ARRAY_TYPES, - _PRIMITIVE_LIST_TYPES, FEATURE_BASE_NAME_BEGIN, FEATURE_BASE_NAME_END, FEATURE_BASE_NAME_HEAD, @@ -295,7 +294,8 @@ def deserialize(self, source: Union[IO, str], typesystem: TypeSystem, lenient: b else: view = cas.create_view(sofa.sofaID, xmiID=sofa.xmiID, sofaNum=sofa.sofaNum) - # Directly set the sofaString and offsetConverter for the sofa to avoid recomputing the offset convertion (slow!) when using the setter + # Directly set the sofaString and offsetConverter for the sofa to avoid recomputing the offset convertion + # (slow!) when using the setter view.get_sofa()._sofaString = sofa.sofaString view.get_sofa()._offset_converter = sofa._offset_converter view.sofa_mime = sofa.mimeType diff --git a/poetry.lock b/poetry.lock new file mode 100644 index 0000000..71295b5 --- /dev/null +++ b/poetry.lock @@ -0,0 +1,1018 @@ +# This file is 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test_dependencies, - "dev": dev_dependencies, - "doc": doc_dependencies -} - -# The rest you shouldn"t have to touch too much :) -# ------------------------------------------------ -# Except, perhaps the License and Trove Classifiers! -# If you do change the License, remember to change the Trove Classifier for that! - -here = os.path.abspath(os.path.dirname(__file__)) - -# Import the README and use it as the long-description. -# Note: this will only work if "README.rst" is present in your MANIFEST.in file! -try: - with io.open(os.path.join(here, "README.rst"), encoding="utf-8") as f: - long_description = "\n" + f.read() -except FileNotFoundError: - long_description = DESCRIPTION - -# Load the package"s __version__.py module as a dictionary. -about = {} -with open(os.path.join(here, "cassis", "__version__.py")) as f: - exec(f.read(), about) - - -# Where the magic happens: -setup( - name=NAME, - version=about["__version__"], - description=DESCRIPTION, - long_description=long_description, - long_description_content_type="text/x-rst", - author=AUTHOR, - author_email=EMAIL, - python_requires=REQUIRES_PYTHON, - url=HOMEPAGE, - keywords="uima dkpro cas xmi", - - project_urls={ - "Bug Tracker": "https://github.com/dkpro/dkpro-cassis/issues", - "Documentation": "https://cassis.readthedocs.org/", - "Source Code": "https://github.com/dkpro/dkpro-cassis", - }, - - packages=find_packages(exclude="tests"), - package_data={"cassis": ["resources/*.xml"]}, - - install_requires=install_requires, - test_suite="tests", - - tests_require=test_dependencies, - extras_require=extras, - - include_package_data=True, - license="Apache License 2.0", - classifiers=[ - # Trove classifiers - # Full list: https://pypi.python.org/pypi?%3Aaction=list_classifiers - "Development Status :: 4 - Beta", - "Intended Audience :: Developers", - "Intended Audience :: Science/Research", - "License :: OSI Approved :: Apache Software License", - "Programming Language :: Python :: 3 :: Only", - "Programming Language :: Python :: 3.7", - "Programming Language :: Python :: 3.8", - "Programming Language :: Python :: 3.9", - "Programming Language :: Python :: 3.10", - "Programming Language :: Python :: 3.11", - "Topic :: Software Development :: Libraries", - "Topic :: Scientific/Engineering :: Human Machine Interfaces", - "Topic :: Text Processing :: Linguistic" - ], -) diff --git a/tests/test_cas.py b/tests/test_cas.py index f09f06d..670db07 100644 --- a/tests/test_cas.py +++ b/tests/test_cas.py @@ -20,8 +20,8 @@ def test_default_typesystem_is_not_shared(): cas1 = Cas() cas2 = Cas() - t1 = cas1.typesystem.create_type(name="test.Type") - t2 = cas2.typesystem.create_type(name="test.Type") + cas1.typesystem.create_type(name="test.Type") + cas2.typesystem.create_type(name="test.Type") def test_default_typesystem_is_not_shared_load_from_xmi(empty_cas_xmi): @@ -29,8 +29,8 @@ def test_default_typesystem_is_not_shared_load_from_xmi(empty_cas_xmi): cas1 = load_cas_from_xmi(empty_cas_xmi) cas2 = load_cas_from_xmi(empty_cas_xmi) - t1 = cas1.typesystem.create_type(name="test.Type") - t2 = cas2.typesystem.create_type(name="test.Type") + cas1.typesystem.create_type(name="test.Type") + cas2.typesystem.create_type(name="test.Type") # View diff --git a/tests/test_json.py b/tests/test_json.py index 1509a5c..810e421 100644 --- a/tests/test_json.py +++ b/tests/test_json.py @@ -1,6 +1,6 @@ import json -from cassis.typesystem import TYPE_NAME_ANNOTATION, TypeSystemMode, TYPE_NAME_DOCUMENT_ANNOTATION +from cassis.typesystem import TYPE_NAME_ANNOTATION, TYPE_NAME_DOCUMENT_ANNOTATION, TypeSystemMode from tests.fixtures import * from tests.test_files.test_cas_generators import MultiFeatureRandomCasGenerator, MultiTypeRandomCasGenerator from tests.util import assert_json_equal diff --git a/tests/test_typesystem.py b/tests/test_typesystem.py index d5a84c8..1f0ecbf 100644 --- a/tests/test_typesystem.py +++ b/tests/test_typesystem.py @@ -10,6 +10,7 @@ TYPE_NAME_ANNOTATION_BASE, TYPE_NAME_ARRAY_BASE, TYPE_NAME_BOOLEAN, + TYPE_NAME_DOCUMENT_ANNOTATION, TYPE_NAME_INTEGER, TYPE_NAME_SOFA, TYPE_NAME_STRING, @@ -17,7 +18,6 @@ TYPE_NAME_TOP, TypeCheckError, is_predefined, - TYPE_NAME_DOCUMENT_ANNOTATION, ) from tests.fixtures import * from tests.util import assert_xml_equal @@ -315,7 +315,6 @@ def test_type_inherits_from_annotation(): ], ) def test_is_predefined(type_name: str, expected: bool): - assert is_predefined(type_name) == expected @@ -498,7 +497,7 @@ def test_is_primitive_collection(type_name: str, expected: bool): ("uima.cas.DoubleArray", True), ], ) -def test_is_primitive_collection(type_name: str, expected: bool): +def test_is_primitive_array(type_name: str, expected: bool): typesystem = TypeSystem() assert typesystem.is_primitive_array(type_name) == expected @@ -883,9 +882,9 @@ def test_that_merging_types_creates_self_contained_type_system(): def test_that_dkpro_core_typeystem_can_be_loaded(): ts = load_dkpro_core_typesystem() - POS = ts.get_type("de.tudarmstadt.ukp.dkpro.core.api.lexmorph.type.pos.POS") - NamedEntity = ts.get_type("de.tudarmstadt.ukp.dkpro.core.api.ner.type.NamedEntity") - CoreferenceLink = ts.get_type("de.tudarmstadt.ukp.dkpro.core.api.coref.type.CoreferenceLink") + assert ts.get_type("de.tudarmstadt.ukp.dkpro.core.api.lexmorph.type.pos.POS") is not None + assert ts.get_type("de.tudarmstadt.ukp.dkpro.core.api.ner.type.NamedEntity") is not None + assert ts.get_type("de.tudarmstadt.ukp.dkpro.core.api.coref.type.CoreferenceLink") is not None # Type checking diff --git a/tests/test_util.py b/tests/test_util.py index 8a2fbd0..3a4a54b 100644 --- a/tests/test_util.py +++ b/tests/test_util.py @@ -1,5 +1,3 @@ -from pathlib import Path - from cassis.typesystem import TYPE_NAME_ANNOTATION, TYPE_NAME_FS_ARRAY from tests.fixtures import * from tests.test_files.test_cas_generators import MultiFeatureRandomCasGenerator, MultiTypeRandomCasGenerator diff --git a/tests/test_xmi.py b/tests/test_xmi.py index f6bb02b..aaf0d9b 100644 --- a/tests/test_xmi.py +++ b/tests/test_xmi.py @@ -65,7 +65,7 @@ def test_deserializing_from_string(small_typesystem_xml): - + """ load_cas_from_xmi(cas_xmi, typesystem=typesystem) @@ -102,7 +102,7 @@ def test_views_are_parsed(small_xmi, small_typesystem_xml): - + """ cas = load_cas_from_xmi(cas_xmi, typesystem=typesystem) @@ -302,11 +302,11 @@ def test_offsets_are_recomputed_when_sofa_string_changes(cas_with_smileys_xmi, d def test_offsets_work_for_empty_sofastring(): xmi = """ - - - - + + + + """ @@ -316,14 +316,15 @@ def test_offsets_work_for_empty_sofastring(): def test_that_invalid_offsets_remain_unmapped_on_import(): xmi = """ - - - - - + + + + + - """ + + """ # assert no exception with warnings.catch_warnings(record=True) as ws: @@ -361,14 +362,14 @@ def test_leniency_type_not_in_typesystem_lenient(cas_with_leniency_xmi, small_ty typesystem = load_typesystem(small_typesystem_xml) with pytest.warns(UserWarning): - cas = load_cas_from_xmi(cas_with_leniency_xmi, typesystem=typesystem, lenient=True) + load_cas_from_xmi(cas_with_leniency_xmi, typesystem=typesystem, lenient=True) def test_leniency_type_not_in_typesystem_not_lenient(cas_with_leniency_xmi, small_typesystem_xml): typesystem = load_typesystem(small_typesystem_xml) with pytest.raises(TypeNotFoundError): - cas = load_cas_from_xmi(cas_with_leniency_xmi, typesystem=typesystem, lenient=False) + load_cas_from_xmi(cas_with_leniency_xmi, typesystem=typesystem, lenient=False) def test_multiple_references_allowed_true():