Python 3.12 compatibility (#77)

* Add Python 3.12 to test-job matrix

* restructure project build

* fix: set requires-Python>=3.8

* use python build instead of setup.py in workflows

* run pre-commit

* add setuptools to deps

Author: tobiaslatour

.github/workflows/pipeline.yml

@@ -10,7 +10,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ["3.8", "3.10", "3.11"]
+        python-version: ["3.8", "3.10", "3.11", "3.12"]
         pymc-version: ["without", "'pymc>=5.0.0'"]
     steps:
     - uses: actions/checkout@v4
@@ -43,7 +43,7 @@ jobs:
         file: ./coverage.xml
     - name: Test Wheel build, install and import
       run: |
-        python setup.py bdist_wheel
+        python -m build
         twine check dist/*
         cd dist
         pip install bletl*.whl

.github/workflows/release.yml

@@ -26,7 +26,7 @@ jobs:
         pytest --cov=./bletl --cov-report xml --cov-report term-missing tests/
     - name: Build package
       run: |
-        python setup.py sdist bdist_wheel
+        python -m build
     - name: Check version number match
       run: |
         echo "GITHUB_REF: ${GITHUB_REF}"

bletl/__init__.py

@@ -18,6 +18,8 @@
 BioLector files, applying calibration transformations and representing them in a standardized
 format.
 """
+import importlib.metadata
+
 from . import utils
 from .core import get_parser, parse, parsers
 from .heuristics import find_do_peak
@@ -36,4 +38,4 @@
     NoMeasurementData,
 )
 
-__version__ = "1.5.1"
+__version__ = importlib.metadata.version(__package__ or __name__)

pyproject.toml

@@ -1,9 +1,48 @@
 # inspired by https://hynek.me/articles/sharing-your-labor-of-love-pypi-quick-and-dirty/
 
 [build-system]
-requires = ["setuptools", "wheel"]
+requires = ["setuptools>=61.0"]
 build-backend = "setuptools.build_meta"
 
+[project]
+name = "bletl"
+version = "1.5.2"
+description = "Package for parsing and transforming BioLector raw data."
+readme = "README.md"
+requires-python = ">=3.8"
+license = {text = "GNU Affero General Public License v3"}
+authors = [
+    {name = "Michael Osthege", email = "[email protected]"},
+]
+classifiers = [
+    "Programming Language :: Python",
+            "Operating System :: OS Independent",
+            "Programming Language :: Python :: 3.8",
+            "Programming Language :: Python :: 3.9",
+            "Programming Language :: Python :: 3.10",
+            "Programming Language :: Python :: 3.11",
+            "Intended Audience :: Science/Research",
+            "License :: OSI Approved :: GNU Affero General Public License v3",
+]
+dependencies = [
+    "csaps>=0.11",
+    "fastprogress",
+    "joblib",
+    "numpy",
+    "pandas",
+    "scipy",
+    "tsfresh",
+    "setuptools",
+]
+
+[project.urls]
+Homepage = "https://github.com/jubiotech/bletl"
+Documentation = "https://bletl.readthedocs.io/en/latest/"
+Download = "https://pypi.org/project/bletl/"
+
+[tool.setuptools]
+package-dir = {"bletl" = "bletl"}
+
 [tool.black]
 line-length = 110
 

requirements-dev.txt

@@ -5,4 +5,4 @@ pandas>=2.0.0
 pytest
 pytest-cov
 twine
-wheel
+build

requirements.txt

@@ -5,3 +5,4 @@ numpy
 pandas
 scipy
 tsfresh
+setuptools