Explicitly support Python 3.13; add to CI matrix (#2040)

Author: mr-c

.github/workflows/ci-tests.yml

@@ -32,7 +32,7 @@ jobs:
     strategy:
       matrix:
         py-ver-major: [3]
-        py-ver-minor: [8, 9, 10, 11, 12]
+        py-ver-minor: [8, 9, 10, 11, 12, 13]
         step: [lint, unit, bandit, mypy]
 
     env:

setup.py

@@ -145,7 +145,7 @@
             "galaxy-util <24.2",
         ],
     },
-    python_requires=">=3.8, <4",
+    python_requires=">=3.8, <3.14",
     use_scm_version=True,
     setup_requires=PYTEST_RUNNER + ["setuptools_scm>=8.0.4,<9"],
     test_suite="tests",
@@ -176,6 +176,7 @@
         "Programming Language :: Python :: 3.10",
         "Programming Language :: Python :: 3.11",
         "Programming Language :: Python :: 3.12",
+        "Programming Language :: Python :: 3.13",
         "Topic :: Scientific/Engineering",
         "Topic :: Scientific/Engineering :: Bio-Informatics",
         "Topic :: Scientific/Engineering :: Astronomy",

tox.ini

@@ -1,9 +1,9 @@
 [tox]
 envlist =
-  py3{8,9,10,11,12}-lint
-  py3{8,9,10,11,12}-unit
-  py3{8,9,10,11,12}-bandit
-  py3{8,9,10,11,12}-mypy
+  py3{8,9,10,11,12,13}-lint
+  py3{8,9,10,11,12,13}-unit
+  py3{8,9,10,11,12,13}-bandit
+  py3{8,9,10,11,12,13}-mypy
   py312-lintreadme
   py312-shellcheck
   py312-pydocstyle
@@ -21,16 +21,17 @@ python =
   3.10: py310
   3.11: py311
   3.12: py312
+  3.13: py313
 
 [testenv]
 skipsdist =
-  py3{8,9,10,11,12}-!{unit,mypy,lintreadme} = True
+  py3{8,9,10,11,12,13}-!{unit,mypy,lintreadme} = True
 
 description =
-  py3{8,9,10,11,12}-unit: Run the unit tests
-  py3{8,9,10,11,12}-lint: Lint the Python code
-  py3{8,9,10,11,12}-bandit: Search for common security issues
-  py3{8,9,10,11,12}-mypy: Check for type safety
+  py3{8,9,10,11,12,13}-unit: Run the unit tests
+  py3{8,9,10,11,12,13}-lint: Lint the Python code
+  py3{8,9,10,11,12,13}-bandit: Search for common security issues
+  py3{8,9,10,11,12,13}-mypy: Check for type safety
   py312-pydocstyle: docstring style checker
   py312-shellcheck: syntax check for shell scripts
   py312-lintreadme: Lint the README.rst→.md conversion
@@ -43,14 +44,14 @@ passenv =
   SINGULARITY_FAKEROOT
 
 extras =
-  py3{8,9,10,11,12}-unit: deps
+  py3{8,9,10,11,12,13}-unit: deps
 
 deps =
-  py3{8,9,10,11,12}-{unit,lint,bandit,mypy}: -rrequirements.txt
-  py3{8,9,10,11,12}-{unit,mypy}: -rtest-requirements.txt
-  py3{8,9,10,11,12}-lint: -rlint-requirements.txt
-  py3{8,9,10,11,12}-bandit: bandit
-  py3{8,9,10,11,12}-mypy: -rmypy-requirements.txt
+  py3{8,9,10,11,12,13}-{unit,lint,bandit,mypy}: -rrequirements.txt
+  py3{8,9,10,11,12,13}-{unit,mypy}: -rtest-requirements.txt
+  py3{8,9,10,11,12,13}-lint: -rlint-requirements.txt
+  py3{8,9,10,11,12,13}-bandit: bandit
+  py3{8,9,10,11,12,13}-mypy: -rmypy-requirements.txt
   py312-pydocstyle: pydocstyle
   py312-pydocstyle: diff-cover
   py312-lintreadme: twine
@@ -62,19 +63,20 @@ setenv =
   HOME = {envtmpdir}
 
 commands_pre =
-  py3{8,9,10,11,12}-unit: python -m pip install -U pip setuptools wheel
+  py3{8,9,10,11,12,13}-unit: python -m pip install -U pip setuptools wheel
   py312-lintreadme: python -m build --outdir {distdir}
 
 commands =
-  py3{8,9,10,11,12}-unit: make coverage-report coverage.xml PYTEST_EXTRA={posargs}
-  py3{8,9,10,11,12}-bandit: bandit -r cwltool
-  py3{8,9,10,11,12}-lint: make flake8 format-check codespell-check
-  py3{8,9,10,11,12}-mypy: make mypy mypyc PYTEST_EXTRA={posargs}
+  py3{8,9,10,11,12,13}-unit: make coverage-report coverage.xml PYTEST_EXTRA={posargs}
+  py3{8,9,10,11,12,13}-bandit: bandit -r cwltool
+  py3{8,9,10,11,12,13}-lint: make flake8 format-check codespell-check
+  py3{8,9,10,11,12,13}-mypy: make mypy PYTEST_EXTRA={posargs}
+  py3{8,9,10,11,12}-mypy: make mypyc PYTEST_EXTRA={posargs}
   py312-shellcheck: make shellcheck
   py312-pydocstyle: make diff_pydocstyle_report
   py312-lintreadme: twine check {distdir}/*
 
 skip_install =
-  py3{8,9,10,11,12}-{bandit,lint,mypy,shellcheck,pydocstyle,lintreadme}: true
+  py3{8,9,10,11,12,13}-{bandit,lint,mypy,shellcheck,pydocstyle,lintreadme}: true
 
 allowlist_externals = make