Merge pull request #284 from ModellingWebLab/support-python-313

Support Python 3.13

Author: kwabenantim

.github/workflows/pytest.yml

@@ -2,10 +2,10 @@ name: build
 on: [pull_request]
 jobs:
   build:
-    runs-on: ubuntu-20.04
+    runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ["3.6", "3.7", "3.8", "3.9", "3.10", "3.11", "3.12"]
+        python-version: ["3.9", "3.10", "3.11", "3.12", "3.13"]
     steps:
     - name: Checkout repository and submodules
       uses: actions/checkout@v4
@@ -29,6 +29,6 @@ jobs:
     - name: Test with pytest
       run: |
         python -m pytest --cov --cov-config=.coveragerc
-    - uses: codecov/codecov-action@v4
+    - uses: codecov/codecov-action@v5
       with:
         token: ${{ secrets.CODECOV_TOKEN }} # not required for public repos

RELEASE.md

@@ -1,3 +1,8 @@
+# Release 0.10.6
+- Added support for Python 3.13.
+- Updated dependency versions:
+  - cellmlmanip>=0.3.7
+
 # Release 0.10.5
 - Added support for Python 3.12.
 - Updated dependency versions:

chaste_codegen/version.txt

@@ -1 +1 @@
-0.10.5
+0.10.6

dev-requirements/dev.txt

@@ -1,49 +1,50 @@
-atomicwrites==1.4.0
-attrs==21.2.0
-bleach==3.3.0
-build==0.3.1.post1
-cellmlmanip==0.3.6
-certifi==2024.7.4
-chardet==4.0.0
-colorama==0.4.4
-coverage==5.5
-decorator==4.4.2
-docutils==0.17.1
-flake8==3.9.2
-idna==3.7
-importlib-metadata==4.0.1
-iniconfig==1.1.1
-isodate==0.6.0
-isort==5.8.0
+# This list was generated in Python 3.9 with `pip freeze`
+alabaster==0.7.16
+babel==2.17.0
+cellmlmanip==0.3.7
+certifi==2025.1.31
+charset-normalizer==3.4.1
+coverage==7.6.11
+decorator==5.1.1
+docutils==0.21.2
+exceptiongroup==1.2.2
+flake8==7.1.1
+idna==3.10
+imagesize==1.4.1
+importlib_metadata==8.6.1
+iniconfig==2.0.0
+isodate==0.7.2
+isort==6.0.0
 Jinja2==3.1.5
-lxml==4.9.1
-MarkupSafe==1.1.1
-mccabe==0.6.1
-mock==4.0.3
+lxml==5.3.1
+MarkupSafe==3.0.2
+mccabe==0.7.0
+mock==5.1.0
 mpmath==1.3.0
-networkx==2.5.1
-packaging==20.9
-pep517==0.10.0
-Pint==0.17
-pkginfo==1.7.0
-pluggy==0.13.1
-py==1.10.0
-pycodestyle==2.7.0
-pyflakes==2.3.1
-Pygments==2.15.0
-pyparsing==2.4.7
-pytest==6.2.4
-pytest-cov==2.11.1
-pywin32-ctypes==0.2.0
-rdflib==5.0.0
-readme-renderer==29.0
-requests==2.32.0
-requests-toolbelt==0.9.1
-rfc3986==1.5.0
-six==1.16.0
-sympy==1.9
-toml==0.10.2
-tqdm==4.66.3
-urllib3==1.26.19
-webencodings==0.5.1
-zipp==3.19.1
+networkx==3.2.1
+packaging==24.2
+Pint==0.19.2
+pluggy==1.5.0
+py==1.11.0
+pycodestyle==2.12.1
+pyflakes==3.2.0
+Pygments==2.19.1
+pyparsing==3.2.1
+pytest==8.3.4
+pytest-cov==6.0.0
+rdflib==7.1.3
+requests==2.32.3
+six==1.17.0
+snowballstemmer==2.2.0
+Sphinx==7.4.7
+sphinx-automodapi==0.18.0
+sphinxcontrib-applehelp==2.0.0
+sphinxcontrib-devhelp==2.0.0
+sphinxcontrib-htmlhelp==2.1.0
+sphinxcontrib-jsmath==1.0.1
+sphinxcontrib-qthelp==2.0.0
+sphinxcontrib-serializinghtml==2.0.0
+sympy==1.10.1
+tomli==2.2.1
+urllib3==2.3.0
+zipp==3.21.0

setup.py

@@ -47,22 +47,22 @@
     # List of dependencies
     install_requires=[
         'py>=1.10.0',
-        'decorator>=4.4.2, <6',
-        'importlib-metadata>=1.7, <8',
-        'isodate>=0.6.0, <1',
-        'lxml>=4.6.5, <6',
-        'MarkupSafe>=1.1.1, <3',
-        'mpmath>=1.1.0, <2',
-        'networkx>=2.4, <4',
-        'packaging>=20.4, <24',
-        'Pint>=0.9, <0.30',
+        'decorator>=4.5',
+        'importlib-metadata>=1.7',
+        'isodate>=0.6',
+        'lxml>=4.7',
+        'MarkupSafe>=1.2',
+        'mpmath>=1.1',
+        'networkx>=2.4',
+        'packaging>=20.4',
+        'Pint>=0.9, <0.20',
         'pyparsing>=2.4.7, <4',
-        'rdflib>=5.0.0, <8',
-        'six>=1.15.0, <2',
+        'rdflib>=5.0',
+        'six>=1.15',
         'sympy>=1.9, <1.11',
-        'zipp>=1.2.0, <4',
-        'Jinja2>=3.0.0, <4',
-        'cellmlmanip>=0.3.6, <0.4',
+        'zipp>=1.2',
+        'Jinja2>=3.0',
+        'cellmlmanip>=0.3.7',
     ],
     extras_require={
         'docs': [