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Remove python 3.8 support and add python 3.13 support (#2007)
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* update min requirements

* update environment files

* update installation documentation

* update workflows

* update importlib in init

* update min requirements file

* update workflows

* update changelog

* readd test file generation versions

* replace missed 3.8 versions

* update ros3 environment for py313

* update minimum requirements

* update runners for minimum python

* switch to macos-13 runner for min requirements

* simplify tox configuration

* readd version condition

* update tox workflow command

* add new tox env names to workflows

* upgrade numpy minimum

* update requirements

* add macos latest to tests workflow

* update position test

* update minimum requirements

* update pyproject.toml requirements

* add hdmf-zarr minimum

* update requirements
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@stephprince
stephprince authored Dec 19, 2024
1 parent a63387d commit 2c2bc85
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Showing 18 changed files with 143 additions and 268 deletions.
3 changes: 2 additions & 1 deletion .github/ISSUE_TEMPLATE/bug_report.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -61,10 +61,11 @@ body:
label: Python Version
options:
- "lower version (unsupported)"
- "3.8"
- "3.9"
- "3.10"
- "3.11"
- "3.12"
- "3.13"
validations:
required: true
- type: textarea
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2 changes: 1 addition & 1 deletion .github/workflows/deploy_release.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -18,7 +18,7 @@ jobs:
- name: Set up Python
uses: actions/setup-python@v5
with:
python-version: '3.12'
python-version: '3.13'

- name: Install build dependencies
run: |
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94 changes: 46 additions & 48 deletions .github/workflows/run_all_tests.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -22,31 +22,30 @@ jobs:
fail-fast: false
matrix:
include:
- { name: linux-python3.8-minimum , test-tox-env: py38-minimum , build-tox-env: build-py38-minimum , python-ver: "3.8" , os: ubuntu-latest }
- { name: linux-python3.9 , test-tox-env: py39 , build-tox-env: build-py39 , python-ver: "3.9" , os: ubuntu-latest }
- { name: linux-python3.10 , test-tox-env: py310 , build-tox-env: build-py310 , python-ver: "3.10", os: ubuntu-latest }
- { name: linux-python3.11 , test-tox-env: py311 , build-tox-env: build-py311 , python-ver: "3.11", os: ubuntu-latest }
- { name: linux-python3.11-opt , test-tox-env: py311-optional , build-tox-env: build-py311 , python-ver: "3.11", os: ubuntu-latest }
- { name: linux-python3.12 , test-tox-env: py312 , build-tox-env: build-py312 , python-ver: "3.12", os: ubuntu-latest }
- { name: linux-python3.12-upgraded , test-tox-env: py312-upgraded , build-tox-env: build-py312-upgraded , python-ver: "3.12", os: ubuntu-latest }
- { name: linux-python3.12-prerelease , test-tox-env: py312-prerelease, build-tox-env: build-py312-prerelease, python-ver: "3.12", os: ubuntu-latest }
- { name: windows-python3.8-minimum , test-tox-env: py38-minimum , build-tox-env: build-py38-minimum , python-ver: "3.8" , os: windows-latest }
- { name: windows-python3.9 , test-tox-env: py39 , build-tox-env: build-py39 , python-ver: "3.9" , os: windows-latest }
- { name: windows-python3.10 , test-tox-env: py310 , build-tox-env: build-py310 , python-ver: "3.10", os: windows-latest }
- { name: windows-python3.11 , test-tox-env: py311 , build-tox-env: build-py311 , python-ver: "3.11", os: windows-latest }
- { name: windows-python3.11-opt , test-tox-env: py311-optional , build-tox-env: build-py311 , python-ver: "3.11", os: windows-latest }
- { name: windows-python3.12 , test-tox-env: py312 , build-tox-env: build-py312 , python-ver: "3.12", os: windows-latest }
- { name: windows-python3.12-upgraded , test-tox-env: py312-upgraded , build-tox-env: build-py312-upgraded , python-ver: "3.12", os: windows-latest }
- { name: windows-python3.12-prerelease, test-tox-env: py312-prerelease, build-tox-env: build-py312-prerelease, python-ver: "3.11", os: windows-latest }
# minimum versions of dependencies do not have wheels or cannot be built on macos-arm64
- { name: macos-python3.8-minimum , test-tox-env: py38-minimum , build-tox-env: build-py38-minimum , python-ver: "3.8" , os: macos-13 }
- { name: macos-python3.9 , test-tox-env: py39 , build-tox-env: build-py39 , python-ver: "3.9" , os: macos-latest }
- { name: macos-python3.10 , test-tox-env: py310 , build-tox-env: build-py310 , python-ver: "3.10", os: macos-latest }
- { name: macos-python3.11 , test-tox-env: py311 , build-tox-env: build-py311 , python-ver: "3.11", os: macos-latest }
- { name: macos-python3.11-opt , test-tox-env: py311-optional , build-tox-env: build-py311 , python-ver: "3.11", os: macos-latest }
- { name: macos-python3.12 , test-tox-env: py312 , build-tox-env: build-py312 , python-ver: "3.12", os: macos-latest }
- { name: macos-python3.12-upgraded , test-tox-env: py312-upgraded , build-tox-env: build-py312-upgraded , python-ver: "3.12", os: macos-latest }
- { name: macos-python3.12-prerelease , test-tox-env: py312-prerelease, build-tox-env: build-py312-prerelease, python-ver: "3.12", os: macos-latest }
- { name: linux-python3.9-minimum , test-tox-env: test-py39-minimum , build-tox-env: build-py39-minimum , python-ver: "3.9" , os: ubuntu-latest }
- { name: linux-python3.10 , test-tox-env: test-py310 , build-tox-env: build-py310 , python-ver: "3.10", os: ubuntu-latest }
- { name: linux-python3.11 , test-tox-env: test-py311 , build-tox-env: build-py311 , python-ver: "3.11", os: ubuntu-latest }
- { name: linux-python3.11-opt , test-tox-env: test-py311-optional , build-tox-env: build-py311 , python-ver: "3.11", os: ubuntu-latest }
- { name: linux-python3.12 , test-tox-env: test-py312 , build-tox-env: build-py312 , python-ver: "3.12", os: ubuntu-latest }
- { name: linux-python3.13 , test-tox-env: test-py313 , build-tox-env: build-py313 , python-ver: "3.13", os: ubuntu-latest }
- { name: linux-python3.13-upgraded , test-tox-env: test-py313-upgraded , build-tox-env: build-py313-upgraded , python-ver: "3.13", os: ubuntu-latest }
- { name: linux-python3.13-prerelease , test-tox-env: test-py313-prerelease, build-tox-env: build-py313-prerelease, python-ver: "3.13", os: ubuntu-latest }
- { name: windows-python3.9-minimum , test-tox-env: test-py39-minimum , build-tox-env: build-py39-minimum , python-ver: "3.9" , os: windows-latest }
- { name: windows-python3.10 , test-tox-env: test-py310 , build-tox-env: build-py310 , python-ver: "3.10", os: windows-latest }
- { name: windows-python3.11 , test-tox-env: test-py311 , build-tox-env: build-py311 , python-ver: "3.11", os: windows-latest }
- { name: windows-python3.11-opt , test-tox-env: test-py311-optional , build-tox-env: build-py311 , python-ver: "3.11", os: windows-latest }
- { name: windows-python3.12 , test-tox-env: test-py312 , build-tox-env: build-py312 , python-ver: "3.12", os: windows-latest }
- { name: windows-python3.13 , test-tox-env: test-py313 , build-tox-env: build-py313 , python-ver: "3.13", os: windows-latest }
- { name: windows-python3.13-upgraded , test-tox-env: test-py313-upgraded , build-tox-env: build-py313-upgraded , python-ver: "3.13", os: windows-latest }
- { name: windows-python3.13-prerelease, test-tox-env: test-py313-prerelease, build-tox-env: build-py313-prerelease, python-ver: "3.13", os: windows-latest }
- { name: macos-python3.9-minimum , test-tox-env: test-py39-minimum , build-tox-env: build-py39-minimum , python-ver: "3.9" , os: macos-13 }
- { name: macos-python3.10 , test-tox-env: test-py310 , build-tox-env: build-py310 , python-ver: "3.10", os: macos-latest }
- { name: macos-python3.11 , test-tox-env: test-py311 , build-tox-env: build-py311 , python-ver: "3.11", os: macos-latest }
- { name: macos-python3.11-opt , test-tox-env: test-py311-optional , build-tox-env: build-py311 , python-ver: "3.11", os: macos-latest }
- { name: macos-python3.12 , test-tox-env: test-py312 , build-tox-env: build-py312 , python-ver: "3.12", os: macos-latest }
- { name: macos-python3.13 , test-tox-env: test-py313 , build-tox-env: build-py313 , python-ver: "3.13", os: macos-latest }
- { name: macos-python3.13-upgraded , test-tox-env: test-py313-upgraded , build-tox-env: build-py313-upgraded , python-ver: "3.13", os: macos-latest }
- { name: macos-python3.13-prerelease , test-tox-env: test-py313-prerelease, build-tox-env: build-py313-prerelease, python-ver: "3.13", os: macos-latest }
steps:
- name: Cancel non-latest runs
uses: styfle/[email protected]
Expand Down Expand Up @@ -93,16 +92,15 @@ jobs:
fail-fast: false
matrix:
include:
- { name: linux-gallery-python3.8-minimum , test-tox-env: gallery-py38-minimum , python-ver: "3.8" , os: ubuntu-latest }
- { name: linux-gallery-python3.12-upgraded , test-tox-env: gallery-py312-upgraded , python-ver: "3.12", os: ubuntu-latest }
- { name: linux-gallery-python3.12-prerelease , test-tox-env: gallery-py312-prerelease, python-ver: "3.12", os: ubuntu-latest }
- { name: windows-gallery-python3.8-minimum , test-tox-env: gallery-py38-minimum , python-ver: "3.8" , os: windows-latest }
- { name: windows-gallery-python3.12-upgraded , test-tox-env: gallery-py312-upgraded , python-ver: "3.12", os: windows-latest }
- { name: windows-gallery-python3.12-prerelease, test-tox-env: gallery-py312-prerelease, python-ver: "3.12", os: windows-latest }
# minimum versions of dependencies do not have wheels or cannot be built on macos-arm64
- { name: macos-gallery-python3.8-minimum , test-tox-env: gallery-py38-minimum , python-ver: "3.8" , os: macos-13 }
- { name: macos-gallery-python3.12-upgraded , test-tox-env: gallery-py312-upgraded , python-ver: "3.12", os: macos-latest }
- { name: macos-gallery-python3.12-prerelease , test-tox-env: gallery-py312-prerelease, python-ver: "3.12", os: macos-latest }
- { name: linux-gallery-python3.9-minimum , test-tox-env: gallery-py39-minimum , python-ver: "3.9" , os: ubuntu-latest }
- { name: linux-gallery-python3.13-upgraded , test-tox-env: gallery-py313-upgraded , python-ver: "3.13", os: ubuntu-latest }
- { name: linux-gallery-python3.13-prerelease , test-tox-env: gallery-py313-prerelease, python-ver: "3.13", os: ubuntu-latest }
- { name: windows-gallery-python3.9-minimum , test-tox-env: gallery-py39-minimum , python-ver: "3.9" , os: windows-latest }
- { name: windows-gallery-python3.13-upgraded , test-tox-env: gallery-py313-upgraded , python-ver: "3.13", os: windows-latest }
- { name: windows-gallery-python3.13-prerelease, test-tox-env: gallery-py313-prerelease, python-ver: "3.13", os: windows-latest }
- { name: macos-gallery-python3.9-minimum , test-tox-env: gallery-py39-minimum , python-ver: "3.9" , os: macos-13 }
- { name: macos-gallery-python3.13-upgraded , test-tox-env: gallery-py313-upgraded , python-ver: "3.13", os: macos-latest }
- { name: macos-gallery-python3.13-prerelease , test-tox-env: gallery-py313-prerelease, python-ver: "3.13", os: macos-latest }
steps:
- name: Cancel non-latest runs
uses: styfle/[email protected]
Expand Down Expand Up @@ -140,13 +138,13 @@ jobs:
fail-fast: false
matrix:
include:
- { name: conda-linux-python3.8-minimum , test-tox-env: py38-minimum , build-tox-env: build-py38-minimum , python-ver: "3.8" , os: ubuntu-latest }
- { name: conda-linux-python3.9 , test-tox-env: py39 , build-tox-env: build-py39 , python-ver: "3.9" , os: ubuntu-latest }
- { name: conda-linux-python3.10 , test-tox-env: py310 , build-tox-env: build-py310 , python-ver: "3.10", os: ubuntu-latest }
- { name: conda-linux-python3.11 , test-tox-env: py311 , build-tox-env: build-py311 , python-ver: "3.11", os: ubuntu-latest }
- { name: conda-linux-python3.12 , test-tox-env: py312 , build-tox-env: build-py312 , python-ver: "3.12", os: ubuntu-latest }
- { name: conda-linux-python3.12-upgraded , test-tox-env: py312-upgraded , build-tox-env: build-py312-upgraded , python-ver: "3.12", os: ubuntu-latest }
- { name: conda-linux-python3.12-prerelease, test-tox-env: py312-prerelease, build-tox-env: build-py312-prerelease, python-ver: "3.12", os: ubuntu-latest }
- { name: conda-linux-python3.9-minimum , test-tox-env: test-py39-minimum , build-tox-env: build-py39-minimum , python-ver: "3.9" , os: ubuntu-latest }
- { name: conda-linux-python3.10 , test-tox-env: test-py310 , build-tox-env: build-py310 , python-ver: "3.10", os: ubuntu-latest }
- { name: conda-linux-python3.11 , test-tox-env: test-py311 , build-tox-env: build-py311 , python-ver: "3.11", os: ubuntu-latest }
- { name: conda-linux-python3.12 , test-tox-env: test-py312 , build-tox-env: build-py312 , python-ver: "3.12", os: ubuntu-latest }
- { name: conda-linux-python3.13 , test-tox-env: test-py313 , build-tox-env: build-py313 , python-ver: "3.13", os: ubuntu-latest }
- { name: conda-linux-python3.13-upgraded , test-tox-env: test-py313-upgraded , build-tox-env: build-py313-upgraded , python-ver: "3.13", os: ubuntu-latest }
- { name: conda-linux-python3.13-prerelease, test-tox-env: test-py313-prerelease, build-tox-env: build-py313-prerelease, python-ver: "3.13", os: ubuntu-latest }
steps:
- name: Cancel non-latest runs
uses: styfle/[email protected]
Expand Down Expand Up @@ -201,9 +199,9 @@ jobs:
fail-fast: false
matrix:
include:
- { name: conda-linux-python3.12-ros3 , python-ver: "3.12", os: ubuntu-latest }
- { name: conda-windows-python3.12-ros3, python-ver: "3.12", os: windows-latest }
- { name: conda-macos-python3.12-ros3 , python-ver: "3.12", os: macos-latest }
- { name: conda-linux-python3.13-ros3 , python-ver: "3.13", os: ubuntu-latest }
- { name: conda-windows-python3.13-ros3, python-ver: "3.13", os: windows-latest }
- { name: conda-macos-python3.13-ros3 , python-ver: "3.13", os: macos-latest }
steps:
- name: Cancel non-latest runs
uses: styfle/[email protected]
Expand Down Expand Up @@ -248,9 +246,9 @@ jobs:
fail-fast: false
matrix:
include:
- { name: conda-linux-gallery-python3.12-ros3 , python-ver: "3.12", os: ubuntu-latest }
- { name: conda-windows-gallery-python3.12-ros3, python-ver: "3.12", os: windows-latest }
- { name: conda-macos-gallery-python3.12-ros3 , python-ver: "3.12", os: macos-latest }
- { name: conda-linux-gallery-python3.13-ros3 , python-ver: "3.13", os: ubuntu-latest }
- { name: conda-windows-gallery-python3.13-ros3, python-ver: "3.13", os: windows-latest }
- { name: conda-macos-gallery-python3.13-ros3 , python-ver: "3.13", os: macos-latest }
steps:
- name: Cancel non-latest runs
uses: styfle/[email protected]
Expand Down
2 changes: 1 addition & 1 deletion .github/workflows/run_coverage.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -28,7 +28,7 @@ jobs:
- { os: macos-latest , opt_req: false }
env:
OS: ${{ matrix.os }}
PYTHON: '3.12'
PYTHON: '3.13'
steps:
- name: Cancel non-latest runs
uses: styfle/[email protected]
Expand Down
2 changes: 1 addition & 1 deletion .github/workflows/run_dandi_read_tests.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -25,7 +25,7 @@ jobs:
- name: Set up Python
uses: actions/setup-python@v5
with:
python-version: '3.12'
python-version: '3.13'

- name: Install run dependencies
run: |
Expand Down
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