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chore: update actions #1363

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merged 1 commit into from
Oct 21, 2023
Merged

chore: update actions #1363

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5 changes: 1 addition & 4 deletions .github/workflows/biosimulators_dispatch.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -9,14 +9,11 @@ jobs:
runs-on: ubuntu-latest

steps:
- name: Get tag
id: tag
run: echo "::set-output name=version::${GITHUB_REF#refs/tags/}"
- name: Dispatch new release version to BioSimulators
uses: benc-uk/workflow-dispatch@v1
with:
workflow: Continuous integration
repo: biosimulators/Biosimulators_COBRApy
ref: dev
token: ${{ secrets.BIOSIM_DISPATCH_TOKEN }}
inputs: '{ "simulatorVersion": "${{ steps.tag.outputs.version }}", "simulatorVersionLatest": "true" }'
inputs: '{ "simulatorVersion": "${{ github.ref_name }}", "simulatorVersionLatest": "true" }'
52 changes: 27 additions & 25 deletions .github/workflows/lint.yml
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Expand Up @@ -3,15 +3,15 @@ name: Lint
on:
push:
branches:
- stable
- devel
- stable
- devel
tags:
- '[0-9]+.[0-9]+.[0-9]+'
- '[0-9]+.[0-9]+.[0-9]+a[0-9]+'
- "[0-9]+.[0-9]+.[0-9]+"
- "[0-9]+.[0-9]+.[0-9]+a[0-9]+"
pull_request:
branches:
- stable
- devel
- stable
- devel

jobs:
lint:
Expand All @@ -20,25 +20,27 @@ jobs:
fail-fast: false
matrix:
os: [ubuntu-latest]
python-version: ['3.10']
python-version: ["3.11"]
timeout-minutes: 60

steps:
- uses: actions/checkout@v2
- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v2
with:
python-version: ${{ matrix.python-version }}
- name: Install dependencies
run: |
python -m pip install --upgrade pip setuptools wheel
python -m pip install tox tox-gh-actions
- name: isort
run:
tox -e isort
- name: black
run:
tox -e black
- name: flake8
run:
tox -e flake8
- uses: actions/checkout@v4

- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}

- name: Install dependencies
run: |
python -m pip install --upgrade pip setuptools wheel
python -m pip install tox tox-gh-actions

- name: isort
run: tox -e isort

- name: black
run: tox -e black

- name: flake8
run: tox -e flake8
123 changes: 61 additions & 62 deletions .github/workflows/main.yml
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Expand Up @@ -3,15 +3,15 @@ name: CI-CD
on:
push:
branches:
- stable
- devel
- stable
- devel
tags:
- '[0-9]+.[0-9]+.[0-9]+'
- '[0-9]+.[0-9]+.[0-9]+a[0-9]+'
- "[0-9]+.[0-9]+.[0-9]+"
- "[0-9]+.[0-9]+.[0-9]+a[0-9]+"
pull_request:
branches:
- stable
- devel
- stable
- devel

jobs:
test:
Expand All @@ -20,71 +20,70 @@ jobs:
fail-fast: false
matrix:
os: [ubuntu-latest, macos-latest, windows-latest]
python-version: ['3.8', '3.9', '3.10', '3.11']
python-version: ["3.8", "3.11"]
timeout-minutes: 360

steps:
- uses: actions/checkout@v2
- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v2
with:
python-version: ${{ matrix.python-version }}
- name: Install dependencies
run: |
python -m pip install --upgrade pip setuptools wheel
python -m pip install tox tox-gh-actions
- name: Test with tox
run:
tox -- --benchmark-skip
timeout-minutes: 60
- name: Report coverage
shell: bash
run: bash <(curl -s https://codecov.io/bash)
- uses: actions/checkout@v4
- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}
- name: Install dependencies
run: |
python -m pip install --upgrade pip setuptools wheel
python -m pip install tox tox-gh-actions
- name: Test with tox
run: tox -- --benchmark-skip
timeout-minutes: 60
- name: Report coverage
shell: bash
run: bash <(curl -s https://codecov.io/bash)

release:
needs: test
if: startsWith(github.ref, 'refs/tags')
if: github.ref_type == 'tag'
runs-on: ${{ matrix.os }}
strategy:
matrix:
os: [ubuntu-latest]
python-version: [3.8]
python-version: ["3.11"]
permissions:
contents: write

steps:
- uses: actions/checkout@v2
- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v2
with:
python-version: ${{ matrix.python-version }}
- name: Get tag
id: tag
run: echo "::set-output name=version::${GITHUB_REF#refs/tags/}"
- name: Install dependencies
run: |
python -m pip install --upgrade pip setuptools wheel
python -m pip install build twine
- name: Build package
run: python -m build
- name: Publish to PyPI
env:
TWINE_USERNAME: ${{ secrets.PYPI_USERNAME }}
TWINE_PASSWORD: ${{ secrets.PYPI_PASSWORD }}
run:
twine upload --skip-existing --non-interactive dist/*
- name: Create GitHub release
uses: actions/create-release@v1
env:
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
with:
tag_name: ${{ github.ref }}
release_name: ${{ github.ref }}
body_path: "release-notes/${{ steps.tag.outputs.version }}.md"
draft: false
prerelease: false
- name: Publish to website
run: ./scripts/deploy_website.sh
shell: bash
env:
TAG: ${{ steps.tag.outputs.version }}
WORKSPACE: ${{ github.workspace }}
WEBSITE_DEPLOY_TOKEN: ${{ secrets.WEBSITE_DEPLOY_TOKEN }}
- uses: actions/checkout@v4

- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}

- name: Install dependencies
run: |
python -m pip install --upgrade pip setuptools wheel
python -m pip install build twine

- name: Build package
run: python -m build

- name: Publish to PyPI
env:
TWINE_USERNAME: ${{ secrets.PYPI_USERNAME }}
TWINE_PASSWORD: ${{ secrets.PYPI_PASSWORD }}
run: twine upload --skip-existing --non-interactive dist/*

- name: GH release
uses: softprops/action-gh-release@v1
with:
body_path: "release-notes/${{ github.ref_name }}.md"
draft: false
prerelease: false

- name: Publish to website
run: ./scripts/deploy_website.sh
shell: bash
env:
TAG: ${{ github.ref_name }}
WORKSPACE: ${{ github.workspace }}
WEBSITE_DEPLOY_TOKEN: ${{ secrets.WEBSITE_DEPLOY_TOKEN }}
36 changes: 19 additions & 17 deletions .github/workflows/safety.yml
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Expand Up @@ -3,11 +3,11 @@ name: Safety
on:
push:
branches:
- stable
- devel
- stable
- devel
tags:
- '[0-9]+.[0-9]+.[0-9]+'
- '[0-9]+.[0-9]+.[0-9]+a[0-9]+'
- "[0-9]+.[0-9]+.[0-9]+"
- "[0-9]+.[0-9]+.[0-9]+a[0-9]+"

jobs:
safety:
Expand All @@ -16,19 +16,21 @@ jobs:
fail-fast: false
matrix:
os: [ubuntu-latest, macos-latest, windows-latest]
python-version: ['3.8', '3.9', '3.10', '3.11']
python-version: ["3.8", "3.9", "3.10", "3.11"]
timeout-minutes: 120

steps:
- uses: actions/checkout@v2
- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v2
with:
python-version: ${{ matrix.python-version }}
- name: Install dependencies
run: |
python -m pip install --upgrade pip setuptools wheel
python -m pip install tox tox-gh-actions
- name: safety
run:
tox -e safety
- uses: actions/checkout@v4

- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}

- name: Install dependencies
run: |
python -m pip install --upgrade pip setuptools wheel
python -m pip install tox tox-gh-actions

- name: safety
run: tox -e safety