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Add brainmapper example script #325

Add brainmapper example script

Add brainmapper example script #325

Workflow file for this run

name: tests
on:
push:
branches:
- 'main'
tags:
- 'v**'
pull_request:
workflow_dispatch:
concurrency:
# Cancel this workflow if it is running,
# and then changes are applied on top of the HEAD of the branch,
# triggering another run of the workflow
group: ${{ github.workflow }}-${{ github.ref }}
cancel-in-progress: true
jobs:
linting:
runs-on: ubuntu-latest
steps:
- uses: neuroinformatics-unit/actions/lint@v2
manifest:
name: Check Manifest
runs-on: ubuntu-latest
steps:
- uses: neuroinformatics-unit/actions/check_manifest@v2
test:
needs: [linting, manifest]
name: ${{ matrix.os }} py${{ matrix.python-version }}
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
matrix:
# Run all supported Python versions on linux
python-version: ["3.9", "3.10", "3.11"]
os: [ubuntu-latest]
# Include one windows and macos run each of Intel/ARM
include:
- os: macos-13
python-version: "3.11"
- os: macos-latest
python-version: "3.11"
- os: windows-latest
python-version: "3.11"
steps:
- name: Cache brainglobe directory
uses: actions/cache@v3
with:
path: | # ensure we don't cache any interrupted atlas download and extraction, if e.g. we cancel the workflow manually
~/.brainglobe
!~/.brainglobe/atlas.tar.gz
key: brainglobe
- name: Install hdf5 libs for Mac
if: runner.os == 'macOS'
run: brew install hdf5
# Helps set up VTK with a headless display
- uses: pyvista/setup-headless-display-action@v2
# Sets up ffmpeg to we can run video tests on CI
- uses: FedericoCarboni/setup-ffmpeg@v2
if: matrix.os != 'macos-latest'
id: setup-ffmpeg
- name: setup ffmpeg on latest Mac with brew
if: matrix.os == 'macos-latest'
run: brew install ffmpeg
# Run tests
- uses: neuroinformatics-unit/actions/test@v2
with:
python-version: ${{ matrix.python-version }}
secret-codecov-token: ${{ secrets.CODECOV_TOKEN }}
build_sdist_wheels:
name: Build source distribution
needs: [test]
if: github.event_name == 'push' && github.ref_type == 'tag'
runs-on: ubuntu-latest
steps:
- uses: neuroinformatics-unit/actions/build_sdist_wheels@v2
upload_all:
name: Publish build distributions
needs: [build_sdist_wheels]
runs-on: ubuntu-latest
steps:
- uses: neuroinformatics-unit/actions/upload_pypi@v2
with:
secret-pypi-key: ${{ secrets.TWINE_API_KEY }}