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update subcell_analysis imports, install it from viz-together branch #19

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update subcell_analysis imports, install it from viz-together branch

update subcell_analysis imports, install it from viz-together branch #19

Workflow file for this run

.github/workflows/ci.yml at 4b0289f
name: CI
on:
push:
branches:
- main
tags:
- "v*"
pull_request:
branches:
- main
workflow_dispatch:
jobs:
# Check that all files listed in manifest make it into build
check-manifest:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 0
- uses: actions/setup-python@v4
with:
python-version: "3.x"
- run: pip install check-manifest && check-manifest
# Check tests pass on multiple Python and OS combinations
test:
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
matrix:
python-version: [3.9]
os: [ubuntu-latest]
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 0
- name: Set up Python
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}
- uses: extractions/setup-just@v1
env:
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
- name: Install Conda Deps
uses: conda-incubator/setup-miniconda@v2
with:
auto-update-conda: true
python-version: ${{ matrix.python-version }}
activate-environment: anaconda-client-env
environment-file: ./environment.yml
- name: Install Dependencies
shell: bash -l {0}
run: |
python -m pip install --upgrade pip
just install
- name: Run Tests
shell: bash -l {0}
run: just test
- name: Upload Codecov
uses: codecov/codecov-action@v3
# Check linting, formating, types, etc.
lint:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 0
- name: Set up Python
uses: actions/setup-python@v4
with:
python-version: 3.9
- uses: extractions/setup-just@v1
env:
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
- name: Install Dependencies
run: |
python -m pip install --upgrade pip
pip install .[lint]
- name: Lint
run: just lint
# Publish to PyPI if test, lint, and manifest checks passed
publish:
if: "success() && startsWith(github.ref, 'refs/tags/')"
needs: [check-manifest, test, lint]
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 0
- name: Set up Python
uses: actions/setup-python@v4
with:
python-version: 3.9
- name: Install Dependencies
run: |
python -m pip install --upgrade pip
pip install build wheel
- name: Build Package
run: |
python -m build
- name: Publish to PyPI
uses: pypa/gh-action-pypi-publish@release/v1
with:
user: aicspypi
password: ${{ secrets.PYPI_TOKEN }}