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Patch TWIST EPPs to take new UDF "Maximum input amount (ng)" into con… #144

Patch TWIST EPPs to take new UDF "Maximum input amount (ng)" into con…

Patch TWIST EPPs to take new UDF "Maximum input amount (ng)" into con… #144

name: 'Merge-master-CI'
on:
push:
branches:
- 'master'
- 'main'
jobs:
bump-version:
runs-on: ubuntu-latest
name: Bump version and push tags to master
steps:
- name: Bump version
uses: Clinical-Genomics/bump2version-ci@master
env:
BUMPVERSION_TOKEN: ${{ secrets.BUMPVERSION_TOKEN }}
BUMPVERSION_AUTHOR: ${{ secrets.BUMPVERSION_AUTHOR }}
BUMPVERSION_EMAIL: ${{ secrets.BUMPVERSION_EMAIL }}
GITHUB_REPOSITORY: ${{ github.repository }}
docker-image-push:
runs-on: ubuntu-latest
name: Push staging docker image to dockerhub
steps:
- name: Check out git repository
uses: actions/checkout@v2
- name: Extract branch name and remove illegal chars
id: get_branch_name
shell: bash
run: echo "##[set-output name=branch;]$(echo "$(tr "/" "-" <<<${GITHUB_REF#refs/heads/})")"
- name: Login to Docker Hub
uses: docker/login-action@v1
with:
username: ${{ secrets.DOCKER_USERNAME }}
password: ${{ secrets.DOCKER_PASSWORD }}
- name: Set up Docker Buildx
id: buildx
uses: docker/setup-buildx-action@v1
- name: Build and push
id: docker_build
uses: docker/build-push-action@v2
with:
context: ./
file: ./Dockerfile
push: true
tags: "clinicalgenomics/cg_lims-stage:${{steps.get_branch_name.outputs.branch}}, clinicalgenomics/cg_lims-stage:latest"
tests-coverage:
runs-on: ubuntu-latest
name: Test and coveralls
steps:
- name: Set up Python
uses: actions/setup-python@v2
with:
python-version: 3.8
- name: Check out limsmock
uses: actions/checkout@v2
with:
repository: "Clinical-Genomics/limsmock"
- name: Install limsmock dependencies
run: |
python -m pip install --upgrade pip==21.1.2
pip install -r requirements.txt -r requirements-dev.txt .
- name: Check out cg_lims
uses: actions/checkout@v2
with:
repository: "Clinical-Genomics/cg_lims"
- name: Install cg_lims dependencies
run: |
pip install -r requirements.txt -r requirements-dev.txt .
- name: Install coveralls dependencies
run: |
pip install pytest-cov coveralls
- name: Test with pytest & Coveralls
run: |
pytest --cov=cg_lims/
coveralls
env:
GITHUB: 1
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
COVERALLS_REPO_TOKEN: ${{ secrets.COVERALLS_REPO_TOKEN }}