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- # Use the latest 2.1 version of CircleCI pipeline process engine.
- # See: https://circleci.com/docs/2.0/configuration-reference
- version: 2.1
- # Create the orb for the code coverage upload
- orbs:
- codecov: codecov/codecov@3.2.2
- # Define a job to be invoked later in a workflow.
- # See: https://circleci.com/docs/2.0/configuration-reference/#jobs
- jobs:
- azure-storage:
- # Specify the execution environment. You can specify an image from Dockerhub or use one of our Convenience Images from CircleCI's Developer Hub.
- # See: https://circleci.com/docs/2.0/configuration-reference/#docker-machine-macos-windows-executor
- docker:
- - image: ubuntu:20.04
- # Add steps to the job
- # See: https://circleci.com/docs/2.0/configuration-reference/#steps
- steps:
- - checkout
- - run:
- name: Setup Environment and Run Tests
- command: |
- apt update
- apt install -y wget coreutils curl gnupg
- wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O $HOME/miniconda.sh;
- bash $HOME/miniconda.sh -b -p $HOME/miniconda
- export PATH="$HOME/miniconda/bin:$PATH"
- conda config --set always_yes yes --set changeps1 no
- conda update -y conda
- conda config --add channels conda-forge
- conda create -n azure_storage python=3.8.5
- source activate azure_storage
- conda install -c olcbioinformatics azure_storage
- mkdir /invalid
- chmod -R 000 /invalid
- python -m pytest tests/ --cov=azure_storage --cov-config=.coveragec --cov-report=xml:test_reports/azure_storage.xml
- - store_artifacts:
- path: test_reports/
- destination: circleci-docs
- - codecov/upload:
- file: /root/project/test_reports/azure_storage.xml
- xtra_args: -R /root/project/
- workflows:
- build_and_test:
- jobs:
- - azure-storage:
- filters:
- branches:
- ignore: gh-pages
|
