This repository represents a collection of SciUnit tests for various subprojects of OpenWorm.
- Set an environment variable for the root path of all of your openworm repositories. For example, you keep the ChannelWorm repository at
/path/to/openworm/ChannelWorm, then you would set:
export OPENWORM_HOME=/path/to/openworm - For each Open Worm subproject repository you wish to test (e.g. ChannelWorm, CElegansNeuroML):
cd $OPENWORM_HOME git clone http://github.com/openworm/REPO_NAME # Replace REPO_NAME with e.g. ChannelWorm cd REPO_NAME # Ditto git pull # Retrieve all branches (in any recent version of the git client) git checkout sciunit # Switch to the sciunit branch of the repo (which will contain updates for testing) pip install -e . --process-dependency-links # Install as a developer - Clone and install this repository:
cd $OPENWORM_HOME git clone http://github.com/openworm/tests cd tests pip install -e . --process-dependency-links - Launch and run any of the notebooks (
owtests/\*.ipynb), or run:
cd $OPENWORM_HOME python -m unittest owtests to run all of them in batch from the command line.
We provide a Docker container for the same installation:
git clone http://github.com/openworm/tests docker build -t openworm/owtests tests # Will build the container and run all the tests docker run -it openworm/owtests # To explore test artifacts from the shell #or chmod 744 docker-interact ./docker-interact owtests # To explore test notebooks from the browser - Add a lot more tests
- Allow tests to be run and output to be logged using SciUnit command line tools, e.g.
sciunit run.