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
sciunit run
.