Common workflow language reference implementation backended by a GA4GH Task Execution Service
GA4GH CWL Task Execution
cwl-tes submits your tasks to a TES server. Task submission is parallelized when possible.
- Start the task server
funnel server run
- Run your CWL tool/workflow
cwl-tes --tes http://localhost:8000 tests/hashsplitter-workflow.cwl.yml --input tests/resources/test.txt
I strongly recommend using a virtualenv for installation since cwl-tes depends on a specific version of cwltool.
Install from pip:
pip install cwl-tes
Install from source:
python setup.py install
Run the v1.0 conformance tests
To start a funnel server instance automatically and run all of the tests, install tox and run it
$ pip install tox $ tox
For running only the conformance tests in python 2.7:
$ tox -e py27-unit
In a similar way they can be run on any supported python interpreter.
A more manual approach:
Download the conformance tests:
git submodule update --init --recursive
Start the funnel server.
funnel server --config /path/to/config.yaml
Make sure that TMPDIR is specified in the AllowedDirs of your Local storage configuration.
To run all the tests:
To run a specifc test:
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.