Skip to main content

Common workflow language reference implementation

Project description

==================================================================
Common workflow language tool description reference implementation
==================================================================

This is the reference implementation of the Common Workflow Language. It is
intended to be feature complete and provide comprehensive validation of CWL
files as well as provide other tools related to working with CWL.

This is written and tested for Python 2.7.

The reference implementation consists of two packages. The "cwltool" package
is the primary Python module containing the reference implementation in the
"cwltool" module and console executable by the same name.

The "cwl-runner" package is optional and provides an additional entry point
under the alias "cwl-runner", which is the implementation-agnostic name for the
default CWL interpreter installed on a host.

Install
-------

Installing the official package from PyPi (will install "cwltool" package as well)::

pip install cwl-runner

Or from source::

git clone https://github.com/common-workflow-language/cwltool.git
cd cwltool && python setup.py install
cd cwl-runner && python setup.py install

Run on the command line
-----------------------

Simple command::

cwl-runner [tool] [job]

Import as a module
----------------

Add::

import cwltool

to your script.

Use with boot2docker
--------------------
boot2docker is running docker inside a virtual machine and it only mounts ``Users``
on it. The default behavoir of CWL is to create temporary directories under e.g.
``/Var`` which is not accessible to Docker containers.

To run CWL successfully with boot2docker you need to set the ``--tmpdir-prefix``
and ``--tmp-outdir-prefix`` to somewhere under ``/Users``::

$ cwl-runner --tmp-outdir-prefix=/Users/username/project --tmpdir-prefix=/Users/username/project wc-tool.cwl wc-job.json

Project details


Release history Release notifications | RSS feed

Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

cwltool-1.0.20160408133555.tar.gz (85.7 kB view details)

Uploaded Source

File details

Details for the file cwltool-1.0.20160408133555.tar.gz.

File metadata

File hashes

Hashes for cwltool-1.0.20160408133555.tar.gz
Algorithm Hash digest
SHA256 f60187fc4aee9bc1bf812ad797067fc3cedb1fc4bebac0c8717a445be40caddd
MD5 2a48f0431e6c97aecfea0dbe15cb1250
BLAKE2b-256 7e485cb2dce38e24ba2d45931be9b56a64a4df64e5a7293aadf81afc05e233de

See more details on using hashes here.

Provenance

Supported by

AWS AWS Cloud computing and Security Sponsor Datadog Datadog Monitoring Fastly Fastly CDN Google Google Download Analytics Microsoft Microsoft PSF Sponsor Pingdom Pingdom Monitoring Sentry Sentry Error logging StatusPage StatusPage Status page