An alternative to cwl-dummy that relies on a modified
DockerRequirement rather than rewriting the whole CWL file.
Mainly intended to be used with a DockerRequirement that points to an
image built from this repository, but rudimentary support for non-Docker
execution is available on the no-docker branch (add the bin
directory to your path before running cwltool). The original cwl-dummy
can be used to modify DockerRequirements to point to such an image.
The cwl-dummy-tool Docker container is available on Docker Hub at
mercury/cwl-scheduler-tests.
To use this, change the DockerRequirement on a CWL tool or workflow to
point to the above Docker container (you can use cwl-dummy to do
this automatically), then use your favourite CWL runner to execute the
tool/workflow. If cwl-dummy-tool supports the program your CWL file
uses, it will automatically create the outputs the real tool would have
created, then immediately exit.
NB: cwl-dummy-tool is intended to be used with HGI's workflows, so it contains a few hacks that will probably break if you try to use it on other CWL files.
HGI people: even though it doesn't do any useful computation, this container still needs real interval list files in order to work properly, since the workflow starts one tool for each interval.