Works for both files and collections. Workflow defaults override tool defaults.
TODO:
- Unit test case to ensure this only works for non-default, non-multi data parameters.
- Implement XSD once syntax is finalized.
Also:
- dos2unix test/functional/tools/for_workflows/head.xml
- Single-quote text and data params in `<command/>`
- Remove deprecated `interpreter` attribute of `<command />`
If one maps a tool over an empty collection, one should get an empty output collection for each of the tool's outputs.
This should have always been a valid operation I think, the code just wasn't quite structured right when the collection work was merged - there were too many places I was assuming the existence of at least one actual output or input that was mapped over to continue going. This reworks all of that and seems to handle empty collections appropriately.
Fixes#4025 (not being informing the user of the operation, but actually by allowing the operation - which it should be allowed I think).
- Implement a wrapper script for launching a docker-galaxy-stable setup a many ways for this task including:
- Configure container's Galaxy with outer Galaxy's lib and test directory.
- Collect log files.
- Log a statement for interacting with the container easily while the test is running.
- Disable unneeded services.
- Implement a fan-in-fan-out style workflow for performance testing.
- Add an option to test performance of scheduling workflows without actually running jobs.
- Sample tool for creating large collections easily at beginning of tests (much faster than uploads).
- Sample tool for splitting a file into a collection for fan in and out workflow test.
- Assume Python 2.7 in scripts to simplify things.
- Add documentation.
- Add script to hit the API with workflows requests.
- Update testing Dockerfile to allow just booting up with a fixed master API key for this test to leverage.
- WIP: on updating test Dockerfile to work with slurm, multiple handlers, uwsgi, etc...
Including same test with workflow parameter substition - gotta admit I thought that workflow test was going to fail - so this week is looking pretty good :).
John Chilton