Mouse-sized WDL tasks for your workflows. 🐁
Please add your suggestions to the Issues tab and flag them as enhancement.
Depreciated: Use https://github.com/dockstore/checker-WDL-templates instead
For performing a check between an array of truth files and an array of test files. It is assumed that the filenames between the truth and test files match. All md5 mismatches are reported, unless fastfail == true in which case the pipeline will fail immediately.
Depreciated: Use https://github.com/dockstore/checker-WDL-templates instead
Similar to arraycheck_exact, but upon md5 mismatch, an Rscript is run to check for functional equivalence via all.equal(testfile, truthfile, tolerance). It is assumed that both checked files are RData files. The user may set the tolerance value, which defaults to 1.0e-8.
Detailed example of how to use to estimate the disk size requirement of a task and/or allow the user to pick a disk size.
Type enum exists in CWL, but not WDL. This task very roughly mimics the enum type by checking if a string is within an allowed set of values.
Depreciated: Use https://github.com/dockstore/checker-WDL-templates instead
Checks if two files are equivalent, as opposed to arraycheck_* iterating through two arrays. Includes the same Rdata equivalence checker of arraycheck_rdata (disabled by default).
Example of how to use the pair variable type along with zip() to do a dot product scatter. This can be used to take a previous scattered task's inputs and outputs, and scatter again in a way that links the inputs with the outputs they generated.
Checker/Debugger for Stuart tasks. The test files are derived from the WDL translation of the UWGAC TOPMed Pipeline.
Template for enforcing order in a WDL workspace. This could be useful if you want a workflow to fail early, rather than waste time/money on other steps.