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We support prefix arguments that have separate: false. This also
requires more normalization in the reader to ensure the default
value of separate and to coerce it to a boolean.
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Earlier, we were converting array inputs to a list of bindings. We now
use a vector to be consistent with the spirit and letter of the rest
of the code.
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Earlier, we were adding defaults only with CommandLineTool class
workflows, and ignoring defaults in Workflow class workflows.
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Now that we have resolved type ambiguities in YAML input files, prefer
YAML job files to JSON job files.
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End-to-end tests allow us to test the whole of ravanan. This is a
useful sanity check to ensure that basic workflows remain working.
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