Provide input parameters via command line in single workflow/"run" mode.

[danbills]

per this forum discussion, user would find it easier to provide inputs via CLI than inputs.json.

[duartemolha]

as an addition to this ... it would be better if you could provide SOME inputs via CLI and the remaining in a inputs.json file (with the CLI inputs taking precedence over the same inputs (if they exist) in the inputs file.

An example if this that I would like to use is for example, if you have a workflow that does a whole bunch of processed to a pair of fastq files...

It would be great if you could still provide an inputs.jsob with all of the required inputs and just over-ride the 2 fastq file inputs with the CLI arguments