Workflow "Wizard" about smartpeak HOT 4 CLOSED

It is currently easy (especially after the filenames PR) to verify that files are in the specified locations, if we use Filenames. We simply go through all the members that are not empty strings, and print the data that files contain (or print the metadata, when files are big or contain too much data).

It's difficult to do the same with the "dynamic" filenames because, assuming my last few comments in the PR are correct, filenames are not decided BEFORE (or OUTSIDE processing functions) runtime, but they are generated dynamically, based on some information (i.e. the sample name or the unique injection name).

What do you recommend doing about this issue? @dmccloskey

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Most of the filenames locations in the "dynamic" part is output files, so the concern is minimal... but two members are featureXML_i and mzML_i

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I am creating a WorkflowWizard class in /io/ subfolder for this epic

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Most of the filenames locations in the "dynamic" part is output files, so the concern is minimal... but two members are featureXML_i and mzML_i

This is correct. All of the input files will need a check. For the featureXML, the file location should be "user specified directory" + injection_name. For the mzML_I, the complete file location would be specified by the user in the Sequence file.

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