Upgrade miniwdl to 1.15.0 and refresh WDL unit test skip lists (#5377)

[annagiroti]

miniwdl 1.15.0 adds parsing support for WDL 1.2 hints sections, unblocking several previously-skipped conformance unit tests and letting most nested-input tests run. Removes 30 entries across the WDL 1.1 and 1.2 unsupported-test lists that now pass, and updates the remaining entries' comments to reflect their current (rather than pre-upgrade) failure reasons.

Addresses #5377

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[adamnovak]

This looks OK, but I think for the return codes ones we might be removing information that's still maybe accurate.

I think the CI failed due to the code not type checking against the new MiniWDL, so you might need to fix that.

[adamnovak]

Has MiniWDL 1.15 learned about return_codes? I think the Got: codes are probably right for these and it's the expected codes that are wrong.