Remove raw file option from PepQuery2

galaxyproteomics / tools-galaxyp

Galaxy Tool Shed repositories maintained and developed by the GalaxyP community

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Remove raw file option from PepQuery2 #760

Closed reid-wagner closed 1 month ago

reid-wagner commented 1 month ago

Raw input files do not work with the current PepQuery galaxy implementation. The -dc flag must be used to pass a ThermoRawFileParser executable to pepquery, which will require further modifications to the pepquery recipe.

For the time being, remove this option.

bgruening commented 1 month ago

Can you fix the lintint please?

reid-wagner commented 1 month ago

All fixed - thanks!