updateSettings: Update settings to current version

In sneumann/RMassBank: Workflow to process tandem MS files and build MassBank records

Description

Checks if all necessary fields are present in the current settings and fills in default values from the RmbDefaultSettings if required.

Usage

updateSettings(settings, warn = TRUE)

Arguments

settings	The set of settings to check and update.
warn	Whether to update parameters quietly (FALSE) or to notify the user of the changed parameters (TRUE, default.) This serves to make the user aware that standard parameters are filled in!

Value

The updated set of settings.

Note

Important: There is a change in behaviour of RMassBank in certain cases when filterSettings is not present in the old settings! The default pre-recalibration cutoff from RmbDefaultSettings is 10000. Formerly the pre-recalibration cutoff was set to be 10000 for positive spectra but 0 for negative spectra.

Updating the settings files is preferred to using the updateSettings function.

Author(s)

Stravs MA, Eawag <[e-mail]>

Examples

## Not run: 
w@settings <- updateSettings(w@settings)

## End(Not run)

sneumann/RMassBank documentation built on Oct. 20, 2020, 3:19 p.m.