| MSnbaseOptions {MSnbase} | R Documentation |
MSnbase defined a few options globally using the standard R
options mechanism. The current values of these options can be
queried with MSnbaseOptions. The options are:
verbose: defines a session-wide verbosity flag, that
is used if the verbose argument in individual functions is
not set.
PARALLEL_THRESH: defines the minimum number of spectra per file
necessary before using parallel processing.
fastLoad: logical(1). If TRUE performs faster data loading for all
methods of OnDiskMSnExp that load data from the original files (such as
spectrapply()). Users experiencing data I/O errors (observed mostly
on macOS systems) should set this option to FALSE.
MSnbaseOptions() isMSnbaseVerbose() setMSnbaseVerbose(opt) setMSnbaseParallelThresh(opt = 1000) setMSnbaseFastLoad(opt = TRUE) isMSnbaseFastLoad()
opt |
The value of the new option |
isMSnbaseVerbose is one wrapper for the verbosity flag,
also available through options("MSnbase")$verbose.
There are also setters to set options individually. When run without argument, the verbosity setter inverts the current value of the option.
A list of MSnbase options and the single option
values for the individual accessors.