This function allows dynamic aggregation and validation of data read by ir_read_isofiles(). Like ir_read_isofiles(), it is designed to be fail save by safely catching errors and reporting back on them (see ir_get_problems()). This function should work out of the box for most files without additional modification of the aggregator.
Usage
ir_aggregate_isofiles(
isofiles,
intensity_units = c("mV", "V", "fA", "pA", "nA", "\u00b5A", "mA", "A", "cps"),
aggregator = "standard",
show_progress = is_interactive(),
show_problems = TRUE
)Arguments
- isofiles
the isotope data files/archives read in by
ir_read_isofiles()- intensity_units
target intensity unit to convert traces/cycles/scans to before aggregation, one of
"mV","V","fA","pA","nA","\u00b5A","mA","A","cps". Only applied when the aggregator includes any of those datasets. Default is"mV".- aggregator
typically the name of a registered aggregator (see all with
ir_get_option("aggregators")), default is the "standard" aggregator included in the package (ir_get_aggregator("standard")). Other options are "minimal" (ir_get_aggregator("minimal")) and "extended" (ir_get_aggregator("extended")). Theaggregatorparameter can can also directly be an aggregator tibble (created/modified withir_start_aggregator()and/orir_add_to_aggregator()) that defines which data should be aggregated and how.- show_progress
whether to show a progress bar, by default always enabled when running interactively e.g. inside Positron or RStudio (and disabled in a notebook), turn off with
show_progress = FALSE- show_problems
whether to show problems encountered along the way (rather than just keeping track of them with
ir_get_problems()). Set toshow_problems = FALSEto turn off the live printout. Either way, all encountered problems can be retrieved with runningir_get_problems()for the returned list