streamclean: Cleaning raw streaming Dataflow output

In jsta/DataflowR: Toolbox for Processing and Viewing Underway Dataflow Output

Cleaning raw streaming Dataflow output

Description

Cleaning raw streaming Dataflow, C6, Eureka-Manta, and YSI-Exo output

Usage

streamclean(yearmon, gps, dfmmin = NA, c6mmin = NA, eummin = NA,
  exommin = NA, tofile = FALSE, sep = ",", fdir = getOption("fdir"))

Arguments

yearmon	numeric designation of survey date formatted as yyyymm
gps	character dataset to use for GPS alignment of other data streams. Choice of "df", "eu", or "exo".
dfmmin	integer optional minimum df measurement frequency (# measurements/min)
c6mmin	integer optional minimum c6 measurement frequency
eummin	integer optional minimum eureka (manta) measurement frequency
exommin	integer optional minimum exo measurement frequency
tofile	logical save cleaned output to DF_FullDataSets?
sep	character optional predesignation of item seperation character in raw data files
fdir	character file path to local data directory

Details

Dataflow cleaning drops all minutes that have less measurements than "mmin". C6 data is interpolated to match Dataflow. Automatically compares salinity against conducitivty/temperature recalculated salinity and replaces if slope of fit is not close to 1. Bad DO columns must sometimes be removed manually. TODO - Add check the make sure that the year of the data (not just the filename) matches the year of yearmon

Examples

## Not run: 
#old
dt <- streamclean(yearmon = 201505, gps = "df", dfmmin = 7, c6mmin = 10,
tofile = FALSE)
dt <- streamclean(yearmon = 201513, dfmmin = 7, c6mmin = 12,
tofile = FALSE, exommin = 60, eummin = 12)

#working
dt <- streamclean(yearmon = 201512, gps = "df", c6mmin = 6, dfmmin = 7)
dt <- streamclean(yearmon = 201601, gps = "eu", eummin = 12)
dt <- streamclean(yearmon = 201603, gps = "exo", exommin = 40, c6mmin = 12)

## End(Not run)

jsta/DataflowR documentation built on Sept. 27, 2022, 11:13 p.m.