FishResp (version 1.1.1)

pyroscience.pumpresp: Convert Respirometry Data from PyroScience and the pump controller PumpResp to the FishResp Format

Description

The function is used to convert raw data from 'Pyro Oxygen Logger' (PyroScience) and a logger file of the pump controller PumpResp to the 'FishResp' format. This function should be applied before usage of the functions import.test and import.meas. The output is a file containing raw respirometry data in the 'FishResp' format (see Details in import.test to read more information about the 'FishResp' format)

Usage

pyroscience.pumpresp(pyroscience.file,
                     pumpresp.file,
                     fishresp.file,
                     n.chamber = c(1,2,3,4),
                     date.format = c("DMY", "MDY", "YMD"))

Value

The function exports a file containing raw data in the 'FishResp' format

Arguments

pyroscience.file

the name of a file which contains raw data obtained from the 'Pyro Oxygen Logger' software (PyroScience)

pumpresp.file

the name of a file which contains logger data obtained from the pump conroller PumpResp

fishresp.file

the name of an exported file containing raw data in the 'FishResp' format

n.chamber

integer: the number of chambers used in an experiment (including empty ones)

date.format

string: date format (DMY, MDY or YMD) used in raw data obtained from the 'Pyro Oxygen Logger' software

Examples

if (FALSE) {
pyroscience.path = system.file("extdata/salmon/salmon_pyroscience.txt",
                 package = "FishResp")

pumpresp.path = system.file("extdata/salmon/salmon_pumpresp.txt",
                 package = "FishResp")

pyroscience.pumpresp(pyroscience.path,
                     pumpresp.path,
                     "fishresp.txt",
                     n.chamber = 4,
                     date.format = "DMY")
}