Read biotic XML files

This function reads multiple biotic file to a list with a list of tables for each file.

ReadBiotic(FileNames = character())

Arguments

FileNames

The paths of the biotic files.

Value

An object of StoX data type BioticData: A list of a list of data.tables of the different levels of the input biotic files.

Details

The file is read using the ICESBiotic XSD defined by ICES acoustic database (https://www.ices.dk/data/data-portals/Pages/acoustic.aspx), with additional information about headers defined by the internal function icesAcousticPreprocess.

One particular case is when headers (e.g. LocalID) are stored as NA in the file. This results in the string "NA" and not the missing value NA. To read fields as NA, the field must be left out in the file.

See also

readXmlFile for reading xml files of the formats NMDAcoustic.

Examples

exampleFile <- system.file("testresources","biotic3.1_example.xml", package="RstoxData")
bioticData <- ReadBiotic(exampleFile)