R/physio-unisens_utility_add_evententry.R

In Fiddleman/NeuroIS: Brownie R package

#' unisens r
#' @keywords internal
#' @import rJava
unisens_utility_add_evententry <- function(path, unisens){

        j_unisensFactory <- J('org.unisens.UnisensFactoryBuilder', 'createFactory')
        j_unisens <- J(j_unisensFactory, 'createUnisens', path)

        # file extension check
        entryId <- unisens_utility_file_extension_check(unisens$entryId, unisens$fileFormat)

        j_entry <- J(j_unisens, "createEventEntry", entryId, unisens$sampleRate)
        J(j_entry, "setComment", unisens$entryComment)
        J(j_entry, "setContentClass", unisens$contentClass)

        # Optional attributes
        if ('sourceId' %in% names(unisens)){
                J(j_entry, "setSourceId", unisens$sourceId)
        }
        if ('source' %in% names(unisens)){
                J(j_entry, "setSource", unisens$source)
        }

        # if (!is.null(unisens$data)){
        #         #Convert data to ArrayList, when necessary
        #         if(class(unisens$data) != "jobjRef"  & tryCatch(unisens$data@jclass != "java/util/ArrayList", error = function(x){TRUE})){
        #                 tempData <- .jnew('java.util.ArrayList')
        #                 for (i in 1:length(unisens$data$samplestamp)){
        #                         J(tempData, "add", .jnew("org.unisens.Event", .jlong(unisens$data$samplestamp[i]), unisens$data$type[i], unisens$data$comment[i]))
        #                 }
        #                 unisens$data <- tempData
        #         }
        #
        # }

        if (tolower(unisens$fileFormat) == 'bin'){
                # Write BIN data
                j_fileFormat <- .jnew("org.unisens.ri.BinFileFormatImpl")
                J(j_entry, "setTypeLength", as.integer(unisens$typeLength))
                J(j_entry, "setCommentLength", as.integer(unisens$commentLength))
                J(j_entry, "setFileFormat", j_fileFormat)
                J(j_entry, "append", unisens$data)

        }else if(tolower(unisens$fileFormat) == 'csv'){
                # Write CSV data

                j_fileFormat = .jnew("org.unisens.ri.CsvFileFormatImpl")
                if(!('separator' %in% names(unisens))){
                        unisens$separator <- ";"
                }else if(tolower(unisens$separator) ==  '\t'){
                        # \t is the commen abbrevation for tabulator (ASCII 0x09), but
                        # Matlab cannot pass this value to the Java library. SPRINTF
                        # converts the string '\t' to ASCII 0x09.
                        unisens$separator <- sprintf('\t')
                }

                if (!('decimalSeparator' %in% names(unisens))){
                        unisens$decimalSeparator = '.'
                }

                J(j_fileFormat, "setSeparator", unisens$separator)
                J(j_fileFormat, "setDecimalSeparator", unisens$decimalSeparator)
                J(j_entry, "setFileFormat", j_fileFormat)
                #J(j_entry, "append", unisens$data)
                write.table(unisens$data, file.path(path, entryId), sep = unisens$separator,
                            dec = unisens$decimalSeparator, row.names = FALSE, col.names = FALSE, quote = FALSE, append = TRUE)

        }else if(tolower(unisens$fileFormat) == 'xml'){
                # write XML data
                j_fileFormat <- .jnew("org.unisens.ri.XmlFileFormatImpl")
                J(j_entry, "setFileFormat", j_fileFormat)
                J(j_entry, "append", unisens$data)

        }else{
                cat(sprintf('Unknown file format: %s\n', unisens$fileFormat))
        }

        J(j_unisens, "save")
        J(j_unisens, "closeAll")

        # This is a workaround for the XMLNS problem: Read the XML file, add the
        # xmlns attribute when necessary and save the file.
        # xmlDoc <- xmlTreeParse(paste0(unisens$path, .Platform$file.sep, 'unisens.xml'))
        # xmlRoot(xmlDoc)
        # if (is.null(xmlGetAttr(xmlRoot(xmlDoc), 'xmlns', NULL))){
        #         xmlAttrs(xmlRoot(xmlDoc)) <- c(xmlns = 'http://www.unisens.org/unisens2.0')
        # }
        #
        # saveXML(xmlDoc, paste0(unisens.path, .Platform$file.sep, 'unisens.xml'))
}