77 lines
2.6 KiB
R
77 lines
2.6 KiB
R
#' @title Test the coordinates
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#' @param ninds ninds
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#' @param coordinates coordinates
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#' @param interactive prompt user for relevant questions during execution
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#' @return a list of defectives ("viallinen") and coordinates
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#' @export
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testaaKoordinaatit <- function(ninds, coordinates, interactive = TRUE) {
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# Testaa onko koordinaatit kunnollisia.
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# modified by Lu Cheng, 05.12.2012
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viallinen <- 1
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if (any(sapply(coordinates, class) != "numeric")) {
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warning('Coordinates are not numerical!')
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return()
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}
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oikeanKokoinen <- size(coordinates, 1) == ninds & (size(coordinates, 2) == 2)
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if (!oikeanKokoinen) {
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warning('Wrong coordinates dimension!')
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return()
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}
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posstr <- sapply(coordinates, function(x) sprintf('%.10f', x))
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posstr <- gsub('\\.0.+', '.', posstr)
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posstr <- matrix(posstr, nrow = nrow(coordinates))
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uni1 <- unique(posstr[, 1])
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uni2 <- unique(posstr[, 2])
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posstr_new <- posstr
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if (length(uni1) == ninds && length(uni2) == ninds) {
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viallinen <- 0
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return(list(viallinen = viallinen, coordinates = coordinates))
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} else {
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ans <- "Yes"
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if (interactive) {
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ans <- questdlg(
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'Input coordinates are not unique. Do you want to make them unique?',
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'coordinates NOT unique', c('Yes', 'No'), 'Yes'
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)
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}
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if (strcmp(tolower(ans), 'no')) {
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warning('Coordinates are not unique!')
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return(list(viallinen = viallinen, coordinates = coordinates))
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}
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}
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for (i in 1:length(uni1)) {
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tmpinds <- find(posstr[, 1] %in% uni1[i])
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tmpNinds <- length(tmpinds)
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if (tmpNinds == 1) {
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next
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}
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if (tmpNinds >= 100) stop("Assertion failed. tmpNinds not < 100")
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tmparr <- round(seq(0, 99, length.out = tmpNinds))
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tmparr <- tmparr[sample(tmpNinds)]
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for (j in 1:tmpNinds) {
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posstr_new[tmpinds[j], 1] <- sprintf('%s%02d', posstr[tmpinds[j], 1], tmparr[j])
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}
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}
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for (i in 1:length(uni2)) {
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tmpinds <- find(posstr[, 2] %in% uni2[i])
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tmpNinds <- length(tmpinds)
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if (tmpNinds == 1) next
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if (tmpNinds >= 100) stop("Assertion failed. tmpNinds not < 100")
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tmparr <- round(seq(0, 99, length.out = tmpNinds))
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tmparr <- tmparr[sample(tmpNinds)]
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for (j in 1:tmpNinds) {
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posstr_new[tmpinds[j], 2] <- sprintf('%s%02d', posstr[tmpinds[j], 2], tmparr[j])
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}
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}
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coordinates <- matrix(sapply(posstr_new, as.double), ncol = 2)
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uni1 <- unique(coordinates[, 1])
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uni2 <- unique(coordinates[, 2])
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if (length(uni1 )== ninds && length(uni2) == ninds) {
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viallinen <- 0
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} else {
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warning('Can not make coordinates unique!')
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}
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return(list(viallinen = viallinen, coordinates = coordinates))
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}
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