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# Copyright (c) 2016 - 2020, Adrian Dusa
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, in whole or in part, are permitted provided that the
# following conditions are met:
# * Redistributions of source code must retain the above copyright
# notice, this list of conditions and the following disclaimer.
# * Redistributions in binary form must reproduce the above copyright
# notice, this list of conditions and the following disclaimer in the
# documentation and/or other materials provided with the distribution.
# * The names of its contributors may NOT be used to endorse or promote products
# derived from this software without specific prior written permission.
#
# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
# ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
# WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
# DISCLAIMED. IN NO EVENT SHALL ADRIAN DUSA BE LIABLE FOR ANY
# DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
# (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
# LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND
# ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
# (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
# SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
`pofind` <-
function(data, outcome = "", conditions = "", relation = "necessity", ...) {
if (missing(data)) {
cat("\n")
stop(simpleError("Data is missing.\n\n"))
}
funargs <- lapply(match.call(), deparse)
outcome <- admisc::recreate(substitute(outcome), colnames(data))
conditions <- admisc::recreate(substitute(conditions), colnames(data))
enter <- if (is.element("enter", names(list(...)))) "" else "\n"
if (identical(conditions, "")) {
conditions <- setdiff(colnames(data), admisc::notilde(outcome))
}
else {
if (is.character(conditions) & length(conditions) == 1) {
conditions <- admisc::splitstr(conditions)
if (length(conditions) == 1) {
if (grepl(":", conditions)) {
nms <- colnames(data)
cs <- unlist(strsplit(conditions, split = ":"))
if (!all(is.element(cs, nms))) {
cat(enter)
stop(simpleError(paste0("Inexisting condition(s) in the sequence.", enter, enter)))
}
conditions <- nms[seq(which(nms == cs[1]), which(nms == cs[2]))]
}
}
}
}
if (identical(outcome, "")) {
cat("\n")
stop(simpleError("The outcome is missing.\n\n"))
}
if (is.matrix(data)) {
data <- as.data.frame(data)
}
verify.qca(data)
for (i in seq(ncol(data))) {
if (!is.numeric(data[, i])) {
if (admisc::possibleNumeric(data[, i])) {
data[, i] <- admisc::asNumeric(data[, i])
}
}
}
origoutcome <- outcome
if (grepl("\\{", outcome)) {
outcome <- admisc::curlyBrackets(outcome, outside = TRUE)
}
else {
admisc::squareBrackets(outcome, outside = TRUE)
}
outcome <- admisc::notilde(outcome)
if (!is.element(outcome, colnames(data))) {
cat("\n")
stop(simpleError("Outcome not found in the data.\n\n"))
}
if (identical(conditions, "")) {
conditions <- setdiff(colnames(data), outcome)
}
else {
conditions <- admisc::splitstr(conditions)
verify.data(data, outcome, conditions)
if (length(conditions) == 1) {
if (grepl(":", conditions)) {
nms <- colnames(data)
cs <- unlist(strsplit(conditions, split = ":"))
conditions <- nms[seq(which(nms == cs[1]), which(nms == cs[2]))]
}
}
}
data <- data[, c(conditions, outcome)]
noflevels <- admisc::getInfo(data[, conditions, drop = FALSE])$noflevels
if (any(noflevels > 2)) {
expression <- paste(unlist(lapply(seq(length(conditions)), function(x) {
values <- sort(unique(data[, conditions[x]]))
return(paste(conditions[x], "[", values, "]", sep = ""))
})), collapse = "+")
}
else {
negconditions <- paste("~", conditions, sep = "")
expression <- paste(negconditions, conditions, sep = "+", collapse = "+")
}
pofargs <- list(setms = expression,
outcome = origoutcome,
data = data,
relation = relation,
... = ...)
result <- do.call(pof, pofargs)
result$incl.cov <- result$incl.cov[-nrow(result$incl.cov), , drop = FALSE]
result$options$setms <- result$options$setms[, -ncol(result$options$setms), drop = FALSE]
if (is.element("covU", colnames(result$incl.cov))) {
result$incl.cov <- result$incl.cov[, setdiff(colnames(result$incl.cov), "covU")]
}
rownames(result$incl.cov)[seq(length(conditions))] <- paste("", rownames(result$incl.cov)[seq(length(conditions))])
result$options$data <- funargs$data
return(result)
}
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