Nothing
cpath <-
function (x, values = FALSE, collapse = TRUE, directed, bonds,
sel, sep, lb2lb)
{
if (missing(directed) == FALSE && isTRUE(directed == FALSE) ==
TRUE) {
if (is.na(dim(x)[3]) == FALSE) {
for (i in seq_len(dim(x)[3])) {
x[, , i] <- mnplx(x[, , i], directed = FALSE)
}
rm(i)
}
else {
x <- mnplx(x, directed = FALSE)
}
}
else {
NA
}
ifelse(missing(bonds) == TRUE, bonds <- "entire", NA)
ifelse(missing(sep) == TRUE, sep <- ",", NA)
ifelse(missing(sel) == FALSE && isTRUE(sel == "all") == TRUE,
sel <- dimnames(x)[[1]], NA)
ifelse(missing(lb2lb) == FALSE && isTRUE(lb2lb == FALSE) ==
TRUE, lb2lb <- FALSE, lb2lb <- TRUE)
netrs <- transf(dichot(x, c = 1L), type = "tolist", lb2lb = lb2lb)
qn <- list()
if (is.na(dim(x)[3]) == FALSE) {
cmp <- vector()
for (k in seq_len((length(netrs) - 1L))) {
if (length(netrs[[k]]) > 0) {
for (i in seq_len(length(netrs[[k]]))) {
for (j in seq_len(length(netrs[[k + 1L]]))) {
if (isTRUE(any(duplicated(dhc(c(netrs[[k]][i],
netrs[[k + 1]][j]))[seq(2, 3)]))) == TRUE) {
cmp <- append(cmp, paste0(attr(netrs[k],
"names"), attr(netrs[k + 1L], "names")))
qn[[length(qn) + 1L]] <- as.vector(unique(dhc(c(netrs[[k]][i],
netrs[[k + 1L]][j]))))
}
else if (isTRUE(any(duplicated(dhc(c(netrs[[k +
1L]][j], netrs[[k]][i]))[seq(2, 3)]))) ==
TRUE) {
cmp <- append(cmp, paste0(attr(netrs[k +
1L], "names"), attr(netrs[k], "names")))
qn[[length(qn) + 1L]] <- as.vector(unique(dhc(c(netrs[[k +
1L]][j], netrs[[k]][i]))))
}
}
rm(j)
}
rm(i)
}
}
rm(k)
ifelse(isTRUE(length(cmp) != 0) == TRUE, attr(qn, "names") <- cmp,
NA)
}
else if (is.na(dim(x)[3]) == TRUE) {
NA
}
qm <- list()
cp <- vector()
if (is.na(dim(x)[3]) == FALSE) {
for (k in seq_len((length(netrs)))) {
if (length(netrs[[k]]) > 1) {
for (i in seq_len(length(netrs[[k]]) - 1L)) {
for (j in (i + 1L):length(netrs[[k]])) {
if (isTRUE(any(duplicated(dhc(c(netrs[[k]][i],
netrs[[k]][j]))[seq(2, 3)]))) == TRUE) {
cp <- append(cp, paste0(attr(netrs[k],
"names"), attr(netrs[k], "names")))
qm[[length(qm) + 1L]] <- as.vector(unique(dhc(c(netrs[[k]][i],
netrs[[k]][j]))))
}
}
rm(j)
}
rm(i)
for (i in length(netrs[[k]]):1) {
for (j in (i - 1L):1) {
if (isTRUE(any(duplicated(dhc(c(netrs[[k]][i],
netrs[[k]][j]))[seq(2, 3)]))) == TRUE) {
cp <- append(cp, paste0(attr(netrs[k],
"names"), attr(netrs[k], "names")))
qm[[length(qm) + 1L]] <- as.vector(unique(dhc(c(netrs[[k]][i],
netrs[[k]][j]))))
}
}
rm(j)
}
rm(i)
}
}
rm(k)
ifelse(isTRUE(length(cp) != 0) == TRUE, attr(qm, "names") <- cp,
NA)
}
else if (is.na(dim(x)[3]) == TRUE) {
for (i in seq_len(length(netrs) - 1L)) {
for (j in (i + 1L):length(netrs)) {
if (isTRUE(any(duplicated(dhc(c(netrs[i], netrs[j]))[seq(2,
3)]))) == TRUE) {
qm[[length(qm) + 1L]] <- as.vector(unique(dhc(c(netrs[i],
netrs[j]))))
}
}
rm(j)
}
rm(i)
for (i in length(netrs):1) {
for (j in (i - 1L):1) {
if (isTRUE(any(duplicated(dhc(c(netrs[i], netrs[j]))[seq(2,
3)]))) == TRUE) {
qm[[length(qm) + 1]] <- as.vector(unique(dhc(c(netrs[i],
netrs[j]))))
}
}
rm(j)
}
rm(i)
}
if (missing(sel) == TRUE) {
bnd2 <- c(qm, qn)
}
else {
pths <- c(qm, qn)
bnd2 <- list()
bnd2s <- list()
cpsel <- vector()
for (i in seq_len(length(pths))) {
if (any(sel %in% pths[[i]]) == TRUE) {
ifelse(isTRUE(values == TRUE) == TRUE, bnd2s[[length(bnd2s) +
1L]] <- pths[[i]][seq_len(3)], NA)
bnd2[[length(bnd2) + 1L]] <- pths[[i]]
cpsel <- append(cpsel, attr(pths, "names")[i])
}
else {
NA
}
}
rm(i)
ifelse(isTRUE(length(cpsel) == 0) == TRUE, NA, attr(bnd2,
"names") <- cpsel)
if (isTRUE(values == TRUE) == TRUE) {
vsel <- list()
length(vsel) <- length(sel)
for (i in seq_len(length(vsel))) {
vsel[[i]] <- which(unlist(bnd2s) %in% sel[i])%%3L
}
rm(i)
attr(vsel, "names") <- sel
rm(bnd2s)
}
else {
NA
}
}
if (isTRUE(length(bnd2) == 0) == TRUE) {
return(list(0))
}
else {
str2 <- attr(bnd2, "names")
if (isTRUE(collapse == FALSE) == TRUE) {
jbnd2 <- jnt(bnd2, sep = sep)
}
else if (isTRUE(collapse == TRUE) == TRUE) {
if (is.null(str2) == FALSE) {
str2u <- unique(attr(bnd2, "names"))
jbnd2 <- list()
length(jbnd2) <- length(str2u)
for (i in seq_len(length(str2u))) {
jbnd2[[i]] <- as.vector(unlist(jnt(bnd2, sep = sep)[which(attr(bnd2,
"names") == str2u[i])]))
}
rm(i)
attr(jbnd2, "names") <- str2u
}
else {
jbnd2 <- unlist(jnt(bnd2, sep = sep))
}
}
if (isTRUE(values == TRUE) == TRUE) {
if (is.na(dim(x)[3]) == FALSE) {
str2 <- attr(bnd2, "names")
lcp <- levels(factor(str2))
count <- vector()
for (i in seq_len(length(lcp))) count <- append(count,
sum(str2 == lcp[i]))
cnt <- t(as.data.frame(count))
colnames(cnt) <- lcp
rownames(cnt) <- ""
}
else {
cnt <- length(jbnd2)
}
if (missing(sel) == TRUE) {
return(list(cp = jbnd2, counts = cnt, total = sum(cnt)))
}
else {
cnts <- matrix(0L, nrow = length(vsel), ncol = 3)
colnames(cnts) <- c("orig", "intr", "trgt")
rownames(cnts) <- attr(vsel, "names")
for (i in seq_len(length(vsel))) {
cnts[i, 1] <- length(which(vsel[[i]] == 1))
cnts[i, 2] <- length(which(vsel[[i]] == 2))
cnts[i, 3] <- length(which(vsel[[i]] == 0))
}
rm(i)
return(list(cp = jbnd2, sel = cnts, counts = cnt,
total = sum(cnt)))
}
}
else {
jbnd2
}
}
}
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