Phase1 <- function(fix, stimmat, check = FALSE) {
# message(paste(".... Phase 1"))
crit1 <- mean((stimmat$ye[stimmat$line == 1] - stimmat$ys[stimmat$line == 1])) / 4
crit2 <- mean((stimmat$ye[stimmat$line == 1] - stimmat$ys[stimmat$line == 1])) / 4
long <- as.numeric(unlist(dimnames(table(fix$linerun)[table(fix$linerun) >= 3])))
old <- length(long) + 1
new <- length(long)
if (length(long) == 0) {
new <- new + 1
}
while (new < old) {
if (check == TRUE) {
ReadKey()
}
old <- new
out <- NULL
if (length(table(fix$linerun)[table(fix$linerun) >= 3]) == 1) {
break
} else {
long <- as.numeric(unlist(dimnames(table(fix$linerun)[table(fix$linerun) >= 3])))
}
# outer loop
for (i in 1:(length(long) - 1)) {
# i <- 1
# print(i)
j <- i + 1
# if long runs are not adjecent
if (long[j] != (long[i] + 1)) {
next
}
tmp <- matrix(NA, 1, 5)
tmp[1, 1] <- long[i]
tmp[1, 2] <- long[j]
# TODO: necessary?
if (sd(fix$yn[fix$linerun == long[i]], na.rm = T) == 0 |
sd(fix$xn[fix$linerun == long[i]], na.rm = T) == 0 |
sd(fix$yn[fix$linerun == long[j]], na.rm = T) == 0 |
sd(fix$xn[fix$linerun == long[j]], na.rm = T) == 0) {
next
}
# compute regressions
fm <- lm(fix$yn[fix$linerun == long[i] | fix$linerun == long[j]] ~
scale(fix$xn[fix$linerun == long[i] | fix$linerun == long[j]]))
tmp[1, 3] <- round(sigma(fm))
tmp[1, 4] <- round(coef(fm)[1])
tmp[1, 5] <- round(coef(fm)[2])
out <- rbind(out, tmp)
}
if(is.null(out)) {
next
}
# select candidate
out2 <- out[order(abs(out[, 5])), , drop = F]
if (sum(out2[,3] < crit1 & abs(out2[,5]) < crit2) < 1) {
break
} else if (sum(out2[,3] < crit1 & abs(out2[,5]) < crit2) == 1) {
cand <- out2[out2[,3] < crit1 & abs(out2[,5]) < crit2, ]
} else if (sum(out2[,3] < crit1 & abs(out2[,5]) < crit2) > 1) {
cand <- out2[out2[,3] < crit1 & abs(out2[,5]) < crit2, ][1, ]
}
# plot
if (check == TRUE) {
plot(fix$xn, fix$yn, ylim = c(768, 0), type = "l", main = paste(cand[1], ":", cand[2]))
points(fix$xn[fix$linerun == cand[1]], fix$yn[fix$linerun == cand[1]],
col = "green", pch = 16, type = "b", cex = 1, lty = 1)
points(fix$xn[fix$linerun == cand[2]], fix$yn[fix$linerun == cand[2]],
col = "red", pch = 16, type = "b", cex = 1, lty = 1)
abline(lm(fix$yn[fix$linerun == cand[1] | fix$linerun == cand[2]] ~
(fix$xn[fix$linerun == cand[1] | fix$linerun == cand[2]])),
col = "red")
}
fix$linerun[fix$linerun == cand[2]] <- cand[1]
fix$linerun <- as.numeric(as.factor(fix$linerun))
new <- length(table(fix$linerun)[table(fix$linerun) >= 3])
}
return(fix)
}
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