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general.R
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general.R
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fail.with <- function(default=NULL, expr, quiet=FALSE) {
if (quiet) {
result <- tryCatch(eval(expr, parent.frame()), error=function(e) default)
} else {
result <- default
try(result <- eval(expr, parent.frame()))
}
result
}
dopar <- function(what, backend=c('doMC')) {
backend <- match.arg(backend)
if (!libLoaded(backend)) library(backend, character.only=TRUE)
if (missing(what)) {
cat("Using", getDoParName(), "backend with", getDoParWorkers(),
ifelse(getDoParWorkers() == 1, "worker", "workers"), "\n")
} else {
if (is.logical(what)) {
if (what) what <- 2 else registerDoSEQ()
}
if (is.numeric(what)) {
if (what < 2) {
registerDoSEQ()
} else {
register <- paste('register', toupper(substring(backend, 1, 1)),
substring(backend, 2), sep="")
do.call(register, list(what))
}
}
}
invisible(getDoParWorkers() > 1)
}
## ':=' <- function(lhs, rhs) {
## # Taken from: http://code.google.com/p/miscell/source/browse/rvalues/rvalues.r
## # Who the hell knew you could do this?
## # c(a,b,c) := c(1,2,3)
## frame <- parent.frame()
## lhs <- as.list(substitute(lhs))
## if (length(lhs) > 1) {
## lhs <- lhs[-1]
## }
## if (length(lhs) == 1) {
## do.call(`=`, list(lhs[[1]], rhs), envir=frame)
## return(invisible(NULL))
## }
## if (is.function(rhs) || is(rhs, 'formula')) {
## rhs <- list(rhs)
## }
## if (length(lhs) > length(rhs)) {
## rhs <- c(rhs, rep(list(NULL), length(lhs) - length(rhs)))
## }
## for (i in 1:length(lhs)) {
## do.call(`=`, list(lhs[[i]], rhs[[i]]), envir=frame)
## }
## return(invisible(NULL))
## }
swap <- function(a,b) {
frame <- parent.frame()
tmp <- a
do.call(`=`, list(substitute(a), substitute(b)), envir=frame)
do.call(`=`, list(substitute(b), substitute(tmp)), envir=frame)
return(invisible(NULL))
}
filter.na <- function(items) {
## filters NA vars out of list
# Filter(function(x) !is.na(x), items)
items[!is.na(items)]
}
match.dim <- function(margin) {
# You can specify the margin by the index used to reference it, or by
# it's name. This function returns which dimension to "run-over":
# - 1 is rows
# - 2 is cols
# (This function is vectorized, tho I'm not sure why)
rows <- which(margin %in% c('r', 'row', 'rows', 1))
cols <- which(margin %in% c('c', 'col', 'cols', 'column', 'columns', 2))
result <- numeric(length(margin))
result[rows] <- 1
result[cols] <- 2
result[-c(rows,cols)] <- NA
result
}
dim.names <- function(object, along=1, dnames=NULL) {
# Returns a character vector, will be length 0 if we don't want
# to use any dim.names, othwerwise returns a vector that is the
# same length as the dim(object)[along]
along <- match.dim(along)
getnames <- if (along == 1) rownames else colnames
res.names <- character()
if (!is.null(dnames)) {
if (is.logical(dnames)) {
res.names <- if (dnames) getnames(object) else character()
} else {
if (!is.character(dnames)) {
stop("What row.names are you giving me?")
} else if (length(dnames) != dim(object)[along]) {
stop("Illegal number of dim.names supplied [!= dim(data.frame)[along]]")
} else {
res.names <- dnames
}
}
}
res.names
}
whos <- function(pattern='*', show.memory=TRUE, ENV=.GlobalEnv) {
if (!is.character(pattern)) {
# Maybe we pass in a list
things <- names(pattern)
if (is.null(things)) {
stop("Don't want to deal with un-names things in a list")
}
ENV <- new.env()
for (var in things) {
assign(var, pattern[[var]], envir=ENV)
}
} else {
things <- Filter(function(x) {
thing <- try(get(x, env=ENV), silent=TRUE)
!is(thing, 'try-error') && !is.function(thing)
}, ls(parent.frame(), pattern=utils:::glob2rx(pattern)))
}
if (length(things) == 0) {
cat("No items in workspace\n");
} else {
classes <- sapply(things, function(name) class(get(name, env=ENV))[1],
USE.NAMES=FALSE)
types <- sapply(1:length(classes), function (idx) {
obj <- get(things[idx], env=ENV)
type <- typeof(obj)
if (classes[idx] %in% c(type, 'data.frame')) {
classes[idx]
} else {
paste(classes[idx], type, sep='/')
}
}, USE.NAMES=FALSE)
sizes <- sapply(1:length(classes), function (idx) {
obj <- get(things[idx], env=ENV)
if (classes[idx] %in% c('matrix', 'data.frame')) {
paste(dim(obj), collapse="x")
} else {
length(obj)
}
}, USE.NAMES=FALSE)
d <- data.frame(var=things, type=types, size=sizes, stringsAsFactors=FALSE)
if (show.memory) {
memory <- sapply(1:length(classes), function (idx) {
obj <- get(things[idx], env=ENV)
size <- object.size(obj) / 1024
if (size < 1024) {
sprintf("%.2fK", size)
} else {
size <- size / 1024
if (size > 1024) {
sprintf("%.2fG", size / 1024)
} else {
sprintf("%.2fM", size)
}
}
})
d$memory <- memory
}
show(d)
invisible(d)
}
}
###############################################################################
# which.duplicated
if (!isGeneric("which.duplicated")) {
if (is.function("which.duplicated")) {
fun <- which.duplicated
} else {
fun <- function(object, ...) standardGeneric("which.duplicated")
}
setGeneric("which.duplicated",fun)
}
if (!existsMethod('which.duplicated', 'matrix')) {
setMethod('which.duplicated', 'matrix', function(object, ...) {
## returns the index of the first vector (from the top) that is a duplicate
## of the current row
params <- list(...)
if (is.null(params$MARGIN)) params$MARGIN <- 1
if (!(params$MARGIN %in% 1:2)) {
stop("which.duplicated not implemented for margins other than 1 or 2")
}
result <- rep(-1, dim(object)[params$MARGIN])
check.me <- which(duplicated(object, MARGIN=params$MARGIN))
if (params$MARGIN == 2) {
object <- t(object)
}
for (i in check.me) {
for (j in 1:i) {
if (all(object[i,!is.na(object[i,])] == object[j,!is.na(object[j,])])) {
result[i] <- j
break()
}
}
}
result
})
}
###############################################################################
wideScreen <- function(how.wide=Sys.getenv("COLUMNS")) {
# Set R to print to the same width as the terminal is set to
# Taken from: http://onertipaday.blogspot.com/2008/12/tips-from-jason.html
if (!is.character(how.wide) && !is.numeric(how.wide)) {
how.wide <- 150
}
options(width=as.integer(how.wide))
}