R/rasterOptions.R

Defines functions tmppath removeRasterOptions usecluster toDisk standardnames timer progress filetype getFormat datatype overwrite tolerance chunk chunksize maxmemory memfrac tmptime setfileext tmpDir tmpdir dataloc depracatedwarnings addHeader loadOptions rasterOptions

Documented in rasterOptions tmpDir

# Author: Robert J. Hijmans
# September 2009
# Version 1.0
# Licence GPL v3


rasterOptions <- function(format, overwrite, datatype, tmpdir, tmptime, progress, timer, chunksize, maxmemory, memfrac, todisk, setfileext, tolerance, standardnames, depracatedwarnings, addheader, default=FALSE) {
		
	setFiletype <- function(format) {
		if (.isSupportedFormat(format)) {	
			options(rasterFiletype = format)	
		} else { 
			warning(paste('Cannot set filetype to unknown or unsupported file format:', format, '. See writeFormats()'))
		}
	}
	
	setOverwrite <- function(overwrite) {
		if (is.logical(overwrite)) { 
			options(rasterOverwrite = overwrite)
		} else { 
			warning(paste('Could not set overwrite. It must be a logical value'))
		}
	}
	
	setDataType <- function(datatype) {
		if (datatype %in% c('LOG1S', 'INT1S', 'INT2S', 'INT4S', 'INT4U', 'INT1U', 'INT2U', 'FLT4S', 'FLT8S')) {	
			options(rasterDatatype = datatype)
		} else { 
			warning(paste('Cannot set datatype to unknown type:',datatype))	
		}
	}
	
	setTmpdir <- function(tmpdir) {
		if (!missing(tmpdir)) {
			tmpdir <- trim(tmpdir)
			if (tmpdir != '') {
				lastchar = substr(tmpdir, nchar(tmpdir), nchar(tmpdir))
				if (lastchar != "/" & lastchar != '\\') {
					tmpdir <- paste(tmpdir, '/', sep='')
				}
				#res <- file.exists(substr(tmpdir, 1, nchar(tmpdir)-1))
				#if (!res) { 
				#	res <- dir.create(tmpdir, recursive=TRUE, showWarnings = FALSE) 
				#}
				#if (res) { 
					options(rasterTmpDir = tmpdir) 
				#} else { 
				#	warning(paste('could not create tmpdir:', tmpdir))
				#}
			}
		}
	}
	
	setTmpTime <- function(tmptime) {
		if (is.numeric(tmptime)) {
			if (tmptime > 1) {
				options(rasterTmpTime = tmptime)
			} else {
				warning(paste('Could not set tmptime. It must be > 1'))	
			}
		} else {
			warning(paste('Could not set tmptime. It must be a numerical value'))	
		}
	}

	setProgress <- function(progress) {
		if (is.character(progress)) {
			progress <- tolower(trim(progress))
			if (progress %in% c('window', 'tcltk', 'windows')) { progress <- 'window' }
			if (! progress %in% c('text', 'window', '')) { 
				warning('invalid value for progress. Should be "window", "text", or ""')
			} else {
				options(rasterProgress = progress )
			}
		} else {
			warning('progress must be a character value')
		}
	}
	
	setTimer <- function(timer) {
		if (is.logical(timer)) {
			options(rasterTimer = timer )
		} else {
			warning(paste('timer must be a logical value'))	
		}
	}
	
	
	setToDisk <- function(todisk) {
		if (is.logical(todisk)) { 
			options(rasterToDisk = todisk )
		} else {
			warning(paste('todisk argument must be a logical value'))	
		}
	}
 
	setChunksize <- function(chunksize) {
		chunksize <- max(1, round(chunksize[1]))
		#chunksize <- min(chunksize, 10^7)
		options(rasterChunkSize = chunksize )
	}

	setFileExt <- function(setfileext) {
		options(rasterSetFileExt = as.logical(setfileext) )
	}

	setMaxMemorySize <- function(maxmemory) {
		maxmemory = max(10000, round(maxmemory[1]))
		options(rasterMaxMemory = maxmemory )
	}
	
	setMemfrac <- function(memfrac) {
		if (memfrac >= 0.1 & memfrac <= 0.9) {
			options(rasterMemfrac = memfrac )
		} else {
			warning(paste('memfrac argument must be a value between 0.1 and 0.9'))	
		}
	}
	
	
	setTolerance <- function(x) {
		x <- max(0.000000001, min(x, 0.5))
		options(rasterTolerance = x)
	}
	
	setStandardNames <- function(x) {
		if (is.logical(x)) {
			if (is.na(x)) {
				x <- TRUE
			}
			options(rasterStandardNames = x)
		}
	}
		
	depracatedWarnings <- function(x) {
		if (is.logical(x)) {
			if (is.na(x)) {
				x <- TRUE
			}
			options(rasterDepracatedWarnings = x)
		}
	}
	
	
	addHeader <- function(x) {
		x <- x[1]
		if (is.character(x)) {
			x <- toupper(trim(x))
			if (nchar(x) < 3) {
				x <- ''
			}
			options(rasterAddHeader = x)
		}
	}
	
	
	cnt <- 0
	if (default) {
		cnt <- 1
		options(rasterFiletype = 'raster')
		options(rasterOverwrite = FALSE)
		options(rasterDatatype = 'FLT4S')
		options(rasterProgress = 'none')
		options(rasterTimer = FALSE)
		options(rasterTmpDir = tmpDir(create=FALSE))
		options(rasterTmpTime = 24*7)
		options(rasterToDisk = FALSE)
		options(rasterSetFileExt = TRUE)
		options(rasterChunkSize = 10^8)
		options(rasterChunk = 10^8)
		options(rasterMaxMemory = 10^9)
		options(rasterMemfrac = 0.6)
		options(rasterTolerance = 0.1)
		options(rasterStandardNames = TRUE)
		options(rasterDepracatedWarnings = TRUE)
		options(rasterAddHeader = '')
		v <- utils::packageDescription('raster')[["Version"]]
#		fn <- paste(options('startup.working.directory'), '/rasterOptions_', v, sep='')
#		if (file.exists(fn)) { file.remove(fn) }
	}

	
	if (!missing(format)) { setFiletype(format); cnt <- cnt+1 }
	if (!missing(overwrite)) { setOverwrite(overwrite); cnt <- cnt+1 }
	if (!missing(datatype)) { setDataType(datatype); cnt <- cnt+1 }
	if (!missing(progress)) { setProgress(progress); cnt <- cnt+1 }
	if (!missing(timer)) { setTimer(timer); cnt <- cnt+1 }
	if (!missing(tmpdir)) { setTmpdir(tmpdir); cnt <- cnt+1 }
	if (!missing(tmptime)) { setTmpTime(tmptime); cnt <- cnt+1 }
	if (!missing(todisk)) { setToDisk(todisk); cnt <- cnt+1 }
	if (!missing(setfileext)) { setFileExt(setfileext); cnt <- cnt+1 }
	if (!missing(maxmemory)) { setMaxMemorySize(maxmemory); cnt <- cnt+1 }
	if (!missing(memfrac)) { setMemfrac(memfrac); cnt <- cnt+1 }
	if (!missing(chunksize)) { setChunksize(chunksize); cnt <- cnt+1 }
	if (!missing(tolerance)) { setTolerance(tolerance); cnt <- cnt+1 }
	if (!missing(standardnames)) { setStandardNames(standardnames); cnt <- cnt+1 }
	if (!missing(depracatedwarnings)) { depracatedWarnings(depracatedwarnings); cnt <- cnt+1 }
	if (!missing(addheader)) {addHeader(addheader) ; cnt <- cnt+1 }


	lst <- list(
		format=.filetype(),
		overwrite=.overwrite(),
		datatype=.datatype(),
		tmpdir= tmpDir(create=FALSE),
		tmptime=.tmptime(),
		progress=.progress(),
		timer=.timer(),
		chunksize=.chunksize(),
		maxmemory=.maxmemory(),
		memfrac = .memfrac(),
		todisk=.toDisk(),
		setfileext=.setfileext(),
		tolerance=.tolerance(),
		standardnames=.standardnames(),
		depwarning=.depracatedwarnings(),
		addheader=.addHeader()
	)
	
	save <- FALSE
	if (save) {
	
		v <- utils::packageDescription('raster')[["Version"]]
		fn <- paste(options('startup.working.directory'), '/rasterOptions_', v, sep='')
		oplst <- NULL
		oplst <- c(oplst, paste("rasterFiletype='", lst$format, "'", sep='')) 
		oplst <- c(oplst, paste("rasterOverwrite=", lst$overwrite, sep=''))
		oplst <- c(oplst, paste("rasterDatatype='", lst$datatype, "'", sep=''))
		oplst <- c(oplst, paste("rasterTmpDir='", lst$tmpdir, "'", sep=''))
		oplst <- c(oplst, paste("rasterTmpTime='", lst$tmptime, "'", sep=''))
		oplst <- c(oplst, paste("rasterProgress='", lst$progress, "'", sep=''))
		oplst <- c(oplst, paste("rasterTimer=", lst$timer, sep=''))
		oplst <- c(oplst, paste("rasterChunkSize=", lst$chunksize, sep=''))
		oplst <- c(oplst, paste("rasterMaxMemory=", lst$maxmemory, sep=''))
		oplst <- c(oplst, paste("rasterMemfrac=", lst$memfrac, sep=''))
		oplst <- c(oplst, paste("rasterSetFileExt=", lst$setfileext, sep=''))
		oplst <- c(oplst, paste("rasterTolerance=", lst$tolerance, sep=''))
		oplst <- c(oplst, paste("rasterStandardNames=", lst$standardnames, sep=''))
		oplst <- c(oplst, paste("rasterDepracatedWarnings=", lst$depwarning, sep=''))
		oplst <- c(oplst, paste("rasterAddHeader=", lst$addheader, sep=''))
		
		r <- try( write(unlist(oplst), fn), silent = TRUE )

		cnt <- 1
	}	
	
	
	if (cnt == 0) {
		cat('format        :', lst$format, '\n' )
		cat('datatype      :', lst$datatype, '\n')
		cat('overwrite     :', lst$overwrite, '\n')
		cat('progress      :', lst$progress, '\n')
		cat('timer         :', lst$timer, '\n')
		cat('chunksize     :', lst$chunksize, '\n')
		cat('maxmemory     :', lst$maxmemory, '\n')
		cat('memfrac       :', lst$memfrac, '\n')
		cat('tmpdir        :', lst$tmpdir, '\n')
		cat('tmptime       :', lst$tmptime, '\n')
		cat('setfileext    :', lst$setfileext, '\n')
		cat('tolerance     :', lst$tolerance, '\n')
		cat('standardnames :', lst$standardnames, '\n')
		cat('warn depracat.:', lst$depwarning, '\n')
		if (lst$addheader == '') {
			cat('header        : none\n')
		} else {
			cat('header        :', lst$addheader, '\n')
		}
		if (lst$todisk) {
		   cat('todisk        : TRUE\n')
		}
	}
	
	invisible(lst)
}


.loadOptions <- function(f) {
	if (file.exists(f)) {
		dd <- readLines(f)
		for (d in dd) {
			try(eval(parse(text=paste("options(", d, ")"))))
		}
	}
}



.addHeader <- function() {
	d <- getOption('rasterAddHeader')
	if (is.null(d)) {
		return( '' )
	} else {
		return(trim(d))
	}
}

.depracatedwarnings <- function() {
	d <- getOption('rasterDepracatedWarnings')
	if (is.null(d)) {
		return( TRUE )
	} else {
		return(as.logical(d))
	}
}



.dataloc <- function() {
	d <- getOption('rasterDataDir')
	if (is.null(d) ) {
		d <- getwd()
	} else {
		d <- trim(d)
		if (d=='') {
			d <- getwd()
		}
	}
	return(d)
}	


.tmpdir <- function(...) {
	tmpDir(...)
}


tmpDir <- function(create=TRUE) {
	d <- getOption('rasterTmpDir')
	if (is.null(d)) {
		d <- .tmppath()
	}
	#lastchar <- substr(d, nchar(d), nchar(d))
	# if (lastchar == '/' | lastchar == '\\') {
	#	d <- substr( d, 1, nchar(d)-1 )
	#}
	if (!file.exists(d) & create) {
		dir.create( d, recursive=TRUE, showWarnings=FALSE )
	}
	return(d)
}



.setfileext <- function() {
	d <- getOption('rasterSetFileExt')
	if (is.null(d)) {
		return( TRUE )
	} 
	return(as.logical(d))
}	



.tmptime <- function() {
	d <- getOption('rasterTmpTime')
	if (is.null(d)) {
		d <- 24 * 7
	} else {
		d <- as.numeric(d)
		if (d < 0) {
			d <- 24 * 7
		}
	}
	return(d)
}	


.memfrac <- function() {
	default <- 0.6
	d <- getOption('rasterMemfrac')
	if (is.null(d)) {
		return( default )
	} else {
		return(d)
	}
}


.maxmemory <- function() {
	default <- 10^9
	d <- getOption('rasterMaxMemory')
	if (is.null(d)) {
		return( default )
	} 
	d <- round(as.numeric(d[1]))
	if (is.na(d) | d < 10000) {
		d <- default
	} 
	return(d)
}


.chunksize <- function(){
	default <- 10^8
	d <- getOption('rasterChunkSize')
	if (is.null(d)) {
		return( default )
	} 
	d <- round(as.numeric(d[1]))
	if (is.na(d) | d < 10000) {
		d <- default
	} 
	return(d)
}	


.chunk <- function(){
	d <- getOption('rasterChunk')
	if (is.null(d)) {
		return( .chunksize() )
	} 
	if (is.na(d) | d < 10000) {
		return( .chunksize() )
	} 
	return(d)
}



.tolerance <- function() {
	d <- getOption('rasterTolerance')
	if (is.null(d)) {
		d <- 0.1
	} else {
		d <- max(0.000000001, min(d, 0.5))
	}
	return(d)
}


.overwrite <- function(..., overwrite) {
	if (missing(overwrite)) { 
		overwrite <- getOption('rasterOverwrite')
		if (is.null(overwrite)) {
			return(FALSE)
		} else {
			if (is.logical(overwrite)) {
				return(overwrite)
			} else {
				return(FALSE)
			}
		}
	} else { 
		if (is.logical(overwrite)) {
			return(overwrite)
		} else {
			return(FALSE)
		}
	}
}


.datatype <- function(..., datatype, dataType) {

	if (missing(datatype) && !missing(dataType)) { 
		warning('argument "datatype" misspelled as "dataType"')
		datatype <- dataType
	} else if (missing(datatype)) { 
		datatype <- getOption('rasterDatatype')
		if (is.null(datatype)) {
			return('FLT4S') 
		} 
	} 
	if (! datatype %in% c('LOG1S', 'INT1S', 'INT2S', 'INT4S', 'INT1U', 'INT2U', 'INT4U', 'FLT4S', 'FLT8S')) {
		warning(datatype, ' is an invalid datatype value, changed to "FLT4S"')
		datatype <- 'FLT4S'
	}
	return(datatype)
}

.getFormat <- function(filename) {
	ext <- tolower(extension(filename, maxchar=5))
	if (nchar(ext) < 3) {
		return('')
	} else {
		if (ext == '.tif' | ext == '.tiff') { return('GTiff')
		} else if (ext == '.grd') { return('raster')
		} else if (ext == '.asc') { return('ascii')
		} else if (ext == '.nc' | ext == '.cdf' | ext == '.ncdf') { return('CDF')
		} else if (ext == '.kml') { return('KML')
		} else if (ext == '.kmz') { return('KML')		
		} else if (ext == '.big') { return('big.matrix')
		} else if (ext == '.sgrd') { return('SAGA')
		} else if (ext == '.sdat') { return('SAGA')
		} else if (ext == '.bil') { return('BIL')
		} else if (ext == '.bsq') { return('BSQ')
		} else if (ext == '.bip') { return('BIP')
		} else if (ext == '.bmp') { return('BMP') 
		} else if (ext == '.gen') { return('ADRG') 
		} else if (ext == '.bt') { return('BT') 
		} else if (ext == '.envi') { return('ENVI')
		} else if (ext == '.ers') { return('ERS') 
		} else if (ext == '.img') { return( 'HFA') 
		} else if (ext == '.rst') { return('RST') 
		} else if (ext == '.mpr') { return('ILWIS')
		} else if (ext == '.rsw') { return('RMF')
		} else if (ext == '.flt') { return('EHdr')
		} else { 
			warning('extension ', ext, ' is unknown. Using default format.')
			return('') 
		}
	}
	
}


.filetype <- function(format, filename='', ...) {
	if (missing(format)) { 
		format <- .getFormat(filename)
		if (format != '') {
			return(format)
		}
		
		format <- getOption('rasterFiletype')
		if (is.null(format)) {
			return('raster') 
		} else {
			return(format)
		}
		
	} else { 
		return(format)
	}
}

.progress <- function(..., progress) {
	if (missing(progress)) { 
		progress <- getOption('rasterProgress')
		if (is.null(progress)) {
			return('none') 
		} else {
			if (is.character(progress)) {
				if (progress[1] %in% c('text', 'window', 'tcltk', 'windows')) {
					return(progress[1])
				} else {
					return('none')
				}
			} else {
				return('none')
			}
		}
	} else { 
		if (is.character(progress)) {
			if (progress[1] %in% c('text', 'window', 'tcltk', 'windows')) {
				return(progress[1])
			} else {
				return('none')
			}
		} else {
			return('none')
		}
	}
}


.timer <- function(..., timer) {
	if (missing(timer)) { 
		timer <- getOption('rasterTimer')
		if (is.null(timer)) {
			return(FALSE) 
		} else {
			return( as.logical(timer) )
		}
	} else {
		return(as.logical(timer))
	}
}	
	
.standardnames <- function(..., standardnames) {
	if (missing(standardnames)) { 
		standardnames <- getOption('rasterStandardNames')
		if (is.null(standardnames)) {
			return(TRUE)  # the default
		} else {
			try (todisk <- as.logical(standardnames))
			if (is.logical(standardnames)) {
				return(standardnames)
			} else {
				return(TRUE)
			}
		}
	} else { 
		if (is.logical(todisk)) {
			return(todisk)
		} else {
			return(TRUE)
		}
	}
}
	

.toDisk <- function(..., todisk) {
	if (missing(todisk)) { 
		todisk <- getOption('rasterToDisk')
		if (is.null(todisk)) {
			return(FALSE)  # the default
		} else {
			try (todisk <- as.logical(todisk))
			if (is.logical(todisk)) {
				return(todisk)
			} else {
				return(FALSE)
			}
		}
	} else { 
		if (is.logical(todisk)) {
			return(todisk)
		} else {
			return(FALSE)
		}
	}
}


.usecluster <- function(...) {
	usecluster <- list(...)$usecluster
	if (is.null(usecluster)) { 
		usecluster <- getOption('rasterUseCluster')
		if (is.null(usecluster)) {
			return(FALSE)  # the default
		} else {
			try (usecluster <- as.logical(usecluster), silent=TRUE)
			if (isTRUE(usecluster)) {
				return(TRUE)
			} else {
				return(FALSE)
			}
		}
	} else { 
		if (is.logical(usecluster)) {
			return(usecluster)
		} else {
			return(FALSE)
		}
	}
}

.removeRasterOptions <- function(x) {
	y <- list()
	for (i in seq(along.with=x)) {
		if (!trim(x[[i]]) == "# Options for the 'raster' package" & !substr(trim(x[[i]]),1,14) == 'options(raster') {
			y <- c(y, x[[i]])
		}
	}
	return(y)
}


.tmppath <- function() {
   file.path(tempdir(), 'raster', '/')
}

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raster documentation built on Nov. 4, 2018, 1:04 a.m.