#' Mask NetCDF file
#'
#' @param file \code{character}. Filepath, which should lead to NetCDF files.
#' @param ext \code{integer}. Extent object.
#' @param outfile \code{character}. Output filename of the masked data.
#' @return A NetCDF file containing the masked data.
#' @examples
#' \dontrun{
#' file <- list.files(paste0(system.file(package="processNC"), "/extdata"),
#' pattern="tas.*\\.nc", full.names=TRUE)[1]
#' temp <- tempfile(fileext=".nc")
#' maskNC(file=file, ext=c(9, 13, 49, 51), outfile=temp)
#' terra::plot(terra::rast(temp))
#' }
#' @export maskNC
#' @name maskNC
maskNC <- function(
##title<< Aggregate data in netCDF files
file ##<< character vector: name of the file to mask
, ext ##<< integer vector: lon1, lon2, lat1, lat2
, outfile ##<< character: path to save the results file to.
)
##description<<
## This function aggregates time periods in netCDF files. Basically it is just a
## wrapper around the respective cdo function.
{
##test input
#if (system("cdo -V")==0)
# stop('cdo not found. Please install it.')
## supply cdo command
cdoCmd <- paste(paste('cdo -masklonlatbox', ext[1], ext[2], ext[3], ext[4], sep=","), file, outfile, sep=' ')
## Add option for cdo maskregion
##run command
system(cdoCmd)
cat(paste('Created file ', outfile, '.\n', sep = ''))
## character string: name of the file created.
invisible(outfile)
}
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