https://github.com/cran/FedData
Tip revision: 0bc5ecec79b4084a9ed8e032e03480c602c886c0 authored by R. Kyle Bocinsky on 11 March 2016, 00:57:44 UTC
version 2.0.8
version 2.0.8
Tip revision: 0bc5ece
GHCN_FUNCTIONS.R
#' Download and crop the Global Historical Climate Network-Daily data.
#'
#' \code{get_ghcn_daily} returns a named list of length 2:
#' \enumerate{
#' \item "spatial": A \code{SpatialPointsDataFrame} of the locations of GHCN weather stations
#' in the template, and
#' \item "tabular": A named list of \code{\link{data.frame}s} with the daily weather data for each station.
#' The name of each list item is the station ID.
#' }
#'
#' @param template A Raster* or Spatial* object to serve
#' as a template for cropping. Alternatively, a character vector providing GHCN station IDs. If missing, all stations
#' will be downloaded!
#' @param label A character string naming the study area.
#' @param elements A character vector of elemets to extract.\cr
#' The five core elements are:\cr
#' PRCP = Precipitation (tenths of mm)\cr
#' SNOW = Snowfall (mm)\cr
#' SNWD = Snow depth (mm)\cr
#' TMAX = Maximum temperature (tenths of degrees C)\cr
#' TMIN = Minimum temperature (tenths of degrees C)\cr
#' \cr
#' The other elements are:\cr
#'
#' ACMC = Average cloudiness midnight to midnight from 30-second
#' ceilometer data (percent)\cr
#' ACMH = Average cloudiness midnight to midnight from
#' manual observations (percent)\cr
#' ACSC = Average cloudiness sunrise to sunset from 30-second
#' ceilometer data (percent)\cr
#' ACSH = Average cloudiness sunrise to sunset from manual
#' observations (percent)\cr
#' AWDR = Average daily wind direction (degrees)\cr
#' AWND = Average daily wind speed (tenths of meters per second)\cr
#' DAEV = Number of days included in the multiday evaporation
#' total (MDEV)\cr
#' DAPR = Number of days included in the multiday precipiation
#' total (MDPR)\cr
#' DASF = Number of days included in the multiday snowfall
#' total (MDSF)\cr
#' DATN = Number of days included in the multiday minimum temperature
#' (MDTN)\cr
#' DATX = Number of days included in the multiday maximum temperature
#' (MDTX)\cr
#' DAWM = Number of days included in the multiday wind movement
#' (MDWM)\cr
#' DWPR = Number of days with non-zero precipitation included in
#' multiday precipitation total (MDPR)\cr
#' EVAP = Evaporation of water from evaporation pan (tenths of mm)\cr
#' FMTM = Time of fastest mile or fastest 1-minute wind
#' (hours and minutes, i.e., HHMM)\cr
#' FRGB = Base of frozen ground layer (cm)\cr
#' FRGT = Top of frozen ground layer (cm)\cr
#' FRTH = Thickness of frozen ground layer (cm)\cr
#' GAHT = Difference between river and gauge height (cm)\cr
#' MDEV = Multiday evaporation total (tenths of mm; use with DAEV)\cr
#' MDPR = Multiday precipitation total (tenths of mm; use with DAPR and
#' DWPR, if available)\cr
#' MDSF = Multiday snowfall total \cr
#' MDTN = Multiday minimum temperature (tenths of degrees C; use with DATN)\cr
#' MDTX = Multiday maximum temperature (tenths of degress C; use with DATX)\cr
#' MDWM = Multiday wind movement (km)\cr
#' MNPN = Daily minimum temperature of water in an evaporation pan
#' (tenths of degrees C)\cr
#' MXPN = Daily maximum temperature of water in an evaporation pan
#' (tenths of degrees C)\cr
#' PGTM = Peak gust time (hours and minutes, i.e., HHMM)\cr
#' PSUN = Daily percent of possible sunshine (percent)\cr
#' SN*# = Minimum soil temperature (tenths of degrees C)
#' where * corresponds to a code
#' for ground cover and # corresponds to a code for soil
#' depth.\cr
#' \cr
#' Ground cover codes include the following:\cr
#' 0 = unknown\cr
#' 1 = grass\cr
#' 2 = fallow\cr
#' 3 = bare ground\cr
#' 4 = brome grass\cr
#' 5 = sod\cr
#' 6 = straw multch\cr
#' 7 = grass muck\cr
#' 8 = bare muck\cr
#' \cr
#' Depth codes include the following:\cr
#' 1 = 5 cm\cr
#' 2 = 10 cm\cr
#' 3 = 20 cm\cr
#' 4 = 50 cm\cr
#' 5 = 100 cm\cr
#' 6 = 150 cm\cr
#' 7 = 180 cm\cr
#' \cr
#' SX*# = Maximum soil temperature (tenths of degrees C)
#' where * corresponds to a code for ground cover
#' and # corresponds to a code for soil depth.\cr
#' See SN*# for ground cover and depth codes. \cr
#' TAVG = Average temperature (tenths of degrees C)
#' [Note that TAVG from source 'S' corresponds
#' to an average for the period ending at
#' 2400 UTC rather than local midnight]\cr
#' THIC = Thickness of ice on water (tenths of mm) \cr
#' TOBS = Temperature at the time of observation (tenths of degrees C)\cr
#' TSUN = Daily total sunshine (minutes)\cr
#' WDF1 = Direction of fastest 1-minute wind (degrees)\cr
#' WDF2 = Direction of fastest 2-minute wind (degrees)\cr
#' WDF5 = Direction of fastest 5-second wind (degrees)\cr
#' WDFG = Direction of peak wind gust (degrees)\cr
#' WDFI = Direction of highest instantaneous wind (degrees)\cr
#' WDFM = Fastest mile wind direction (degrees)\cr
#' WDMV = 24-hour wind movement (km) \cr
#' WESD = Water equivalent of snow on the ground (tenths of mm)\cr
#' WESF = Water equivalent of snowfall (tenths of mm)\cr
#' WSF1 = Fastest 1-minute wind speed (tenths of meters per second)\cr
#' WSF2 = Fastest 2-minute wind speed (tenths of meters per second)\cr
#' WSF5 = Fastest 5-second wind speed (tenths of meters per second)\cr
#' WSFG = Peak gust wind speed (tenths of meters per second)\cr
#' WSFI = Highest instantaneous wind speed (tenths of meters per second)\cr
#' WSFM = Fastest mile wind speed (tenths of meters per second)\cr
#' WT** = Weather Type where ** has one of the following values:\cr
#' \cr
#' 01 = Fog, ice fog, or freezing fog (may include heavy fog)\cr
#' 02 = Heavy fog or heaving freezing fog (not always
#' distinquished from fog)\cr
#' 03 = Thunder\cr
#' 04 = Ice pellets, sleet, snow pellets, or small hail \cr
#' 05 = Hail (may include small hail)\cr
#' 06 = Glaze or rime \cr
#' 07 = Dust, volcanic ash, blowing dust, blowing sand, or
#' blowing obstruction\cr
#' 08 = Smoke or haze \cr
#' 09 = Blowing or drifting snow\cr
#' 10 = Tornado, waterspout, or funnel cloud \cr
#' 11 = High or damaging winds\cr
#' 12 = Blowing spray\cr
#' 13 = Mist\cr
#' 14 = Drizzle\cr
#' 15 = Freezing drizzle \cr
#' 16 = Rain (may include freezing rain, drizzle, and freezing drizzle) \cr
#' 17 = Freezing rain \cr
#' 18 = Snow, snow pellets, snow grains, or ice crystals\cr
#' 19 = Unknown source of precipitation \cr
#' 21 = Ground fog \cr
#' 22 = Ice fog or freezing fog\cr
#' \cr
#' WV** = Weather in the Vicinity where ** has one of the following
#' values:\cr
#' 01 = Fog, ice fog, or freezing fog (may include heavy fog)\cr
#' 03 = Thunder\cr
#' 07 = Ash, dust, sand, or other blowing obstruction\cr
#' 18 = Snow or ice crystals\cr
#' 20 = Rain or snow shower
#' @param raw.dir A character string indicating where raw downloaded files should be put.
#' The directory will be created if missing. Defaults to "./RAW/GHCN/".
#' @param extraction.dir A character string indicating where the extracted and cropped GHCN shapefiles should be put.
#' The directory will be created if missing. Defaults to "./EXTRACTIONS/GHCN/".
#' @param standardize Select only common year/month/day? Defaults to FALSE.
#' @param force.redo If an extraction for this template and label already exists, should a new one be created? Defaults to FALSE.
#' @return A named list containing the "spatial" and "tabular" data.
#' @export
get_ghcn_daily <- function(template=NULL, label=NULL, elements=NULL, raw.dir="./RAW/GHCN/", extraction.dir="./EXTRACTIONS/GHCN/", standardize=F, force.redo=F){
dir.create(raw.dir, showWarnings = FALSE, recursive = TRUE)
if(is.null(template) & is.null(label)){
label <- "allStations"
}
if(!is.null(template) & is.null(label)){
stop("Template provided but no label given.")
}
vectors.dir <- paste(extraction.dir,"/",label,"/spatial",sep='')
tables.dir <- paste(extraction.dir,"/",label,"/tabular",sep='')
dir.create(raw.dir, showWarnings = FALSE, recursive = TRUE)
dir.create(extraction.dir, showWarnings = FALSE, recursive = TRUE)
dir.create(vectors.dir, showWarnings = FALSE, recursive = TRUE)
dir.create(tables.dir, showWarnings = FALSE, recursive = TRUE)
message("(Down)Loading GHCN station inventory.")
if(!force.redo & file.exists(paste(vectors.dir,"/stations.shp",sep=''))){
stations.sp <- rgdal::readOGR(dsn=vectors.dir,layer="stations",verbose=F)
}else{
stations.sp <- get_ghcn_inventory(template=template, raw.dir=raw.dir)
suppressWarnings(rgdal::writeOGR(stations.sp, vectors.dir, "stations","ESRI Shapefile", overwrite_layer=TRUE))
}
# If the user didn't specify target elements, get them all.
if(!is.null(elements)){
stations.sp <- stations.sp[stations.sp@data[,"ELEMENT"] %in% toupper(elements),]
missing.elements <- setdiff(toupper(elements),unique(stations.sp$ELEMENT))
if(length(missing.elements)>0) warning("Elements not available: ",paste(missing.elements,collapse = ", "))
}
elements <- unique(stations.sp$ELEMENT)
if(standardize){
stations.sp.splits <- split(as.character(stations.sp$ELEMENT),f=stations.sp$ID, drop=T)
stations.sp.splits.all <- sapply(stations.sp.splits,function(x){all(sapply(toupper(elements),function(y){y %in% x}))})
stations.sp <- stations.sp[stations.sp$ID %in% names(stations.sp.splits.all)[stations.sp.splits.all],]
}
# stations.sp <- stations.sp[,c("ID","ELEMENT","YEAR_START","YEAR_END")]
stations.sp <- stations.sp[!duplicated(stations.sp@data[,c("ID","LATITUDE","LONGITUDE")]),c("ID")]
if(!force.redo){
daily <- tryCatch(lapply(elements,function(element){readRDS(paste(tables.dir,"/",element,".Rds",sep=''))}), warning = function(w){return(NULL)})
if(!is.null(daily)){
names(daily) <- elements
daily <- lapply(as.character(stations.sp$ID),function(station){
stationDaily <- tryCatch(lapply(daily,'[[',station),error=function(e){return(NULL)})
stationDaily <- stationDaily[!sapply(stationDaily,is.null)]
return(stationDaily)
})
names(daily) <- as.character(stations.sp$ID)
daily <- daily[!sapply(daily,is.null)]
# Make sure station names and elements are the same
if(setequal(names(daily),stations.sp$ID) & all(sapply(daily,function(dat){setequal(names(dat),elements)}))){
return(list(spatial=stations.sp,tabular=daily))
}
}
}
daily <- lapply(stations.sp$ID,function(station){
message("(Down)Loading GHCN station data for station ",as.character(station))
return(get_ghcn_daily_station(ID=station, elements=elements, raw.dir=raw.dir, standardize=standardize, force.redo=force.redo))
})
names(daily) <- stations.sp$ID
daily.split <- lapply(as.character(elements),function(element){
lapply(daily,'[[',element)
})
names(daily.split) <- elements
junk <- lapply(as.character(elements),function(element){
saveRDS(daily.split[[element]],paste(tables.dir,"/",element,".Rds",sep=''),compress='xz')
})
return(list(spatial=stations.sp,tabular=daily))
}
#' Download the daily data for a GHCN weather station.
#'
#' @param ID A character string giving the station ID.
#' @param raw.dir A character string indicating where raw downloaded files should be put.
#' @param force.redo If this weather station has been downloaded before, should it be updated? Defaults to FALSE.
#' @return A character string representing the full local path of the GHCN station data.
#' @export
download_ghcn_daily_station <- function(ID, raw.dir, force.redo=F){
dir.create(raw.dir, recursive=T, showWarnings=F)
url <- paste("ftp://ftp.ncdc.noaa.gov/pub/data/ghcn/daily/all/",ID,".dly",sep='')
if(!force.redo){
download_data(url=url, destdir=raw.dir, timestamping=T)
}else{
download_data(url=url, destdir=raw.dir, timestamping=F)
}
return(normalizePath(paste(raw.dir,ID,".dly",sep='')))
}
#' Download and extract the daily data for a GHCN weather station.
#'
#' \code{get_ghcn_daily_station} returns a named list of \code{\link{data.frame}s}, one for
#' each \code{elements}. If \code{elements} is undefined, it returns all available weather
#' tables for the station
#'
#' @param ID A character string giving the station ID.
#' @param elements A character vector of elemets to extract.\cr
#' The five core elements are:\cr
#' PRCP = Precipitation (tenths of mm)\cr
#' SNOW = Snowfall (mm)\cr
#' SNWD = Snow depth (mm)\cr
#' TMAX = Maximum temperature (tenths of degrees C)\cr
#' TMIN = Minimum temperature (tenths of degrees C)\cr
#' \cr
#' The other elements are:\cr
#'
#' ACMC = Average cloudiness midnight to midnight from 30-second
#' ceilometer data (percent)\cr
#' ACMH = Average cloudiness midnight to midnight from
#' manual observations (percent)\cr
#' ACSC = Average cloudiness sunrise to sunset from 30-second
#' ceilometer data (percent)\cr
#' ACSH = Average cloudiness sunrise to sunset from manual
#' observations (percent)\cr
#' AWDR = Average daily wind direction (degrees)\cr
#' AWND = Average daily wind speed (tenths of meters per second)\cr
#' DAEV = Number of days included in the multiday evaporation
#' total (MDEV)\cr
#' DAPR = Number of days included in the multiday precipiation
#' total (MDPR)\cr
#' DASF = Number of days included in the multiday snowfall
#' total (MDSF)\cr
#' DATN = Number of days included in the multiday minimum temperature
#' (MDTN)\cr
#' DATX = Number of days included in the multiday maximum temperature
#' (MDTX)\cr
#' DAWM = Number of days included in the multiday wind movement
#' (MDWM)\cr
#' DWPR = Number of days with non-zero precipitation included in
#' multiday precipitation total (MDPR)\cr
#' EVAP = Evaporation of water from evaporation pan (tenths of mm)\cr
#' FMTM = Time of fastest mile or fastest 1-minute wind
#' (hours and minutes, i.e., HHMM)\cr
#' FRGB = Base of frozen ground layer (cm)\cr
#' FRGT = Top of frozen ground layer (cm)\cr
#' FRTH = Thickness of frozen ground layer (cm)\cr
#' GAHT = Difference between river and gauge height (cm)\cr
#' MDEV = Multiday evaporation total (tenths of mm; use with DAEV)\cr
#' MDPR = Multiday precipitation total (tenths of mm; use with DAPR and
#' DWPR, if available)\cr
#' MDSF = Multiday snowfall total \cr
#' MDTN = Multiday minimum temperature (tenths of degrees C; use with DATN)\cr
#' MDTX = Multiday maximum temperature (tenths of degress C; use with DATX)\cr
#' MDWM = Multiday wind movement (km)\cr
#' MNPN = Daily minimum temperature of water in an evaporation pan
#' (tenths of degrees C)\cr
#' MXPN = Daily maximum temperature of water in an evaporation pan
#' (tenths of degrees C)\cr
#' PGTM = Peak gust time (hours and minutes, i.e., HHMM)\cr
#' PSUN = Daily percent of possible sunshine (percent)\cr
#' SN*# = Minimum soil temperature (tenths of degrees C)
#' where * corresponds to a code
#' for ground cover and # corresponds to a code for soil
#' depth.\cr
#' \cr
#' Ground cover codes include the following:\cr
#' 0 = unknown\cr
#' 1 = grass\cr
#' 2 = fallow\cr
#' 3 = bare ground\cr
#' 4 = brome grass\cr
#' 5 = sod\cr
#' 6 = straw multch\cr
#' 7 = grass muck\cr
#' 8 = bare muck\cr
#' \cr
#' Depth codes include the following:\cr
#' 1 = 5 cm\cr
#' 2 = 10 cm\cr
#' 3 = 20 cm\cr
#' 4 = 50 cm\cr
#' 5 = 100 cm\cr
#' 6 = 150 cm\cr
#' 7 = 180 cm\cr
#' \cr
#' SX*# = Maximum soil temperature (tenths of degrees C)
#' where * corresponds to a code for ground cover
#' and # corresponds to a code for soil depth.\cr
#' See SN*# for ground cover and depth codes. \cr
#' TAVG = Average temperature (tenths of degrees C)
#' [Note that TAVG from source 'S' corresponds
#' to an average for the period ending at
#' 2400 UTC rather than local midnight]\cr
#' THIC = Thickness of ice on water (tenths of mm) \cr
#' TOBS = Temperature at the time of observation (tenths of degrees C)\cr
#' TSUN = Daily total sunshine (minutes)\cr
#' WDF1 = Direction of fastest 1-minute wind (degrees)\cr
#' WDF2 = Direction of fastest 2-minute wind (degrees)\cr
#' WDF5 = Direction of fastest 5-second wind (degrees)\cr
#' WDFG = Direction of peak wind gust (degrees)\cr
#' WDFI = Direction of highest instantaneous wind (degrees)\cr
#' WDFM = Fastest mile wind direction (degrees)\cr
#' WDMV = 24-hour wind movement (km) \cr
#' WESD = Water equivalent of snow on the ground (tenths of mm)\cr
#' WESF = Water equivalent of snowfall (tenths of mm)\cr
#' WSF1 = Fastest 1-minute wind speed (tenths of meters per second)\cr
#' WSF2 = Fastest 2-minute wind speed (tenths of meters per second)\cr
#' WSF5 = Fastest 5-second wind speed (tenths of meters per second)\cr
#' WSFG = Peak gust wind speed (tenths of meters per second)\cr
#' WSFI = Highest instantaneous wind speed (tenths of meters per second)\cr
#' WSFM = Fastest mile wind speed (tenths of meters per second)\cr
#' WT** = Weather Type where ** has one of the following values:\cr
#' \cr
#' 01 = Fog, ice fog, or freezing fog (may include heavy fog)\cr
#' 02 = Heavy fog or heaving freezing fog (not always
#' distinquished from fog)\cr
#' 03 = Thunder\cr
#' 04 = Ice pellets, sleet, snow pellets, or small hail \cr
#' 05 = Hail (may include small hail)\cr
#' 06 = Glaze or rime \cr
#' 07 = Dust, volcanic ash, blowing dust, blowing sand, or
#' blowing obstruction\cr
#' 08 = Smoke or haze \cr
#' 09 = Blowing or drifting snow\cr
#' 10 = Tornado, waterspout, or funnel cloud \cr
#' 11 = High or damaging winds\cr
#' 12 = Blowing spray\cr
#' 13 = Mist\cr
#' 14 = Drizzle\cr
#' 15 = Freezing drizzle \cr
#' 16 = Rain (may include freezing rain, drizzle, and freezing drizzle) \cr
#' 17 = Freezing rain \cr
#' 18 = Snow, snow pellets, snow grains, or ice crystals\cr
#' 19 = Unknown source of precipitation \cr
#' 21 = Ground fog \cr
#' 22 = Ice fog or freezing fog\cr
#' \cr
#' WV** = Weather in the Vicinity where ** has one of the following
#' values:\cr
#' 01 = Fog, ice fog, or freezing fog (may include heavy fog)\cr
#' 03 = Thunder\cr
#' 07 = Ash, dust, sand, or other blowing obstruction\cr
#' 18 = Snow or ice crystals\cr
#' 20 = Rain or snow shower
#' @param raw.dir A character string indicating where raw downloaded files should be put.
#' @param standardize Select only common year/month/day? Defaults to FALSE.
#' @param force.redo If this weather station has been downloaded before, should it be updated? Defaults to FALSE.
#' @return A named list of \code{\link{data.frame}s}, one for each \code{elements}.
#' @export
get_ghcn_daily_station <- function(ID, elements=NULL, raw.dir, standardize=F, force.redo=F){
file <- download_ghcn_daily_station(ID=ID, raw.dir=paste(raw.dir,"/DAILY/",sep=''), force.redo=force.redo)
# GHCN files are fixed-width. The numbers here refer to those column widths.
daily <- utils::read.fwf(file,c(11,4,2,4,rep(c(5,1,1,1),31)), stringsAsFactors=F)
names(daily)[1:4] <- c("STATION","YEAR","MONTH","ELEMENT")
# If the user didn't specify target elements, get them all.
if(!is.null(elements)){
daily <- daily[daily$ELEMENT %in% toupper(elements),]
missing.elements <- setdiff(toupper(elements),unique(daily$ELEMENT))
if(length(missing.elements)>0) warning("Elements not available: ",paste(missing.elements,collapse = ", "))
}
elements <- unique(daily$ELEMENT)
daily <- daily[daily$ELEMENT %in% toupper(elements),c(2:4,seq(5,125,4))]
daily[daily==-9999] <- NA
names(daily) <- c("YEAR","MONTH","ELEMENT",paste("D",1:31,sep=''))
## Separate by element
out.list <- lapply(elements, function(element){
return(daily[daily$ELEMENT==toupper(element),-3])
})
## If standardize, select only common year/month/day, and make NA if both not present
if(standardize){
yearMonths <- lapply(out.list, function(element){
element <- element[order(element$YEAR,element$MONTH),]
return(paste("Y",element[,c("YEAR")],"M",element[,c("MONTH")],sep=''))
})
all.yearMonths <- Reduce(intersect,yearMonths)
out.list <- lapply(out.list, function(element){
element.yearMonths <- paste("Y",element[,c("YEAR")],"M",element[,c("MONTH")],sep='')
return(element[match(all.yearMonths,element.yearMonths),])
})
}
names(out.list) <- elements
return(out.list)
}
#' Download and crop the inventory of GHCN stations.
#'
#' \code{get_ghcn_inventory} returns a \code{SpatialPolygonsDataFrame} of the GHCN stations within
#' the specified \code{template}. If template is not provided, returns the entire GHCN inventory.
#'
#' Stations with multiple elements will have multiple points. This allows for easy mapping of stations
#' by element availability.
#'
#' @param template A Raster* or Spatial* object to serve
#' as a template for cropping.
#' @param elements A character vector of elemets to extract.
#' Common elements include "tmin", "tmax", and "prcp".
#' @param raw.dir A character string indicating where raw downloaded files should be put.
#' The directory will be created if missing.
#' @return A \code{SpatialPolygonsDataFrame} of the GHCN stations within
#' the specified \code{template}
#' @export
get_ghcn_inventory <- function(template=NULL, elements=NULL, raw.dir){
if(!is.null(template) & !(class(template) %in% c("SpatialPolygonsDataFrame","SpatialPolygons","character"))){
template <- polygon_from_extent(template)
}
url <- "ftp://ftp.ncdc.noaa.gov/pub/data/ghcn/daily/ghcnd-inventory.txt"
destdir <- raw.dir
download_data(url=url, destdir=destdir)
# GHCN files are fixed-width. The numbers here refer to those column widths.
station.inventory <- utils::read.fwf(paste(raw.dir,"ghcnd-inventory.txt",sep=''),c(11,1,8,1,9,1,4,1,4,1,4), stringsAsFactors=F)[,seq(1,11,2)]
names(station.inventory) <- c("ID","LATITUDE","LONGITUDE","ELEMENT","YEAR_START","YEAR_END")
# Convert to SPDF
stations.sp <- sp::SpatialPointsDataFrame(coords=station.inventory[,c("LONGITUDE","LATITUDE")],station.inventory,proj4string=sp::CRS("+proj=longlat +datum=WGS84"))
if(!is.null(elements)){
stations.sp <- stations.sp[stations.sp$ELEMENT %in% toupper(elements),]
}
if(!is.null(template)){
if(class(template) == "character"){
missing.stations <- setdiff(template,unique(stations.sp$ID))
if(length(missing.stations)>0) warning("Stations not available: ",paste(missing.stations,collapse = ", "))
stations.sp <- stations.sp[stations.sp$ID %in% template,]
}else{
template <- methods::as(template,"SpatialPolygons")
stations.sp <- stations.sp[!is.na(sp::over(stations.sp,sp::spTransform(template,sp::CRS(raster::projection(stations.sp))))),]
}
}
return(stations.sp)
}
#' Convert a list of station data to a single data frame.
#'
#' \code{station_to_data_frame} returns a \code{data.frame} of the GHCN station data list.
#'
#' This function unwraps the station data and merges all data into a single data frame,
#' with the first column being in the \code{Date} class.
#'
#' @param station.data A named list containing station data
#' @return A \code{data.frame} of the containing the unwrapped station data
#' @export
station_to_data_frame <- function(station.data){
data.list <- lapply(1:length(station.data),function(i){
X <- station.data[[i]]
# Get just the climate info
annual.records <- as.matrix(X[,3:33])
# Get the number of days per month in the records
n.days <- Hmisc::monthDays(as.Date(paste(X$YEAR,X$MONTH,'01',sep='-')))
## Unnwrap each row, accounting for number of days in the month
annual.records.unwrapped <- unwrap_rows(annual.records,n.days)
dates <- as.Date(unlist(mapply(FUN = function(days,dates){paste(dates,days,sep="-")}, sapply(n.days,function(x){1:x}), paste(X$YEAR,X$MONTH,sep='-'))))
annual.records.unwrapped <- data.table::data.table(dates,annual.records.unwrapped)
names(annual.records.unwrapped) <- c("DATE",names(station.data)[i])
data.table::setkey(annual.records.unwrapped,"DATE")
return(annual.records.unwrapped)
})
return(Reduce(function(x,y) merge(x,y,all=TRUE),data.list))
}