Nothing
zonx_wrapper <- function(op, var, infile, outfile, nc34, overwrite, verbose, nc = NULL) {
calc_time_start <- Sys.time()
gc()
check_variable(var)
if (is.null(nc)) check_infile(infile)
check_outfile(outfile)
outfile <- correct_filename(outfile)
check_overwrite(outfile, overwrite)
check_nc_version(nc34)
##### extract data from file #####
file_data <- read_file(infile, var, nc = nc)
if (op < 3) {
file_data$variable$prec <- "float"
}
date_time <- get_date_time(file_data$dimension_data$t, file_data$time_info$units)
# Use placeholder for result so that it can be calculated later without the
# need to have all input data in memory concurrently.
data_placeholder <- array(
file_data$variable$attributes$missing_value,
dim = c(1,
length(file_data$dimension_data$y),
length(file_data$dimension_data$t))
)
vars_data <- list(result = data_placeholder, time_bounds = file_data$dimension_data$t)
nc_format <- get_nc_version(nc34)
cmsaf_info <- switch(
op,
paste0("cmsafops::zonsum for variable ", file_data$variable$name),
paste0("cmsafops::zonmean for variable ", file_data$variable$name),
)
time_data <- file_data$dimension_data$t
##### prepare output #####
global_att_list <- names(file_data$global_att)
global_att_list <- global_att_list[toupper(global_att_list) %in% toupper(GLOBAL_ATT_DEFAULT)]
global_attributes <- file_data$global_att[global_att_list]
dims <- define_dims(file_data$grid$is_regular,
0,
file_data$dimension_data$y,
time_data,
NB2,
file_data$time_info$units,
FALSE)
vars <- define_vars(file_data$variable, dims, nc_format$compression, with_time_bnds = FALSE)
write_output_file(
outfile,
nc_format$force_v4,
vars,
vars_data,
file_data$variable$name,
file_data$grid$vars, file_data$grid$vars_data,
cmsaf_info,
file_data$time_info$calendar,
file_data$variable$attributes,
global_attributes,
with_time_bnds = FALSE
)
##### calculate and write result #####
nc_out <- nc_open(outfile, write = TRUE)
if (!is.null(nc)) nc_in <- nc
else nc_in <- nc_open(infile)
# read data from infile
# dum_dat <- ncvar_get(
# nc_in,
# file_data$variable$name,
# collapse_degen = FALSE
# )
#nc_close(nc_in)
length_time <- length(file_data$dimension_data$t)
file_data_missing_value <- file_data$variable$attributes$missing_value
lapply(1:length_time, function(i){
# read data from infile
dum_dat <- ncvar_get(
nc_in,
file_data$variable$name,
start = c(1, 1, i), count = c(-1, -1, 1),
collapse_degen = FALSE
)
switch(op,
{
if (verbose) message(paste0("apply zonal sum ", i," of ", length_time))
data <- colSums(dum_dat, na.rm = TRUE)
},
{
if (verbose) message(paste0("apply zonal mean ", i," of ", length_time))
data <- colMeans(dum_dat, na.rm = TRUE)
},
)
data[is.na(data)] <- file_data_missing_value
ncvar_put(nc_out, vars[[1]], data, start = c(1, 1, i), count = c(-1, -1, 1))
})
if (is.null(nc)) nc_close(nc_in)
nc_close(nc_out)
calc_time_end <- Sys.time()
if (verbose) message(get_processing_time_string(calc_time_start, calc_time_end))
}
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