search for: nc_open

I have a series of nertCDF files containing global data for a particular variable, e.g. tmin/tmax/precipiation/windspeed/relative humuidity/radiation etc. I get the following information when using *nc_open* function in R: datafile: https://www.dropbox.com/s/xpo7zklcmtm3g5r/gfdl_preci.nc?dl=0 File gfdl_preci.nc (NC_FORMAT_NETCDF4_CLASSIC): 1 variables (excluding dimension variables): float prAdjust[lon,lat,time] _FillValue: 1.00000002004088e+20 missing_value: 1.00000...

...file containing three variables for Switzerland. All data outside of the country are NAs. The third variable is calculated from the first two variables. Basically there is no problem to do that. I copy the file with the data of the first variable, open this file with 'write=TRUE' (nc1 <- nc_open()), read the data to 'var1', open the other file (nc2 <- nc_open()), read the data to variable 'var2', put this variable to the file (nc1) and calculate the third variable based on var1 and var2. So far everything is fine. But I figured out that when I write the data 'var2...

...Aug 28, 2017, at 2:21 PM, Eeusha Nafi <eshad002 at gmail.com> wrote: > > I have a series of nertCDF files containing global data for a particular > variable, e.g. tmin/tmax/precipiation/windspeed/relative > humuidity/radiation etc. I get the following information when using > *nc_open* function in R: > > datafile: https://www.dropbox.com/s/xpo7zklcmtm3g5r/gfdl_preci.nc?dl=0 > > File gfdl_preci.nc (NC_FORMAT_NETCDF4_CLASSIC): > > 1 variables (excluding dimension variables): > float prAdjust[lon,lat,time] > _FillValue: 1.00000002004088e...

...ering a problem when reading nc files into R using the ncdf and ncdf4 libraries. The nc files are too large to attach an example (but if someone is interested in helping out I could send a file privately via an online drive), but the code is basic: for(i in 1:length(thesenames[,1])){ data <- nc_open(paste(INDIR, thesenames[i,c("wholename")], sep=""), write=F) d.vars <- names(data$var) d.size <- (data$var[[length(d.vars)]])$size # Obtaining longitude and latitude values d.lon <- as.vector(ncvar_get(data, varid="lon", start=c(1,1), count=c(d.si...

...three variables for Switzerland. All data outside of the country > are NAs. The third variable is calculated from the first two variables. > Basically there is no problem to do that. I copy the file with the data of > the first variable, open this file with 'write=TRUE' (nc1 <- nc_open()), > read the data to 'var1', open the other file (nc2 <- nc_open()), read the > data to variable 'var2', put this variable to the file (nc1) and calculate > the third variable based on var1 and var2. > > So far everything is fine. But I figured out that when I wr...

...e ncdf and ncdf4 libraries. What are the details -- what operating system are you running on, what version of R and the netcdf library are you using? If you make the files available to me I can take a look. Regards, --Dave Pierce ? > for(i in 1:length(thesenames[,1])){ > data <- nc_open(paste(INDIR, thesenames[i,c("wholename")], sep=""), > write=F) > d.vars <- names(data$var) > d.size <- (data$var[[length(d.vars)]])$size > > # Obtaining longitude and latitude values > d.lon <- as.vector(ncvar_get(data, varid="lon&quot...

...the variable from each file will be 696 to 744 (depending on how many days x 24 hours there were in the month).What I achieved is to to read the values from all 12 files stored in directory with a function and add them as vectors to a lapply-list: Myfunction <- function(filename) { nc <- nc_open(filename) lon <- ncvar_get(nc, "lon") lat <- ncvar_get(nc, "lat") RW <- ncvar_get(nc, "X") HW <- ncvar_get(nc, "Y") pt.geo <- c(8.6810 , 50.1143) dist <- sqrt( (lon - pt.geo[1])^2 + (lat - pt.geo[2])^2 ) ind <- which(dist==min(dist...

...c.water.content.at..33.kPa' If you want to know more about the what is in the file, then I suggest you use the ncdf4 package to open the file and explore it's contents - you should get a clear picture of it's contents from that. Something like this (untested)... library(ncdf4) x <- nc_open(file.nc) x nc_close(x) While print lots of info about the file. Ben > On Mar 28, 2018, at 10:37 AM, Ahmed Attia <ahmedatia80 at gmail.com> wrote: > > Hi > > I have a netCDF file of volumetric soil water content at four > different soil layers and want to convert each so...

...ach file will be 696 to 744 (depending on how many days x 24 hours there were in the month).What I achieved is to to read the values from all 12 files stored in directory with a function and add them as vectors to a lapply-list: Myfunction <- function(filename) { nc <- nc_open(filename) lon <- ncvar_get(nc, "lon") lat <- ncvar_get(nc, "lat") RW <- ncvar_get(nc, "X") HW <- ncvar_get(nc, "Y") pt.geo <- c(8.6810 , 50.1143) dist <- sqrt( (lon - pt.geo[1])^2 + (lat - pt.geo[2])^2 ) in...

...ther we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc -std=gnu99 accepts -g... yes checking for gcc -std=gnu99 option to accept ISO C89... none needed checking for nc_open in -lnetcdf... yes checking for utInit in -ludunits2... no checking for utScan in -ludunits2... yes checking how to run the C preprocessor... gcc -std=gnu99 -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... no che...

...for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking netcdf.h usability... yes checking netcdf.h presence... yes checking for netcdf.h... yes Found netcdf.h in: . checking for nc_open in -lnetcdf... yes Found netcdf library file libnetcdf.a in directory . configure: creating ./config.status config.status: creating R/load.R config.status: creating src/Makevars ** libs gcc -m64 -std=gnu99 -I/usr/include/R -I. -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=...

...pSxjZ1u/R.INSTALL3e7b250a942e/ncdf4/man/ancdf4.Rd:76: missing file link 'ncvar_put' ancvar_put html nc_close html nc_create html nc_enddef html nc_open html nc_redef html nc_sync html nc_version html ncatt_get html ncatt_put html n...

summary: I can successfully ncvar_put(...) data to a file, but when I try to ncvar_get(...) the same data, I get > Error in if (nc$var[[li]]$hasAddOffset) addOffset = nc$var[[li]]$addOffset else addOffset = 0 : > argument is of length zero How to fix or debug? details: R code @ https://github.com/TomRoche/GEIA_to_NetCDF successfully (if crudely) uses R packages={ncdf4, maps, fields}

...for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking netcdf.h usability... yes checking netcdf.h presence... yes checking for netcdf.h... yes Found netcdf.h in: . checking for nc_open in -lnetcdf... yes Found netcdf library file libnetcdf.a in directory . configure: creating ./config.status config.status: creating R/load.R config.status: creating src/Makevars ** libs gcc -std=gnu99 -I/usr/lib64/R/include -I/usr/lib64/R/include -I. -I/usr/local/include -fpic -g -O2 -c ncdf2.c -o...

Hi I have a netCDF file of volumetric soil water content at four different soil layers and want to convert each soil layer in the netCDF file to a GeoTIFF layer. This code converts the netCDF file to one GeoTIFF layer, i.e. unclear which soil depth. file.nc <- "C:/Soil_Weather_data/Agro/VMC21/VMC21.nc" file.tiff <- "C:/Soil_Weather_data/Agro /VMC21/VMC21" importnetcdf

...declaration of function ?nc_inq_unlimdims? [-Wimplicit-function-declaration] ncdf.c: In function ?R_nc4_inq?: ncdf.c:451:2: warning: implicit declaration of function ?nc_inq? [-Wimplicit-function-declaration] ncdf.c: In function ?R_nc4_open?: ncdf.c:475:2: warning: implicit declaration of function ?nc_open? [-Wimplicit-function-declaration] ncdf.c: In function ?R_nc4_create?: ncdf.c:499:15: error: ?NC_SHARE? undeclared (first use in this function) ncdf.c:501:15: error: ?NC_64BIT_OFFSET? undeclared (first use in this function) ncdf.c:503:15: error: ?NC_NETCDF4? undeclared (first use in this function)...

...declaration of function ?nc_inq_unlimdims? [-Wimplicit-function-declaration] ncdf.c: In function ?R_nc4_inq?: ncdf.c:451:2: warning: implicit declaration of function ?nc_inq? [-Wimplicit-function-declaration] ncdf.c: In function ?R_nc4_open?: ncdf.c:475:2: warning: implicit declaration of function ?nc_open? [-Wimplicit-function-declaration] ncdf.c: In function ?R_nc4_create?: ncdf.c:499:15: error: ?NC_SHARE? undeclared (first use in this function) ncdf.c:501:15: error: ?NC_64BIT_OFFSET? undeclared (first use in this function) ncdf.c:503:15: error: ?NC_NETCDF4? undeclared (first use in this function)...

Dear All, I recently got a 64bit machine and had netcdf-3.6.2 installed. Then I tried to install ncdf package but got the following error message when using netcdflib: gcc -std=gnu99 -I/home/ljin/share/R-2.6.1/include -I/home/ljin/share/R-2.6.1/include -I. -I/usr/local/include -fpic -g -O2 -c ncdf2.c -o ncdf2.o gcc -std=gnu99 -I/home/ljin/share/R-2.6.1/include

I was trying to install software named ncview on a centos 5.3 box. ./configure command gave this error: Error, the X libraries and development headers must be installed for ncview to work! I was surprised that there were many google hits related to ubuntu, none for centos. So even though I eventually figured out what to do, I decided to share this with the list anyhow, so maybe next time I