similar to: converting NSCA HDF5 files to ASCII

Has anyone succeeded in using HDF5 in R? Using Solaris R version 0.64.0: 1) R was configured in this way: cd /home/westley/R/R-0.64.0 setenv LD_LIBRARY_PATH ${LD_LIBRARY_PATH}:/home/westley/HDF/lib ./configure \ --prefix=/home/westley/R \ --with-g77=/usr/calspan/gnu/bin/g77 \ --x-lib=/usr/openwin/lib \ --with-hdf5-libs=/home/westley/HDF/lib 2) But, when I attempt to

Hi all, I'm testing the use of the hdf5 R library under Windows XP. With some simple example (an R list with several subobjects as showed in the examples in the library) the library exports and imports .hdf files adequately. However, if I try to open the exported file with another program (HDFView 2.5) I receive the message that the file is an unsupported format. HDFView 2.5 does not seems to

Hello: Has anyone successfully installed the package hdf5-1.4.7 in R version 1.7.1? I get a fatal error with a core dump (see below) whenever I try to use hdf5load. Since I'm in the process of moving to a new machine, I'm not sure whether this is due to (my installations of) the HDF5 libs or the hdf5 package for R. Just for the record, the HDF5 data files were correctly generated in the

*Hi everyone, I am a new subscriber, so I hope I'm posting in the right way. I need to load a hdf5 file, so I installed the hdf5 libraries ad the hdf5 R package; in downloaded a small sample file from the hdf5 website and I could correctly load it. But when I try to load my file: * require(hdf5) rm(list=ls()) ls() hdf5load("my_file.h5", verbosity=3) *I get this error message: *

Dear R-user group I am currently running R-0.90.1-1 for LinuxPPC on my PowerBook. Few days ago I have seen at CRAN that a new R-package exists, namely R-base-with-hdf5-0.90.1-2. Sorrowly, I could not find any explanation, what the difference to the other package is. I have downloaded the "Introduction to HDF5 Release 1.2" from hdf.ncsa.uiuc.edu/HDF5. It seems that HDF5 is a data

HDF5 is a high quality data storage format from NCSA (http://hdf.ncsa.uiuc.edu/index.html) Marcus Daniels of the Swarm Development Group has made available an R library called hdf5 which allows loading and saving of data in hdf5 format. The source for his library is here: ftp://ftp.swarm.org/pub/swarm/src/testing/hdf5_1.4.7.tar.gz I prefer to use RPMs to maintain software across many linux

Hi there, I am currently working on something that uses hdf5 library. I think hdf5 is a great data format, I've used it somewhat extensively in python via PyTables. I was looking for something similar to that in R. The closest I can get is this library: hdf5. While it does not work the same way as PyTables did, but it's good enough to let them exchange data via hdf5 file. There is just 1

Saludos, estoy intentando usar la función reprojectHDF() ( http://r-gis.net/?q=ModisDownload). #### source('ModisDownload.R') library(raster) library(RCurl) path<-"~/R/MODIS/Data/Test" input<-list.files(path,"*.hdf",all.files=T,recursive=T,full.names=T) input outname<-paste(substr(input[1],40,45),".tif",sep='') outname

Dear all, I'm trying to fix a subtle bug in the hdf5 package. This package provides an interfaces to the HDF5 library and hence allows one to load data into R from files in the HDF5 format. The bug appeared during a period in which R changed but the package did not. I include below both the R and C code, stripped of everything except what is needed to show the bug. What is supposed to

hello, I have a problem to open an hdf file. i have downloaded the package 'hdf5' as it was advised on R seek. But when i try to load the file, the R console sends me an eror message: setwd("C:/Documents and Settings/Karine/Bureau/data/") #install.packages('hdf5') library("hdf5") sea_ice <- hdf5load("asi-s6250-20090704-v5i.hdf", load =

Dear All, I have data in HDF file format and would like to read it into R. I have tried the package hdf5 without success. Any ideas and suggestions?? Kind regards, Katrin -- Katrin Fleischer Vrije Universiteit Amsterdam Faculty of Earth and Life Sciences Subdepartment Hydrolgy and Geo-Environmental Sciences Room E-360 De Boelelaan 1085 1081 HV AMSTERDAM Tel: +31 20 59 87391

Hello! I've got troubles on following thing: As output I need a string like: INPUT_FILENAMES = H:\\AKK_temp\\Modis\\MOD13Q1\\austria\\MOD09Q1.A2008073.h18v04.005.2008083134952.hdf|H:\\AKK_temp\\Modis\\MOD13Q1\\austria\\MOD09Q1.A2008073.h19v04.005.2008082182221.hdf The filenames (dates) are with pathname (wrkdr) and separated with "|". The number of input filenames changes

I've used the HDF5 library to bring some data into R. THe verbose output looks like this: > hdf5load("hdfGraphWed_Mar_16_13_33_37_2005.hdf",load=T,verbosity=1,tidy=T) Processing object: cprSeats ...... which is a Group Processing object: Seats 0 ...... its a dataset......Finished dataset Processing object: Seats 1 ...... its a dataset......Finished dataset Processing object:

The question puzzled me at first, because of your use of "library". It looks as if the hdf5 r "package" utilises the "windows hdf5 library" binary. My reading is that you will have to compile the package yourself after you have downloaded the hdf windows dll from hdf.ncsa.uiuc.edu The instructions are in win.readme.txt of the package source which you can download at

The basic question is: How can I pass configure script command line flags from the R CMD command? Now I try to install the HDF5 package on Linux (SuSE 7.3). I got hdf5 libraries installed in /usr/local/hdf5 (man/lib/bin). I understood to install packages the following way: as root# R CMD INSTALL hdf5_1.4.7.tar.gz Installing source package `hdf5' ... checking for gcc... gcc checking for

Hello: I've recently started using R to process data in HDF5 format. My files come in 1.5MB chunks, but they can be as big as 50MB. The problem I am facing with R-1.2.2 is that when I try to load 50 of the 1.5MB HDF5 files (using the hdf5 library) in a loop, my Linux box gets close to its memory limit around the file #15 (256MB RAM and 256MB swap). This happens even if I load file ->

The package works fine, but it seems not to provide access to fields, but only to the whole data in a certain file (function hdf5load(file, load = TRUE, verbosity = 0, tidy = FALSE)) Since hdf5 organizes the data and metadata in a hierarchical structure, we must explore in our problem (file>7GB), but it seems not possible with the functions in the package. Any suggestions? Please, let me know

Hi All, I'm still actively researching this problem (reading R-ext manual), but I hoped that I might be able to get some additional insight from the list given that I'm fairly new at writing R extension code. Problem: I have some fairly simple code (.Call interface) that makes a call to another shared library, which, in turn, calls routines in an HDF5 shared library. The good news

Hello everybody, I'm using hdf5 files to store results from intermediate calculations. These are usually part of a list, called "res". As I want the hdf-files to contain all the members of res in its top "directory", I used to do attach(res) do.call("hdf5save", args=c(fileout=file.path(dir, ofile), as.list(names(res)))) detach(res) which did what I

I am trying to build hdf5 for ms-windows. I downloaded the hdf5_1.4.7.tar.gz, gunzipped it and got a tar file. I extracted everything into a directory tree called hdf5. I also found a Makevars.win and libhdf5.def in the R help archives from March 2002. I put those two in hdf5 as well. I issued the command Rcmd build --binary hdf5 but got this message complaining it can''t find