similar to: map() and C++ interface

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'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 All, I just signed up to this list, so I apologize if this question has been asked before. I am trying to load an hdf5 file into R and running into some problems. Here are the steps I took to configure my environment: * R 2.10.0 (x64) on Mac OS X 10.6 * hdf5 1.8.3 installed via macports * hdf5_1.6.9.tar.gz from CRAN I suspect the problem I am having relates to

*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: *

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

Dear R-users, I'm experiencing a segmentation fault when using hdf5load(file,load=FALSE). Library(hdf5) loads without problems but when loading a file, R crashes. I compiled R under Unix (Solaris for Sun). There is nothing wrong with the files, as I can run the same script at another place where R runs under Linux. Is it possible it has something to do with the hdf5 libraries where

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

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

Using RedHat Linux 7.0, R-1.2.2, R-hdf5-1.2 library, I want to load a dataset, do some stuff with it, then erase its objects, get an other, repeat. My friend wrote a function which tried to clear away all the objects. At the end, it uses rm() to remove objects. This is the same way we do it interactively, from the R prompt: testLoadSeveralHDF <- function(numFiles) { for (i in

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:

I'm an R newbie, so please forgive if this question has been asked and answered many times before on this mailing list. I can't find anything in the manual (Notes or R), the FAQ or on CRAN, so... Has anyone implemented an interface so R can read NCSA's HDF? -- Terry J. Westley, Principal Engineer Veridian Engineering, Calspan Operations P.O. Box 400, Buffalo, NY 14225 twestley at

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

Dear all I'm trying to install the hdf5 library into R. The HDF5 package is installed in a special directory, distributed accross my cluster: /share/apps/HDF5 So i put the args option to the configure command as i read in previous post in the list: jerome]# R CMD INSTALL --configure-vars='LDFLAGS=-L/share/apps/HDF5/lib' --configure-args='--with-hdf5=/share/apps/HDF5'

--=-=-= Included below are: 1) Diffs to to remove HDF5 from R 2) Diffs to pass thru --with-* options to a module's configure script during "R INSTALL". (To reiterate a plea for this capability...) This applies only to Unix, the Windows (mingw32 in my case) build approach of passing in make variables like *-CFLAGS and *-LDFLAGS works fine. The only hitch

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

I am writing an R package to interface to hdf5 files (yes I know one exists, the issue will be demonstrated using that package). I tend to like to build/install things locally so that aspects of the system I am working on don't cause problems later when attempting to install elsewhere. To this end, I build and install the hdf5 libraries w/out incident: tar xzf hdf5-1.8.4.tar.bz2 cd hdf5-1.8.4

? Wed, 1 Feb 2023 14:16:54 +1100 Michael Milton <ttmigueltt at gmail.com> ?????: > Is this a bug in the `dyn.load` implementation for R? If not, why is > it behaving like this? What should I do about it? On Unix-like systems, dyn.load forwards its arguments to dlopen(). It should be possible to confirm with a debugger that R passes RTLD_NOW to dlopen() when calling dyn.load(now =

Hi there, I have a Java process that writes HDF5 files with the following approximate structure: group "xxx" { group "yyy" { dataset {} dataset {} } group "zzz" { dataset {} dataset {} } } where dataset is a rank one dataspace having a compound datatype defined as: H5T_UNIX_TIME, float, float, float, float I

Hello, I want to install hdf5 libraries for R and I get the same error as posted below whether I try install.packages("hdf5") from R command prompt or the command line installation below. I would appreciate if any one could help me on this. [alamj@thor hdf5]$ ./configure --with-hdf5=/bluejay/apps/HDF5-1.6.6/x86_64 checking for gcc... gcc checking for C compiler default output... a.out

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