similar to: Hdf5 library error when using R 2.4 within GRASS6

I just tried to build R-0.63.2 on my mklinux machine and noticed a problem with the configure script. First, configure tests for the library libhdf5, then it tests for the libz library. Since libhdf5 depends on libz, the libhdf5 test fails even when it is present. Later in the configuration script, there is a test for hdf5.h. If this file is found, then support for HDF5 is enabled. However,

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've installed hdf5 [library & includes] here locally, last week. [see ?hdf5save in R] There is a remaining compilation / linking problem for me: The hdf5 library uses "compress2" a routine defined in Gnu's zlib, but not available in the zlib that comes with X11R6.3 (which we have installed). Now unfortunately, the final link statement for R (0.65) [for me, with hdf5

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

trying to install octave from epel onto centos 5.2, and getting dependency errors. only place I could find this RPM was in epel, which I 'thought' ran on native rhel5/centos5 without requiring any other repos, but I guess I'm wrong?!? google tells me libhdf5 is some sot of 'heirarchial data format' library, whatever that means. # yum install octave Loading

Hello all, I'm having troubles getting R to load data from GRASS 7. I suspect I have installed something wrong, but can't figure out what. Any suggestions for what I could look for or how to trouble shoot this? Thanks in advance for any help! After having other issues last week, we have upgraded Debian to the testing version. The other problems are solved, but now I can't get

Hi, Does anyone use spgrass6 with GRASS 7 and R? The documentation for spgrass6 states it is for GRASS6+, and if I recall correctly I saw Dr. Bivand mention that it works well with GRASS7. (There were some threads from 2009 where spgrass6 wasn't working with GRASS7 yet, but I assumed that information was out of date.) So I figured I was doing something wrong with the library and package

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

Hi, I'm using Ubuntu Hardy i386, and the R 2.7.1 Ubuntu packages from CRAN. The CRAN r-base-dev package depends on refblas3-dev or atlas3-base-dev, but octave3.0-headers depends on libblas-dev. The two blas packages seem to conflict, so r-base-dev and octave3.0-headers can't be installed together. Is this a known issue? Thanks, Gad $ sudo apt-get install octave3.0-headers Reading

Hi R Developers, Greg is helping me with debugging R on Solaris 10 x64. Please let us know if you have any thoughts or tips that can help us debug this. Thanks, David ************ Using default transfer plist in vector_io: permuting About to write *** caught segfault *** address e8554000, cause 'memory not mapped' Traceback: 1: .External("do_hdf5save", call,

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

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

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

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'

*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: *

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 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 everybody: HDF5, a dataset formatting library, and R that is built with it, have been uploaded to ftp://ftp-fis.iarc.fr/pub/incoming. The R RPM uses the spec file created by Martyn Plummer as a starting point, and makes only a few trivial changes. -rw-rw-r-- 1 ftp 100 3416612 Oct 6 17:45 R-base-with-hdf5-0.65.1-1.i386.rpm -rw-rw-r-- 1 ftp 100 2300453 Oct 6 17:48

Greetings I'm new to R. I became interested in it because my friends at the Swarm Development Team at the Santa Fe Institute have been using/developing R to work as a front end for HDF5 datasets. >From looking at the RPMS for R, I got the idea they were compiled without support for HDF5. Correct? If you are interested in the HDF5 data format and R, on my page I have RPMS for HDF5 and

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