search for: libhdf5

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, since the test for libhdf5 failed, it isn't i...

...and octave3.0-headers can't be installed together. Is this a known issue? Thanks, Gad $ sudo apt-get install octave3.0-headers Reading package lists... Done Building dependency tree Reading state information... Done The following extra packages will be installed: libblas-dev libfftw3-dev libhdf5-serial-dev liblapack-dev Suggested packages: libhdf5-doc The following packages will be REMOVED: r-base-dev refblas3-dev The following NEW packages will be installed: libblas-dev libfftw3-dev libhdf5-serial-dev liblapack-dev octave3.0-headers -- Gad Abraham Dept. CSSE and NICTA The Uni...

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 "fastestmirror" plugin Loading "priorities" plugin Loading mirror speeds from cached hostfile * epel: mirror.hmc.edu * pgdg83: yum.pgsqlrpms.org * rpmforge: ftp-stud...

...help. Type 'q()' to quit R. [Previously saved workspace restored] > library("rgdal") Loading required package: sp Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library '/usr/local/lib/R/site-library/rgdal/libs/rgdal.so': libhdf5-1.6.4.so.0: cannot open shared object file: No such file or directory Error: package/namespace load failed for 'rgdal' > istribution details. Natural language support but running in an English locale R is a collaborative project with many contributors. Type 'contributors()'...

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 hdf5.h along with subsequent errors. making DLL ... making hdf5.d from hdf5.c hdf5.c:24:18: hdf5.h: No such file...

...l -R/opt/SUNWspro/lib -L/opt/SUNWspro/lib -L/opt/SUNWspro/SC4.2/lib -L/usr/ccs/lib -L/usr/lib /opt/SUNWspro/SC4.2/lib/libM77.a -lF77 -lsunmath -lm -lcx -lreadline -lhdf5 -lz -ldl -ltermcap -lm Undefined first referenced symbol in file compress2 /usr/local/lib/libhdf5.a(H5Z.o) ld: fatal: Symbol referencing errors. No output written to ../../bin/R.X11 ------------- Which happens because there was an -L/usr/local/X11R6.3/lib before the "-lhdf5 -lz". In the local LD_LIBRARY_PATH, /usr/local/lib (which has the proper libz.a *with* compress2) co...

...hdf5.so hdf5.o -L/home/jbullard/scratch/hdf5_install/lib -lhdf5 -lz -lm -L/home/jbullard/projects/me/R-builder/lib64/R/lib -lR I then start R and get the following error: Error in dyn.load("hdf5.so") : unable to load shared library '/home/jbullard/scratch/hdf5/src/hdf5.so': libhdf5.so.6: cannot open shared object file: No such file or directory The solution is set LD_LIBRARY_PATH to /home/jbullard/scratch/hdf5_install/lib Then things work just fine. However, I dislike this option -- Is there any other way which things can be orchestrated completely at package install time?...

...[20] run_Rmainloop(), line 944 in "main.c" [21] Rf_mainloop(), line 951 in "main.c" [22] main(ac = 4, av = 0x80477ac), line 33 in "Rmain.c" (dbx) p curr_len curr_len = 24960U (dbx) p curr_seq curr_seq = 0 (dbx) p of dbx: "of" is not defined in the scope `libhdf5.so.0.0.0`H5Dselect.c`H5D_select_mgath:347` dbx: see `help scope' for details (dbx) p off off = 0x8042960 (dbx) p tgath_buf tgath_buf = 0x9f5c4f0 "\xd87\x83^H\xa8\xf3\x82^H0^X\x82^H^X\xd4\x81^H^P\x90\x81^H\xb8m\x80^H^H'\x80^H\x88^?^?^H\x908^?^H\xb0\xf7~^H\xd8\xad~^H\xf8\xb2~^H\xb8\x8e~^...

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

Dear R People: I'm having trouble installing Rmpi on a debian machine. Here is my output: bccd at node000:~$ /bccd/home/bccd bccd at node000:~$ bccd at node000:~$ export RMPI_TYPE=OPENMPI bccd at node000:~$ R CMD INSTALL Rmpi_0.5-9.tar.gz * installing to library '/bccd/home/bccd/R/x86_64-pc-linux-gnu-library/2.15' * installing *source* package 'Rmpi' ... checking for gcc...