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.fht-esslingen.de * base: mirror.nic.uoregon.edu * updates: mirror.hmc.edu * centosplus: centos-distro.cavecreek.net * addons: mirrors.cat.pdx.edu * extras: centos-distro.cavecreek.net Excluding Packages from CentOS-5 - Base Finished Excluding Packages from CentOS-5 - Updates Finished 1541 packages excluded due to repository priority protections Setting up Install Process Parsing package install arguments Resolving Dependencies --> Running transaction check ---> Package octave.i386 6:3.0.1-2.el5 set to be updated --> Processing Dependency: libcamd.so.2 for package: octave --> Processing Dependency: libumfpack.so.5 for package: octave --> Processing Dependency: libcolamd.so.2 for package: octave --> Processing Dependency: libfftw3.so.3 for package: octave --> Processing Dependency: libccolamd.so.2 for package: octave --> Processing Dependency: libblas.so.3 for package: octave --> Processing Dependency: libglpk.so.0 for package: octave --> Processing Dependency: libcholmod.so.1 for package: octave --> Processing Dependency: libamd.so.2 for package: octave --> Processing Dependency: gnuplot for package: octave --> Processing Dependency: libcxsparse.so.2 for package: octave --> Processing Dependency: libhdf5.so.0 for package: octave --> Processing Dependency: liblapack.so.3 for package: octave --> Processing Dependency: libqhull.so.5 for package: octave --> Running transaction check ---> Package glpk.i386 0:4.20-2.el5 set to be updated ---> Package octave.i386 6:3.0.1-2.el5 set to be updated --> Processing Dependency: libhdf5.so.0 for package: octave ---> Package qhull.i386 0:2003.1-7.el5 set to be updated ---> Package lapack.i386 0:3.0-37.el5 set to be updated ---> Package gnuplot.i386 0:4.0.0-12 set to be updated ---> Package fftw3.i386 0:3.1.1-1.el5.rf set to be updated ---> Package blas.i386 0:3.0-37.el5 set to be updated ---> Package suitesparse.i386 0:3.1.0-1.el5 set to be updated --> Finished Dependency Resolution Error: Missing Dependency: libhdf5.so.0 is needed by package octave
Error: Missing Dependency: libhdf5.so.0 is needed by package octave
JohnStanley Writes: yum whatprovides libhdf5.so.0 Loading "fastestmirror" plugin Loading mirror speeds from cached hostfile * base: ftp.linux.ncsu.edu * updates: styx.biochem.wfubmc.edu * addons: mirror.atlantic.net * extras: pubmirrors.reflected.net base 100% |=========================| 1.1 kB 00:00 updates 100% |=========================| 951 B 00:00 addons 100% |=========================| 951 B 00:00 extras 100% |=========================| 1.1 kB 00:00 No Matches found
The package is not in the CentOS Distro. You will have to look elsewhere to find it. A good start would be google to find it and remember the whatprovides command to find what libs go with the package you need. CentOS and RHEL Versions 5 with Point releases 1,2, and 3 you can try this one here. http://rpm.pbone.net/index.php3/stat/4/idpl/4123486/com/hdf5-1.6.5-7.fc6.i38 6.rpm.html
"OR"
This one is for EPEL 5 on there site. http://rpm.pbone.net/index.php3/stat/4/idpl/8177721/com/hdf5-1.6.7-1.el5.i38 6.rpm.html
John wrote:
This one is for EPEL 5 on there site. http://rpm.pbone.net/index.php3/stat/4/idpl/8177721/com/hdf5-1.6.7-1.el5.i38 6.rpm.html
I installed the hdf5 package off EPEL (via yum install hdf5) and my yum install octave still fails with the same error.
Error: Missing Dependency: libhdf5.so.0 is needed by package octave
when I look at that hdf5 package, I see...
# rpm -ql hdf5 /usr/bin/gif2h5 /usr/bin/h52gif /usr/bin/h52gifgentst /usr/bin/h5cc /usr/bin/h5copy /usr/bin/h5debug /usr/bin/h5diff /usr/bin/h5dump /usr/bin/h5import /usr/bin/h5jam /usr/bin/h5ls /usr/bin/h5mkgrp /usr/bin/h5redeploy /usr/bin/h5repack /usr/bin/h5repart /usr/bin/h5stat /usr/bin/h5unjam /usr/lib/libhdf5.settings /usr/lib/libhdf5.so.5 /usr/lib/libhdf5.so.5.0.0 /usr/lib/libhdf5_hl.so.0 /usr/lib/libhdf5_hl.so.0.0.0 /usr/share/doc/hdf5-1.8.0 /usr/share/doc/hdf5-1.8.0/COPYING /usr/share/doc/hdf5-1.8.0/README.txt
libhdf5.so.5 and .5.0.0 and _hl.so.0 != what octave is looking for. I know EPEL isn't a CentOS project, IIRC, its a Fedora/RH projecct but this isn't looking good.
I installed the hdf5 package off EPEL (via yum install hdf5) and my yum install octave still fails with the same error.
Error: Missing Dependency: libhdf5.so.0 is needed by package octave
when I look at that hdf5 package, I see...
# rpm -ql hdf5 /usr/bin/gif2h5 /usr/bin/h52gif /usr/bin/h52gifgentst /usr/bin/h5cc /usr/bin/h5copy /usr/bin/h5debug /usr/bin/h5diff /usr/bin/h5dump /usr/bin/h5import /usr/bin/h5jam /usr/bin/h5ls /usr/bin/h5mkgrp /usr/bin/h5redeploy /usr/bin/h5repack /usr/bin/h5repart /usr/bin/h5stat /usr/bin/h5unjam /usr/lib/libhdf5.settings /usr/lib/libhdf5.so.5 /usr/lib/libhdf5.so.5.0.0 /usr/lib/libhdf5_hl.so.0 /usr/lib/libhdf5_hl.so.0.0.0 /usr/share/doc/hdf5-1.8.0 /usr/share/doc/hdf5-1.8.0/COPYING /usr/share/doc/hdf5-1.8.0/README.txt
libhdf5.so.5 and .5.0.0 and _hl.so.0 != what octave is looking for. I know EPEL isn't a CentOS project, IIRC, its a Fedora/RH projecct but this isn't looking good.
JohnStanley Writes: That's strange because the both links I give you to them have on the down load page this; Provides : libhdf5.so.0 libhdf5_hl.so.0 Hdf5
Maybe try running "rpm --rebuilddb" or "ldconfig" or "yum clean-all" (bad or old yum headers can cause that)and then try the install again. Aonother thing to check may is your priorities for yum. Lastly it could just simply be the way the rpm was packaged. As in the developer has it going into a none standard directory or the other way around like Octave is looking for the lib in the wrong place. You could also take the two hdf rpms and compare the directory structure.
On Oct 18, 2008, at 3:58 AM, John R Pierce wrote:
John wrote:
This one is for EPEL 5 on there site. http://rpm.pbone.net/index.php3/stat/4/idpl/8177721/com/ hdf5-1.6.7-1.el5.i38 6.rpm.html
I installed the hdf5 package off EPEL (via yum install hdf5) and my yum install octave still fails with the same error.
Error: Missing Dependency: libhdf5.so.0 is needed by package octave
when I look at that hdf5 package, I see...
# rpm -ql hdf5 /usr/bin/gif2h5 /usr/bin/h52gif ....
/usr/share/doc/hdf5-1.8.0/README.txt
libhdf5.so.5 and .5.0.0 and _hl.so.0 != what octave is looking for. I know EPEL isn't a CentOS project, IIRC, its a Fedora/RH projecct but this isn't looking good.
Just to reassure you. I've had no problems with octave and hdf5 ( both from epel ).
From what you've written, I don't think this it the problem, but just to be sure: are you running x86_64 and have installed i386 hdf5?
Tony Schreiner
Tony Schreiner wrote:
Just to reassure you. I've had no problems with octave and hdf5 ( both from epel ).
From what you've written, I don't think this it the problem, but just to be sure: are you running x86_64 and have installed i386 hdf5?
no, its i386
OH. looking again (having put this aside since last week)
# yum list hdf5 .... hdf5.i386 1.8.0-1.el5.rf installed
looks like I got hdf5 from rpmforge :-/
ok, # yum remove hdf5 # yum --disablerepo=rpmforge install octave octave-forge hdf5
has sorted it out. grrrrrr. once again epel does not play well with others :(((
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John -
John R Pierce -
Tony Schreiner