[Paraview] Still more trouble compiling VisitBridge with Paraview 3.10 on RHEL 5

Mon Apr 11 13:57:56 EDT 2011

I was hoping someone was going respond about the rpath stripping, but
alas I suppose I'll have to :).

rpaths are stripped to ensure that installed executable don't depend
on anything that is not installed. To circumvent the LD_LIBRARY_PATH
issues, Paraview uses what we call "shared-forwarding". The paraview
executable that gets installed in "bin" directory is not the real
paraview executable instead it's a wrapper executable that sets up the
environment variables and the forks the real paraview executable
(which is trypically under lib/paraview-version/...).

So to diagnose the missing path, run the installed paraview with
"--ldd" command line argument. What are the missing libraries and
where are they located?

Utkarsh

On Mon, Apr 11, 2011 at 1:40 PM, Cook, Rich <cook47 at llnl.gov> wrote:
> I also forgot to include the fact that IMO the installer stripping the rpath out of binaries without any way to prevent this breaks my install and is in my opinion a bug :-)  I have to install them by just copying them by hand.
> -- Rich
>
> On Apr 11, 2011, at 10:37 AM, Cook, Rich wrote:
>
>> Hi, thanks for replying.
>> I don't know what went wrong.  One thing is that paraview wants to
>> When I launch paraview, and then choose File->Open, then click on the "Files of Type" pull down menu in the File Open dialog, I see some Visit plugins, such as my ParaDIS reader, so I think some of the VisitBridge is "working" but I do not see a "Mili" file type option.  Also the user who requested it is not able to open his mili files yet.
>> Not sure what to check or how to proceed.  Thanks for any help!
>> -- Rich
>>
>> On Apr 11, 2011, at 5:28 AM, Robert Maynard wrote:
>>
>>> Hi Rich,
>>>
>>> Can you give me some more information on what went wrong on install
>>> time. I can spend some time this week making sure that static install
>>> work properly.
>>>
>>> On Fri, Apr 8, 2011 at 7:14 PM, Cook, Rich <cook47 at llnl.gov> wrote:
>>>> Sorry to speak up again.  I got MILI to compile but I think it did not install correctly.  Am I SOL for now?  The Mili support was the whole point of my trying to get this to work.  :-)
>>>> Thanks for all the support
>>>> -- Rich
>>>>
>>>> On Apr 8, 2011, at 12:06 PM, Robert Maynard wrote:
>>>>
>>>>> Hi Rich,
>>>>>
>>>>> I am currently working on fixing the issues with the MILI reader not
>>>>> compiling correctly.
>>>>>
>>>>> On Fri, Apr 8, 2011 at 1:15 PM, Cook, Rich <cook47 at llnl.gov> wrote:
>>>>>> Aha, it's the semicolon syntax that was unknown to me.  Thanks.
>>>>>> I do want to reiterate that turning on the MILI reader did not result in a
>>>>>> successful reader build, because the include and library settings do not get
>>>>>> placed in the right makefiles.  I have to manually hack the link.txt and
>>>>>> make.flags files or otherwise do workarounds for that.  As long as I'm doing
>>>>>> that anyhow, I can just place the deeper dependencies there as well.
>>>>>> On Apr 8, 2011, at 6:26 AM, David Partyka wrote:
>>>>>>
>>>>>> Hi Rich,
>>>>>> Because you're building static you need to tell CMake what your
>>>>>> Silo/Mili/HDF5 dependencies are because it has no way of knowing. To do
>>>>>> this, in ccmake/cmake-gui you can list them in the same variables where you
>>>>>> specified SILO_LIBRARY,MILI_LIBRARY, HDF5_LIBRARY/HDF5_LIBRARIES. This
>>>>>> should give CMake enough information to compute the correct link line.
>>>>>> For example, you should be able to set these in ccmake/cmake-gui like so:
>>>>>> SILO_LIBRARY /usr/gapps/visit/silo/4.8/linux-x86_64_gcc-4.1/lib/libsiloh5.a;/usr/gapps/visit/szip/2.1/linux-x86_64_gcc-4.1/lib/libsz.a
>>>>>> On Thu, Apr 7, 2011 at 7:19 PM, Cook, Rich <cook47 at llnl.gov> wrote:
>>>>>>>
>>>>>>> OK, I just solved this by hacking into all the link.txt files I found
>>>>>>> laying around.  This has been one ugly build process!
>>>>>>> -- Rich
>>>>>>>
>>>>>>> On Apr 7, 2011, at 4:00 PM, Cook, Rich wrote:
>>>>>>>
>>>>>>>> So, our libmili.a, libsiloh5.a and libhdf5.a libraries have dependencies
>>>>>>>> on another library, libsz.  I've tried adding  -lz
>>>>>>>> /usr/gapps/visit/szip/2.1/linux-x86_64_gcc-4.1/lib/libsz.a  to every STRING
>>>>>>>> I can in the CMakeCache.txt file, but I'm stuck on this error.  How can I
>>>>>>>> append linker flags to what cmake is doing here?  You can see that the -lz
>>>>>>>> and libsz.a are being inserted here, but it needs to come at the end of the
>>>>>>>> link line to resolve the symbols.  I might resort to sed and grep if this
>>>>>>>> keeps up, but I hope I don't have to.
>>>>>>>>
>>>>>>>>
>>>>>>>> Linking CXX executable ../../../../bin/ServerManagerStateLoader
>>>>>>>> cd
>>>>>>>> /nfs/tmp2/rcook/Paraview/3.10/build/ParaView-3.10.0/build/Servers/ServerManager/Testing/Cxx
>>>>>>>> && /usr/gapps/visit/cmake/2.8.3/linux-x86_64_gcc-4.1/bin/cmake -E
>>>>>>>> cmake_link_script CMakeFiles/ServerManagerStateLoader.dir/link.txt
>>>>>>>> --verbose=1
>>>>>>>> /usr/local/bin/g++
>>>>>>>> -I/usr/global/tools/Kitware/Paraview/3.10/chaos_4_x86_64_ib/include
>>>>>>>> -I/usr/gapps/visit/mili/1.10.0/linux-x86_64_gcc-4.1/include
>>>>>>>> -Wno-deprecated -g
>>>>>>>> -L/usr/global/tools/Kitware/Paraview/3.10/chaos_4_x86_64_ib/lib
>>>>>>>> -L/usr/gapps/visit/mili/1.10.0/linux-x86_64_gcc-4.1/lib -lmili
>>>>>>>> /usr/gapps/visit/hdf5/1.8.4/linux-x86_64_gcc-4.1/lib/libhdf5.a -lz
>>>>>>>> /usr/gapps/visit/szip/2.1/linux-x86_64_gcc-4.1/lib/libsz.a
>>>>>>>> CMakeFiles/ServerManagerStateLoader.dir/ServerManagerStateLoader.cxx.o
>>>>>>>> CMakeFiles/ServerManagerStateLoader.dir/vtkTestingProcessModuleGUIHelper.cxx.o
>>>>>>>> CMakeFiles/ServerManagerStateLoader.dir/vtkTestingOptions.cxx.o  -o
>>>>>>>> ../../../../bin/ServerManagerStateLoader -rdynamic
>>>>>>>> ../../../../bin/libvtkPVServerManager.a ../../../../bin/libvtkPVFiltersCS.a
>>>>>>>> ../../../../bin/libvtkPVFilters.a ../../../../bin/libvtkPVServerCommonCS.a
>>>>>>>> ../../../../bin/libvtkPVServerCommon.a
>>>>>>>> ../../../../bin/libvtkPVCommandOptions.a ../../../../bin/libvtkChartsCS.a
>>>>>>>> ../../../../bin/libvtkViewsCS.a ../../../../bin/libvtkInfovisCS.a
>>>>>>>> ../../../../bin/libQVTK.a
>>>>>>>> /usr/global/tools/Kitware/Paraview/3.10/chaos_4_x86_64_ib/lib/libQtWebKit.so
>>>>>>>> /usr/global/tools/Kitware/Paraview/3.10/chaos_4_x86_64_ib/lib/libQtXmlPatterns.so
>>>>>>>> /usr/global/tools/Kitware/Paraview/3.10/chaos_4_x86_64_ib/lib/libQtNetwork.so
>>>>>>>> ../../../../bin/libIceTMPI.a ../../../../bin/libIceTGL.a
>>>>>>>> ../../../../bin/libIceTCore.a -lGLU
>>>>>>>> ../../../../bin/libvtkVolumeRenderingCS.a
>>>>>>>> ../../../../bin/libvtkVolumeRendering.a ../../../../bin/libvtkWidgetsCS.a
>>>>>>>> ../../../../bin/libKWCommon.a ../../../../bin/libvtkCharts.a
>>>>>>>> ../../../../bin/libvtkViews.a ../../../../bin/libvtkInfovis.a
>>>>>>>> ../../../../bin/libvtkWidgets.a ../../../../bin/libvtkalglib.a
>>>>>>>> ../../../../bin/libvtkXdmfCS.a ../../../../bin/libvtkXdmf.a
>>>>>>>> ../../../../bin/libXdmf.a ../../../../bin/libvtklibxml2.a -lm
>>>>>>>> ../../../../bin/libvtkVisItDatabasesCS.a
>>>>>>>> ../../../../bin/libvtkVisItAVTAlgorithmsCS.a
>>>>>>>> ../../../../bin/libvtkHybridCS.a ../../../../bin/libvtkParallelCS.a
>>>>>>>> ../../../../bin/libvtkHybrid.a ../../../../bin/libvtkParallel.a
>>>>>>>> ../../../../bin/libVPIC.a ../../../../bin/libCosmo.a
>>>>>>>> /usr/local/tools/mvapich-gnu/lib/shared/libmpich.so
>>>>>>>> ../../../../bin/libvtkexoIIc.a ../../../../bin/libvtkRenderingCS.a
>>>>>>>> ../../../../bin/libvtkRendering.a ../../../../bin/libvtkftgl.a
>>>>>>>> /usr/global/tools/Kitware/Paraview/3.10/chaos_4_x86_64_ib/lib/libQtGui.so
>>>>>>>> /usr/global/tools/Kitware/Paraview/3.10/chaos_4_x86_64_ib/lib/libQtSql.so
>>>>>>>> /usr/global/tools/Kitware/Paraview/3.10/chaos_4_x86_64_ib/lib/libQtCore.so
>>>>>>>> -lGL ../../../../bin/libvtkfreetype.a -lXt -lSM -lICE -lX11 -lXext
>>>>>>>> ../../../../bin/libvtkGenericFilteringCS.a
>>>>>>>> ../../../../bin/libvtkGenericFiltering.a ../../../../bin/libvtkGraphicsCS.a
>>>>>>>> ../../../../bin/libvtkImagingCS.a ../../../../bin/libvtkIOCS.a
>>>>>>>> ../../../../bin/libvtkFilteringCS.a ../../../../bin/libvtkCommonCS.a
>>>>>>>> ../../../../bin/libvtkClientServer.a ../../../../bin/libvtkVisItDatabases.a
>>>>>>>> ../../../../bin/libvtkVisItAVTAlgorithms.a
>>>>>>>> ../../../../bin/libavtdatabase_par.a ../../../../bin/libavtpipeline_par.a
>>>>>>>> ../../../../bin/libavtdbatts.a ../../../../bin/libavtivp.a
>>>>>>>> ../../../../bin/libvisit_vtk.a ../../../../bin/libvtkGraphics.a
>>>>>>>> ../../../../bin/libvtkverdict.a ../../../../bin/libvtkImaging.a
>>>>>>>> ../../../../bin/liblightweight_visit_vtk.a ../../../../bin/libvtkIO.a
>>>>>>>> ../../../../bin/libvtkDICOMParser.a ../../../../bin/libvtkNetCDF_cxx.a
>>>>>>>> ../../../../bin/libvtkmetaio.a ../../../../bin/libvtksqlite.a
>>>>>>>> ../../../../bin/libvtkpng.a ../../../../bin/libvtktiff.a
>>>>>>>> ../../../../bin/libvtkzlib.a ../../../../bin/libvtkjpeg.a
>>>>>>>> ../../../../bin/libvtkexpat.a ../../../../bin/libvtkFiltering.a
>>>>>>>> ../../../../bin/libavtmath.a ../../../../bin/libvtkCommon.a
>>>>>>>> ../../../../bin/libvtksys.a -lm -lpthread -lz
>>>>>>>> /usr/gapps/visit/szip/2.1/linux-x86_64_gcc-4.1/lib/libsz.a -ldl
>>>>>>>> ../../../../bin/libvisitcommon.a ../../../../bin/libvtkNetCDF.a
>>>>>>>> /usr/gapps/visit/hdf5/1.8.4/linux-x86_64_gcc-4.1/lib/libhdf5.a
>>>>>>>> /usr/gapps/visit/silo/4.8/linux-x86_64_gcc-4.1/lib/libsiloh5.a
>>>>>>>> /usr/gapps/visit/cgns/3.0.8/linux-x86_64_gcc-4.1/lib/libcgns.a
>>>>>>>> /usr/gapps/visit/mili/1.10.0/linux-x86_64_gcc-4.1/lib/libmili.a
>>>>>>>> -Wl,-rpath,/usr/global/tools/Kitware/Paraview/3.10/chaos_4_x86_64_ib/lib:/usr/local/tools/mvapich-gnu/lib/shared
>>>>>>>> /usr/gapps/visit/hdf5/1.8.4/linux-x86_64_gcc-4.1/lib/libhdf5.a(H5Z.o):
>>>>>>>> In function `H5Z_init_interface':
>>>>>>>> H5Z.c:(.text+0x27d): undefined reference to `SZ_encoder_enabled'
>>>>>>>>
>>>>>>>> /usr/gapps/visit/hdf5/1.8.4/linux-x86_64_gcc-4.1/lib/libhdf5.a(H5Zszip.o):
>>>>>>>> In function `H5Z_filter_szip':
>>>>>>>> H5Zszip.c:(.text+0x121): undefined reference to
>>>>>>>> `SZ_BufftoBuffDecompress'
>>>>>>>> H5Zszip.c:(.text+0x1ce): undefined reference to `SZ_BufftoBuffCompress'
>>>>>>>>
>>>>>>>> /usr/gapps/visit/silo/4.8/linux-x86_64_gcc-4.1/lib/libsiloh5.a(silo_hdf5.o):
>>>>>>>> In function `db_hdf5_InqMeshName':
>>>>>>>> silo_hdf5.c:(.text+0x839e): undefined reference to `H5Topen1'
>>>>>>>>
>>>>>>>> /usr/gapps/visit/silo/4.8/linux-x86_64_gcc-4.1/lib/libsiloh5.a(silo_hdf5.o):
>>>>>>>> In function `db_hdf5_hdrwr':
>>>>>>>>
>>>>>>>> --
>>>>>>>> ✐Richard Cook
>>>>>>>> ✇ Lawrence Livermore National Laboratory
>>>>>>>> Bldg-453 Rm-4024, Mail Stop L-557
>>>>>>>> 7000 East Avenue,  Livermore, CA, 94550, USA
>>>>>>>> ☎ (office) (925) 423-9605
>>>>>>>> ☎ (fax) (925) 423-6961
>>>>>>>> ---
>>>>>>>> Information Management & Graphics Grp., Services & Development Div.,
>>>>>>>> Integrated Computing & Communications Dept.
>>>>>>>> (opinions expressed herein are mine and not those of LLNL)
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> _______________________________________________
>>>>>>>> Powered by www.kitware.com
>>>>>>>>
>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>
>>>>>>>> Please keep messages on-topic and check the ParaView Wiki at:
>>>>>>>> http://paraview.org/Wiki/ParaView
>>>>>>>>
>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>> http://www.paraview.org/mailman/listinfo/paraview
>>>>>>>
>>>>>>> --
>>>>>>> ✐Richard Cook
>>>>>>> ✇ Lawrence Livermore National Laboratory
>>>>>>> Bldg-453 Rm-4024, Mail Stop L-557
>>>>>>> 7000 East Avenue,  Livermore, CA, 94550, USA
>>>>>>> ☎ (office) (925) 423-9605
>>>>>>> ☎ (fax) (925) 423-6961
>>>>>>> ---
>>>>>>> Information Management & Graphics Grp., Services & Development Div.,
>>>>>>> Integrated Computing & Communications Dept.
>>>>>>> (opinions expressed herein are mine and not those of LLNL)
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> _______________________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>
>>>>>>> Please keep messages on-topic and check the ParaView Wiki at:
>>>>>>> http://paraview.org/Wiki/ParaView
>>>>>>>
>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>> http://www.paraview.org/mailman/listinfo/paraview
>>>>>>
>>>>>>
>>>>>> --
>>>>>> ✐Richard Cook
>>>>>> ✇ Lawrence Livermore National Laboratory
>>>>>> Bldg-453 Rm-4024, Mail Stop L-557
>>>>>> 7000 East Avenue,  Livermore, CA, 94550, USA
>>>>>> ☎ (office) (925) 423-9605
>>>>>> ☎ (fax) (925) 423-6961
>>>>>> ---
>>>>>> Information Management & Graphics Grp., Services & Development Div.,
>>>>>> Integrated Computing & Communications Dept.
>>>>>> (opinions expressed herein are mine and not those of LLNL)
>>>>>>
>>>>>>
>>>>>>
>>>>>> _______________________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Please keep messages on-topic and check the ParaView Wiki at:
>>>>>> http://paraview.org/Wiki/ParaView
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://www.paraview.org/mailman/listinfo/paraview
>>>>>>
>>>>>>
>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> Robert Maynard
>>>>
>>>> --
>>>> ✐Richard Cook
>>>> ✇ Lawrence Livermore National Laboratory
>>>> Bldg-453 Rm-4024, Mail Stop L-557
>>>> 7000 East Avenue,  Livermore, CA, 94550, USA
>>>> ☎ (office) (925) 423-9605
>>>> ☎ (fax) (925) 423-6961
>>>> ---
>>>> Information Management & Graphics Grp., Services & Development Div., Integrated Computing & Communications Dept.
>>>> (opinions expressed herein are mine and not those of LLNL)
>>>>
>>>>
>>>>
>>>>
>>>
>>>
>>>
>>> --
>>> Robert Maynard
>>
>> --
>> ✐Richard Cook
>> ✇ Lawrence Livermore National Laboratory
>> Bldg-453 Rm-4024, Mail Stop L-557
>> 7000 East Avenue,  Livermore, CA, 94550, USA
>> ☎ (office) (925) 423-9605
>> ☎ (fax) (925) 423-6961
>> ---
>> Information Management & Graphics Grp., Services & Development Div., Integrated Computing & Communications Dept.
>> (opinions expressed herein are mine and not those of LLNL)
>>
>>
>>
>
> --
> ✐Richard Cook
> ✇ Lawrence Livermore National Laboratory
> Bldg-453 Rm-4024, Mail Stop L-557
> 7000 East Avenue,  Livermore, CA, 94550, USA
> ☎ (office) (925) 423-9605
> ☎ (fax) (925) 423-6961
> ---
> Information Management & Graphics Grp., Services & Development Div., Integrated Computing & Communications Dept.
> (opinions expressed herein are mine and not those of LLNL)
>
>
>
> _______________________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at http://www.kitware.com/opensource/opensource.html
>
> Please keep messages on-topic and check the ParaView Wiki at: http://paraview.org/Wiki/ParaView
>
> Follow this link to subscribe/unsubscribe:
> http://www.paraview.org/mailman/listinfo/paraview
>