I uninstalled HDF5 and it builds.
Thanks for the help.
Michael.
--
On 12/10/12 9:02 AM, Pat Marion wrote:
I think this is exactly the same problem that I've seen on all mac
platforms where HDF5 is installed from macports. You can either
uninstall hdf5 from macports, or you need to feed even more detailed
information to paraview. You can edit the CMakeCache.txt file in the
paraview build directory and put this:
VTK_USE_SYSTEM_HDF5:BOOL=ON
HDF5_INCLUDE_DIR=/opt/local/include
HDF5_INCLUDE_DIRS=/opt/local/include
HDF5_LIBRARIES=/opt/local/lib/libhdf5.dylib;/opt/local/lib/libhdf5_cpp.dylib
Mike, I think that the problem is that with VTK_USE_SYSTEM_HDF5=OFF,
vtk will build its own hdf5, but some conflicting hdf5 headers from
the system install under /opt/local/include sneak in, and cause link
errors.
Pat
On Thu, Oct 11, 2012 at 9:00 PM, Michael Jackson
<mike.jack...@bluequartz.net <mailto:mike.jack...@bluequartz.net>> wrote:
do a "make VERBOSE=1" and you can see exactly what the compiler is
being sent as far as -I include directories. I would say that
something is missing either in your HDF5 installation, or an HDF5
include path is not being found.
Doesn't VTK come with HDF5 at this point? Why not just let VTK
build its own.
___________________________________________________________
Mike Jackson Principal Software Engineer
BlueQuartz Software Dayton, Ohio
mike.jack...@bluequartz.net <mailto:mike.jack...@bluequartz.net>
www.bluequartz.net <http://www.bluequartz.net>
On Oct 11, 2012, at 7:50 PM, Brickle Macho wrote:
> Thanks to both for your quick response.
>
> From a clean/new build directory I tried your suggestion of
-DVTK_USE_SYSTEM_HDF5=ON I received a different error (fragment
below), which looks like it not finding some HDF5 headers.
>
> I will keep investigating. Obviously something strange about my
setup or use of Macports.
>
> Thanks again.
>
> Michael.
>
>
> ------------ new error
> Linking CXX executable ../../../../bin/ChartsCxxTests
> [ 34%] Built target ChartsCxxTests
> Scanning dependencies of target Xdmf
> [ 34%] Building CXX object
Utilities/Xdmf2/libsrc/CMakeFiles/Xdmf.dir/XdmfArray.cxx.o
> In file included from
/Users/michael/PhD/ExistingSoftware/ParaView-3.14.1-Source/Utilities/Xdmf2/libsrc/XdmfDataDesc.h:29,
> from
/Users/michael/PhD/ExistingSoftware/ParaView-3.14.1-Source/Utilities/Xdmf2/libsrc/XdmfArray.h:28,
> from
/Users/michael/PhD/ExistingSoftware/ParaView-3.14.1-Source/Utilities/Xdmf2/libsrc/XdmfArray.cxx:25:
>
/Users/michael/PhD/ExistingSoftware/ParaView-3.14.1-Source/Utilities/Xdmf2/libsrc/XdmfHDFSupport.h:30:22:
error: H5public.h: No such file or directory
>
/Users/michael/PhD/ExistingSoftware/ParaView-3.14.1-Source/Utilities/Xdmf2/libsrc/XdmfHDFSupport.h:36:18:
error: hdf5.h: No such file or directory
>
>
> On 12/10/12 4:03 AM, Pat Marion wrote:
>> Oops, I meant to say you should set VTK_USE_SYSTEM_HDF5 to ON.
>>
>> Pat
>>
>> On Thu, Oct 11, 2012 at 4:02 PM, Pat Marion
<pat.mar...@kitware.com <mailto:pat.mar...@kitware.com>> wrote:
>> It looks the compiler included system HDF5 headers even though
VTK_USE_SYSTEM_HDF5 is disabled. Then, at link time it doesn't
link the system HDF5 libraries because VTK_USE_SYSTEM_HDF5 if off.
You could try running cmake in the build dir and setting
VTK_USE_SYSTEM_HDF5 to OFF.
>>
>> I think this might be caused by a tricky a bug in VTK's cmake
scripts. I guess CMake would need to add -IVTK/Utilities/vtkhdf5
before -I/opt/local/include when system hdf5 is off.
>>
>> Pat
>>
>>
>> On Thu, Oct 11, 2012 at 3:46 PM, Brickle Macho
<bricklema...@gmail.com <mailto:bricklema...@gmail.com>> wrote:
>> Hi,
>>
>> I am trying to build ParaView on my MacBook and I am getting a
list of undefined symbols. Below is the first of about 35+
similar errors. For info all of the required supporting packages
were installed by Macports. I downloaded ParaView-3.14.1-Source
from the website and created a separate build directory. I
received a that I was running Qt 4.8.3 whereas the officially
supported version is Qt 4.6.
>>
>> In case it is related, I had an earlier problem where during
compiling the generated makefile was expecting some Qt file under
files in /opt/local/lib/Resources/... whereas they were in
/opt/local/Library/Frameworks/QtGui.framework/Versions/4/Resources/...
I resolved this by creating a symbolic link in /opt/local/lib
>>
>> Not sure where to start to solve the problem. Any help appreciated.
>>
>> Regards,
>>
>> Michael.
>> --
>>
>> ------- Linking problem below ---------------
>>
>> [ 75%] Built target vtkPVVTKExtensionsCS
>> Linking CXX executable
../../../bin/ParaViewCoreVTKExtensionsPrintSelf
>> Undefined symbols for architecture x86_64:
>> "_H5check_version", referenced from:
>> vtkEnzoReaderInternal::GetAttributeNames() in
libvtkPVVTKExtensions.a(vtkEnzoReader.cxx.o)
>> vtkEnzoReader::LoadAttribute(char const*, int)in
libvtkPVVTKExtensions.a(vtkEnzoReader.cxx.o)
>> vtkEnzoReader::GetParticles(int, vtkPolyData*, int,
int)in libvtkPVVTKExtensions.a(vtkEnzoReader.cxx.o)
>> vtkFlashReaderInternal::ReadMetaData() in
libvtkPVVTKExtensions.a(vtkFlashReader.cxx.o)
>> vtkFlashReaderInternal::GetTime() in
libvtkPVVTKExtensions.a(vtkFlashReader.cxx.o)
>> vtkFlashReaderInternal::GetCycle() in
libvtkPVVTKExtensions.a(vtkFlashReader.cxx.o)
>> (maybe you meant: _vtk__H5check_version)
>> _______________________________________________
>> Powered by www.kitware.com <http://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
>>
>>
>
> _______________________________________________
> Powered by www.kitware.com <http://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
_______________________________________________
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
