[ITK] Compile ITK 4.7.0 with System HDF5

[Matt McCormick]

Hi Mike,

Help in updating the HDF5 library would be welcome.  The process of
updating from upstream is currently bundensome, but if we use newly
added infrastructure to perform a git subtree merge [1], it will be
much easier to maintain in the future.

Thanks,
Matt

[1] http://itk.org/gitweb?p=ITK.git;a=blob;f=Utilities/Maintenance/UpdateThirdPartyFromUpstream.sh;h=4f009bb9423816358a90818a49d0efbba7b24c32;hb=HEAD

On Thu, Feb 19, 2015 at 1:19 PM, Michael Jackson
<mike.jackson at bluequartz.net> wrote:
> HDF5 1.8.14 generates those cmake files that are needed but the version
> included with ITK is only 1.8.12 which did not have all of the newer cmake
> improvements in 1.8.14. The issue is that I had to set all of the HDF5
> related variables which even for someone who has lots of CMake experience
> can be an issue. The biggest problem I had was that even though I would set
> HDF5_DIR to one directory, ITK seemed to simply ignore those settings (made
> through theCMake-GUI app) and use "something else". I just have no idea
> where it came up with the paths that ITK decided to use. After lots of
> changing things and lots of iterations I was finally able to convince ITK to
> compile against the System HDF5. One of the issues was that once I got paths
> set and sticking from configure to configure I still had to manually fill
> out:
>
> HDF5_C_LIBRARY =
> debug;C:/DREAM3D_SDK/hdf5-1.8.14/lib/hdf5_D.lib;optimized;C:/DREAM3D_SDK/hdf5-1.8.14/lib/hdf5.lib
>
> as it was only picking up the Debug libraries. And since I'm on Visual
> Studio linking a release build of something against a Debug build of
> something is bad news.
>
> How hard is it going to be to update the ITK build system with the newer
> version of HDF5? Can it try the "new" way to find HDF5 with Find_Package()
> and a fall back to previous behavior if not found? The big issue for us is
> that our project already uses HDF5 and we are trying to bring in ITK for
> image processing. But the configuration of ITK is stopping us in our tracks.
> After fighting my way through this all yesterday afternoon I finally got it
> to work. Now I just need to relay these convoluted directions to the rest of
> my developers.
>
> Thanks for any suggestions
> Mike Jackson
> DREAM3D.io
>
> Matt McCormick
> Wednesday, February 18, 2015 9:21 PM
> Hi Mike,
>
> More guidance may be required when configuring against a system HDF5.
> HDF5 currently uses CMake as a secondary build system configuration,
> and some of its configurations could be improved.
>
> Setting HDF5_DIR on the first configure may help. Also, helping
> upstream improve their CMake configuration is a good idea :-). CMake
> has every improving guidance on cmake packages [1].
>
> Thanks,
> Matt
>
> [1] http://www.cmake.org/cmake/help/v3.2/manual/cmake-packages.7.html
>
> On Wed, Feb 18, 2015 at 6:34 PM, Michael Jackson
> Michael Jackson
> Wednesday, February 18, 2015 6:34 PM
> I have recently built HDF5 version 1.8.14 on my Windows 8.1 machine using
> Visual Studio 2013 compilers. Now when I configure ITK 4.7.1 to build using
> the "System HDF5" it picks up the installation of HDF5-1.8.14 in the
> C:/Users/mjackson/Workspace/hdf5-1.8.14 instead of the actual installation
> location of C:/DREAM3D_SDK/hdf5-1.8.14
>
> Then when I attempt to actually compile ITK I get a compile error that says
> it can not find include file "H5Cpp.h".
>
> So I rerun CMake and set the HDF5_DIR to
> C:/DREAM3D_SDK/hdf5-1.8.14/cmake/hdf5 and configure.
>
> I have also noticed that I have to manually set the HDF5_LIBRARIES to
> include both the debug and release versions of the libraries.
>
> I have never had to manually enter all this kind of information before with
> CMake projects. I am wondering if I just missing something simple with HDF5?
>
> Thanks
> _________________________________________________________
> Mike Jackson                  mike.jackson at bluequartz.net
> BlueQuartz Software                    www.bluequartz.net
> Principal Software Engineer                  Dayton, Ohio
>
>
> --
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