[yt-users] Installation problems and support input formats

[Slaughter, Andrew E]

The ExodusII format is a well-supported open source format for finite
element data created by Sandia National Lab, it is similar to VTK in some
ways, but has one nice feature: the ability to store multiple timesteps in
single file, which can be a huge space saver for large finite element
meshes.

It seems like you support reading VTK files and the VTK library supports
the reading of ExodusII files so creating the ability to read Exodus
shouldn't be much trouble.


On Thu, Dec 11, 2014 at 8:58 AM, John ZuHone <jzuhone at gmail.com> wrote:

> Hi Andrew,
>
> Sorry for the confusion—we do actually support installing from the install
> script on Yosemite, but it is not listed—which is our fault!
>
> I just tried a standalone install of yt from the install script, but I
> could not reproduce your error—the installation of HDF5 passed. It appears
> that something in your DYLD_LIBRARY_PATH is interfering with the yt
> installation, which is still odd. Can you have a look at that environment
> variable (and at LD_LIBRARY_PATH, just in case)?
>
> You can also set the HDF5_DIR environment variable in the script to an
> existing HDF5 installation.
>
> I’m actually not familiar with ExodusII—I went to the sourceforge page for
> a quick look but was unable to find much documentation. I know we don’t
> support it as a format right now, but if it was something you wanted to do
> we could work with you on it. Could you describe a little bit the data
> format? Matt’s suggestions in his previous email could go a long way toward
> this.
>
> Best,
>
> John
>
> On Dec 11, 2014, at 10:04 AM, Slaughter, Andrew E <
> andrew.slaughter at inl.gov> wrote:
>
> I attempted to install yt using the install script, it failed with the
> error listed at the end of this message. This is mainly for your
> information, I am using OSX10.10, which was not listed in the installation
> preamble, so I am guessing it is not yet supported. I will attempt
> installing using another method.
>
> Secondly, does yt support the reading of ExodusII files (
> http://sourceforge.net/projects/exodusii/)? If not, what code could I
> look at for adding this support?
>
> Thanks,
> Andrew
>
> Installing HDF5
>
> ********************************************
>
>         FAILURE REPORT:
>
> ********************************************
>
>
> sed -e 's/-L/:/g' -e 's/ //g'`"                               \
>
>  ./H5make_libsettings > H5lib_settings.c  ||
> \
>
>     (test $HDF5_Make_Ignore && echo "*** Error ignored") ||          \
>
>     (rm -f H5lib_settings.c ; exit 1)
>
> dyld: Library not loaded: libz.so.1.2.8
>
>   Referenced from:
> /Users/slauae/Downloads/yt-x86_64/src/hdf5-1.8.11/src/./H5make_libsettings
>
>   Reason: image not found
>
> /bin/sh: line 1: 96045 Trace/BPT trap: 5
> LD_LIBRARY_PATH="$LD_LIBRARY_PATH`echo
> -L/Users/slauae/Downloads/yt-x86_64/lib/
> -L/Users/slauae/Downloads/yt-x86_64/lib64/
> -L/Users/slauae/Downloads/yt-x86_64/lib/
> -L/Users/slauae/Downloads/yt-x86_64/lib64/
> -L/Users/slauae/Downloads/yt-x86_64/lib/
> -L/Users/slauae/Downloads/yt-x86_64/lib64/
> -L/Users/slauae/Downloads/yt-x86_64/lib/
> -L/Users/slauae/Downloads/yt-x86_64/lib64/ |                   sed -e
> 's/-L/:/g' -e 's/ //g'`" ./H5make_libsettings > H5lib_settings.c
>
> make[1]: *** [H5lib_settings.c] Error 1
>
> make: *** [install-recursive] Error 1
>
>
> ********************************************
>
> ********************************************
>
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