[Users] Visit & CarpetHDF5 mismatch?

[Bruno Giacomazzo]

Bernard,

On Apr 11, 2012, at 11:10 AM, Kelly, Bernard J. (GSFC-660.0)[UNIVERSITY OF MARYLAND BALTIMORE COUNTY] wrote:

> Which reminds me: can frequent Visit/CarpetHDF5 users confirm for me where
> they get (a) Visit, and (b) CarpetHDF5? For me the answers are:
> 
> (a) the "Mac OS X - Intel 64 bit" binary from here:
> https://wci.llnl.gov/codes/visit/executables.html

	I also use the 64 bit binary (version 2.3.2 in my case).

> (b) the cactuscode VizTools trunk via svn:  svn co
> https://svn.cactuscode.org/VizTools/CarpetHDF5/trunk/ CarpetHDF5

	yes, this is the correct repository. I didn't need to update the path in my case. I just followed the standard installation instructions and it worked without problems.

Cheers,
Bruno

> The instructions in the latter's README.txt seem a bit out of date, which
> made me suspicious. The lines about "updating the paths to the HDF5
> library", for instance:
> 
> install_name_tool -change '@executable_path/../lib/libhdf5.dylib'
> '/usr/local/lib/libhdf5.1.dylib'
> ~/.visit/darwin-i386/plugins/databases/libEvisitCarpetHDF5Database_ser.dyli
> b
> 
> Now my 64-bit installation generates three subdirectories in ~/.visit:
> "2.4.2", "darwin-i386", and "darwin-x86_64". Of these, only "2.4.2" had
> any content in the "plugins/databases/" subdirectory, and these dylibs
> were *similar but not identical* in name to what's mentioned in the README
> (e.g.,  libECarpetHDF5Database_ser.dylib rather than
> libEvisitCarpetHDF5Database_ser.dylib).
> 
> So ... should I be using a different version of Visit (older, 32-bit,
> etc.)?
> 
> Bernard
> 
> On 4/10/12 4:24 PM, "Ian Hinder" <ian.hinder at aei.mpg.de> wrote:
> 
>> 
>> On 10 Apr 2012, at 22:21, Kelly, Bernard J. (GSFC-660.0)[UNIVERSITY OF
>> MARYLAND BALTIMORE COUNTY] wrote:
>> 
>>> Hi all. I'd like to visualise some 3D data produced by an initial-data
>>> run
>>> of the EinsteinToolkit (Maxwell).
>>> 
>>> 
>>> I'm outputting using CarpetIOHDF5; I have an output file
>>> "hahndol::hahndol_coulomb.h5", and decided to use Visit, as recommended
>>> by
>>> cactuscode, etc.
>>> 
>>> I grabbed the CarpetHDF5 plugin code from svn, and installed as per
>>> instructions (pointing at the ETK-installed HDF5 in my
>>> Cactus/configs/<config-name>/scratch/external directory).
>>> 
>>> Starting Visit (2.4.2) , and trying to load a .h5 file yields the
>>> following error:
>>> 
>>> 
>>> -------------------------------------------------------------------------
>>> --
>>> ----
>>> The metadata server running on host localhost has exited abnormally.
>>> VisIt
>>> is trying to restart it.
>>> Shortly thereafter, the following occured...
>>> VisIt was unable to open
>>> 
>>> "/Users/bjkelly1/Projects/CODES/Cactus/exe/BL_IJS_test/hahndol::hahndol_c
>>> ou
>>> lomb.h5".  Each attempt to open it caused VisIt's metadata server to
>>> crash.  This can occur when the file is corrupted, or when the
>>> underlying
>>> file format has changed and VisIt's readers have not been updated yet,
>>> or
>>> when the reader VisIt is using for your file format is not robust.
>>> Please
>>> check whether the file is corrupted and, if not, contact a VisIt
>>> developer.
>>> 
>>> -------------------------------------------------------------------------
>>> --
>>> ----
>>> 
>>> 
>>> I have no idea whether the file is corrupted, but wanted to know: is the
>>> CarpetHDF5 plugin up-to-date with the output of Maxwell's CarpetIOHDF5?
>>> 
>>> Any basic ideas where I might have gone wrong?
>> 
>> One problem can come from Visit trying to open too many files for the
>> maximum open file limit of your OS.  Mac OS, for example, has a very
>> small limit.  Try changing this with ulimit.  But ultimately, you should
>> try to find the actual error message.  I think there is an option for
>> Visit to output the errors to a file, but it's so long since I've used
>> Visit that I don't remember.  Probably someone else can fill that in...
>> 
>> -- 
>> Ian Hinder
>> http://numrel.aei.mpg.de/people/hinder
>> 
> 
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Dr. Bruno Giacomazzo
JILA - University of Colorado
440 UCB
Boulder, CO 80309
USA

Tel.  : +1 303-492-0389
Fax  : +1 303-492-5235
email : bruno.giacomazzo at jila.colorado.edu
web: http://www.brunogiacomazzo.org

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