[Users] HDF5 error: header file can't be opened/seen?
dumsani
g14n8326 at campus.ru.ac.za
Wed Aug 19 10:54:51 CDT 2015
Hi Everyone,
I'am trying to build (compile) a simulation using some private thorns and
the Einstein Toolkit (ET_2014_05). The build goes through successfully on
my local machine (a laptop running on Gnu/Linux mint 17.1, using GCC
compilers).
However, when compiling the same code on a remote cluster (running on
Gnu/Linux RedHat plus Intel compilers) the compiling persistently fails with
the error:
cactus/arrangements/EinsteinAnalysis/AHFinderDirect/src/patch/patch_system.cc(87):
catastrophic error: cannot open source file "hdf5.h"
# include <hdf5.h>
Searching on Google, there seems to have been aticket
(https://trac.einsteintoolkit.org/ticket/911, or
http://lists.einsteintoolkit.org/pipermail/users/2012-July/002333.html)
on this
issue and it was resolved. I tried the work-around suggested by Roland on
the mailing list about modifying the configuration.ccl file in the
concerned thorn.
But this didn't work.
The ticket connected with this error points to modifications in
cactus/lib/sbin/ConfigurationParser.pl file. On the web-page of this
ticket/patches,
I can see some highlighted sections -- green and red -- and some that
are not.
But I'm not sure what the difference between them is, especially in terms
of what to remove and/or add onto my copy of the file in order to remove
the
error. (I have attached a copy of my ConfigurationParser.pl file)
Naively, I also suspect the issue could be that the HDF5 library on this
cluster
was compiled without support for C++. (..because the source file that
raises the
error is a C++ file which conditionally requests some HDF5
functionality.) But I
tested this particular point by pointing the simulation to my own copy
of HDF5
which I compiled with C++ support within the cluster. Yet the error
still comes
up and stops the compilation.
I'd appreciate any ideas to help me past this error.
Regards,
Dumsani
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