[MOAB-dev] Using MOAB linked to Nek5000

[Mohsen Behzad]

Thanks for your replies.
Vijay: As you recommended I have added explicitly hdf5-ldflags and  
every thing went well. However, I have got a couple of errors during  
"make check" regarding imesh as follows, which I think are not  
important at this stage.

make[4]: *** [ScdMeshF90] Error 1
make[4]: Leaving directory `/home/a/ashgriz/mbehzad/nek5_svn/ 
moab-4.6.2/itaps/imesh'
make[3]: *** [check-am] Error 2
make[3]: Leaving directory `/home/a/ashgriz/mbehzad/nek5_svn/ 
moab-4.6.2/itaps/imesh'
make[2]: *** [check] Error 2
make[2]: Leaving directory `/home/a/ashgriz/mbehzad/nek5_svn/ 
moab-4.6.2/itaps/imesh'
make[1]: *** [check-recursive] Error 1
make[1]: Leaving directory `/home/a/ashgriz/mbehzad/nek5_svn/ 
moab-4.6.2/itaps'
make: *** [check-recursive] Error 1

tim: You mentioned that the code should check for the parallel  
support of HDF5. I couldn't find such thing in the log file, thought,  
the HDF5 that is linked to MOAB is a parallel one. I uploaded the log  
file for you.


Thanks
Mohsen

On 3-Feb-14, at 2:20 PM, Vijay S. Mahadevan wrote:

> Mohsen,
>
> Please attach the config.log file so that we can find out the exact  
> cause of errors. On first look the configure options do look right  
> but it is possible that you may need to provide the library list  
> explicitly with hdf5-ldflags. But we cant suggest any other helpful  
> pointers at the moment without more information on why the  
> configuration failed.
>
> Vijay
>
> Dear MOAB team,
>
> I am writing to let you know that I intend to use MOAB with  
> "Nek5000" for my simulations which will be performed on the SciNet  
> cluster (http://wiki.scinethpc.ca/wiki/) in collaboration with the  
> University of Toronto, in which I am a post-doc fellow.
> Right now, I tried to build MOAB with previously built packages on  
> this system including "hdf5" (v. 1.8.7 compiled with openmpi) and  
> "netcdf" (parallel version: 1.2.0 compiled with openmpi). As it is  
> stated both of these packages were compiled with "openmpi" (v.  
> 1.4.4 compiled with intel v. 12.1) and therefore there should be no  
> issue of compilers compatibility. However, when I attempted to  
> build MOAB on this system with the following configuration options  
> and flags:
>
> ./configure FC=mpif90 F77=mpif77 CC=mpicc CXX=mpicxx \
> --prefix=`pwd` \
> --with-mpi=${SCINET_MPI_BASE} \
> --with-netcdf=${SCINET_PNETCDF_BASE} \
> --with-hdf5=${SCINET_HDF5_BASE} \
> --with-zlib="/scinet/gpc/Libraries/HDF5-1.8.7/zlib-intel/" \			
> --with-szip=${SCINET_SZIP_BASE} \							
> --enable-mbzoltan \
> --with-zoltan="/home/a/ashgriz/mbehzad/nek5_svn/Zoltan_v3.8/ 
> BUILD_DIR/"
>
> I have encountered an error in the configuration as:
> "configure:  error: HDF5 library not found or not usable."
> It should be noted that "zlib" and "szip" libraries were compiled  
> with intel too.
>
> I am wondering if you can help me on this issue.
>
> Regards,
>
> Mohsen Behzad, Ph.D.
> Department of Civil Eng.
> University of Toronto
> Room 117, 170 College st. M5S 3E3
> Toronto, Ontario, Canada
> m.behzad.jazi at mail.utoronto.ca
> http://mussl.mie.utoronto.ca/
>

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