[FLASH-USERS] first model: hdf5 error

[Mark Richardson]

Hi Peter,

  it might be because you haven't flagged HDF5 to use the version 1.6
setup. In my Makefile.h I add DH5_USE_16_API to the following definitions:
     F90FLAGS
     CFLAGS_HDF5

Perhaps that will solve your problem,
   -Mark

On 10 October 2017 at 10:33, Peter Woitke <pw31 at st-andrews.ac.uk> wrote:

> Hi there,
>
> I just downloaded and compiled mpich, hdf5 and flash, and I am getting
> run-time error ...
>
> HDF5-DIAG: Error detected in HDF5 (1.10.1) MPI-process 0:
>   #000: H5Ddeprec.c line 128 in H5Dcreate1(): not a location ID
>     major: Invalid arguments to routine
>     minor: Inappropriate type
>   #001: H5Gloc.c line 251 in H5G_loc(): invalid object ID
>     major: Invalid arguments to routine
>     minor: Bad value
> flash4: io_h5create_dataset.c:57: io_h5create_dataset: Assertion `dataset
>
>> = 0'
>>
>
> I have tested my mpich and hdf5 installations and they have passed all
> tests. I am listing my installation commands below. Maybe "enable-parallel"
> is not a good idea? My runSedov directory has
> ugo+rw permissions.
>
> I read in another FLASH-USER entry that one should try
>
> ./setup -auto Sedov +ug
>>
>
> This results in another run-time error ...
>
> [Driver_init] Must set runtime parameters iProcs, jProcs, kProcs, and
> meshCopyCount so that iProcs*jProcs*kProcs*meshCopyCount equals number of
> processors
> Calling MPI_Abort() for immediate shutdown!
>
> Thank you for your help,
>
>   Peter Woitke
>
>
> ----------------------------------------------------------
>
>> cd ~/software/hdf5-1.10.1
>> setenv CC  mpicc
>> setenv CXX mpicxx
>> setenv FC  mpif90
>> ./configure --help
>> ./configure --prefix=/home/star/pw31/software/hdf5
>>
>               --enable-fortran --enable-parallel
>
>> make
>> make check
>> make install
>> make check-install
>>
> add /home/star/pw31/software/hdf5/lib to LD_LIBRARY_PATH
> ----------------------------------------------------------
>
>> cd ~/flash4.4/sites
>> mkdir prodimo
>> cp Prototypes/Linux/Makefile.h.intel prodimo/Makefile.h
>> cd prodimo
>> emacs Makefile.h ...
>> cd ~/flash4.4
>> ./setup -auto Sedov cd object
>> make
>>
> SUCCESS
>
>> mkdir ../runSedov
>> cd ../runSedov
>> cp ../source/Simulation/SimulationMain/SedovChamber/flash.par .
>> mpirun -np 7 ../object/flash4
>>
> ----------------------------------------------------------
>
>
>
> Dr. Peter Woitke
> St Andrews University
> School of Physics & Astronomy
> top floor, room 306
> North Haugh
> KY16 9SS
> St Andrews, UK
> Tel: (+44) 1334 46 1681
> Fax: (+44) 1334 46 3104
>
>


-- 

Mark Richardson
MAT Postdoctoral Fellow
Department of Astrophysics
American Museum of Natural History
Mark.Richardson.Work at gmail.com
My Website <https://sites.google.com/site/marklarichardson/>
212 496 3432
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