[FLASH-USERS] Flash not running in LaserSlab in parallel

[Scott Feister]

Just to chime in, if I recall correctly, the reason for needing parallel
HDF5 with laserslab physics is for the ParallelIO of laser rays, which I
believe you can turn off as well.

Scott

On Thu, Oct 8, 2020 at 1:44 PM David Blackman <drblackman at eng.ucsd.edu>
wrote:

> I've just had to learn how to compile it this morning as well. I don't
> know what system you're on, but you either need to link to a HDF5 library
> that has been compiled specifically for parallel operation (for me on the
> Stampede2 cluster I had to load phdf5 instead of hdf5), or compile the HDF5
> library with mpicc instead of gcc, or whatever compiler it is you use.
> There are specific instructions on the HDF5 website for compiling with
> MPI-I/O. https://support.hdfgroup.org/HDF5/PHDF5/
>
> Good luck!
> On 08/10/2020 05:05, Gabriel Perez Callejo wrote:
>
> Hello,
>
> I am new to Flash (I have just recently installed it), and I am having
> some problems when running the LaserSlab example case in parallel.
>
> I have installed openmpi-4.0.5, hypre-2.12.0, hdf5-1.10.7, and FLASH4.6.2.
> When I run the Sedov example using just
>
> *./setup -auto Sedov*
>
> *mpirun -np [number of cores] flash4*
>
> It runs perfectly. However, when I do the same with the LaserSlab example:
>
> *./setup -auto LaserSlab -2d +cylindrical +hdf5typeio -nxb=16 -nyb=16
> species=cham,targ +mtmmmt +laser +uhd3t +mgd mgd_meshgroups=6
> -parfile=example.par*
>
> *mpirun -np [number of cores] flash4*
>
> The code starts running, but freezes after *'Initial dt verified'*.
>
> Strangely enough, when the same setup command is run for LaserSlab, but
> instead of running in parallel, FLASH is called to operate in serial mode
> (./flash4), the code works without any problems (it just takes a much
> longer time, obviously).
>
> From what I have gathered, this seems to be a problem with the hdf5 I/O,
> but I have been unable to solve it, and I don't know what might be
> happening. Any thoughts about how to solve this?
>
> Thanks everyone,
>
> Gabriel Perez
>
>
>
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