OPENMPI failed to start

[luca.mi...@gmail.com]

Hi,

I am trying to run a simple fds file composed by two mesh (untitled.fds), using Ubunut 16.04. I decided to run parallel calculation using OPENMPI. I have installed it using this tutorial https://www.youtube.com/watch?v=QIMAu_o_5V8 , and I am trying to follow the Openmpi clause 3.1.2 of the FDS guide (version 6).

I have typed on the terminal of Ubuntu this line:

mpirun -np 2 fds_mpi_linux_64 untitled.fds

But the output is the following;

--------------------------------------------------------------------------
mpirun was unable to find the specified executable file, and therefore
did not launch the job.  This error was first reported for process
rank 0; it may have occurred for other processes as well.

NOTE: A common cause for this error is misspelling a mpirun command
      line parameter option (remember that mpirun interprets the first
      unrecognized command line token as the executable).

Node:      luca-HP-ENVY-15-Notebook-PC
Executable: fds_mpi_linux_64
--------------------------------------------------------------------------
2 total processes failed to start


So, Am I missing something? should I place somewhere the fds_mpi_linux_64 executable and where can I download it?


Thanks in advance (I am student-beginner)

Luca

[Salah Benkorichi]

I will take a look

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[Salah Benkorichi]

quick question,

are you running it with the bundle (i.e. the one you download from NIST page) or you compile fds yourself? (i.e. from Build/ directory).

[Glenn Forney]

Is fds_mpi_linux_64 in your path? 

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[Salah Benkorichi]

Glenn, we have fds_mpi_intel_linux_64. He's using fds_mpi_linux_64. Is there such compiled one on the web?

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[Salah Benkorichi]

The video you followed is not appropriate for that case to run it with fds. If you are using intel compiler, then you need to mention it explicitly during the configuration whereas the guy didn't do so. And fds needs to be compiled in case you prefer to use your own openmpi. Otherwise, there wont be compatibility (i.e. clearly report an error). If you dont want to compile it, then you might use the pre compiled version.

But, first answer my first question and then we see how to fix it.

[dr_jfloyd]

Are you trying to run one of the more recent releases of FDS?  We no longer have different MPI and OpenMP versions and there is only the one executable: fds

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[luca.mi...@gmail.com]

thank you for your help! I compile fds myself...

[Salah Benkorichi]

You cannot pass with fds compilation if your openmpi is not set properly. Answer this. Do you have intel compiler or not. 

On 1 May 2017 at 21:10, <luca.mi...@gmail.com> wrote:

thank you for your help! I compile fds myself...

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[Glenn Forney]

if you don't have it on your computer, go to the download page and install the linux version of fds and smokeview

https://pages.nist.gov/fds-smv/downloads.html

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[Salah Benkorichi]

To run fds , check out this thread to set up openmpi 

https://groups.google.com/forum/?utm_medium=email&utm_source=footer#!topic/fds-smv/XBVmxMSvrfs

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[luca.mi...@gmail.com]

Thank you...I will take a look

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[Salah Benkorichi]

Did you succeed in running fds with openmpi? 

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[luca.mi...@gmail.com]

Hi, thanks for all your help...

I was able to run my simulation in parallel, but  I used MPI. This is the procedure that I used

set OMP_NUM_THREADS=1

mpiexec -n 5 fds namefile.fds

The simulation time is satisfactory (in my very little experience). Can someone confirm that my procedure is correct? 

I also have several questions: 

1) Has someone suggestion about books or pubblications that I can study to understand difference between MPI and OpenMP? I still cannot understand if it is better to use MPI or OpenMP

2) If I use a cloud HPC (as sabalcore), is this procedure still correct?

Thank you in advance

[Randy McDermott]

Try to map each MESH in FDS to a PROCESS using MPI before you start increasing the number of OpenMP threads.

Take a couple of examples:

1. You have 5 meshes and also 5 available cores on your machine.  Then, as you have done, set OMP_NUM_THREADS=1, and mpiexec -n 5.

2. If you have 1 mesh and 5 cores available, then set OMP_NUM_THREADS=5 and run with a single MPI process.

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[luca.mi...@gmail.com]

Hi, first of all thank you!

I tried what you have suggested

You can find the results in the jpg file attached. I still cannot understand the difference between these two methods and which I should use.

If I use a cloud HPC, is this procedure still correct?

I have seen on this forum that someone uses the command mpirun, which is the difference between mpirun and mpiexec?

[Randy McDermott]

The first thing you need to understand is the difference between distribute memory parallel computing and shared memory parallel computing.

https://en.wikipedia.org/wiki/Distributed_memory

https://en.wikipedia.org/wiki/Shared_memory

Distributed memory uses MPI.

Shared memory uses OpenMP.

How you should run your job on a cloud HPC system (e.g. Sablecore, AWS) depends on that system.

Whether you use the command mpiexec or mpirun depends on the MPI library you are using.

https://www.open-mpi.org/doc/v2.0/man1/mpirun.1.php

https://www.mpich.org/static/docs/v3.1/www1/mpiexec.html

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[dr_jfloyd]

Linux uses mpirun, and Windows uses mpiexec  This is like rm vs erase; they do the same thing just different names on the different systems

[Salah Benkorichi]

You can read on the differences in profound way, just google it, a quick answer quoted from stackoverflow is as: 

OpenMP is a way to program on shared memory devices. This means that the parallelism occurs where every parallel thread has access to all of your data.

You can think of it as: parallelism can happen during execution of a specific for loop by splitting up the loop among the different threads.

MPI is a way to program on distributed memory devices. This means that the parallelism occurs where every parallel process is working in its own memory space in isolation from the others.

You can think of it as: every bit of code you've written is executed independently by every process. The parallelism occurs because you tell each process exactly which part of the global problem they should be working on based entirely on their process ID.

https://stackoverflow.com/questions/32464084/difference-between-mpi-and-openmp

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[luca.mi...@gmail.com]

Thank you so much to everybody for explainations. Now I think I Understood.

[Cian Davis]

As an aside, Linux generally uses mpiexec now too - the version distributed with FDS definitely does

On 19 June 2017 at 19:52, dr_jfloyd <drjf...@gmail.com> wrote:

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