[IPython-dev] minimal mpi4py notebook example

Chris Kees cekees@gmail....
Tue Sep 20 23:24:02 CDT 2011


Hi Fernando,

Success! I ran your notebook example and turned it into a parallel
test problem from proteus.

I think %autopx is all one needs to make nice notebooks for parallel
PDE initial/boundary problems. Just bracket your SPMD parts of the
program with %autopx. I will try to get the visualization hooked to
the display protocol at some point in the next few weeks.  I've got a
lot to learn about debugging and passing information back and forth to
the engines, but this is a good start.

Thanks,
Chris

On Mon, Sep 19, 2011 at 9:22 PM, Fernando Perez <fperez.net@gmail.com> wrote:
> Hi Chris,
>
> responding on-list so this feedback benefits other users as well...
>
> On Mon, Sep 19, 2011 at 1:41 PM, Chris Kees <cekees@gmail.com> wrote:
>>
>> I think I can do it either way, but having the notebook be the rank-0 node is probably the most natural for me, since my experience is primarily with SIMD programming. Image files are composited and written to disk by the rank-0 process, so I think they would automatically show up in the notebook (or be easy to fit into the display protocol).   On the other hand, I can encapsulate the entire parallel program in a function call, so my guess is I can do it either way. I'm not sure it's useful, but below I've included the entire program  that needs to run either a) in a python interpreter that has already called MPI init or b) in one that was started with mpiexec.
>
> Well, after writing my email I realized that it's not so easy right
> now to have your notebook kernel be one of the mpi ones.  There's no
> fundamental problem with the architecture, it's just a bit of missing
> code: right now kernels are started by the notebook server process,
> which then opens up a web connection on one side that maps to that
> kernel on the other side.  We haven't added the ability to create a
> web notebook connected to an *existing kernel* based on its port
> information (like you can wire a qt console to an existing kernel).
> So the mpi processes could start a kernel all they want, there's no
> way right now to control that kernel via a notebook (though you could
> control it via a qtconsole, if you print/save the port data
> somewhere).
>
> If, with more experience, we find this to really be a necessary use
> case we can certainly implement things: all the architecture is
> designed so it could work, it's just a little bit of missing glue in
> places.
>
> But in the meantime, I've written up (attached) two notebooks for
> illustrating simple MPI use.  The first is really the kind of code
> you'd run normally in a terminal, but I put it in a notebook to show
> that it can be a way for your users to start things if they are a bit
> terminal-phobic.  They can use that notebook as a poor-man's terminal,
> and the 'busy' indicator will be on as long as the cluster is active.
> They can just stop it with the 'kernel interrupt' button, which
> effectively sends Ctrl-C.  The same goal can be obtained with a screen
> session into the server (more robust than a simple ssh login), but
> this makes it nicely sit in your open notebooks next to the real work.
>
> The 'real work' is in the 2nd notebook, which just illustrates some
> basic communication with the engines and uses %autopx with the
> convenience of whole-cell editing to send them a little bit of MPI
> code (taken from the mpi4py docs).
>
> Let me know if this helps, and if so, we can put it in the docs.
>
> Cheers,
>
> f
>


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