Anuga-user Digest, Vol 72, Issue 6

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Today's Topics:

1. Re: Anuga-user Digest, Vol 72, Issue 5 (Stephen Roberts)


----------------------------------------------------------------------

Message: 1
Date: Sat, 29 Nov 2014 10:24:25 +1100
From: Stephen Roberts <stephen...@anu.edu.au>
Subject: Re: [Anuga-user] Anuga-user Digest, Vol 72, Issue 5
To: anuga-...@googlegroups.com, anuga...@lists.sourceforge.net
Message-ID: <54790429...@anu.edu.au>
Content-Type: text/plain; charset=UTF-8; format=flowed


Hi Jos,

Roberto Vidmar has sent me his code which replaces pypar with mpi4py.

As you observed, Roberto adds the mpi4py wrapper via parallel_abstraction.py

There are a few other places that needed changes, but mostly just
picking up pypar calls and changing them to the parallel_abstraction calls.

It should not take too long to include the changes, so if I get a free
day in the next week or so I will incorporate the changes.

If you are in a desperate hurry I can send you Roberto's code

Cheers
steve


On 28/11/2014 11:01 PM, anuga-use...@lists.sourceforge.net wrote:
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> Today's Topics:
>
> 1. Re: Anuga-user Digest, Vol 71, Issue 3 (Jos? Galaz)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Thu, 27 Nov 2014 09:26:18 -0300
> From: Jos? Galaz <jdg...@uc.cl>
> Subject: Re: [Anuga-user] Anuga-user Digest, Vol 71, Issue 3
> To: anuga...@lists.sourceforge.net
> Message-ID:
> <CALTyBRnZzWCmzgDQjBPwbPpm...@mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> Hi all,
> I googled and found on the mpi4py forum the discussion of the user who
> wrote the wrapper you told me, here is the link
> *https://groups.google.com/forum/#!topic/mpi4py/S0fG8YwFcGo
> <https://groups.google.com/forum/#!topic/mpi4py/S0fG8YwFcGo>*. I tried to
> contact him so maybe he could share his code with the anuga community, but
> didn't succeed. Also I have never programmed C++ or C, so I can hardly read
> the codes he posted there. I was wondering if you may have any better idea
> on this respect.
>
> On the other hand, I was reading some of the anuga_parallel codes, and
> found something interesting. In the
> anuga_core/source/anuga_parallel/parallel_abstraction.py file is a
> exception handle for when the system does not have pypar installed. Will it
> work if I just redefine the functions that there appear ( abort, finalize,
> barrier, etc), with the mpi4py analogues?, Which arguments would it be
> neccesary to ask for in each function then? I have some experience with
> mpi4py and MPI in Fortran, so I think I can give it a try.
>
>
> Thanks!
>
> Jos?
>
> 2014-10-18 9:18 GMT-03:00 <anuga-use...@lists.sourceforge.net>:
>
>> Send Anuga-user mailing list submissions to
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>> When replying, please edit your Subject line so it is more specific
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>>
>>
>> Today's Topics:
>>
>> 1. Re: Anuga-user Digest, Vol 71, Issue 2 (Stephen Roberts)
>>
>>
>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Sat, 18 Oct 2014 09:46:23 +1100
>> From: Stephen Roberts <stephen...@anu.edu.au>
>> Subject: Re: [Anuga-user] Anuga-user Digest, Vol 71, Issue 2
>> To: anuga...@lists.sourceforge.net
>> Message-ID: <54419C3F...@anu.edu.au>
>> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
>>
>> Hi Jos,
>>
>> I know of a user who wrote a wrapper around mpi4py to mimic pypar and so
>> was able to run anuga parallel using mpi4py.
>>
>> I will try to obtain his code.
>>
>> But it was not too difficult.
>>
>> The only tricky part was realising that pypar checks for contiguous data
>> (when sending numpy arrays) and mpi4py doesn't, so the wrapper needed to
>> check for that and copy to contiguous data before sending.
>>
>> Cheers
>> Steve
>>
>>
>>
>> On 17/10/2014 11:02 PM, anuga-use...@lists.sourceforge.net wrote:
>>> Send Anuga-user mailing list submissions to
>>> anuga...@lists.sourceforge.net
>>>
>>> To subscribe or unsubscribe via the World Wide Web, visit
>>> https://lists.sourceforge.net/lists/listinfo/anuga-user
>>> or, via email, send a message with subject or body 'help' to
>>> anuga-use...@lists.sourceforge.net
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>>> anuga-us...@lists.sourceforge.net
>>>
>>> When replying, please edit your Subject line so it is more specific
>>> than "Re: Contents of Anuga-user digest..."
>>>
>>>
>>> Today's Topics:
>>>
>>> 1. Anuga-Parallel not compatible with cluster configuration
>>> (Jos? Galaz)
>>> 2. Parallel anuga not compatible with cl?ster configuration
>>> (Jos? Galaz)
>>>
>>>
>>> ----------------------------------------------------------------------
>>>
>>> Message: 1
>>> Date: Thu, 16 Oct 2014 18:23:28 -0300
>>> From: Jos? Galaz <jdg...@uc.cl>
>>> Subject: [Anuga-user] Anuga-Parallel not compatible with cluster
>>> configuration
>>> To: anuga...@lists.sourceforge.net
>>> Message-ID:
>>> <CALTyBR=vmqvKEFAUgtM_39Wz6FpJwc2cno=
>> vTUvsJC...@mail.gmail.com>
>>> Content-Type: text/plain; charset="utf-8"
>>>
>>> Dear mailing-list,
>>>
>>> I am currently having some troubles trying to use AnuGA in a cluster
>>> installed at my university. The administrator of the cluster tells me
>> that
>>> pypar handles the memory in a different way than it is currently being
>> done
>>> here, and hence, it is not compatible.
>>>
>>> One solution they suggested was to run my program using mpi4py, but I
>>> assume that it is not an easy thing to do with AnuGA. Has anyone had
>> faced
>>> a problem like this before?
>>>
>>> I'm totally open to suggestions, and please, feel free to ask about any
>>> other detail you may consider important.
>>>
>>> Best regards,
>>>
>>> Jos?
>>> -------------- next part --------------
>>> An HTML attachment was scrubbed...
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>>> ------------------------------
>>>
>>> Message: 2
>>> Date: Thu, 16 Oct 2014 18:18:39 -0300
>>> From: Jos? Galaz <jdga...@gmail.com>
>>> Subject: [Anuga-user] Parallel anuga not compatible with cl?ster
>>> configuration
>>> To: anuga...@lists.sourceforge.net
>>> Message-ID:
>>> <CALTyBR=gxDB7-6Kemzp_+TwFHTLsoAgpe2Bot+=4+67xbzPy=
>> w...@mail.gmail.com>
>>> Content-Type: text/plain; charset="utf-8"
>>>
>>> Dear mailing-list,
>>>
>>> I am currently having some troubles trying to use AnuGA in a cluster
>>> installed at my university. The administrator of the cluster tells me
>> that
>>> pypar handles the memory in a different way than it is currently being
>> done
>>> here, and hence, it is not compatible.
>>>
>>> One solution they suggested was to run my program using mpi4py, but I
>>> assume that it is not an easy thing to do with AnuGA. Has anyone had
>> faced
>>> a problem like this before?
>>>
>>> I'm totally open to suggestions, and please, feel free to ask about any
>>> other detail you may consider important.
>>>
>>> Best regards,
>>>
>>> Jos?
>>> -------------- next part --------------
>>> An HTML attachment was scrubbed...
>>>
>>> ------------------------------
>>>
>>>
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>>> End of Anuga-user Digest, Vol 71, Issue 2
>>> *****************************************
>>>
>>
>> --
>> +--------------------------------------------------------------------+
>> | Steve Roberts | My Office: (61)(2) 6125 4445 |
>> | Department of Mathematics | Math Office: (61)(2) 6125 2908 |
>> | Mathematical Sciences Institute| Fax: (61)(2) 6125 4984 |
>> | John Dedman Building #27 | mailto:stephen...@anu.edu.au |
>> | Australian National University | http://www.maths.anu.edu.au/~steve|
>> | Canberra ACT 0200 AUSTRALIA | ANU CRICOS # 00120C |
>> +--------------------------------------------------------------------+
>>
>>
>>
>>
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>> End of Anuga-user Digest, Vol 71, Issue 3
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--
+--------------------------------------------------------------------+
| Steve Roberts | My Office: (61)(2) 6125 4445 |
| Department of Mathematics | Math Office: (61)(2) 6125 2908 |
| Mathematical Sciences Institute| Fax: (61)(2) 6125 4984 |
| John Dedman Building #27 | mailto:stephen...@anu.edu.au |
| Australian National University | http://www.maths.anu.edu.au/~steve|
| Canberra ACT 0200 AUSTRALIA | ANU CRICOS # 00120C |
+--------------------------------------------------------------------+




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