B
en, I'm going to respond to this same email instead of splitting it up over
two threads.

Lots of information about the MPI installation is here:
https://www.xsede.org/web/guest/tacc-stampede#appdev-compiling-mpi,
assuming this is your machine. So, is it?

-Jonathan



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J.P. Olmsted

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On Thu, Sep 19, 2013 at 11:05 AM, Jonathan Olmsted
<jolmsted@princeton.edu>wrote:

> B
> en, let me just add that you should check to see if whatever version of
> whatever MPI implementation you are using is managed by
> http://modules.sourceforge.net/. That will be useful information when it
> comes time for files to be in your path. After looking at
> https://www.xsede.org/web/guest/tacc-stampede#overview, if that is the
> machine you are using, they are clearly using modules to some extent.
>
> -Jonathan
>
>
>
> -------------------------------------------------------------------------
> J.P. Olmsted
>
> 029 Corwin (Office)
> 130 Corwin Hall (Mail)
>
> Politics Department
> Princeton University
> Princeton, NJ 08544
>
>
> t: 609.258.6202
> f: 609.258.1110
> jolmsted@princeton.edu
> http://about.me/olmjo
> -------------------------------------------------------------------------
>
>
> On Thu, Sep 19, 2013 at 10:19 AM, Dirk Eddelbuettel <edd@debian.org>wrote:
>
>>
>> On 19 September 2013 at 08:40, Ben Weinstein wrote:
>> | Hi all,
>> |
>> | I'm trying to install Rmpi locally on NSF Xsede stampede cluster.
>>
>> Can you explain in plain English what a 'NSF Xsede stampede cluster' is?
>> Is
>> it Linux based? If so, what distro?  What compiler does it use?
>>
>> | I'm following the layout as given here:
>> | http://www.stats.uwo.ca/faculty/yu/Rmpi/
>> |
>> | However, i can't seem to find exactly where the mpi lib and include
>> | directories are stored.
>>
>> There are two things here.
>>
>> You need to understand first which MPI version you have (typically: Open
>> MPI,
>> or MPICH) and where it is stored. At this point I recommend a very simple
>> plain C program (no R) to just include MPI headers and library and get it
>> work, and run across more than one machine.  At this point we have MPI.
>>
>> Next is to get into to work with Rmpi.  In its configure script, a simple
>> shell script loop runs over a number of candidate locations. Yours are
>> seemingly not part of this; so you need to adjust this. It is not hard,
>> but
>> involves a few minutes with a new 'language' (ie autoconf).  We can help.
>> But try to get the first step sorted out first, please.
>>
>> | i've tried locate mpi.h, which returned hundreds of header files and
>> locate
>> | mpi/lib finds the python mpi files. Any suggestions for how to go about
>> | finding the directories i need? The admins have been extremely
>> unhelpful.
>>
>> If it works for Python you could learn from Python what it does during the
>> build process.
>>
>> Dirk
>>
>> |
>> | I've looked under /usr/lib64 and explored all obvious options, but it
>> may
>> | be named something i'm not familiar with.
>> |
>> | Thanks for your help
>> |
>> | Ben Weinstein
>> |
>> | --
>> | Ben Weinstein
>> | PhD Candidate
>> | Ecology and Evolution
>> | Stony Brook University
>> |
>> | http://benweinstein.weebly.com/
>> |
>> |       [[alternative HTML version deleted]]
>> |
>> | _______________________________________________
>> | R-sig-hpc mailing list
>> | R-sig-hpc@r-project.org
>> | https://stat.ethz.ch/mailman/listinfo/r-sig-hpc
>>
>> --
>> Dirk Eddelbuettel | edd@debian.org | http://dirk.eddelbuettel.com
>>
>> _______________________________________________
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>> R-sig-hpc@r-project.org
>> https://stat.ethz.ch/mailman/listinfo/r-sig-hpc
>>
>
>

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