[R-SIG-Mac] Rmpi package

[David Winsemius]

On Aug 19, 2013, at 2:15 AM, Rohmatul Fajriyah wrote:

> Dear Both,
> 
> OK.
> Try 
> install.packages("Rmpi") 

Michael should have said:

install.packages("Rmpi", type="source") 


> 
> I have done it previously (but I did not tell here), it did not work since it has no binary just a source.
> I have done sudo R CMD INSTALL Rmpi_0.6-4.tar at terminal too, and I got this message:
> ......
> checking for mpi.h... no
> configure: error: "Cannot find mpi.h header file"
> ERROR: configuration failed for package 'Rmpi',

That does indicate the need to solve the missing Mac MPI package.

> My mistake was I did not google it. Only search from r-sig-mac archives.
> 
> Now I am googling it and found some information (from R-sig-Debian and R-help archives ) that I need to give it a try.
> 
>> MPI isn't the easiest build in the world so I'd imagine it will fail, but this will at least give us a sense of how your environment is configured. 
>> 
>> Needless to say: if you haven't got the compilers and command line tools available from XCode (the ones used to build R) do that first 
>> 
> I think, I already installed the Xcode, following the instruction from here: (choose Rmpi for Mac OS X) 
> http://www.stats.uwo.ca/faculty/yu/Rmpi/
> Because the Mountain Lion’s default PATH is /usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin, then --I think-- I need to change the path if I want to install Homebrew. On the other hand my current R is at /usr/bin. Which made me not sure what should I do.


> 
>>  or you have no hope ;-)

> Let me try the information that I found from google and get back here if I still have a trouble.
> 
> Prof. Winsemius: My apologise for that ... 

Heh. Not a professor, just a humble country doctor.


> 
> Thank you very much.
> 
> With kind regards,
> Ema
> 
> 
> 
> From: Michael Weylandt <michael.weylandt at gmail.com>
> To: Rohmatul Fajriyah <rfajriyah at yahoo.com> 
> Cc: David Winsemius <dwinsemius at comcast.net>; "r-sig-mac at r-project.org" <r-sig-mac at r-project.org> 
> Sent: Monday, August 19, 2013 2:19 AM
> Subject: Re: [R-SIG-Mac] Rmpi package
> 
> As David noted, it's been de-CRAN'd for pushing some check times a bit far. 
> 
> This means you'll likely need to build it from source, which home brew won't help with (well, much beyond what 'regular' R does)
> 
> Try 
> 
> install.packages("Rmpi") 
> 
> to see what happens. MPI isn't the easiest build in the world so I'd imagine it will fail, but this will at least give us a sense of how your environment is configured. 
> 
> Needless to say: if you haven't got the compilers and command line tools available from XCode (the ones used to build R) do that first or you have no hope ;-)
> 
> Michael
> 
> On Aug 18, 2013, at 19:39, Rohmatul Fajriyah <rfajriyah at yahoo.com> wrote:
> 
>> 
>> (Thank you Michael Weylandt, for notifying me about this. Here my previous email.)
>> 
>> Dear Sir,
>> 
>> Thank you very much for your respond.
>> 
>>  > What does this have to do with R? (Or for that matter, the directions referenced?) Generally Simon advises against using brew, fink, or other Mac/NIX package installers. 
>> 
>> Really? I don't know about it. Therefore, I should not continue to do this ...? 
>> 
>> > Rmpi is not listed as available in CRAN at the moment, apparently because it took more than 30 minutes to unload:
>> > http://www.r-project.org/nosvn/R.check/r-release-macosx-x86_64/Rmpi-00check.html
>> 
>>  I checked it and it's still there, Sir. (unless I am mistaken ...)
>> 
>> > Certainly you need to do a better job of describing your OS, your system tools, which MPI you have installed or are intending to use, and what versions of R and Rmpi that you have.  
>> > Also explain why you are not using the standard parallel package.
>> 
>> I tried to install the package to broaden my knowledge in doing parallel computing. 
>>  (Yes, I have used some R parallel packages).
>> 
>> My computer is Mac OS X 10.8.4 and R 3.0.1 (64 bit).
>> I downloaded the Rmpi_0.6-4.tar already, but I did not install it yet, due to as I have explained in my previous email.
>>  
>> Sincerely,
>> Ema
>> 
>> From: Michael Weylandt <michael.weylandt at gmail.com>
>> To: Rohmatul Fajriyah <rfajriyah at yahoo.com> 
>> Cc: David Winsemius <dwinsemius at comcast.net>; "r-sig-mac at r-project.org" <r-sig-mac at r-project.org> 
>> Sent: Monday, August 19, 2013 12:52 AM
>> Subject: Re: [R-SIG-Mac] Rmpi package
>> 
>> Hi Ema,
>> 
>> Can you try resenting this -- the quoting seems to have gotten messed up. 
>> 
>> MW
>> 
>> 
>> 
>> 
> 
> 

David Winsemius
Alameda, CA, USA