[R-SIG-Mac] building R from source

[Simon Urbanek]

On Feb 12, 2007, at 8:57 PM, Rafael Irizarry wrote:

> Stefano, This worked. Here is exactly what I did:
>
> 1) Upgraded Xcode tools to 2.4.1 from
> http://developer.apple.com/tools/download/
>
> 2) Installed the R 2.4.1 binaries from CRAN (i downloaded the dmg) and
> followed the default install.
>
> 3) I installed gfortan by downloading this
> http://prdownloads.sourceforge.net/hpc/gfortran-intel-bin.tar.gz? 
> download
> and typing this:
> sudo tar -xvzf gfortran-intel-bin.tar.gz -C /
> as described here:
> http://hpc.sourceforge.net/.
>
> 4) Downloaded the R 2.4.1 tar.gz file, untared, made a dir to store  
> the
> files, and used this configure and make:
>
> ./configure --prefix=/Users/ririzarr/src/R-2.4.1 --with-blas='- 
> framework
> vecLib' CC=/usr/local/gcc4.0/bin/gcc F77=/usr/local/bin/gfortran
>
> make CPPFLAGS=-DNEED_EXTERN_PC

For the record: ^^^-- this CPPFLAGS setting is needed *only* for the  
compilation of GNU readline, not for R.

>
> R now works and so does ssh and everything else.
>

As of your broken setup before - I do not recommend installing gcc  
from the HPC page, pick the gfortran compiler *only*. Even it has its  
issues, but at least it should not affect other (non-fortran) software.

BTW: as of broken system debugging: try setting  
DYLD_PRINT_LIBRARIES=1 before you start programs to see if they pick  
up libraries from wrong places. Also make sure DYLD_LIBRARY_PATH is  
not set, it causes a lot of headaches as it works in slightly  
unexpected (albeit well documented) ways.

Cheers,
Simon

>
>
> stefano iacus wrote:
>> My latest try is to use apple gcc which comes with latest Developer
>> Tools and fortran from hpc.sourceforge.net
>>
>> stefano
>>
>> On 11/feb/07, at 19:09, Duncan Murdoch wrote:
>>
>>> On 2/11/2007 12:02 PM, Rafael Irizarry wrote:
>>>> Hi!
>>>>
>>>> I need to build R from source on my intel macbook pro. i am  
>>>> wondering if
>>>> there is a consensus on what gcc and fortan to use.
>>>> Ive read the FAQ and various posts but there does not seem to be a
>>>> specific rec.
>>>>
>>>> I am looking for a specific rec because sometime ago I successfully
>>>> installed R by using the gcc and gfortran described here
>>>> http://hpc.sourceforge.net/ but I think this caused problems later.
>>>> After the install, I had various weird issues that  other  
>>>> macbook pro
>>>> users i knew did not have. One of the problems was that ssh seg  
>>>> faulted
>>>> after the 10.4.8. upgrade. The only difference I could find  
>>>> between me
>>>> and others was the aforementioned install. After two days of  
>>>> trying to
>>>> fix the seg fault I gave up and re-installed the operating  
>>>> system. ssh
>>>> is working again after reproducing everything i did before  
>>>> except for
>>>> the gcc/gfortran install.
>>>>
>>>> Any recs will be greatly appreciated.
>>>
>>> This page
>>>
>>> http://r.research.att.com/
>>>
>>> gives detailed recommendations.  They worked for me last year.
>>>
>>> Duncan Murdoch
>>>
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>>> R-SIG-Mac at stat.math.ethz.ch
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>
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