[R-SIG-Mac] How to get a Fortran compiler compatible to Xcode?

[Marius Hofert]

Hi Kevin,

Thanks a lot for helping. That pushed me on the right track. I then
needed some more tools (Java/XQuartz) and could then install R from
source. Only make pdf; make info failed, saying that 'texi2any'
couldn't be found on the system. I couldn't find any hints online or
in the R administration manual on how to install/get it. I do have
texi2pdf, though. Do you know how to get texi2any?  (hope this is
still fine to be discussed in this thread, if not, I can open a new
one).

Thanks & cheers,
Marius



On Sun, May 10, 2015 at 2:45 PM, Kevin Ushey <kevinushey at gmail.com> wrote:
> Hi Marius,
>
> I've had success compiling (the latest versions of) R from source
> using Apple's command line tools (shipped with Xcode), alongside
> gfortran 4.8.2 installed from here (as hosted by Simon Urbanek):
>
>     http://r.research.att.com/libs/gfortran-4.8.2-darwin13.tar.bz2
>
> Alternatively, (and what I tend to do by default on OS X), you can get
> the latest release of `gfortran` using one of the custom Apple
> 'package managers', e.g. with homebrew (http://brew.sh/), you can use
>
>     brew install gcc
>
> which will get you an up-to-date copy of `gcc` (not really needed
> since you'll have Apple clang), but also `gfortran` (which is needed
> as it's no longer shipped with the Apple command line tools).
>
> After this, as long as `gfortran` is on your PATH (e.g. by symlinking
> the binary into /usr/local/bin), you should be good to go for building
> R from source -- it will then be able to automatically discover where
> the Fortran libraries live, and so on.
>
> Kevin
>
> On Sun, May 10, 2015 at 11:00 AM, peter dalgaard <pdalgd at gmail.com> wrote:
>> You do need to read this:
>>
>> http://cran.r-project.org/doc/manuals/r-release/R-admin.html
>>
>> People are not inclined to write significant amounts of the same information to the list...
>>
>> -Peter D
>>
>>
>>> On 10 May 2015, at 19:27 , Marius Hofert <marius.hofert at uwaterloo.ca> wrote:
>>>
>>> Dear Peter,
>>>
>>> Thanks for your quick help.
>>>
>>> I'm not so familiar with the technicalities (and try to learn): Where
>>> is the file 'config.site' located in your system? Is this supposed to
>>> be a file which provides settings for 'configure'?
>>>
>>> Thanks & cheers,
>>> Marius
>>>
>>> PS: Also thanks for the hint towards r.research... I'll look into that
>>> once everything else is running. I already have some things running,
>>> e.g., texinfo, not sure if the 'texinfo' you mentioned is a specific
>>> one (but I'll see then).
>>>
>>>
>>>
>>> On Sun, May 10, 2015 at 1:04 PM, peter dalgaard <pdalgd at gmail.com> wrote:
>>>>
>>>>> On 10 May 2015, at 17:13 , Marius Hofert <marius.hofert at uwaterloo.ca> wrote:
>>>>>
>>>>> Hi,
>>>>>
>>>>> I'm running Mac OS X Yosemite 10.10.3 on a MacBook Pro (Retina,
>>>>> 13", 2015). I would like to install R from source (various
>>>>> versions etc.) and thus installed Xcode (latest version:
>>>>> 6.3.1). How can I get a Fortran compiler which is compatible with Xcode 6.3.1?
>>>>>
>>>>> Here is what I tried:
>>>>> 1) I used to download and install gfortran-lion-5666-3.pkg from
>>>>> http://r.research.att.com/tools but I now obtain "... can't be
>>>>> installed on this disk. This package requires Xcode 4.1 with
>>>>> gcc-4.2 (build 5666.3)". It seems that my (newer) Xcode version
>>>>> is not recognized.
>>>>> 2) I then installed gfortran-4.2.3.dmg from CRAN -> Download R
>>>>> for (Mac) OS X -> tools. This worked fine, but then I ran into this issue:
>>>>> I wanted to install MPI and thus downloaded and unpacked
>>>>> openmpi-1.8.5.tar.gz from http://www.open-mpi.org/software/ompi/
>>>>> but ./configure leads to an error:
>>>>>
>>>>> ...
>>>>> checking if C and Fortran are link compatible... no
>>>>> **********************************************************************
>>>>> It appears that your Fortran compiler is unable to link against
>>>>> object files created by your C compiler.  This typically indicates
>>>>> one of a few possibilities:
>>>>>
>>>>> - A conflict between CFLAGS and FCFLAGS
>>>>> - A problem with your compiler installation(s)
>>>>> - Different default build options between compilers (e.g., C
>>>>>   building for 32 bit and Fortran building for 64 bit)
>>>>> - Incompatible compilers
>>>>>
>>>>> Such problems can usually be solved by picking compatible compilers
>>>>> and/or CFLAGS and FCFLAGS.  More information (including exactly what
>>>>> command was given to the compilers and what error resulted when the
>>>>> commands were executed) is available in the config.log file in this
>>>>> directory.
>>>>> **********************************************************************
>>>>> configure: error: C and Fortran compilers are not link compatible.
>>>>> Can not continue.
>>>>> sklar-2:openmpi-1.8.5 mhofert$
>>>>>
>>>>> I found this post
>>>>> (http://grokbase.com/t/r/r-sig-mac/14awnd0341/compiling-r-3-1-1-sources-under-os-x-yosemite)
>>>>> which seems to be related, but since there are no clear
>>>>> instructions/scripts given, I still don't have a solution.
>>>>>
>>>>> How can I get a suitable/compatible Fortran compiler?
>>>>>
>>>>
>>>> I think you already have one, you just need to set flags properly - the typical problem is that, with default settings, you get C compiled for 64 bits and Fortran for 32 bit.
>>>>
>>>> I have this:
>>>>
>>>> $ more config.site
>>>> r_arch=${r_arch:=x86_64}
>>>> CC="gcc -arch $r_arch"
>>>> CXX="g++ -arch $r_arch"
>>>> F77="gfortran -arch $r_arch"
>>>> FC="gfortran -arch $r_arch"
>>>> OBJC="gcc -arch $r_arch"
>>>> with_blas="-framework vecLib"
>>>> with_lapack=yes
>>>> CURL_CONFIG=/usr/bin/curl-config
>>>>
>>>> Notice also, that with the newer sources, you need to install some stuff from http://r.research.att.com/libs/ : pcre, xz, texinfo, plus maybe some more that I have forgotten.
>>>>
>>>>
>>>>
>>>>> Thanks & cheers,
>>>>> Marius
>>>>>
>>>>> _______________________________________________
>>>>> R-SIG-Mac mailing list
>>>>> R-SIG-Mac at r-project.org
>>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>>>
>>>> --
>>>> Peter Dalgaard, Professor,
>>>> Center for Statistics, Copenhagen Business School
>>>> Solbjerg Plads 3, 2000 Frederiksberg, Denmark
>>>> Phone: (+45)38153501
>>>> Email: pd.mes at cbs.dk  Priv: PDalgd at gmail.com
>>
>> --
>> Peter Dalgaard, Professor,
>> Center for Statistics, Copenhagen Business School
>> Solbjerg Plads 3, 2000 Frederiksberg, Denmark
>> Phone: (+45)38153501
>> Email: pd.mes at cbs.dk  Priv: PDalgd at gmail.com
>>
>> _______________________________________________
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