[R-SIG-Mac] How to get a Fortran compiler compatible to Xcode?
Kasper Daniel Hansen
kasperdanielhansen at gmail.com
Mon May 11 03:06:54 CEST 2015
This is where you look for add-ons
http://r.research.att.com/libs
<http://r.research.att.com/libs/gfortran-4.8.2-darwin13.tar.bz2>
for OS X.
For texi2any I would install a new version of MacTex.
Finally, see the R-admin manual.
Best,
Kasper
On Sun, May 10, 2015 at 8:38 PM, Marius Hofert <marius.hofert at uwaterloo.ca>
wrote:
> 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
> >>
> >> _______________________________________________
> >> R-SIG-Mac mailing list
> >> R-SIG-Mac at r-project.org
> >> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>
> _______________________________________________
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