How to get a Fortran compiler compatible to Xcode?

Sun, May 10, 2015 11:45 AM

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

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How to get a Fortran compiler compatible to Xcode?

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