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

2015-05-10 Thread Marius Hofert 
On Sun, May 10, 2015 at 11:08 PM, Kevin Ushey  wrote:
> Marius,
>
> Best guess -- you probably need to call 'configure' again.

... you have excellent guesses... it worked! Thanks a lot.

Cheers,
Marius

>
> Kevin
>
> On May 10, 2015 19:00, "Kasper Daniel Hansen" 
> wrote:
>>
>> yeah, I forgot.
>>
>> Do what Kevin says, grab the texinfo from the r.research.att.com/libs
>> website.  Basically this is the first place to look.
>>
>> Kasper
>>
>> On Sun, May 10, 2015 at 9:49 PM, Marius Hofert
>>  wrote:
>>>
>>> Hi,
>>>
>>> Thanks again, Kevin.
>>>
>>> @Kasper: I had a new version (as of today) of MacTeX installed and
>>> texinfo came with it. I had texi2dvi, texi2pdf... but not texi2any,
>>> that's why I thought it's something 'special' and couldn't find it
>>> anywhere else.
>>>
>>> @Kevin: I tried homebrew, but it seemed to fail, saying that it won't
>>> link/install as texinfo is already installed (via MacTeX) :-(.
>>> Interestingly, /usr/local/Cellar/texinfo existed afterwards and it
>>> contained ./5.2/bin/texi2any. I then simply linked from /usr/local/bin
>>> to that file, but still obtained (also after a reboot + as su):
>>>
>>> sklar-2:R-3.2.0_build mhofert$ make info
>>> ERROR: 'texi2any' v5.1 or later needed but missing on your system.
>>> make[2]: *** [R-FAQ.info] Error 1
>>> make[1]: *** [info] Error 2
>>> make: [info] Error 2 (ignored)
>>> sklar-2:R-3.2.0_build mhofert$ texi2any --version
>>> texi2any (GNU texinfo) 5.2
>>>
>>> Copyright (C) 2013 Free Software Foundation, Inc.
>>> License GPLv3+: GNU GPL version 3 or later
>>> 
>>> This is free software: you are free to change and redistribute it.
>>> There is NO WARRANTY, to the extent permitted by law.
>>>
>>> Any ideas?
>>>
>>> Cheers,
>>> Marius
>>>
>>>
>>> On Sun, May 10, 2015 at 9:14 PM, Kevin Ushey 
>>> wrote:
>>> > `texi2any` is packaged as part of `texinfo` (note that this is
>>> > documented throughout R-admin), and the latest version is available
>>> > for download (hosted by Simon Urbanek) at:
>>> >
>>> > http://r.research.att.com/libs/texinfo-5.2-darwin10.tar.gz
>>> >
>>> > Or, if you're using homebrew, just use
>>> >
>>> > brew install texinfo
>>> >
>>> > Kevin
>>> >
>>> > On Sun, May 10, 2015 at 6:06 PM, Kasper Daniel Hansen
>>> >  wrote:
>>> >> This is where you look for add-ons
>>> >>  http://r.research.att.com/libs
>>> >> 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
>>> >> 
>>> >> 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 
>>> >>> 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 
>>> >>> > 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 Ma

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

2015-05-10 Thread Kevin Ushey 
Marius,

Best guess -- you probably need to call 'configure' again.

Kevin
On May 10, 2015 19:00, "Kasper Daniel Hansen" 
wrote:

> yeah, I forgot.
>
> Do what Kevin says, grab the texinfo from the r.research.att.com/libs
> website.  Basically this is the first place to look.
>
> Kasper
>
> On Sun, May 10, 2015 at 9:49 PM, Marius Hofert  > wrote:
>
>> Hi,
>>
>> Thanks again, Kevin.
>>
>> @Kasper: I had a new version (as of today) of MacTeX installed and
>> texinfo came with it. I had texi2dvi, texi2pdf... but not texi2any,
>> that's why I thought it's something 'special' and couldn't find it
>> anywhere else.
>>
>> @Kevin: I tried homebrew, but it seemed to fail, saying that it won't
>> link/install as texinfo is already installed (via MacTeX) :-(.
>> Interestingly, /usr/local/Cellar/texinfo existed afterwards and it
>> contained ./5.2/bin/texi2any. I then simply linked from /usr/local/bin
>> to that file, but still obtained (also after a reboot + as su):
>>
>> sklar-2:R-3.2.0_build mhofert$ make info
>> ERROR: 'texi2any' v5.1 or later needed but missing on your system.
>> make[2]: *** [R-FAQ.info] Error 1
>> make[1]: *** [info] Error 2
>> make: [info] Error 2 (ignored)
>> sklar-2:R-3.2.0_build mhofert$ texi2any --version
>> texi2any (GNU texinfo) 5.2
>>
>> Copyright (C) 2013 Free Software Foundation, Inc.
>> License GPLv3+: GNU GPL version 3 or later <
>> http://gnu.org/licenses/gpl.html>
>> This is free software: you are free to change and redistribute it.
>> There is NO WARRANTY, to the extent permitted by law.
>>
>> Any ideas?
>>
>> Cheers,
>> Marius
>>
>>
>> On Sun, May 10, 2015 at 9:14 PM, Kevin Ushey 
>> wrote:
>> > `texi2any` is packaged as part of `texinfo` (note that this is
>> > documented throughout R-admin), and the latest version is available
>> > for download (hosted by Simon Urbanek) at:
>> >
>> > http://r.research.att.com/libs/texinfo-5.2-darwin10.tar.gz
>> >
>> > Or, if you're using homebrew, just use
>> >
>> > brew install texinfo
>> >
>> > Kevin
>> >
>> > On Sun, May 10, 2015 at 6:06 PM, Kasper Daniel Hansen
>> >  wrote:
>> >> This is where you look for add-ons
>> >>  http://r.research.att.com/libs
>> >> 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 <
>> [email protected]>
>> >> 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 
>> 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 
>> >>> > 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 <
>> [email protected]>
>> >>> >>> 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' lo

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

2015-05-10 Thread Kasper Daniel Hansen 
yeah, I forgot.

Do what Kevin says, grab the texinfo from the r.research.att.com/libs
website.  Basically this is the first place to look.

Kasper

On Sun, May 10, 2015 at 9:49 PM, Marius Hofert 
wrote:

> Hi,
>
> Thanks again, Kevin.
>
> @Kasper: I had a new version (as of today) of MacTeX installed and
> texinfo came with it. I had texi2dvi, texi2pdf... but not texi2any,
> that's why I thought it's something 'special' and couldn't find it
> anywhere else.
>
> @Kevin: I tried homebrew, but it seemed to fail, saying that it won't
> link/install as texinfo is already installed (via MacTeX) :-(.
> Interestingly, /usr/local/Cellar/texinfo existed afterwards and it
> contained ./5.2/bin/texi2any. I then simply linked from /usr/local/bin
> to that file, but still obtained (also after a reboot + as su):
>
> sklar-2:R-3.2.0_build mhofert$ make info
> ERROR: 'texi2any' v5.1 or later needed but missing on your system.
> make[2]: *** [R-FAQ.info] Error 1
> make[1]: *** [info] Error 2
> make: [info] Error 2 (ignored)
> sklar-2:R-3.2.0_build mhofert$ texi2any --version
> texi2any (GNU texinfo) 5.2
>
> Copyright (C) 2013 Free Software Foundation, Inc.
> License GPLv3+: GNU GPL version 3 or later <
> http://gnu.org/licenses/gpl.html>
> This is free software: you are free to change and redistribute it.
> There is NO WARRANTY, to the extent permitted by law.
>
> Any ideas?
>
> Cheers,
> Marius
>
>
> On Sun, May 10, 2015 at 9:14 PM, Kevin Ushey  wrote:
> > `texi2any` is packaged as part of `texinfo` (note that this is
> > documented throughout R-admin), and the latest version is available
> > for download (hosted by Simon Urbanek) at:
> >
> > http://r.research.att.com/libs/texinfo-5.2-darwin10.tar.gz
> >
> > Or, if you're using homebrew, just use
> >
> > brew install texinfo
> >
> > Kevin
> >
> > On Sun, May 10, 2015 at 6:06 PM, Kasper Daniel Hansen
> >  wrote:
> >> This is where you look for add-ons
> >>  http://r.research.att.com/libs
> >> 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 <
> [email protected]>
> >> 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 
> 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 
> >>> > 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 <
> [email protected]>
> >>> >>> 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 run

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

2015-05-10 Thread Marius Hofert 
Hi,

Thanks again, Kevin.

@Kasper: I had a new version (as of today) of MacTeX installed and
texinfo came with it. I had texi2dvi, texi2pdf... but not texi2any,
that's why I thought it's something 'special' and couldn't find it
anywhere else.

@Kevin: I tried homebrew, but it seemed to fail, saying that it won't
link/install as texinfo is already installed (via MacTeX) :-(.
Interestingly, /usr/local/Cellar/texinfo existed afterwards and it
contained ./5.2/bin/texi2any. I then simply linked from /usr/local/bin
to that file, but still obtained (also after a reboot + as su):

sklar-2:R-3.2.0_build mhofert$ make info
ERROR: 'texi2any' v5.1 or later needed but missing on your system.
make[2]: *** [R-FAQ.info] Error 1
make[1]: *** [info] Error 2
make: [info] Error 2 (ignored)
sklar-2:R-3.2.0_build mhofert$ texi2any --version
texi2any (GNU texinfo) 5.2

Copyright (C) 2013 Free Software Foundation, Inc.
License GPLv3+: GNU GPL version 3 or later 
This is free software: you are free to change and redistribute it.
There is NO WARRANTY, to the extent permitted by law.

Any ideas?

Cheers,
Marius


On Sun, May 10, 2015 at 9:14 PM, Kevin Ushey  wrote:
> `texi2any` is packaged as part of `texinfo` (note that this is
> documented throughout R-admin), and the latest version is available
> for download (hosted by Simon Urbanek) at:
>
> http://r.research.att.com/libs/texinfo-5.2-darwin10.tar.gz
>
> Or, if you're using homebrew, just use
>
> brew install texinfo
>
> Kevin
>
> On Sun, May 10, 2015 at 6:06 PM, Kasper Daniel Hansen
>  wrote:
>> This is where you look for add-ons
>>  http://r.research.att.com/libs
>> 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 
>> 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  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 
>>> > 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 
>>> >>> 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 
>>> >>> wrote:
>>> 
>>> > On 10 May 2015, at 17:13 , Marius Hofert
>>> >  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 inst

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

2015-05-10 Thread Kevin Ushey 
`texi2any` is packaged as part of `texinfo` (note that this is
documented throughout R-admin), and the latest version is available
for download (hosted by Simon Urbanek) at:

http://r.research.att.com/libs/texinfo-5.2-darwin10.tar.gz

Or, if you're using homebrew, just use

brew install texinfo

Kevin

On Sun, May 10, 2015 at 6:06 PM, Kasper Daniel Hansen
 wrote:
> This is where you look for add-ons
>  http://r.research.att.com/libs
> 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 
> 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  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 
>> > 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 
>> >>> 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 
>> >>> wrote:
>> 
>> > On 10 May 2015, at 17:13 , Marius Hofert
>> >  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)
>> > - D

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

2015-05-10 Thread Kasper Daniel Hansen 
This is where you look for add-ons
 http://r.research.att.com/libs

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 
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  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 
> 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 
> 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 
> wrote:
> 
> > On 10 May 2015, at 17:13 , Marius Hofert 
> 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
> > director

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

2015-05-10 Thread 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  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  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  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  wrote:

> On 10 May 2015, at 17:13 , Marius Hofert  
> 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

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

2015-05-10 Thread Kevin Ushey 
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  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  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  wrote:
>>>
 On 10 May 2015, at 17:13 , Marius Hofert  
 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

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

2015-05-10 Thread peter dalgaard 
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  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  wrote:
>> 
>>> On 10 May 2015, at 17:13 , Marius Hofert  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
>>> [email protected]
>>> 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: [email protected]  Priv: [email protected]

-- 
Peter Dalgaard, Professor,
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
Email: [email protected]  Priv: [email protected]

___
R-SIG-Mac mailing list
[email protected]
https://stat.ethz.ch/mailman/listinfo/r-sig-mac

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

2015-05-10 Thread Marius Hofert 
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  wrote:
>
>> On 10 May 2015, at 17:13 , Marius Hofert  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
>> [email protected]
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> Center for Statistics, Copenhagen Business School
> Solbjerg Plads 3, 2000 Frederiksberg, Denmark
> Phone: (+45)38153501
> Email: [email protected]  Priv: [email protected]
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Re: [R-SIG-Mac] How to get a Fortran compiler compatible to Xcode?

2015-05-10 Thread peter dalgaard 

> On 10 May 2015, at 17:13 , Marius Hofert  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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-- 
Peter Dalgaard, Professor,
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
Email: [email protected]  Priv: [email protected]

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