I think I found the culprit. I installed the devpack before I compiled R, and
looking at the contents of the tarball it does install things in
/Library/Frameworks/R.framework/Resources. That must have created the hard
link.
Kasper
On Dec 1, 2009, at 5:22 PM, Kasper Daniel Hansen wrote:
> Thanks. rm -Rf /Library/Frameworks/R.framework did the trick, so it was
> obviously an error on my end.
>
> My system is/was clean insofar as all I have done regarding R is use
> ./configure, make, make install on a freshly formatted harddrive. One
> possible explanation for this could be a C-c during make install or a make
> install without sudo. Granted, I do not see why either of these
> possibilities would create a non symlink. This is based on a review of my
> bash history, which - unfortunately in this case - removes duplicate entries,
> so it is hard to see exactly what I did in what order.
>
> Anyway, it is probably pointless to speculate about the cause.
>
> Kasper
>
> On Dec 1, 2009, at 4:49 PM, Simon Urbanek wrote:
>
>> I see - you have a rogue directory
>> /Library/Frameworks/R.framework/Resources
>> in all normal installations that is a symlink but apparently you may have
>> used hard copy or something such that it's not a symlink.
>> If you remove that all should be well. What you have there is definitely not
>> a clean system ;). I have put a guard about such strange framework setup in
>> the R-devel, just in case.
>> Cheers,
>> Simon
>>
>>
>>
>> On Dec 1, 2009, at 12:13 , Kasper Daniel Hansen wrote:
>>
>>>
>>> On Dec 1, 2009, at 11:29 AM, Simon Urbanek wrote:
>>>
>>>> ls -l /Library/Frameworks/R.framework
>>>> ls -l /Library/Frameworks/R.framework/Versions
>>>> ls -l /Library/Frameworks/R.framework/Versions/2.11
>>>> ls -l /Library/Frameworks/R.framework/Versions/2.11/Resources
>>>
>>>
>>> This is my current state, after a failed sudo make install on R-2.10 and
>>> R-devel
>>>
>>> grue-1:~/> ls -l /Library/Frameworks/R.framework
>>> total 32
>>> lrwxr-xr-x 1 root admin 24B Dec 1 09:41 Headers ->
>>> Versions/Current/Headers
>>> lrwxr-xr-x 1 root admin 30B Dec 1 09:41 Libraries ->
>>> Versions/Current/Resources/lib
>>> lrwxr-xr-x 1 root admin 31B Dec 1 09:41 PrivateHeaders ->
>>> Versions/Current/PrivateHeaders
>>> lrwxr-xr-x 1 root admin 18B Dec 1 09:41 R -> Versions/Current/R
>>> drwxrwxr-x 4 root admin 136B Dec 1 09:41 Resources
>>> drwxr-xr-x 5 root admin 170B Dec 1 09:41 Versions
>>> grue-1:~/> ls -l /Library/Frameworks/R.framework/Versions
>>> total 8
>>> drwxr-xr-x 6 root admin 204B Nov 30 19:09 2.10
>>> drwxr-xr-x 6 root admin 204B Dec 1 09:41 2.11
>>> lrwxr-xr-x 1 root admin 4B Dec 1 09:41 Current -> 2.11
>>> grue-1:~/> ls -l /Library/Frameworks/R.framework/Versions/2.11
>>> total 16
>>> lrwxr-xr-x 1 root admin 17B Dec 1 09:41 Headers -> Resources/include
>>> drwxr-xr-x 2 root admin 68B Dec 1 09:27 PrivateHeaders
>>> lrwxr-xr-x 1 root admin 24B Dec 1 09:41 R -> Resources/lib/libR.dylib
>>> drwxr-xr-x 16 root admin 544B Dec 1 09:41 Resources
>>> grue-1:~/> ls -l /Library/Frameworks/R.framework/Versions/2.11/Resources
>>> total 928
>>> -rw-r--r-- 1 root admin 18K Dec 1 09:41 COPYING
>>> -rw-r--r-- 1 root admin 408K Dec 1 09:41 NEWS
>>> -rwxr-xr-x 1 root admin 8.1K Dec 1 09:41 R
>>> -rwxr-xr-x 1 root admin 14K Dec 1 09:41 Rscript
>>> -rw-r--r-- 1 root admin 46B Dec 1 09:41 SVN-REVISION
>>> drwxr-xr-x 28 root admin 952B Dec 1 09:41 bin
>>> drwxr-xr-x 15 root admin 510B Dec 1 09:41 doc
>>> drwxr-xr-x 4 root admin 136B Dec 1 09:41 etc
>>> drwxr-xr-x 10 root admin 340B Dec 1 09:41 include
>>> drwxr-xr-x 3 root admin 102B Dec 1 09:26 lib
>>> drwxr-xr-x 30 root admin 1.0K Dec 1 09:27 library
>>> drwxr-xr-x 4 root admin 136B Dec 1 09:41 man1
>>> drwxr-xr-x 3 root admin 102B Dec 1 09:26 modules
>>> drwxr-xr-x 11 root admin 374B Dec 1 09:27 share
>>> grue-1:~/>
>>>
>>> Just for reference, my full build script is
>>> #!/bin/bash
>>> R_VERSION=devel
>>> SRCDIR=R-${R_VERSION}-src
>>> BUILDDIR=R-${R_VERSION}-build
>>>
>>> if [ ! -d ${SRCDIR} ]; then
>>> svn co https://svn.r-project.org/R/trunk ${SRCDIR}
>>> fi
>>> cd ${SRCDIR}
>>> svn up || exit 1
>>> tools/rsync-recommended || exit 1
>>> tools/link-recommended || exit 1
>>> cd ..
>>> rm -rf ${BUILDDIR}
>>> mkdir ${BUILDDIR}
>>> cd ${BUILDDIR}
>>> LANG=C
>>> export LANG
>>> ../${SRCDIR}/configure SHELL='/bin/bash' \
>>> r_arch=x86_64 \
>>> CC="/usr/bin/gcc-4.2 -arch x86_64 -std=gnu99" \
>>> CFLAGS="-g -O2 -std=gnu99 -march=nocona" \
>>> CXX="/usr/bin/g++-4.2 -arch x86_64" \
>>> CXXFLAGS="-g -O2 -march=nocona" \
>>> OBJC="/usr/bin/gcc-4.2 -arch x86_64" \
>>> F77="/usr/bin/gfortran-4.2 -arch x86_64" \
>>> FFLAGS="-g -O2 -march=nocona" \
>>> FC="/usr/bin/gfortran-4.2 -arch x86_64" \
>>> FCFLAGS="-g -O2 -march=nocona" \
>>> --x-includes=/usr/X11/include --x-libraries=/usr/X11/lib \
>>> --with-system-zlib \
>>> --with-blas='-framework vecLib' --with-lapack
>>>
>>>
>>>
>>>
>>
>> _______________________________________________
>> R-SIG-Mac mailing list
>> R-SIG-Mac@stat.math.ethz.ch
>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>
> _______________________________________________
> R-SIG-Mac mailing list
> R-SIG-Mac@stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
_______________________________________________
R-SIG-Mac mailing list
R-SIG-Mac@stat.math.ethz.ch
https://stat.ethz.ch/mailman/listinfo/r-sig-mac
