[GRASS-user] [off-topic] Problem in compile rgdal on Lion

[William Kyngesburye]

Yes, not quite the right list, but I think you're out of luck anyways.  R defines the compile flags and other details to use, and it's hard to override them.  I gave up and used an old Mac with Snow Leopard to compile.

The problem is that Lion Xcode does not include GCC any more.  clang is the main compiler, and R doesn't like it.  There is a llvm-gcc that emulates the behavior of gcc, but R finds cc which is a symlink to clang (but configure scripts still identify it as gcc).

I have rgdal on my framework download page, but it's a little old.  I tend to forget about it, but I can update my rgdal if you can wait a bit.  (hmm, maybe my rgdal doesn't work with your custom R?)

If you really need to compile your own rgdal, one thing I haven't tried is creating a symlink to llvm-gcc and putting it in your PATH.  I would NOT put it in /usr/local/bin, because that could interfere with software that does work with clang from the cc symlink.  Maybe something like:

mkdir ~/binllvm
ln -s /usr/bin/llvm-gcc ~/binllvm/cc
ln -s /usr/bin/llvm-g++ ~/binllvm/c++
export PATH="~/binllvm:$PATH"

then compile/install rgdal in the same terminal window you ran the export.

On Oct 31, 2012, at 6:41 PM, Marcello Benigno wrote:

> Hi,
> 
> I can't install rgdal library on Lion, tried this:
> 
> 
> R CMD INSTALL --configure-args='--with-gdal-config=/Library/Frameworks/GDAL.framework/unix/bin/gdal-config --with-proj-include=/Library/Frameworks/PROJ.framework/unix/include --with-proj-lib=/Library/Frameworks/PROJ.framework/unix/lib' /Users/marcello/Downloads/rgdal_0.7-20.tar.gz 
> 
> 
> * installing to library ‘/usr/local/Cellar/r/2.15.2/R.framework/Versions/2.15/Resources/library’
> 
> * installing *source* package ‘rgdal’ ...
> 
> ** package ‘rgdal’ successfully unpacked and MD5 sums checked
> 
> 
> configure: gdal-config: /Library/Frameworks/GDAL.framework/unix/bin/gdal-config
> 
> 
> checking gdal-config usability... yes
> 
> configure: GDAL: 1.9.1
> 
> checking GDAL version > 1.5.4... yes
> 
> checking for gcc... cc
> 
> checking whether the C compiler works... yes
> 
> checking for C compiler default output file name... a.out
> 
> checking for suffix of executables... 
> 
> checking whether we are cross compiling... no
> 
> checking for suffix of object files... o
> 
> checking whether we are using the GNU C compiler... yes
> 
> checking whether cc accepts -g... yes
> 
> checking for cc option to accept ISO C89... none needed
> 
> 
> checking how to run the C preprocessor... cc -E
> 
> 
> checking for grep that handles long lines and -e... /usr/bin/grep
> 
> 
> checking for egrep... /usr/bin/grep -E
> 
> checking for ANSI C header files... rm: conftest.dSYM: is a directory
> 
> rm: conftest.dSYM: is a directory
> 
> yes
> 
> checking for sys/types.h... yes
> 
> checking for sys/stat.h... yes
> 
> checking for stdlib.h... yes
> 
> checking for string.h... yes
> 
> checking for memory.h... yes
> 
> checking for strings.h... yes
> 
> checking for inttypes.h... yes
> 
> checking for stdint.h... yes
> 
> checking for unistd.h... yes
> 
> checking gdal.h usability... yes
> 
> checking gdal.h presence... yes
> 
> checking for gdal.h... yes
> 
> checking gdal: linking with --libs only... no
> 
> checking gdal: linking with --libs and --dep-libs... no
> 
> 
> clang: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is deprecated
> 
> 
> gdal_test.c:5:1: error: C++ requires a type specifier for all declarations
> 
> 
> main() {
> 
> ^~~~
> 
> 1 error generated.
> 
> clang: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is deprecated
> 
> gdal_test.c:5:1: error: C++ requires a type specifier for all declarations
> 
> main() {
> 
> ^~~~
> 
> 1 error generated.
> 
> configure: Install failure: compilation and/or linkage problems.
> 
> 
> configure: error: GDALAllRegister not found in libgdal.
> 
> 
> ERROR: configuration failed for package ‘rgdal’
> 
> 
> * removing ‘/usr/local/Cellar/r/2.15.2/R.framework/Versions/2.15/Resources/library/rgdal’
> 
> 
> 
> Any Ideas?
> 
> Thanks in advance.
> -- 
> Marcello Benigno B. de Barros Filho
> Prof. do Curso Superior de Tecnologia em Geoprocessamento - IFPB
> Mestre em Ciências Geodésicas e Tecnologias da Geoinformação - UFPE
> Doutorando em Tecnologia Ambiental e Recursos Hídricos - UFPE
> http://profmarcello.blogspot.com
> http://about.me/marcello.benigno
> 
> _______________________________________________
> grass-user mailing list
> grass-user at lists.osgeo.org
> http://lists.osgeo.org/mailman/listinfo/grass-user

-----
William Kyngesburye <kyngchaos*at*kyngchaos*dot*com>
http://www.kyngchaos.com/

"History is an illusion caused by the passage of time, and time is an illusion caused by the passage of history."

- Hitchhiker's Guide to the Galaxy