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Error compiling R.2.8.1 with gcc 4.4 on Mac OS 10.5.6
3 messages · Michael Lawrence, Peter Dalgaard, Brian Ripley
Mike Lawrence wrote:
Hi all, I've encountered a build error with the latest R source (2.8.1). This is a relatively fresh install of OS Leopard (10.5.6), latest developer tools installed, gcc/g++/gfortran version 4.4 installed (via http://hpc.sourceforge.net/, after which I updated the gcc & g++ symlinks to link to the 4.4 versions; gfortran used the 4.4 version without updating the symlink). Ultimately I wanted to instalI pnmath, so as per a previous thread ( http://www.nabble.com/Parallel-R-tt18173953.html#a18196319) I built with: LIBS=-lgomp ./configure --with-blas='-framework vecLib' make -j4 The configure runs without a hitch, but make fails, throwing an error seemingly related to qdCocoa: making qdCocoa.d from qdCocoa.m <built-in>:0: internal compiler error: Abort trap Below is the output of configure, followed by the output of make (error is in the last 10 lines). Any suggestions to fix this would be greatly appreciated.
Ouch. As you probably realize, this is very Mac-specific, and the actual bug is in GCC and has nothing to do with R. I don't think there's any obvious way to fix this, but there might be a temporary workaround. I'd consider making the .d file by hand, so that make doesn't even try to build it. You can probably rather easily create one based on one of the other .d files in the same directory (.d files are usually overkill, it is probably not necessary to get it completely right.) Next question is whether this GCC can handle .m files at all....
making qdBitmap.d from qdBitmap.c making qdPDF.d from qdPDF.c making qdCocoa.d from qdCocoa.m <built-in>:0: internal compiler error: Abort trap Please submit a full bug report, with preprocessed source if appropriate. See <http://gcc.gnu.org/bugs.html> for instructions. make[4]: *** [qdCocoa.d] Error 1 make[4]: *** Waiting for unfinished jobs.... make[3]: *** [all] Error 1 make[2]: *** [R] Error 1 make[1]: *** [R] Error 1 make: *** [R] Error 1
O__ ---- Peter Dalgaard ?ster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~~~~~~~~~ - (p.dalgaard at biostat.ku.dk) FAX: (+45) 35327907
On Mon, 22 Dec 2008, Peter Dalgaard wrote:
Mike Lawrence wrote:
Hi all, I've encountered a build error with the latest R source (2.8.1). This is a relatively fresh install of OS Leopard (10.5.6), latest developer tools installed, gcc/g++/gfortran version 4.4 installed (via http://hpc.sourceforge.net/, after which I updated the gcc & g++ symlinks to link to the 4.4 versions; gfortran used the 4.4 version without updating the symlink). Ultimately I wanted to instalI pnmath, so as per a previous thread ( http://www.nabble.com/Parallel-R-tt18173953.html#a18196319) I built with: LIBS=-lgomp ./configure --with-blas='-framework vecLib' make -j4 The configure runs without a hitch, but make fails, throwing an error seemingly related to qdCocoa: making qdCocoa.d from qdCocoa.m <built-in>:0: internal compiler error: Abort trap Below is the output of configure, followed by the output of make (error is in the last 10 lines). Any suggestions to fix this would be greatly appreciated.
Ouch. As you probably realize, this is very Mac-specific, and the actual bug is in GCC and has nothing to do with R. I don't think there's any obvious way to fix this, but there might be a temporary workaround. I'd consider making the .d file by hand, so that make doesn't even try to build it. You can probably rather easily create one based on one of the other .d files in the same directory (.d files are usually overkill, it is probably not necessary to get it completely right.) Next question is whether this GCC can handle .m files at all....
It can: at least the released versions can provided the ObjC language is installed. Most likely if making the .d file is an error then actual compilation will be too. Note that this is a non-Apple build of a non-FSF version of a non-released version of gcc. I think the workaround is to use Apple compilers for Mac-specific code. So either use --with-aqua with Apple compilers, or --without-aqua with others. From memory (I am not on my Mac right now), the latter will not build the quartz code at all: certainly src/library/grDevices/src/Makefile suggests so. I'd suggest reporting Mac-specific problems on R-sig-mac, and problems with building R on experimental systems (including unreleased compilers) to the system's developers or perhaps R-devel.
making qdBitmap.d from qdBitmap.c making qdPDF.d from qdPDF.c making qdCocoa.d from qdCocoa.m <built-in>:0: internal compiler error: Abort trap Please submit a full bug report, with preprocessed source if appropriate. See <http://gcc.gnu.org/bugs.html> for instructions. make[4]: *** [qdCocoa.d] Error 1 make[4]: *** Waiting for unfinished jobs.... make[3]: *** [all] Error 1 make[2]: *** [R] Error 1 make[1]: *** [R] Error 1 make: *** [R] Error 1
-- O__ ---- Peter Dalgaard ?ster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~~~~~~~~~ - (p.dalgaard at biostat.ku.dk) FAX: (+45) 35327907
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Brian D. Ripley, ripley at stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UK Fax: +44 1865 272595