I am unable to install the gmp package on an x86_64 (Xeon) machine. I have had the same problem with other packages (eg. MCMCpack) as well. I am running Red Hat Enterprise Linux 4.1. I get the following error:
g++ -shared -L/usr/local/lib64 -o gmp.so biginteger.o biginteger_operator.o bigintegerR.o bigrational.o bigrational_operator.o bigrationalR.o factor.o -L/usr/local/lib/ -lgmp /usr/bin/ld: /usr/lib/gcc/x86_64-redhat-linux/3.4.3/libstdc++.a(functexcept.o): relocation R_X86_64_32 against `std::bad_exception::~bad_exception()' can not be used when making a shared object; recompile with -fPIC /usr/lib/gcc/x86_64-redhat-linux/3.4.3/libstdc++.a: could not read symbols: Bad value However, I have found that if I run "R CMD SHLIB" twice in the src/ directory, once to build the .o files, and once to link, I can build the shared library. If I run it on the .o files instead of the .cc files it uses gcc instead of g++. This appears to be the change that allows the lib to build. "-fPIC" seems to have nothing to do with it. So my question is: How do I get "R CMD INSTALL" to link with gcc instead of g++? I have tried adding "LINK.cc = $(LINK.c)" to the top of src/Makevars.in and then running "R CMD check" in the top dir of the package, but it uses g++ anyway. Any other fix or workaround suggestions would be appreciated as well. A commandline transcript follows below. Thanks, Dan $ sudo R CMD INSTALL gmp_0.3-4.tar.gz * Installing *source* package 'gmp' ... creating cache ./config.cache checking for __gmpz_ui_sub in -lgmp... yes updating cache ./config.cache creating ./config.status creating src/Makevars ** libs g++ -I/usr/lib/R/include -I/usr/local/include/ -Wno-conversion -I/usr/local/include -fPIC -O2 -g -c biginteger.cc -o biginteger.o g++ -I/usr/lib/R/include -I/usr/local/include/ -Wno-conversion -I/usr/local/include -fPIC -O2 -g -c biginteger_operator.cc -o biginteger_operator.o g++ -I/usr/lib/R/include -I/usr/local/include/ -Wno-conversion -I/usr/local/include -fPIC -O2 -g -c bigintegerR.cc -o bigintegerR.o g++ -I/usr/lib/R/include -I/usr/local/include/ -Wno-conversion -I/usr/local/include -fPIC -O2 -g -c bigrational.cc -o bigrational.o g++ -I/usr/lib/R/include -I/usr/local/include/ -Wno-conversion -I/usr/local/include -fPIC -O2 -g -c bigrational_operator.cc -o bigrational_operator.o g++ -I/usr/lib/R/include -I/usr/local/include/ -Wno-conversion -I/usr/local/include -fPIC -O2 -g -c bigrationalR.cc -o bigrationalR.o g++ -I/usr/lib/R/include -I/usr/local/include/ -Wno-conversion -I/usr/local/include -fPIC -O2 -g -c factor.cc -o factor.o g++ -shared -L/usr/local/lib64 -o gmp.so biginteger.o biginteger_operator.o bigintegerR.o bigrational.o bigrational_operator.o bigrationalR.o factor.o -L/usr/local/lib/ -lgmp /usr/bin/ld: /usr/lib/gcc/x86_64-redhat-linux/3.4.3/libstdc++.a(functexcept.o): relocation R_X86_64_32 against `std::bad_exception::~bad_exception()' can not be used when making a shared object; recompile with -fPIC /usr/lib/gcc/x86_64-redhat-linux/3.4.3/libstdc++.a: could not read symbols: Bad value collect2: ld returned 1 exit status make: *** [gmp.so] Error 1 ERROR: compilation failed for package 'gmp' $ tar xzf gmp_0.3-4.tar.gz $ cd gmp/src $ R CMD SHLIB *.cc g++ -I/usr/lib/R/include -I/usr/local/include -fPIC -O2 -g -c biginteger.cc -o biginteger.o g++ -I/usr/lib/R/include -I/usr/local/include -fPIC -O2 -g -c biginteger_operator.cc -o biginteger_operator.o g++ -I/usr/lib/R/include -I/usr/local/include -fPIC -O2 -g -c bigintegerR.cc -o bigintegerR.o g++ -I/usr/lib/R/include -I/usr/local/include -fPIC -O2 -g -c bigrational.cc -o bigrational.o g++ -I/usr/lib/R/include -I/usr/local/include -fPIC -O2 -g -c bigrational_operator.cc -o bigrational_operator.o g++ -I/usr/lib/R/include -I/usr/local/include -fPIC -O2 -g -c bigrationalR.cc -o bigrationalR.o g++ -I/usr/lib/R/include -I/usr/local/include -fPIC -O2 -g -c factor.cc -o factor.o g++ -shared -L/usr/local/lib64 -o biginteger.so biginteger.o biginteger_operator.o bigintegerR.o bigrational.o bigrational_operator.o bigrationalR.o factor.o /usr/bin/ld: /usr/lib/gcc/x86_64-redhat-linux/3.4.3/libstdc++.a(functexcept.o): relocation R_X86_64_32 against `std::bad_exception::~bad_exception()' can not be used when making a shared object; recompile with -fPIC /usr/lib/gcc/x86_64-redhat-linux/3.4.3/libstdc++.a: could not read symbols: Bad value collect2: ld returned 1 exit status make: *** [biginteger.so] Error 1 $ R CMD SHLIB *.o gcc -shared -L/usr/local/lib64 -o biginteger.so biginteger.o biginteger_operator.o bigintegerR.o bigrational.o bigrational_operator.o bigrationalR.o factor.o $ ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
