Hi! I am trying to install rjags on my Mac Pro running OSX 10.6.4, and R 2.11.1 (which I compiled myself so I could link to the Intel MKL blas, which I prefer to other options). I was successfully able to install JAGS 2.1.0 through both the binary installer, and compiling from source (I get the same problem either way).
But I would like to use the rjags package. When I do install.packages("rjags") I get the folliowing output: * installing *source* package ‘rjags’ ... checking for prefix by checking for jags... /usr/local/bin/jags checking for g++... g++ checking for C++ compiler default output file name... a.out checking whether the C++ compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking how to run the C++ preprocessor... g++ -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... 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 Console.h usability... yes checking Console.h presence... yes checking for Console.h... yes checking for gcc... gcc checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for jags_version in -ljags... yes configure: creating ./config.status config.status: creating src/Makevars configure: creating ./config.status config.status: creating src/Makevars config.status: creating R/unix/zzz.R ** libs *** arch - x86_64 g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/usr/local/include/JAGS -I/opt/intel/Compiler/11.1/089/Frameworks/mkl/Headers -I/Install_Files/MKL_gfortran_interface/include/em64t/lp64 -fPIC -m64 -msse4.2 -g -O2 -c jags.cc -o jags.o g++ -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/opt/intel/Compiler/11.1/089/Frameworks/mkl/Libraries/em64t -L/Users/braunm/Install_Files/MKL_gfortran_interface/lib/em64t -o rjags.so jags.o -lgsl -lmkl_intel_lp64 -lmkl_sequential -lmkl_core -lpthread -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/braunm/.R/Library/rjags/libs/x86_64 ** R ** data ** preparing package for lazy loading ** help *** installing help indices ** building package indices ... Error : .onLoad failed in loadNamespace() for 'rjags', details: call: dyn.load(file, DLLpath = DLLpath, ...) error: unable to load shared library '/Users/braunm/.R/Library/rjags/libs/x86_64/rjags.so': dlopen(/Users/braunm/.R/Library/rjags/libs/x86_64/rjags.so, 10): Symbol not found: _JAGS_NA Referenced from: /Users/braunm/.R/Library/rjags/libs/x86_64/rjags.so Expected in: flat namespace in /Users/braunm/.R/Library/rjags/libs/x86_64/rjags.so ERROR: installing package indices failed * removing ‘/Users/braunm/.R/Library/rjags’ However, when I go to look at the symbols in the jags library, I see braunm4: /usr/local/lib $ nm libjags.dylib |grep JAGS 0000000000098650 S _JAGS_NA 0000000000110338 S _JAGS_NAN 0000000000110348 S _JAGS_NEGINF 0000000000110340 S _JAGS_POSINF 000000000000133c t __GLOBAL__I_JAGS_NA and when I try braunm4: /usr/local/lib $ nm libjags.a |grep JAGS U _JAGS_NA U _JAGS_NEGINF U _JAGS_NA U _JAGS_NA 0000000000000060 S _JAGS_NA 00000000000000b8 B _JAGS_NAN 00000000000000c8 B _JAGS_NEGINF 00000000000000c0 B _JAGS_POSINF U _JAGS_NA U _JAGS_NEGINF U _JAGS_POSINF U _JAGS_NEGINF U _JAGS_POSINF U _JAGS_NEGINF U _JAGS_NA U _JAGS_NEGINF U _JAGS_NEGINF U _JAGS_NA U _JAGS_NEGINF U _JAGS_POSINF So the jags libraries (both static and dynamic) are in the standard place, and it looks like the symbols rjags.so needs are there as well. So I'm not sure what the rjags installer is looking for. Is there perhaps an environment variable that I am missing? Here is my sessionInfo(): > sessionInfo() R version 2.11.1 (2010-05-31) x86_64-apple-darwin10.4.2 locale: [1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8 attached base packages: [1] stats grDevices datasets graphics utils methods base other attached packages: [1] xtable_1.5-6 doMC_1.2.1 multicore_0.1-3 foreach_1.3.0 codetools_0.2-2 iterators_1.0.3 coda_0.13-5 matrixcalc_1.0-1 lattice_0.18-8 reshape_0.8.3 plyr_1.2.1 [12] mvtnorm_0.9-92 loaded via a namespace (and not attached): [1] grid_2.11.1 tcltk_2.11.1 tools_2.11.1 Thanks in advance for your help. Michael ------------------------------------------- Michael Braun Homer A. Burnell (1928) Career Development Professor, and Assistant Professor of Management Science (Marketing Group) MIT Sloan School of Management 100 Main St.., E62-535 Cambridge, MA 02139 bra...@mit.edu 617-253-3436 _______________________________________________ R-SIG-Mac mailing list R-SIG-Mac@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/r-sig-mac