Try adding '/usr/local/lib' to DYLD_LIBRARY_PATH and DYLD_FALLBACK_LIBRARY_PATH. If that doesn't fix the problem, try modifying the install name of libaf to include /usr/local/lib. Something like:
sudo install_name_tool -id /usr/local/lib/libaf.dylib /usr/local/lib/libaf.dylib or sudo install_name_tool -id /usr/local/lib/libaf.3.dylib /usr/local/lib/libaf.3.dylib This has fixed runtime path issues for me in the past. Keith > On Feb 23, 2018, at 4:16 AM, Ralf Stubner <ralf.stub...@r-institute.com> > wrote: > > Hi all, > > I am trying to port RcppArrayFire > (https://github.com/RInstitute/rcpparrayfire) to Mac OS, but I am having > some troubles with resolving linked libraries. I have tried to reduce > the issue as much as possible, i.e. no Rcpp and no package structure. It > seems to be MacOS specific since the same code works on Linux (as does > RcppArrayFire). I also asked this on stackoverflow > (https://stackoverflow.com/questions/48705490/runtime-linking-r-extension-on-macos), > but that did not draw a lot of attention. Maybe someone on this list can > shed some light on this: > > When I install ArrayFire (http://arrayfire.com/) on MacOS using the > binary installer, the libraries are installed in /usr/local/lib with an > install name starting with @rpath: > > $ otool -L /usr/local/lib/libaf.dylib /usr/local/lib/libaf.dylib: > @rpath/libaf.3.dylib (compatibility version 3.0.0, current version > 3.5.1) > /usr/lib/libc++.1.dylib (compatibility version 1.0.0, current version > 120.1.0) > /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current > version 1226.10.1) > > I can compile, link and run simple examples, e.g. > > #include <arrayfire.h> > #include <stdio.h> > > int main() { > unsigned int count; > at_get_backend_count(&count); > printf("backends: %d\n", count); > return 0; > } > > gives > > $ /usr/local/clang4/bin/clang -laf -o minimal minimal.c > $ otool -L minimal > minimal: > @rpath/libaf.3.dylib (compatibility version 3.0.0, current version > 3.5.1) > /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current > version 1252.0.0) > $ ./minimal > backends: 2 > > > To do the same from R I use > > #include <arrayfire.h> > #include <Rinternals.h> > SEXP count_backends() { > unsigned int count; > af_get_backend_count(&count); > Rprintf("backends: %d\n", count); > return R_NilValue; > } > > And compile it with > > $ PKG_LIBS=-laf R CMD SHLIB minimal.c /usr/local/clang4/bin/clang > -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG > -I/usr/local/include -fPIC -Wall -g -O2 -c minimal.c -o minimal.o > /usr/local/clang4/bin/clang -dynamiclib -Wl,-headerpad_max_install_names > -undefined dynamic_lookup -single_module -multiply_defined suppress > -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/clang4/lib > -o minimal.so minimal.o -laf -F/Library/Frameworks/R.framework/.. > -framework R -Wl,-framework -Wl,CoreFoundation > $ otool -L minimal.so minimal.so: > minimal.so (compatibility version 0.0.0, current version 0.0.0) > @rpath/libaf.3.dylib (compatibility version 3.0.0, current version > 3.5.1) > /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libR.dylib > (compatibility version 3.4.0, current version 3.4.3) > > /System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation > (compatibility version 150.0.0, current version 1451.0.0) > /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current > version 1252.0.0) > > If I then try to load the resulting library, I get this error message: > > R> dyn.load("minimal.so") > Error in dyn.load("minimal.so") : unable to load shared object > '/Users/ralf/Documents/af-simple/minimalR/minimal.so': > dlopen(/Users/ralf/Documents/af-simple/minimalR/minimal.so, 6): > Library not loaded: @rpath/libaf.3.dylib > Referenced from: /Users/ralf/Documents/af-simple/minimalR/minimal.so > Reason: image not found > Execution halted > > > Both the binary and the R-extension library refer to the external > library using the same install name, but for the R-extension this > reference cannot be resolved. Why is this the case? > > Thanks > Ralf > > PS: Used versions: > * Mac OS High Siearra > * R 3.4.3 > * clang 4.0.0 from https://cran.r-project.org/bin/macosx/tools/ > > -- > Ralf Stubner > Senior Software Engineer / Trainer > > R Institute GmbH > Dortustraße 48 > 14467 Potsdam > > T: +49 331 23 70 81 66 > F: +49 331 23 70 81 67 > M: +49 162 20 91 196 > > Mail: ralf.stub...@r-institute.com > > Sitz: Potsdam > Register: AG Potsdam HRB 27966 P > Ust.-IdNr.: DE300072622 > Geschäftsführer: Prof. Dr. Dr. Karl-Kuno Kunze > > > _______________________________________________ > R-SIG-Mac mailing list > R-SIG-Mac@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-mac _______________________________________________ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
