Hi Steven, On 16 December 2014 at 19:16, Steven McKinney wrote: | | Hi, | | I installed R-3.1.2 today, and am having trouble installing Rcpp. | | The error message is | | Error in dyn.load(file, DLLpath = DLLpath, ...) : | unable to load shared object '/share/data/apps/R/R-3.1.2/lib64/R/library/Rcpp/libs/Rcpp.so': | /share/data/apps/R/R-3.1.2/lib64/R/library/Rcpp/libs/Rcpp.so: undefined symbol: _ZTISo | | so there's some library I haven't linked against. I've combed the vignettes and the web, but haven't found anything specific for this symbol, and haven't found a list of libraries that need to be specified when compiling Rcpp. | | Can anyone tell me what libraries I should be linking against?
The c++filt tool is helpful: edd@max:~$ c++filt _ZTISo typeinfo for std::basic_ostream<char, std::char_traits<char> > edd@max:~$ This suggests basic iostream, ie C++ input/output. And indeed ... | Best | | Steven McKinney | | Details: | | This is a custom install for a cluster situation, so libraries are in non-standard locations so as to be accessible to all machines in the cluster and local network. | | The error message in R is: | | libs | /share/data/usr/bin/gcc44 -I/share/data/apps/R/R-3.1.2/lib64/R/include -DNDEBUG -I../inst/include/ -I/share/data/usr/local/include -I/share/data/usr/include -fpic -g -O2 -c Date.cpp -o Date.o That is a) a bug OUCH for having to cope with a five-year old compiler (gcc-4.4) but b) a serious error on your part: you generally want __g++__ and not gcc for C++ code. One of the differences is that g++ automagically links against the C++ libraries. That may be all you need. Dirk | /share/data/usr/bin/gcc44 -I/share/data/apps/R/R-3.1.2/lib64/R/include -DNDEBUG -I../inst/include/ -I/share/data/usr/local/include -I/share/data/usr/include -fpic -g -O2 -c Module.cpp -o Module.o | /share/data/usr/bin/gcc44 -I/share/data/apps/R/R-3.1.2/lib64/R/include -DNDEBUG -I../inst/include/ -I/share/data/usr/local/include -I/share/data/usr/include -fpic -g -O2 -c Rcpp_init.cpp -o Rcpp_init.o | /share/data/usr/bin/gcc44 -I/share/data/apps/R/R-3.1.2/lib64/R/include -DNDEBUG -I../inst/include/ -I/share/data/usr/local/include -I/share/data/usr/include -fpic -g -O2 -c api.cpp -o api.o | /share/data/usr/bin/gcc44 -I/share/data/apps/R/R-3.1.2/lib64/R/include -DNDEBUG -I../inst/include/ -I/share/data/usr/local/include -I/share/data/usr/include -fpic -g -O2 -c attributes.cpp -o attributes.o | /share/data/usr/bin/gcc44 -I/share/data/apps/R/R-3.1.2/lib64/R/include -DNDEBUG -I../inst/include/ -I/share/data/usr/local/include -I/share/data/usr/include -fpic -g -O2 -c barrier.cpp -o barrier.o | /share/data/usr/bin/gcc44 -shared -L/share/data/usr/local/lib64 -L/share/data/usr/lib64 -o Rcpp.so Date.o Module.o Rcpp_init.o api.o attributes.o barrier.o | installing to /share/data/apps/R/R-3.1.2/lib64/R/library/Rcpp/libs | ** R | ** inst | ** preparing package for lazy loading | ** help | *** installing help indices | ** building package indices | ** installing vignettes | ** testing if installed package can be loaded | Error in dyn.load(file, DLLpath = DLLpath, ...) : | unable to load shared object '/share/data/apps/R/R-3.1.2/lib64/R/library/Rcpp/libs/Rcpp.so': | /share/data/apps/R/R-3.1.2/lib64/R/library/Rcpp/libs/Rcpp.so: undefined symbol: _ZTISo | Error: loading failed | Execution halted | ERROR: loading failed | | | | | > sessionInfo() | R version 3.1.2 (2014-10-31) | Platform: x86_64-unknown-linux-gnu (64-bit) | | locale: | [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C | [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 | [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 | [7] LC_PAPER=en_US.UTF-8 LC_NAME=C | [9] LC_ADDRESS=C LC_TELEPHONE=C | [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C | | attached base packages: | [1] stats graphics grDevices utils datasets methods base | | loaded via a namespace (and not attached): | [1] tcltk_3.1.2 tools_3.1.2 | > | | | | | | Steven McKinney, Ph.D. | | Statistician | Molecular Oncology and Breast Cancer Program | British Columbia Cancer Research Centre | | email: smckinney +at+ bccrc +dot+ ca | | tel: 604-675-8000 x7561 | | BCCRC | Molecular Oncology | 675 West 10th Ave, Floor 4 | Vancouver B.C. | V5Z 1L3 | Canada | _______________________________________________ | Rcpp-devel mailing list | Rcpp-devel@lists.r-forge.r-project.org | https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel -- http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org _______________________________________________ Rcpp-devel mailing list Rcpp-devel@lists.r-forge.r-project.org https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel
