<html><body><div>You haven't link to BLAS, and thus there are undefined reference to dgemm etc<br></div><div><br>On Dec 02, 2012, at 01:35 PM, Howard Zail <howard@zail.org> wrote:<br><br><div><blockquote type="cite"><div class="msg-quote">I am trying to build a package with RcppArmadillo code and using the new attributes-type methodology. When I compile using sourceCpp() the functions compile and work. However when I use "Rcpp.package.skeleton("NewPackage", example_code = FALSE, cpp_files = c("test_arma3.cpp"))", and then "R CMD INSTALL...." I get compilation errors. Here is some sample Armadillo code (the fastLM example) which is then followed by the compilation errors. Any help would be much appreciated.<div>Thanks,</div><div><br></div><div>Sample Code:</div><div><pre style="margin-top:0px;margin-bottom:10px;padding:5px;border:0px;font-size:13.600000381469727px;vertical-align:baseline;background-color:rgb(238,238,238);font-family:Consolas,Menlo,Monaco,'Lucida Console','Liberation Mono','DejaVu Sans Mono','Bitstream Vera Sans Mono','Courier New',monospace,serif;overflow:auto;width:auto;max-height:600px;line-height:17.600000381469727px" data-mce-style="margin-top: 0px; margin-bottom: 10px; padding: 5px; border: 0px; font-size: 13.600000381469727px; vertical-align: baseline; background-color: #eeeeee; font-family: Consolas,Menlo,Monaco,'Lucida Console','Liberation Mono','DejaVu Sans Mono','Bitstream Vera Sans Mono','Courier New',monospace,serif; overflow: auto; width: auto; max-height: 600px; line-height: 17.600000381469727px;"><code style="margin:0px;padding:0px;border:0px;font-size:13.600000381469727px;vertical-align:baseline;font-family:Consolas,Menlo,Monaco,'Lucida Console','Liberation Mono','DejaVu Sans Mono','Bitstream Vera Sans Mono','Courier New',monospace,serif" data-mce-style="margin: 0px; padding: 0px; border: 0px; font-size: 13.600000381469727px; vertical-align: baseline; font-family: Consolas,Menlo,Monaco,'Lucida Console','Liberation Mono','DejaVu Sans Mono','Bitstream Vera Sans Mono','Courier New',monospace,serif;">// [[Rcpp::depends(RcppArmadillo)]] #include <Rcpp.h> #include <RcppArmadillo.h> using namespace Rcpp; // [[Rcpp::depends(RcppArmadillo)]] #include <RcppArmadillo.h> // [[Rcpp::export]] List fastLm(NumericVector yr, NumericMatrix Xr) { int n = Xr.nrow(), k = Xr.ncol(); arma::mat X(Xr.begin(), n, k, false); arma::colvec y(yr.begin(), yr.size(), false); arma::colvec coef = arma::solve(X, y); arma::colvec resid = y - X*coef; double sig2 = arma::as_scalar(arma::trans(resid)*resid/(n-k)); arma::colvec stderrest = arma::sqrt( sig2 * arma::diagvec( arma::inv(arma::trans(X)*X)) ); return List::create(Named("coefficients") = coef, Named("stderr") = stderrest); }</code></pre></div><div> </div><div>Which produces the following errors when building the package:</div><div><br></div><div><br></div><div><pre style="margin-top:0px;margin-bottom:10px;padding:5px;border:0px;font-size:13.600000381469727px;vertical-align:baseline;background-color:rgb(238,238,238);font-family:Consolas,Menlo,Monaco,'Lucida Console','Liberation Mono','DejaVu Sans Mono','Bitstream Vera Sans Mono','Courier New',monospace,serif;overflow:auto;width:auto;max-height:600px;line-height:17.600000381469727px" data-mce-style="margin-top: 0px; margin-bottom: 10px; padding: 5px; border: 0px; font-size: 13.600000381469727px; vertical-align: baseline; background-color: #eeeeee; font-family: Consolas,Menlo,Monaco,'Lucida Console','Liberation Mono','DejaVu Sans Mono','Bitstream Vera Sans Mono','Courier New',monospace,serif; overflow: auto; width: auto; max-height: 600px; line-height: 17.600000381469727px;"><code style="margin:0px;padding:0px;border:0px;font-size:13.600000381469727px;vertical-align:baseline;font-family:Consolas,Menlo,Monaco,'Lucida Console','Liberation Mono','DejaVu Sans Mono','Bitstream Vera Sans Mono','Courier New',monospace,serif" data-mce-style="margin: 0px; padding: 0px; border: 0px; font-size: 13.600000381469727px; vertical-align: baseline; font-family: Consolas,Menlo,Monaco,'Lucida Console','Liberation Mono','DejaVu Sans Mono','Bitstream Vera Sans Mono','Courier New',monospace,serif;"> > Rcpp::compileAttributes() * Updated src/RcppExports.cpp ==> Rcmd.exe INSTALL --no-multiarch NewPackage * installing to library 'C:/Users/Howard/Documents/R/win-library/2.15' * installing *source* package 'NewPackage' ... ** libs g++ -m64 -I"C:/R/R-2-15-2/include" -DNDEBUG -I"C:/Users/Howard/Documents/R/win-library/2.15/Rcpp/include" -I"C:/Users/Howard/Documents/R/win-library/2.15/RcppArmadillo/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c RcppExports.cpp -o RcppExports.o g++ -m64 -I"C:/R/R-2-15-2/include" -DNDEBUG -I"C:/Users/Howard/Documents/R/win-library/2.15/Rcpp/include" -I"C:/Users/Howard/Documents/R/win-library/2.15/RcppArmadillo/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c test_arma3.cpp -o test_arma3.o g++ -m64 -shared -s -static-libgcc -o NewPackage.dll tmp.def RcppExports.o test_arma3.o C:/Users/Howard/Documents/R/win-library/2.15/Rcpp/lib/x64/libRcpp.a -Ld:/RCompile/CRANpkg/extralibs64/local/lib/x64 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LC:/R/R-2-15-2/bin/x64 -lR test_arma3.o:test_arma3.cpp:(.text+0xae4): undefined reference to `dgemm_' test_arma3.o:test_arma3.cpp:(.text+0x19db): undefined reference to `dgemm_' test_arma3.o:test_arma3.cpp:(.text+0x1b0c): undefined reference to `dgemv_' test_arma3.o:test_arma3.cpp:(.text$_ZN4arma6auxlib8solve_odIdNS_3MatIdEEEEbRNS2_IT_EES6_RKNS_4BaseIS4_T0_EE[_ZN4arma6auxlib8solve_odIdNS_3MatIdEEEEbRNS2_IT_EES6_RKNS_4BaseIS4_T0_EE]+0x702): undefined reference to `dgels_' test_arma3.o:test_arma3.cpp:(.text$_ZN4arma6auxlib8solve_udIdNS_3MatIdEEEEbRNS2_IT_EES6_RKNS_4BaseIS4_T0_EE[_ZN4arma6auxlib8solve_udIdNS_3MatIdEEEEbRNS2_IT_EES6_RKNS_4BaseIS4_T0_EE]+0x51c): undefined reference to `dgels_' test_arma3.o:test_arma3.cpp:(.text$_ZN4arma6auxlib10det_lapackIdEET_RKNS_3MatIS2_EEb[_ZN4arma6auxlib10det_lapackIdEET_RKNS_3MatIS2_EEb]+0x14b): undefined reference to `dgetrf_' test_arma3.o:test_arma3.cpp:(.text$_ZN4arma6auxlib5solveIdNS_3MatIdEEEEbRNS2_IT_EES6_RKNS_4BaseIS4_T0_EEb[_ZN4arma6auxlib5solveIdNS_3MatIdEEEEbRNS2_IT_EES6_RKNS_4BaseIS4_T0_EEb]+0x375): undefined reference to `dgesv_' test_arma3.o:test_arma3.cpp:(.text$_ZN4arma4gemvILb1ELb0ELb0EE15apply_blas_typeIdEEvPT_RKNS_3MatIS3_EEPKS3_S3_S3_[_ZN4arma4gemvILb1ELb0ELb0EE15apply_blas_typeIdEEvPT_RKNS_3MatIS3_EEPKS3_S3_S3_]+0x17d): undefined reference to `dgemv_' test_arma3.o:test_arma3.cpp:(.text$_ZN4arma27glue_times_redirect2_helperILb1EE5applyINS_2OpINS_3MatIdEENS_9op_htransEEES5_EEvRNS4_INT_9elem_typeEEERKNS_4GlueIS8_T0_NS_10glue_timesEEE[_ZN4arma27glue_times_redirect2_helperILb1EE5applyINS_2OpINS_3MatIdEENS_9op_htransEEES5_EEvRNS4_INT_9elem_typeEEERKNS_4GlueIS8_T0_NS_10glue_timesEEE]+0x37a): undefined reference to `dgemm_' test_arma3.o:test_arma3.cpp:(.text$_ZN4arma10op_diagvec5applyINS_2OpINS_4GlueINS2_INS_3MatIdEENS_9op_htransEEES5_NS_10glue_timesEEENS_6op_invEEEEEvRNS4_INT_9elem_typeEEERKNS2_ISC_S0_EE[_ZN4arma10op_diagvec5applyINS_2OpINS_4GlueINS2_INS_3MatIdEENS_9op_htransEEES5_NS_10glue_timesEEENS_6op_invEEEEEvRNS4_INT_9elem_typeEEERKNS2_ISC_S0_EE]+0x2c1): undefined reference to `dgetrf_' test_arma3.o:test_arma3.cpp:(.text$_ZN4arma10op_diagvec5applyINS_2OpINS_4GlueINS2_INS_3MatIdEENS_9op_htransEEES5_NS_10glue_timesEEENS_6op_invEEEEEvRNS4_INT_9elem_typeEEERKNS2_ISC_S0_EE[_ZN4arma10op_diagvec5applyINS_2OpINS_4GlueINS2_INS_3MatIdEENS_9op_htransEEES5_NS_10glue_timesEEENS_6op_invEEEEEvRNS4_INT_9elem_typeEEERKNS2_ISC_S0_EE]+0x322): undefined reference to `dgetri_' test_arma3.o:test_arma3.cpp:(.text$_ZN4arma10op_diagvec5applyINS_2OpINS_4GlueINS2_INS_3MatIdEENS_9op_htransEEES5_NS_10glue_timesEEENS_6op_invEEEEEvRNS4_INT_9elem_typeEEERKNS2_ISC_S0_EE[_ZN4arma10op_diagvec5applyINS_2OpINS_4GlueINS2_INS_3MatIdEENS_9op_htransEEES5_NS_10glue_timesEEENS_6op_invEEEEEvRNS4_INT_9elem_typeEEERKNS2_ISC_S0_EE]+0x398): undefined reference to `dgetri_' test_arma3.o:test_arma3.cpp:(.text$_ZN4arma10op_diagvec5applyINS_2OpINS_4GlueINS2_INS_3MatIdEENS_9op_htransEEES5_NS_10glue_timesEEENS_6op_invEEEEEvRNS4_INT_9elem_typeEEERKNS2_ISC_S0_EE[_ZN4arma10op_diagvec5applyINS_2OpINS_4GlueINS2_INS_3MatIdEENS_9op_htransEEES5_NS_10glue_timesEEENS_6op_invEEEEEvRNS4_INT_9elem_typeEEERKNS2_ISC_S0_EE]+0x775): undefined reference to `dgetrf_' test_arma3.o:test_arma3.cpp:(.text$_ZN4arma10op_diagvec5applyINS_2OpINS_4GlueINS2_INS_3MatIdEENS_9op_htransEEES5_NS_10glue_timesEEENS_6op_invEEEEEvRNS4_INT_9elem_typeEEERKNS2_ISC_S0_EE[_ZN4arma10op_diagvec5applyINS_2OpINS_4GlueINS2_INS_3MatIdEENS_9op_htransEEES5_NS_10glue_timesEEENS_6op_invEEEEEvRNS4_INT_9elem_typeEEERKNS2_ISC_S0_EE]+0x7d6): undefined reference to `dgetri_' test_arma3.o:test_arma3.cpp:(.text$_ZN4arma10op_diagvec5applyINS_2OpINS_4GlueINS2_INS_3MatIdEENS_9op_htransEEES5_NS_10glue_timesEEENS_6op_invEEEEEvRNS4_INT_9elem_typeEEERKNS2_ISC_S0_EE[_ZN4arma10op_diagvec5applyINS_2OpINS_4GlueINS2_INS_3MatIdEENS_9op_htransEEES5_NS_10glue_timesEEENS_6op_invEEEEEvRNS4_INT_9elem_typeEEERKNS2_ISC_S0_EE]+0x892): undefined reference to `dgetri_' collect2: ld returned 1 exit status ERROR: compilation failed for package 'NewPackage' * removing 'C:/Users/Howard/Documents/R/win-library/2.15/NewPackage' * restoring previous 'C:/Users/Howard/Documents/R/win-library/2.15/NewPackage'</code></pre></div><div class="_stretch">_______________________________________________<br> Rcpp-devel mailing list<br> <a href="mailto:Rcpp-devel@lists.r-forge.r-project.org" data-mce-href="mailto:Rcpp-devel@lists.r-forge.r-project.org">Rcpp-devel@lists.r-forge.r-project.org</a><br> <a href="https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel" data-mce-href="https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel">https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel</a><div style="width:0px; height:0px;"> </div></div></div></blockquote></div></div></body></html>