* installing *source* package ‘goat’ ... ** using staged installation ** libs using C++ compiler: ‘Debian clang version 17.0.6 (5)’ clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o In file included from RcppExports.cpp:4: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 26 | #define R_NO_REMAP | ^ :4:9: note: previous definition is here 4 | #define R_NO_REMAP 1 | ^ 1 warning generated. clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c rcpp_gene_to_geneset_scores.cpp -o rcpp_gene_to_geneset_scores.o In file included from rcpp_gene_to_geneset_scores.cpp:15: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 26 | #define R_NO_REMAP | ^ :4:9: note: previous definition is here 4 | #define R_NO_REMAP 1 | ^ rcpp_gene_to_geneset_scores.cpp:23:7: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] 23 | if ((gs_index.size() == 0) | (gs_index.size() != gs_geneindex.size()) | (gene_score.nrow() == 0) | (gene_score.ncol() == 0)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | || rcpp_gene_to_geneset_scores.cpp:23:7: note: cast one or both operands to int to silence this warning rcpp_gene_to_geneset_scores.cpp:23:7: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] 23 | if ((gs_index.size() == 0) | (gs_index.size() != gs_geneindex.size()) | (gene_score.nrow() == 0) | (gene_score.ncol() == 0)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | || rcpp_gene_to_geneset_scores.cpp:23:7: note: cast one or both operands to int to silence this warning rcpp_gene_to_geneset_scores.cpp:23:7: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] 23 | if ((gs_index.size() == 0) | (gs_index.size() != gs_geneindex.size()) | (gene_score.nrow() == 0) | (gene_score.ncol() == 0)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | || rcpp_gene_to_geneset_scores.cpp:23:7: note: cast one or both operands to int to silence this warning 4 warnings generated. clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c rcpp_null_distributions.cpp -o rcpp_null_distributions.o In file included from rcpp_null_distributions.cpp:18: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 26 | #define R_NO_REMAP | ^ :4:9: note: previous definition is here 4 | #define R_NO_REMAP 1 | ^ rcpp_null_distributions.cpp:40:7: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] 40 | if ((gene_scores.size() == 0) | (gene_scores.size() > 50000)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | || rcpp_null_distributions.cpp:40:7: note: cast one or both operands to int to silence this warning rcpp_null_distributions.cpp:48:7: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] 48 | if ((geneset_sizes.size() == 0) | (geneset_sizes.size() > 10000)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | || rcpp_null_distributions.cpp:48:7: note: cast one or both operands to int to silence this warning 3 warnings generated. clang++-17 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-clang-17/lib -Wl,-O1 -o goat.so RcppExports.o rcpp_gene_to_geneset_scores.o rcpp_null_distributions.o -llapack -L/home/hornik/tmp/R-d-clang-17/lib -lRblas -L/usr/lib/llvm-17/lib -lFortran_main -lFortranRuntime -lFortranDecimal -lm -L/home/hornik/tmp/R-d-clang-17/lib -lR installing to /srv/hornik/tmp/CRAN/goat.Rcheck/00LOCK-goat/00new/goat/libs ** R ** data *** moving datasets to lazyload DB ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (goat)