############################################################################## ############################################################################## ### ### Running command: ### ### chmod a+r GeneGeneInteR -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data GeneGeneInteR ### ############################################################################## ############################################################################## * checking for file 'GeneGeneInteR/DESCRIPTION' ... OK * preparing 'GeneGeneInteR': * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package to build vignettes ----------------------------------- * installing *source* package 'GeneGeneInteR' ... ** this is package 'GeneGeneInteR' version '1.33.0' ** using staged installation ** libs using C++ compiler: 'G__~1.EXE (GCC) 13.3.0' g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -DR_NO_REMAP -c chclust.cpp -o chclust.o In file included from chclust.cpp:7: chclust.cpp: In function 'SEXPREC* chclust_c(SEXP, SEXP)': chclust.cpp:43:29: error: 'allocVector' was not declared in this scope; did you mean 'Rf_allocVector'? 43 | PROTECT(eMessage = allocVector(STRSXP, 1)); | ^~~~~~~~~~~ E:/biocbuild/bbs-3.21-bioc/R/include/Rinternals.h:388:36: note: in definition of macro 'PROTECT' 388 | #define PROTECT(s) Rf_protect(s) | ^ chclust.cpp:44:38: error: 'mkChar' was not declared in this scope; did you mean 'char'? 44 | SET_STRING_ELT(eMessage, 0, mkChar("Error in Conslink C++ code")); | ^~~~~~ | char chclust.cpp:50:29: error: 'allocVector' was not declared in this scope; did you mean 'Rf_allocVector'? 50 | PROTECT(eMessage = allocVector(STRSXP, 1)); | ^~~~~~~~~~~ E:/biocbuild/bbs-3.21-bioc/R/include/Rinternals.h:388:36: note: in definition of macro 'PROTECT' 388 | #define PROTECT(s) Rf_protect(s) | ^ chclust.cpp:51:38: error: 'mkChar' was not declared in this scope; did you mean 'char'? 51 | SET_STRING_ELT(eMessage, 0, mkChar("Error in ConISS C++ code")); | ^~~~~~ | char chclust.cpp:56:26: error: 'allocVector' was not declared in this scope; did you mean 'Rf_allocVector'? 56 | PROTECT(eMessage = allocVector(STRSXP, 1)); | ^~~~~~~~~~~ E:/biocbuild/bbs-3.21-bioc/R/include/Rinternals.h:388:36: note: in definition of macro 'PROTECT' 388 | #define PROTECT(s) Rf_protect(s) | ^ chclust.cpp:57:35: error: 'mkChar' was not declared in this scope; did you mean 'char'? 57 | SET_STRING_ELT(eMessage, 0, mkChar("Unknown clustering method")); | ^~~~~~ | char chclust.cpp:61:20: error: 'allocVector' was not declared in this scope; did you mean 'Rf_allocVector'? 61 | PROTECT(sDend = allocVector(REALSXP, nr-1)); | ^~~~~~~~~~~ E:/biocbuild/bbs-3.21-bioc/R/include/Rinternals.h:388:36: note: in definition of macro 'PROTECT' 388 | #define PROTECT(s) Rf_protect(s) | ^ make: *** [E:/biocbuild/bbs-3.21-bioc/R/etc/x64/Makeconf:296: chclust.o] Error 1 ERROR: compilation failed for package 'GeneGeneInteR' * removing 'E:/biocbuild/bbs-3.21-bioc/tmpdir/RtmpITxEhu/Rinst3ee43b295a1f/GeneGeneInteR' ----------------------------------- ERROR: package installation failed