* installing *source* package ‘nlmixr2est’ ... ** using staged installation --------[begin src/Makevars]-------- # -*- mode: makefile-gmake -*- ARMA=/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include BH=/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include RCPP=/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include RXP=/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include CXX_STD = CXX17 PKG_LIBS = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) $(SHLIB_OPENMP_CXXFLAGS) PKG_CXXFLAGS = -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"$(BH)" -isystem"$(RCPP)" -isystem"$(ARMA)" -isystem"$(RXP)" $(SHLIB_OPENMP_CXXFLAGS) -DARMA_64BIT_WORD=1 SHLIB_LDFLAGS = $(SHLIB_CXXLDFLAGS) SHLIB_LD = $(SHLIB_CXXLD) SOURCES_C = init.c rprintf.c merge3.c lbfgsR.c utilc.c SOURCES_CPP = filterNormalLike.cpp inner.cpp shi21.cpp nearPD.cpp censEst.cpp saem.cpp expandNlme.cpp npde.cpp shrink.cpp ires.cpp res.cpp cwres.cpp censResid.cpp cholse.cpp neldermead.cpp resid.cpp slice.cpp RcppExportMod.cpp RcppExports.cpp OBJECTS = $(SOURCES_CPP:.cpp=.o) $(SOURCES_C:.c=.o) all: $(SHLIB) $(SHLIB): $(OBJECTS) --------[end src/Makevars]-------- ** libs using C compiler: ‘Debian clang version 16.0.6 (15)’ using C++ compiler: ‘Debian clang version 16.0.6 (15)’ using C++17 clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c filterNormalLike.cpp -o filterNormalLike.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c inner.cpp -o inner.o inner.cpp:721:11: warning: unused variable 'llikObs' [-Wunused-variable] double *llikObs = fInd->llikObs; ^ inner.cpp:1054:11: warning: unused variable 'oldNeq' [-Wunused-variable] int oldNeq = op->neq; ^ inner.cpp:2333:16: warning: unused variable 'fInd' [-Wunused-variable] focei_ind *fInd = &(inds_focei[j]); ^ inner.cpp:3194:26: warning: variable 'k' set but not used [-Wunused-but-set-variable] unsigned int i, j = 0, k = 0, ii=0, jj = 0, iA=0, iB=0, iH=0, iVid=0, iLO=0; ^ inner.cpp:3194:59: warning: variable 'iH' set but not used [-Wunused-but-set-variable] unsigned int i, j = 0, k = 0, ii=0, jj = 0, iA=0, iB=0, iH=0, iVid=0, iLO=0; ^ inner.cpp:6832:7: warning: unused variable 'totN' [-Wunused-variable] int totN=op_focei.ntheta + op_focei.omegan; ^ 6 warnings generated. clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c shi21.cpp -o shi21.o shi21.cpp:68:10: warning: unused variable 'h0' [-Wunused-variable] double h0=h; ^ shi21.cpp:69:47: warning: unused variable 'tmp' [-Wunused-variable] double l = 0, u = R_PosInf, rcur = NA_REAL, tmp; ^ shi21.cpp:192:10: warning: unused variable 'h0' [-Wunused-variable] double h0=h, tmp = h; ^ shi21.cpp:192:16: warning: unused variable 'tmp' [-Wunused-variable] double h0=h, tmp = h; ^ 4 warnings generated. clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c nearPD.cpp -o nearPD.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c censEst.cpp -o censEst.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c saem.cpp -o saem.o saem.cpp:2031:16: warning: unused variable 'nNanWarn' [-Wunused-variable] unsigned int nNanWarn=0; ^ saem.cpp:2089:8: warning: variable 'doIni' set but not used [-Wunused-but-set-variable] bool doIni = false; ^ 2 warnings generated. clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c expandNlme.cpp -o expandNlme.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c npde.cpp -o npde.o npde.cpp:129:15: warning: variable 'hi' set but not used [-Wunused-but-set-variable] double low, hi, low2, hi2; ^ npde.cpp:434:7: warning: unused variable 'cores' [-Wunused-variable] int cores = as(opt["cores"]); ^ 2 warnings generated. clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c shrink.cpp -o shrink.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c ires.cpp -o ires.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c res.cpp -o res.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c cwres.cpp -o cwres.o cwres.cpp:9:7: warning: unused variable 'etaFulli' [-Wunused-variable] int etaFulli = nid-1; ^ cwres.cpp:10:10: warning: unused variable 'curEta' [-Wunused-variable] double curEta=0.0; ^ 2 warnings generated. clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c censResid.cpp -o censResid.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c cholse.cpp -o cholse.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c neldermead.cpp -o neldermead.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c resid.cpp -o resid.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c slice.cpp -o slice.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c RcppExportMod.cpp -o RcppExportMod.o clang++-16 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O3 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o clang-16 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c init.c -o init.o clang-16 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c rprintf.c -o rprintf.o clang-16 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c merge3.c -o merge3.o clang-16 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c lbfgsR.c -o lbfgsR.o clang-16 -I"/home/hornik/tmp/R-d-clang-16/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c utilc.c -o utilc.o clang++-16 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-clang-16/lib -Wl,-O1 -o nlmixr2est.so filterNormalLike.o inner.o shi21.o nearPD.o censEst.o saem.o expandNlme.o npde.o shrink.o ires.o res.o cwres.o censResid.o cholse.o neldermead.o resid.o slice.o RcppExportMod.o RcppExports.o init.o rprintf.o merge3.o lbfgsR.o utilc.o -llapack -L/home/hornik/tmp/R-d-clang-16/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R-d-clang-16/lib -lR installing to /srv/hornik/tmp/CRAN/nlmixr2est.Rcheck/00LOCK-nlmixr2est/00new/nlmixr2est/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (nlmixr2est)