* installing *source* package ‘nlmixr2est’ ...
** package ‘nlmixr2est’ successfully unpacked and MD5 sums checked
** using staged installation
--------[begin src/Makevars]--------
# -*- mode: makefile-gmake -*-
ARMA=/data/gannet/ripley/R/test-clang/RcppArmadillo/include
BH=/data/gannet/ripley/R/test-clang/BH/include
RCPP=/data/gannet/ripley/R/test-clang/Rcpp/include
RXP=/data/gannet/ripley/R/test-clang/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 = nlm.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: ‘clang version 18.1.4’
using C++ compiler: ‘clang version 18.1.4’
using C++17
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/nlmixr2est/src'
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c nlm.cpp -o nlm.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c filterNormalLike.cpp -o filterNormalLike.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c inner.cpp -o inner.o
nlm.cpp:412:7: warning: unused variable 'cores' [-Wunused-variable]
412 | int cores = op->cores;
| ^~~~~
nlm.cpp:544:7: warning: unused variable 'cores' [-Wunused-variable]
544 | int cores = op->cores;
| ^~~~~
nlm.cpp:627:12: warning: unused variable 'llik' [-Wunused-variable]
627 | double llik;
| ^~~~
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c shi21.cpp -o shi21.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c nearPD.cpp -o nearPD.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c censEst.cpp -o censEst.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c saem.cpp -o saem.o
3 warnings generated.
inner.cpp:3165:26: warning: variable 'k' set but not used [-Wunused-but-set-variable]
3165 | unsigned int i, j = 0, k = 0, ii=0, jj = 0, iA=0, iB=0, iH=0, iVid=0, iLO=0;
| ^
inner.cpp:3165:59: warning: variable 'iH' set but not used [-Wunused-but-set-variable]
3165 | unsigned int i, j = 0, k = 0, ii=0, jj = 0, iA=0, iB=0, iH=0, iVid=0, iLO=0;
| ^
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c expandNlme.cpp -o expandNlme.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c npde.cpp -o npde.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c shrink.cpp -o shrink.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c ires.cpp -o ires.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c res.cpp -o res.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c cwres.cpp -o cwres.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c censResid.cpp -o censResid.o
npde.cpp:129:15: warning: variable 'hi' set but not used [-Wunused-but-set-variable]
129 | double low, hi, low2, hi2;
| ^
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c cholse.cpp -o cholse.o
1 warning generated.
2 warnings generated.
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c neldermead.cpp -o neldermead.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c resid.cpp -o resid.o
res.cpp:17:7: warning: unused variable 'idSize' [-Wunused-variable]
17 | int idSize = ID.size();
| ^~~~~~
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c slice.cpp -o slice.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c RcppExportMod.cpp -o RcppExportMod.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -isystem"/data/gannet/ripley/R/test-clang/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c RcppExports.cpp -o RcppExports.o
1 warning generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rprintf.c -o rprintf.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c merge3.c -o merge3.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lbfgsR.c -o lbfgsR.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lbfgsb3c/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/rxode2/include' -I'/data/gannet/ripley/R/test-clang/rxode2parse/include' -I'/data/gannet/ripley/R/test-clang/rxode2random/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c utilc.c -o utilc.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -o nlmixr2est.so nlm.o 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 -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lFortran_main -lFortranRuntime -lFortranDecimal -lm -fopenmp
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/nlmixr2est/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/nlmixr2est/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/nlmixr2est/src'
installing to /data/gannet/ripley/R/packages/tests-clang/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)