* installing *source* package ‘nlmixr2est’ ...
** this is package ‘nlmixr2est’ version ‘7.0.2’
** package ‘nlmixr2est’ successfully unpacked and MD5 sums checked
** using staged installation
--------[begin src/Makevars]--------
# -*- mode: makefile-gmake -*-
ARMA=/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include
BH=/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include
RCPP=/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include
RXP=/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include
EG=/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include
CXX_STD = CXX17
PKG_LIBS = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) $(SHLIB_OPENMP_CXXFLAGS)
PKG_CXXFLAGS = -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"$(BH)" -I"$(RCPP)" -I"$(ARMA)" -I"$(RXP)" -I"$(EG)" $(SHLIB_OPENMP_CXXFLAGS) -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE
SHLIB_LDFLAGS = $(SHLIB_CXXLDFLAGS)
SHLIB_LD = $(SHLIB_CXXLD)
SOURCES_C = init.c rprintf.c merge3.c lbfgsR.c utilc.c
SOURCES_CPP = uninformativeEtas.cpp nlm.cpp filterNormalLike.cpp inner.cpp odeSwap.cpp imp.cpp npCommon.cpp npag.cpp npb.cpp foceiGrad.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 rxcmp.cpp vaeEncoder.cpp
OBJECTS = $(SOURCES_CPP:.cpp=.o) $(SOURCES_C:.c=.o)
all: $(SHLIB)
$(SHLIB): $(OBJECTS)
--------[end src/Makevars]--------
** libs
specified C++17
using C compiler: ‘Apple clang version 17.0.0 (clang-1700.3.19.1)’
using C++ compiler: ‘Apple clang version 17.0.0 (clang-1700.3.19.1)’
using C++17
using SDK: ‘MacOSX14.5.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c uninformativeEtas.cpp -o uninformativeEtas.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c nlm.cpp -o nlm.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c filterNormalLike.cpp -o filterNormalLike.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c inner.cpp -o inner.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c odeSwap.cpp -o odeSwap.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c imp.cpp -o imp.o
In file included from nlm.cpp:6:
./censEst.h:308:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
308 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:267:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
267 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:388:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
388 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:347:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
347 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:506:14: warning: unused variable 'rx_expr_48' [-Wunused-variable]
506 | double rx_expr_48 = erf(rx_expr_44);
| ^~~~~~~~~~
./censEst.h:507:14: warning: unused variable 'rx_expr_49' [-Wunused-variable]
507 | double rx_expr_49 = erf(rx_expr_46);
| ^~~~~~~~~~
./censEst.h:433:12: warning: unused variable 'rx_expr_29' [-Wunused-variable]
433 | double rx_expr_29 = erf(rx_expr_26);
| ^~~~~~~~~~
./censEst.h:434:12: warning: unused variable 'rx_expr_30' [-Wunused-variable]
434 | double rx_expr_30 = erf(rx_expr_28);
| ^~~~~~~~~~
In file included from inner.cpp:8:
./censEst.h:308:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
308 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:267:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
267 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:388:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
388 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:347:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
347 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:630:14: warning: unused variable 'rx_expr_34' [-Wunused-variable]
630 | double rx_expr_34 = erf(rx_expr_31);
| ^~~~~~~~~~
./censEst.h:595:12: warning: unused variable 'rx_expr_18' [-Wunused-variable]
595 | double rx_expr_18 = erf(rx_expr_17);
| ^~~~~~~~~~
./censEst.h:506:14: warning: unused variable 'rx_expr_48' [-Wunused-variable]
506 | double rx_expr_48 = erf(rx_expr_44);
| ^~~~~~~~~~
./censEst.h:507:14: warning: unused variable 'rx_expr_49' [-Wunused-variable]
507 | double rx_expr_49 = erf(rx_expr_46);
| ^~~~~~~~~~
./censEst.h:433:12: warning: unused variable 'rx_expr_29' [-Wunused-variable]
433 | double rx_expr_29 = erf(rx_expr_26);
| ^~~~~~~~~~
./censEst.h:434:12: warning: unused variable 'rx_expr_30' [-Wunused-variable]
434 | double rx_expr_30 = erf(rx_expr_28);
| ^~~~~~~~~~
./censEst.h:630:14: warning: unused variable 'rx_expr_34' [-Wunused-variable]
630 | double rx_expr_34 = erf(rx_expr_31);
| ^~~~~~~~~~
./censEst.h:595:12: warning: unused variable 'rx_expr_18' [-Wunused-variable]
595 | double rx_expr_18 = erf(rx_expr_17);
| ^~~~~~~~~~
nlm.cpp:455:7: warning: unused variable 'cores' [-Wunused-variable]
455 | int cores = getOpCores(op);
| ^~~~~
nlm.cpp:617:7: warning: unused variable 'cores' [-Wunused-variable]
617 | int cores = getOpCores(op);
| ^~~~~
nlm.cpp:674:7: warning: unused variable 'cores' [-Wunused-variable]
674 | int cores = getOpCores(op);
| ^~~~~
nlm.cpp:768:12: warning: unused variable 'llik' [-Wunused-variable]
768 | double llik;
| ^~~~
inner.cpp:5472:26: warning: variable 'k' set but not used [-Wunused-but-set-variable]
5472 | unsigned int i, j = 0, k = 0, ii=0, jj = 0, iA=0, iB=0, iH=0, iVid=0, iLO=0;
| ^
inner.cpp:5472:59: warning: variable 'iH' set but not used [-Wunused-but-set-variable]
5472 | unsigned int i, j = 0, k = 0, ii=0, jj = 0, iA=0, iB=0, iH=0, iVid=0, iLO=0;
| ^
inner.cpp:6784:7: warning: unused variable 'finalize' [-Wunused-variable]
6784 | int finalize = 0, i = 0;
| ^~~~~~~~
inner.cpp:6851:7: warning: unused variable 'finalize' [-Wunused-variable]
6851 | int finalize=0, i = 0;
| ^~~~~~~~
inner.cpp:9228:12: warning: unused variable 'k' [-Wunused-variable]
9228 | int j=0, k=0, l=0;
| ^
inner.cpp:9228:17: warning: unused variable 'l' [-Wunused-variable]
9228 | int j=0, k=0, l=0;
| ^
imp.cpp:297:8: warning: unused variable 'doParProp' [-Wunused-variable]
297 | bool doParProp = (cores > 1);
| ^~~~~~~~~
imp.cpp:366:8: warning: unused variable 'doPar' [-Wunused-variable]
366 | bool doPar = (cores > 1);
| ^~~~~
imp.cpp:632:8: warning: unused variable 'doParCov' [-Wunused-variable]
632 | bool doParCov = (cores > 1) && (impNmix() == 1) && !impPoolSizing();
| ^~~~~~~~
nlm.cpp:323:20: warning: unused function 'nlmIndHasBadSolve' [-Wunused-function]
323 | static inline bool nlmIndHasBadSolve(rx_solving_options *op,
| ^~~~~~~~~~~~~~~~~
inner.cpp:12106:12: warning: unused variable 'hCentral' [-Wunused-variable]
12106 | double hCentral = hs[hs.size() / 2];
| ^~~~~~~~
inner.cpp:13104:7: warning: unused variable 'kcores' [-Wunused-variable]
13104 | int kcores = cores < 1 ? 1 : cores;
| ^~~~~~
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c npCommon.cpp -o npCommon.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c npag.cpp -o npag.o
imp.cpp:100:22: warning: unused function 'impTScaleU' [-Wunused-function]
100 | static inline double impTScaleU(double u, double df) {
| ^~~~~~~~~~
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c npb.cpp -o npb.o
In file included from npCommon.cpp:8:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
273 | Index count = 0;
| ^
In file included from npCommon.cpp:8:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
78 | Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree
| ^
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
79 | Index nsuper_et = 0; // Number of relaxed snodes in the original etree
| ^
In file included from npCommon.cpp:8:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
72 | Index replacements = 0;
| ^
In file included from npCommon.cpp:8:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
246 | int count = 0;
| ^
15 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c foceiGrad.cpp -o foceiGrad.o
In file included from foceiGrad.cpp:15:
./censEst.h:308:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
308 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:267:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
267 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:388:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
388 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:347:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
347 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:506:14: warning: unused variable 'rx_expr_48' [-Wunused-variable]
506 | double rx_expr_48 = erf(rx_expr_44);
| ^~~~~~~~~~
./censEst.h:507:14: warning: unused variable 'rx_expr_49' [-Wunused-variable]
507 | double rx_expr_49 = erf(rx_expr_46);
| ^~~~~~~~~~
./censEst.h:433:12: warning: unused variable 'rx_expr_29' [-Wunused-variable]
433 | double rx_expr_29 = erf(rx_expr_26);
| ^~~~~~~~~~
./censEst.h:434:12: warning: unused variable 'rx_expr_30' [-Wunused-variable]
434 | double rx_expr_30 = erf(rx_expr_28);
| ^~~~~~~~~~
./censEst.h:630:14: warning: unused variable 'rx_expr_34' [-Wunused-variable]
630 | double rx_expr_34 = erf(rx_expr_31);
| ^~~~~~~~~~
./censEst.h:595:12: warning: unused variable 'rx_expr_18' [-Wunused-variable]
595 | double rx_expr_18 = erf(rx_expr_17);
| ^~~~~~~~~~
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c shi21.cpp -o shi21.o
4 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c nearPD.cpp -o nearPD.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c censEst.cpp -o censEst.o
5 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c saem.cpp -o saem.o
In file included from censEst.cpp:2:
./censEst.h:308:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
308 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:267:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
267 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:388:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
388 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:347:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
347 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:506:14: warning: unused variable 'rx_expr_48' [-Wunused-variable]
506 | double rx_expr_48 = erf(rx_expr_44);
| ^~~~~~~~~~
./censEst.h:507:14: warning: unused variable 'rx_expr_49' [-Wunused-variable]
507 | double rx_expr_49 = erf(rx_expr_46);
| ^~~~~~~~~~
./censEst.h:433:12: warning: unused variable 'rx_expr_29' [-Wunused-variable]
433 | double rx_expr_29 = erf(rx_expr_26);
| ^~~~~~~~~~
./censEst.h:434:12: warning: unused variable 'rx_expr_30' [-Wunused-variable]
434 | double rx_expr_30 = erf(rx_expr_28);
| ^~~~~~~~~~
./censEst.h:630:14: warning: unused variable 'rx_expr_34' [-Wunused-variable]
630 | double rx_expr_34 = erf(rx_expr_31);
| ^~~~~~~~~~
./censEst.h:595:12: warning: unused variable 'rx_expr_18' [-Wunused-variable]
595 | double rx_expr_18 = erf(rx_expr_17);
| ^~~~~~~~~~
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c expandNlme.cpp -o expandNlme.o
In file included from saem.cpp:12:
./censEst.h:308:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
308 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:267:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
267 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:388:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
388 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:347:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
347 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:506:14: warning: unused variable 'rx_expr_48' [-Wunused-variable]
506 | double rx_expr_48 = erf(rx_expr_44);
| ^~~~~~~~~~
./censEst.h:507:14: warning: unused variable 'rx_expr_49' [-Wunused-variable]
507 | double rx_expr_49 = erf(rx_expr_46);
| ^~~~~~~~~~
./censEst.h:433:12: warning: unused variable 'rx_expr_29' [-Wunused-variable]
433 | double rx_expr_29 = erf(rx_expr_26);
| ^~~~~~~~~~
./censEst.h:434:12: warning: unused variable 'rx_expr_30' [-Wunused-variable]
434 | double rx_expr_30 = erf(rx_expr_28);
| ^~~~~~~~~~
./censEst.h:630:14: warning: unused variable 'rx_expr_34' [-Wunused-variable]
630 | double rx_expr_34 = erf(rx_expr_31);
| ^~~~~~~~~~
./censEst.h:595:12: warning: unused variable 'rx_expr_18' [-Wunused-variable]
595 | double rx_expr_18 = erf(rx_expr_17);
| ^~~~~~~~~~
10 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c npde.cpp -o npde.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c shrink.cpp -o shrink.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c ires.cpp -o ires.o
10 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c res.cpp -o res.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c cwres.cpp -o cwres.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c censResid.cpp -o censResid.o
res.cpp:11:7: warning: unused variable 'idSize' [-Wunused-variable]
11 | int idSize = ID.size();
| ^~~~~~
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c cholse.cpp -o cholse.o
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c neldermead.cpp -o neldermead.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c resid.cpp -o resid.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c slice.cpp -o slice.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExportMod.cpp -o RcppExportMod.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c rxcmp.cpp -o rxcmp.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include" -I"/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include" -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -DNLMIXR2EST_HAS_SETINDCMT -DNLMIXR2EST_HAS_ESSHAPE -fPIC -falign-functions=64 -Wall -g -O2 -c vaeEncoder.cpp -o vaeEncoder.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c init.c -o init.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rprintf.c -o rprintf.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c merge3.c -o merge3.o
In file included from RcppExports.cpp:4:
In file included from ./../inst/include/nlmixr2est.h:7:
In file included from ./../inst/include/nlmixr2est_RcppExports.h:8:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
273 | Index count = 0;
| ^
In file included from RcppExports.cpp:4:
In file included from ./../inst/include/nlmixr2est.h:7:
In file included from ./../inst/include/nlmixr2est_RcppExports.h:8:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
78 | Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree
| ^
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
79 | Index nsuper_et = 0; // Number of relaxed snodes in the original etree
| ^
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c lbfgsR.c -o lbfgsR.o
In file included from RcppExports.cpp:4:
In file included from ./../inst/include/nlmixr2est.h:7:
In file included from ./../inst/include/nlmixr2est_RcppExports.h:8:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
72 | Index replacements = 0;
| ^
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/BH/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/n1qn1/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lbfgsb3c/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/lotri/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/rxode2/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c utilc.c -o utilc.o
In file included from RcppExports.cpp:4:
In file included from ./../inst/include/nlmixr2est.h:7:
In file included from ./../inst/include/nlmixr2est_RcppExports.h:8:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
246 | int count = 0;
| ^
5 warnings generated.
10 warnings generated.
18 warnings generated.
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o nlmixr2est.so uninformativeEtas.o nlm.o filterNormalLike.o inner.o odeSwap.o imp.o npCommon.o npag.o npb.o foceiGrad.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 rxcmp.o vaeEncoder.o init.o rprintf.o merge3.o lbfgsR.o utilc.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0 -L/opt/gfortran/lib -lemutls_w -lheapt_w -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R
installing to /Volumes/Builds/packages/sonoma-arm64/results/4.6/nlmixr2est.Rcheck/00LOCK-nlmixr2est/00new/nlmixr2est/libs
** generating debug symbols (dSYM)
** 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)