downloading reverse dependencies ... downloading ruminate_0.2.2.tar.gz ... ok installing dependencies ‘formods’, ‘nlmixr2lib’, ‘nonmem2rx’, ‘onbrand’, ‘PKNCA’, ‘prompter’, ‘ubiquity’ also installing the dependencies ‘n1qn1’, ‘nlmixr2est’ begin installing package ‘n1qn1’ begin installing package ‘prompter’ begin installing package ‘nonmem2rx’ begin installing package ‘onbrand’ begin installing package ‘PKNCA’ * installing *source* package ‘prompter’ ... ** package ‘prompter’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (prompter) * installing *source* package ‘onbrand’ ... ** package ‘onbrand’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (onbrand) begin installing package ‘formods’ * installing *source* package ‘PKNCA’ ... ** package ‘PKNCA’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (PKNCA) begin installing package ‘ubiquity’ * installing *source* package ‘n1qn1’ ... ** package ‘n1qn1’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ using C++ compiler: ‘g++-13 (Debian 13.2.0-13) 13.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpelGtYs/R.INSTALLcaf5c1204fe08/n1qn1/src' gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ajour.c -o ajour.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c calmaj.c -o calmaj.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c n1qn1_all.c -o n1qn1_all.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c proj.c -o proj.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c satur.c -o satur.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExpMod.cpp -o RcppExpMod.o g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o n1qn1.so ajour.o calmaj.o init.o n1qn1_all.o proj.o satur.o RcppExpMod.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpelGtYs/R.INSTALLcaf5c1204fe08/n1qn1/src' installing to /home/hornik/tmp/CRAN/Library/00LOCK-n1qn1/00new/n1qn1/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (n1qn1) begin installing package ‘nlmixr2est’ * installing *source* package ‘formods’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (formods) * installing *source* package ‘ubiquity’ ... ** package ‘ubiquity’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ubiquity) * installing *source* package ‘nonmem2rx’ ... ** package ‘nonmem2rx’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ using C++ compiler: ‘g++-13 (Debian 13.2.0-13) 13.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpTWhvCv/R.INSTALLcaf5632aeeb66/nonmem2rx/src' g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c abbrec.c -o abbrec.o abbrec.c: In function ‘wprint_parsetree_abbrec’: abbrec.c:276:32: warning: value computed is not used [-Wunused-value] 276 | abbrecProcessSeq(name, pn) || | ^~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c abbrev.c -o abbrev.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c data.c -o data.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c input.c -o input.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lst.c -o lst.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mem.c -o mem.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c model.c -o model.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nonmemId.cpp -o nonmemId.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c omega.c -o omega.o omega.c: In function ‘wprint_parsetree_omega’: omega.c:378:5: warning: value computed is not used [-Wunused-value] 378 | || omegaParseNameOption(_arg_) | ^~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c records.c -o records.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sbuf.c -o sbuf.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c strncmpi.c -o strncmpi.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sub.c -o sub.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c tab.c -o tab.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c theta.c -o theta.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c util.cpp -o util.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c validate.c -o validate.o g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o nonmem2rx.so RcppExports.o abbrec.o abbrev.o data.o init.o input.o lst.o mem.o model.o nonmemId.o omega.o records.o sbuf.o strncmpi.o sub.o tab.o theta.o util.o validate.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpTWhvCv/R.INSTALLcaf5632aeeb66/nonmem2rx/src' installing to /home/hornik/tmp/CRAN/Library/00LOCK-nonmem2rx/00new/nonmem2rx/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** 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 (nonmem2rx) * installing *source* package ‘nlmixr2est’ ... ** package ‘nlmixr2est’ successfully unpacked and MD5 sums checked ** using staged installation --------[begin src/Makevars]-------- # -*- mode: makefile-gmake -*- ARMA=/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include BH=/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include RCPP=/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include RXP=/home/hornik/lib/R/Library/4.5/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 = 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: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ using C++ compiler: ‘g++-13 (Debian 13.2.0-13) 13.2.0’ using C++17 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpkJGaNc/R.INSTALLcb09a71e6e2c3/nlmixr2est/src' g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c nlm.cpp -o nlm.o nlm.cpp: In function ‘arma::vec nlmSolveF(arma::vec&)’: nlm.cpp:412:7: warning: unused variable ‘cores’ [-Wunused-variable] 412 | int cores = op->cores; | ^~~~~ nlm.cpp: In function ‘arma::mat nlmSolveGrad(arma::vec&)’: nlm.cpp:544:7: warning: unused variable ‘cores’ [-Wunused-variable] 544 | int cores = op->cores; | ^~~~~ nlm.cpp: In function ‘Rcpp::NumericVector solveGradNls(arma::vec&, int)’: nlm.cpp:627:12: warning: unused variable ‘llik’ [-Wunused-variable] 627 | double llik; | ^~~~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c filterNormalLike.cpp -o filterNormalLike.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c inner.cpp -o inner.o inner.cpp: In function ‘void parHistData(Rcpp::Environment, bool)’: inner.cpp:25:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare] 25 | #define min2( a , b ) ( (a) < (b) ? (a) : (b) ) | ~~~~^~~~~ inner.cpp:5806:23: note: in expansion of macro ‘min2’ 5806 | for (i = 0; i < min2(op_focei.npars+1, vals.n_cols); i++){ | ^~~~ inner.cpp:5806:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long long unsigned int’ [-Wsign-compare] 5806 | for (i = 0; i < min2(op_focei.npars+1, vals.n_cols); i++){ | ^ inner.cpp: In function ‘Rcpp::List nlmixr2Gill83_(Rcpp::Function, Rcpp::NumericVector, Rcpp::Environment, Rcpp::LogicalVector, double, int, double, double, bool)’: inner.cpp:4283:23: warning: ‘gillF’ may be used uninitialized [-Wmaybe-uninitialized] 4283 | retN[i] = gill83(&hfN[i], &hphifN[i], &gillDfN[i], &gillDf2N[i], &gillErrN[i], | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4284 | theta, i, gillRtol, gillK, gillStep, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4285 | gillFtol, | ~~~~~~~~~ 4286 | -1, gill83fnG, 0, gillF) + 1; | ~~~~~~~~~~~~~~~~~~~~~~~~ inner.cpp:4275:10: note: ‘gillF’ was declared here 4275 | double gillF; | ^~~~~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c shi21.cpp -o shi21.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c nearPD.cpp -o nearPD.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c censEst.cpp -o censEst.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c saem.cpp -o saem.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c expandNlme.cpp -o expandNlme.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c npde.cpp -o npde.o npde.cpp: In function ‘void handleCensNpdeCdf(calcNpdeInfoId&, arma::Col&, arma::vec&, int&, bool&, unsigned int, arma::vec&, arma::vec&, unsigned int&, bool&)’: npde.cpp:129:15: warning: variable ‘hi’ set but not used [-Wunused-but-set-variable] 129 | double low, hi, low2, hi2; | ^~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c shrink.cpp -o shrink.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c ires.cpp -o ires.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c res.cpp -o res.o res.cpp: In function ‘void calculateDfFull(arma::Col&, arma::mat&, Rcpp::List&, int&, unsigned int&)’: res.cpp:17:7: warning: unused variable ‘idSize’ [-Wunused-variable] 17 | int idSize = ID.size(); | ^~~~~~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c cwres.cpp -o cwres.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c censResid.cpp -o censResid.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c cholse.cpp -o cholse.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c neldermead.cpp -o neldermead.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c resid.cpp -o resid.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c slice.cpp -o slice.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExportMod.cpp -o RcppExportMod.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/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/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rprintf.c -o rprintf.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c merge3.c -o merge3.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lbfgsR.c -o lbfgsR.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2random/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utilc.c -o utilc.o g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -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 -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpkJGaNc/R.INSTALLcb09a71e6e2c3/nlmixr2est/src' installing to /home/hornik/tmp/CRAN/Library/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) begin installing package ‘nlmixr2lib’ * installing *source* package ‘nlmixr2lib’ ... ** package ‘nlmixr2lib’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (nlmixr2lib) checking formods_0.1.4.tar.gz ... checking ruminate_0.2.2.tar.gz ... Depends: Package: formods Depends: R (>= 4.2.0) Imports: cli, digest, dplyr, ggforce, ggplot2, onbrand (>= 1.0.3), readr, readxl, rlang, rhandsontable, shiny, shinyAce, shinyWidgets, stats, stringr, tools, writexl, yaml, zip Timings: user system elapsed formods 118.551 9.052 130.176 Results: Check status summary: OK Source packages 1 Reverse depends 1 Check results summary: formods ... OK rdepends_ruminate ... OK