* installing *source* package ‘rxode2parse’ ... ** using staged installation --------[begin src/Makevars]-------- # -*- mode: makefile-gmake -*- BH=/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include RCPP=/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include EG=/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include SH=-isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/src' CXX_STD = CXX17 ################################################################################ ## Package library flags. PKG_LIBS = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) $(SHLIB_OPENMP_CXXFLAGS) -L'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppParallel/lib/' -Wl,-rpath,'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppParallel/lib/' -ltbb -ltbbmalloc # Release options PKG_CFLAGS = -D_isrxode2parse_ PKG_CXXFLAGS = $(SHLIB_OPENMP_CXXFLAGS) -D_isrxode2parse_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"$(BH)" -isystem"$(EG)" $(SH) -isystem"$(RCPP)" --------[end src/Makevars]-------- --------[begin R/RxODE_md5.R]-------- rxode2parse.md5 <- "c18ff1a2f151e2d8b856bbe21daf2be7" --------[end R/RxODE_md5.R]-------- ** libs using C compiler: ‘Debian clang version 17.0.5 (1)’ using C++ compiler: ‘Debian clang version 17.0.5 (1)’ using C++17 clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2parse_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o clang-17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2parse_ -fpic -g -O3 -Wall -pedantic -c codegen.c -o codegen.o clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2parse_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -c etTran.cpp -o etTran.o clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2parse_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -c fast_factor.cpp -o fast_factor.o clang-17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2parse_ -fpic -g -O3 -Wall -pedantic -c genModelVars.c -o genModelVars.o clang-17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2parse_ -fpic -g -O3 -Wall -pedantic -c getOption.c -o getOption.o clang-17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2parse_ -fpic -g -O3 -Wall -pedantic -c init.c -o init.o clang-17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2parse_ -fpic -g -O3 -Wall -pedantic -c lincmt.c -o lincmt.o clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2parse_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -c lincmtB.cpp -o lincmtB.o In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:8: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core.hpp:28: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_addition.hpp:6: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:33:8: warning: unused variable 'error' [-Wunused-variable] 33 | bool error = false; | ^~~~~ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:8: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core.hpp:54: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/profiling.hpp:9: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err.hpp:50: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/hmm_check.hpp:33:7: warning: unused variable 'n_transitions' [-Wunused-variable] 33 | int n_transitions = log_omegas.cols() - 1; | ^~~~~~~~~~~~~ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun.hpp:118: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/gp_matern52_cov.hpp:275:10: warning: unused variable 'neg_root_5' [-Wunused-variable] 275 | double neg_root_5 = -root_5; | ^~~~~~~~~~ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun.hpp:183: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/log_mix.hpp:86:13: warning: unused variable 'N' [-Wunused-variable] 86 | const int N = stan::math::size(theta); | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:87: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/double_exponential_cdf.hpp:82:10: warning: unused variable 'N' [-Wunused-variable] 82 | size_t N = max_size(y, mu, sigma); | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:128: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/gaussian_dlm_obs_rng.hpp:98:7: warning: unused variable 'n' [-Wunused-variable] 98 | int n = G.rows(); // number of states | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:139: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/hmm_marginal.hpp:26:13: warning: unused variable 'n_states' [-Wunused-variable] 26 | const int n_states = omegas.rows(); | ^~~~~~~~ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:315: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/std_normal_rng.hpp:23:22: warning: unused variable 'function' [-Wunused-variable] 23 | static const char* function = "std_normal_rng"; | ^~~~~~~~ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:335: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/von_mises_cdf.hpp:72:10: warning: unused variable 'ck' [-Wunused-variable] 72 | double ck = 50; | ^~ In file included from lincmtB.cpp:79: ./../inst/include/rxode2parseGetTime.h:223:9: warning: unused variable 'curEvid' [-Wunused-variable] 223 | int curEvid = getEvid(ind, ind->idose[*endIdx+1]); | ^~~~~~~ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:8: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core.hpp:29: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_divide_equal.hpp:5: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_division.hpp:14: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_multiplication.hpp:7: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_subtraction.hpp:88:43: warning: lambda capture 'b' is not used [-Wunused-lambda-capture] 88 | [avi = a.vi_, b](const auto& vi) mutable { | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_subtraction.hpp:88:29: note: while substituting into a lambda expression here 88 | [avi = a.vi_, b](const auto& vi) mutable { | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_minus_equal.hpp:24:16: note: in instantiation of function template specialization 'stan::math::operator-' requested here 24 | vi_ = (*this - b).vi_; | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/core/complex_base.hpp:136:9: note: in instantiation of member function 'stan::math::var_value::operator-=' requested here 136 | re_ -= x; | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/core/operator_subtraction.hpp:24:5: note: in instantiation of function template specialization 'stan::math::complex_base>::operator-=' requested here 24 | y -= rhs; | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/core/operator_subtraction.hpp:55:20: note: in instantiation of function template specialization 'stan::math::internal::complex_subtract, int>' requested here 55 | return internal::complex_subtract(x, y); | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/acosh.hpp:105:31: note: in instantiation of function template specialization 'stan::math::operator-, int>' requested here 105 | auto y = log(z + sqrt(z * z - 1)); | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun/acosh.hpp:94:32: note: in instantiation of function template specialization 'stan::math::internal::complex_acosh>' requested here 94 | return stan::math::internal::complex_acosh(z); | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:8: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core.hpp:28: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_addition.hpp:84:43: warning: lambda capture 'b' is not used [-Wunused-lambda-capture] 84 | [avi = a.vi_, b](const auto& vi) mutable { | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_addition.hpp:84:29: note: while substituting into a lambda expression here 84 | [avi = a.vi_, b](const auto& vi) mutable { | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun/grad_inc_beta.hpp:45:43: note: in instantiation of function template specialization 'stan::math::operator+' requested here 45 | grad_2F1(dF1, dF2, a + b, var(1.0), a + 1, z); | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:8: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core.hpp:28: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_addition.hpp:84:43: warning: lambda capture 'b' is not used [-Wunused-lambda-capture] 84 | [avi = a.vi_, b](const auto& vi) mutable { | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_addition.hpp:84:29: note: while substituting into a lambda expression here 84 | [avi = a.vi_, b](const auto& vi) mutable { | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/trigamma.hpp:63:31: note: in instantiation of function template specialization 'stan::math::operator+' requested here 63 | value = -trigamma_impl(-x + 1.0) + square(pi() / sin(-pi() * x)); | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun/trigamma.hpp:23:44: note: in instantiation of function template specialization 'stan::math::trigamma_impl>' requested here 23 | inline var trigamma(const var& u) { return trigamma_impl(u); } | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:8: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core.hpp:29: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_divide_equal.hpp:5: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_division.hpp:14: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_multiplication.hpp:7: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_subtraction.hpp:113:43: warning: lambda capture 'a' is not used [-Wunused-lambda-capture] 113 | [bvi = b.vi_, a](const auto& vi) mutable { | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_subtraction.hpp:113:29: note: while substituting into a lambda expression here 113 | [bvi = b.vi_, a](const auto& vi) mutable { | ^ lincmtB.cpp:397:22: note: in instantiation of function template specialization 'stan::math::operator-' requested here 397 | A1 = r1/ka-((r1-A1last*ka)*eKa)/ka + b1; | ^ lincmtB.cpp:2020:13: note: in instantiation of function template specialization 'stan::math::oneCmtKaRate>' requested here 2020 | return oneCmtKaRate(t, Alast, params, pard, g, bolus, rate); | ^ lincmtB.cpp:2216:11: note: in instantiation of function template specialization 'stan::math::doAdvan>' requested here 2216 | aSave = doAdvan(ncmt, oral0, tlast, curTime, | ^ lincmtB.cpp:2480:9: note: in instantiation of function template specialization 'stan::math::genericCmtInterface>' requested here 2480 | return genericCmtInterface(params, pard_, t_, oral0_, trans_, ncmt_, linCmt_, idx_, sameTime_, ind_, rx_, | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/functor/jacobian.hpp:23:36: note: in instantiation of function template specialization 'stan::math::linCmtFun::operator()>' requested here 23 | Matrix fx_var = f(x_var); | ^ lincmtB.cpp:2805:17: note: in instantiation of function template specialization 'stan::math::jacobian' requested here 2805 | stan::math::jacobian(f, params, fx, J); | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:8: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core.hpp:29: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_divide_equal.hpp:5: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_division.hpp:14: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_multiplication.hpp:7: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_subtraction.hpp:113:43: warning: lambda capture 'a' is not used [-Wunused-lambda-capture] 113 | [bvi = b.vi_, a](const auto& vi) mutable { | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/operator_subtraction.hpp:113:29: note: while substituting into a lambda expression here 113 | [bvi = b.vi_, a](const auto& vi) mutable { | ^ lincmtB.cpp:554:23: note: in instantiation of function template specialization 'stan::math::operator-' requested here 554 | A1 = b1+r1/ka*(1-eKa0)+A1last*eKa0; | ^ lincmtB.cpp:2023:13: note: in instantiation of function template specialization 'stan::math::twoCmtKaRate>' requested here 2023 | return twoCmtKaRate(t, Alast, params, pard, g, bolus, rate); | ^ lincmtB.cpp:2216:11: note: in instantiation of function template specialization 'stan::math::doAdvan>' requested here 2216 | aSave = doAdvan(ncmt, oral0, tlast, curTime, | ^ lincmtB.cpp:2480:9: note: in instantiation of function template specialization 'stan::math::genericCmtInterface>' requested here 2480 | return genericCmtInterface(params, pard_, t_, oral0_, trans_, ncmt_, linCmt_, idx_, sameTime_, ind_, rx_, | ^ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/functor/jacobian.hpp:23:36: note: in instantiation of function template specialization 'stan::math::linCmtFun::operator()>' requested here 23 | Matrix fx_var = f(x_var); | ^ lincmtB.cpp:2805:17: note: in instantiation of function template specialization 'stan::math::jacobian' requested here 2805 | stan::math::jacobian(f, params, fx, J); | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:8: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core.hpp:59: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/set_zero_all_adjoints.hpp:14:13: warning: 'static' function 'set_zero_all_adjoints' declared in header file should be declared 'static inline' [-Wunneeded-internal-declaration] 14 | static void set_zero_all_adjoints() { | ^~~~~~~~~~~~~~~~~~~~~ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun.hpp:110: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/generalized_inverse.hpp:34:9: warning: unused type alias 'value_t' [-Wunused-local-typedef] 34 | using value_t = value_type_t; | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun.hpp:319: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/tail.hpp:46:9: warning: unused type alias 'idx_t' [-Wunused-local-typedef] 46 | using idx_t = index_type_t>; | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:32: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun/cholesky_decompose.hpp:83:11: warning: unused type alias 'Block_' [-Wunused-local-typedef] 83 | using Block_ = Eigen::Block; | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:34: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun/cholesky_factor_constrain.hpp:32:9: warning: unused type alias 'T_scalar' [-Wunused-local-typedef] 32 | using T_scalar = value_type_t; | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:71: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun/generalized_inverse.hpp:64:9: warning: unused type alias 'value_t' [-Wunused-local-typedef] 64 | using value_t = value_type_t; | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:10: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/bernoulli_logit_glm_log.hpp:5: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/bernoulli_logit_glm_lpmf.hpp:59:9: warning: unused type alias 'T_y_val' [-Wunused-local-typedef] 59 | using T_y_val = | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:31: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/beta_log.hpp:5: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/beta_lpdf.hpp:50:9: warning: unused type alias 'T_partials_matrix' [-Wunused-local-typedef] 50 | using T_partials_matrix = Eigen::Matrix; | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:37: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/beta_proportion_log.hpp:5: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/beta_proportion_lpdf.hpp:55:9: warning: unused type alias 'T_partials_array' [-Wunused-local-typedef] 55 | using T_partials_array = Eigen::Array; | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:63: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/cauchy_log.hpp:5: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/cauchy_lpdf.hpp:45:9: warning: unused type alias 'T_partials_array' [-Wunused-local-typedef] 45 | using T_partials_array = Eigen::Array; | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:74: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/dirichlet_log.hpp:5: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/dirichlet_lpdf.hpp:60:9: warning: unused type alias 'T_partials_vec' [-Wunused-local-typedef] 60 | using T_partials_vec = typename Eigen::Matrix; | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:91: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/double_exponential_log.hpp:5: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/double_exponential_lpdf.hpp:44:9: warning: unused type alias 'T_partials_array' [-Wunused-local-typedef] 44 | using T_partials_array = Eigen::Array; | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:111: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/frechet_cdf.hpp:30:9: warning: unused type alias 'T_partials_array' [-Wunused-local-typedef] 30 | using T_partials_array = Eigen::Array; | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:245: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/ordered_logistic_log.hpp:5: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/ordered_logistic_lpmf.hpp:76:9: warning: unused type alias 'T_partials_array' [-Wunused-local-typedef] 76 | using T_partials_array = Eigen::Array; | ^ In file included from lincmtB.cpp:7: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:13: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:277: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/poisson_log_glm_log.hpp:5: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/poisson_log_glm_lpmf.hpp:62:9: warning: unused type alias 'T_alpha_val' [-Wunused-local-typedef] 62 | using T_alpha_val = typename std::conditional_t< | ^ 30 warnings generated. clang-17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2parse_ -fpic -g -O3 -Wall -pedantic -c parseLinCmt.c -o parseLinCmt.o clang-17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2parse_ -fpic -g -O3 -Wall -pedantic -c print_node.c -o print_node.o clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2parse_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -c qs.cpp -o qs.o clang-17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2parse_ -fpic -g -O3 -Wall -pedantic -c sbuf.c -o sbuf.o clang-17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2parse_ -fpic -g -O3 -Wall -pedantic -c strncmpi.c -o strncmpi.o clang-17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2parse_ -fpic -g -O3 -Wall -pedantic -c tran.c -o tran.o In file included from tran.c:28: ./tran.g.d_parser.h:3:9: warning: 'printf' macro redefined [-Wmacro-redefined] 3 | #define printf Rprintf | ^ /usr/include/x86_64-linux-gnu/bits/stdio2.h:89:11: note: previous definition is here 89 | # define printf(...) \ | ^ 1 warning generated. clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2parse_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -c udf.cpp -o udf.o clang-17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/StanHeaders/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2parse_ -fpic -g -O3 -Wall -pedantic -c utilc.c -o utilc.o clang++-17 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o rxode2parse.so RcppExports.o codegen.o etTran.o fast_factor.o genModelVars.o getOption.o init.o lincmt.o lincmtB.o parseLinCmt.o print_node.o qs.o sbuf.o strncmpi.o tran.o udf.o utilc.o -llapack -L/home/hornik/tmp/R/lib -lRblas -L/usr/lib/llvm-17/lib -lFortran_main -lFortranRuntime -lFortranDecimal -lm -fopenmp -L/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppParallel/lib/ -Wl,-rpath,/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/RcppParallel/lib/ -ltbb -ltbbmalloc -L/home/hornik/tmp/R/lib -lR installing to /srv/hornik/tmp/CRAN/rxode2parse.Rcheck/00LOCK-rxode2parse/00new/rxode2parse/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 (rxode2parse)