* installing *source* package ‘RxODE’ ... ** package ‘RxODE’ successfully unpacked and MD5 sums checked ** using staged installation --------[begin src/Makevars]-------- # -*- mode: makefile-gmake -*- ARMA=/data/gannet/ripley/R/test-clang/RcppArmadillo/include BH=/data/gannet/ripley/R/test-clang/BH/include RCPP=/data/gannet/ripley/R/test-clang/Rcpp/include EG=/data/gannet/ripley/R/test-clang/RcppEigen/include SH=-isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' CXX_STD = CXX14 CXX14STD = -std=gnu++14 ################################################################################ ## Package library flags. PKG_LIBS = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) $(SHLIB_OPENMP_CXXFLAGS) # Release options PKG_CFLAGS = -D_isRxODE_ PKG_CXXFLAGS = $(SHLIB_OPENMP_CXXFLAGS) -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"$(BH)" -isystem"$(EG)" $(SH) -isystem"$(RCPP)" -isystem"$(ARMA)" SOURCES_C = strncmp.c call_dvode.c handle_evid.c checkmate_stub.c print_node.c genModelVars.c codegen.c getOption.c sbuf.c parseLinCmt.c tran.c lincmt.c utilc.c dop853.c omegaChol.c init.c cfode.c common.c corfailure.c correction.c daxpy.c ddot.c dgefa.c dgesl.c dscal.c fnorm.c idamax.c intdy.c lsoda.c methodswitch.c orderswitch.c prja.c scaleh.c solsy.c stoda.c vmnorm.c strdup_printf.c rprintf.c box.c matexp_HM98.c SOURCES_CPP = rxvandercorput.cpp seed.cpp rxthreefry.cpp cbindThetaOmega.cpp cvPost.cpp checkmate.cpp utilcpp.cpp qs.cpp rxData.cpp lincmtB.cpp par_solve.cpp etTran.cpp forder.cpp et.cpp boost.cpp fast_factor.cpp expandGrid.cpp RcppExports.cpp WinDrive.cpp rxInv.cpp rxStack.cpp rxOptRep.cpp expm.cpp SOURCES_FORTAN = dlsoda.f opkda2.f matexp.f dsphiv.f dgpadm.f OBJECTS = $(SOURCES_C:.c=.o) $(SOURCES_CPP:.cpp=.o) $(SOURCES_FORTAN:.f=.o) .PHONY: all all: $(SHLIB) --------[end src/Makevars]-------- --------[begin R/RxODE_md5.R]-------- RxODE.md5 <- "141af4b61710b1fedbdf88a29d7e093b" --------[end R/RxODE_md5.R]-------- ** libs make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/RxODE/src' /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c strncmp.c -o strncmp.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c call_dvode.c -o call_dvode.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c handle_evid.c -o handle_evid.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c checkmate_stub.c -o checkmate_stub.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c print_node.c -o print_node.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c genModelVars.c -o genModelVars.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c codegen.c -o codegen.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c getOption.c -o getOption.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c sbuf.c -o sbuf.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c parseLinCmt.c -o parseLinCmt.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c tran.c -o tran.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c lincmt.c -o lincmt.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c utilc.c -o utilc.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c dop853.c -o dop853.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c omegaChol.c -o omegaChol.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c init.c -o init.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c cfode.c -o cfode.o In file included from cfode.c:2: ./lsoda.h:43:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_context_t * lsoda_create_ctx(); ^ void ./lsoda.h:44:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_opt_t * lsoda_create_opt(); ^ void In file included from sbuf.c:3: In file included from ./sbuf.h:22: ./../inst/include/RxODE.h:49:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void (*t_ode_current)(); ^ void In file included from In file included from handle_evid.ccodegen.c::103: : ./../inst/include/RxODE.hIn file included from :./codegen.h49::2130: :./../inst/include/RxODE.h :warning: 49a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]: 30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void (*t_ode_current)();typedef void (*t_ode_current)(); ^ ^ void void In file included from lincmt.cIn file included from :init.c9:: 10./../inst/include/RxODE.h: :./../inst/include/RxODE.h49::4930::30 :warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void (*t_ode_current)(); ^typedef void (*t_ode_current)(); void ^ void ./../inst/include/RxODE.h:299:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef rx_solve *(*t_get_solve)(); ^ void ./../inst/include/RxODE.h:301:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void *(*t_assignFuns)(); ^ void ./../inst/include/RxODE.h:303:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve_(); ^ void ./../inst/include/RxODE.h:304:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve2_(); ^ void ./../inst/include/RxODE.h:312:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP RxODE_par_df(); ^ void ./../inst/include/RxODE.h:299:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef rx_solve *(*t_get_solve)(); ./../inst/include/RxODE.h ^: 299 void: 33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef rx_solve *(*t_get_solve)(); ^ void ./../inst/include/RxODE.h./../inst/include/RxODE.h::301299::3033:: warning: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void *(*t_assignFuns)();typedef rx_solve *(*t_get_solve)(); ^ ^ void void ./../inst/include/RxODE.h:301:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] ./../inst/include/RxODE.h./../inst/include/RxODE.h::303301typedef void *(*t_assignFuns)();:: 2230 ^:: voidwarning: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve_(); typedef void *(*t_assignFuns)();./../inst/include/RxODE.h ^ : ^299./../inst/include/RxODE.h void :: void33303 :: 22warning: :a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef rx_solve *(*t_get_solve)();rx_solve *getRxSolve_();./../inst/include/RxODE.h./../inst/include/RxODE.h :: ^ ^304303 :: void void2322 :: warning: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve2_();rx_solve *getRxSolve_(); ^ ^ void void ./../inst/include/RxODE.h./../inst/include/RxODE.h::301304::3023::./../inst/include/RxODE.h :warning: warning: 304a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]: 23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]typedef void *(*t_assignFuns)();rx_solve *getRxSolve2_(); ^ ^ rx_solve *getRxSolve2_(); void void ./../inst/include/RxODE.h ^ : 312 void: 18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP RxODE_par_df(); ^ void ./../inst/include/RxODE.h:303:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve_(); ^ void ./../inst/include/RxODE.h./../inst/include/RxODE.h./../inst/include/RxODE.h:::312304312:::182318::: warning: warning: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP RxODE_par_df(); ^rx_solve *getRxSolve2_();SEXP RxODE_par_df(); void ^ ^ void void ./../inst/include/RxODE.h:312:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP RxODE_par_df(); ^ void 2 warnings generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c common.c -o common.o In file included from codegen.c:3: In file included from ./codegen.h:22: ./tran.h:7:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void updateSyntaxCol(); ^ void In file included from genModelVars.c:3: In file included from ./genModelVars.h:22: ./../inst/include/RxODE.h:49:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void (*t_ode_current)(); ^ void In file included from call_dvode.c:14: ./../inst/include/RxODE.h:49:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void (*t_ode_current)(); ^ void ./../inst/include/RxODE.h:299:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef rx_solve *(*t_get_solve)(); ^ void ./../inst/include/RxODE.h:301:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void *(*t_assignFuns)(); ^ void ./tran.h:287:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void reset(); ./../inst/include/RxODE.h ^: 303 void: 22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve_(); ^ void ./../inst/include/RxODE.h:304:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve2_(); ^ void ./../inst/include/RxODE.h:312:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP RxODE_par_df(); ^ void ./../inst/include/RxODE.h:299:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef rx_solve *(*t_get_solve)(); ^ void ./../inst/include/RxODE.h:301:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void *(*t_assignFuns)(); ^ void ./../inst/include/RxODE.h:303:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve_(); ^ void ./../inst/include/RxODE.h:304:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve2_(); ^ void ./../inst/include/RxODE.h:312:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP RxODE_par_df(); ^ void In file included from sbuf.c:4: ./tran.h:7:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void updateSyntaxCol(); ^ void ./tran.h:287:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void reset(); ^ void In file included from init.c:12: ./tran.h:7:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void updateSyntaxCol(); ^ void /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c corfailure.c -o corfailure.o In file included from genModelVars.c:3: In file included from ./genModelVars.h:24: ./tran.h:7:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void updateSyntaxCol(); ^ void In file included from print_node.c:3: In file included from ./print_node.h:22: ./../inst/include/RxODE.h:49:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void (*t_ode_current)(); ^ void call_dvode.c:21:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] extern void RxODE_ode_free(){ ^ void call_dvode.c:24:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void RxODE_ode_alloc(){ ^ void call_dvode.c:34:39: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] extern int RxODE_current_fn_pointer_id(){ ^ void In file included from parseLinCmt.c:3: In file included from ./parseLinCmt.h:22: ./../inst/include/RxODE.h:49:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void (*t_ode_current)(); ^ void ./../inst/include/RxODE.h:299:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef rx_solve *(*t_get_solve)(); ^ void call_dvode.c:47:25:./../inst/include/RxODE.h :warning: 301a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]: 30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] extern SEXP RxODE_get_mv(){ ^ void typedef void *(*t_assignFuns)(); ^ void ./../inst/include/RxODE.h:303:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve_(); ^ void ./tran.h./../inst/include/RxODE.h::287304::1123:: warning: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]call_dvode.c :55:void reset();22 rx_solve *getRxSolve2_();: ^ ^warning: void a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void rx_solve *getRxSolve_(); ^ void ./../inst/include/RxODE.h:312:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP RxODE_par_df(); ^ void In file included from utilc.c:21: ./../inst/include/RxODE.h:49:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void (*t_ode_current)(); ^ void ./../inst/include/RxODE.h:299:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef rx_solve *(*t_get_solve)(); ^ void ./../inst/include/RxODE.h:301:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void *(*t_assignFuns)(); ^ void ./../inst/include/RxODE.h:303:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve_(); ^ void ./../inst/include/RxODE.h:304:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]In file included from genModelVars.c:3: ./genModelVars.hrx_solve *getRxSolve2_();: 27 ^: 31 void: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline SEXP calcSLinCmt() { ^ void ./../inst/include/RxODE.h:312:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP RxODE_par_df(); ^ void ./../inst/include/RxODE.h:299:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef rx_solve *(*t_get_solve)(); ^ void ./../inst/include/RxODE.h:301:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void *(*t_assignFuns)(); ^ void ./../inst/include/RxODE.h:303:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve_(); ^ void ./../inst/include/RxODE.h:304:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve2_(); ^ void ./genModelVars.h:57:35: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline SEXP calcVersionInfo() { ^ void ./../inst/include/RxODE.h:312:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP RxODE_par_df(); ^ void In file included from tran.c:9: In file included from ./sbuf.h:22: ./../inst/include/RxODE.h:49:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] ./genModelVars.h:73:typedef void (*t_ode_current)();40 : ^ warning: voida function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline void calcNparamsNlhsNslhs() { ./tran.h ^: 287 void: 11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void reset(); ^ void ./genModelVars.h:92:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline void calcNextra() { ^ void ./../inst/include/RxODE.h:299:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef rx_solve *(*t_get_solve)(); ^ void ./../inst/include/RxODE.h:301:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void *(*t_assignFuns)(); ^ void ./../inst/include/RxODE.h:303:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve_(); ^ void ./../inst/include/RxODE.h:304:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve2_(); ^ void ./../inst/include/RxODE.h:312:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP RxODE_par_df(); ^ void init.c:18:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP _rxHasOpenMp(); ^ void init.c:44:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP _rxTick(); ^ void init.c:47:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP _RxODE_codeLoaded(); ^ void init.c:51:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP _RxODE_isLinCmt(); ^ void init.c:52:41: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP _RxODE_RcppExport_registerCCallable(); ^ void init.c:54:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP _RxODE_rxSolveFree(); ^ void init.c:104:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP RxODE_get_mv(); ^ void init.c:129:39: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] extern int RxODE_current_fn_pointer_id(); ^ void init.c:137:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] extern void RxODE_ode_free(); ^ void init.c:163:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP _RxODE_getProgSupported(); ^ void init.c:166:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP _RxODE_rxUnloadAll_(); ^ void init.c:221:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve_(); ^ void init.c:223:35: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void avoid_openmp_hang_within_fork(); ^ void init.c:224:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void initRxThreads(); ^ void init.c:228:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void rxOptionsIni(); ^ void init.c:266:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] int isRstudio(); ^ void init.c:292:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] int getSilentErr(); ^ void init.c:297:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] t_calc_lhs getRxLhs(); ^ void init.c:298:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] t_update_inis getUpdateInis(); ^ void init.c:311:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void transIniNull(); ^ void init.c:312:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void nullGlobals(); ^ void In file included from codegen.c:4: ./codegen2.h:77:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void writeBody() { ^ void In file included from parseLinCmt.c:3: In file included from ./parseLinCmt.h:23: ./tran.h:7:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void updateSyntaxCol(); ^ void utilc.c:33:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] extern int getSilentErr(){return _setSilentErr;} ^ void utilc.c:35:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] extern int getRstudioPrint(){return _isRstudio2;} ^ void ./tran.h:287:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void reset(); ^ void In file included from print_node.c:3: In file included from ./print_node.h:24: ./tran.h:7:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void updateSyntaxCol(); ^ void ./genModelVars.h:121:32: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline void calcExtracmt() { ^ void ./genModelVars.h:146:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline SEXP calcIniVals() { ^ void In file included from tran.c:11: In file included from ./parseLinCmt.h:23: ./tran.h:7:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void updateSyntaxCol(); ^ void ./tran.h:287:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void reset(); ^ void ./genModelVars.h:340:In file included from 23corfailure.c:: 2warning: : a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]./lsoda.h :43:42: warning: SEXP generateModelVars();a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] ^ void struct lsoda_context_t * lsoda_create_ctx(); ^ void genModelVars.c:5:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP generateModelVars() { ^ void ./lsoda.h:44:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_opt_t * lsoda_create_opt(); ^ void init.c:560:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void rxOptionsFree(); ^ void init.c:561:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void gFree(); ^ void init.c:562:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void rxFreeLast(); ^ void ./tran.h:287:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void reset(); ^ void ./codegen2.h:290:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void writeFooter() { ^ void 32 warnings generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c correction.c -o correction.o In file included from tran.c:13: ./genModelVars.h:27:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline SEXP calcSLinCmt() { ^ void ./genModelVars.h:57:35: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline SEXP calcVersionInfo() { ^ void ./genModelVars.h:73:40: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline void calcNparamsNlhsNslhs() { ^ void ./genModelVars.h:92:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline void calcNextra() { ^ void ./genModelVars.h:121:32: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline void calcExtracmt() { ^ void ./genModelVars.h:146:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline SEXP calcIniVals() { ^ void /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c daxpy.c -o daxpy.o ./genModelVars.h:340:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP generateModelVars(); ^ void daxpy.c:15:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] daxpy0(n, da, dx, incx, dy, incy) ^ 2 warnings generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c ddot.c -o ddot.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c dgefa.c -o dgefa.o 8 warnings generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c dgesl.c -o dgesl.o 8 warnings generated. dgefa.c:9:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] dgefa0(a, n, ipvt, info) ^ ddot.c:7:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] ddot0(n, dx, incx, dy, incy) ^ /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c dscal.c -o dscal.o 1 warning generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c fnorm.c -o fnorm.o 11 warnings generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c idamax.c -o idamax.o dgesl.c:8:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] 1 warning generated. dgesl0(a, n, ipvt, b, job) ^ In file included from correction.c:3: ./lsoda.h:43:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_context_t * lsoda_create_ctx(); ^ void ./lsoda.h:44:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_opt_t * lsoda_create_opt(); ^ void 1 warning generated. dscal.c:7:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] dscal0(n, da, dx, incx) ^ /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c intdy.c -o intdy.o 1 warning generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c lsoda.c -o lsoda.o idamax.c:9:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] idamax0(n, dx, incx) ^ 1 warning generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c methodswitch.c -o methodswitch.o 1 warning generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c orderswitch.c -o orderswitch.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c prja.c -o prja.o 6 warnings generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c scaleh.c -o scaleh.o In file included from scaleh.c:2: ./lsoda.h:43:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_context_t * lsoda_create_ctx(); ^ void ./lsoda.h:44:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_opt_t * lsoda_create_opt(); ^ void In file included from orderswitch.c:2: ./lsoda.h:43:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_context_t * lsoda_create_ctx(); ^ void ./lsoda.h:44:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_opt_t * lsoda_create_opt(); ^ void 16 warnings generated. In file included from intdy.c:7: ./lsoda.h:43:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_context_t * lsoda_create_ctx(); ^ void ./lsoda.h:44:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_opt_t * lsoda_create_opt(); ^ void /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c solsy.c -o solsy.o 2 warnings generated. In file included from methodswitch.c:3: ./lsoda.h:43:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_context_t * lsoda_create_ctx(); ^ void ./lsoda.h:44:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_opt_t * lsoda_create_opt(); ^ void 2 warnings generated. In file included from lsoda.c:84: ./lsoda.h:43:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_context_t * lsoda_create_ctx(); ^ void ./lsoda.h:44:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_opt_t * lsoda_create_opt(); ^ void 2 warnings generated. In file included from lsoda.cprja.c::8977:: 42./lsoda.h:: 43warning: :a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]42 : warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_context_t * lsoda_create_ctx() ^ void struct lsoda_context_t * lsoda_create_ctx(); ^ void ./lsoda.h:44:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_opt_t * lsoda_create_opt(); ^ void lsoda.c:903:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_opt_t * lsoda_create_opt() ^ void 2 warnings generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c stoda.c -o stoda.o 2 warnings generated. 10 warnings generated. In file included from solsy.c:5: ./lsoda.h:43:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_context_t * lsoda_create_ctx(); ^ void ./lsoda.h:44:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_opt_t * lsoda_create_opt(); ^ void In file included from stoda.c:2: ./lsoda.h:43:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_context_t * lsoda_create_ctx(); ^ void ./lsoda.h:44:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] struct lsoda_opt_t * lsoda_create_opt(); ^ void 2 warnings generated. 2 warnings generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c vmnorm.c -o vmnorm.o /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c strdup_printf.c -o strdup_printf.o 8 warnings generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c rprintf.c -o rprintf.o tran.c:104:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void updateSyntaxCol(); ^ void tran.c:114:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void freeP(){ ^ void /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c box.c -o box.o tran.c:244:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void parseFreeLast() { ^ void tran.c:292:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void reset() { ^ void tran.c:415:37: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline void assertCorrectDfDy() { ^ void tran.c:551:39: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline void finalizeSyntaxError() { ^ void tran.c:618:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP _RxODE_codeLoaded(){ ^ void tran.c:629:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP _RxODE_isLinCmt(){ ^ void In file included from tran.c:636: ./parseSyntaxErrors.h:35:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] static inline void printSyntaxErrorHeader() { ^ void ./parseSyntaxErrors.h:290:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void updateSyntaxCol(){ ^ void tran.c:650:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] void transIniNull() { ^ void 8 warnings generated. /usr/local/clang15/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -D_isRxODE_ -fpic -O3 -Wall -pedantic -c matexp_HM98.c -o matexp_HM98.o In file included from box.c:2: ./../inst/include/RxODE.h:49:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void (*t_ode_current)(); ^ void ./../inst/include/RxODE.h:299:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef rx_solve *(*t_get_solve)(); ^ void ./../inst/include/RxODE.h:301:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] typedef void *(*t_assignFuns)(); ^ void ./../inst/include/RxODE.h:303:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve_(); ^ void ./../inst/include/RxODE.h:304:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] rx_solve *getRxSolve2_(); ^ void ./../inst/include/RxODE.h:312:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] SEXP RxODE_par_df(); ^ void /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c rxvandercorput.cpp -o rxvandercorput.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c seed.cpp -o seed.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c rxthreefry.cpp -o rxthreefry.o 2 warnings generated. /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c cbindThetaOmega.cpp -o cbindThetaOmega.o 6 warnings generated. /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c cvPost.cpp -o cvPost.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c checkmate.cpp -o checkmate.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c utilcpp.cpp -o utilcpp.o 4 warnings generated. /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c qs.cpp -o qs.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c rxData.cpp -o rxData.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c lincmtB.cpp -o lincmtB.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c par_solve.cpp -o par_solve.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c etTran.cpp -o etTran.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c forder.cpp -o forder.o 6 warnings generated. /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c et.cpp -o et.o par_solve.cpp:625:28: warning: unused variable 'wh0' [-Wunused-variable] int wh, cmt, wh100, whI, wh0; ^ par_solve.cpp:625:7: warning: unused variable 'wh' [-Wunused-variable] int wh, cmt, wh100, whI, wh0; ^ par_solve.cpp:625:11: warning: unused variable 'cmt' [-Wunused-variable] int wh, cmt, wh100, whI, wh0; ^ par_solve.cpp:625:16: warning: unused variable 'wh100' [-Wunused-variable] int wh, cmt, wh100, whI, wh0; ^ par_solve.cpp:625:23: warning: unused variable 'whI' [-Wunused-variable] int wh, cmt, wh100, whI, wh0; ^ par_solve.cpp:1315:8: warning: variable 'evid' set but not used [-Wunused-but-set-variable] int *evid; ^ par_solve.cpp:1808:8: warning: variable 'evid' set but not used [-Wunused-but-set-variable] int *evid; ^ 26 warnings generated. 7 warnings generated. /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c boost.cpp -o boost.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c fast_factor.cpp -o fast_factor.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c expandGrid.cpp -o expandGrid.o In file included from lincmtB.cpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math.hpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat.hpp:12: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/prim/mat.hpp:283: /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/prim/mat/prob/gaussian_dlm_obs_rng.hpp:138:7: warning: unused variable 'n' [-Wunused-variable] int n = G.rows(); // number of states ^ rxData.cpp:1254:15: warning: anonymous non-C-compatible type given name for linkage purposes by typedef declaration; add a tag name here [-Wnon-c-typedef-for-linkage] typedef struct { ^ rx_globals rxData.cpp:1301:20: note: type is not C-compatible due to this default member initializer double *gsigma = NULL; ^~~~ /usr/local/clang15/lib/clang/15.0.1/include/stddef.h:84:18: note: expanded from macro 'NULL' # define NULL __null ^~~~~~ rxData.cpp:1314:3: note: type is given name 'rx_globals' for linkage purposes by this typedef declaration } rx_globals; ^ rxData.cpp:2343:15: warning: anonymous non-C-compatible type given name for linkage purposes by typedef declaration; add a tag name here [-Wnon-c-typedef-for-linkage] typedef struct{ ^ rxSolve_t rxData.cpp:2349:39: note: type is not C-compatible due to this default member initializer Nullable addDosing = R_NilValue; ^~~~~~~~~~ rxData.cpp:2380:3: note: type is given name 'rxSolve_t' for linkage purposes by this typedef declaration } rxSolve_t; ^ rxData.cpp:3014:55: warning: variable 'hmax2s' set but not used [-Wunused-but-set-variable] hmax1n=0.0, hmax2 = 0.0, hmax2m = 0.0, hmax2mo, hmax2s=0.0, ^ rxData.cpp:3533:7: warning: variable 'curEvent' set but not used [-Wunused-but-set-variable] int curEvent = 0, curIdx = 0, curSolve=0; ^ etTran.cpp:381:7: warning: unused variable 'needSort' [-Wunused-variable] int needSort = mv[RxMv_needSort]; ^ etTran.cpp:372:49: warning: variable 'durModeled' set but not used [-Wunused-but-set-variable] bool combineDvidB = false, rateModeled=false, durModeled = false; ^ etTran.cpp:372:30: warning: variable 'rateModeled' set but not used [-Wunused-but-set-variable] bool combineDvidB = false, rateModeled=false, durModeled = false; ^ /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c RcppExports.cpp -o RcppExports.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c WinDrive.cpp -o WinDrive.o In file included from lincmtB.cpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math.hpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat.hpp:17: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat/fun/columns_dot_self.hpp:8: /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat/fun/dot_self.hpp:38:41: warning: all paths through this function will call itself [-Winfinite-recursion] inline static double square(double x) { return square(x); } ^ /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c rxInv.cpp -o rxInv.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c rxStack.cpp -o rxStack.o In file included from lincmtB.cpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math.hpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat.hpp:70: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat/functor/integrate_ode_adams.hpp:5: /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat/functor/cvodes_integrator.hpp:126:18: warning: unused variable 'coupled_size' [-Wunused-variable] const size_t coupled_size = cvodes_data.coupled_ode_.size(); ^ /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c rxOptRep.cpp -o rxOptRep.o /usr/local/clang15/bin/clang++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/dparser/include' -I'/data/gannet/ripley/R/test-clang/PreciseSums/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/sitmo/include' -I'/data/gannet/ripley/R/test-clang/StanHeaders/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang15/include -fopenmp -D_isRxODE_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/data/gannet/ripley/R/test-clang/BH/include" -isystem"/data/gannet/ripley/R/test-clang/RcppEigen/include" -isystem'/data/gannet/ripley/R/test-clang/StanHeaders/include/src' -isystem"/data/gannet/ripley/R/test-clang/Rcpp/include" -isystem"/data/gannet/ripley/R/test-clang/RcppArmadillo/include" -fpic -O3 -Wall -pedantic -frtti -c expm.cpp -o expm.o gfortran -fpic -O2 -mtune=native -Wall -pedantic -c dlsoda.f -o dlsoda.o dlsoda.f:679:72: 679 | 170 RH = MAX(RH,HMIN/ABS(H)) | ^ Warning: ‘rh’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:499:14: 499 | 1 R, RH, RHDN, RHSM, RHUP, TOLD, DMNORM | ^ note: ‘rh’ was declared here dlsoda.f:2874:72: 2874 | IF (IHIT) T = TCRIT | ^ Warning: ‘tcrit’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2413:14: 2413 | 1 TCRIT, TDIST, TNEXT, TOL, TOLSF, TP, SIZE, SUM, W0 | ^ note: ‘tcrit’ was declared here dlsoda.f:2874:10: 2874 | IF (IHIT) T = TCRIT | ^ Warning: ‘ihit’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2415:18: 2415 | LOGICAL IHIT | ^ note: ‘ihit’ was declared here dlsoda.f:2615:29: 2615 | IF (H0 .NE. 0.0D0 .AND. (T + H0 - TCRIT)*H0 .GT. 0.0D0) | ^ Warning: ‘h0’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2412:48: 2412 | DOUBLE PRECISION ATOLI, AYI, BIG, EWTI, H0, HMAX, HMX, RH, RTOLI, | ^ note: ‘h0’ was declared here dlsoda.f:2536:72: 2536 | IF (JT .GE. 4) LENWM = (2*ML + MU + 1)*N + 2 | ^ Warning: ‘mu’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2407:42: 2407 | 1 LENIW, LENRW, LENWM, ML, MORD, MU, MXHNL0, MXSTP0 | ^ note: ‘mu’ was declared here dlsoda.f:2536:72: 2536 | IF (JT .GE. 4) LENWM = (2*ML + MU + 1)*N + 2 | ^ Warning: ‘ml’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2407:32: 2407 | 1 LENIW, LENRW, LENWM, ML, MORD, MU, MXHNL0, MXSTP0 | ^ note: ‘ml’ was declared here gfortran -fpic -O2 -mtune=native -Wall -pedantic -c opkda2.f -o opkda2.o 3 warnings generated. opkda2.f:650:28: 650 | INTEGER FUNCTION IXSAV (IPAR, IVALUE, ISET) | ^ Warning: ‘__result_ixsav’ may be used uninitialized [-Wmaybe-uninitialized] gfortran -fpic -O2 -mtune=native -Wall -pedantic -c matexp.f -o matexp.o rxStack.cpp:71:7: warning: variable 'ncols' set but not used [-Wunused-but-set-variable] int ncols=3; ^ gfortran -fpic -O2 -mtune=native -Wall -pedantic -c dsphiv.f -o dsphiv.o dsphiv.f:270:72: 270 | wsp(iphih+mbrkdwn+1) = hj1j*wsp(iphih+2*mx+mbrkdwn-1) | ^ Warning: ‘hj1j’ may be used uninitialized [-Wmaybe-uninitialized] dsphiv.f:125:35: 125 | . avnorm, hj1j, hjj, SQR1 | ^ note: ‘hj1j’ was declared here gfortran -fpic -O2 -mtune=native -Wall -pedantic -c dgpadm.f -o dgpadm.o 1 warning generated. In file included from lincmtB.cpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math.hpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat.hpp:6: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/core.hpp:46: /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/core/set_zero_all_adjoints.hpp:14:13: warning: unused function 'set_zero_all_adjoints' [-Wunused-function] static void set_zero_all_adjoints() { ^ In file included from lincmtB.cpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math.hpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat.hpp:12: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/prim/mat.hpp:278: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/prim/mat/prob/dirichlet_log.hpp:5: /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/prim/mat/prob/dirichlet_lpmf.hpp:60:9: warning: unused type alias 'T_partials_vec' [-Wunused-local-typedef] using T_partials_vec = typename Eigen::Matrix; ^ In file included from lincmtB.cpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math.hpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat.hpp:12: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/prim/mat.hpp:328: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/prim/mat/prob/poisson_log_glm_log.hpp:5: /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/prim/mat/prob/poisson_log_glm_lpmf.hpp:52:9: warning: unused type alias 'T_alpha_val' [-Wunused-local-typedef] using T_alpha_val = typename std::conditional_t< ^ In file included from lincmtB.cpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math.hpp:4: In file included from /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat.hpp:51: /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat/fun/squared_distance.hpp:27:11: warning: unused type alias 'idx_t' [-Wunused-local-typedef] using idx_t = typename index_type::type; ^ /data/gannet/ripley/R/test-clang/StanHeaders/include/stan/math/rev/mat/fun/squared_distance.hpp:64:11: warning: unused type alias 'idx_t' [-Wunused-local-typedef] using idx_t = typename index_type::type; ^ 4 warnings generated. 8 warnings generated. /usr/local/clang15/bin/clang++ -std=gnu++14 -shared -L/usr/local/clang/lib64 -L/usr/local/clang15/lib -L/usr/local/lib64 -o RxODE.so strncmp.o call_dvode.o handle_evid.o checkmate_stub.o print_node.o genModelVars.o codegen.o getOption.o sbuf.o parseLinCmt.o tran.o lincmt.o utilc.o dop853.o omegaChol.o init.o cfode.o common.o corfailure.o correction.o daxpy.o ddot.o dgefa.o dgesl.o dscal.o fnorm.o idamax.o intdy.o lsoda.o methodswitch.o orderswitch.o prja.o scaleh.o solsy.o stoda.o vmnorm.o strdup_printf.o rprintf.o box.o matexp_HM98.o rxvandercorput.o seed.o rxthreefry.o cbindThetaOmega.o cvPost.o checkmate.o utilcpp.o qs.o rxData.o lincmtB.o par_solve.o etTran.o forder.o et.o boost.o fast_factor.o expandGrid.o RcppExports.o WinDrive.o rxInv.o rxStack.o rxOptRep.o expm.o dlsoda.o opkda2.o matexp.o dsphiv.o dgpadm.o -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -lgfortran -lm -lquadmath make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/RxODE/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/RxODE/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/RxODE/src' installing via 'install.libs.R' to /data/gannet/ripley/R/packages/tests-clang/RxODE.Rcheck/00LOCK-RxODE/00new/RxODE ** R ** data *** moving datasets to lazyload DB ** demo ** 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 ** 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 (RxODE)