* installing *source* package ‘SimInf’ ... ** package ‘SimInf’ successfully unpacked and MD5 sums checked ** using staged installation checking for gcc... clang -arch x86_64 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether clang -arch x86_64 accepts -g... yes checking for clang -arch x86_64 option to enable C11 features... none needed checking for clang -arch x86_64 option to support OpenMP... unsupported checking whether OpenMP will work in a package... no configure: WARNING: ----------------------------------------------- Unable to find OpenMP on this system. Building a version without support for OpenMP. ----------------------------------------------- checking for gsl-config... /opt/R/x86_64/bin/gsl-config ---- Results for the SimInf package configure ---- PKG_CPPFLAGS..............: -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS PKG_CFLAGS................: PKG_LIBS..................: -L/opt/R/x86_64/lib -lgsl -lgslcblas Have support for OpenMP...: no -------------------------------------------------- configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ using SDK: ‘MacOSX11.3.sdk’ clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c misc/SimInf_particle_filter.c -o misc/SimInf_particle_filter.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c misc/SimInf_distance_matrix.c -o misc/SimInf_distance_matrix.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c misc/SimInf_openmp.c -o misc/SimInf_openmp.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c misc/SimInf_forward_euler_linear_decay.c -o misc/SimInf_forward_euler_linear_decay.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c misc/binheap.c -o misc/binheap.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c misc/SimInf_local_spread.c -o misc/SimInf_local_spread.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c misc/SimInf_abc.c -o misc/SimInf_abc.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c misc/SimInf_clean_indiv_events.c -o misc/SimInf_clean_indiv_events.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c misc/SimInf_ldata.c -o misc/SimInf_ldata.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c misc/SimInf_trajectory.c -o misc/SimInf_trajectory.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c misc/SimInf_arg.c -o misc/SimInf_arg.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c init.c -o init.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c solvers/ssm/SimInf_solver_ssm.c -o solvers/ssm/SimInf_solver_ssm.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c solvers/SimInf_solver.c -o solvers/SimInf_solver.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c solvers/aem/SimInf_solver_aem.c -o solvers/aem/SimInf_solver_aem.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c models/SISe_sp.c -o models/SISe_sp.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c models/SISe.c -o models/SISe.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c models/SIR.c -o models/SIR.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c models/SIS.c -o models/SIS.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c models/SISe3_sp.c -o models/SISe3_sp.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c models/SEIR.c -o models/SEIR.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c models/SISe3.c -o models/SISe3.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I../inst/include -I/opt/R/x86_64/include -I/opt/R/x86_64/include -DR_NO_REMAP -DSTRICT_R_HEADERS -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c SimInf.c -o SimInf.o clang -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o SimInf.so misc/SimInf_particle_filter.o misc/SimInf_distance_matrix.o misc/SimInf_openmp.o misc/SimInf_forward_euler_linear_decay.o misc/binheap.o misc/SimInf_local_spread.o misc/SimInf_abc.o misc/SimInf_clean_indiv_events.o misc/SimInf_ldata.o misc/SimInf_trajectory.o misc/SimInf_arg.o init.o solvers/ssm/SimInf_solver_ssm.o solvers/SimInf_solver.o solvers/aem/SimInf_solver_aem.o models/SISe_sp.o models/SISe.o models/SIR.o models/SIS.o models/SISe3_sp.o models/SEIR.o models/SISe3.o SimInf.o -L/opt/R/x86_64/lib -lgsl -lgslcblas -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.4/SimInf.Rcheck/00LOCK-SimInf/00new/SimInf/libs ** generating debug symbols (dSYM) ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** 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 (SimInf)