* installing *source* package ‘adapt3’ ... ** this is package ‘adapt3’ version ‘2.0.0’ ** using staged installation ** libs using C++ compiler: ‘Debian clang version 21.1.8 (1+b1)’ clang++-21 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/srv/hornik/tmp/CRAN_pretest/Library/lefko3/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include/ -fpic -g -O3 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o clang++-21 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/srv/hornik/tmp/CRAN_pretest/Library/lefko3/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include/ -fpic -g -O3 -Wall -pedantic -c projection.cpp -o projection.o In file included from projection.cpp:10: In file included from /srv/hornik/tmp/CRAN_pretest/Library/lefko3/include/LefkoUtils.h:8: /srv/hornik/tmp/CRAN_pretest/Library/lefko3/include/basic_funcs/mat_stuff.h:1672:12: warning: variable 'esta2_used' set but not used [-Wunused-but-set-variable] 1672 | bool esta2_used {false}; | ^ /srv/hornik/tmp/CRAN_pretest/Library/lefko3/include/basic_funcs/mat_stuff.h:1478:9: warning: variable 'age_related_stages' set but not used [-Wunused-but-set-variable] 1478 | int age_related_stages {0}; | ^ /srv/hornik/tmp/CRAN_pretest/Library/lefko3/include/basic_funcs/mat_stuff.h:1479:9: warning: variable 'age_related_min_ages' set but not used [-Wunused-but-set-variable] 1479 | int age_related_min_ages {0}; | ^ In file included from projection.cpp:11: In file included from ../inst/include/AdaptUtils.h:7: ../inst/include/basic_funcs/main_utils.h:4474:9: warning: variable 'good_max_age_values' set but not used [-Wunused-but-set-variable] 4474 | int good_max_age_values {0}; | ^ In file included from projection.cpp:11: In file included from ../inst/include/AdaptUtils.h:8: ../inst/include/basic_funcs/mats_utils.h:3699:9: warning: unused variable 'nostages_nounborn' [-Wunused-variable] 3699 | int nostages_nounborn = nostages - almostbornstages; | ^~~~~~~~~~~~~~~~~ projection.cpp:5851:8: warning: variable 'pure_fleslie' set but not used [-Wunused-but-set-variable] 5851 | bool pure_fleslie {false}; // Are all function-based MPMs Leslie MPMs? | ^ projection.cpp:5856:7: warning: variable 'stageframe_count' set but not used [-Wunused-but-set-variable] 5856 | int stageframe_count {0}; | ^ projection.cpp:5857:7: warning: variable 'stageframe_notNull_count' set but not used [-Wunused-but-set-variable] 5857 | int stageframe_notNull_count {0}; | ^ projection.cpp:5858:7: warning: variable 'supplement_count' set but not used [-Wunused-but-set-variable] 5858 | int supplement_count {0}; | ^ projection.cpp:5859:7: warning: variable 'equivalence_count' set but not used [-Wunused-but-set-variable] 5859 | int equivalence_count {0}; | ^ projection.cpp:5860:7: warning: variable 'start_count' set but not used [-Wunused-but-set-variable] 5860 | int start_count {0}; | ^ projection.cpp:5861:7: warning: variable 'tweights_count' set but not used [-Wunused-but-set-variable] 5861 | int tweights_count {0}; | ^ projection.cpp:5862:7: warning: variable 'density_count' set but not used [-Wunused-but-set-variable] 5862 | int density_count {0}; | ^ projection.cpp:5863:7: warning: variable 'entry_time_count' set but not used [-Wunused-but-set-variable] 5863 | int entry_time_count {0}; | ^ projection.cpp:5864:7: warning: variable 'density_vr_count' set but not used [-Wunused-but-set-variable] 5864 | int density_vr_count {0}; | ^ projection.cpp:5865:7: warning: variable 'sparse_vec_count' set but not used [-Wunused-but-set-variable] 5865 | int sparse_vec_count {0}; | ^ projection.cpp:5866:7: warning: variable 'found_fleslie' set but not used [-Wunused-but-set-variable] 5866 | int found_fleslie {0}; | ^ projection.cpp:7837:15: warning: variable 'maxage_NAs' set but not used [-Wunused-but-set-variable] 7837 | int maxage_NAs {0}; | ^ projection.cpp:6547:8: warning: unused variable 'sensitivity_bool' [-Wunused-variable] 6547 | bool sensitivity_bool {false}; | ^~~~~~~~~~~~~~~~ projection.cpp:12801:18: warning: unused variable 'res_fitness_test' [-Wunused-variable] 12801 | double res_fitness_test = current_round_fitness_values(0); | ^~~~~~~~~~~~~~~~ projection.cpp:12431:12: warning: variable 'conv_test' set but not used [-Wunused-but-set-variable] 12431 | double conv_test {0.}; | ^ projection.cpp:12433:12: warning: variable 'xE' set but not used [-Wunused-but-set-variable] 12433 | double xE {0.}; // test value to keep in memory from previous expansion round | ^ projection.cpp:12434:12: warning: variable 'xC_new' set but not used [-Wunused-but-set-variable] 12434 | double xC_new {0.}; // test value to keep in memory from previous contraction round | ^ projection.cpp:13016:7: warning: unused variable 'optim_rows' [-Wunused-variable] 13016 | int optim_rows = static_cast(final_output_df.nrows()); | ^~~~~~~~~~ projection.cpp:14856:18: warning: unused variable 'res_fitness_test' [-Wunused-variable] 14856 | double res_fitness_test = current_round_fitness_values(0); | ^~~~~~~~~~~~~~~~ projection.cpp:14374:12: warning: variable 'conv_test' set but not used [-Wunused-but-set-variable] 14374 | double conv_test {0.}; | ^ projection.cpp:14376:12: warning: variable 'xE' set but not used [-Wunused-but-set-variable] 14376 | double xE {0.}; // test value to keep in memory from previous expansion round | ^ projection.cpp:14377:12: warning: variable 'xC_new' set but not used [-Wunused-but-set-variable] 14377 | double xC_new {0.}; // test value to keep in memory from previous contraction round | ^ projection.cpp:15073:7: warning: unused variable 'optim_rows' [-Wunused-variable] 15073 | int optim_rows = static_cast(final_output_df.nrows()); | ^~~~~~~~~~ projection.cpp:19778:7: warning: unused variable 'stageframe_count' [-Wunused-variable] 19778 | int stageframe_count {0}; | ^~~~~~~~~~~~~~~~ projection.cpp:19779:7: warning: variable 'stageframe_notNull_count' set but not used [-Wunused-but-set-variable] 19779 | int stageframe_notNull_count {0}; | ^ projection.cpp:19780:7: warning: unused variable 'supplement_count' [-Wunused-variable] 19780 | int supplement_count {0}; | ^~~~~~~~~~~~~~~~ projection.cpp:19781:7: warning: variable 'equivalence_count' set but not used [-Wunused-but-set-variable] 19781 | int equivalence_count {0}; | ^ projection.cpp:19782:7: warning: variable 'start_count' set but not used [-Wunused-but-set-variable] 19782 | int start_count {0}; | ^ projection.cpp:19783:7: warning: variable 'tweights_count' set but not used [-Wunused-but-set-variable] 19783 | int tweights_count {0}; | ^ projection.cpp:19784:7: warning: variable 'density_count' set but not used [-Wunused-but-set-variable] 19784 | int density_count {0}; | ^ projection.cpp:19786:7: warning: variable 'entry_time_count' set but not used [-Wunused-but-set-variable] 19786 | int entry_time_count {0}; | ^ projection.cpp:19787:7: warning: variable 'density_vr_count' set but not used [-Wunused-but-set-variable] 19787 | int density_vr_count {0}; | ^ projection.cpp:19788:7: warning: variable 'sparse_vec_count' set but not used [-Wunused-but-set-variable] 19788 | int sparse_vec_count {0}; | ^ projection.cpp:19800:8: warning: variable 'prebreeding_bool' set but not used [-Wunused-but-set-variable] 19800 | bool prebreeding_bool {true}; | ^ 40 warnings generated. clang++-21 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/srv/hornik/tmp/CRAN_pretest/Library/lefko3/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include/ -fpic -g -O3 -Wall -pedantic -c utilities.cpp -o utilities.o In file included from utilities.cpp:7: In file included from /srv/hornik/tmp/CRAN_pretest/Library/lefko3/include/LefkoUtils.h:8: /srv/hornik/tmp/CRAN_pretest/Library/lefko3/include/basic_funcs/mat_stuff.h:1672:12: warning: variable 'esta2_used' set but not used [-Wunused-but-set-variable] 1672 | bool esta2_used {false}; | ^ /srv/hornik/tmp/CRAN_pretest/Library/lefko3/include/basic_funcs/mat_stuff.h:1478:9: warning: variable 'age_related_stages' set but not used [-Wunused-but-set-variable] 1478 | int age_related_stages {0}; | ^ /srv/hornik/tmp/CRAN_pretest/Library/lefko3/include/basic_funcs/mat_stuff.h:1479:9: warning: variable 'age_related_min_ages' set but not used [-Wunused-but-set-variable] 1479 | int age_related_min_ages {0}; | ^ In file included from utilities.cpp:8: In file included from ../inst/include/AdaptUtils.h:7: ../inst/include/basic_funcs/main_utils.h:4474:9: warning: variable 'good_max_age_values' set but not used [-Wunused-but-set-variable] 4474 | int good_max_age_values {0}; | ^ In file included from utilities.cpp:8: In file included from ../inst/include/AdaptUtils.h:8: ../inst/include/basic_funcs/mats_utils.h:3699:9: warning: unused variable 'nostages_nounborn' [-Wunused-variable] 3699 | int nostages_nounborn = nostages - almostbornstages; | ^~~~~~~~~~~~~~~~~ 5 warnings generated. clang++-21 -std=gnu++20 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o adapt3.so RcppExports.o projection.o utilities.o -llapack -L/home/hornik/tmp/R/lib -lRblas -L/usr/lib/llvm-21/lib/clang/21/lib/linux -L/usr/lib/llvm-21/lib -lflang_rt.runtime -lm -L/home/hornik/tmp/R/lib -lR installing to /srv/hornik/tmp/CRAN_pretest/adapt3.Rcheck/00LOCK-adapt3/00new/adapt3/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** 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 (adapt3)