* installing *source* package ‘adapt3’ ...
** this is package ‘adapt3’ version ‘1.0.1’
** package ‘adapt3’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘clang version 21.1.4’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/adapt3/src'
/usr/local/clang21/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lefko3/include' -isystem /usr/local/clang21/include -I/usr/local/clang/include   -I../inst/include/ -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c RcppExports.cpp -o RcppExports.o
/usr/local/clang21/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lefko3/include' -isystem /usr/local/clang21/include -I/usr/local/clang/include   -I../inst/include/ -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c projection.cpp -o projection.o
/usr/local/clang21/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/lefko3/include' -isystem /usr/local/clang21/include -I/usr/local/clang/include   -I../inst/include/ -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c utilities.cpp -o utilities.o
projection.cpp:5571:8: warning: variable 'pure_fleslie' set but not used [-Wunused-but-set-variable]
 5571 |   bool pure_fleslie {false}; // Are all function-based MPMs Leslie MPMs?
      |        ^
projection.cpp:5576:7: warning: variable 'stageframe_count' set but not used [-Wunused-but-set-variable]
 5576 |   int stageframe_count {0};
      |       ^
projection.cpp:5577:7: warning: variable 'stageframe_notNull_count' set but not used [-Wunused-but-set-variable]
 5577 |   int stageframe_notNull_count {0};
      |       ^
projection.cpp:5578:7: warning: variable 'supplement_count' set but not used [-Wunused-but-set-variable]
 5578 |   int supplement_count {0};
      |       ^
projection.cpp:5579:7: warning: variable 'equivalence_count' set but not used [-Wunused-but-set-variable]
 5579 |   int equivalence_count {0};
      |       ^
projection.cpp:5580:7: warning: variable 'start_count' set but not used [-Wunused-but-set-variable]
 5580 |   int start_count {0};
      |       ^
projection.cpp:5581:7: warning: variable 'tweights_count' set but not used [-Wunused-but-set-variable]
 5581 |   int tweights_count {0};
      |       ^
projection.cpp:5582:7: warning: variable 'density_count' set but not used [-Wunused-but-set-variable]
 5582 |   int density_count {0};
      |       ^
projection.cpp:5583:7: warning: variable 'entry_time_count' set but not used [-Wunused-but-set-variable]
 5583 |   int entry_time_count {0};
      |       ^
projection.cpp:5584:7: warning: variable 'density_vr_count' set but not used [-Wunused-but-set-variable]
 5584 |   int density_vr_count {0};
      |       ^
projection.cpp:5585:7: warning: variable 'sparse_vec_count' set but not used [-Wunused-but-set-variable]
 5585 |   int sparse_vec_count {0};
      |       ^
projection.cpp:5586:7: warning: variable 'found_fleslie' set but not used [-Wunused-but-set-variable]
 5586 |   int found_fleslie {0};
      |       ^
projection.cpp:16582:7: warning: unused variable 'stageframe_count' [-Wunused-variable]
 16582 |   int stageframe_count {0};
       |       ^~~~~~~~~~~~~~~~
projection.cpp:16583:7: warning: variable 'stageframe_notNull_count' set but not used [-Wunused-but-set-variable]
 16583 |   int stageframe_notNull_count {0};
       |       ^
projection.cpp:16584:7: warning: unused variable 'supplement_count' [-Wunused-variable]
 16584 |   int supplement_count {0};
       |       ^~~~~~~~~~~~~~~~
projection.cpp:16585:7: warning: variable 'equivalence_count' set but not used [-Wunused-but-set-variable]
 16585 |   int equivalence_count {0};
       |       ^
projection.cpp:16586:7: warning: variable 'start_count' set but not used [-Wunused-but-set-variable]
 16586 |   int start_count {0};
       |       ^
projection.cpp:16587:7: warning: variable 'tweights_count' set but not used [-Wunused-but-set-variable]
 16587 |   int tweights_count {0};
       |       ^
projection.cpp:16588:7: warning: variable 'density_count' set but not used [-Wunused-but-set-variable]
 16588 |   int density_count {0};
       |       ^
projection.cpp:16590:7: warning: variable 'entry_time_count' set but not used [-Wunused-but-set-variable]
 16590 |   int entry_time_count {0};
       |       ^
projection.cpp:16591:7: warning: variable 'density_vr_count' set but not used [-Wunused-but-set-variable]
 16591 |   int density_vr_count {0};
       |       ^
projection.cpp:16592:7: warning: variable 'sparse_vec_count' set but not used [-Wunused-but-set-variable]
 16592 |   int sparse_vec_count {0};
       |       ^
projection.cpp:16604:8: warning: variable 'prebreeding_bool' set but not used [-Wunused-but-set-variable]
 16604 |   bool prebreeding_bool {true};
       |        ^
23 warnings generated.
/usr/local/clang21/bin/clang++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang21/lib -L/usr/local/clang21/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -L/usr/local/clang21/lib/clang/21/lib/x86_64-unknown-linux-gnu -o adapt3.so RcppExports.o projection.o utilities.o -fopenmp -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lflang_rt.runtime -lm
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/adapt3/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/adapt3/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/adapt3/src'
installing to /data/gannet/ripley/R/packages/tests-clang/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)