Install log for 'geometry'

* installing *source* package ‘geometry’ ...
** this is package ‘geometry’ version ‘0.5.2’
** package ‘geometry’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)’
using C++ compiler: ‘g++ (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)’
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-devel/geometry/src'
g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c QuadTree.cpp -o QuadTree.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c Rconvhulln.c -o Rconvhulln.o
g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c RcppExports.cpp -o RcppExports.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c Rdelaunayn.c -o Rdelaunayn.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c Rgeometry.c -o Rgeometry.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c Rhalfspacen.c -o Rhalfspacen.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c Rinhulln.c -o Rinhulln.o
g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c Rtsearch.cpp -o Rtsearch.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c Rtsearch_orig.c -o Rtsearch_orig.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c Rtsearchn.c -o Rtsearchn.o
Rtsearchn.c: In function ‘C_tsearchn’:
Rtsearchn.c:61:7: warning: variable ‘nf’ set but not used [-Wunused-but-set-variable=]
   61 |   int nf = 0;                   /* Number of facets */
      |       ^~
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c geom2_r.c -o geom2_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c geom_r.c -o geom_r.o
geom_r.c: In function ‘qh_gausselim’:
geom_r.c:623:24: warning: variable ‘flip’ set but not used [-Wunused-but-set-variable=]
  623 |   int i, j, k, pivoti, flip=0;
      |                        ^~~~
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c geometry_init.c -o geometry_init.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c global_r.c -o global_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c io_r.c -o io_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c libqhull_r.c -o libqhull_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c mem_r.c -o mem_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c merge_r.c -o merge_r.o
merge_r.c: In function ‘qh_mergecycle_all’:
merge_r.c:2907:17: warning: variable ‘total’ set but not used [-Wunused-but-set-variable=]
 2907 |   int cycles=0, total=0, facets, nummerge, numdegen= 0;
      |                 ^~~~~
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c poly2_r.c -o poly2_r.o
poly2_r.c: In function ‘qh_check_bestdist’:
poly2_r.c:103:37: warning: variable ‘notgood’ set but not used [-Wunused-but-set-variable=]
  103 |   int numpart= 0, facet_i, facet_n, notgood= 0, notverified= 0;
      |                                     ^~~~~~~
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c poly_r.c -o poly_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c qset_r.c -o qset_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c random_r.c -o random_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c rboxlib_r.c -o rboxlib_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c stat_r.c -o stat_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c user_r.c -o user_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c usermem_r.c -o usermem_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c userprintf_r.c -o userprintf_r.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -DR_NO_REMAP -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include   -include Rgeometry.h -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c userprintf_rbox_r.c -o userprintf_rbox_r.o
g++ -std=gnu++20 -shared -L/usr/local/lib64 -o geometry.so QuadTree.o Rconvhulln.o RcppExports.o Rdelaunayn.o Rgeometry.o Rhalfspacen.o Rinhulln.o Rtsearch.o Rtsearch_orig.o Rtsearchn.o geom2_r.o geom_r.o geometry_init.o global_r.o io_r.o libqhull_r.o mem_r.o merge_r.o poly2_r.o poly_r.o qset_r.o random_r.o rboxlib_r.o stat_r.o user_r.o usermem_r.o userprintf_r.o userprintf_rbox_r.o
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-devel/geometry/src'
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-devel/geometry/src'
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-devel/geometry/src'
installing to /data/localhost/ripley/R/packages/tests-devel/geometry.Rcheck/00LOCK-geometry/00new/geometry/libs
** R
** demo
** 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 (geometry)