* installing *source* package ‘APackOfTheClones’ ...
** using staged installation
** libs
using C++ compiler: ‘Debian clang version 17.0.6 (5)’
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic  -c APOTCPlotHelpers.cpp -o APOTCPlotHelpers.o
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic  -c AdjustAPOTCHelpers.cpp -o AdjustAPOTCHelpers.o
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic  -c CloneLinkHelpers.cpp -o CloneLinkHelpers.o
CloneLinkHelpers.cpp:39:9: warning: private field 'numClusteredClonotypes' is not used [-Wunused-private-field]
   39 |     int numClusteredClonotypes;
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic  -c RcppExports.cpp -o RcppExports.o
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic  -c cpp_circle_layout.cpp -o cpp_circle_layout.o
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic  -c exportedMathUtils.cpp -o exportedMathUtils.o
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic  -c reduction_coords.cpp -o reduction_coords.o
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic  -c repulsion.cpp -o repulsion.o
clang++-17 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o APackOfTheClones.so APOTCPlotHelpers.o AdjustAPOTCHelpers.o CloneLinkHelpers.o RcppExports.o cpp_circle_layout.o exportedMathUtils.o reduction_coords.o repulsion.o -L/home/hornik/tmp/R/lib -lR
installing to /srv/hornik/tmp/CRAN/APackOfTheClones.Rcheck/00LOCK-APackOfTheClones/00new/APackOfTheClones/libs
** R
** data
** 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 (APackOfTheClones)