* installing to library ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages’
* installing *source* package ‘scellpam’ ...
** this is package ‘scellpam’ version ‘1.4.7’
** package ‘scellpam’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Debian clang version 22.1.5 (1)’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpgvqlbH/R.INSTALL3733c05b069430/scellpam/src'
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c RcppExports.cpp -o RcppExports.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c biodatatojmat.cpp -o biodatatojmat.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c buildresults.cpp -o buildresults.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c closecases.cpp -o closecases.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c csvtojmat.cpp -o csvtojmat.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c debugpar.cpp -o debugpar.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c diftimehelper.cpp -o diftimehelper.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c dissimmat.cpp -o dissimmat.o
dissimmat.cpp:223:12: warning: variable 'numsel' set but not used [-Wunused-but-set-variable]
  223 |  indextype numsel=0;
      |            ^
1 warning generated.
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c dissimmat_full.cpp -o dissimmat_full.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c dissimmat_sparse.cpp -o dissimmat_sparse.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c fastpam.cpp -o fastpam.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c filtermat.cpp -o filtermat.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c filternames.cpp -o filternames.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c filtersil.cpp -o filtersil.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c fullmatrix.cpp -o fullmatrix.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c jmatrix.cpp -o jmatrix.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c jmatrixaux.cpp -o jmatrixaux.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c mainfastpam.cpp -o mainfastpam.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c matgetcols.cpp -o matgetcols.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c matgetdiag.cpp -o matgetdiag.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c matgetrows.cpp -o matgetrows.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c matinfo.cpp -o matinfo.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c matmetadata.cpp -o matmetadata.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c matwrite.cpp -o matwrite.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c memhelper.cpp -o memhelper.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c silhouette.cpp -o silhouette.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c sparsematrix.cpp -o sparsematrix.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c symmetricmatrix.cpp -o symmetricmatrix.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -I../inst/include -fpic  -g -O3 -Wall -pedantic   -c threadhelper.cpp -o threadhelper.o
clang++-22 -std=gnu++20 -shared -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -Wl,-O1 -o scellpam.so RcppExports.o biodatatojmat.o buildresults.o closecases.o csvtojmat.o debugpar.o diftimehelper.o dissimmat.o dissimmat_full.o dissimmat_sparse.o fastpam.o filtermat.o filternames.o filtersil.o fullmatrix.o jmatrix.o jmatrixaux.o mainfastpam.o matgetcols.o matgetdiag.o matgetrows.o matinfo.o matmetadata.o matwrite.o memhelper.o silhouette.o sparsematrix.o symmetricmatrix.o threadhelper.o -lpthread -O2 -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpgvqlbH/R.INSTALL3733c05b069430/scellpam/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpgvqlbH/R.INSTALL3733c05b069430/scellpam/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpgvqlbH/R.INSTALL3733c05b069430/scellpam/src'
installing to /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/00LOCK-scellpam/00new/scellpam/libs
** R
** 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 (scellpam)