* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘parallelpam’ ...
** this is package ‘parallelpam’ version ‘1.4.3’
** package ‘parallelpam’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.3.0-10) 14.3.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp6SKG2p/R.INSTALL3f16ee2e354b0a/parallelpam/src'
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c csvtojmat.cpp -o csvtojmat.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c debugpar.cpp -o debugpar.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c diftimehelper.cpp -o diftimehelper.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c dissimmat.cpp -o dissimmat.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c dissimmat_full.cpp -o dissimmat_full.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c dissimmat_sparse.cpp -o dissimmat_sparse.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c fastpam.cpp -o fastpam.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c filternames.cpp -o filternames.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c filtersil.cpp -o filtersil.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c fullmatrix.cpp -o fullmatrix.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c jmatrix.cpp -o jmatrix.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c jmatrixaux.cpp -o jmatrixaux.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c mainfastpam.cpp -o mainfastpam.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c matgetcols.cpp -o matgetcols.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c matgetdiag.cpp -o matgetdiag.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c matgetrows.cpp -o matgetrows.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c matinfo.cpp -o matinfo.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c matmetadata.cpp -o matmetadata.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c matwrite.cpp -o matwrite.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c memhelper.cpp -o memhelper.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c silhouette.cpp -o silhouette.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c sparsematrix.cpp -o sparsematrix.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c symmetricmatrix.cpp -o symmetricmatrix.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -c threadhelper.cpp -o threadhelper.o
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o parallelpam.so RcppExports.o csvtojmat.o debugpar.o diftimehelper.o dissimmat.o dissimmat_full.o dissimmat_sparse.o fastpam.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-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp6SKG2p/R.INSTALL3f16ee2e354b0a/parallelpam/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp6SKG2p/R.INSTALL3f16ee2e354b0a/parallelpam/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp6SKG2p/R.INSTALL3f16ee2e354b0a/parallelpam/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-parallelpam/00new/parallelpam/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘parallelpam’
finding HTML links ... done
ApplyPAM html
CalcAndWriteDissimilarityMatrix html
CalculateSilhouette html
ClassifAsDataFrame html
CsvToJMat html
FilterBySilhouetteQuantile html
FilterBySilhouetteThreshold html
FilterJMatByName html
GetJCol html
GetJColByName html
GetJColNames html
GetJManyCols html
GetJManyColsByNames html
GetJManyRows html
GetJManyRowsByNames html
GetJNames html
GetJRow html
GetJRowByName html
GetJRowNames html
GetSubdiag html
GetTD html
JMatInfo html
JMatToCsv html
JWriteBin html
NumSilToClusterSil html
ParallelpamSetDebug html
** 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 (parallelpam)