* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘apcluster’ ...
** package ‘apcluster’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.2.0-8) 14.2.0’
using C++ compiler: ‘g++-14 (Debian 14.2.0-8) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp7odjgt/R.INSTALL2124232bd2ea77/apcluster/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 -fpic -g -O2 -Wall -pedantic -mtune=native -c R_init_apcluster.cpp -o R_init_apcluster.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 -fpic -g -O2 -Wall -pedantic -mtune=native -c aggExClusterC.cpp -o aggExClusterC.o
aggExClusterC.cpp: In function ‘int which_max_NoNA(Rcpp::NumericVector)’:
aggExClusterC.cpp:74:12: warning: ‘index’ may be used uninitialized [-Wmaybe-uninitialized]
74 | return index;
| ^~~~~
aggExClusterC.cpp:57:9: note: ‘index’ was declared here
57 | int index;
| ^~~~~
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 -fpic -g -O2 -Wall -pedantic -mtune=native -c apclusterC.cpp -o apclusterC.o
apclusterC.cpp: In function ‘SEXPREC* apclusterC(SEXP, SEXP, SEXP, SEXP, SEXP)’:
apclusterC.cpp:69:44: warning: ‘yMax’ may be used uninitialized [-Wmaybe-uninitialized]
69 | (j == yMax ? max2 : max1)) + lam * oldVal;
| ~~~~~~~~~~~^~~~~~~~~~~~~~
apclusterC.cpp:49:17: note: ‘yMax’ was declared here
49 | int yMax;
| ^~~~
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 -fpic -g -O2 -Wall -pedantic -mtune=native -c apclusterLeveragedC.cpp -o apclusterLeveragedC.o
apclusterLeveragedC.cpp: In function ‘SEXPREC* apclusterLeveragedC(SEXP, SEXP, SEXP, SEXP, SEXP)’:
apclusterLeveragedC.cpp:63:44: warning: ‘yMax’ may be used uninitialized [-Wmaybe-uninitialized]
63 | (j == yMax ? max2 : max1)) + lam * R(j, ii);
| ~~~~~~~~~~~^~~~~~~~~~~~~~
apclusterLeveragedC.cpp:37:17: note: ‘yMax’ was declared here
37 | int yMax;
| ^~~~
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 -fpic -g -O2 -Wall -pedantic -mtune=native -c apclusterSparseC.cpp -o apclusterSparseC.o
gcc-14 -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 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c distanceL.c -o distanceL.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 -fpic -g -O2 -Wall -pedantic -mtune=native -c preferenceRangeC.cpp -o preferenceRangeC.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 -fpic -g -O2 -Wall -pedantic -mtune=native -c preferenceRangeSparseC.cpp -o preferenceRangeSparseC.o
preferenceRangeSparseC.cpp: In function ‘SEXPREC* preferenceRangeSparseC(SEXP, SEXP, SEXP, SEXP, SEXP)’:
preferenceRangeSparseC.cpp:20:12: warning: unused variable ‘j’ [-Wunused-variable]
20 | int i, j, ii, K, temp1, temp2, length;
| ^
preferenceRangeSparseC.cpp:20:15: warning: unused variable ‘ii’ [-Wunused-variable]
20 | int i, j, ii, K, temp1, temp2, length;
| ^~
preferenceRangeSparseC.cpp:20:19: warning: unused variable ‘K’ [-Wunused-variable]
20 | int i, j, ii, K, temp1, temp2, length;
| ^
preferenceRangeSparseC.cpp:20:37: warning: unused variable ‘length’ [-Wunused-variable]
20 | int i, j, ii, K, temp1, temp2, length;
| ^~~~~~
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o apcluster.so R_init_apcluster.o aggExClusterC.o apclusterC.o apclusterLeveragedC.o apclusterSparseC.o distanceL.o preferenceRangeC.o preferenceRangeSparseC.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp7odjgt/R.INSTALL2124232bd2ea77/apcluster/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp7odjgt/R.INSTALL2124232bd2ea77/apcluster/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp7odjgt/R.INSTALL2124232bd2ea77/apcluster/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-apcluster/00new/apcluster/libs
** R
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for ‘heatmap’ in package ‘apcluster’
Creating a generic function for ‘cutree’ from package ‘stats’ in package ‘apcluster’
** help
*** installing help indices
converting help for package ‘apcluster’
finding HTML links ... done
APResult-class html
AggExResult-class html
ExClust-class html
aggExCluster-methods html
apcluster-methods html
apcluster-package html
apclusterDemo html
apclusterK-methods html
apclusterL-methods html
coerce-methods html
conversions html
cutree-methods html
heatmap-methods html
labels-methods html
plot-methods html
preferenceRange-methods html
show-methods html
similarities html
sort-methods 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 (apcluster)