* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘OjaNP’ ...
** this is package ‘OjaNP’ version ‘2.0’
** package ‘OjaNP’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-15 (Debian 15.3.0-2) 15.3.0’
using C++ compiler: ‘g++-15 (Debian 15.3.0-2) 15.3.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpKVpuZW/R.INSTALL26657f746094ed/OjaNP/src'
g++-15 -std=gnu++20 -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 Matrix2D.cpp -o Matrix2D.o
g++-15 -std=gnu++20 -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 SubsetGenerator.cpp -o SubsetGenerator.o
g++-15 -std=gnu++20 -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 _Vector.cpp -o _Vector.o
g++-15 -std=gnu++20 -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 algorithms.cpp -o algorithms.o
g++-15 -std=gnu++20 -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 bounded_search.cpp -o bounded_search.o
bounded_search.cpp: In function ‘void addBound(Hyperplane&, bool, std::vector<Hyperplane>&, std::vector<Point>&, std::set<int>&, std::vector<std::set<int> >&, unsigned int)’:
bounded_search.cpp:104:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
104 | for (int k = 0; k < dim - 1; k++){
| ~~^~~~~~~~~
bounded_search.cpp:113:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<Hyperplane>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
113 | for (int i = 0; i < bounds.size() - 1; i++){
| ~~^~~~~~~~~~~~~~~~~~~
bounded_search.cpp:127:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
127 | for (int k = 0; k < dim - 1; k++){
| ~~^~~~~~~~~
bounded_search.cpp:143:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<Hyperplane>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
143 | for (int i = 0; i < bounds.size(); i++){
| ~~^~~~~~~~~~~~~~~
bounded_search.cpp: In function ‘void clearBounds(std::vector<Point>&, std::set<int>&, std::vector<std::set<int> >&)’:
bounded_search.cpp:171:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::set<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
171 | for (i = 0; i < bounds_crossing_indexes.size(); i++){
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
bounded_search.cpp:179:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<Point>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
179 | for (i = 0; i < crossing_points.size(); i++){ used_crossing_points.insert(i); }
| ~~^~~~~~~~~~~~~~~~~~~~~~~~
bounded_search.cpp: In member function ‘OjaPoint OjaData::medianFollowIntersectionLinesBounded()’:
bounded_search.cpp:476:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<Point>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
476 | for (int j = 1; j < crossing_points.size(); j++){
| ~~^~~~~~~~~~~~~~~~~~~~~~~~
bounded_search.cpp:511:48: warning: suggest parentheses around ‘+’ in operand of ‘&’ [-Wparentheses]
511 | if (len != ((v + (v >> 4) & 0xF0F0F0F) * 0x1010101) >> 24) continue; // count set bits, check if the sequence is of desired length
| ~~^~~~~~~~~~
bounded_search.cpp:511:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘Int32’ {aka ‘unsigned int’} [-Wsign-compare]
511 | if (len != ((v + (v >> 4) & 0xF0F0F0F) * 0x1010101) >> 24) continue; // count set bits, check if the sequence is of desired length
| ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
bounded_search.cpp:527:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<Hyperplane>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
527 | for (int i = 0; i < bounds.size(); i++){
| ~~^~~~~~~~~~~~~~~
bounded_search.cpp:529:55: warning: comparison of integer expressions of different signedness: ‘std::set<int>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
529 | for (int a = 0; bci[i].size() < dim(); a++){
| ~~~~~~~~~~~~~~^~~~~~~
bounded_search.cpp:543:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<Hyperplane>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
543 | for (int i = 0; i < bounds.size(); i++)
| ~~^~~~~~~~~~~~~~~
g++-15 -std=gnu++20 -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 data.cpp -o data.o
data.cpp: In member function ‘void Data::enlarge(const std::vector<Point>&)’:
data.cpp:161:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<Point>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
161 | for (int i = 0; i<Points.size(); i++)
| ~^~~~~~~~~~~~~~
gcc-15 -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 det.c -o det.o
g++-15 -std=gnu++20 -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 global.cpp -o global.o
g++-15 -std=gnu++20 -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 hyperplane.cpp -o hyperplane.o
hyperplane.cpp: In member function ‘void HyperplaneSet::get(const std::vector<Hyperplane>&)’:
hyperplane.cpp:370:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<Hyperplane>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
370 | for (int i = 0; i<hyperplanes.size(); i++)
| ~^~~~~~~~~~~~~~~~~~~
g++-15 -std=gnu++20 -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 index.cpp -o index.o
index.cpp: In constructor ‘IndexSet::IndexSet(int, int, const std::vector<std::set<int> >&)’:
index.cpp:626:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::set<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
626 | for (int i = 0; i < indexes.size(); i++)
| ~~^~~~~~~~~~~~~~~~
g++-15 -std=gnu++20 -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 interface.cpp -o interface.o
g++-15 -std=gnu++20 -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 lattice.cpp -o lattice.o
g++-15 -std=gnu++20 -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 line.cpp -o line.o
g++-15 -std=gnu++20 -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 matrix_wrapper.cpp -o matrix_wrapper.o
g++-15 -std=gnu++20 -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 misc.cpp -o misc.o
misc.cpp: In function ‘long unsigned int choices(int, int)’:
misc.cpp:65:18: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
65 | while (d <= k){ r *= n--; r /= d++; }
| ~~^~~~
g++-15 -std=gnu++20 -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 oja_data.cpp -o oja_data.o
g++-15 -std=gnu++20 -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 oja_geometry.cpp -o oja_geometry.o
oja_geometry.cpp: In member function ‘std::set<int> DotSet::find_valid_bounds(std::set<int>&, const OjaData*, Point&)’:
oja_geometry.cpp:324:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::pair<double, int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
324 | for (i = 0; i < dotarray->size() - 1; i++){
| ~~^~~~~~~~~~~~~~~~~~~~~~
oja_geometry.cpp:336:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::pair<double, int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
336 | for (i = i + 1; i < dotarray->size() - 1; i++){
| ~~^~~~~~~~~~~~~~~~~~~~~~
oja_geometry.cpp: In member function ‘OjaPoint DotSet::min(double&)’:
oja_geometry.cpp:663:62: warning: ‘min’ may be used uninitialized [-Wmaybe-uninitialized]
663 | p.set_index(line->index(),Data()->hyperplaneindex(dot(min).second));
| ~~~^~~~~
oja_geometry.cpp:572:13: note: ‘min’ was declared here
572 | int min;
| ^~~
g++-15 -std=gnu++20 -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 oja_iterator.cpp -o oja_iterator.o
gcc-15 -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 ojasr.c -o ojasr.o
g++-15 -std=gnu++20 -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 point.cpp -o point.o
g++-15 -std=gnu++20 -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 random.cpp -o random.o
gcc-15 -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 registerDynamicSymbol.c -o registerDynamicSymbol.o
g++-15 -std=gnu++20 -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 simplex.cpp -o simplex.o
g++-15 -std=gnu++20 -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 stdafx.cpp -o stdafx.o
g++-15 -std=gnu++20 -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 vkm.cpp -o vkm.o
g++-15 -std=gnu++20 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o OjaNP.so Matrix2D.o SubsetGenerator.o _Vector.o algorithms.o bounded_search.o data.o det.o global.o hyperplane.o index.o interface.o lattice.o line.o matrix_wrapper.o misc.o oja_data.o oja_geometry.o oja_iterator.o ojasr.o point.o random.o registerDynamicSymbol.o simplex.o stdafx.o vkm.o -llapack -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpKVpuZW/R.INSTALL26657f746094ed/OjaNP/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpKVpuZW/R.INSTALL26657f746094ed/OjaNP/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpKVpuZW/R.INSTALL26657f746094ed/OjaNP/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-OjaNP/00new/OjaNP/libs
** R
** data
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘OjaNP’
finding HTML links ... done
OjaNP-package html
biochem html
hyperplane html
oja1sampleTest html
ojaCsampleTest html
ojaMedian html
ojaMedianControl html
ojaMedianFn html
ojaRCM html
ojaRank html
ojaSCM html
ojaSign html
ojaSignedRank html
** building package indices
** 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 (OjaNP)