* installing to library ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages’
* installing *source* package ‘jmotif’ ...
** this is package ‘jmotif’ version ‘1.3.0’
** package ‘jmotif’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Debian clang version 22.1.8 (1)’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpIEJvDX/R.INSTALL2eb06c69dbbc9b/jmotif/src'
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -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"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c discord.cpp -o discord.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c distance.cpp -o distance.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c hot-sax.cpp -o hot-sax.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c jmotif.cpp -o jmotif.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c paa.cpp -o paa.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c repair.cpp -o repair.o
repair.cpp:119:7: warning: variable 'i' set but not used [-Wunused-but-set-variable]
119 | int i=0;
| ^
In file included from repair.cpp:1:
In file included from ../inst/include/jmotif.h:5:
In file included from /usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/vector:64:
In file included from /usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_algobase.h:66:
In file included from /usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_iterator.h:78:
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_construct.h:88:2: warning: destructor called on non-final 'repair_symbol' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor]
88 | __location->~_Tp();
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_construct.h:164:12: note: in instantiation of function template specialization 'std::destroy_at<repair_symbol>' requested here
164 | std::destroy_at(__pointer);
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_construct.h:226:9: note: in instantiation of function template specialization 'std::_Destroy<repair_symbol>' requested here
226 | std::_Destroy(std::addressof(*__first));
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/alloc_traits.h:1085:12: note: in instantiation of function template specialization 'std::_Destroy<repair_symbol *>' requested here
1085 | std::_Destroy(__first, __last);
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/deque.tcc:1041:8: note: in instantiation of function template specialization 'std::_Destroy<repair_symbol *, repair_symbol>' requested here
1041 | std::_Destroy(*__node, *__node + _S_buffer_size(),
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_deque.h:2230:4: note: in instantiation of member function 'std::deque<repair_symbol>::_M_destroy_data_aux' requested here
2230 | _M_destroy_data_aux(__first, __last);
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_deque.h:1042:9: note: in instantiation of member function 'std::deque<repair_symbol>::_M_destroy_data' requested here
1042 | { _M_destroy_data(begin(), end(), _M_get_Tp_allocator()); }
| ^
../inst/include/jmotif.h:216:7: note: in instantiation of member function 'std::deque<repair_symbol>::~deque' requested here
216 | class repair_pool {
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_construct.h:88:15: note: qualify call to silence this warning
88 | __location->~_Tp();
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_construct.h:88:2: warning: destructor called on non-final 'repair_guard' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor]
88 | __location->~_Tp();
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_construct.h:164:12: note: in instantiation of function template specialization 'std::destroy_at<repair_guard>' requested here
164 | std::destroy_at(__pointer);
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_construct.h:226:9: note: in instantiation of function template specialization 'std::_Destroy<repair_guard>' requested here
226 | std::_Destroy(std::addressof(*__first));
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/alloc_traits.h:1085:12: note: in instantiation of function template specialization 'std::_Destroy<repair_guard *>' requested here
1085 | std::_Destroy(__first, __last);
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/deque.tcc:1041:8: note: in instantiation of function template specialization 'std::_Destroy<repair_guard *, repair_guard>' requested here
1041 | std::_Destroy(*__node, *__node + _S_buffer_size(),
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_deque.h:2230:4: note: in instantiation of member function 'std::deque<repair_guard>::_M_destroy_data_aux' requested here
2230 | _M_destroy_data_aux(__first, __last);
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_deque.h:1042:9: note: in instantiation of member function 'std::deque<repair_guard>::_M_destroy_data' requested here
1042 | { _M_destroy_data(begin(), end(), _M_get_Tp_allocator()); }
| ^
../inst/include/jmotif.h:216:7: note: in instantiation of member function 'std::deque<repair_guard>::~deque' requested here
216 | class repair_pool {
| ^
/usr/lib/gcc/x86_64-linux-gnu/16/../../../../include/c++/16/bits/stl_construct.h:88:15: note: qualify call to silence this warning
88 | __location->~_Tp();
| ^
3 warnings generated.
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c repair_digram.cpp -o repair_digram.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c repair_guard.cpp -o repair_guard.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c repair_priority_queue.cpp -o repair_priority_queue.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c repair_rule.cpp -o repair_rule.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c repair_symbol.cpp -o repair_symbol.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c repair_symbol_record.cpp -o repair_symbol_record.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c rra.cpp -o rra.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c sax-vsm.cpp -o sax-vsm.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c sax.cpp -o sax.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c string.cpp -o string.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c utils.cpp -o utils.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c visit_registry.cpp -o visit_registry.o
clang++-22 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I"../inst/include/" -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c znorm.cpp -o znorm.o
clang++-22 -std=gnu++20 -shared -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -Wl,-O1 -o jmotif.so RcppExports.o discord.o distance.o hot-sax.o jmotif.o paa.o repair.o repair_digram.o repair_guard.o repair_priority_queue.o repair_rule.o repair_symbol.o repair_symbol_record.o rra.o sax-vsm.o sax.o string.o utils.o visit_registry.o znorm.o -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpIEJvDX/R.INSTALL2eb06c69dbbc9b/jmotif/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpIEJvDX/R.INSTALL2eb06c69dbbc9b/jmotif/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpIEJvDX/R.INSTALL2eb06c69dbbc9b/jmotif/src'
installing to /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/00LOCK-jmotif/00new/jmotif/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (jmotif)