valgrind out

psenin@psenin-Q304UAK:~/git/jmotif-R/tests$ R -d valgrind -f testthat.R
5709 Memcheck, a memory error detector
5709 Copyright © 2002-2015, and GNU GPL’d, by Julian Seward et al.
5709 Using Valgrind-3.11.0 and LibVEX; rerun with -h for copyright info
5709 Command: /usr/lib/R/bin/exec/R -f testthat.R
5709

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> library(testthat)
> library(jmotif)
Loading required package: Rcpp
>
> test_check(“jmotif”)
5709 Invalid read of size 8
5709 at 0×4C326D6: memcpy@@GLIBC_2.14 (in /usr/lib/valgrind/vgpreload_memcheck-amd64-linux.so)
5709 by 0xE086AE2: __copy_m (stl_algobase.h:368)
5709 by 0xE086AE2: __copy_move_a<false, double const*, double*> (stl_algobase.h:386)
5709 by 0xE086AE2: __copy_move_a2<false, gnu_cxx::normal_iterator<double const*, std::vector >, double*> (stl_algobase.h:424)
5709 by 0xE086AE2: copy<gnu_cxx::normal_iterator<double const*, std::vector >, double*> (stl_algobase.h:456)
5709 by 0xE086AE2: uninit_copy<gnu_cxx::normal_iterator<double const*, std::vector >, double*> (stl_uninitialized.h:101)
5709 by 0xE086AE2: uninitialized_copy<gnu_cxx::__normal_iterator<double const*, std::vector >, double*> (stl_uninitialized.h:134)
5709 by 0xE086AE2: uninitialized_copy_a<gnu_cxx::__normal_iterator<double const*, std::vector >, double*, double> (stl_uninitialized.h:289)
5709 by 0xE086AE2: M_range_initialize<gnu_cxx::normal_iterator<double const*, std::vector > > (stlvector.h:1326)
5709 by 0xE086AE2: M_initialize_dispatch<gnu_cxx::normal_iterator<double const*, std::vector > > (stl_vector.h:1299)
5709 by 0xE086AE2: vector<gnu_cxx::normal_iterator<double const*, std::vector > > (stlvector.h:414)
5709 by 0xE086AE2: _paa2(std::vector<double, std::allocator >, int) (paa.cpp:120)
5709 by 0xE08FEC0: normalized_distance(int, int, int, int, std::vector<double, std::allocator >*) (rra.cpp:45)
5709 by 0xE090C9C: find_best_rra_discord(std::vector<double, std::allocator >*, int, std::unordered_map<int, rule_record*, std::hash, std::equal_to, std::allocator<std::pair<int const, rule_record*> > >*, std::vector<int, std::allocator >*, std::vector<rule_interval, std::allocator >*, std::unordered_set<int, std::hash, std::equal_to, std::allocator >*) (rra.cpp:246)
5709 by 0xE091CFC: find_discordsrra(Rcpp::Vector<14, Rcpp::PreserveStorage>, int, int, int, Rcpp::Vector<16, Rcpp::PreserveStorage>, double, int) (rra.cpp:478)
5709 by 0xE0741B1: jmotif_find_discords_rra (RcppExports.cpp:100)
5709 by 0×4F0C7A9: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F0CC9B: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F4A0AC: Rf_eval (in /usr/lib/R/lib/libR.so)
5709 by 0×4F4CB4D: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F49E8B: Rf_eval (in /usr/lib/R/lib/libR.so)
5709 by 0×4F4BEAE: ? (in /usr/lib/R/lib/libR.so)
5709 Address 0xdef59c8 is 0 bytes after a block of size 888 alloc’d
5709 at 0×4C2E0EF: operator new(unsigned long) (in /usr/lib/valgrind/vgpreload_memcheck-amd64-linux.so)
5709 by 0xE08FE7B: allocate (new_allocator.h:111)
5709 by 0xE08FE7B: allocate (alloctraits.h:436)
5709 by 0xE08FE7B: M_allocate (stlvector.h:172)
5709 by 0xE08FE7B: M_create_storage (stlvector.h:187)
5709 by 0xE08FE7B: Vector_base (stl_vector.h:138)
5709 by 0xE08FE7B: vector (stlvector.h:328)
5709 by 0xE08FE7B: normalized_distance(int, int, int, int, std::vector<double, std::allocator >*) (rra.cpp:45)
5709 by 0xE090C9C: find_best_rra_discord(std::vector<double, std::allocator >*, int, std::unordered_map<int, rule_record*, std::hash, std::equal_to, std::allocator<std::pair<int const, rule_record*> > >*, std::vector<int, std::allocator >*, std::vector<rule_interval, std::allocator >*, std::unordered_set<int, std::hash, std::equal_to, std::allocator >*) (rra.cpp:246)
5709 by 0xE091CFC: find_discordsrra(Rcpp::Vector<14, Rcpp::PreserveStorage>, int, int, int, Rcpp::Vector<16, Rcpp::PreserveStorage>, double, int) (rra.cpp:478)
5709 by 0xE0741B1: jmotif_find_discords_rra (RcppExports.cpp:100)
5709 by 0×4F0C7A9: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F0CC9B: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F4A0AC: Rf_eval (in /usr/lib/R/lib/libR.so)
5709 by 0×4F4CB4D: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F49E8B: Rf_eval (in /usr/lib/R/lib/libR.so)
5709 by 0×4F4BEAE: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F49C55: Rf_eval (in /usr/lib/R/lib/libR.so)
5709
5709 Invalid read of size 8
5709 at 0×4C326D6: memcpy@@GLIBC_2.14 (in /usr/lib/valgrind/vgpreloadmemcheck-amd64-linux.so)
5709 by 0xE086AE2: __copy_m (stl_algobase.h:368)
5709 by 0xE086AE2: __copy_move_a<false, double const*, double*> (stl_algobase.h:386)
5709 by 0xE086AE2: __copy_move_a2<false, gnu_cxx::normal_iterator<double const*, std::vector >, double*> (stl_algobase.h:424)
5709 by 0xE086AE2: copy<gnu_cxx::normal_iterator<double const*, std::vector >, double*> (stl_algobase.h:456)
5709 by 0xE086AE2: uninit_copy<gnu_cxx::normal_iterator<double const*, std::vector >, double*> (stl_uninitialized.h:101)
5709 by 0xE086AE2: uninitialized_copy<gnu_cxx::__normal_iterator<double const*, std::vector >, double*> (stl_uninitialized.h:134)
5709 by 0xE086AE2: uninitialized_copy_a<gnu_cxx::__normal_iterator<double const*, std::vector >, double*, double> (stl_uninitialized.h:289)
5709 by 0xE086AE2: M_range_initialize<gnu_cxx::normal_iterator<double const*, std::vector > > (stlvector.h:1326)
5709 by 0xE086AE2: M_initialize_dispatch<gnu_cxx::normal_iterator<double const*, std::vector > > (stl_vector.h:1299)
5709 by 0xE086AE2: vector<gnu_cxx::normal_iterator<double const*, std::vector > > (stlvector.h:414)
5709 by 0xE086AE2: _paa2(std::vector<double, std::allocator >, int) (paa.cpp:120)
5709 by 0xE08FC89: normalized_distance(int, int, int, int, std::vector<double, std::allocator >*) (rra.cpp:58)
5709 by 0xE090C9C: find_best_rra_discord(std::vector<double, std::allocator >*, int, std::unordered_map<int, rule_record*, std::hash, std::equal_to, std::allocator<std::pair<int const, rule_record*> > >*, std::vector<int, std::allocator >*, std::vector<rule_interval, std::allocator >*, std::unordered_set<int, std::hash, std::equal_to, std::allocator >*) (rra.cpp:246)
5709 by 0xE091CFC: find_discordsrra(Rcpp::Vector<14, Rcpp::PreserveStorage>, int, int, int, Rcpp::Vector<16, Rcpp::PreserveStorage>, double, int) (rra.cpp:478)
5709 by 0xE0741B1: jmotif_find_discords_rra (RcppExports.cpp:100)
5709 by 0×4F0C7A9: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F0CC9B: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F4A0AC: Rf_eval (in /usr/lib/R/lib/libR.so)
5709 by 0×4F4CB4D: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F49E8B: Rf_eval (in /usr/lib/R/lib/libR.so)
5709 by 0×4F4BEAE: ? (in /usr/lib/R/lib/libR.so)
5709 Address 0×100b0cb0 is 0 bytes after a block of size 896 alloc’d
5709 at 0×4C2E0EF: operator new(unsigned long) (in /usr/lib/valgrind/vgpreload_memcheck-amd64-linux.so)
5709 by 0xE08FC42: allocate (new_allocator.h:111)
5709 by 0xE08FC42: allocate (alloctraits.h:436)
5709 by 0xE08FC42: M_allocate (stlvector.h:172)
5709 by 0xE08FC42: M_create_storage (stlvector.h:187)
5709 by 0xE08FC42: Vector_base (stl_vector.h:138)
5709 by 0xE08FC42: vector (stlvector.h:328)
5709 by 0xE08FC42: normalized_distance(int, int, int, int, std::vector<double, std::allocator >*) (rra.cpp:58)
5709 by 0xE090C9C: find_best_rra_discord(std::vector<double, std::allocator >*, int, std::unordered_map<int, rule_record*, std::hash, std::equal_to, std::allocator<std::pair<int const, rule_record*> > >*, std::vector<int, std::allocator >*, std::vector<rule_interval, std::allocator >*, std::unordered_set<int, std::hash, std::equal_to, std::allocator >*) (rra.cpp:246)
5709 by 0xE091CFC: find_discordsrra(Rcpp::Vector<14, Rcpp::PreserveStorage>, int, int, int, Rcpp::Vector<16, Rcpp::PreserveStorage>, double, int) (rra.cpp:478)
5709 by 0xE0741B1: jmotif_find_discords_rra (RcppExports.cpp:100)
5709 by 0×4F0C7A9: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F0CC9B: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F4A0AC: Rf_eval (in /usr/lib/R/lib/libR.so)
5709 by 0×4F4CB4D: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F49E8B: Rf_eval (in /usr/lib/R/lib/libR.so)
5709 by 0×4F4BEAE: ? (in /usr/lib/R/lib/libR.so)
5709 by 0×4F49C55: Rfeval (in /usr/lib/R/lib/libR.so)
5709
testthat results ================
OK: 177 SKIPPED: 0 FAILED: 0
>
5709
5709 HEAP SUMMARY:
5709 in use at exit: 63,463,833 bytes in 45,133 blocks
5709 total heap usage: 12,228,199 allocs, 12,183,066 frees, 1,596,572,013 bytes allocated
5709
5709 LEAK SUMMARY:
5709 definitely lost: 266,211 bytes in 5,967 blocks
5709 indirectly lost: 511,616 bytes in 10,627 blocks
5709 possibly lost: 1,001 bytes in 8 blocks
5709 still reachable: 62,685,005 bytes in 28,531 blocks
5709 of which reachable via heuristic:
5709 stdstring : 65 bytes in 1 blocks
5709 suppressed: 0 bytes in 0 blocks
5709 Rerun with —leak-check=full to see details of leaked memory
5709
5709 For counts of detected and suppressed errors, rerun with: -v
5709 ERROR SUMMARY: 8726 errors from 2 contexts (suppressed: 0 from 0)