==14020== Memcheck, a memory error detector ==14020== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al. ==14020== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info ==14020== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/crypt/test/TestCryptSimulationBoundaryCondition -malloc_debug -malloc_dump -memory_info ==14020== Parent PID: 13899 ==14020== ==14020== ==14020== FILE DESCRIPTORS: 11 open (6 inherited) at exit. ==14020== Open file descriptor 10: /dev/shm/open_mpi.0000 ==14020== at 0x14AEA536: __open_nocancel (open64_nocancel.c:39) ==14020== by 0x14A6EBC3: shm_open@@GLIBC_2.34 (shm_open.c:46) ==14020== by 0x1A1AD89E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x1A1ADA71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x1A1ACC38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x1A1ACF97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x1A07C159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x143850E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438A49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438B2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438218F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x143BC627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x6ABC446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14020== by 0x142BD2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14020== by 0x142BD327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14020== by 0x40392E3: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14020== by 0x40314F1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14020== by 0x403485E: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14020== by 0x40346F1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14020== by 0x4034DEB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14020== by 0x402F948: main (TestCryptSimulationBoundaryCondition.cpp:18) ==14020== { CoreError:FdNotClosed fun:__open_nocancel fun:shm_open@@GLIBC_2.34 fun:opal_shmem_posix_shm_open obj:/usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5 obj:/usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5 fun:opal_shmem_base_select fun:opal_init fun:ompi_rte_init obj:/usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7 fun:ompi_mpi_instance_init fun:ompi_mpi_init fun:PMPI_Init_thread fun:PetscInitialize fun:_ZN15PetscSetupUtils15InitialisePetscEv fun:_ZN15PetscSetupUtils11CommonSetupEv fun:_ZN10PetscSetup10setUpWorldEv fun:_ZN7CxxTest20RealWorldDescription5setUpEv fun:_ZN7CxxTest10TestRunner8runWorldEv fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE fun:_ZN7CxxTest14ErrorFormatter3runEv fun:main } ==14020== Open file descriptor 9: ==14020== at 0x14AF896B: eventfd (syscall-template.S:120) ==14020== by 0x1A20D188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A20B395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A20B704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A20B9F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A1720D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x1A1721E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x1A07C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x143850E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438A49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438B2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438218F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x143BC627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x6ABC446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14020== by 0x142BD2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14020== by 0x142BD327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14020== by 0x40392E3: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14020== by 0x40314F1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14020== by 0x403485E: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14020== by 0x40346F1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14020== by 0x4034DEB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14020== by 0x402F948: main (TestCryptSimulationBoundaryCondition.cpp:18) ==14020== { CoreError:FdNotClosed fun:eventfd fun:evutil_eventfd_ obj:/usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1 fun:evthread_make_base_notifiable fun:event_base_new_with_config fun:opal_event_base_create fun:opal_event_init fun:opal_init fun:ompi_rte_init obj:/usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7 fun:ompi_mpi_instance_init fun:ompi_mpi_init fun:PMPI_Init_thread fun:PetscInitialize fun:_ZN15PetscSetupUtils15InitialisePetscEv fun:_ZN15PetscSetupUtils11CommonSetupEv fun:_ZN10PetscSetup10setUpWorldEv fun:_ZN7CxxTest20RealWorldDescription5setUpEv fun:_ZN7CxxTest10TestRunner8runWorldEv fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE fun:_ZN7CxxTest14ErrorFormatter3runEv fun:main } ==14020== Open file descriptor 8: ==14020== at 0x14AE92BB: pipe2 (syscall-template.S:120) ==14020== by 0x1A20CF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A20F579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A20F774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A20B8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A1720D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x1A1721E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x1A07C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x143850E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438A49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438B2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438218F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x143BC627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x6ABC446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14020== by 0x142BD2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14020== by 0x142BD327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14020== by 0x40392E3: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14020== by 0x40314F1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14020== by 0x403485E: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14020== by 0x40346F1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14020== by 0x4034DEB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14020== by 0x402F948: main (TestCryptSimulationBoundaryCondition.cpp:18) ==14020== { CoreError:FdNotClosed fun:pipe2 fun:evutil_make_internal_pipe_ fun:evsig_init_ obj:/usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1 fun:event_base_new_with_config fun:opal_event_base_create fun:opal_event_init fun:opal_init fun:ompi_rte_init obj:/usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7 fun:ompi_mpi_instance_init fun:ompi_mpi_init fun:PMPI_Init_thread fun:PetscInitialize fun:_ZN15PetscSetupUtils15InitialisePetscEv fun:_ZN15PetscSetupUtils11CommonSetupEv fun:_ZN10PetscSetup10setUpWorldEv fun:_ZN7CxxTest20RealWorldDescription5setUpEv fun:_ZN7CxxTest10TestRunner8runWorldEv fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE fun:_ZN7CxxTest14ErrorFormatter3runEv fun:main } ==14020== Open file descriptor 7: ==14020== at 0x14AE92BB: pipe2 (syscall-template.S:120) ==14020== by 0x1A20CF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A20F579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A20F774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A20B8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A1720D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x1A1721E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x1A07C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x143850E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438A49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438B2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438218F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x143BC627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x6ABC446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14020== by 0x142BD2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14020== by 0x142BD327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14020== by 0x40392E3: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14020== by 0x40314F1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14020== by 0x403485E: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14020== by 0x40346F1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14020== by 0x4034DEB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14020== by 0x402F948: main (TestCryptSimulationBoundaryCondition.cpp:18) ==14020== { CoreError:FdNotClosed fun:pipe2 fun:evutil_make_internal_pipe_ fun:evsig_init_ obj:/usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1 fun:event_base_new_with_config fun:opal_event_base_create fun:opal_event_init fun:opal_init fun:ompi_rte_init obj:/usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7 fun:ompi_mpi_instance_init fun:ompi_mpi_init fun:PMPI_Init_thread fun:PetscInitialize fun:_ZN15PetscSetupUtils15InitialisePetscEv fun:_ZN15PetscSetupUtils11CommonSetupEv fun:_ZN10PetscSetup10setUpWorldEv fun:_ZN7CxxTest20RealWorldDescription5setUpEv fun:_ZN7CxxTest10TestRunner8runWorldEv fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE fun:_ZN7CxxTest14ErrorFormatter3runEv fun:main } ==14020== Open file descriptor 6: ==14020== at 0x14AF946B: epoll_create1 (syscall-template.S:120) ==14020== by 0x1A20F6FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A20B8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A1720D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x1A1721E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x1A07C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14020== by 0x143850E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438A49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438B2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x1438218F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x143BC627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14020== by 0x6ABC446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14020== by 0x142BD2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14020== by 0x142BD327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14020== by 0x40392E3: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14020== by 0x40314F1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14020== by 0x403485E: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14020== by 0x40346F1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14020== by 0x4034DEB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14020== by 0x402F948: main (TestCryptSimulationBoundaryCondition.cpp:18) ==14020== { CoreError:FdNotClosed fun:epoll_create1 obj:/usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1 fun:event_base_new_with_config fun:opal_event_base_create fun:opal_event_init fun:opal_init fun:ompi_rte_init obj:/usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7 fun:ompi_mpi_instance_init fun:ompi_mpi_init fun:PMPI_Init_thread fun:PetscInitialize fun:_ZN15PetscSetupUtils15InitialisePetscEv fun:_ZN15PetscSetupUtils11CommonSetupEv fun:_ZN10PetscSetup10setUpWorldEv fun:_ZN7CxxTest20RealWorldDescription5setUpEv fun:_ZN7CxxTest10TestRunner8runWorldEv fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE fun:_ZN7CxxTest14ErrorFormatter3runEv fun:main } ==14020== ==14020== HEAP SUMMARY: ==14020== in use at exit: 127,147 bytes in 911 blocks ==14020== total heap usage: 50,536 allocs, 49,625 frees, 15,041,517 bytes allocated ==14020== ==14020== 14 bytes in 1 blocks are possibly lost in loss record 83 of 418 ==14020== at 0x48B4888: malloc (vg_replace_malloc.c:447) ==14020== by 0x14A7E14E: strdup (strdup.c:42) ==14020== by 0x1A2EA38C: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.13.9) ==14020== by 0x1A208467: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A20A19E: event_base_loop (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14020== by 0x1A34EF20: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.13.9) ==14020== by 0x14A650EA: start_thread (pthread_create.c:454) ==14020== by 0x14AF8483: clone (clone.S:100) ==14020== { Memcheck:Leak match-leak-kinds: possible fun:malloc fun:strdup obj:/usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.13.9 obj:/usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1 fun:event_base_loop obj:/usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.13.9 fun:start_thread fun:clone } ==14020== LEAK SUMMARY: ==14020== definitely lost: 0 bytes in 0 blocks ==14020== indirectly lost: 0 bytes in 0 blocks ==14020== possibly lost: 14 bytes in 1 blocks ==14020== still reachable: 12,069 bytes in 46 blocks ==14020== suppressed: 115,064 bytes in 864 blocks ==14020== Reachable blocks (those to which a pointer was found) are not shown. ==14020== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==14020== ==14020== For lists of detected and suppressed errors, rerun with: -s ==14020== ERROR SUMMARY: 6 errors from 6 contexts (suppressed: 33 from 33)