==16546== Memcheck, a memory error detector ==16546== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al. ==16546== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info ==16546== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/mesh/test/TestVertexMesh -malloc_debug -malloc_dump -memory_info ==16546== Parent PID: 16058 ==16546== ==16546== ==16546== FILE DESCRIPTORS: 11 open (6 inherited) at exit. ==16546== Open file descriptor 10: /dev/shm/open_mpi.0000 ==16546== at 0xA8E13B6: __open_nocancel (open64_nocancel.c:39) ==16546== by 0xA865943: shm_open@@GLIBC_2.34 (shm_open.c:46) ==16546== by 0xF7DC89E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0xF7DCA71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0xF7DBC38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0xF7DBF97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0xF6AB159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0x7E060E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0B49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0C2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0318F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E3D627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x6E07446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==16546== by 0x64CE71B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==16546== by 0x64CE769: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==16546== by 0x4051623: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==16546== by 0x404AE41: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==16546== by 0x404EF0E: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==16546== by 0x404ED32: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==16546== by 0x404F4DB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==16546== by 0x4048E78: main (TestVertexMesh.cpp:19) ==16546== { 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 } ==16546== Open file descriptor 9: ==16546== at 0xA8EF84B: eventfd (syscall-template.S:120) ==16546== by 0xF83C188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF83A395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF83A704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF83A9F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF7A10D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0xF7A11E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0xF6AB120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0x7E060E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0B49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0C2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0318F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E3D627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x6E07446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==16546== by 0x64CE71B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==16546== by 0x64CE769: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==16546== by 0x4051623: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==16546== by 0x404AE41: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==16546== by 0x404EF0E: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==16546== by 0x404ED32: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==16546== by 0x404F4DB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==16546== by 0x4048E78: main (TestVertexMesh.cpp:19) ==16546== { 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 } ==16546== Open file descriptor 8: ==16546== at 0xA8E013B: pipe2 (syscall-template.S:120) ==16546== by 0xF83BF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF83E579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF83E774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF83A8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF7A10D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0xF7A11E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0xF6AB120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0x7E060E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0B49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0C2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0318F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E3D627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x6E07446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==16546== by 0x64CE71B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==16546== by 0x64CE769: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==16546== by 0x4051623: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==16546== by 0x404AE41: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==16546== by 0x404EF0E: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==16546== by 0x404ED32: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==16546== by 0x404F4DB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==16546== by 0x4048E78: main (TestVertexMesh.cpp:19) ==16546== { 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 } ==16546== Open file descriptor 7: ==16546== at 0xA8E013B: pipe2 (syscall-template.S:120) ==16546== by 0xF83BF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF83E579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF83E774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF83A8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF7A10D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0xF7A11E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0xF6AB120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0x7E060E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0B49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0C2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0318F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E3D627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x6E07446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==16546== by 0x64CE71B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==16546== by 0x64CE769: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==16546== by 0x4051623: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==16546== by 0x404AE41: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==16546== by 0x404EF0E: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==16546== by 0x404ED32: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==16546== by 0x404F4DB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==16546== by 0x4048E78: main (TestVertexMesh.cpp:19) ==16546== { 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 } ==16546== Open file descriptor 6: ==16546== at 0xA8F034B: epoll_create1 (syscall-template.S:120) ==16546== by 0xF83E6FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF83A8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16546== by 0xF7A10D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0xF7A11E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0xF6AB120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16546== by 0x7E060E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0B49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0C2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E0318F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x7E3D627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16546== by 0x6E07446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==16546== by 0x64CE71B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==16546== by 0x64CE769: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==16546== by 0x4051623: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==16546== by 0x404AE41: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==16546== by 0x404EF0E: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==16546== by 0x404ED32: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==16546== by 0x404F4DB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==16546== by 0x4048E78: main (TestVertexMesh.cpp:19) ==16546== { 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 } ==16546== ==16546== HEAP SUMMARY: ==16546== in use at exit: 128,914 bytes in 902 blocks ==16546== total heap usage: 77,254 allocs, 76,352 frees, 20,099,764 bytes allocated ==16546== ==16546== LEAK SUMMARY: ==16546== definitely lost: 0 bytes in 0 blocks ==16546== indirectly lost: 0 bytes in 0 blocks ==16546== possibly lost: 0 bytes in 0 blocks ==16546== still reachable: 14,445 bytes in 45 blocks ==16546== suppressed: 114,469 bytes in 857 blocks ==16546== Reachable blocks (those to which a pointer was found) are not shown. ==16546== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==16546== ==16546== For lists of detected and suppressed errors, rerun with: -s ==16546== ERROR SUMMARY: 5 errors from 5 contexts (suppressed: 33 from 33)