==14507== Memcheck, a memory error detector ==14507== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al. ==14507== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info ==14507== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/cell_based/test/TestCell -malloc_debug -malloc_dump -memory_info ==14507== Parent PID: 14505 ==14507== ==14507== ==14507== FILE DESCRIPTORS: 11 open (6 inherited) at exit. ==14507== Open file descriptor 10: /dev/shm/open_mpi.0000 ==14507== at 0xF835536: __open_nocancel (open64_nocancel.c:39) ==14507== by 0xF7B9BC3: shm_open@@GLIBC_2.34 (shm_open.c:46) ==14507== by 0x16E7D89E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0x16E7DA71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0x16E7CC38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0x16E7CF97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0x16D4C159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0xF0D00E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0D549F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0D62C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0CD18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF107627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xE0AE446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14507== by 0xD7BF2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14507== by 0xD7BF327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14507== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14507== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14507== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14507== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14507== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14507== by 0x40180B2: main (TestCell.cpp:19) ==14507== { 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 } ==14507== Open file descriptor 9: ==14507== at 0xF84396B: eventfd (syscall-template.S:120) ==14507== by 0x16EDD188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16EDB395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16EDB704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16EDB9F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16E420D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0x16E421E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0x16D4C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0xF0D00E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0D549F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0D62C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0CD18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF107627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xE0AE446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14507== by 0xD7BF2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14507== by 0xD7BF327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14507== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14507== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14507== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14507== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14507== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14507== by 0x40180B2: main (TestCell.cpp:19) ==14507== { 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 } ==14507== Open file descriptor 8: ==14507== at 0xF8342BB: pipe2 (syscall-template.S:120) ==14507== by 0x16EDCF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16EDF579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16EDF774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16EDB8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16E420D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0x16E421E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0x16D4C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0xF0D00E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0D549F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0D62C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0CD18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF107627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xE0AE446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14507== by 0xD7BF2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14507== by 0xD7BF327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14507== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14507== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14507== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14507== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14507== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14507== by 0x40180B2: main (TestCell.cpp:19) ==14507== { 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 } ==14507== Open file descriptor 7: ==14507== at 0xF8342BB: pipe2 (syscall-template.S:120) ==14507== by 0x16EDCF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16EDF579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16EDF774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16EDB8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16E420D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0x16E421E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0x16D4C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0xF0D00E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0D549F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0D62C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0CD18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF107627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xE0AE446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14507== by 0xD7BF2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14507== by 0xD7BF327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14507== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14507== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14507== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14507== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14507== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14507== by 0x40180B2: main (TestCell.cpp:19) ==14507== { 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 } ==14507== Open file descriptor 4: ==14507== at 0xF84446B: epoll_create1 (syscall-template.S:120) ==14507== by 0x16EDF6FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16EDB8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14507== by 0x16E420D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0x16E421E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0x16D4C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14507== by 0xF0D00E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0D549F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0D62C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF0CD18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xF107627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14507== by 0xE0AE446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14507== by 0xD7BF2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14507== by 0xD7BF327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14507== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14507== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14507== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14507== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14507== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14507== by 0x40180B2: main (TestCell.cpp:19) ==14507== { 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 } ==14507== ==14507== HEAP SUMMARY: ==14507== in use at exit: 105,404 bytes in 643 blocks ==14507== total heap usage: 5,163,265 allocs, 5,162,622 frees, 502,076,026 bytes allocated ==14507== ==14507== LEAK SUMMARY: ==14507== definitely lost: 0 bytes in 0 blocks ==14507== indirectly lost: 0 bytes in 0 blocks ==14507== possibly lost: 0 bytes in 0 blocks ==14507== still reachable: 12,109 bytes in 46 blocks ==14507== suppressed: 93,295 bytes in 597 blocks ==14507== Reachable blocks (those to which a pointer was found) are not shown. ==14507== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==14507== ==14507== For lists of detected and suppressed errors, rerun with: -s ==14507== ERROR SUMMARY: 5 errors from 5 contexts (suppressed: 33 from 33)