==14842== Memcheck, a memory error detector ==14842== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al. ==14842== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info ==14842== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/cell_based/test/TestCell -malloc_debug -malloc_dump -memory_info ==14842== Parent PID: 14840 ==14842== ==14842== ==14842== FILE DESCRIPTORS: 11 open (6 inherited) at exit. ==14842== Open file descriptor 10: /dev/shm/open_mpi.0000 ==14842== at 0xF38D536: __open_nocancel (open64_nocancel.c:39) ==14842== by 0xF311BC3: shm_open@@GLIBC_2.34 (shm_open.c:46) ==14842== by 0x169CD89E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0x169CDA71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0x169CCC38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0x169CCF97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0x1689C159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0xEC280E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC5F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xDC06446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14842== by 0xD3172D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14842== by 0xD317327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14842== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14842== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14842== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14842== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14842== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14842== by 0x40180B2: main (TestCell.cpp:19) ==14842== { 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 } ==14842== Open file descriptor 9: ==14842== at 0xF39B96B: eventfd (syscall-template.S:120) ==14842== by 0x16A2D188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x16A2B395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x16A2B704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x16A2B9F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x169920D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0x169921E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0x1689C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0xEC280E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC5F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xDC06446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14842== by 0xD3172D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14842== by 0xD317327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14842== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14842== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14842== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14842== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14842== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14842== by 0x40180B2: main (TestCell.cpp:19) ==14842== { 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 } ==14842== Open file descriptor 8: ==14842== at 0xF38C2BB: pipe2 (syscall-template.S:120) ==14842== by 0x16A2CF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x16A2F579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x16A2F774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x16A2B8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x169920D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0x169921E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0x1689C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0xEC280E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC5F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xDC06446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14842== by 0xD3172D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14842== by 0xD317327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14842== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14842== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14842== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14842== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14842== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14842== by 0x40180B2: main (TestCell.cpp:19) ==14842== { 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 } ==14842== Open file descriptor 7: ==14842== at 0xF38C2BB: pipe2 (syscall-template.S:120) ==14842== by 0x16A2CF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x16A2F579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x16A2F774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x16A2B8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x169920D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0x169921E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0x1689C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0xEC280E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC5F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xDC06446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14842== by 0xD3172D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14842== by 0xD317327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14842== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14842== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14842== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14842== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14842== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14842== by 0x40180B2: main (TestCell.cpp:19) ==14842== { 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 } ==14842== Open file descriptor 5: ==14842== at 0xF39C46B: epoll_create1 (syscall-template.S:120) ==14842== by 0x16A2F6FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x16A2B8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14842== by 0x169920D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0x169921E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0x1689C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14842== by 0xEC280E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC2518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xEC5F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14842== by 0xDC06446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14842== by 0xD3172D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14842== by 0xD317327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14842== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14842== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14842== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14842== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14842== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14842== by 0x40180B2: main (TestCell.cpp:19) ==14842== { 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 } ==14842== ==14842== HEAP SUMMARY: ==14842== in use at exit: 126,500 bytes in 899 blocks ==14842== total heap usage: 5,163,554 allocs, 5,162,655 frees, 504,027,750 bytes allocated ==14842== ==14842== LEAK SUMMARY: ==14842== definitely lost: 0 bytes in 0 blocks ==14842== indirectly lost: 0 bytes in 0 blocks ==14842== possibly lost: 0 bytes in 0 blocks ==14842== still reachable: 12,109 bytes in 46 blocks ==14842== suppressed: 114,391 bytes in 853 blocks ==14842== Reachable blocks (those to which a pointer was found) are not shown. ==14842== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==14842== ==14842== For lists of detected and suppressed errors, rerun with: -s ==14842== ERROR SUMMARY: 5 errors from 5 contexts (suppressed: 33 from 33)