==14944== Memcheck, a memory error detector ==14944== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al. ==14944== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info ==14944== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/cell_based/test/TestCell -malloc_debug -malloc_dump -memory_info ==14944== Parent PID: 14941 ==14944== ==14944== ==14944== FILE DESCRIPTORS: 11 open (6 inherited) at exit. ==14944== Open file descriptor 10: /dev/shm/open_mpi.0000 ==14944== at 0xF3AD536: __open_nocancel (open64_nocancel.c:39) ==14944== by 0xF331BC3: shm_open@@GLIBC_2.34 (shm_open.c:46) ==14944== by 0x169EC89E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0x169ECA71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0x169EBC38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0x169EBF97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0x168BB159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0xEC480E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC7F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xDC26446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14944== by 0xD3372D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14944== by 0xD337327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14944== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14944== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14944== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14944== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14944== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14944== by 0x40180B2: main (TestCell.cpp:19) ==14944== { 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 } ==14944== Open file descriptor 9: ==14944== at 0xF3BB96B: eventfd (syscall-template.S:120) ==14944== by 0x16A4C188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x16A4A395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x16A4A704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x16A4A9F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x169B10D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0x169B11E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0x168BB120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0xEC480E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC7F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xDC26446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14944== by 0xD3372D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14944== by 0xD337327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14944== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14944== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14944== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14944== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14944== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14944== by 0x40180B2: main (TestCell.cpp:19) ==14944== { 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 } ==14944== Open file descriptor 8: ==14944== at 0xF3AC2BB: pipe2 (syscall-template.S:120) ==14944== by 0x16A4BF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x16A4E579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x16A4E774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x16A4A8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x169B10D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0x169B11E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0x168BB120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0xEC480E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC7F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xDC26446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14944== by 0xD3372D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14944== by 0xD337327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14944== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14944== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14944== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14944== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14944== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14944== by 0x40180B2: main (TestCell.cpp:19) ==14944== { 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 } ==14944== Open file descriptor 7: ==14944== at 0xF3AC2BB: pipe2 (syscall-template.S:120) ==14944== by 0x16A4BF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x16A4E579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x16A4E774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x16A4A8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x169B10D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0x169B11E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0x168BB120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0xEC480E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC7F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xDC26446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14944== by 0xD3372D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14944== by 0xD337327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14944== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14944== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14944== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14944== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14944== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14944== by 0x40180B2: main (TestCell.cpp:19) ==14944== { 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 } ==14944== Open file descriptor 5: ==14944== at 0xF3BC46B: epoll_create1 (syscall-template.S:120) ==14944== by 0x16A4E6FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x16A4A8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==14944== by 0x169B10D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0x169B11E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0x168BB120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==14944== by 0xEC480E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC4518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xEC7F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==14944== by 0xDC26446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==14944== by 0xD3372D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==14944== by 0xD337327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==14944== by 0x401F39D: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==14944== by 0x4019CED: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==14944== by 0x401CDEA: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==14944== by 0x401CC18: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==14944== by 0x401D35D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==14944== by 0x40180B2: main (TestCell.cpp:19) ==14944== { 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 } ==14944== ==14944== HEAP SUMMARY: ==14944== in use at exit: 126,499 bytes in 899 blocks ==14944== total heap usage: 5,163,554 allocs, 5,162,655 frees, 504,027,967 bytes allocated ==14944== ==14944== LEAK SUMMARY: ==14944== definitely lost: 0 bytes in 0 blocks ==14944== indirectly lost: 0 bytes in 0 blocks ==14944== possibly lost: 0 bytes in 0 blocks ==14944== still reachable: 12,109 bytes in 46 blocks ==14944== suppressed: 114,390 bytes in 853 blocks ==14944== Reachable blocks (those to which a pointer was found) are not shown. ==14944== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==14944== ==14944== For lists of detected and suppressed errors, rerun with: -s ==14944== ERROR SUMMARY: 5 errors from 5 contexts (suppressed: 33 from 33)