==29839== Memcheck, a memory error detector
==29839== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al.
==29839== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info
==29839== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/cell_based/test/TestRunningVertexBasedSimulationsTutorial -malloc_debug -malloc_dump -memory_info
==29839== Parent PID: 14533
==29839== 
==29839== 
==29839== FILE DESCRIPTORS: 11 open (6 inherited) at exit.
==29839== Open file descriptor 10: /dev/shm/open_mpi.0000
==29839==    at 0x1355F536: __open_nocancel (open64_nocancel.c:39)
==29839==    by 0x134E3BC3: shm_open@@GLIBC_2.34 (shm_open.c:46)
==29839==    by 0x18AE589E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x18AE5A71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x18AE4C38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x18AE4F97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x189B4159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x10A840E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8949F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8A2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8118F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10ABB627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0xFA62446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==29839==    by 0xF1752D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==29839==    by 0xF175327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==29839==    by 0x4020543: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==29839==    by 0x401ACC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==29839==    by 0x401D7CE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==29839==    by 0x401D5F2: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==29839==    by 0x401DD9B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==29839==    by 0x4018CF8: main (TestRunningVertexBasedSimulationsTutorial.cpp:19)
==29839== 
{
   <insert_a_suppression_name_here>
   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
}
==29839== Open file descriptor 9:
==29839==    at 0x1356D96B: eventfd (syscall-template.S:120)
==29839==    by 0x18B45188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18B43395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18B43704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18B439F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18AAA0D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x18AAA1E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x189B4120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x10A840E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8949F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8A2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8118F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10ABB627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0xFA62446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==29839==    by 0xF1752D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==29839==    by 0xF175327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==29839==    by 0x4020543: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==29839==    by 0x401ACC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==29839==    by 0x401D7CE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==29839==    by 0x401D5F2: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==29839==    by 0x401DD9B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==29839==    by 0x4018CF8: main (TestRunningVertexBasedSimulationsTutorial.cpp:19)
==29839== 
{
   <insert_a_suppression_name_here>
   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
}
==29839== Open file descriptor 8:
==29839==    at 0x1355E2BB: pipe2 (syscall-template.S:120)
==29839==    by 0x18B44F87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18B47579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18B47774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18B438AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18AAA0D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x18AAA1E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x189B4120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x10A840E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8949F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8A2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8118F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10ABB627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0xFA62446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==29839==    by 0xF1752D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==29839==    by 0xF175327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==29839==    by 0x4020543: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==29839==    by 0x401ACC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==29839==    by 0x401D7CE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==29839==    by 0x401D5F2: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==29839==    by 0x401DD9B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==29839==    by 0x4018CF8: main (TestRunningVertexBasedSimulationsTutorial.cpp:19)
==29839== 
{
   <insert_a_suppression_name_here>
   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
}
==29839== Open file descriptor 7:
==29839==    at 0x1355E2BB: pipe2 (syscall-template.S:120)
==29839==    by 0x18B44F87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18B47579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18B47774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18B438AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18AAA0D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x18AAA1E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x189B4120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x10A840E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8949F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8A2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8118F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10ABB627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0xFA62446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==29839==    by 0xF1752D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==29839==    by 0xF175327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==29839==    by 0x4020543: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==29839==    by 0x401ACC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==29839==    by 0x401D7CE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==29839==    by 0x401D5F2: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==29839==    by 0x401DD9B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==29839==    by 0x4018CF8: main (TestRunningVertexBasedSimulationsTutorial.cpp:19)
==29839== 
{
   <insert_a_suppression_name_here>
   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
}
==29839== Open file descriptor 5:
==29839==    at 0x1356E46B: epoll_create1 (syscall-template.S:120)
==29839==    by 0x18B476FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18B438AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29839==    by 0x18AAA0D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x18AAA1E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x189B4120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29839==    by 0x10A840E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8949F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8A2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10A8118F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0x10ABB627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29839==    by 0xFA62446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==29839==    by 0xF1752D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==29839==    by 0xF175327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==29839==    by 0x4020543: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==29839==    by 0x401ACC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==29839==    by 0x401D7CE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==29839==    by 0x401D5F2: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==29839==    by 0x401DD9B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==29839==    by 0x4018CF8: main (TestRunningVertexBasedSimulationsTutorial.cpp:19)
==29839== 
{
   <insert_a_suppression_name_here>
   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
}
==29839== 
==29839== HEAP SUMMARY:
==29839==     in use at exit: 131,239 bytes in 938 blocks
==29839==   total heap usage: 1,384,647 allocs, 1,383,709 frees, 72,150,497 bytes allocated
==29839== 
==29839== LEAK SUMMARY:
==29839==    definitely lost: 0 bytes in 0 blocks
==29839==    indirectly lost: 0 bytes in 0 blocks
==29839==      possibly lost: 0 bytes in 0 blocks
==29839==    still reachable: 12,109 bytes in 46 blocks
==29839==         suppressed: 119,130 bytes in 892 blocks
==29839== Reachable blocks (those to which a pointer was found) are not shown.
==29839== To see them, rerun with: --leak-check=full --show-leak-kinds=all
==29839== 
==29839== For lists of detected and suppressed errors, rerun with: -s
==29839== ERROR SUMMARY: 5 errors from 5 contexts (suppressed: 36 from 36)