==15861== Memcheck, a memory error detector
==15861== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al.
==15861== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info
==15861== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/cell_based/test/TestOffLatticeSimulationWithNodeBasedCellPopulation -malloc_debug -malloc_dump -memory_info
==15861== Parent PID: 14582
==15861== 
==15861== 
==15861== FILE DESCRIPTORS: 11 open (6 inherited) at exit.
==15861== Open file descriptor 10: /dev/shm/open_mpi.0000
==15861==    at 0x11CEA536: __open_nocancel (open64_nocancel.c:39)
==15861==    by 0x11C6EBC3: shm_open@@GLIBC_2.34 (shm_open.c:46)
==15861==    by 0x169E189E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x169E1A71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x169E0C38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x169E0F97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x168B0159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x125380E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1256F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1314F446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==15861==    by 0xF4D12D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==15861==    by 0xF4D1327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==15861==    by 0x4105624: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==15861==    by 0x40FBE71: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==15861==    by 0x410015E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==15861==    by 0x40FFF82: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==15861==    by 0x410072B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==15861==    by 0x40F9E98: main (TestOffLatticeSimulationWithNodeBasedCellPopulation.cpp:19)
==15861== 
{
   <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
}
==15861== Open file descriptor 9:
==15861==    at 0x11CF896B: eventfd (syscall-template.S:120)
==15861==    by 0x16A41188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x16A3F395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x16A3F704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x16A3F9F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x169A60D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x169A61E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x168B0120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x125380E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1256F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1314F446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==15861==    by 0xF4D12D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==15861==    by 0xF4D1327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==15861==    by 0x4105624: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==15861==    by 0x40FBE71: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==15861==    by 0x410015E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==15861==    by 0x40FFF82: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==15861==    by 0x410072B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==15861==    by 0x40F9E98: main (TestOffLatticeSimulationWithNodeBasedCellPopulation.cpp:19)
==15861== 
{
   <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
}
==15861== Open file descriptor 8:
==15861==    at 0x11CE92BB: pipe2 (syscall-template.S:120)
==15861==    by 0x16A40F87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x16A43579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x16A43774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x16A3F8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x169A60D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x169A61E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x168B0120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x125380E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1256F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1314F446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==15861==    by 0xF4D12D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==15861==    by 0xF4D1327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==15861==    by 0x4105624: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==15861==    by 0x40FBE71: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==15861==    by 0x410015E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==15861==    by 0x40FFF82: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==15861==    by 0x410072B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==15861==    by 0x40F9E98: main (TestOffLatticeSimulationWithNodeBasedCellPopulation.cpp:19)
==15861== 
{
   <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
}
==15861== Open file descriptor 7:
==15861==    at 0x11CE92BB: pipe2 (syscall-template.S:120)
==15861==    by 0x16A40F87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x16A43579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x16A43774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x16A3F8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x169A60D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x169A61E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x168B0120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x125380E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1256F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1314F446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==15861==    by 0xF4D12D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==15861==    by 0xF4D1327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==15861==    by 0x4105624: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==15861==    by 0x40FBE71: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==15861==    by 0x410015E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==15861==    by 0x40FFF82: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==15861==    by 0x410072B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==15861==    by 0x40F9E98: main (TestOffLatticeSimulationWithNodeBasedCellPopulation.cpp:19)
==15861== 
{
   <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
}
==15861== Open file descriptor 5:
==15861==    at 0x11CF946B: epoll_create1 (syscall-template.S:120)
==15861==    by 0x16A436FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x16A3F8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==15861==    by 0x169A60D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x169A61E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x168B0120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==15861==    by 0x125380E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253D49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253E2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1253518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1256F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==15861==    by 0x1314F446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==15861==    by 0xF4D12D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==15861==    by 0xF4D1327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==15861==    by 0x4105624: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==15861==    by 0x40FBE71: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==15861==    by 0x410015E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==15861==    by 0x40FFF82: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==15861==    by 0x410072B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==15861==    by 0x40F9E98: main (TestOffLatticeSimulationWithNodeBasedCellPopulation.cpp:19)
==15861== 
{
   <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
}
==15861== 
==15861== HEAP SUMMARY:
==15861==     in use at exit: 104,565 bytes in 632 blocks
==15861==   total heap usage: 20,771,733 allocs, 20,771,101 frees, 28,922,534,981 bytes allocated
==15861== 
==15861== LEAK SUMMARY:
==15861==    definitely lost: 0 bytes in 0 blocks
==15861==    indirectly lost: 0 bytes in 0 blocks
==15861==      possibly lost: 0 bytes in 0 blocks
==15861==    still reachable: 12,013 bytes in 46 blocks
==15861==         suppressed: 92,552 bytes in 586 blocks
==15861== Reachable blocks (those to which a pointer was found) are not shown.
==15861== To see them, rerun with: --leak-check=full --show-leak-kinds=all
==15861== 
==15861== For lists of detected and suppressed errors, rerun with: -s
==15861== ERROR SUMMARY: 5 errors from 5 contexts (suppressed: 33 from 33)