==29637== Memcheck, a memory error detector
==29637== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al.
==29637== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info
==29637== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/cell_based/test/TestRunningVertexBasedSimulationsTutorial -malloc_debug -malloc_dump -memory_info
==29637== Parent PID: 14766
==29637== 
==29637== 
==29637== FILE DESCRIPTORS: 11 open (6 inherited) at exit.
==29637== Open file descriptor 10: /dev/shm/open_mpi.0000
==29637==    at 0x132B3536: __open_nocancel (open64_nocancel.c:39)
==29637==    by 0x13237BC3: shm_open@@GLIBC_2.34 (shm_open.c:46)
==29637==    by 0x1883989E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x18839A71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x18838C38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x18838F97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x18708159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x107D80E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107DD49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107DE2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107D518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x1080F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0xF7B6446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==29637==    by 0xEEC92D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==29637==    by 0xEEC9327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==29637==    by 0x4020543: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==29637==    by 0x401ACC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==29637==    by 0x401D7CE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==29637==    by 0x401D5F2: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==29637==    by 0x401DD9B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==29637==    by 0x4018CF8: main (TestRunningVertexBasedSimulationsTutorial.cpp:19)
==29637== 
{
   <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
}
==29637== Open file descriptor 9:
==29637==    at 0x132C196B: eventfd (syscall-template.S:120)
==29637==    by 0x18899188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x18897395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x18897704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x188979F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x187FE0D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x187FE1E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x18708120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x107D80E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107DD49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107DE2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107D518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x1080F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0xF7B6446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==29637==    by 0xEEC92D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==29637==    by 0xEEC9327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==29637==    by 0x4020543: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==29637==    by 0x401ACC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==29637==    by 0x401D7CE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==29637==    by 0x401D5F2: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==29637==    by 0x401DD9B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==29637==    by 0x4018CF8: main (TestRunningVertexBasedSimulationsTutorial.cpp:19)
==29637== 
{
   <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
}
==29637== Open file descriptor 8:
==29637==    at 0x132B22BB: pipe2 (syscall-template.S:120)
==29637==    by 0x18898F87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x1889B579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x1889B774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x188978AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x187FE0D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x187FE1E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x18708120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x107D80E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107DD49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107DE2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107D518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x1080F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0xF7B6446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==29637==    by 0xEEC92D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==29637==    by 0xEEC9327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==29637==    by 0x4020543: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==29637==    by 0x401ACC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==29637==    by 0x401D7CE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==29637==    by 0x401D5F2: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==29637==    by 0x401DD9B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==29637==    by 0x4018CF8: main (TestRunningVertexBasedSimulationsTutorial.cpp:19)
==29637== 
{
   <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
}
==29637== Open file descriptor 7:
==29637==    at 0x132B22BB: pipe2 (syscall-template.S:120)
==29637==    by 0x18898F87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x1889B579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x1889B774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x188978AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x187FE0D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x187FE1E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x18708120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x107D80E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107DD49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107DE2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107D518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x1080F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0xF7B6446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==29637==    by 0xEEC92D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==29637==    by 0xEEC9327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==29637==    by 0x4020543: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==29637==    by 0x401ACC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==29637==    by 0x401D7CE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==29637==    by 0x401D5F2: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==29637==    by 0x401DD9B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==29637==    by 0x4018CF8: main (TestRunningVertexBasedSimulationsTutorial.cpp:19)
==29637== 
{
   <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
}
==29637== Open file descriptor 4:
==29637==    at 0x132C246B: epoll_create1 (syscall-template.S:120)
==29637==    by 0x1889B6FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x188978AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==29637==    by 0x187FE0D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x187FE1E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x18708120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==29637==    by 0x107D80E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107DD49F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107DE2C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x107D518F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0x1080F627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==29637==    by 0xF7B6446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==29637==    by 0xEEC92D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==29637==    by 0xEEC9327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==29637==    by 0x4020543: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==29637==    by 0x401ACC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==29637==    by 0x401D7CE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==29637==    by 0x401D5F2: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==29637==    by 0x401DD9B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==29637==    by 0x4018CF8: main (TestRunningVertexBasedSimulationsTutorial.cpp:19)
==29637== 
{
   <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
}
==29637== 
==29637== HEAP SUMMARY:
==29637==     in use at exit: 128,765 bytes in 906 blocks
==29637==   total heap usage: 1,384,738 allocs, 1,383,832 frees, 72,119,602 bytes allocated
==29637== 
==29637== LEAK SUMMARY:
==29637==    definitely lost: 0 bytes in 0 blocks
==29637==    indirectly lost: 0 bytes in 0 blocks
==29637==      possibly lost: 0 bytes in 0 blocks
==29637==    still reachable: 12,109 bytes in 46 blocks
==29637==         suppressed: 116,656 bytes in 860 blocks
==29637== Reachable blocks (those to which a pointer was found) are not shown.
==29637== To see them, rerun with: --leak-check=full --show-leak-kinds=all
==29637== 
==29637== For lists of detected and suppressed errors, rerun with: -s
==29637== ERROR SUMMARY: 5 errors from 5 contexts (suppressed: 37 from 37)