==26492== Memcheck, a memory error detector
==26492== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al.
==26492== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info
==26492== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/cell_based/test/TestCreatingAndUsingANewCellBasedSimulationModifierTutorial -malloc_debug -malloc_dump -memory_info
==26492== Parent PID: 14793
==26492== 
==26492== 
==26492== FILE DESCRIPTORS: 11 open (6 inherited) at exit.
==26492== Open file descriptor 10: /dev/shm/open_mpi.0000
==26492==    at 0x134D8536: __open_nocancel (open64_nocancel.c:39)
==26492==    by 0x1345CBC3: shm_open@@GLIBC_2.34 (shm_open.c:46)
==26492==    by 0x18AFB89E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x18AFBA71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x18AFAC38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x18AFAF97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x189CA159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x10ADF0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10AE449F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10AE52C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10ADC18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10B16627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0xFAE0446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==26492==    by 0xF18B2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==26492==    by 0xF18B327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==26492==    by 0x40291A3: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==26492==    by 0x4023C31: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==26492==    by 0x40265FE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==26492==    by 0x4026491: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==26492==    by 0x4026B8B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==26492==    by 0x4022078: main (TestCreatingAndUsingANewCellBasedSimulationModifierTutorial.cpp:18)
==26492== 
{
   <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
}
==26492== Open file descriptor 9:
==26492==    at 0x134E696B: eventfd (syscall-template.S:120)
==26492==    by 0x18B5B188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18B59395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18B59704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18B599F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18AC00D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x18AC01E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x189CA120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x10ADF0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10AE449F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10AE52C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10ADC18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10B16627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0xFAE0446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==26492==    by 0xF18B2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==26492==    by 0xF18B327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==26492==    by 0x40291A3: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==26492==    by 0x4023C31: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==26492==    by 0x40265FE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==26492==    by 0x4026491: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==26492==    by 0x4026B8B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==26492==    by 0x4022078: main (TestCreatingAndUsingANewCellBasedSimulationModifierTutorial.cpp:18)
==26492== 
{
   <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
}
==26492== Open file descriptor 8:
==26492==    at 0x134D72BB: pipe2 (syscall-template.S:120)
==26492==    by 0x18B5AF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18B5D579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18B5D774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18B598AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18AC00D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x18AC01E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x189CA120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x10ADF0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10AE449F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10AE52C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10ADC18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10B16627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0xFAE0446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==26492==    by 0xF18B2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==26492==    by 0xF18B327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==26492==    by 0x40291A3: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==26492==    by 0x4023C31: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==26492==    by 0x40265FE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==26492==    by 0x4026491: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==26492==    by 0x4026B8B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==26492==    by 0x4022078: main (TestCreatingAndUsingANewCellBasedSimulationModifierTutorial.cpp:18)
==26492== 
{
   <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
}
==26492== Open file descriptor 7:
==26492==    at 0x134D72BB: pipe2 (syscall-template.S:120)
==26492==    by 0x18B5AF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18B5D579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18B5D774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18B598AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18AC00D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x18AC01E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x189CA120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x10ADF0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10AE449F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10AE52C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10ADC18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10B16627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0xFAE0446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==26492==    by 0xF18B2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==26492==    by 0xF18B327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==26492==    by 0x40291A3: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==26492==    by 0x4023C31: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==26492==    by 0x40265FE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==26492==    by 0x4026491: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==26492==    by 0x4026B8B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==26492==    by 0x4022078: main (TestCreatingAndUsingANewCellBasedSimulationModifierTutorial.cpp:18)
==26492== 
{
   <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
}
==26492== Open file descriptor 5:
==26492==    at 0x134E746B: epoll_create1 (syscall-template.S:120)
==26492==    by 0x18B5D6FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18B598AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==26492==    by 0x18AC00D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x18AC01E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x189CA120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==26492==    by 0x10ADF0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10AE449F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10AE52C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10ADC18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0x10B16627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==26492==    by 0xFAE0446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==26492==    by 0xF18B2D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==26492==    by 0xF18B327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==26492==    by 0x40291A3: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==26492==    by 0x4023C31: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==26492==    by 0x40265FE: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==26492==    by 0x4026491: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==26492==    by 0x4026B8B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==26492==    by 0x4022078: main (TestCreatingAndUsingANewCellBasedSimulationModifierTutorial.cpp:18)
==26492== 
{
   <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
}
==26492== 
==26492== HEAP SUMMARY:
==26492==     in use at exit: 127,343 bytes in 904 blocks
==26492==   total heap usage: 626,082 allocs, 625,178 frees, 327,658,946 bytes allocated
==26492== 
==26492== LEAK SUMMARY:
==26492==    definitely lost: 0 bytes in 0 blocks
==26492==    indirectly lost: 0 bytes in 0 blocks
==26492==      possibly lost: 0 bytes in 0 blocks
==26492==    still reachable: 12,109 bytes in 46 blocks
==26492==         suppressed: 115,234 bytes in 858 blocks
==26492== Reachable blocks (those to which a pointer was found) are not shown.
==26492== To see them, rerun with: --leak-check=full --show-leak-kinds=all
==26492== 
==26492== For lists of detected and suppressed errors, rerun with: -s
==26492== ERROR SUMMARY: 5 errors from 5 contexts (suppressed: 35 from 35)