==13559== Memcheck, a memory error detector
==13559== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al.
==13559== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info
==13559== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/crypt/test/TestRunningMeshBasedCryptSimulationsTutorial -malloc_debug -malloc_dump -memory_info
==13559== Parent PID: 12961
==13559== 
==13559== 
==13559== FILE DESCRIPTORS: 11 open (6 inherited) at exit.
==13559== Open file descriptor 10: /dev/shm/open_mpi.0000
==13559==    at 0x14A94536: __open_nocancel (open64_nocancel.c:39)
==13559==    by 0x14A18BC3: shm_open@@GLIBC_2.34 (shm_open.c:46)
==13559==    by 0x1A19D89E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1A19DA71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1A19CC38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1A19CF97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1A06C159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1432F0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x1433449F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x143352C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x1432C18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x14366627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x6A16446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==13559==    by 0x142652D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==13559==    by 0x14265327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==13559==    by 0x4018873: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==13559==    by 0x4013861: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==13559==    by 0x4015F2E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==13559==    by 0x4015DC1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==13559==    by 0x40164BB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==13559==    by 0x4011CB8: main (TestRunningMeshBasedCryptSimulationsTutorial.cpp:18)
==13559== 
{
   <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
}
==13559== Open file descriptor 9:
==13559==    at 0x14AA296B: eventfd (syscall-template.S:120)
==13559==    by 0x1A1FD188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1FB395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1FB704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1FB9F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1620D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1A1621E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1A06C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1432F0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x1433449F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x143352C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x1432C18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x14366627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x6A16446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==13559==    by 0x142652D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==13559==    by 0x14265327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==13559==    by 0x4018873: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==13559==    by 0x4013861: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==13559==    by 0x4015F2E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==13559==    by 0x4015DC1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==13559==    by 0x40164BB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==13559==    by 0x4011CB8: main (TestRunningMeshBasedCryptSimulationsTutorial.cpp:18)
==13559== 
{
   <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
}
==13559== Open file descriptor 8:
==13559==    at 0x14A932BB: pipe2 (syscall-template.S:120)
==13559==    by 0x1A1FCF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1FF579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1FF774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1FB8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1620D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1A1621E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1A06C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1432F0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x1433449F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x143352C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x1432C18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x14366627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x6A16446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==13559==    by 0x142652D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==13559==    by 0x14265327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==13559==    by 0x4018873: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==13559==    by 0x4013861: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==13559==    by 0x4015F2E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==13559==    by 0x4015DC1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==13559==    by 0x40164BB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==13559==    by 0x4011CB8: main (TestRunningMeshBasedCryptSimulationsTutorial.cpp:18)
==13559== 
{
   <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
}
==13559== Open file descriptor 7:
==13559==    at 0x14A932BB: pipe2 (syscall-template.S:120)
==13559==    by 0x1A1FCF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1FF579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1FF774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1FB8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1620D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1A1621E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1A06C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1432F0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x1433449F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x143352C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x1432C18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x14366627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x6A16446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==13559==    by 0x142652D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==13559==    by 0x14265327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==13559==    by 0x4018873: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==13559==    by 0x4013861: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==13559==    by 0x4015F2E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==13559==    by 0x4015DC1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==13559==    by 0x40164BB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==13559==    by 0x4011CB8: main (TestRunningMeshBasedCryptSimulationsTutorial.cpp:18)
==13559== 
{
   <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
}
==13559== Open file descriptor 4:
==13559==    at 0x14AA346B: epoll_create1 (syscall-template.S:120)
==13559==    by 0x1A1FF6FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1FB8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==13559==    by 0x1A1620D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1A1621E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1A06C120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==13559==    by 0x1432F0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x1433449F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x143352C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x1432C18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x14366627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==13559==    by 0x6A16446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==13559==    by 0x142652D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==13559==    by 0x14265327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==13559==    by 0x4018873: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==13559==    by 0x4013861: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==13559==    by 0x4015F2E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==13559==    by 0x4015DC1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==13559==    by 0x40164BB: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==13559==    by 0x4011CB8: main (TestRunningMeshBasedCryptSimulationsTutorial.cpp:18)
==13559== 
{
   <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
}
==13559== 
==13559== HEAP SUMMARY:
==13559==     in use at exit: 127,076 bytes in 910 blocks
==13559==   total heap usage: 1,744,273 allocs, 1,743,363 frees, 189,659,342 bytes allocated
==13559== 
==13559== LEAK SUMMARY:
==13559==    definitely lost: 0 bytes in 0 blocks
==13559==    indirectly lost: 0 bytes in 0 blocks
==13559==      possibly lost: 0 bytes in 0 blocks
==13559==    still reachable: 11,989 bytes in 45 blocks
==13559==         suppressed: 115,087 bytes in 865 blocks
==13559== Reachable blocks (those to which a pointer was found) are not shown.
==13559== To see them, rerun with: --leak-check=full --show-leak-kinds=all
==13559== 
==13559== For lists of detected and suppressed errors, rerun with: -s
==13559== ERROR SUMMARY: 5 errors from 5 contexts (suppressed: 33 from 33)