==17187== Memcheck, a memory error detector
==17187== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al.
==17187== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info
==17187== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/cell_based/test/TestTysonNovak2001OdeSystem -malloc_debug -malloc_dump -memory_info
==17187== Parent PID: 16682
==17187== 
==17187== 
==17187== FILE DESCRIPTORS: 11 open (6 inherited) at exit.
==17187== Open file descriptor 10: /dev/shm/open_mpi.0000
==17187==    at 0xE51B3B6: __open_nocancel (open64_nocancel.c:39)
==17187==    by 0xE49F943: shm_open@@GLIBC_2.34 (shm_open.c:46)
==17187==    by 0x16DD089E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x16DD0A71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x16DCFC38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x16DCFF97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x16C9F159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x106520E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1065749F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x106582C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1064F18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x10689627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1126B446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==17187==    by 0xE09927F: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==17187==    by 0xE0992CD: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==17187==    by 0x40247E2: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==17187==    by 0x401FC73: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==17187==    by 0x4022310: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==17187==    by 0x40221AE: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==17187==    by 0x402285B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==17187==    by 0x401E462: main (TestTysonNovak2001OdeSystem.cpp:18)
==17187== 
{
   <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
}
==17187== Open file descriptor 9:
==17187==    at 0xE52984B: eventfd (syscall-template.S:120)
==17187==    by 0x16E30188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16E2E395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16E2E704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16E2E9F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16D950D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x16D951E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x16C9F120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x106520E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1065749F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x106582C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1064F18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x10689627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1126B446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==17187==    by 0xE09927F: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==17187==    by 0xE0992CD: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==17187==    by 0x40247E2: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==17187==    by 0x401FC73: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==17187==    by 0x4022310: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==17187==    by 0x40221AE: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==17187==    by 0x402285B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==17187==    by 0x401E462: main (TestTysonNovak2001OdeSystem.cpp:18)
==17187== 
{
   <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
}
==17187== Open file descriptor 8:
==17187==    at 0xE51A13B: pipe2 (syscall-template.S:120)
==17187==    by 0x16E2FF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16E32579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16E32774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16E2E8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16D950D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x16D951E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x16C9F120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x106520E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1065749F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x106582C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1064F18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x10689627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1126B446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==17187==    by 0xE09927F: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==17187==    by 0xE0992CD: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==17187==    by 0x40247E2: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==17187==    by 0x401FC73: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==17187==    by 0x4022310: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==17187==    by 0x40221AE: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==17187==    by 0x402285B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==17187==    by 0x401E462: main (TestTysonNovak2001OdeSystem.cpp:18)
==17187== 
{
   <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
}
==17187== Open file descriptor 7:
==17187==    at 0xE51A13B: pipe2 (syscall-template.S:120)
==17187==    by 0x16E2FF87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16E32579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16E32774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16E2E8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16D950D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x16D951E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x16C9F120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x106520E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1065749F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x106582C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1064F18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x10689627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1126B446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==17187==    by 0xE09927F: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==17187==    by 0xE0992CD: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==17187==    by 0x40247E2: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==17187==    by 0x401FC73: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==17187==    by 0x4022310: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==17187==    by 0x40221AE: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==17187==    by 0x402285B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==17187==    by 0x401E462: main (TestTysonNovak2001OdeSystem.cpp:18)
==17187== 
{
   <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
}
==17187== Open file descriptor 4:
==17187==    at 0xE52A34B: epoll_create1 (syscall-template.S:120)
==17187==    by 0x16E326FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16E2E8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==17187==    by 0x16D950D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x16D951E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x16C9F120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==17187==    by 0x106520E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1065749F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x106582C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1064F18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x10689627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==17187==    by 0x1126B446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==17187==    by 0xE09927F: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==17187==    by 0xE0992CD: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==17187==    by 0x40247E2: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==17187==    by 0x401FC73: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==17187==    by 0x4022310: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==17187==    by 0x40221AE: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==17187==    by 0x402285B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==17187==    by 0x401E462: main (TestTysonNovak2001OdeSystem.cpp:18)
==17187== 
{
   <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
}
==17187== 
==17187== HEAP SUMMARY:
==17187==     in use at exit: 126,423 bytes in 901 blocks
==17187==   total heap usage: 39,185 allocs, 38,284 frees, 11,368,295 bytes allocated
==17187== 
==17187== LEAK SUMMARY:
==17187==    definitely lost: 0 bytes in 0 blocks
==17187==    indirectly lost: 0 bytes in 0 blocks
==17187==      possibly lost: 0 bytes in 0 blocks
==17187==    still reachable: 11,941 bytes in 44 blocks
==17187==         suppressed: 114,482 bytes in 857 blocks
==17187== Reachable blocks (those to which a pointer was found) are not shown.
==17187== To see them, rerun with: --leak-check=full --show-leak-kinds=all
==17187== 
==17187== For lists of detected and suppressed errors, rerun with: -s
==17187== ERROR SUMMARY: 5 errors from 5 contexts (suppressed: 33 from 33)