==18461== Memcheck, a memory error detector
==18461== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al.
==18461== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info
==18461== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/cell_based/test/TestOffLatticeSimulationWithPdes -malloc_debug -malloc_dump -memory_info
==18461== Parent PID: 16707
==18461== 
==18461== 
==18461== FILE DESCRIPTORS: 11 open (6 inherited) at exit.
==18461== Open file descriptor 10: /dev/shm/open_mpi.0000
==18461==    at 0x11C4C3B6: __open_nocancel (open64_nocancel.c:39)
==18461==    by 0x11BD0943: shm_open@@GLIBC_2.34 (shm_open.c:46)
==18461==    by 0x1659489E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x16594A71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x16593C38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x16593F97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x16463159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x120ED0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120F249F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120F32C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120EA18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x12124627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x12D04446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==18461==    by 0xF4562F9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==18461==    by 0xF456347: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==18461==    by 0x41655A4: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==18461==    by 0x415DDC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==18461==    by 0x4161F5E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==18461==    by 0x4161D82: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==18461==    by 0x416252B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==18461==    by 0x415BDB8: main (TestOffLatticeSimulationWithPdes.cpp:19)
==18461== 
{
   <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
}
==18461== Open file descriptor 9:
==18461==    at 0x11C5A84B: eventfd (syscall-template.S:120)
==18461==    by 0x165F6188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165F4395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165F4704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165F49F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165590D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x165591E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x16463120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x120ED0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120F249F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120F32C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120EA18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x12124627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x12D04446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==18461==    by 0xF4562F9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==18461==    by 0xF456347: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==18461==    by 0x41655A4: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==18461==    by 0x415DDC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==18461==    by 0x4161F5E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==18461==    by 0x4161D82: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==18461==    by 0x416252B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==18461==    by 0x415BDB8: main (TestOffLatticeSimulationWithPdes.cpp:19)
==18461== 
{
   <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
}
==18461== Open file descriptor 8:
==18461==    at 0x11C4B13B: pipe2 (syscall-template.S:120)
==18461==    by 0x165F5F87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165F8579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165F8774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165F48AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165590D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x165591E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x16463120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x120ED0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120F249F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120F32C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120EA18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x12124627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x12D04446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==18461==    by 0xF4562F9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==18461==    by 0xF456347: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==18461==    by 0x41655A4: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==18461==    by 0x415DDC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==18461==    by 0x4161F5E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==18461==    by 0x4161D82: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==18461==    by 0x416252B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==18461==    by 0x415BDB8: main (TestOffLatticeSimulationWithPdes.cpp:19)
==18461== 
{
   <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
}
==18461== Open file descriptor 7:
==18461==    at 0x11C4B13B: pipe2 (syscall-template.S:120)
==18461==    by 0x165F5F87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165F8579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165F8774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165F48AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165590D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x165591E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x16463120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x120ED0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120F249F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120F32C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120EA18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x12124627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x12D04446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==18461==    by 0xF4562F9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==18461==    by 0xF456347: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==18461==    by 0x41655A4: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==18461==    by 0x415DDC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==18461==    by 0x4161F5E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==18461==    by 0x4161D82: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==18461==    by 0x416252B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==18461==    by 0x415BDB8: main (TestOffLatticeSimulationWithPdes.cpp:19)
==18461== 
{
   <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
}
==18461== Open file descriptor 4:
==18461==    at 0x11C5B34B: epoll_create1 (syscall-template.S:120)
==18461==    by 0x165F86FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165F48AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1)
==18461==    by 0x165590D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x165591E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x16463120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5)
==18461==    by 0x120ED0E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120F249F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120F32C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x120EA18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x12124627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7)
==18461==    by 0x12D04446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4)
==18461==    by 0xF4562F9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==18461==    by 0xF456347: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==18461==    by 0x41655A4: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61)
==18461==    by 0x415DDC1: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==18461==    by 0x4161F5E: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==18461==    by 0x4161D82: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==18461==    by 0x416252B: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==18461==    by 0x415BDB8: main (TestOffLatticeSimulationWithPdes.cpp:19)
==18461== 
{
   <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
}
==18461== 
==18461== HEAP SUMMARY:
==18461==     in use at exit: 126,387 bytes in 898 blocks
==18461==   total heap usage: 7,825,235 allocs, 7,824,337 frees, 1,494,760,281 bytes allocated
==18461== 
==18461== LEAK SUMMARY:
==18461==    definitely lost: 0 bytes in 0 blocks
==18461==    indirectly lost: 0 bytes in 0 blocks
==18461==      possibly lost: 0 bytes in 0 blocks
==18461==    still reachable: 11,973 bytes in 45 blocks
==18461==         suppressed: 114,414 bytes in 853 blocks
==18461== Reachable blocks (those to which a pointer was found) are not shown.
==18461== To see them, rerun with: --leak-check=full --show-leak-kinds=all
==18461== 
==18461== For lists of detected and suppressed errors, rerun with: -s
==18461== ERROR SUMMARY: 5 errors from 5 contexts (suppressed: 33 from 33)