==16847== Memcheck, a memory error detector ==16847== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al. ==16847== Using Valgrind-3.26.0 and LibVEX; rerun with -h for copyright info ==16847== Command: /home/runner/work/Chaste/Chaste/Chaste/chaste-build-dir/pde/test/TestLinearParabolicPdeSystemForCoupledOdeSystem -malloc_debug -malloc_dump -memory_info ==16847== Parent PID: 16132 ==16847== ==16847== ==16847== FILE DESCRIPTORS: 11 open (6 inherited) at exit. ==16847== Open file descriptor 10: /dev/shm/open_mpi.0000 ==16847== at 0x8636536: __open_nocancel (open64_nocancel.c:39) ==16847== by 0x85BABC3: shm_open@@GLIBC_2.34 (shm_open.c:46) ==16847== by 0xF8F189E: opal_shmem_posix_shm_open (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0xF8F1A71: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0xF8F0C38: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0xF8F0F97: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0xF7C0159: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0x7ED10E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ED649F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ED72C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ECE18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7F08627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x6EAD446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==16847== by 0x65C02D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==16847== by 0x65C0327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==16847== by 0x400F5C5: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==16847== by 0x400AE63: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==16847== by 0x400D20C: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==16847== by 0x400D0AA: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==16847== by 0x400D757: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==16847== by 0x4009652: main (TestLinearParabolicPdeSystemForCoupledOdeSystem.cpp:18) ==16847== { 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 } ==16847== Open file descriptor 9: ==16847== at 0x864496B: eventfd (syscall-template.S:120) ==16847== by 0xF951188: evutil_eventfd_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF94F395: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF94F704: evthread_make_base_notifiable (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF94F9F1: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF8B60D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0xF8B61E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0xF7C0120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0x7ED10E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ED649F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ED72C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ECE18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7F08627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x6EAD446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==16847== by 0x65C02D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==16847== by 0x65C0327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==16847== by 0x400F5C5: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==16847== by 0x400AE63: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==16847== by 0x400D20C: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==16847== by 0x400D0AA: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==16847== by 0x400D757: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==16847== by 0x4009652: main (TestLinearParabolicPdeSystemForCoupledOdeSystem.cpp:18) ==16847== { 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 } ==16847== Open file descriptor 8: ==16847== at 0x86352BB: pipe2 (syscall-template.S:120) ==16847== by 0xF950F87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF953579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF953774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF94F8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF8B60D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0xF8B61E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0xF7C0120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0x7ED10E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ED649F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ED72C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ECE18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7F08627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x6EAD446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==16847== by 0x65C02D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==16847== by 0x65C0327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==16847== by 0x400F5C5: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==16847== by 0x400AE63: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==16847== by 0x400D20C: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==16847== by 0x400D0AA: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==16847== by 0x400D757: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==16847== by 0x4009652: main (TestLinearParabolicPdeSystemForCoupledOdeSystem.cpp:18) ==16847== { 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 } ==16847== Open file descriptor 7: ==16847== at 0x86352BB: pipe2 (syscall-template.S:120) ==16847== by 0xF950F87: evutil_make_internal_pipe_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF953579: evsig_init_ (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF953774: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF94F8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF8B60D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0xF8B61E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0xF7C0120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0x7ED10E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ED649F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ED72C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ECE18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7F08627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x6EAD446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==16847== by 0x65C02D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==16847== by 0x65C0327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==16847== by 0x400F5C5: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==16847== by 0x400AE63: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==16847== by 0x400D20C: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==16847== by 0x400D0AA: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==16847== by 0x400D757: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==16847== by 0x4009652: main (TestLinearParabolicPdeSystemForCoupledOdeSystem.cpp:18) ==16847== { 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 } ==16847== Open file descriptor 6: ==16847== at 0x864546B: epoll_create1 (syscall-template.S:120) ==16847== by 0xF9536FA: ??? (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF94F8AA: event_base_new_with_config (in /usr/lib/x86_64-linux-gnu/libevent_core-2.1.so.7.0.1) ==16847== by 0xF8B60D7: opal_event_base_create (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0xF8B61E8: opal_event_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0xF7C0120: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.80.0.5) ==16847== by 0x7ED10E7: ompi_rte_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ED649F: ??? (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ED72C3: ompi_mpi_instance_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7ECE18F: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x7F08627: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.40.7) ==16847== by 0x6EAD446: PetscInitialize (in /usr/lib/x86_64-linux-gnu/libpetsc_real.so.3.24.4) ==16847== by 0x65C02D9: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==16847== by 0x65C0327: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==16847== by 0x400F5C5: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==16847== by 0x400AE63: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==16847== by 0x400D20C: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==16847== by 0x400D0AA: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==16847== by 0x400D757: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==16847== by 0x4009652: main (TestLinearParabolicPdeSystemForCoupledOdeSystem.cpp:18) ==16847== { 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 } ==16847== ==16847== HEAP SUMMARY: ==16847== in use at exit: 126,393 bytes in 901 blocks ==16847== total heap usage: 27,377 allocs, 26,476 frees, 10,371,744 bytes allocated ==16847== ==16847== LEAK SUMMARY: ==16847== definitely lost: 0 bytes in 0 blocks ==16847== indirectly lost: 0 bytes in 0 blocks ==16847== possibly lost: 0 bytes in 0 blocks ==16847== still reachable: 11,893 bytes in 44 blocks ==16847== suppressed: 114,500 bytes in 857 blocks ==16847== Reachable blocks (those to which a pointer was found) are not shown. ==16847== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==16847== ==16847== For lists of detected and suppressed errors, rerun with: -s ==16847== ERROR SUMMARY: 5 errors from 5 contexts (suppressed: 33 from 33)