==456767== Memcheck, a memory error detector ==456767== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al. ==456767== Using Valgrind-3.18.1 and LibVEX; rerun with -h for copyright info ==456767== Command: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/heart/test/TestCardiacSimulation -malloc_debug -malloc_dump -memory_info ==456767== Parent PID: 433953 ==456767== ==456767== WARNING: pwritev(vector[...]) is an obsolete suppression line not supported in valgrind 3.15 or later. ==456767== You should replace [...] by a specific index such as [0] or [1] or [2] or similar ==456767== ==456767== Syscall param socketcall.getsockopt(optlen) points to uninitialised byte(s) ==456767== at 0x898D79E: getsockopt_syscall (getsockopt.c:29) ==456767== by 0x898D79E: getsockopt (getsockopt.c:94) ==456767== by 0x14AA6157: pmix_ptl_base_set_timeout (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==456767== by 0x14AADA1A: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==456767== by 0x14AB4DF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==456767== by 0x149B43C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==456767== by 0x1492DE4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==456767== by 0x140ECE6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==456767== by 0xEC2F4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==456767== by 0xA08E418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0xA027D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0x8D1ED38: PetscInitialize (pinit.c:924) ==456767== by 0x826658B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==456767== by 0x82665D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==456767== by 0x12AA12: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==456767== by 0x123ACF: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==456767== by 0x127372: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==456767== by 0x127212: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==456767== by 0x1278A9: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==456767== by 0x121E00: main (TestCardiacSimulation.cpp:19) ==456767== Address 0x1ffeffdfac is on thread 1's stack ==456767== in frame #2, created by pmix_ptl_base_make_connection (???:) ==456767== { Memcheck:Param socketcall.getsockopt(optlen) fun:getsockopt_syscall fun:getsockopt fun:pmix_ptl_base_set_timeout fun:pmix_ptl_base_make_connection obj:/usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2 fun:PMIx_Init fun:ext3x_client_init obj:/usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so fun:orte_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 } ==456767== Syscall param socketcall.getsockopt(optlen_out) points to uninitialised byte(s) ==456767== at 0x898D79E: getsockopt_syscall (getsockopt.c:29) ==456767== by 0x898D79E: getsockopt (getsockopt.c:94) ==456767== by 0x14AA6157: pmix_ptl_base_set_timeout (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==456767== by 0x14AADA1A: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==456767== by 0x14AB4DF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==456767== by 0x149B43C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==456767== by 0x1492DE4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==456767== by 0x140ECE6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==456767== by 0xEC2F4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==456767== by 0xA08E418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0xA027D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0x8D1ED38: PetscInitialize (pinit.c:924) ==456767== by 0x826658B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==456767== by 0x82665D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==456767== by 0x12AA12: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==456767== by 0x123ACF: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==456767== by 0x127372: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==456767== by 0x127212: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==456767== by 0x1278A9: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==456767== by 0x121E00: main (TestCardiacSimulation.cpp:19) ==456767== Address 0x1ffeffdfac is on thread 1's stack ==456767== in frame #2, created by pmix_ptl_base_make_connection (???:) ==456767== { Memcheck:Param socketcall.getsockopt(optlen_out) fun:getsockopt_syscall fun:getsockopt fun:pmix_ptl_base_set_timeout fun:pmix_ptl_base_make_connection obj:/usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2 fun:PMIx_Init fun:ext3x_client_init obj:/usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so fun:orte_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 } ==456767== Syscall param setsockopt(optlen) contains uninitialised byte(s) ==456767== at 0x898DC7E: setsockopt_syscall (setsockopt.c:29) ==456767== by 0x898DC7E: setsockopt (setsockopt.c:95) ==456767== by 0x14AADBA9: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==456767== by 0x14AB4DF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==456767== by 0x149B43C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==456767== by 0x1492DE4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==456767== by 0x140ECE6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==456767== by 0xEC2F4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==456767== by 0xA08E418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0xA027D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0x8D1ED38: PetscInitialize (pinit.c:924) ==456767== by 0x826658B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==456767== by 0x82665D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==456767== by 0x12AA12: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==456767== by 0x123ACF: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==456767== by 0x127372: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==456767== by 0x127212: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==456767== by 0x1278A9: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==456767== by 0x121E00: main (TestCardiacSimulation.cpp:19) ==456767== { Memcheck:Param setsockopt(optlen) fun:setsockopt_syscall fun:setsockopt fun:pmix_ptl_base_make_connection obj:/usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2 fun:PMIx_Init fun:ext3x_client_init obj:/usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so fun:orte_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 } ==456767== Syscall param pwrite64(buf) points to uninitialised byte(s) ==456767== at 0x89789EF: __libc_pwrite64 (pwrite64.c:25) ==456767== by 0x89789EF: pwrite (pwrite64.c:23) ==456767== by 0x183239D2: mca_fbtl_posix_pwritev (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_fbtl_posix.so) ==456767== by 0x18333419: mca_common_ompio_file_write (in /usr/lib/x86_64-linux-gnu/libmca_common_ompio.so.41.29.2) ==456767== by 0x1833379A: mca_common_ompio_file_write_at (in /usr/lib/x86_64-linux-gnu/libmca_common_ompio.so.41.29.2) ==456767== by 0x1821E89A: mca_io_ompio_file_write_at (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_io_ompio.so) ==456767== by 0xA01B6A7: PMPI_File_write_at (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0xC874FEB: ??? (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC6B44ED: H5FD_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC697313: H5F__accum_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC792442: H5PB_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC69EDEA: H5F_block_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC628E98: H5C__flush_single_entry (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC8683F9: H5C_apply_candidate_list (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC8699CA: H5AC__run_sync_point (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC86A47E: H5AC__flush_entries (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC60554C: H5AC_flush (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC69D936: ??? (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC69E3FE: H5F__dest (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC6A1BB2: H5F_try_close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC6A1EFB: H5F__close_cb (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC71151F: H5I_dec_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC7115EA: H5I_dec_app_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC69E831: H5F__close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC693881: H5Fclose (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0x8193967: Hdf5DataWriter::Close() (Hdf5DataWriter.cpp:1100) ==456767== by 0x818E647: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:273) ==456767== by 0x818E6ED: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:283) ==456767== by 0x685835B: AbstractCardiacProblem<1u, 1u, 1u>::CloseFilesAndPostProcess() (AbstractCardiacProblem.cpp:597) ==456767== by 0x6857EFB: AbstractCardiacProblem<1u, 1u, 1u>::Solve() (AbstractCardiacProblem.cpp:582) ==456767== by 0x69CDAD6: void CardiacSimulation::CreateAndRun, 1u>() (CardiacSimulation.hpp:136) ==456767== by 0x69C88BD: CardiacSimulation::Run() (CardiacSimulation.cpp:178) ==456767== by 0x69C8198: CardiacSimulation::CardiacSimulation(std::__cxx11::basic_string, std::allocator >, bool, bool) (CardiacSimulation.cpp:106) ==456767== by 0x12AB87: TestCardiacSimulation::TestMono1dSmall() (TestCardiacSimulation.hpp:78) ==456767== by 0x13CD76: TestDescription_TestCardiacSimulation_TestMono1dSmall::runTest() (TestCardiacSimulation.cpp:31) ==456767== by 0x1230CA: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96) ==456767== by 0x127620: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74) ==456767== by 0x127505: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61) ==456767== by 0x1273AB: CxxTest::TestRunner::runWorld() (TestRunner.h:46) ==456767== by 0x127212: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==456767== by 0x1278A9: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==456767== by 0x121E00: main (TestCardiacSimulation.cpp:19) ==456767== Address 0x16c3a5ee is 62 bytes inside a block of size 320 alloc'd ==456767== at 0x4848899: malloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==456767== by 0xC628E26: H5C__flush_single_entry (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC8683F9: H5C_apply_candidate_list (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC8699CA: H5AC__run_sync_point (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC86A47E: H5AC__flush_entries (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC60554C: H5AC_flush (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC69D936: ??? (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC69E3FE: H5F__dest (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC6A1BB2: H5F_try_close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC6A1EFB: H5F__close_cb (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC71151F: H5I_dec_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC7115EA: H5I_dec_app_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC69E831: H5F__close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0xC693881: H5Fclose (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==456767== by 0x8193967: Hdf5DataWriter::Close() (Hdf5DataWriter.cpp:1100) ==456767== by 0x818E647: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:273) ==456767== by 0x818E6ED: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:283) ==456767== by 0x685835B: AbstractCardiacProblem<1u, 1u, 1u>::CloseFilesAndPostProcess() (AbstractCardiacProblem.cpp:597) ==456767== by 0x6857EFB: AbstractCardiacProblem<1u, 1u, 1u>::Solve() (AbstractCardiacProblem.cpp:582) ==456767== by 0x69CDAD6: void CardiacSimulation::CreateAndRun, 1u>() (CardiacSimulation.hpp:136) ==456767== by 0x69C88BD: CardiacSimulation::Run() (CardiacSimulation.cpp:178) ==456767== by 0x69C8198: CardiacSimulation::CardiacSimulation(std::__cxx11::basic_string, std::allocator >, bool, bool) (CardiacSimulation.cpp:106) ==456767== by 0x12AB87: TestCardiacSimulation::TestMono1dSmall() (TestCardiacSimulation.hpp:78) ==456767== by 0x13CD76: TestDescription_TestCardiacSimulation_TestMono1dSmall::runTest() (TestCardiacSimulation.cpp:31) ==456767== by 0x1230CA: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96) ==456767== by 0x127620: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74) ==456767== by 0x127505: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61) ==456767== by 0x1273AB: CxxTest::TestRunner::runWorld() (TestRunner.h:46) ==456767== by 0x127212: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==456767== by 0x1278A9: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==456767== by 0x121E00: main (TestCardiacSimulation.cpp:19) ==456767== { Memcheck:Param pwrite64(buf) fun:__libc_pwrite64 fun:pwrite fun:mca_fbtl_posix_pwritev fun:mca_common_ompio_file_write fun:mca_common_ompio_file_write_at fun:mca_io_ompio_file_write_at fun:PMPI_File_write_at obj:/usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0 fun:H5FD_write fun:H5F__accum_write fun:H5PB_write fun:H5F_block_write fun:H5C__flush_single_entry fun:H5C_apply_candidate_list fun:H5AC__run_sync_point fun:H5AC__flush_entries fun:H5AC_flush obj:/usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0 fun:H5F__dest fun:H5F_try_close fun:H5F__close_cb fun:H5I_dec_ref fun:H5I_dec_app_ref fun:H5F__close fun:H5Fclose fun:_ZN14Hdf5DataWriter5CloseEv fun:_ZN14Hdf5DataWriterD1Ev fun:_ZN14Hdf5DataWriterD0Ev fun:_ZN22AbstractCardiacProblemILj1ELj1ELj1EE24CloseFilesAndPostProcessEv fun:_ZN22AbstractCardiacProblemILj1ELj1ELj1EE5SolveEv fun:_ZN17CardiacSimulation12CreateAndRunI17MonodomainProblemILj1ELj1EELj1EEEvv fun:_ZN17CardiacSimulation3RunEv fun:_ZN17CardiacSimulationC1ENSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEbb fun:_ZN21TestCardiacSimulation15TestMono1dSmallEv fun:_ZN53TestDescription_TestCardiacSimulation_TestMono1dSmall7runTestEv fun:_ZN7CxxTest19RealTestDescription3runEv fun:_ZN7CxxTest10TestRunner7runTestERNS_15TestDescriptionE fun:_ZN7CxxTest10TestRunner8runSuiteERNS_16SuiteDescriptionE fun:_ZN7CxxTest10TestRunner8runWorldEv fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE fun:_ZN7CxxTest14ErrorFormatter3runEv fun:main } ==456767== ==456767== FILE DESCRIPTORS: 9 open (3 std) at exit. ==456767== Open file descriptor 12: ==456767== at 0x897B22D: pipe (pipe.c:29) ==456767== by 0x140ED07D: ??? ==456767== by 0xEC2F4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==456767== by 0xA08E418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0xA027D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0x8D1ED38: PetscInitialize (pinit.c:924) ==456767== by 0x826658B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==456767== by 0x82665D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==456767== by 0x12AA12: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==456767== by 0x123ACF: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==456767== by 0x127372: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==456767== by 0x127212: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==456767== by 0x1278A9: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==456767== by 0x121E00: main (TestCardiacSimulation.cpp:19) ==456767== ==456767== Open file descriptor 8: /dev/shm/open_mpi.0000 ==456767== at 0x897FBCC: __open_nocancel (open64_nocancel.c:39) ==456767== by 0x8903C4F: shm_open@@GLIBC_2.34 (shm_open.c:40) ==456767== by 0x829E822: ??? ==456767== by 0x829E96F: ??? ==456767== by 0xECD46DC: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==456767== by 0xECD4938: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==456767== by 0xEC8A922: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==456767== by 0xEC2F2DB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==456767== by 0xA08E418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0xA027D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0x8D1ED38: PetscInitialize (pinit.c:924) ==456767== by 0x826658B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==456767== by 0x82665D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==456767== by 0x12AA12: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==456767== by 0x123ACF: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==456767== by 0x127372: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==456767== by 0x127212: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==456767== by 0x1278A9: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==456767== by 0x121E00: main (TestCardiacSimulation.cpp:19) ==456767== ==456767== Open file descriptor 116: ==456767== ==456767== ==456767== Open file descriptor 111: ==456767== ==456767== ==456767== Open file descriptor 4: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/memtest/TestCardiacSimulation_valgrind.txt ==456767== ==456767== ==456767== Open file descriptor 3: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/Testing/Temporary/LastTest.log.tmp ==456767== ==456767== ==456767== ==456767== HEAP SUMMARY: ==456767== in use at exit: 708,586 bytes in 9,399 blocks ==456767== total heap usage: 4,725,711 allocs, 4,716,312 frees, 2,842,440,466 bytes allocated ==456767== ==456767== 552 bytes in 1 blocks are definitely lost in loss record 52 of 79 ==456767== at 0x484DA83: calloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==456767== by 0x149BBC13: ??? ==456767== by 0x149BC22C: ??? ==456767== by 0x1492F4B7: ??? ==456767== by 0x9FF415A: ompi_proc_complete_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0xA08EA97: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0xA027D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0x8D1ED38: PetscInitialize (pinit.c:924) ==456767== by 0x826658B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==456767== by 0x82665D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==456767== by 0x12AA12: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==456767== by 0x123ACF: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==456767== by 0x127372: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==456767== by 0x127212: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==456767== by 0x1278A9: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==456767== by 0x121E00: main (TestCardiacSimulation.cpp:19) ==456767== { Memcheck:Leak match-leak-kinds: definite fun:calloc obj:* obj:* obj:* fun:ompi_proc_complete_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 } ==456767== 685,146 (136 direct, 685,010 indirect) bytes in 1 blocks are definitely lost in loss record 79 of 79 ==456767== at 0x484DA83: calloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==456767== by 0x15B2E74E: ??? ==456767== by 0x15B2EE0B: ??? ==456767== by 0x15B31F56: ??? ==456767== by 0x15B2765D: ??? ==456767== by 0x15B27FA3: ??? ==456767== by 0xED40F05: ??? (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==456767== by 0xED1CAE8: hwloc_topology_load (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==456767== by 0xECCDCB5: opal_hwloc_base_get_topology (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==456767== by 0xEBFAEF6: orte_ess_base_proc_binding (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==456767== by 0x140EDF03: ??? ==456767== by 0xEC2F4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==456767== by 0xA08E418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0xA027D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==456767== by 0x8D1ED38: PetscInitialize (pinit.c:924) ==456767== by 0x826658B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==456767== by 0x82665D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==456767== by 0x12AA12: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==456767== by 0x123ACF: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==456767== by 0x127372: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==456767== by 0x127212: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==456767== by 0x1278A9: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==456767== by 0x121E00: main (TestCardiacSimulation.cpp:19) ==456767== { Memcheck:Leak match-leak-kinds: definite fun:calloc obj:* obj:* obj:* obj:* obj:* obj:/usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2 fun:hwloc_topology_load fun:opal_hwloc_base_get_topology fun:orte_ess_base_proc_binding obj:* fun:orte_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 } ==456767== LEAK SUMMARY: ==456767== definitely lost: 688 bytes in 2 blocks ==456767== indirectly lost: 1,760 bytes in 16 blocks ==456767== possibly lost: 0 bytes in 0 blocks ==456767== still reachable: 8,951 bytes in 22 blocks ==456767== suppressed: 697,187 bytes in 9,359 blocks ==456767== Reachable blocks (those to which a pointer was found) are not shown. ==456767== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==456767== ==456767== Use --track-origins=yes to see where uninitialised values come from ==456767== For lists of detected and suppressed errors, rerun with: -s ==456767== ERROR SUMMARY: 203 errors from 6 contexts (suppressed: 26 from 26)