==603431== Memcheck, a memory error detector ==603431== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al. ==603431== Using Valgrind-3.18.1 and LibVEX; rerun with -h for copyright info ==603431== Command: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/heart/test/TestConvergenceTester -malloc_debug -malloc_dump -memory_info ==603431== Parent PID: 582436 ==603431== ==603431== WARNING: pwritev(vector[...]) is an obsolete suppression line not supported in valgrind 3.15 or later. ==603431== You should replace [...] by a specific index such as [0] or [1] or [2] or similar ==603431== ==603431== Syscall param socketcall.getsockopt(optlen) points to uninitialised byte(s) ==603431== at 0xA9D379E: getsockopt_syscall (getsockopt.c:29) ==603431== by 0xA9D379E: getsockopt (getsockopt.c:94) ==603431== by 0x14AA3157: pmix_ptl_base_set_timeout (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==603431== by 0x14AAAA1A: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==603431== by 0x14AB1DF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==603431== by 0x149B13C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==603431== by 0x1492AE4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==603431== by 0x140E9E6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==603431== by 0xF8EF4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==603431== by 0xC0D4418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xC06DD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xAD64D38: PetscInitialize (pinit.c:924) ==603431== by 0xA1C358B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==603431== by 0xA1C35D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==603431== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==603431== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==603431== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==603431== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==603431== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==603431== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==603431== Address 0x1ffeffdfbc is on thread 1's stack ==603431== in frame #2, created by pmix_ptl_base_make_connection (???:) ==603431== { 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 } ==603431== Syscall param socketcall.getsockopt(optlen_out) points to uninitialised byte(s) ==603431== at 0xA9D379E: getsockopt_syscall (getsockopt.c:29) ==603431== by 0xA9D379E: getsockopt (getsockopt.c:94) ==603431== by 0x14AA3157: pmix_ptl_base_set_timeout (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==603431== by 0x14AAAA1A: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==603431== by 0x14AB1DF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==603431== by 0x149B13C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==603431== by 0x1492AE4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==603431== by 0x140E9E6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==603431== by 0xF8EF4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==603431== by 0xC0D4418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xC06DD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xAD64D38: PetscInitialize (pinit.c:924) ==603431== by 0xA1C358B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==603431== by 0xA1C35D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==603431== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==603431== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==603431== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==603431== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==603431== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==603431== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==603431== Address 0x1ffeffdfbc is on thread 1's stack ==603431== in frame #2, created by pmix_ptl_base_make_connection (???:) ==603431== { 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 } ==603431== Syscall param setsockopt(optlen) contains uninitialised byte(s) ==603431== at 0xA9D3C7E: setsockopt_syscall (setsockopt.c:29) ==603431== by 0xA9D3C7E: setsockopt (setsockopt.c:95) ==603431== by 0x14AAABA9: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==603431== by 0x14AB1DF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==603431== by 0x149B13C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==603431== by 0x1492AE4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==603431== by 0x140E9E6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==603431== by 0xF8EF4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==603431== by 0xC0D4418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xC06DD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xAD64D38: PetscInitialize (pinit.c:924) ==603431== by 0xA1C358B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==603431== by 0xA1C35D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==603431== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==603431== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==603431== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==603431== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==603431== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==603431== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==603431== { 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 } ==603431== Syscall param pwrite64(buf) points to uninitialised byte(s) ==603431== at 0xA9BE9EF: __libc_pwrite64 (pwrite64.c:25) ==603431== by 0xA9BE9EF: pwrite (pwrite64.c:23) ==603431== by 0x183209D2: mca_fbtl_posix_pwritev (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_fbtl_posix.so) ==603431== by 0x18330419: mca_common_ompio_file_write (in /usr/lib/x86_64-linux-gnu/libmca_common_ompio.so.41.29.2) ==603431== by 0x1833079A: mca_common_ompio_file_write_at (in /usr/lib/x86_64-linux-gnu/libmca_common_ompio.so.41.29.2) ==603431== by 0x1821B89A: mca_io_ompio_file_write_at (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_io_ompio.so) ==603431== by 0xC0616A7: PMPI_File_write_at (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xC874FEB: ??? (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC6B44ED: H5FD_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC697313: H5F__accum_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC792442: H5PB_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC69EDEA: H5F_block_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC628E98: H5C__flush_single_entry (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC8683F9: H5C_apply_candidate_list (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC8699CA: H5AC__run_sync_point (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC86A47E: H5AC__flush_entries (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC60554C: H5AC_flush (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC69D936: ??? (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC69E3FE: H5F__dest (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC6A1BB2: H5F_try_close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC6A1EFB: H5F__close_cb (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC71151F: H5I_dec_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC7115EA: H5I_dec_app_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC69E831: H5F__close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC693881: H5Fclose (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xA0F2967: Hdf5DataWriter::Close() (Hdf5DataWriter.cpp:1100) ==603431== by 0xA0ED647: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:273) ==603431== by 0xA0ED6ED: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:283) ==603431== by 0x685835B: AbstractCardiacProblem<1u, 1u, 1u>::CloseFilesAndPostProcess() (AbstractCardiacProblem.cpp:597) ==603431== by 0x6857EFB: AbstractCardiacProblem<1u, 1u, 1u>::Solve() (AbstractCardiacProblem.cpp:582) ==603431== by 0x12EFD5: AbstractConvergenceTester, 1u, 1u>::Converge(std::__cxx11::basic_string, std::allocator >) (AbstractConvergenceTester.hpp:416) ==603431== by 0x12C65D: TestConvergenceTester::Test1DOdeTime() (TestConvergenceTester.hpp:76) ==603431== by 0x12D6D0: TestDescription_TestConvergenceTester_Test1DOdeTime::runTest() (TestConvergenceTester.cpp:30) ==603431== by 0x1256F4: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96) ==603431== by 0x128E00: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74) ==603431== by 0x128CE5: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61) ==603431== by 0x128B8B: CxxTest::TestRunner::runWorld() (TestRunner.h:46) ==603431== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==603431== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==603431== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==603431== Address 0x15da8fee is 62 bytes inside a block of size 320 alloc'd ==603431== at 0x4848899: malloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==603431== by 0xC628E26: H5C__flush_single_entry (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC8683F9: H5C_apply_candidate_list (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC8699CA: H5AC__run_sync_point (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC86A47E: H5AC__flush_entries (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC60554C: H5AC_flush (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC69D936: ??? (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC69E3FE: H5F__dest (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC6A1BB2: H5F_try_close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC6A1EFB: H5F__close_cb (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC71151F: H5I_dec_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC7115EA: H5I_dec_app_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC69E831: H5F__close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xC693881: H5Fclose (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==603431== by 0xA0F2967: Hdf5DataWriter::Close() (Hdf5DataWriter.cpp:1100) ==603431== by 0xA0ED647: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:273) ==603431== by 0xA0ED6ED: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:283) ==603431== by 0x685835B: AbstractCardiacProblem<1u, 1u, 1u>::CloseFilesAndPostProcess() (AbstractCardiacProblem.cpp:597) ==603431== by 0x6857EFB: AbstractCardiacProblem<1u, 1u, 1u>::Solve() (AbstractCardiacProblem.cpp:582) ==603431== by 0x12EFD5: AbstractConvergenceTester, 1u, 1u>::Converge(std::__cxx11::basic_string, std::allocator >) (AbstractConvergenceTester.hpp:416) ==603431== by 0x12C65D: TestConvergenceTester::Test1DOdeTime() (TestConvergenceTester.hpp:76) ==603431== by 0x12D6D0: TestDescription_TestConvergenceTester_Test1DOdeTime::runTest() (TestConvergenceTester.cpp:30) ==603431== by 0x1256F4: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96) ==603431== by 0x128E00: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74) ==603431== by 0x128CE5: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61) ==603431== by 0x128B8B: CxxTest::TestRunner::runWorld() (TestRunner.h:46) ==603431== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==603431== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==603431== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==603431== { 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:_ZN25AbstractConvergenceTesterI41CellLuoRudy1991FromCellMLBackwardEulerOpt17MonodomainProblemILj1ELj1EELj1ELj1EE8ConvergeENSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE fun:_ZN21TestConvergenceTester13Test1DOdeTimeEv fun:_ZN51TestDescription_TestConvergenceTester_Test1DOdeTime7runTestEv fun:_ZN7CxxTest19RealTestDescription3runEv fun:_ZN7CxxTest10TestRunner7runTestERNS_15TestDescriptionE fun:_ZN7CxxTest10TestRunner8runSuiteERNS_16SuiteDescriptionE fun:_ZN7CxxTest10TestRunner8runWorldEv fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE fun:_ZN7CxxTest14ErrorFormatter3runEv fun:main } ==603431== ==603431== FILE DESCRIPTORS: 9 open (3 std) at exit. ==603431== Open file descriptor 12: ==603431== at 0xA9C122D: pipe (pipe.c:29) ==603431== by 0x140EA07D: ??? ==603431== by 0xF8EF4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==603431== by 0xC0D4418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xC06DD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xAD64D38: PetscInitialize (pinit.c:924) ==603431== by 0xA1C358B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==603431== by 0xA1C35D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==603431== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==603431== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==603431== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==603431== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==603431== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==603431== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==603431== ==603431== Open file descriptor 8: /dev/shm/open_mpi.0000 ==603431== at 0xA9C5BCC: __open_nocancel (open64_nocancel.c:39) ==603431== by 0xA949C4F: shm_open@@GLIBC_2.34 (shm_open.c:40) ==603431== by 0xA1FB822: ??? ==603431== by 0xA1FB96F: ??? ==603431== by 0xF9946DC: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==603431== by 0xF994938: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==603431== by 0xF94A922: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==603431== by 0xF8EF2DB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==603431== by 0xC0D4418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xC06DD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xAD64D38: PetscInitialize (pinit.c:924) ==603431== by 0xA1C358B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==603431== by 0xA1C35D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==603431== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==603431== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==603431== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==603431== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==603431== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==603431== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==603431== ==603431== Open file descriptor 116: ==603431== ==603431== ==603431== Open file descriptor 111: ==603431== ==603431== ==603431== Open file descriptor 4: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/memtest/TestConvergenceTester_valgrind.txt ==603431== ==603431== ==603431== Open file descriptor 3: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/Testing/Temporary/LastTest.log.tmp ==603431== ==603431== ==603431== ==603431== HEAP SUMMARY: ==603431== in use at exit: 701,234 bytes in 9,387 blocks ==603431== total heap usage: 1,810,848 allocs, 1,801,461 frees, 1,928,399,947 bytes allocated ==603431== ==603431== 552 bytes in 1 blocks are definitely lost in loss record 43 of 69 ==603431== at 0x484DA83: calloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==603431== by 0x149B8C13: ??? ==603431== by 0x149B922C: ??? ==603431== by 0x1492C4B7: ??? ==603431== by 0xC03A15A: ompi_proc_complete_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xC0D4A97: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xC06DD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xAD64D38: PetscInitialize (pinit.c:924) ==603431== by 0xA1C358B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==603431== by 0xA1C35D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==603431== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==603431== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==603431== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==603431== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==603431== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==603431== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==603431== { 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 } ==603431== 84,459 (136 direct, 84,323 indirect) bytes in 1 blocks are definitely lost in loss record 66 of 69 ==603431== at 0x484DA83: calloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==603431== by 0x15B2B74E: ??? ==603431== by 0x15B2BE0B: ??? ==603431== by 0x15B2EF56: ??? ==603431== by 0x15B2465D: ??? ==603431== by 0x15B24FA3: ??? ==603431== by 0xFA00F05: ??? (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==603431== by 0xF9DCAE8: hwloc_topology_load (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==603431== by 0xF98DCB5: opal_hwloc_base_get_topology (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==603431== by 0xF8BAEF6: orte_ess_base_proc_binding (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==603431== by 0x140EAF03: ??? ==603431== by 0xF8EF4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==603431== by 0xC0D4418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xC06DD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==603431== by 0xAD64D38: PetscInitialize (pinit.c:924) ==603431== by 0xA1C358B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==603431== by 0xA1C35D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==603431== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==603431== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==603431== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==603431== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==603431== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==603431== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==603431== { 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 } ==603431== LEAK SUMMARY: ==603431== definitely lost: 688 bytes in 2 blocks ==603431== indirectly lost: 1,760 bytes in 16 blocks ==603431== possibly lost: 0 bytes in 0 blocks ==603431== still reachable: 1,531 bytes in 6 blocks ==603431== suppressed: 697,255 bytes in 9,363 blocks ==603431== Reachable blocks (those to which a pointer was found) are not shown. ==603431== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==603431== ==603431== Use --track-origins=yes to see where uninitialised values come from ==603431== For lists of detected and suppressed errors, rerun with: -s ==603431== ERROR SUMMARY: 89 errors from 6 contexts (suppressed: 32 from 32)