==935237== Memcheck, a memory error detector ==935237== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al. ==935237== Using Valgrind-3.18.1 and LibVEX; rerun with -h for copyright info ==935237== Command: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/heart/test/TestConvergenceTester -malloc_debug -malloc_dump -memory_info ==935237== Parent PID: 914403 ==935237== ==935237== WARNING: pwritev(vector[...]) is an obsolete suppression line not supported in valgrind 3.15 or later. ==935237== You should replace [...] by a specific index such as [0] or [1] or [2] or similar ==935237== ==935237== Syscall param socketcall.getsockopt(optlen) points to uninitialised byte(s) ==935237== at 0xA37E79E: getsockopt_syscall (getsockopt.c:29) ==935237== by 0xA37E79E: getsockopt (getsockopt.c:94) ==935237== by 0x1444D157: pmix_ptl_base_set_timeout (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==935237== by 0x14454A1A: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==935237== by 0x1445BDF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==935237== by 0x1435B3C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==935237== by 0x142D4E4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==935237== by 0x13A93E6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==935237== by 0xF29D4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==935237== by 0xBA7F418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xBA18D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xA70FD38: PetscInitialize (pinit.c:924) ==935237== by 0x9B6E58B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==935237== by 0x9B6E5D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==935237== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==935237== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==935237== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==935237== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==935237== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==935237== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==935237== Address 0x1ffeffdfec is on thread 1's stack ==935237== in frame #2, created by pmix_ptl_base_make_connection (???:) ==935237== { 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 } ==935237== Syscall param socketcall.getsockopt(optlen_out) points to uninitialised byte(s) ==935237== at 0xA37E79E: getsockopt_syscall (getsockopt.c:29) ==935237== by 0xA37E79E: getsockopt (getsockopt.c:94) ==935237== by 0x1444D157: pmix_ptl_base_set_timeout (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==935237== by 0x14454A1A: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==935237== by 0x1445BDF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==935237== by 0x1435B3C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==935237== by 0x142D4E4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==935237== by 0x13A93E6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==935237== by 0xF29D4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==935237== by 0xBA7F418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xBA18D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xA70FD38: PetscInitialize (pinit.c:924) ==935237== by 0x9B6E58B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==935237== by 0x9B6E5D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==935237== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==935237== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==935237== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==935237== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==935237== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==935237== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==935237== Address 0x1ffeffdfec is on thread 1's stack ==935237== in frame #2, created by pmix_ptl_base_make_connection (???:) ==935237== { 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 } ==935237== Syscall param setsockopt(optlen) contains uninitialised byte(s) ==935237== at 0xA37EC7E: setsockopt_syscall (setsockopt.c:29) ==935237== by 0xA37EC7E: setsockopt (setsockopt.c:95) ==935237== by 0x14454BA9: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==935237== by 0x1445BDF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==935237== by 0x1435B3C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==935237== by 0x142D4E4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==935237== by 0x13A93E6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==935237== by 0xF29D4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==935237== by 0xBA7F418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xBA18D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xA70FD38: PetscInitialize (pinit.c:924) ==935237== by 0x9B6E58B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==935237== by 0x9B6E5D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==935237== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==935237== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==935237== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==935237== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==935237== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==935237== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==935237== { 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 } ==935237== Syscall param pwrite64(buf) points to uninitialised byte(s) ==935237== at 0xA3699EF: __libc_pwrite64 (pwrite64.c:25) ==935237== by 0xA3699EF: pwrite (pwrite64.c:23) ==935237== by 0x17CCA9D2: mca_fbtl_posix_pwritev (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_fbtl_posix.so) ==935237== by 0x17CDA419: mca_common_ompio_file_write (in /usr/lib/x86_64-linux-gnu/libmca_common_ompio.so.41.29.2) ==935237== by 0x17CDA79A: mca_common_ompio_file_write_at (in /usr/lib/x86_64-linux-gnu/libmca_common_ompio.so.41.29.2) ==935237== by 0x17BC589A: mca_io_ompio_file_write_at (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_io_ompio.so) ==935237== by 0xBA0C6A7: PMPI_File_write_at (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xC21FFEB: ??? (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC05F4ED: H5FD_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC042313: H5F__accum_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC13D442: H5PB_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC049DEA: H5F_block_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xBFD3E98: H5C__flush_single_entry (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC2133F9: H5C_apply_candidate_list (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC2149CA: H5AC__run_sync_point (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC21547E: H5AC__flush_entries (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xBFB054C: H5AC_flush (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC048936: ??? (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC0493FE: H5F__dest (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC04CBB2: H5F_try_close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC04CEFB: H5F__close_cb (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC0BC51F: H5I_dec_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC0BC5EA: H5I_dec_app_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC049831: H5F__close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC03E881: H5Fclose (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0x9A9D967: Hdf5DataWriter::Close() (Hdf5DataWriter.cpp:1100) ==935237== by 0x9A98647: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:273) ==935237== by 0x9A986ED: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:283) ==935237== by 0x676E53D: AbstractCardiacProblem<1u, 1u, 1u>::CloseFilesAndPostProcess() (AbstractCardiacProblem.cpp:597) ==935237== by 0x676E0DD: AbstractCardiacProblem<1u, 1u, 1u>::Solve() (AbstractCardiacProblem.cpp:582) ==935237== by 0x12EFD5: AbstractConvergenceTester, 1u, 1u>::Converge(std::__cxx11::basic_string, std::allocator >) (AbstractConvergenceTester.hpp:416) ==935237== by 0x12C65D: TestConvergenceTester::Test1DOdeTime() (TestConvergenceTester.hpp:76) ==935237== by 0x12D6D0: TestDescription_TestConvergenceTester_Test1DOdeTime::runTest() (TestConvergenceTester.cpp:30) ==935237== by 0x1256F4: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96) ==935237== by 0x128E00: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74) ==935237== by 0x128CE5: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61) ==935237== by 0x128B8B: CxxTest::TestRunner::runWorld() (TestRunner.h:46) ==935237== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==935237== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==935237== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==935237== Address 0x162d93ae is 62 bytes inside a block of size 320 alloc'd ==935237== at 0x4848899: malloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==935237== by 0xBFD3E26: H5C__flush_single_entry (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC2133F9: H5C_apply_candidate_list (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC2149CA: H5AC__run_sync_point (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC21547E: H5AC__flush_entries (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xBFB054C: H5AC_flush (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC048936: ??? (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC0493FE: H5F__dest (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC04CBB2: H5F_try_close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC04CEFB: H5F__close_cb (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC0BC51F: H5I_dec_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC0BC5EA: H5I_dec_app_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC049831: H5F__close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0xC03E881: H5Fclose (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==935237== by 0x9A9D967: Hdf5DataWriter::Close() (Hdf5DataWriter.cpp:1100) ==935237== by 0x9A98647: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:273) ==935237== by 0x9A986ED: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:283) ==935237== by 0x676E53D: AbstractCardiacProblem<1u, 1u, 1u>::CloseFilesAndPostProcess() (AbstractCardiacProblem.cpp:597) ==935237== by 0x676E0DD: AbstractCardiacProblem<1u, 1u, 1u>::Solve() (AbstractCardiacProblem.cpp:582) ==935237== by 0x12EFD5: AbstractConvergenceTester, 1u, 1u>::Converge(std::__cxx11::basic_string, std::allocator >) (AbstractConvergenceTester.hpp:416) ==935237== by 0x12C65D: TestConvergenceTester::Test1DOdeTime() (TestConvergenceTester.hpp:76) ==935237== by 0x12D6D0: TestDescription_TestConvergenceTester_Test1DOdeTime::runTest() (TestConvergenceTester.cpp:30) ==935237== by 0x1256F4: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96) ==935237== by 0x128E00: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74) ==935237== by 0x128CE5: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61) ==935237== by 0x128B8B: CxxTest::TestRunner::runWorld() (TestRunner.h:46) ==935237== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==935237== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==935237== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==935237== { 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 } ==935237== ==935237== FILE DESCRIPTORS: 9 open (3 std) at exit. ==935237== Open file descriptor 12: ==935237== at 0xA36C22D: pipe (pipe.c:29) ==935237== by 0x13A9407D: ??? ==935237== by 0xF29D4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==935237== by 0xBA7F418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xBA18D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xA70FD38: PetscInitialize (pinit.c:924) ==935237== by 0x9B6E58B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==935237== by 0x9B6E5D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==935237== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==935237== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==935237== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==935237== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==935237== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==935237== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==935237== ==935237== Open file descriptor 8: /dev/shm/open_mpi.0000 ==935237== at 0xA370BCC: __open_nocancel (open64_nocancel.c:39) ==935237== by 0xA2F4C4F: shm_open@@GLIBC_2.34 (shm_open.c:40) ==935237== by 0x9BA6822: ??? ==935237== by 0x9BA696F: ??? ==935237== by 0xF3426DC: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==935237== by 0xF342938: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==935237== by 0xF2F8922: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==935237== by 0xF29D2DB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==935237== by 0xBA7F418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xBA18D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xA70FD38: PetscInitialize (pinit.c:924) ==935237== by 0x9B6E58B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==935237== by 0x9B6E5D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==935237== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==935237== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==935237== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==935237== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==935237== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==935237== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==935237== ==935237== Open file descriptor 111: ==935237== ==935237== ==935237== Open file descriptor 108: ==935237== ==935237== ==935237== Open file descriptor 4: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/memtest/TestConvergenceTester_valgrind.txt ==935237== ==935237== ==935237== Open file descriptor 3: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/Testing/Temporary/LastTest.log.tmp ==935237== ==935237== ==935237== ==935237== HEAP SUMMARY: ==935237== in use at exit: 701,234 bytes in 9,387 blocks ==935237== total heap usage: 1,810,658 allocs, 1,801,271 frees, 1,928,366,234 bytes allocated ==935237== ==935237== 552 bytes in 1 blocks are definitely lost in loss record 43 of 66 ==935237== at 0x484DA83: calloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==935237== by 0x14362C13: ??? ==935237== by 0x1436322C: ??? ==935237== by 0x142D64B7: ??? ==935237== by 0xB9E515A: ompi_proc_complete_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xBA7FA97: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xBA18D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xA70FD38: PetscInitialize (pinit.c:924) ==935237== by 0x9B6E58B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==935237== by 0x9B6E5D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==935237== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==935237== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==935237== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==935237== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==935237== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==935237== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==935237== { 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 } ==935237== 685,246 (136 direct, 685,110 indirect) bytes in 1 blocks are definitely lost in loss record 66 of 66 ==935237== at 0x484DA83: calloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==935237== by 0x154D574E: ??? ==935237== by 0x154D5E0B: ??? ==935237== by 0x154D8F56: ??? ==935237== by 0x154CE65D: ??? ==935237== by 0x154CEFA3: ??? ==935237== by 0xF3AEF05: ??? (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==935237== by 0xF38AAE8: hwloc_topology_load (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==935237== by 0xF33BCB5: opal_hwloc_base_get_topology (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==935237== by 0xF268EF6: orte_ess_base_proc_binding (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==935237== by 0x13A94F03: ??? ==935237== by 0xF29D4CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==935237== by 0xBA7F418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xBA18D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==935237== by 0xA70FD38: PetscInitialize (pinit.c:924) ==935237== by 0x9B6E58B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==935237== by 0x9B6E5D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==935237== by 0x12C522: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==935237== by 0x125EBD: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==935237== by 0x128B52: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==935237== by 0x128A4D: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==935237== by 0x129061: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==935237== by 0x1246C0: main (TestConvergenceTester.cpp:18) ==935237== { 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 } ==935237== LEAK SUMMARY: ==935237== definitely lost: 688 bytes in 2 blocks ==935237== indirectly lost: 1,760 bytes in 16 blocks ==935237== possibly lost: 0 bytes in 0 blocks ==935237== still reachable: 1,531 bytes in 6 blocks ==935237== suppressed: 697,255 bytes in 9,363 blocks ==935237== Reachable blocks (those to which a pointer was found) are not shown. ==935237== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==935237== ==935237== Use --track-origins=yes to see where uninitialised values come from ==935237== For lists of detected and suppressed errors, rerun with: -s ==935237== ERROR SUMMARY: 89 errors from 6 contexts (suppressed: 29 from 29)