==2284892== Memcheck, a memory error detector ==2284892== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al. ==2284892== Using Valgrind-3.18.1 and LibVEX; rerun with -h for copyright info ==2284892== Command: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/pde/test/TestWritingPdeSolversTutorial -malloc_debug -malloc_dump -memory_info ==2284892== Parent PID: 2283975 ==2284892== ==2284892== WARNING: pwritev(vector[...]) is an obsolete suppression line not supported in valgrind 3.15 or later. ==2284892== You should replace [...] by a specific index such as [0] or [1] or [2] or similar ==2284892== ==2284892== Syscall param socketcall.getsockopt(optlen) points to uninitialised byte(s) ==2284892== at 0x7E9179E: getsockopt_syscall (getsockopt.c:29) ==2284892== by 0x7E9179E: getsockopt (getsockopt.c:94) ==2284892== by 0x107D7157: pmix_ptl_base_set_timeout (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2284892== by 0x107DEA1A: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2284892== by 0x107E5DF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2284892== by 0x106E53C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2284892== by 0x1065EE4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==2284892== by 0xFE1DE6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==2284892== by 0xBCB64CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2284892== by 0x8472418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x840BD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x6449D38: PetscInitialize (pinit.c:924) ==2284892== by 0x631D66F: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2284892== by 0x631D6BD: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2284892== by 0x1567F2: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==2284892== by 0x15013D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2284892== by 0x152F24: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2284892== by 0x152E1F: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2284892== by 0x153433: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2284892== by 0x14E940: main (TestWritingPdeSolversTutorial.cpp:18) ==2284892== Address 0x1ffeffdfac is on thread 1's stack ==2284892== in frame #2, created by pmix_ptl_base_make_connection (???:) ==2284892== { 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 } ==2284892== Syscall param socketcall.getsockopt(optlen_out) points to uninitialised byte(s) ==2284892== at 0x7E9179E: getsockopt_syscall (getsockopt.c:29) ==2284892== by 0x7E9179E: getsockopt (getsockopt.c:94) ==2284892== by 0x107D7157: pmix_ptl_base_set_timeout (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2284892== by 0x107DEA1A: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2284892== by 0x107E5DF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2284892== by 0x106E53C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2284892== by 0x1065EE4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==2284892== by 0xFE1DE6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==2284892== by 0xBCB64CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2284892== by 0x8472418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x840BD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x6449D38: PetscInitialize (pinit.c:924) ==2284892== by 0x631D66F: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2284892== by 0x631D6BD: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2284892== by 0x1567F2: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==2284892== by 0x15013D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2284892== by 0x152F24: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2284892== by 0x152E1F: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2284892== by 0x153433: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2284892== by 0x14E940: main (TestWritingPdeSolversTutorial.cpp:18) ==2284892== Address 0x1ffeffdfac is on thread 1's stack ==2284892== in frame #2, created by pmix_ptl_base_make_connection (???:) ==2284892== { 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 } ==2284892== Syscall param setsockopt(optlen) contains uninitialised byte(s) ==2284892== at 0x7E91C7E: setsockopt_syscall (setsockopt.c:29) ==2284892== by 0x7E91C7E: setsockopt (setsockopt.c:95) ==2284892== by 0x107DEBA9: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2284892== by 0x107E5DF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2284892== by 0x106E53C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2284892== by 0x1065EE4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==2284892== by 0xFE1DE6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==2284892== by 0xBCB64CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2284892== by 0x8472418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x840BD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x6449D38: PetscInitialize (pinit.c:924) ==2284892== by 0x631D66F: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2284892== by 0x631D6BD: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2284892== by 0x1567F2: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==2284892== by 0x15013D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2284892== by 0x152F24: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2284892== by 0x152E1F: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2284892== by 0x153433: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2284892== by 0x14E940: main (TestWritingPdeSolversTutorial.cpp:18) ==2284892== { 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 } ==2284892== Syscall param pwrite64(buf) points to uninitialised byte(s) ==2284892== at 0x7E7C9EF: __libc_pwrite64 (pwrite64.c:25) ==2284892== by 0x7E7C9EF: pwrite (pwrite64.c:23) ==2284892== by 0x14C549D2: mca_fbtl_posix_pwritev (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_fbtl_posix.so) ==2284892== by 0x14C64419: mca_common_ompio_file_write (in /usr/lib/x86_64-linux-gnu/libmca_common_ompio.so.41.29.2) ==2284892== by 0x14C6479A: mca_common_ompio_file_write_at (in /usr/lib/x86_64-linux-gnu/libmca_common_ompio.so.41.29.2) ==2284892== by 0x13B4F89A: mca_io_ompio_file_write_at (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_io_ompio.so) ==2284892== by 0x83FF6A7: PMPI_File_write_at (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x829CFEB: ??? (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80DC4ED: H5FD_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80BF313: H5F__accum_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x81BA442: H5PB_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80C6DEA: H5F_block_write (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x8050E98: H5C__flush_single_entry (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x82903F9: H5C_apply_candidate_list (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x82919CA: H5AC__run_sync_point (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x829247E: H5AC__flush_entries (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x802D54C: H5AC_flush (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80C5936: ??? (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80C63FE: H5F__dest (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80C9BB2: H5F_try_close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80C9EFB: H5F__close_cb (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x813951F: H5I_dec_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x81395EA: H5I_dec_app_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80C6831: H5F__close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80BB881: H5Fclose (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x624B855: Hdf5DataWriter::Close() (Hdf5DataWriter.cpp:1100) ==2284892== by 0x6246535: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:273) ==2284892== by 0x62465DB: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:283) ==2284892== by 0x15C541: AbstractDynamicLinearPdeSolver<2u, 2u, 3u>::Solve() (AbstractDynamicLinearPdeSolver.hpp:474) ==2284892== by 0x1585BA: TestWritingPdeSolversTutorial::TestMyParaEllipticSetOfPdesSolver() (TestWritingPdeSolversTutorial.hpp:500) ==2284892== by 0x1589D6: TestDescription_TestWritingPdeSolversTutorial_TestMyParaEllipticSetOfPdesSolver::runTest() (TestWritingPdeSolversTutorial.cpp:36) ==2284892== by 0x14F974: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96) ==2284892== by 0x1531D2: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74) ==2284892== by 0x1530B7: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61) ==2284892== by 0x152F5D: CxxTest::TestRunner::runWorld() (TestRunner.h:46) ==2284892== by 0x152E1F: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2284892== by 0x153433: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2284892== by 0x14E940: main (TestWritingPdeSolversTutorial.cpp:18) ==2284892== Address 0x12739d02 is 66 bytes inside a block of size 320 alloc'd ==2284892== at 0x4848899: malloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==2284892== by 0x8050E26: H5C__flush_single_entry (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x82903F9: H5C_apply_candidate_list (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x82919CA: H5AC__run_sync_point (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x829247E: H5AC__flush_entries (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x802D54C: H5AC_flush (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80C5936: ??? (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80C63FE: H5F__dest (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80C9BB2: H5F_try_close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80C9EFB: H5F__close_cb (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x813951F: H5I_dec_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x81395EA: H5I_dec_app_ref (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80C6831: H5F__close (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x80BB881: H5Fclose (in /usr/lib/x86_64-linux-gnu/libhdf5_openmpi.so.103.3.0) ==2284892== by 0x624B855: Hdf5DataWriter::Close() (Hdf5DataWriter.cpp:1100) ==2284892== by 0x6246535: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:273) ==2284892== by 0x62465DB: Hdf5DataWriter::~Hdf5DataWriter() (Hdf5DataWriter.cpp:283) ==2284892== by 0x15C541: AbstractDynamicLinearPdeSolver<2u, 2u, 3u>::Solve() (AbstractDynamicLinearPdeSolver.hpp:474) ==2284892== by 0x1585BA: TestWritingPdeSolversTutorial::TestMyParaEllipticSetOfPdesSolver() (TestWritingPdeSolversTutorial.hpp:500) ==2284892== by 0x1589D6: TestDescription_TestWritingPdeSolversTutorial_TestMyParaEllipticSetOfPdesSolver::runTest() (TestWritingPdeSolversTutorial.cpp:36) ==2284892== by 0x14F974: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96) ==2284892== by 0x1531D2: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74) ==2284892== by 0x1530B7: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61) ==2284892== by 0x152F5D: CxxTest::TestRunner::runWorld() (TestRunner.h:46) ==2284892== by 0x152E1F: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2284892== by 0x153433: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2284892== by 0x14E940: main (TestWritingPdeSolversTutorial.cpp:18) ==2284892== { 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:_ZN30AbstractDynamicLinearPdeSolverILj2ELj2ELj3EE5SolveEv fun:_ZN29TestWritingPdeSolversTutorial33TestMyParaEllipticSetOfPdesSolverEv fun:_ZN79TestDescription_TestWritingPdeSolversTutorial_TestMyParaEllipticSetOfPdesSolver7runTestEv fun:_ZN7CxxTest19RealTestDescription3runEv fun:_ZN7CxxTest10TestRunner7runTestERNS_15TestDescriptionE fun:_ZN7CxxTest10TestRunner8runSuiteERNS_16SuiteDescriptionE fun:_ZN7CxxTest10TestRunner8runWorldEv fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE fun:_ZN7CxxTest14ErrorFormatter3runEv fun:main } ==2284892== ==2284892== FILE DESCRIPTORS: 9 open (3 std) at exit. ==2284892== Open file descriptor 12: ==2284892== at 0x7E7F22D: pipe (pipe.c:29) ==2284892== by 0xFE1E07D: ??? ==2284892== by 0xBCB64CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2284892== by 0x8472418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x840BD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x6449D38: PetscInitialize (pinit.c:924) ==2284892== by 0x631D66F: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2284892== by 0x631D6BD: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2284892== by 0x1567F2: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==2284892== by 0x15013D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2284892== by 0x152F24: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2284892== by 0x152E1F: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2284892== by 0x153433: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2284892== by 0x14E940: main (TestWritingPdeSolversTutorial.cpp:18) ==2284892== ==2284892== Open file descriptor 8: /dev/shm/open_mpi.0000 ==2284892== at 0x7E83BCC: __open_nocancel (open64_nocancel.c:39) ==2284892== by 0x7E07C4F: shm_open@@GLIBC_2.34 (shm_open.c:40) ==2284892== by 0x76D3822: ??? ==2284892== by 0x76D396F: ??? ==2284892== by 0xBD5B6DC: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==2284892== by 0xBD5B938: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==2284892== by 0xBD11922: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==2284892== by 0xBCB62DB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2284892== by 0x8472418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x840BD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x6449D38: PetscInitialize (pinit.c:924) ==2284892== by 0x631D66F: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2284892== by 0x631D6BD: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2284892== by 0x1567F2: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==2284892== by 0x15013D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2284892== by 0x152F24: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2284892== by 0x152E1F: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2284892== by 0x153433: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2284892== by 0x14E940: main (TestWritingPdeSolversTutorial.cpp:18) ==2284892== ==2284892== Open file descriptor 117: ==2284892== ==2284892== ==2284892== Open file descriptor 110: ==2284892== ==2284892== ==2284892== Open file descriptor 4: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/memtest/TestWritingPdeSolversTutorial_valgrind.txt ==2284892== ==2284892== ==2284892== Open file descriptor 3: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/Testing/Temporary/LastTest.log.tmp ==2284892== ==2284892== ==2284892== ==2284892== HEAP SUMMARY: ==2284892== in use at exit: 701,159 bytes in 9,387 blocks ==2284892== total heap usage: 1,091,616 allocs, 1,082,229 frees, 1,467,154,514 bytes allocated ==2284892== ==2284892== 552 bytes in 1 blocks are definitely lost in loss record 44 of 67 ==2284892== at 0x484DA83: calloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==2284892== by 0x106ECC13: ??? ==2284892== by 0x106ED22C: ??? ==2284892== by 0x106604B7: ??? ==2284892== by 0x83D815A: ompi_proc_complete_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x8472A97: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x840BD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x6449D38: PetscInitialize (pinit.c:924) ==2284892== by 0x631D66F: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2284892== by 0x631D6BD: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2284892== by 0x1567F2: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==2284892== by 0x15013D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2284892== by 0x152F24: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2284892== by 0x152E1F: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2284892== by 0x153433: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2284892== by 0x14E940: main (TestWritingPdeSolversTutorial.cpp:18) ==2284892== { 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 } ==2284892== 685,222 (136 direct, 685,086 indirect) bytes in 1 blocks are definitely lost in loss record 67 of 67 ==2284892== at 0x484DA83: calloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==2284892== by 0x1185F74E: ??? ==2284892== by 0x1185FE0B: ??? ==2284892== by 0x11862F56: ??? ==2284892== by 0x1185865D: ??? ==2284892== by 0x11858FA3: ??? ==2284892== by 0xBDC7F05: ??? (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==2284892== by 0xBDA3AE8: hwloc_topology_load (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==2284892== by 0xBD54CB5: opal_hwloc_base_get_topology (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==2284892== by 0xBC81EF6: orte_ess_base_proc_binding (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2284892== by 0xFE1EF03: ??? ==2284892== by 0xBCB64CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2284892== by 0x8472418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x840BD7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2284892== by 0x6449D38: PetscInitialize (pinit.c:924) ==2284892== by 0x631D66F: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2284892== by 0x631D6BD: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2284892== by 0x1567F2: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==2284892== by 0x15013D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2284892== by 0x152F24: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2284892== by 0x152E1F: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2284892== by 0x153433: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2284892== by 0x14E940: main (TestWritingPdeSolversTutorial.cpp:18) ==2284892== { 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 } ==2284892== LEAK SUMMARY: ==2284892== definitely lost: 688 bytes in 2 blocks ==2284892== indirectly lost: 1,760 bytes in 16 blocks ==2284892== possibly lost: 0 bytes in 0 blocks ==2284892== still reachable: 1,531 bytes in 6 blocks ==2284892== suppressed: 697,180 bytes in 9,363 blocks ==2284892== Reachable blocks (those to which a pointer was found) are not shown. ==2284892== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==2284892== ==2284892== Use --track-origins=yes to see where uninitialised values come from ==2284892== For lists of detected and suppressed errors, rerun with: -s ==2284892== ERROR SUMMARY: 8 errors from 6 contexts (suppressed: 30 from 30)