==2633482== Memcheck, a memory error detector ==2633482== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al. ==2633482== Using Valgrind-3.18.1 and LibVEX; rerun with -h for copyright info ==2633482== Command: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/cell_based/test/TestCreatingAndUsingANewSrnModelTutorial -malloc_debug -malloc_dump -memory_info ==2633482== Parent PID: 2622576 ==2633482== ==2633482== WARNING: pwritev(vector[...]) is an obsolete suppression line not supported in valgrind 3.15 or later. ==2633482== You should replace [...] by a specific index such as [0] or [1] or [2] or similar ==2633482== ==2633482== Syscall param socketcall.getsockopt(optlen) points to uninitialised byte(s) ==2633482== at 0x1023679E: getsockopt_syscall (getsockopt.c:29) ==2633482== by 0x1023679E: getsockopt (getsockopt.c:94) ==2633482== by 0x192C9157: pmix_ptl_base_set_timeout (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2633482== by 0x192D0A1A: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2633482== by 0x192D7DF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2633482== by 0x191D73C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2633482== by 0x19150E4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==2633482== by 0x1890FE6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==2633482== by 0x13EC54CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2633482== by 0xFA47418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xF9E0D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xE6D7D38: PetscInitialize (pinit.c:924) ==2633482== by 0xE54958B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2633482== by 0xE5495D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2633482== by 0x26C2AD: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==2633482== by 0x263357: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2633482== by 0x268010: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2633482== by 0x267EB1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2633482== by 0x268547: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2633482== by 0x25EE80: main (TestCreatingAndUsingANewSrnModelTutorial.cpp:19) ==2633482== Address 0x1ffeffdf6c is on thread 1's stack ==2633482== in frame #2, created by pmix_ptl_base_make_connection (???:) ==2633482== { 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 } ==2633482== Syscall param socketcall.getsockopt(optlen_out) points to uninitialised byte(s) ==2633482== at 0x1023679E: getsockopt_syscall (getsockopt.c:29) ==2633482== by 0x1023679E: getsockopt (getsockopt.c:94) ==2633482== by 0x192C9157: pmix_ptl_base_set_timeout (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2633482== by 0x192D0A1A: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2633482== by 0x192D7DF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2633482== by 0x191D73C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2633482== by 0x19150E4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==2633482== by 0x1890FE6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==2633482== by 0x13EC54CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2633482== by 0xFA47418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xF9E0D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xE6D7D38: PetscInitialize (pinit.c:924) ==2633482== by 0xE54958B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2633482== by 0xE5495D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2633482== by 0x26C2AD: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==2633482== by 0x263357: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2633482== by 0x268010: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2633482== by 0x267EB1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2633482== by 0x268547: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2633482== by 0x25EE80: main (TestCreatingAndUsingANewSrnModelTutorial.cpp:19) ==2633482== Address 0x1ffeffdf6c is on thread 1's stack ==2633482== in frame #2, created by pmix_ptl_base_make_connection (???:) ==2633482== { 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 } ==2633482== Syscall param setsockopt(optlen) contains uninitialised byte(s) ==2633482== at 0x10236C7E: setsockopt_syscall (setsockopt.c:29) ==2633482== by 0x10236C7E: setsockopt (setsockopt.c:95) ==2633482== by 0x192D0BA9: pmix_ptl_base_make_connection (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2633482== by 0x192D7DF3: ??? (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2633482== by 0x191D73C1: PMIx_Init (in /usr/lib/x86_64-linux-gnu/pmix2/lib/libpmix.so.2.5.2) ==2633482== by 0x19150E4A: ext3x_client_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pmix_ext3x.so) ==2633482== by 0x1890FE6D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_ess_singleton.so) ==2633482== by 0x13EC54CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2633482== by 0xFA47418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xF9E0D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xE6D7D38: PetscInitialize (pinit.c:924) ==2633482== by 0xE54958B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2633482== by 0xE5495D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2633482== by 0x26C2AD: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==2633482== by 0x263357: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2633482== by 0x268010: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2633482== by 0x267EB1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2633482== by 0x268547: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2633482== by 0x25EE80: main (TestCreatingAndUsingANewSrnModelTutorial.cpp:19) ==2633482== { 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 } ==2633482== Use of uninitialised value of size 8 ==2633482== at 0xFBE781B: ??? (in /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.30) ==2633482== by 0xFBE7F99: std::ostreambuf_iterator > std::num_put > >::_M_insert_int(std::ostreambuf_iterator >, std::ios_base&, char, unsigned long) const (in /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.30) ==2633482== by 0xFBF6399: std::ostream& std::ostream::_M_insert(unsigned long) (in /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.30) ==2633482== by 0x2BE64C: void boost::archive::basic_text_oprimitive::save_impl(unsigned int const&, mpl_::bool_&) (basic_text_oprimitive.hpp:130) ==2633482== by 0x2BC5A7: void boost::archive::basic_text_oprimitive::save(unsigned int const&) (basic_text_oprimitive.hpp:180) ==2633482== by 0x2BACF6: void boost::archive::text_oarchive_impl::save(unsigned int const&) (text_oarchive.hpp:65) ==2633482== by 0x2B9320: void boost::archive::save_access::save_primitive(boost::archive::text_oarchive&, unsigned int const&) (oserializer.hpp:93) ==2633482== by 0x2B7A2A: void boost::archive::detail::save_non_pointer_type::save_primitive::invoke(boost::archive::text_oarchive&, unsigned int const&) (oserializer.hpp:237) ==2633482== by 0x2B6027: void boost::archive::detail::save_non_pointer_type::invoke(boost::archive::text_oarchive&, unsigned int const&) (oserializer.hpp:315) ==2633482== by 0x2B3D36: void boost::archive::save(boost::archive::text_oarchive&, unsigned int const&) (oserializer.hpp:539) ==2633482== by 0x2B2067: void boost::archive::detail::common_oarchive::save_override(unsigned int const&) (common_oarchive.hpp:71) ==2633482== by 0x2AF370: void boost::archive::basic_text_oarchive::save_override(unsigned int const&) (basic_text_oarchive.hpp:83) ==2633482== by 0x2AD91D: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator<< (unsigned int const&) (interface_oarchive.hpp:70) ==2633482== by 0x2AC24F: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator&(unsigned int const&) (interface_oarchive.hpp:77) ==2633482== by 0x2C0AD5: void AbstractSrnModel::serialize(boost::archive::text_oarchive&, unsigned int) (AbstractSrnModel.hpp:83) ==2633482== by 0x2BE274: void boost::serialization::access::serialize(boost::archive::text_oarchive&, AbstractSrnModel&, unsigned int) (access.hpp:116) ==2633482== by 0x2BC170: void boost::serialization::serialize(boost::archive::text_oarchive&, AbstractSrnModel&, unsigned int) (serialization.hpp:68) ==2633482== by 0x2BA9E6: void boost::serialization::serialize_adl(boost::archive::text_oarchive&, AbstractSrnModel&, unsigned int) (serialization.hpp:118) ==2633482== by 0x2B90BD: boost::archive::detail::oserializer::save_object_data(boost::archive::detail::basic_oarchive&, void const*) const (oserializer.hpp:153) ==2633482== by 0x2B785F: void boost::archive::detail::save_non_pointer_type::save_standard::invoke(boost::archive::text_oarchive&, AbstractSrnModel const&) (oserializer.hpp:258) ==2633482== by 0x2B5E9D: void boost::archive::detail::save_non_pointer_type::invoke(boost::archive::text_oarchive&, AbstractSrnModel const&) (oserializer.hpp:315) ==2633482== by 0x2B3CA9: void boost::archive::save(boost::archive::text_oarchive&, AbstractSrnModel const&) (oserializer.hpp:539) ==2633482== by 0x2B1FAB: void boost::archive::detail::common_oarchive::save_override(AbstractSrnModel const&) (common_oarchive.hpp:71) ==2633482== by 0x2AF2C4: void boost::archive::basic_text_oarchive::save_override(AbstractSrnModel const&) (basic_text_oarchive.hpp:83) ==2633482== by 0x2AD837: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator<< (AbstractSrnModel const&) (interface_oarchive.hpp:70) ==2633482== by 0x2AC18F: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator&(AbstractSrnModel const&) (interface_oarchive.hpp:77) ==2633482== by 0x2AA4BA: void AbstractOdeSrnModel::serialize(boost::archive::text_oarchive&, unsigned int) (AbstractOdeSrnModel.hpp:71) ==2633482== by 0x2A7472: void boost::serialization::access::serialize(boost::archive::text_oarchive&, AbstractOdeSrnModel&, unsigned int) (access.hpp:116) ==2633482== by 0x2A367E: void boost::serialization::serialize(boost::archive::text_oarchive&, AbstractOdeSrnModel&, unsigned int) (serialization.hpp:68) ==2633482== by 0x2A09E8: void boost::serialization::serialize_adl(boost::archive::text_oarchive&, AbstractOdeSrnModel&, unsigned int) (serialization.hpp:118) ==2633482== by 0x29E7CF: boost::archive::detail::oserializer::save_object_data(boost::archive::detail::basic_oarchive&, void const*) const (oserializer.hpp:153) ==2633482== by 0x29CC45: void boost::archive::detail::save_non_pointer_type::save_standard::invoke(boost::archive::text_oarchive&, AbstractOdeSrnModel const&) (oserializer.hpp:258) ==2633482== by 0x29B233: void boost::archive::detail::save_non_pointer_type::invoke(boost::archive::text_oarchive&, AbstractOdeSrnModel const&) (oserializer.hpp:315) ==2633482== by 0x2996B0: void boost::archive::save(boost::archive::text_oarchive&, AbstractOdeSrnModel const&) (oserializer.hpp:539) ==2633482== by 0x297BDF: void boost::archive::detail::common_oarchive::save_override(AbstractOdeSrnModel const&) (common_oarchive.hpp:71) ==2633482== by 0x296024: void boost::archive::basic_text_oarchive::save_override(AbstractOdeSrnModel const&) (basic_text_oarchive.hpp:83) ==2633482== by 0x29467F: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator<< (AbstractOdeSrnModel const&) (interface_oarchive.hpp:70) ==2633482== by 0x2930ED: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator&(AbstractOdeSrnModel const&) (interface_oarchive.hpp:77) ==2633482== by 0x291936: void MySrnModel::serialize(boost::archive::text_oarchive&, unsigned int) (TestCreatingAndUsingANewSrnModelTutorial.hpp:186) ==2633482== by 0x28EE6C: void boost::serialization::access::serialize(boost::archive::text_oarchive&, MySrnModel&, unsigned int) (access.hpp:116) ==2633482== by 0x28B838: void boost::serialization::serialize(boost::archive::text_oarchive&, MySrnModel&, unsigned int) (serialization.hpp:68) ==2633482== by 0x28778C: void boost::serialization::serialize_adl(boost::archive::text_oarchive&, MySrnModel&, unsigned int) (serialization.hpp:118) ==2633482== by 0x284E03: boost::archive::detail::oserializer::save_object_data(boost::archive::detail::basic_oarchive&, void const*) const (oserializer.hpp:153) ==2633482== by 0x2A0A47: void boost::archive::detail::save_non_pointer_type::save_standard::invoke(boost::archive::text_oarchive&, MySrnModel const&) (oserializer.hpp:258) ==2633482== by 0x29E816: void boost::archive::detail::save_non_pointer_type::invoke(boost::archive::text_oarchive&, MySrnModel const&) (oserializer.hpp:315) ==2633482== by 0x29CC76: void boost::archive::save(boost::archive::text_oarchive&, MySrnModel const&) (oserializer.hpp:539) ==2633482== by 0x29B269: void boost::archive::detail::common_oarchive::save_override(MySrnModel const&) (common_oarchive.hpp:71) ==2633482== by 0x2996DA: void boost::archive::basic_text_oarchive::save_override(MySrnModel const&) (basic_text_oarchive.hpp:83) ==2633482== by 0x297C2B: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator<< (MySrnModel const&) (interface_oarchive.hpp:70) ==2633482== by 0x29605C: void boost::serialization::save(boost::archive::text_oarchive&, boost::serialization::nvp const&, unsigned int) (nvp.hpp:48) ==2633482== { Memcheck:Value8 obj:/usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.30 fun:_ZNKSt7num_putIcSt19ostreambuf_iteratorIcSt11char_traitsIcEEE13_M_insert_intImEES3_S3_RSt8ios_basecT_ fun:_ZNSo9_M_insertImEERSoT_ fun:_ZN5boost7archive21basic_text_oprimitiveISoE9save_implIjEEvRKT_RN4mpl_5bool_ILb0EEE fun:_ZN5boost7archive21basic_text_oprimitiveISoE4saveIjEEvRKT_ fun:_ZN5boost7archive18text_oarchive_implINS0_13text_oarchiveEE4saveIjEEvRKT_ fun:_ZN5boost7archive11save_access14save_primitiveINS0_13text_oarchiveEjEEvRT_RKT0_ fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE14save_primitive6invokeIjEEvRS3_RKT_ fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE6invokeIjEEvRS3_RKT_ fun:_ZN5boost7archive4saveINS0_13text_oarchiveEKjEEvRT_RT0_ fun:_ZN5boost7archive6detail15common_oarchiveINS0_13text_oarchiveEE13save_overrideIKjEEvRT_ fun:_ZN5boost7archive19basic_text_oarchiveINS0_13text_oarchiveEE13save_overrideIKjEEvRT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEElsIjEERS3_RKT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEEanIjEERS3_RKT_ fun:_ZN16AbstractSrnModel9serializeIN5boost7archive13text_oarchiveEEEvRT_j fun:_ZN5boost13serialization6access9serializeINS_7archive13text_oarchiveE16AbstractSrnModelEEvRT_RT0_j fun:_ZN5boost13serialization9serializeINS_7archive13text_oarchiveE16AbstractSrnModelEEvRT_RT0_j fun:_ZN5boost13serialization13serialize_adlINS_7archive13text_oarchiveE16AbstractSrnModelEEvRT_RT0_j fun:_ZNK5boost7archive6detail11oserializerINS0_13text_oarchiveE16AbstractSrnModelE16save_object_dataERNS1_14basic_oarchiveEPKv fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE13save_standard6invokeI16AbstractSrnModelEEvRS3_RKT_ fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE6invokeI16AbstractSrnModelEEvRS3_RKT_ fun:_ZN5boost7archive4saveINS0_13text_oarchiveEK16AbstractSrnModelEEvRT_RT0_ fun:_ZN5boost7archive6detail15common_oarchiveINS0_13text_oarchiveEE13save_overrideIK16AbstractSrnModelEEvRT_ fun:_ZN5boost7archive19basic_text_oarchiveINS0_13text_oarchiveEE13save_overrideIK16AbstractSrnModelEEvRT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEElsI16AbstractSrnModelEERS3_RKT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEEanI16AbstractSrnModelEERS3_RKT_ fun:_ZN19AbstractOdeSrnModel9serializeIN5boost7archive13text_oarchiveEEEvRT_j fun:_ZN5boost13serialization6access9serializeINS_7archive13text_oarchiveE19AbstractOdeSrnModelEEvRT_RT0_j fun:_ZN5boost13serialization9serializeINS_7archive13text_oarchiveE19AbstractOdeSrnModelEEvRT_RT0_j fun:_ZN5boost13serialization13serialize_adlINS_7archive13text_oarchiveE19AbstractOdeSrnModelEEvRT_RT0_j fun:_ZNK5boost7archive6detail11oserializerINS0_13text_oarchiveE19AbstractOdeSrnModelE16save_object_dataERNS1_14basic_oarchiveEPKv fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE13save_standard6invokeI19AbstractOdeSrnModelEEvRS3_RKT_ fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE6invokeI19AbstractOdeSrnModelEEvRS3_RKT_ fun:_ZN5boost7archive4saveINS0_13text_oarchiveEK19AbstractOdeSrnModelEEvRT_RT0_ fun:_ZN5boost7archive6detail15common_oarchiveINS0_13text_oarchiveEE13save_overrideIK19AbstractOdeSrnModelEEvRT_ fun:_ZN5boost7archive19basic_text_oarchiveINS0_13text_oarchiveEE13save_overrideIK19AbstractOdeSrnModelEEvRT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEElsI19AbstractOdeSrnModelEERS3_RKT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEEanI19AbstractOdeSrnModelEERS3_RKT_ fun:_ZN10MySrnModel9serializeIN5boost7archive13text_oarchiveEEEvRT_j fun:_ZN5boost13serialization6access9serializeINS_7archive13text_oarchiveE10MySrnModelEEvRT_RT0_j fun:_ZN5boost13serialization9serializeINS_7archive13text_oarchiveE10MySrnModelEEvRT_RT0_j fun:_ZN5boost13serialization13serialize_adlINS_7archive13text_oarchiveE10MySrnModelEEvRT_RT0_j fun:_ZNK5boost7archive6detail11oserializerINS0_13text_oarchiveE10MySrnModelE16save_object_dataERNS1_14basic_oarchiveEPKv fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE13save_standard6invokeI10MySrnModelEEvRS3_RKT_ fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE6invokeI10MySrnModelEEvRS3_RKT_ fun:_ZN5boost7archive4saveINS0_13text_oarchiveEK10MySrnModelEEvRT_RT0_ fun:_ZN5boost7archive6detail15common_oarchiveINS0_13text_oarchiveEE13save_overrideIK10MySrnModelEEvRT_ fun:_ZN5boost7archive19basic_text_oarchiveINS0_13text_oarchiveEE13save_overrideIK10MySrnModelEEvRT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEElsI10MySrnModelEERS3_RKT_ fun:_ZN5boost13serialization4saveINS_7archive13text_oarchiveE10MySrnModelEEvRT_RKNS0_3nvpIT0_EEj } ==2633482== Conditional jump or move depends on uninitialised value(s) ==2633482== at 0xFBE782D: ??? (in /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.30) ==2633482== by 0xFBE7F99: std::ostreambuf_iterator > std::num_put > >::_M_insert_int(std::ostreambuf_iterator >, std::ios_base&, char, unsigned long) const (in /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.30) ==2633482== by 0xFBF6399: std::ostream& std::ostream::_M_insert(unsigned long) (in /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.30) ==2633482== by 0x2BE64C: void boost::archive::basic_text_oprimitive::save_impl(unsigned int const&, mpl_::bool_&) (basic_text_oprimitive.hpp:130) ==2633482== by 0x2BC5A7: void boost::archive::basic_text_oprimitive::save(unsigned int const&) (basic_text_oprimitive.hpp:180) ==2633482== by 0x2BACF6: void boost::archive::text_oarchive_impl::save(unsigned int const&) (text_oarchive.hpp:65) ==2633482== by 0x2B9320: void boost::archive::save_access::save_primitive(boost::archive::text_oarchive&, unsigned int const&) (oserializer.hpp:93) ==2633482== by 0x2B7A2A: void boost::archive::detail::save_non_pointer_type::save_primitive::invoke(boost::archive::text_oarchive&, unsigned int const&) (oserializer.hpp:237) ==2633482== by 0x2B6027: void boost::archive::detail::save_non_pointer_type::invoke(boost::archive::text_oarchive&, unsigned int const&) (oserializer.hpp:315) ==2633482== by 0x2B3D36: void boost::archive::save(boost::archive::text_oarchive&, unsigned int const&) (oserializer.hpp:539) ==2633482== by 0x2B2067: void boost::archive::detail::common_oarchive::save_override(unsigned int const&) (common_oarchive.hpp:71) ==2633482== by 0x2AF370: void boost::archive::basic_text_oarchive::save_override(unsigned int const&) (basic_text_oarchive.hpp:83) ==2633482== by 0x2AD91D: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator<< (unsigned int const&) (interface_oarchive.hpp:70) ==2633482== by 0x2AC24F: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator&(unsigned int const&) (interface_oarchive.hpp:77) ==2633482== by 0x2C0AD5: void AbstractSrnModel::serialize(boost::archive::text_oarchive&, unsigned int) (AbstractSrnModel.hpp:83) ==2633482== by 0x2BE274: void boost::serialization::access::serialize(boost::archive::text_oarchive&, AbstractSrnModel&, unsigned int) (access.hpp:116) ==2633482== by 0x2BC170: void boost::serialization::serialize(boost::archive::text_oarchive&, AbstractSrnModel&, unsigned int) (serialization.hpp:68) ==2633482== by 0x2BA9E6: void boost::serialization::serialize_adl(boost::archive::text_oarchive&, AbstractSrnModel&, unsigned int) (serialization.hpp:118) ==2633482== by 0x2B90BD: boost::archive::detail::oserializer::save_object_data(boost::archive::detail::basic_oarchive&, void const*) const (oserializer.hpp:153) ==2633482== by 0x2B785F: void boost::archive::detail::save_non_pointer_type::save_standard::invoke(boost::archive::text_oarchive&, AbstractSrnModel const&) (oserializer.hpp:258) ==2633482== by 0x2B5E9D: void boost::archive::detail::save_non_pointer_type::invoke(boost::archive::text_oarchive&, AbstractSrnModel const&) (oserializer.hpp:315) ==2633482== by 0x2B3CA9: void boost::archive::save(boost::archive::text_oarchive&, AbstractSrnModel const&) (oserializer.hpp:539) ==2633482== by 0x2B1FAB: void boost::archive::detail::common_oarchive::save_override(AbstractSrnModel const&) (common_oarchive.hpp:71) ==2633482== by 0x2AF2C4: void boost::archive::basic_text_oarchive::save_override(AbstractSrnModel const&) (basic_text_oarchive.hpp:83) ==2633482== by 0x2AD837: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator<< (AbstractSrnModel const&) (interface_oarchive.hpp:70) ==2633482== by 0x2AC18F: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator&(AbstractSrnModel const&) (interface_oarchive.hpp:77) ==2633482== by 0x2AA4BA: void AbstractOdeSrnModel::serialize(boost::archive::text_oarchive&, unsigned int) (AbstractOdeSrnModel.hpp:71) ==2633482== by 0x2A7472: void boost::serialization::access::serialize(boost::archive::text_oarchive&, AbstractOdeSrnModel&, unsigned int) (access.hpp:116) ==2633482== by 0x2A367E: void boost::serialization::serialize(boost::archive::text_oarchive&, AbstractOdeSrnModel&, unsigned int) (serialization.hpp:68) ==2633482== by 0x2A09E8: void boost::serialization::serialize_adl(boost::archive::text_oarchive&, AbstractOdeSrnModel&, unsigned int) (serialization.hpp:118) ==2633482== by 0x29E7CF: boost::archive::detail::oserializer::save_object_data(boost::archive::detail::basic_oarchive&, void const*) const (oserializer.hpp:153) ==2633482== by 0x29CC45: void boost::archive::detail::save_non_pointer_type::save_standard::invoke(boost::archive::text_oarchive&, AbstractOdeSrnModel const&) (oserializer.hpp:258) ==2633482== by 0x29B233: void boost::archive::detail::save_non_pointer_type::invoke(boost::archive::text_oarchive&, AbstractOdeSrnModel const&) (oserializer.hpp:315) ==2633482== by 0x2996B0: void boost::archive::save(boost::archive::text_oarchive&, AbstractOdeSrnModel const&) (oserializer.hpp:539) ==2633482== by 0x297BDF: void boost::archive::detail::common_oarchive::save_override(AbstractOdeSrnModel const&) (common_oarchive.hpp:71) ==2633482== by 0x296024: void boost::archive::basic_text_oarchive::save_override(AbstractOdeSrnModel const&) (basic_text_oarchive.hpp:83) ==2633482== by 0x29467F: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator<< (AbstractOdeSrnModel const&) (interface_oarchive.hpp:70) ==2633482== by 0x2930ED: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator&(AbstractOdeSrnModel const&) (interface_oarchive.hpp:77) ==2633482== by 0x291936: void MySrnModel::serialize(boost::archive::text_oarchive&, unsigned int) (TestCreatingAndUsingANewSrnModelTutorial.hpp:186) ==2633482== by 0x28EE6C: void boost::serialization::access::serialize(boost::archive::text_oarchive&, MySrnModel&, unsigned int) (access.hpp:116) ==2633482== by 0x28B838: void boost::serialization::serialize(boost::archive::text_oarchive&, MySrnModel&, unsigned int) (serialization.hpp:68) ==2633482== by 0x28778C: void boost::serialization::serialize_adl(boost::archive::text_oarchive&, MySrnModel&, unsigned int) (serialization.hpp:118) ==2633482== by 0x284E03: boost::archive::detail::oserializer::save_object_data(boost::archive::detail::basic_oarchive&, void const*) const (oserializer.hpp:153) ==2633482== by 0x2A0A47: void boost::archive::detail::save_non_pointer_type::save_standard::invoke(boost::archive::text_oarchive&, MySrnModel const&) (oserializer.hpp:258) ==2633482== by 0x29E816: void boost::archive::detail::save_non_pointer_type::invoke(boost::archive::text_oarchive&, MySrnModel const&) (oserializer.hpp:315) ==2633482== by 0x29CC76: void boost::archive::save(boost::archive::text_oarchive&, MySrnModel const&) (oserializer.hpp:539) ==2633482== by 0x29B269: void boost::archive::detail::common_oarchive::save_override(MySrnModel const&) (common_oarchive.hpp:71) ==2633482== by 0x2996DA: void boost::archive::basic_text_oarchive::save_override(MySrnModel const&) (basic_text_oarchive.hpp:83) ==2633482== by 0x297C2B: boost::archive::text_oarchive& boost::archive::detail::interface_oarchive::operator<< (MySrnModel const&) (interface_oarchive.hpp:70) ==2633482== by 0x29605C: void boost::serialization::save(boost::archive::text_oarchive&, boost::serialization::nvp const&, unsigned int) (nvp.hpp:48) ==2633482== { Memcheck:Cond obj:/usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.30 fun:_ZNKSt7num_putIcSt19ostreambuf_iteratorIcSt11char_traitsIcEEE13_M_insert_intImEES3_S3_RSt8ios_basecT_ fun:_ZNSo9_M_insertImEERSoT_ fun:_ZN5boost7archive21basic_text_oprimitiveISoE9save_implIjEEvRKT_RN4mpl_5bool_ILb0EEE fun:_ZN5boost7archive21basic_text_oprimitiveISoE4saveIjEEvRKT_ fun:_ZN5boost7archive18text_oarchive_implINS0_13text_oarchiveEE4saveIjEEvRKT_ fun:_ZN5boost7archive11save_access14save_primitiveINS0_13text_oarchiveEjEEvRT_RKT0_ fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE14save_primitive6invokeIjEEvRS3_RKT_ fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE6invokeIjEEvRS3_RKT_ fun:_ZN5boost7archive4saveINS0_13text_oarchiveEKjEEvRT_RT0_ fun:_ZN5boost7archive6detail15common_oarchiveINS0_13text_oarchiveEE13save_overrideIKjEEvRT_ fun:_ZN5boost7archive19basic_text_oarchiveINS0_13text_oarchiveEE13save_overrideIKjEEvRT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEElsIjEERS3_RKT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEEanIjEERS3_RKT_ fun:_ZN16AbstractSrnModel9serializeIN5boost7archive13text_oarchiveEEEvRT_j fun:_ZN5boost13serialization6access9serializeINS_7archive13text_oarchiveE16AbstractSrnModelEEvRT_RT0_j fun:_ZN5boost13serialization9serializeINS_7archive13text_oarchiveE16AbstractSrnModelEEvRT_RT0_j fun:_ZN5boost13serialization13serialize_adlINS_7archive13text_oarchiveE16AbstractSrnModelEEvRT_RT0_j fun:_ZNK5boost7archive6detail11oserializerINS0_13text_oarchiveE16AbstractSrnModelE16save_object_dataERNS1_14basic_oarchiveEPKv fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE13save_standard6invokeI16AbstractSrnModelEEvRS3_RKT_ fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE6invokeI16AbstractSrnModelEEvRS3_RKT_ fun:_ZN5boost7archive4saveINS0_13text_oarchiveEK16AbstractSrnModelEEvRT_RT0_ fun:_ZN5boost7archive6detail15common_oarchiveINS0_13text_oarchiveEE13save_overrideIK16AbstractSrnModelEEvRT_ fun:_ZN5boost7archive19basic_text_oarchiveINS0_13text_oarchiveEE13save_overrideIK16AbstractSrnModelEEvRT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEElsI16AbstractSrnModelEERS3_RKT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEEanI16AbstractSrnModelEERS3_RKT_ fun:_ZN19AbstractOdeSrnModel9serializeIN5boost7archive13text_oarchiveEEEvRT_j fun:_ZN5boost13serialization6access9serializeINS_7archive13text_oarchiveE19AbstractOdeSrnModelEEvRT_RT0_j fun:_ZN5boost13serialization9serializeINS_7archive13text_oarchiveE19AbstractOdeSrnModelEEvRT_RT0_j fun:_ZN5boost13serialization13serialize_adlINS_7archive13text_oarchiveE19AbstractOdeSrnModelEEvRT_RT0_j fun:_ZNK5boost7archive6detail11oserializerINS0_13text_oarchiveE19AbstractOdeSrnModelE16save_object_dataERNS1_14basic_oarchiveEPKv fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE13save_standard6invokeI19AbstractOdeSrnModelEEvRS3_RKT_ fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE6invokeI19AbstractOdeSrnModelEEvRS3_RKT_ fun:_ZN5boost7archive4saveINS0_13text_oarchiveEK19AbstractOdeSrnModelEEvRT_RT0_ fun:_ZN5boost7archive6detail15common_oarchiveINS0_13text_oarchiveEE13save_overrideIK19AbstractOdeSrnModelEEvRT_ fun:_ZN5boost7archive19basic_text_oarchiveINS0_13text_oarchiveEE13save_overrideIK19AbstractOdeSrnModelEEvRT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEElsI19AbstractOdeSrnModelEERS3_RKT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEEanI19AbstractOdeSrnModelEERS3_RKT_ fun:_ZN10MySrnModel9serializeIN5boost7archive13text_oarchiveEEEvRT_j fun:_ZN5boost13serialization6access9serializeINS_7archive13text_oarchiveE10MySrnModelEEvRT_RT0_j fun:_ZN5boost13serialization9serializeINS_7archive13text_oarchiveE10MySrnModelEEvRT_RT0_j fun:_ZN5boost13serialization13serialize_adlINS_7archive13text_oarchiveE10MySrnModelEEvRT_RT0_j fun:_ZNK5boost7archive6detail11oserializerINS0_13text_oarchiveE10MySrnModelE16save_object_dataERNS1_14basic_oarchiveEPKv fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE13save_standard6invokeI10MySrnModelEEvRS3_RKT_ fun:_ZN5boost7archive6detail21save_non_pointer_typeINS0_13text_oarchiveEE6invokeI10MySrnModelEEvRS3_RKT_ fun:_ZN5boost7archive4saveINS0_13text_oarchiveEK10MySrnModelEEvRT_RT0_ fun:_ZN5boost7archive6detail15common_oarchiveINS0_13text_oarchiveEE13save_overrideIK10MySrnModelEEvRT_ fun:_ZN5boost7archive19basic_text_oarchiveINS0_13text_oarchiveEE13save_overrideIK10MySrnModelEEvRT_ fun:_ZN5boost7archive6detail18interface_oarchiveINS0_13text_oarchiveEElsI10MySrnModelEERS3_RKT_ fun:_ZN5boost13serialization4saveINS_7archive13text_oarchiveE10MySrnModelEEvRT_RKNS0_3nvpIT0_EEj } ==2633482== ==2633482== FILE DESCRIPTORS: 9 open (3 std) at exit. ==2633482== Open file descriptor 12: ==2633482== at 0x1022422D: pipe (pipe.c:29) ==2633482== by 0x1891007D: ??? ==2633482== by 0x13EC54CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2633482== by 0xFA47418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xF9E0D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xE6D7D38: PetscInitialize (pinit.c:924) ==2633482== by 0xE54958B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2633482== by 0xE5495D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2633482== by 0x26C2AD: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==2633482== by 0x263357: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2633482== by 0x268010: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2633482== by 0x267EB1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2633482== by 0x268547: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2633482== by 0x25EE80: main (TestCreatingAndUsingANewSrnModelTutorial.cpp:19) ==2633482== ==2633482== Open file descriptor 8: /dev/shm/open_mpi.0000 ==2633482== at 0x10228BCC: __open_nocancel (open64_nocancel.c:39) ==2633482== by 0x101ACC4F: shm_open@@GLIBC_2.34 (shm_open.c:40) ==2633482== by 0xE581822: ??? ==2633482== by 0xE58196F: ??? ==2633482== by 0x13F6A6DC: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==2633482== by 0x13F6A938: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==2633482== by 0x13F20922: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==2633482== by 0x13EC52DB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2633482== by 0xFA47418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xF9E0D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xE6D7D38: PetscInitialize (pinit.c:924) ==2633482== by 0xE54958B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2633482== by 0xE5495D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2633482== by 0x26C2AD: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==2633482== by 0x263357: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2633482== by 0x268010: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2633482== by 0x267EB1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2633482== by 0x268547: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2633482== by 0x25EE80: main (TestCreatingAndUsingANewSrnModelTutorial.cpp:19) ==2633482== ==2633482== Open file descriptor 117: ==2633482== ==2633482== ==2633482== Open file descriptor 110: ==2633482== ==2633482== ==2633482== Open file descriptor 4: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/memtest/TestCreatingAndUsingANewSrnModelTutorial_valgrind.txt ==2633482== ==2633482== ==2633482== Open file descriptor 3: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/Testing/Temporary/LastTest.log.tmp ==2633482== ==2633482== ==2633482== ==2633482== HEAP SUMMARY: ==2633482== in use at exit: 701,956 bytes in 9,402 blocks ==2633482== total heap usage: 3,842,389 allocs, 3,832,987 frees, 1,526,200,867 bytes allocated ==2633482== ==2633482== 484 (80 direct, 404 indirect) bytes in 2 blocks are definitely lost in loss record 47 of 76 ==2633482== at 0x4849013: operator new(unsigned long) (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==2633482== by 0xDECE138: VertexMeshOperationRecorder<2u, 2u>::RecordEdgeSplitOperation(VertexElement<2u, 2u>*, unsigned int, double, bool) (VertexMeshOperationRecorder.cpp:281) ==2633482== by 0xDDEC60F: MutableVertexMesh<2u, 2u>::DivideElementAlongGivenAxis(VertexElement<2u, 2u>*, boost::numeric::ublas::c_vector, bool) (MutableVertexMesh.cpp:649) ==2633482== by 0xA397838: VertexBasedCellPopulation<2u>::AddCell(boost::shared_ptr, boost::shared_ptr) (VertexBasedCellPopulation.cpp:246) ==2633482== by 0xA769993: AbstractCellBasedSimulation<2u, 2u>::DoCellBirth() (AbstractCellBasedSimulation.cpp:144) ==2633482== by 0xA769DCC: AbstractCellBasedSimulation<2u, 2u>::UpdateCellPopulation() (AbstractCellBasedSimulation.cpp:614) ==2633482== by 0xA76C0AD: AbstractCellBasedSimulation<2u, 2u>::Solve() (AbstractCellBasedSimulation.cpp:457) ==2633482== by 0x26F21B: TestCreatingAndUsingANewSrnModelTutorial::TestOffLatticeSimulationWithMySrnModel() (TestCreatingAndUsingANewSrnModelTutorial.hpp:480) ==2633482== by 0x26F6EA: TestDescription_TestCreatingAndUsingANewSrnModelTutorial_TestOffLatticeSimulationWithMySrnModel::runTest() (TestCreatingAndUsingANewSrnModelTutorial.cpp:37) ==2633482== by 0x262952: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96) ==2633482== by 0x2682BE: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74) ==2633482== by 0x2681A3: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61) ==2633482== by 0x268049: CxxTest::TestRunner::runWorld() (TestRunner.h:46) ==2633482== by 0x267EB1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2633482== by 0x268547: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2633482== by 0x25EE80: main (TestCreatingAndUsingANewSrnModelTutorial.cpp:19) ==2633482== { Memcheck:Leak match-leak-kinds: definite fun:_Znwm fun:_ZN27VertexMeshOperationRecorderILj2ELj2EE24RecordEdgeSplitOperationEP13VertexElementILj2ELj2EEjdb fun:_ZN17MutableVertexMeshILj2ELj2EE27DivideElementAlongGivenAxisEP13VertexElementILj2ELj2EEN5boost7numeric5ublas8c_vectorIdLm2EEEb fun:_ZN25VertexBasedCellPopulationILj2EE7AddCellEN5boost10shared_ptrI4CellEES4_ fun:_ZN27AbstractCellBasedSimulationILj2ELj2EE11DoCellBirthEv fun:_ZN27AbstractCellBasedSimulationILj2ELj2EE20UpdateCellPopulationEv fun:_ZN27AbstractCellBasedSimulationILj2ELj2EE5SolveEv fun:_ZN40TestCreatingAndUsingANewSrnModelTutorial38TestOffLatticeSimulationWithMySrnModelEv fun:_ZN95TestDescription_TestCreatingAndUsingANewSrnModelTutorial_TestOffLatticeSimulationWithMySrnModel7runTestEv fun:_ZN7CxxTest19RealTestDescription3runEv fun:_ZN7CxxTest10TestRunner7runTestERNS_15TestDescriptionE fun:_ZN7CxxTest10TestRunner8runSuiteERNS_16SuiteDescriptionE fun:_ZN7CxxTest10TestRunner8runWorldEv fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE fun:_ZN7CxxTest14ErrorFormatter3runEv fun:main } ==2633482== 552 bytes in 1 blocks are definitely lost in loss record 49 of 76 ==2633482== at 0x484DA83: calloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==2633482== by 0x191DEC13: ??? ==2633482== by 0x191DF22C: ??? ==2633482== by 0x191524B7: ??? ==2633482== by 0xF9AD15A: ompi_proc_complete_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xFA47A97: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xF9E0D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xE6D7D38: PetscInitialize (pinit.c:924) ==2633482== by 0xE54958B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2633482== by 0xE5495D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2633482== by 0x26C2AD: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==2633482== by 0x263357: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2633482== by 0x268010: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2633482== by 0x267EB1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2633482== by 0x268547: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2633482== by 0x25EE80: main (TestCreatingAndUsingANewSrnModelTutorial.cpp:19) ==2633482== { 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 } ==2633482== 768 (80 direct, 688 indirect) bytes in 2 blocks are definitely lost in loss record 64 of 76 ==2633482== at 0x4849013: operator new(unsigned long) (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==2633482== by 0xDECEF74: VertexMeshOperationRecorder<2u, 2u>::RecordCellDivideOperation(std::vector > const&, VertexElement<2u, 2u>*, VertexElement<2u, 2u>*) (VertexMeshOperationRecorder.cpp:411) ==2633482== by 0xDDEC58D: MutableVertexMesh<2u, 2u>::DivideElementAlongGivenAxis(VertexElement<2u, 2u>*, boost::numeric::ublas::c_vector, bool) (MutableVertexMesh.cpp:645) ==2633482== by 0xA397838: VertexBasedCellPopulation<2u>::AddCell(boost::shared_ptr, boost::shared_ptr) (VertexBasedCellPopulation.cpp:246) ==2633482== by 0xA769993: AbstractCellBasedSimulation<2u, 2u>::DoCellBirth() (AbstractCellBasedSimulation.cpp:144) ==2633482== by 0xA769DCC: AbstractCellBasedSimulation<2u, 2u>::UpdateCellPopulation() (AbstractCellBasedSimulation.cpp:614) ==2633482== by 0xA76C0AD: AbstractCellBasedSimulation<2u, 2u>::Solve() (AbstractCellBasedSimulation.cpp:457) ==2633482== by 0x26F21B: TestCreatingAndUsingANewSrnModelTutorial::TestOffLatticeSimulationWithMySrnModel() (TestCreatingAndUsingANewSrnModelTutorial.hpp:480) ==2633482== by 0x26F6EA: TestDescription_TestCreatingAndUsingANewSrnModelTutorial_TestOffLatticeSimulationWithMySrnModel::runTest() (TestCreatingAndUsingANewSrnModelTutorial.cpp:37) ==2633482== by 0x262952: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96) ==2633482== by 0x2682BE: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74) ==2633482== by 0x2681A3: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61) ==2633482== by 0x268049: CxxTest::TestRunner::runWorld() (TestRunner.h:46) ==2633482== by 0x267EB1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2633482== by 0x268547: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2633482== by 0x25EE80: main (TestCreatingAndUsingANewSrnModelTutorial.cpp:19) ==2633482== { Memcheck:Leak match-leak-kinds: definite fun:_Znwm fun:_ZN27VertexMeshOperationRecorderILj2ELj2EE25RecordCellDivideOperationERKSt6vectorIjSaIjEEP13VertexElementILj2ELj2EES8_ fun:_ZN17MutableVertexMeshILj2ELj2EE27DivideElementAlongGivenAxisEP13VertexElementILj2ELj2EEN5boost7numeric5ublas8c_vectorIdLm2EEEb fun:_ZN25VertexBasedCellPopulationILj2EE7AddCellEN5boost10shared_ptrI4CellEES4_ fun:_ZN27AbstractCellBasedSimulationILj2ELj2EE11DoCellBirthEv fun:_ZN27AbstractCellBasedSimulationILj2ELj2EE20UpdateCellPopulationEv fun:_ZN27AbstractCellBasedSimulationILj2ELj2EE5SolveEv fun:_ZN40TestCreatingAndUsingANewSrnModelTutorial38TestOffLatticeSimulationWithMySrnModelEv fun:_ZN95TestDescription_TestCreatingAndUsingANewSrnModelTutorial_TestOffLatticeSimulationWithMySrnModel7runTestEv fun:_ZN7CxxTest19RealTestDescription3runEv fun:_ZN7CxxTest10TestRunner7runTestERNS_15TestDescriptionE fun:_ZN7CxxTest10TestRunner8runSuiteERNS_16SuiteDescriptionE fun:_ZN7CxxTest10TestRunner8runWorldEv fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE fun:_ZN7CxxTest14ErrorFormatter3runEv fun:main } ==2633482== 84,459 (136 direct, 84,323 indirect) bytes in 1 blocks are definitely lost in loss record 73 of 76 ==2633482== at 0x484DA83: calloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==2633482== by 0x1A75174E: ??? ==2633482== by 0x1A751E0B: ??? ==2633482== by 0x1A754F56: ??? ==2633482== by 0x1A74A65D: ??? ==2633482== by 0x1A74AFA3: ??? ==2633482== by 0x13FD6F05: ??? (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==2633482== by 0x13FB2AE8: hwloc_topology_load (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==2633482== by 0x13F63CB5: opal_hwloc_base_get_topology (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==2633482== by 0x13E90EF6: orte_ess_base_proc_binding (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2633482== by 0x18910F03: ??? ==2633482== by 0x13EC54CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==2633482== by 0xFA47418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xF9E0D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==2633482== by 0xE6D7D38: PetscInitialize (pinit.c:924) ==2633482== by 0xE54958B: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==2633482== by 0xE5495D9: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==2633482== by 0x26C2AD: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70) ==2633482== by 0x263357: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==2633482== by 0x268010: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==2633482== by 0x267EB1: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==2633482== by 0x268547: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==2633482== by 0x25EE80: main (TestCreatingAndUsingANewSrnModelTutorial.cpp:19) ==2633482== { 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 } ==2633482== LEAK SUMMARY: ==2633482== definitely lost: 848 bytes in 6 blocks ==2633482== indirectly lost: 2,852 bytes in 40 blocks ==2633482== possibly lost: 0 bytes in 0 blocks ==2633482== still reachable: 1,563 bytes in 7 blocks ==2633482== suppressed: 696,693 bytes in 9,349 blocks ==2633482== Reachable blocks (those to which a pointer was found) are not shown. ==2633482== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==2633482== ==2633482== Use --track-origins=yes to see where uninitialised values come from ==2633482== For lists of detected and suppressed errors, rerun with: -s ==2633482== ERROR SUMMARY: 17 errors from 9 contexts (suppressed: 28 from 28)