==1789403== Memcheck, a memory error detector
==1789403== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al.
==1789403== Using Valgrind-3.18.1 and LibVEX; rerun with -h for copyright info
==1789403== Command: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/cell_based/test/TestImmersedBoundaryCellPopulation -malloc_debug -malloc_dump -memory_info
==1789403== Parent PID: 1787640
==1789403== 
==1789403== 
==1789403== FILE DESCRIPTORS: 9 open (3 std) at exit.
==1789403== Open file descriptor 12:
==1789403==    at 0x10CE722D: pipe (pipe.c:29)
==1789403==    by 0x196A507D: ???
==1789403==    by 0x14C134CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2)
==1789403==    by 0x105EF418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2)
==1789403==    by 0x10588D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2)
==1789403==    by 0xF27FD38: PetscInitialize (pinit.c:924)
==1789403==    by 0xF0F42DF: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==1789403==    by 0xF0F432D: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==1789403==    by 0x178F57: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==1789403==    by 0x171249: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==1789403==    by 0x174580: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==1789403==    by 0x174420: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==1789403==    by 0x174AB7: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==1789403==    by 0x16F665: main (TestImmersedBoundaryCellPopulation.cpp:19)
==1789403== 
==1789403== Open file descriptor 8: /dev/shm/open_mpi.0000
==1789403==    at 0x10CEBBCC: __open_nocancel (open64_nocancel.c:39)
==1789403==    by 0x10C6FC4F: shm_open@@GLIBC_2.34 (shm_open.c:40)
==1789403==    by 0xF129822: ???
==1789403==    by 0xF12996F: ???
==1789403==    by 0x14CB86DC: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2)
==1789403==    by 0x14CB8938: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2)
==1789403==    by 0x14C6E922: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2)
==1789403==    by 0x14C132DB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2)
==1789403==    by 0x105EF418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2)
==1789403==    by 0x10588D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2)
==1789403==    by 0xF27FD38: PetscInitialize (pinit.c:924)
==1789403==    by 0xF0F42DF: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80)
==1789403==    by 0xF0F432D: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88)
==1789403==    by 0x178F57: PetscSetup::setUpWorld() (FakePetscSetup.hpp:70)
==1789403==    by 0x171249: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266)
==1789403==    by 0x174580: CxxTest::TestRunner::runWorld() (TestRunner.h:43)
==1789403==    by 0x174420: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==1789403==    by 0x174AB7: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==1789403==    by 0x16F665: main (TestImmersedBoundaryCellPopulation.cpp:19)
==1789403== 
==1789403== Open file descriptor 116:
==1789403==    <inherited from parent>
==1789403== 
==1789403== Open file descriptor 112:
==1789403==    <inherited from parent>
==1789403== 
==1789403== Open file descriptor 4: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/memtest/TestImmersedBoundaryCellPopulation_valgrind.txt
==1789403==    <inherited from parent>
==1789403== 
==1789403== Open file descriptor 3: /home/github/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/Testing/Temporary/LastTest.log.tmp
==1789403==    <inherited from parent>
==1789403== 
==1789403== 
==1789403== HEAP SUMMARY:
==1789403==     in use at exit: 1,054,754 bytes in 15,477 blocks
==1789403==   total heap usage: 113,700 allocs, 98,223 frees, 1,395,478,856 bytes allocated
==1789403== 
==1789403== 4,000 bytes in 1 blocks are possibly lost in loss record 61 of 86
==1789403==    at 0x4849013: operator new(unsigned long) (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so)
==1789403==    by 0x1A7C1B: __gnu_cxx::new_allocator<double>::allocate(unsigned long, void const*) (new_allocator.h:127)
==1789403==    by 0x1A774F: std::allocator_traits<std::allocator<double> >::allocate(std::allocator<double>&, unsigned long) (alloc_traits.h:464)
==1789403==    by 0x1A72BD: std::_Vector_base<double, std::allocator<double> >::_M_allocate(unsigned long) (stl_vector.h:346)
==1789403==    by 0x1A7879: std::vector<double, std::allocator<double> >::_M_default_append(unsigned long) (vector.tcc:635)
==1789403==    by 0x1A7350: std::vector<double, std::allocator<double> >::resize(unsigned long) (stl_vector.h:940)
==1789403==    by 0xE62943D: TetrahedralMesh<2u, 2u>::RefreshJacobianCachedData() (TetrahedralMesh.cpp:685)
==1789403==    by 0xE6276E3: TetrahedralMesh<2u, 2u>::ConstructFromMeshReader(AbstractMeshReader<2u, 2u>&) (TetrahedralMesh.cpp:184)
==1789403==    by 0xA867402: ImmersedBoundaryCellPopulation<2u>::GetTetrahedralMeshForPdeModifier() (ImmersedBoundaryCellPopulation.cpp:941)
==1789403==    by 0x17B120: TestImmersedBoundaryCellPopulation::TestMeshMethods() (TestImmersedBoundaryCellPopulation.hpp:214)
==1789403==    by 0x186A9E: TestDescription_TestImmersedBoundaryCellPopulation_TestMeshMethods::runTest() (TestImmersedBoundaryCellPopulation.cpp:37)
==1789403==    by 0x17092D: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96)
==1789403==    by 0x17482E: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74)
==1789403==    by 0x174713: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61)
==1789403==    by 0x1745B9: CxxTest::TestRunner::runWorld() (TestRunner.h:46)
==1789403==    by 0x174420: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==1789403==    by 0x174AB7: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==1789403==    by 0x16F665: main (TestImmersedBoundaryCellPopulation.cpp:19)
==1789403== 
{
   <insert_a_suppression_name_here>
   Memcheck:Leak
   match-leak-kinds: possible
   fun:_Znwm
   fun:_ZN9__gnu_cxx13new_allocatorIdE8allocateEmPKv
   fun:_ZNSt16allocator_traitsISaIdEE8allocateERS0_m
   fun:_ZNSt12_Vector_baseIdSaIdEE11_M_allocateEm
   fun:_ZNSt6vectorIdSaIdEE17_M_default_appendEm
   fun:_ZNSt6vectorIdSaIdEE6resizeEm
   fun:_ZN15TetrahedralMeshILj2ELj2EE25RefreshJacobianCachedDataEv
   fun:_ZN15TetrahedralMeshILj2ELj2EE23ConstructFromMeshReaderER18AbstractMeshReaderILj2ELj2EE
   fun:_ZN30ImmersedBoundaryCellPopulationILj2EE32GetTetrahedralMeshForPdeModifierEv
   fun:_ZN34TestImmersedBoundaryCellPopulation15TestMeshMethodsEv
   fun:_ZN66TestDescription_TestImmersedBoundaryCellPopulation_TestMeshMethods7runTestEv
   fun:_ZN7CxxTest19RealTestDescription3runEv
   fun:_ZN7CxxTest10TestRunner7runTestERNS_15TestDescriptionE
   fun:_ZN7CxxTest10TestRunner8runSuiteERNS_16SuiteDescriptionE
   fun:_ZN7CxxTest10TestRunner8runWorldEv
   fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE
   fun:_ZN7CxxTest14ErrorFormatter3runEv
   fun:main
}
==1789403== 24,000 bytes in 1 blocks are possibly lost in loss record 74 of 86
==1789403==    at 0x4849013: operator new(unsigned long) (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so)
==1789403==    by 0xE58ED22: __gnu_cxx::new_allocator<boost::numeric::ublas::c_matrix<double, 2ul, 2ul> >::allocate(unsigned long, void const*) (new_allocator.h:127)
==1789403==    by 0xE58B092: std::allocator_traits<std::allocator<boost::numeric::ublas::c_matrix<double, 2ul, 2ul> > >::allocate(std::allocator<boost::numeric::ublas::c_matrix<double, 2ul, 2ul> >&, unsigned long) (alloc_traits.h:464)
==1789403==    by 0xE586B63: std::_Vector_base<boost::numeric::ublas::c_matrix<double, 2ul, 2ul>, std::allocator<boost::numeric::ublas::c_matrix<double, 2ul, 2ul> > >::_M_allocate(unsigned long) (stl_vector.h:346)
==1789403==    by 0xE580C86: std::vector<boost::numeric::ublas::c_matrix<double, 2ul, 2ul>, std::allocator<boost::numeric::ublas::c_matrix<double, 2ul, 2ul> > >::_M_default_append(unsigned long) (vector.tcc:635)
==1789403==    by 0xE57B21E: std::vector<boost::numeric::ublas::c_matrix<double, 2ul, 2ul>, std::allocator<boost::numeric::ublas::c_matrix<double, 2ul, 2ul> > >::resize(unsigned long) (stl_vector.h:940)
==1789403==    by 0xE6293F2: TetrahedralMesh<2u, 2u>::RefreshJacobianCachedData() (TetrahedralMesh.cpp:675)
==1789403==    by 0xE6276E3: TetrahedralMesh<2u, 2u>::ConstructFromMeshReader(AbstractMeshReader<2u, 2u>&) (TetrahedralMesh.cpp:184)
==1789403==    by 0xA867402: ImmersedBoundaryCellPopulation<2u>::GetTetrahedralMeshForPdeModifier() (ImmersedBoundaryCellPopulation.cpp:941)
==1789403==    by 0x17B120: TestImmersedBoundaryCellPopulation::TestMeshMethods() (TestImmersedBoundaryCellPopulation.hpp:214)
==1789403==    by 0x186A9E: TestDescription_TestImmersedBoundaryCellPopulation_TestMeshMethods::runTest() (TestImmersedBoundaryCellPopulation.cpp:37)
==1789403==    by 0x17092D: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96)
==1789403==    by 0x17482E: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74)
==1789403==    by 0x174713: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61)
==1789403==    by 0x1745B9: CxxTest::TestRunner::runWorld() (TestRunner.h:46)
==1789403==    by 0x174420: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==1789403==    by 0x174AB7: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==1789403==    by 0x16F665: main (TestImmersedBoundaryCellPopulation.cpp:19)
==1789403== 
{
   <insert_a_suppression_name_here>
   Memcheck:Leak
   match-leak-kinds: possible
   fun:_Znwm
   fun:_ZN9__gnu_cxx13new_allocatorIN5boost7numeric5ublas8c_matrixIdLm2ELm2EEEE8allocateEmPKv
   fun:_ZNSt16allocator_traitsISaIN5boost7numeric5ublas8c_matrixIdLm2ELm2EEEEE8allocateERS5_m
   fun:_ZNSt12_Vector_baseIN5boost7numeric5ublas8c_matrixIdLm2ELm2EEESaIS4_EE11_M_allocateEm
   fun:_ZNSt6vectorIN5boost7numeric5ublas8c_matrixIdLm2ELm2EEESaIS4_EE17_M_default_appendEm
   fun:_ZNSt6vectorIN5boost7numeric5ublas8c_matrixIdLm2ELm2EEESaIS4_EE6resizeEm
   fun:_ZN15TetrahedralMeshILj2ELj2EE25RefreshJacobianCachedDataEv
   fun:_ZN15TetrahedralMeshILj2ELj2EE23ConstructFromMeshReaderER18AbstractMeshReaderILj2ELj2EE
   fun:_ZN30ImmersedBoundaryCellPopulationILj2EE32GetTetrahedralMeshForPdeModifierEv
   fun:_ZN34TestImmersedBoundaryCellPopulation15TestMeshMethodsEv
   fun:_ZN66TestDescription_TestImmersedBoundaryCellPopulation_TestMeshMethods7runTestEv
   fun:_ZN7CxxTest19RealTestDescription3runEv
   fun:_ZN7CxxTest10TestRunner7runTestERNS_15TestDescriptionE
   fun:_ZN7CxxTest10TestRunner8runSuiteERNS_16SuiteDescriptionE
   fun:_ZN7CxxTest10TestRunner8runWorldEv
   fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE
   fun:_ZN7CxxTest14ErrorFormatter3runEv
   fun:main
}
==1789403== 24,000 bytes in 1 blocks are possibly lost in loss record 75 of 86
==1789403==    at 0x4849013: operator new(unsigned long) (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so)
==1789403==    by 0xE58ED22: __gnu_cxx::new_allocator<boost::numeric::ublas::c_matrix<double, 2ul, 2ul> >::allocate(unsigned long, void const*) (new_allocator.h:127)
==1789403==    by 0xE58B092: std::allocator_traits<std::allocator<boost::numeric::ublas::c_matrix<double, 2ul, 2ul> > >::allocate(std::allocator<boost::numeric::ublas::c_matrix<double, 2ul, 2ul> >&, unsigned long) (alloc_traits.h:464)
==1789403==    by 0xE586B63: std::_Vector_base<boost::numeric::ublas::c_matrix<double, 2ul, 2ul>, std::allocator<boost::numeric::ublas::c_matrix<double, 2ul, 2ul> > >::_M_allocate(unsigned long) (stl_vector.h:346)
==1789403==    by 0xE580C86: std::vector<boost::numeric::ublas::c_matrix<double, 2ul, 2ul>, std::allocator<boost::numeric::ublas::c_matrix<double, 2ul, 2ul> > >::_M_default_append(unsigned long) (vector.tcc:635)
==1789403==    by 0xE57B21E: std::vector<boost::numeric::ublas::c_matrix<double, 2ul, 2ul>, std::allocator<boost::numeric::ublas::c_matrix<double, 2ul, 2ul> > >::resize(unsigned long) (stl_vector.h:940)
==1789403==    by 0xE62940B: TetrahedralMesh<2u, 2u>::RefreshJacobianCachedData() (TetrahedralMesh.cpp:676)
==1789403==    by 0xE6276E3: TetrahedralMesh<2u, 2u>::ConstructFromMeshReader(AbstractMeshReader<2u, 2u>&) (TetrahedralMesh.cpp:184)
==1789403==    by 0xA867402: ImmersedBoundaryCellPopulation<2u>::GetTetrahedralMeshForPdeModifier() (ImmersedBoundaryCellPopulation.cpp:941)
==1789403==    by 0x17B120: TestImmersedBoundaryCellPopulation::TestMeshMethods() (TestImmersedBoundaryCellPopulation.hpp:214)
==1789403==    by 0x186A9E: TestDescription_TestImmersedBoundaryCellPopulation_TestMeshMethods::runTest() (TestImmersedBoundaryCellPopulation.cpp:37)
==1789403==    by 0x17092D: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96)
==1789403==    by 0x17482E: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74)
==1789403==    by 0x174713: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61)
==1789403==    by 0x1745B9: CxxTest::TestRunner::runWorld() (TestRunner.h:46)
==1789403==    by 0x174420: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==1789403==    by 0x174AB7: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==1789403==    by 0x16F665: main (TestImmersedBoundaryCellPopulation.cpp:19)
==1789403== 
{
   <insert_a_suppression_name_here>
   Memcheck:Leak
   match-leak-kinds: possible
   fun:_Znwm
   fun:_ZN9__gnu_cxx13new_allocatorIN5boost7numeric5ublas8c_matrixIdLm2ELm2EEEE8allocateEmPKv
   fun:_ZNSt16allocator_traitsISaIN5boost7numeric5ublas8c_matrixIdLm2ELm2EEEEE8allocateERS5_m
   fun:_ZNSt12_Vector_baseIN5boost7numeric5ublas8c_matrixIdLm2ELm2EEESaIS4_EE11_M_allocateEm
   fun:_ZNSt6vectorIN5boost7numeric5ublas8c_matrixIdLm2ELm2EEESaIS4_EE17_M_default_appendEm
   fun:_ZNSt6vectorIN5boost7numeric5ublas8c_matrixIdLm2ELm2EEESaIS4_EE6resizeEm
   fun:_ZN15TetrahedralMeshILj2ELj2EE25RefreshJacobianCachedDataEv
   fun:_ZN15TetrahedralMeshILj2ELj2EE23ConstructFromMeshReaderER18AbstractMeshReaderILj2ELj2EE
   fun:_ZN30ImmersedBoundaryCellPopulationILj2EE32GetTetrahedralMeshForPdeModifierEv
   fun:_ZN34TestImmersedBoundaryCellPopulation15TestMeshMethodsEv
   fun:_ZN66TestDescription_TestImmersedBoundaryCellPopulation_TestMeshMethods7runTestEv
   fun:_ZN7CxxTest19RealTestDescription3runEv
   fun:_ZN7CxxTest10TestRunner7runTestERNS_15TestDescriptionE
   fun:_ZN7CxxTest10TestRunner8runSuiteERNS_16SuiteDescriptionE
   fun:_ZN7CxxTest10TestRunner8runWorldEv
   fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE
   fun:_ZN7CxxTest14ErrorFormatter3runEv
   fun:main
}
==1789403== 301,995 (320 direct, 301,675 indirect) bytes in 1 blocks are definitely lost in loss record 85 of 86
==1789403==    at 0x4849013: operator new(unsigned long) (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so)
==1789403==    by 0xA867372: ImmersedBoundaryCellPopulation<2u>::GetTetrahedralMeshForPdeModifier() (ImmersedBoundaryCellPopulation.cpp:936)
==1789403==    by 0x17B120: TestImmersedBoundaryCellPopulation::TestMeshMethods() (TestImmersedBoundaryCellPopulation.hpp:214)
==1789403==    by 0x186A9E: TestDescription_TestImmersedBoundaryCellPopulation_TestMeshMethods::runTest() (TestImmersedBoundaryCellPopulation.cpp:37)
==1789403==    by 0x17092D: CxxTest::RealTestDescription::run() (RealDescriptions.cpp:96)
==1789403==    by 0x17482E: CxxTest::TestRunner::runTest(CxxTest::TestDescription&) (TestRunner.h:74)
==1789403==    by 0x174713: CxxTest::TestRunner::runSuite(CxxTest::SuiteDescription&) (TestRunner.h:61)
==1789403==    by 0x1745B9: CxxTest::TestRunner::runWorld() (TestRunner.h:46)
==1789403==    by 0x174420: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23)
==1789403==    by 0x174AB7: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47)
==1789403==    by 0x16F665: main (TestImmersedBoundaryCellPopulation.cpp:19)
==1789403== 
{
   <insert_a_suppression_name_here>
   Memcheck:Leak
   match-leak-kinds: definite
   fun:_Znwm
   fun:_ZN30ImmersedBoundaryCellPopulationILj2EE32GetTetrahedralMeshForPdeModifierEv
   fun:_ZN34TestImmersedBoundaryCellPopulation15TestMeshMethodsEv
   fun:_ZN66TestDescription_TestImmersedBoundaryCellPopulation_TestMeshMethods7runTestEv
   fun:_ZN7CxxTest19RealTestDescription3runEv
   fun:_ZN7CxxTest10TestRunner7runTestERNS_15TestDescriptionE
   fun:_ZN7CxxTest10TestRunner8runSuiteERNS_16SuiteDescriptionE
   fun:_ZN7CxxTest10TestRunner8runWorldEv
   fun:_ZN7CxxTest10TestRunner11runAllTestsERNS_12TestListenerE
   fun:_ZN7CxxTest14ErrorFormatter3runEv
   fun:main
}
==1789403== LEAK SUMMARY:
==1789403==    definitely lost: 320 bytes in 1 blocks
==1789403==    indirectly lost: 301,675 bytes in 6,095 blocks
==1789403==      possibly lost: 52,000 bytes in 3 blocks
==1789403==    still reachable: 56 bytes in 3 blocks
==1789403==         suppressed: 700,703 bytes in 9,375 blocks
==1789403== Reachable blocks (those to which a pointer was found) are not shown.
==1789403== To see them, rerun with: --leak-check=full --show-leak-kinds=all
==1789403== 
==1789403== For lists of detected and suppressed errors, rerun with: -s
==1789403== ERROR SUMMARY: 4 errors from 4 contexts (suppressed: 37 from 37)
