File: Test2dOffLatticeRepresentativeSimulation Type: cpu Showing nodes accounting for 6450ms, 84.59% of 7625ms total Dropped 551 nodes (cum <= 38.12ms) flat flat% sum% cum cum% 0 0% 0% 7588ms 99.51% __libc_start_call_main 0 0% 0% 7588ms 99.51% __libc_start_main_impl 0 0% 0% 7588ms 99.51% _start 0 0% 0% 7570ms 99.28% CxxTest::ErrorFormatter::run (inline) 0 0% 0% 7570ms 99.28% CxxTest::TestRunner::runAllTests (inline) 0 0% 0% 7570ms 99.28% CxxTest::TestRunner::runWorld (inline) 0 0% 0% 7570ms 99.28% main 0 0% 0% 7536ms 98.83% CxxTest::TestRunner::runSuite (inline) 0 0% 0% 7536ms 98.83% CxxTest::TestRunner::runTest (inline) 0 0% 0% 7536ms 98.83% Test2DMonolayerRepresentativeSimulation::Test2DMonolayerRepresentativeSimulationForProfiling 0 0% 0% 7534ms 98.81% AbstractCellBasedSimulation::Solve 0 0% 0% 3593ms 47.12% AbstractCellBasedSimulation::UpdateCellPopulation 2ms 0.026% 0.026% 3148ms 41.29% MeshBasedCellPopulation::Update 0 0% 0.026% 2415ms 31.67% AbstractCellPopulation::WriteResultsToFiles 0 0% 0.026% 1607ms 21.08% MeshBasedCellPopulation::UpdateNodePairs 0 0% 0.026% 1521ms 19.95% OffLatticeSimulation::UpdateCellLocationsAndTopology 1ms 0.013% 0.039% 1478ms 19.38% MutableMesh::ReMesh 38ms 0.5% 0.54% 1400ms 18.36% MeshBasedCellPopulation::SpringIterator::operator++ 2ms 0.026% 0.56% 1366ms 17.91% ForwardEulerNumericalMethod::UpdateAllNodePositions 6ms 0.079% 0.64% 1289ms 16.90% AbstractNumericalMethod::ComputeForcesIncludingDamping 114ms 1.50% 2.14% 1121ms 14.70% TetrahedralMesh::EdgeIterator::operator++ 4ms 0.052% 2.19% 951ms 12.47% AbstractTwoBodyInteractionForce::AddForceContribution 16ms 0.21% 2.40% 906ms 11.88% AbstractCentreBasedCellPopulation::AcceptCellWritersAcrossPopulation 452ms 5.93% 8.33% 901ms 11.82% std::_Rb_tree::_M_lower_bound (inline) 34ms 0.45% 8.77% 870ms 11.41% GeneralisedLinearSpringForce::CalculateForceBetweenNodes (partial-inline) 15ms 0.2% 8.97% 824ms 10.81% CellPopulationElementWriter::Visit 247ms 3.24% 12.21% 804ms 10.54% __dynamic_cast 1ms 0.013% 12.22% 751ms 9.85% CellPropertyCollection::GetPropertiesType (inline) 4ms 0.052% 12.28% 750ms 9.84% TetrahedralMesh::ImportFromMesher 14ms 0.18% 12.46% 739ms 9.69% AbstractCellPopulation::GetCellUsingLocationIndex 13ms 0.17% 12.63% 732ms 9.60% MeshBasedCellPopulation::AcceptCellWriter 43ms 0.56% 13.19% 723ms 9.48% operator new 236ms 3.10% 16.29% 666ms 8.73% __GI___libc_malloc 10ms 0.13% 16.42% 658ms 8.63% std::set::insert (inline) 13ms 0.17% 16.59% 648ms 8.50% std::_Rb_tree::_M_insert_unique 19ms 0.25% 16.84% 641ms 8.41% std::__new_allocator::allocate (inline) 0 0% 16.84% 639ms 8.38% std::allocator_traits::allocate (inline) 8ms 0.1% 16.94% 601ms 7.88% AbstractCellProperty::IsSubType (inline) 21ms 0.28% 17.22% 570ms 7.48% std::_Rb_tree::find (inline) 1ms 0.013% 17.23% 561ms 7.36% triangulate 0 0% 17.23% 532ms 6.98% std::set::count (inline) 3ms 0.039% 17.27% 531ms 6.96% std::ostream::operator<< (inline) 87ms 1.14% 18.41% 526ms 6.90% std::_Rb_tree::~_Rb_tree (inline) 82ms 1.08% 19.49% 526ms 6.90% std::ostream::_M_insert 0 0% 19.49% 511ms 6.70% std::_Rb_tree::_M_create_node (inline) 0 0% 19.49% 500ms 6.56% std::_Rb_tree::_M_get_node (inline) 1ms 0.013% 19.50% 498ms 6.53% LegacyCellProliferativeTypesWriter::VisitCell 0 0% 19.50% 497ms 6.52% std::set::~set (inline) 57ms 0.75% 20.25% 495ms 6.49% std::map::operator[] (partial-inline) 0 0% 20.25% 491ms 6.44% delaunay 4ms 0.052% 20.30% 491ms 6.44% divconqdelaunay 0 0% 20.30% 486ms 6.37% std::_Rb_tree::_Alloc_node::operator() (inline) 2ms 0.026% 20.33% 468ms 6.14% Cell::GetCellProliferativeType 70ms 0.92% 21.25% 439ms 5.76% std::_Rb_tree::_M_erase 1ms 0.013% 21.26% 429ms 5.63% AbstractCellBasedSimulation::DoCellBirth 34ms 0.45% 21.70% 419ms 5.50% std::_Rb_tree::_M_insert_ (inline) 411ms 5.39% 27.10% 411ms 5.39% __strcmp_evex 10ms 0.13% 27.23% 399ms 5.23% std::_Rb_tree::_Rb_tree (partial-inline) 174ms 2.28% 29.51% 396ms 5.19% __cxxabiv1::__si_class_type_info::__do_dyncast 0 0% 29.51% 384ms 5.04% std::_Rb_tree::lower_bound (inline) 0 0% 29.51% 384ms 5.04% std::map::lower_bound (inline) 2ms 0.026% 29.53% 374ms 4.90% std::set::set (inline) 0 0% 29.53% 364ms 4.77% std::_Rb_tree::_M_drop_node (inline) 33ms 0.43% 29.97% 360ms 4.72% std::_Rb_tree::_M_copy (inline) 3ms 0.039% 30.01% 346ms 4.54% Element::Element 2ms 0.026% 30.03% 345ms 4.52% Cell::GetMutationState 7ms 0.092% 30.12% 340ms 4.46% boost::detail::shared_count::~shared_count (inline) 0 0% 30.12% 340ms 4.46% boost::shared_ptr::~shared_ptr (inline) 242ms 3.17% 33.30% 338ms 4.43% _int_malloc 0 0% 33.30% 337ms 4.42% NodeLocationWriter::Visit 65ms 0.85% 34.15% 326ms 4.28% __GI___libc_free 321ms 4.21% 38.36% 322ms 4.22% boost::detail::sp_counted_base::release 5ms 0.066% 38.43% 315ms 4.13% AbstractCellPopulation::IsCellAttachedToLocationIndex 132ms 1.73% 40.16% 315ms 4.13% std::_Rb_tree::_M_clone_node (inline) 24ms 0.31% 40.47% 295ms 3.87% std::num_put::_M_insert_float 13ms 0.17% 40.64% 283ms 3.71% divconqrecurse 10ms 0.13% 40.77% 283ms 3.71% std::__new_allocator::deallocate (inline) 0 0% 40.77% 281ms 3.69% std::allocator_traits::deallocate (inline) 10ms 0.13% 40.90% 280ms 3.67% std::less::operator() (inline) 1ms 0.013% 40.92% 274ms 3.59% MeshBasedCellPopulation::GetDampingConstant 2ms 0.026% 40.94% 273ms 3.58% AbstractCentreBasedCellPopulation::GetDampingConstant 270ms 3.54% 44.49% 270ms 3.54% std::operator< (inline) 5ms 0.066% 44.55% 265ms 3.48% Element::RegisterWithNodes (inline) 77ms 1.01% 45.56% 261ms 3.42% mergehulls 259ms 3.40% 48.96% 259ms 3.40% std::_Rb_tree::_S_right (inline) 15ms 0.2% 49.15% 258ms 3.38% Node::AddElement 210ms 2.75% 51.91% 253ms 3.32% _int_free 4ms 0.052% 51.96% 247ms 3.24% Cell::ReadyToDivide 7ms 0.092% 52.05% 245ms 3.21% std::__cxx11::collate::do_transform 237ms 3.11% 55.16% 237ms 3.11% [libchaste_cell_based.so] 2ms 0.026% 55.19% 229ms 3.00% ___vsnprintf 1ms 0.013% 55.20% 227ms 2.98% __vsnprintf_internal (inline) 0 0% 55.20% 227ms 2.98% std::_Rb_tree::_M_put_node (inline) 23ms 0.3% 55.50% 220ms 2.89% __printf_buffer 88ms 1.15% 56.66% 216ms 2.83% std::_Rb_tree::_M_get_insert_unique_pos (inline) 3ms 0.039% 56.70% 197ms 2.58% CellPropertyCollection::HasProperty 8ms 0.1% 56.80% 197ms 2.58% MeshBasedCellPopulation::SpringsEnd (inline) 0 0% 56.80% 196ms 2.57% Cell::HasCellProperty (inline) 13ms 0.17% 56.97% 192ms 2.52% AbstractCellProperty::IsType (inline) 5ms 0.066% 57.04% 189ms 2.48% AbstractPhaseBasedCellCycleModel::ReadyToDivide 1ms 0.013% 57.05% 182ms 2.39% CellProliferativeTypesWriter::VisitCell 4ms 0.052% 57.10% 180ms 2.36% AbstractSimplePhaseBasedCellCycleModel::UpdateCellCyclePhase 6ms 0.079% 57.18% 176ms 2.31% __printf_fp_l_buffer 0 0% 57.18% 176ms 2.31% __printf_fp_spec (inline) 0 0% 57.18% 163ms 2.14% TetrahedralMesh::Clear 0 0% 57.18% 162ms 2.12% AbstractCellPopulation::OpenRoundRobinWritersFilesForAppend 1ms 0.013% 57.19% 161ms 2.11% AbstractCellBasedWriter::OpenOutputFileForAppend 0 0% 57.19% 156ms 2.05% OutputFileHandler::OpenOutputFile 81ms 1.06% 58.26% 156ms 2.05% __printf_fp_buffer_1 17ms 0.22% 58.48% 155ms 2.03% TetrahedralMesh::EdgesEnd (partial-inline) 8ms 0.1% 58.58% 151ms 1.98% AbstractTetrahedralElement::CalculateJacobian 0 0% 58.58% 150ms 1.97% TetrahedralMesh::RefreshJacobianCachedData 3ms 0.039% 58.62% 142ms 1.86% AbstractTetrahedralElement::CalculateInverseJacobian 0 0% 58.62% 140ms 1.84% AbstractCellPopulation::Iterator::operator++ (inline) 0 0% 58.62% 139ms 1.82% std::_Vector_base::_M_allocate (inline) 11ms 0.14% 58.77% 138ms 1.81% AbstractCellPopulation::Iterator::IsRealCell (inline) 0 0% 58.77% 137ms 1.80% std::_Rb_tree::_M_destroy_node (inline) 0 0% 58.77% 137ms 1.80% std::__new_allocator::destroy (inline) 0 0% 58.77% 137ms 1.80% std::allocator_traits::destroy (inline) 29ms 0.38% 59.15% 130ms 1.70% MeshBasedCellPopulation::SpringIterator::SpringIterator 22ms 0.29% 59.44% 125ms 1.64% AbstractCellProperty::IsSame 5ms 0.066% 59.50% 125ms 1.64% boost::numeric::ublas::c_vector::c_vector (inline) 123ms 1.61% 61.11% 123ms 1.61% [libchaste_mesh.so] 3ms 0.039% 61.15% 121ms 1.59% alternateaxes 120ms 1.57% 62.73% 120ms 1.57% [libstdc++.so.6.0.33] 5ms 0.066% 62.79% 119ms 1.56% boost::numeric::ublas::vector_assign (inline) 3ms 0.039% 62.83% 119ms 1.56% std::vector::push_back (inline) 108ms 1.42% 64.25% 118ms 1.55% vertexmedian 84ms 1.10% 65.35% 117ms 1.53% TetrahedralMesh::EdgeIterator::EdgeIterator (partial-inline) 7ms 0.092% 65.44% 113ms 1.48% std::vector::_M_realloc_insert 37ms 0.49% 65.93% 111ms 1.46% std::num_put::_M_insert_int 109ms 1.43% 67.36% 109ms 1.43% incircle 18ms 0.24% 67.59% 107ms 1.40% AbstractCentreBasedCellPopulation::GetNodeCorrespondingToCell (partial-inline) 0 0% 67.59% 107ms 1.40% AbstractCentreBasedCellPopulation::IsCellAssociatedWithADeletedLocation 13ms 0.17% 67.76% 103ms 1.35% std::type_info::operator== (inline) 13ms 0.17% 67.93% 102ms 1.34% AbstractTetrahedralElement::RefreshJacobian 32ms 0.42% 68.35% 101ms 1.32% std::__ostream_insert 95ms 1.25% 69.60% 95ms 1.25% std::_Rb_tree_insert_and_rebalance 24ms 0.31% 69.91% 94ms 1.23% boost::numeric::ublas::indexing_vector_assign 8ms 0.1% 70.02% 90ms 1.18% CellPropertyCollection::AddProperty 1ms 0.013% 70.03% 90ms 1.18% Node::~Node 0 0% 70.03% 87ms 1.14% std::operator<< (inline) 3ms 0.039% 70.07% 86ms 1.13% AbstractTetrahedralElement::AbstractTetrahedralElement 85ms 1.11% 71.19% 85ms 1.11% TetrahedralMesh::EdgeIterator::operator!= (partial-inline) 33ms 0.43% 71.62% 84ms 1.10% AbstractElement::GetNodeLocation 10ms 0.13% 71.75% 83ms 1.09% TetrahedralMesh::EdgeIterator::GetNodeA 0 0% 71.75% 82ms 1.08% tcache_get (inline) 82ms 1.08% 72.83% 82ms 1.08% tcache_get_n (inline) 0 0% 72.83% 78ms 1.02% std::basic_ofstream::basic_ofstream (inline) 12ms 0.16% 72.98% 77ms 1.01% TetrahedralMesh::EdgeIterator::GetNodeB 76ms 1% 73.98% 76ms 1% counterclockwise 70ms 0.92% 74.90% 76ms 1% vertexsort 1ms 0.013% 74.91% 75ms 0.98% std::_Rb_tree_const_iterator::operator++ (inline) 3ms 0.039% 74.95% 74ms 0.97% AbstractCellPopulation::GetLocationIndexUsingCell 1ms 0.013% 74.96% 73ms 0.96% std::basic_filebuf::open 0 0% 74.96% 73ms 0.96% std::basic_ofstream::open (inline) 55ms 0.72% 75.69% 72ms 0.94% malloc_consolidate 53ms 0.7% 76.38% 71ms 0.93% CellPropertyCollection::GetProperty 0 0% 76.38% 69ms 0.9% Cell::GetCellId 65ms 0.85% 77.23% 65ms 0.85% std::vector::size (inline) 62ms 0.81% 78.05% 62ms 0.81% __memcpy_evex_unaligned_erms 42ms 0.55% 78.60% 62ms 0.81% std::basic_streambuf::xsputn 61ms 0.8% 79.40% 61ms 0.8% std::_Rb_tree_increment 0 0% 79.40% 59ms 0.77% OutputFileHandler::CommonConstructor 0 0% 79.40% 59ms 0.77% OutputFileHandler::OutputFileHandler 1ms 0.013% 79.41% 58ms 0.76% AbstractCellPopulation::CloseRoundRobinWritersFiles 0 0% 79.41% 57ms 0.75% AbstractCellBasedWriter::CloseFile 0 0% 79.41% 57ms 0.75% OutputFileHandler::MakeFoldersAndReturnFullPath 2ms 0.026% 79.44% 57ms 0.75% std::basic_filebuf::close 0 0% 79.44% 57ms 0.75% std::basic_ofstream::close (inline) 17ms 0.22% 79.66% 56ms 0.73% Determinant (inline) 0 0% 79.66% 56ms 0.73% std::vector::vector (inline) 0 0% 79.66% 55ms 0.72% FilesystemPermissions::SetFilePermissions (inline) 55ms 0.72% 80.38% 55ms 0.72% __GI_fchmodat 55ms 0.72% 81.10% 55ms 0.72% std::_Rb_tree::_S_left (inline) 29ms 0.38% 81.48% 55ms 0.72% std::basic_filebuf::xsputn 0 0% 81.48% 55ms 0.72% std::filesystem::permissions 0 0% 81.48% 54ms 0.71% MeshBasedCellPopulation::SpringIterator::GetNodeA (inline) 2ms 0.026% 81.51% 54ms 0.71% std::_Rb_tree::_M_emplace_hint_unique 31ms 0.41% 81.91% 53ms 0.7% AbstractTetrahedralMesh::GetElement 0 0% 81.91% 53ms 0.7% CellPropertyCollection::~CellPropertyCollection (inline) 0 0% 81.91% 53ms 0.7% boost::numeric::ublas::vector_scalar_unary::evaluate (inline) 0 0% 81.91% 53ms 0.7% boost::numeric::ublas::vector_scalar_unary::operator double (inline) 28ms 0.37% 82.28% 53ms 0.7% boost::shared_ptr::shared_ptr (inline) 0 0% 82.28% 52ms 0.68% std::_Vector_base::_M_create_storage (inline) 0 0% 82.28% 52ms 0.68% std::_Vector_base::_Vector_base (inline) 32ms 0.42% 82.70% 51ms 0.67% hack_digit 0 0% 82.70% 50ms 0.66% Node::ClearAppliedForce 0 0% 82.70% 50ms 0.66% Node::ConstructNodeAttributes (inline) 22ms 0.29% 82.99% 49ms 0.64% AbstractElement::GetNodeGlobalIndex 0 0% 82.99% 49ms 0.64% std::_Vector_base::_M_deallocate (inline) 0 0% 82.99% 46ms 0.6% BoundaryNodeWriter::Visit 38ms 0.5% 83.49% 46ms 0.6% boost::numeric::ublas::c_matrix::operator() 31ms 0.41% 83.90% 45ms 0.59% std::num_put::do_put 0 0% 83.90% 44ms 0.58% _IO_new_fopen 0 0% 83.90% 44ms 0.58% __fopen_internal (inline) 0 0% 83.90% 44ms 0.58% std::__basic_file::open 1ms 0.013% 83.91% 43ms 0.56% MeshBasedCellPopulation::SpringIterator::GetNodeB (inline) 43ms 0.56% 84.47% 43ms 0.56% Node::GetIndex 0 0% 84.47% 43ms 0.56% TetrahedralMesh::EdgeIterator::~EdgeIterator (inline) 0 0% 84.47% 41ms 0.54% boost::numeric::ublas::norm_2 (inline) 9ms 0.12% 84.59% 41ms 0.54% boost::numeric::ublas::vector_norm_2::apply (inline) 0 0% 84.59% 40ms 0.52% _IO_new_file_fopen 0 0% 84.59% 39ms 0.51% __GI__IO_file_open