File: Test2dOffLatticeRepresentativeSimulation Type: cpu Showing nodes accounting for 6790ms, 84.52% of 8034ms total Dropped 600 nodes (cum <= 40.17ms) flat flat% sum% cum cum% 0 0% 0% 7997ms 99.54% __libc_start_call_main 0 0% 0% 7997ms 99.54% __libc_start_main_impl 0 0% 0% 7997ms 99.54% _start 0 0% 0% 7978ms 99.30% CxxTest::ErrorFormatter::run (inline) 0 0% 0% 7978ms 99.30% CxxTest::TestRunner::runAllTests (inline) 0 0% 0% 7978ms 99.30% CxxTest::TestRunner::runWorld (inline) 0 0% 0% 7978ms 99.30% main 0 0% 0% 7936ms 98.78% CxxTest::TestRunner::runSuite (inline) 0 0% 0% 7936ms 98.78% CxxTest::TestRunner::runTest (inline) 0 0% 0% 7936ms 98.78% Test2DMonolayerRepresentativeSimulation::Test2DMonolayerRepresentativeSimulationForProfiling 0 0% 0% 7932ms 98.73% AbstractCellBasedSimulation::Solve 0 0% 0% 3485ms 43.38% AbstractCellBasedSimulation::UpdateCellPopulation 1ms 0.012% 0.012% 3012ms 37.49% MeshBasedCellPopulation::Update 0 0% 0.012% 2928ms 36.45% AbstractCellPopulation::WriteResultsToFiles 3ms 0.037% 0.05% 1511ms 18.81% OffLatticeSimulation::UpdateCellLocationsAndTopology 0 0% 0.05% 1499ms 18.66% MutableMesh::ReMesh 2ms 0.025% 0.075% 1467ms 18.26% MeshBasedCellPopulation::UpdateNodePairs 0 0% 0.075% 1370ms 17.05% ForwardEulerNumericalMethod::UpdateAllNodePositions 7ms 0.087% 0.16% 1325ms 16.49% AbstractNumericalMethod::ComputeForcesIncludingDamping 9ms 0.11% 0.27% 1240ms 15.43% MeshBasedCellPopulation::SpringIterator::operator++ 112ms 1.39% 1.67% 985ms 12.26% TetrahedralMesh::EdgeIterator::operator++ 6ms 0.075% 1.74% 947ms 11.79% AbstractCentreBasedCellPopulation::AcceptCellWritersAcrossPopulation 284ms 3.53% 5.28% 924ms 11.50% __dynamic_cast 417ms 5.19% 10.47% 923ms 11.49% std::_Rb_tree::_M_lower_bound (inline) 2ms 0.025% 10.49% 916ms 11.40% AbstractTwoBodyInteractionForce::AddForceContribution 8ms 0.1% 10.59% 892ms 11.10% CellPopulationElementWriter::Visit 5ms 0.062% 10.65% 891ms 11.09% CellPropertyCollection::GetPropertiesType (inline) 49ms 0.61% 11.26% 822ms 10.23% AbstractVariableSizeTwoBodyInteractionForce::CalculateForceBetweenNodes 6ms 0.075% 11.34% 780ms 9.71% MeshBasedCellPopulation::AcceptCellWriter 40ms 0.5% 11.84% 777ms 9.67% AbstractCellPopulation::GetCellUsingLocationIndex 1ms 0.012% 11.85% 729ms 9.07% AbstractCellProperty::IsSubType (inline) 12ms 0.15% 12.00% 689ms 8.58% TetrahedralMesh::ImportFromMesher 3ms 0.037% 12.04% 622ms 7.74% triangulate 53ms 0.66% 12.70% 578ms 7.19% std::map::operator[] (partial-inline) 1ms 0.012% 12.71% 576ms 7.17% std::ostream::operator<< (inline) 103ms 1.28% 13.99% 574ms 7.14% std::ostream::_M_insert 38ms 0.47% 14.46% 559ms 6.96% operator new 0 0% 14.46% 544ms 6.77% delaunay 3ms 0.037% 14.50% 541ms 6.73% divconqdelaunay 533ms 6.63% 21.14% 533ms 6.63% __strcmp_avx2 4ms 0.05% 21.18% 519ms 6.46% LegacyCellProliferativeTypesWriter::VisitCell 174ms 2.17% 23.35% 517ms 6.44% __GI___libc_malloc 7ms 0.087% 23.44% 512ms 6.37% Cell::GetCellProliferativeType 3ms 0.037% 23.48% 499ms 6.21% std::set::insert (inline) 7ms 0.087% 23.56% 496ms 6.17% std::_Rb_tree::_M_insert_unique 30ms 0.37% 23.94% 495ms 6.16% std::__new_allocator::allocate (inline) 0 0% 23.94% 492ms 6.12% std::allocator_traits::allocate (inline) 27ms 0.34% 24.27% 488ms 6.07% std::_Rb_tree::find (inline) 0 0% 24.27% 485ms 6.04% std::_Rb_tree::lower_bound (inline) 0 0% 24.27% 485ms 6.04% std::map::lower_bound (inline) 5ms 0.062% 24.33% 458ms 5.70% AbstractCellBasedSimulation::DoCellBirth 187ms 2.33% 26.66% 457ms 5.69% __cxxabiv1::__si_class_type_info::__do_dyncast 31ms 0.39% 27.05% 446ms 5.55% std::_Rb_tree::~_Rb_tree (inline) 0 0% 27.05% 435ms 5.41% std::set::count (inline) 84ms 1.05% 28.09% 412ms 5.13% std::_Rb_tree::_M_erase 0 0% 28.09% 411ms 5.12% std::set::~set (inline) 0 0% 28.09% 391ms 4.87% std::_Rb_tree::_M_create_node (inline) 0 0% 28.09% 377ms 4.69% std::_Rb_tree::_Alloc_node::operator() (inline) 4ms 0.05% 28.14% 375ms 4.67% Cell::GetMutationState 23ms 0.29% 28.43% 373ms 4.64% std::_Rb_tree::_Rb_tree (partial-inline) 0 0% 28.43% 368ms 4.58% std::_Rb_tree::_M_get_node (inline) 0 0% 28.43% 359ms 4.47% AbstractCellPopulation::OpenRoundRobinWritersFilesForAppend 0 0% 28.43% 357ms 4.44% AbstractCellBasedWriter::OpenOutputFileForAppend 1ms 0.012% 28.44% 355ms 4.42% OutputFileHandler::OpenOutputFile 1ms 0.012% 28.45% 354ms 4.41% NodeLocationWriter::Visit 102ms 1.27% 29.72% 348ms 4.33% __GI___libc_free 3ms 0.037% 29.76% 342ms 4.26% std::set::set (inline) 7ms 0.087% 29.85% 335ms 4.17% std::less::operator() (inline) 328ms 4.08% 33.93% 328ms 4.08% std::operator< (inline) 44ms 0.55% 34.48% 326ms 4.06% std::_Rb_tree::_M_copy (inline) 12ms 0.15% 34.63% 320ms 3.98% AbstractCellPopulation::IsCellAttachedToLocationIndex 0 0% 34.63% 319ms 3.97% MeshBasedCellPopulation::GetDampingConstant 2ms 0.025% 34.65% 318ms 3.96% AbstractCentreBasedCellPopulation::GetDampingConstant 0 0% 34.65% 314ms 3.91% std::_Rb_tree::_M_drop_node (inline) 308ms 3.83% 38.49% 308ms 3.83% std::_Rb_tree::_S_right (inline) 7ms 0.087% 38.57% 301ms 3.75% std::__new_allocator::deallocate (inline) 0 0% 38.57% 301ms 3.75% std::allocator_traits::deallocate (inline) 5ms 0.062% 38.64% 300ms 3.73% Cell::ReadyToDivide 31ms 0.39% 39.02% 300ms 3.73% std::num_put::_M_insert_float 12ms 0.15% 39.17% 294ms 3.66% divconqrecurse 12ms 0.15% 39.32% 273ms 3.40% std::_Rb_tree::_M_insert_ (inline) 84ms 1.05% 40.37% 271ms 3.37% mergehulls 78ms 0.97% 41.34% 271ms 3.37% std::_Rb_tree::_M_clone_node (inline) 7ms 0.087% 41.42% 260ms 3.24% Element::Element 168ms 2.09% 43.52% 257ms 3.20% _int_malloc 0 0% 43.52% 254ms 3.16% std::_Rb_tree::_M_put_node (inline) 8ms 0.1% 43.61% 250ms 3.11% std::__cxx11::collate::do_transform 201ms 2.50% 46.12% 246ms 3.06% _int_free 2ms 0.025% 46.14% 243ms 3.02% AbstractCellProperty::IsType (inline) 8ms 0.1% 46.24% 243ms 3.02% MeshBasedCellPopulation::SpringsEnd (inline) 0 0% 46.24% 233ms 2.90% Cell::HasCellProperty (inline) 4ms 0.05% 46.29% 233ms 2.90% CellPropertyCollection::HasProperty 1ms 0.012% 46.30% 233ms 2.90% ___vsnprintf 0 0% 46.30% 232ms 2.89% __vsnprintf_internal (inline) 32ms 0.4% 46.70% 226ms 2.81% __printf_buffer 4ms 0.05% 46.75% 219ms 2.73% AbstractPhaseBasedCellCycleModel::ReadyToDivide 2ms 0.025% 46.78% 219ms 2.73% CellProliferativeTypesWriter::VisitCell 88ms 1.10% 47.87% 216ms 2.69% std::_Rb_tree::_M_get_insert_unique_pos (inline) 7ms 0.087% 47.96% 213ms 2.65% AbstractSimplePhaseBasedCellCycleModel::UpdateCellCyclePhase 16ms 0.2% 48.16% 202ms 2.51% TetrahedralMesh::Clear 47ms 0.59% 48.74% 195ms 2.43% MeshBasedCellPopulation::SpringIterator::SpringIterator 60ms 0.75% 49.49% 188ms 2.34% AbstractCellProperty::IsSame 9ms 0.11% 49.60% 180ms 2.24% __printf_fp_l_buffer 0 0% 49.60% 180ms 2.24% __printf_fp_spec (inline) 0 0% 49.60% 171ms 2.13% std::basic_ofstream::basic_ofstream (inline) 1ms 0.012% 49.61% 168ms 2.09% TetrahedralMesh::RefreshJacobianCachedData 85ms 1.06% 50.67% 166ms 2.07% __printf_fp_buffer_1 4ms 0.05% 50.72% 165ms 2.05% Element::RegisterWithNodes (inline) 3ms 0.037% 50.76% 163ms 2.03% std::basic_ofstream::open (inline) 7ms 0.087% 50.85% 160ms 1.99% AbstractTetrahedralElement::CalculateInverseJacobian 1ms 0.012% 50.86% 160ms 1.99% Node::AddElement 2ms 0.025% 50.88% 160ms 1.99% std::basic_filebuf::open 11ms 0.14% 51.02% 156ms 1.94% AbstractTetrahedralElement::CalculateJacobian 154ms 1.92% 52.94% 154ms 1.92% TetrahedralMesh::EdgeIterator::operator!= (partial-inline) 70ms 0.87% 53.81% 154ms 1.92% std::__ostream_insert 5ms 0.062% 53.87% 153ms 1.90% alternateaxes 0 0% 53.87% 149ms 1.85% FilesystemPermissions::SetFilePermissions (inline) 1ms 0.012% 53.88% 148ms 1.84% AbstractCellPopulation::CloseRoundRobinWritersFiles 1ms 0.012% 53.90% 148ms 1.84% std::filesystem::permissions 138ms 1.72% 55.61% 148ms 1.84% vertexmedian 1ms 0.012% 55.63% 147ms 1.83% AbstractCellBasedWriter::CloseFile 147ms 1.83% 57.46% 147ms 1.83% __GI_fchmodat 0 0% 57.46% 146ms 1.82% std::basic_filebuf::close 0 0% 57.46% 146ms 1.82% std::basic_ofstream::close (inline) 0 0% 57.46% 140ms 1.74% OutputFileHandler::CommonConstructor 0 0% 57.46% 140ms 1.74% OutputFileHandler::OutputFileHandler 15ms 0.19% 57.64% 139ms 1.73% TetrahedralMesh::EdgesEnd (partial-inline) 0 0% 57.64% 133ms 1.66% OutputFileHandler::MakeFoldersAndReturnFullPath 1ms 0.012% 57.65% 132ms 1.64% std::__basic_file::open 0 0% 57.65% 131ms 1.63% _IO_new_fopen 1ms 0.012% 57.67% 131ms 1.63% __fopen_internal (inline) 18ms 0.22% 57.89% 130ms 1.62% AbstractCellPopulation::Iterator::IsRealCell (inline) 1ms 0.012% 57.90% 130ms 1.62% AbstractCellPopulation::Iterator::operator++ (inline) 2ms 0.025% 57.93% 130ms 1.62% std::operator<< (inline) 30ms 0.37% 58.30% 128ms 1.59% std::type_info::operator== (inline) 1ms 0.012% 58.31% 125ms 1.56% std::_Vector_base::_M_allocate (inline) 0 0% 58.31% 123ms 1.53% _IO_new_file_fopen 122ms 1.52% 59.83% 122ms 1.52% incircle 2ms 0.025% 59.86% 119ms 1.48% Node::~Node 94ms 1.17% 61.03% 118ms 1.47% TetrahedralMesh::EdgeIterator::EdgeIterator (partial-inline) 2ms 0.025% 61.05% 117ms 1.46% __GI__IO_file_open 7ms 0.087% 61.14% 115ms 1.43% boost::detail::shared_count::~shared_count (inline) 0 0% 61.14% 115ms 1.43% boost::shared_ptr::~shared_ptr (inline) 3ms 0.037% 61.18% 111ms 1.38% std::vector::push_back (inline) 14ms 0.17% 61.35% 108ms 1.34% AbstractTetrahedralElement::RefreshJacobian 1ms 0.012% 61.36% 107ms 1.33% std::basic_filebuf::_M_terminate_output 1ms 0.012% 61.38% 106ms 1.32% std::basic_filebuf::overflow 104ms 1.29% 62.67% 105ms 1.31% __GI___libc_write 0 0% 62.67% 105ms 1.31% std::__basic_file::xsputn 0 0% 62.67% 105ms 1.31% std::basic_filebuf::_M_convert_to_external 34ms 0.42% 63.09% 103ms 1.28% std::num_put::_M_insert_int 13ms 0.16% 63.26% 103ms 1.28% std::vector::_M_realloc_insert 100ms 1.24% 64.50% 100ms 1.24% std::_Rb_tree_increment 6ms 0.075% 64.58% 99ms 1.23% std::_Rb_tree_const_iterator::operator++ (inline) 4ms 0.05% 64.63% 97ms 1.21% AbstractCentreBasedCellPopulation::GetNodeCorrespondingToCell (partial-inline) 4ms 0.05% 64.68% 97ms 1.21% AbstractTetrahedralElement::AbstractTetrahedralElement 95ms 1.18% 65.86% 96ms 1.19% __libc_open64 3ms 0.037% 65.89% 94ms 1.17% AbstractCentreBasedCellPopulation::IsCellAssociatedWithADeletedLocation 94ms 1.17% 67.06% 94ms 1.17% [libchaste_cell_based.so] 90ms 1.12% 68.19% 94ms 1.17% boost::detail::sp_counted_base::release 45ms 0.56% 68.75% 94ms 1.17% boost::shared_ptr::shared_ptr (inline) 8ms 0.1% 68.84% 92ms 1.15% boost::numeric::ublas::c_vector::c_vector (inline) 1ms 0.012% 68.86% 90ms 1.12% boost::numeric::ublas::vector_assign (inline) 90ms 1.12% 69.98% 90ms 1.12% std::_Rb_tree_insert_and_rebalance 16ms 0.2% 70.18% 87ms 1.08% TetrahedralMesh::EdgeIterator::GetNodeB 1ms 0.012% 70.19% 86ms 1.07% AbstractCellPopulation::GetLocationIndexUsingCell 78ms 0.97% 71.16% 84ms 1.05% vertexsort 0 0% 71.16% 82ms 1.02% Cell::GetCellId 35ms 0.44% 71.60% 77ms 0.96% AbstractElement::GetNodeLocation 0 0% 71.60% 77ms 0.96% tcache_get (inline) 77ms 0.96% 72.55% 77ms 0.96% tcache_get_n (inline) 61ms 0.76% 73.31% 76ms 0.95% std::num_put::do_put 6ms 0.075% 73.39% 75ms 0.93% TetrahedralMesh::EdgeIterator::GetNodeA 53ms 0.66% 74.05% 74ms 0.92% malloc_consolidate 51ms 0.63% 74.68% 73ms 0.91% AbstractElement::GetNodeGlobalIndex 48ms 0.6% 75.28% 71ms 0.88% boost::numeric::ublas::c_matrix::operator() (partial-inline) 0 0% 75.28% 69ms 0.86% FilesystemPermissions::CreateDirectoryWithPermissions (inline) 0 0% 75.28% 69ms 0.86% std::filesystem::create_directory 37ms 0.46% 75.74% 64ms 0.8% std::basic_filebuf::xsputn 64ms 0.8% 76.54% 64ms 0.8% std::vector::size (inline) 62ms 0.77% 77.31% 62ms 0.77% [libchaste_mesh.so] 62ms 0.77% 78.08% 62ms 0.77% __GI___fstatat64 62ms 0.77% 78.85% 62ms 0.77% __memcpy_avx_unaligned_erms 62ms 0.77% 79.62% 62ms 0.77% counterclockwise 1ms 0.012% 79.64% 61ms 0.76% std::filesystem::status 0 0% 79.64% 60ms 0.75% std::_Rb_tree::_M_destroy_node (inline) 0 0% 79.64% 60ms 0.75% std::__new_allocator::destroy (inline) 0 0% 79.64% 60ms 0.75% std::allocator_traits::destroy (inline) 26ms 0.32% 79.96% 59ms 0.73% boost::numeric::ublas::indexing_vector_assign 5ms 0.062% 80.02% 57ms 0.71% Node::ConstructNodeAttributes (inline) 1ms 0.012% 80.03% 56ms 0.7% Node::ClearAppliedForce 56ms 0.7% 80.73% 56ms 0.7% Node::GetIndex 0 0% 80.73% 56ms 0.7% TetrahedralMesh::EdgeIterator::~EdgeIterator (inline) 39ms 0.49% 81.22% 56ms 0.7% std::basic_streambuf::xsputn 0 0% 81.22% 56ms 0.7% std::vector::vector (inline) 0 0% 81.22% 54ms 0.67% BoundaryNodeWriter::Visit 12ms 0.15% 81.37% 53ms 0.66% Determinant (inline) 0 0% 81.37% 52ms 0.65% AbstractCentreBasedCellPopulation::CreateCellPair 23ms 0.29% 81.65% 51ms 0.63% AbstractTetrahedralMesh::GetElement 0 0% 81.65% 51ms 0.63% std::_Vector_base::_Vector_base (inline) 0 0% 81.65% 50ms 0.62% MeshBasedCellPopulation::SpringIterator::~SpringIterator (inline) 11ms 0.14% 81.79% 49ms 0.61% Inverse 49ms 0.61% 82.40% 49ms 0.61% [libstdc++.so.6.0.33] 46ms 0.57% 82.97% 49ms 0.61% boost::detail::shared_count::shared_count (inline) 1ms 0.012% 82.98% 49ms 0.61% std::_Vector_base::_M_create_storage (inline) 2ms 0.025% 83.01% 48ms 0.6% CellPropertyCollection::AddProperty 1ms 0.012% 83.02% 48ms 0.6% MeshBasedCellPopulation::SpringIterator::GetNodeA (inline) 3ms 0.037% 83.06% 48ms 0.6% std::_Vector_base::_M_deallocate (inline) 47ms 0.59% 83.64% 47ms 0.59% boost::shared_ptr::operator-> (inline) 31ms 0.39% 84.03% 47ms 0.59% hack_digit 0 0% 84.03% 46ms 0.57% boost::numeric::ublas::vector_scalar_unary::evaluate (inline) 0 0% 84.03% 46ms 0.57% boost::numeric::ublas::vector_scalar_unary::operator double (inline) 0 0% 84.03% 46ms 0.57% std::map::find (inline) 0 0% 84.03% 44ms 0.55% CellPropertyCollection::~CellPropertyCollection (inline) 39ms 0.49% 84.52% 44ms 0.55% writeedges