File: Test2DMeshBasedCryptRepresentativeSimulation Type: cpu Showing nodes accounting for 17201ms, 86.12% of 19973ms total Dropped 777 nodes (cum <= 99.86ms) flat flat% sum% cum cum% 0 0% 0% 19930ms 99.78% __libc_start_call_main 0 0% 0% 19930ms 99.78% __libc_start_main_impl 0 0% 0% 19930ms 99.78% _start 0 0% 0% 19911ms 99.69% CxxTest::ErrorFormatter::run (inline) 0 0% 0% 19911ms 99.69% CxxTest::TestRunner::runAllTests (inline) 0 0% 0% 19911ms 99.69% CxxTest::TestRunner::runWorld (inline) 0 0% 0% 19911ms 99.69% main 0 0% 0% 19871ms 99.49% CxxTest::TestRunner::runSuite (inline) 0 0% 0% 19871ms 99.49% CxxTest::TestRunner::runTest (inline) 0 0% 0% 19871ms 99.49% Test2DCryptRepresentativeSimulation::TestRepresentativeSimulationForProfiling 0 0% 0% 19845ms 99.36% AbstractCellBasedSimulation::Solve 0 0% 0% 15394ms 77.07% AbstractCellBasedSimulation::UpdateCellPopulation 0 0% 0% 10149ms 50.81% AbstractCellBasedSimulation::DoCellBirth 5ms 0.025% 0.025% 10041ms 50.27% Cell::ReadyToDivide 4ms 0.02% 0.045% 9981ms 49.97% AbstractPhaseBasedCellCycleModel::ReadyToDivide 0 0% 0.045% 9849ms 49.31% AbstractWntOdeBasedCellCycleModel::UpdateCellCyclePhase 9ms 0.045% 0.09% 9842ms 49.28% AbstractOdeBasedPhaseBasedCellCycleModel::UpdateCellCyclePhase 3ms 0.015% 0.11% 9829ms 49.21% CellCycleModelOdeHandler::SolveOdeToTime 83ms 0.42% 0.52% 9656ms 48.35% AbstractOneStepIvpOdeSolver::InternalSolve 872ms 4.37% 4.89% 8851ms 44.31% RungeKutta4IvpOdeSolver::CalculateNextYValue 3697ms 18.51% 23.40% 7780ms 38.95% WntCellCycleOdeSystem::EvaluateYDerivatives 0 0% 23.40% 5136ms 25.71% MeshBasedCellPopulation::Update 191ms 0.96% 24.35% 4088ms 20.47% AbstractCellProperty::IsType (inline) 4ms 0.02% 24.37% 3955ms 19.80% Cylindrical2dMesh::ReMesh 554ms 2.77% 27.15% 2852ms 14.28% AbstractCellProperty::IsSame 0 0% 27.15% 2465ms 12.34% OffLatticeSimulation::UpdateCellLocationsAndTopology 402ms 2.01% 29.16% 2298ms 11.51% std::type_info::operator== (inline) 1ms 0.005% 29.16% 2161ms 10.82% ForwardEulerNumericalMethod::UpdateAllNodePositions 0 0% 29.16% 2144ms 10.73% MutableMesh::ReMesh 6ms 0.03% 29.19% 2107ms 10.55% AbstractNumericalMethod::ComputeForcesIncludingDamping 0 0% 29.19% 1980ms 9.91% AbstractCellPopulation::WriteResultsToFiles 1869ms 9.36% 38.55% 1869ms 9.36% __strcmp_avx2 758ms 3.80% 42.35% 1810ms 9.06% std::_Rb_tree::_M_lower_bound (inline) 169ms 0.85% 43.19% 1683ms 8.43% TetrahedralMesh::EdgeIterator::operator++ 64ms 0.32% 43.51% 1391ms 6.96% std::_Rb_tree::find (inline) 0 0% 43.51% 1132ms 5.67% MeshBasedCellPopulation::UpdateNodePairs 9ms 0.045% 43.56% 1128ms 5.65% MeshBasedCellPopulationWithGhostNodes::ApplyGhostForces 11ms 0.055% 43.61% 1095ms 5.48% TetrahedralMesh::ImportFromMesher 61ms 0.31% 43.92% 1092ms 5.47% operator new 255ms 1.28% 45.20% 1026ms 5.14% __GI___libc_malloc 15ms 0.075% 45.27% 1016ms 5.09% MeshBasedCellPopulation::SpringIterator::operator++ 2ms 0.01% 45.28% 1007ms 5.04% std::set::insert (inline) 14ms 0.07% 45.35% 1005ms 5.03% std::_Rb_tree::_M_insert_unique 33ms 0.17% 45.52% 951ms 4.76% std::__new_allocator::allocate (inline) 0 0% 45.52% 944ms 4.73% std::allocator_traits::allocate (inline) 0 0% 45.52% 842ms 4.22% std::set::count (inline) 0 0% 45.52% 806ms 4.04% triangulate 6ms 0.03% 45.55% 745ms 3.73% MeshBasedCellPopulationWithGhostNodes::AcceptCellWritersAcrossPopulation 2ms 0.01% 45.56% 732ms 3.66% delaunay 2ms 0.01% 45.57% 730ms 3.65% divconqdelaunay 1ms 0.005% 45.57% 691ms 3.46% AbstractTwoBodyInteractionForce::AddForceContribution 395ms 1.98% 47.55% 690ms 3.45% _int_malloc 64ms 0.32% 47.87% 678ms 3.39% std::map::operator[] (partial-inline) 674ms 3.37% 51.24% 674ms 3.37% std::_Rb_tree::_S_right (inline) 18ms 0.09% 51.33% 669ms 3.35% std::less::operator() (inline) 7ms 0.035% 51.37% 664ms 3.32% CellPopulationElementWriter::Visit 651ms 3.26% 54.63% 651ms 3.26% std::operator< (inline) 0 0% 54.63% 623ms 3.12% std::_Rb_tree::_M_create_node (inline) 23ms 0.12% 54.74% 617ms 3.09% std::_Rb_tree::_M_insert_ (inline) 593ms 2.97% 57.71% 603ms 3.02% WntCellCycleOdeSystem::CalculateStoppingEvent 6ms 0.03% 57.74% 600ms 3.00% MeshBasedCellPopulation::AcceptCellWriter 0 0% 57.74% 595ms 2.98% std::_Rb_tree::_M_get_node (inline) 166ms 0.83% 58.57% 593ms 2.97% __dynamic_cast 22ms 0.11% 58.68% 569ms 2.85% GeneralisedLinearSpringForce::CalculateForceBetweenNodes 24ms 0.12% 58.80% 558ms 2.79% AbstractCellPopulation::GetCellUsingLocationIndex 0 0% 58.80% 556ms 2.78% std::_Rb_tree::_Alloc_node::operator() (inline) 9ms 0.045% 58.85% 552ms 2.76% Element::Element 0 0% 58.85% 544ms 2.72% std::map::find (inline) 3ms 0.015% 58.86% 532ms 2.66% CellPropertyCollection::GetPropertiesType (inline) 0 0% 58.86% 523ms 2.62% std::_Rb_tree::lower_bound (inline) 0 0% 58.86% 523ms 2.62% std::map::lower_bound (inline) 11ms 0.055% 58.92% 518ms 2.59% MutableMesh::ReIndex 11ms 0.055% 58.97% 516ms 2.58% Cylindrical2dMesh::ReconstructCylindricalMesh 14ms 0.07% 59.04% 497ms 2.49% Element::RegisterWithNodes (inline) 0 0% 59.04% 493ms 2.47% std::ostream::operator<< (inline) 70ms 0.35% 59.40% 492ms 2.46% std::ostream::_M_insert 12ms 0.06% 59.46% 484ms 2.42% Node::AddElement 22ms 0.11% 59.57% 479ms 2.40% Cylindrical2dMesh::CorrectNonPeriodicMesh 319ms 1.60% 61.16% 448ms 2.24% AbstractCellMutationState::AbstractCellMutationState 5ms 0.025% 61.19% 430ms 2.15% AbstractCellProperty::IsSubType (inline) 145ms 0.73% 61.91% 394ms 1.97% __GI___libc_free 14ms 0.07% 61.98% 381ms 1.91% divconqrecurse 141ms 0.71% 62.69% 374ms 1.87% std::_Rb_tree::_M_get_insert_unique_pos 110ms 0.55% 63.24% 364ms 1.82% mergehulls 5ms 0.025% 63.27% 354ms 1.77% std::_Vector_base::_M_allocate (inline) 21ms 0.11% 63.37% 351ms 1.76% Node::RemoveElement 104ms 0.52% 63.89% 351ms 1.76% std::_Rb_tree::_M_erase 35ms 0.18% 64.07% 348ms 1.74% Element::ResetIndex 2ms 0.01% 64.08% 347ms 1.74% std::set::erase (inline) 6ms 0.03% 64.11% 345ms 1.73% std::_Rb_tree::erase 18ms 0.09% 64.20% 324ms 1.62% std::_Rb_tree::~_Rb_tree (inline) 7ms 0.035% 64.23% 318ms 1.59% Cylindrical2dMesh::GenerateVectorsOfElementsStraddlingPeriodicBoundaries 151ms 0.76% 64.99% 318ms 1.59% __cxxabiv1::__si_class_type_info::__do_dyncast 14ms 0.07% 65.06% 311ms 1.56% std::__new_allocator::deallocate (inline) 0 0% 65.06% 304ms 1.52% std::allocator_traits::deallocate (inline) 9ms 0.045% 65.10% 301ms 1.51% AbstractCellPopulation::GetLocationIndexUsingCell 0 0% 65.10% 299ms 1.50% std::set::~set (inline) 5ms 0.025% 65.13% 297ms 1.49% Cell::GetCellProliferativeType 1ms 0.005% 65.13% 294ms 1.47% NodeLocationWriter::Visit 1ms 0.005% 65.14% 292ms 1.46% AbstractCellPopulation::Iterator::operator++ (inline) 44ms 0.22% 65.36% 289ms 1.45% AbstractCellPopulation::Iterator::IsRealCell (inline) 0 0% 65.36% 289ms 1.45% std::_Rb_tree::_M_drop_node (inline) 287ms 1.44% 66.80% 287ms 1.44% std::type_info::name (inline) 5ms 0.025% 66.82% 286ms 1.43% Cell::GetMutationState 2ms 0.01% 66.83% 279ms 1.40% LegacyCellProliferativeTypesWriter::VisitCell 18ms 0.09% 66.92% 274ms 1.37% std::_Rb_tree::_Rb_tree (partial-inline) 8ms 0.04% 66.96% 269ms 1.35% std::vector::push_back (inline) 17ms 0.085% 67.05% 262ms 1.31% std::num_put::_M_insert_float 21ms 0.11% 67.15% 252ms 1.26% std::vector::_M_realloc_insert 249ms 1.25% 68.40% 250ms 1.25% std::vector::operator[] (inline) 203ms 1.02% 69.41% 249ms 1.25% _int_free 2ms 0.01% 69.42% 249ms 1.25% std::set::set (inline) 13ms 0.065% 69.49% 248ms 1.24% AbstractTetrahedralElement::CalculateJacobian 0 0% 69.49% 248ms 1.24% std::_Rb_tree::_M_put_node (inline) 10ms 0.05% 69.54% 241ms 1.21% AbstractCellPopulation::IsCellAttachedToLocationIndex 77ms 0.39% 69.92% 235ms 1.18% BetaCateninOneHitCellMutationState::BetaCateninOneHitCellMutationState 4ms 0.02% 69.94% 235ms 1.18% alternateaxes 230ms 1.15% 71.10% 230ms 1.15% [libchaste_cell_based.so] 210ms 1.05% 72.15% 230ms 1.15% vertexmedian 26ms 0.13% 72.28% 221ms 1.11% std::_Rb_tree::_M_copy (inline) 0 0% 72.28% 220ms 1.10% TetrahedralMesh::RefreshJacobianCachedData 4ms 0.02% 72.30% 218ms 1.09% std::__cxx11::collate::do_transform 4ms 0.02% 72.32% 211ms 1.06% AbstractCentreBasedCellPopulation::GetNodeCorrespondingToCell (inline) 15ms 0.075% 72.39% 210ms 1.05% std::_Rb_tree::_M_erase_aux (inline) 5ms 0.025% 72.42% 208ms 1.04% AbstractCentreBasedCellPopulation::IsCellAssociatedWithADeletedLocation 2ms 0.01% 72.43% 207ms 1.04% ___vsnprintf 19ms 0.095% 72.52% 205ms 1.03% __printf_buffer 0 0% 72.52% 205ms 1.03% __vsnprintf_internal (inline) 53ms 0.27% 72.79% 200ms 1.00% ApcTwoHitCellMutationState::ApcTwoHitCellMutationState 1ms 0.005% 72.79% 192ms 0.96% AbstractCentreBasedCellPopulation::GetDampingConstant 0 0% 72.79% 192ms 0.96% MeshBasedCellPopulation::GetDampingConstant 49ms 0.25% 73.04% 191ms 0.96% ApcOneHitCellMutationState::ApcOneHitCellMutationState 53ms 0.27% 73.30% 191ms 0.96% std::_Rb_tree::_M_clone_node (inline) 16ms 0.08% 73.38% 190ms 0.95% AbstractTetrahedralElement::RefreshJacobian 11ms 0.055% 73.44% 189ms 0.95% Element::MarkAsDeleted 141ms 0.71% 74.15% 186ms 0.93% malloc_consolidate 138ms 0.69% 74.84% 185ms 0.93% AbstractElement::GetNodeGlobalIndex 6ms 0.03% 74.87% 185ms 0.93% AbstractTetrahedralElement::CalculateInverseJacobian 0 0% 74.87% 184ms 0.92% OffLatticeSimulation::ApplyBoundaries 184ms 0.92% 75.79% 184ms 0.92% std::_Rb_tree_insert_and_rebalance 20ms 0.1% 75.89% 182ms 0.91% TetrahedralMesh::Clear 6ms 0.03% 75.92% 172ms 0.86% AbstractTetrahedralElement::AbstractTetrahedralElement 1ms 0.005% 75.92% 172ms 0.86% __printf_fp_spec (inline) 5ms 0.025% 75.95% 171ms 0.86% __printf_fp_l_buffer 1ms 0.005% 75.95% 168ms 0.84% CellProliferativeTypesWriter::VisitCell 165ms 0.83% 76.78% 165ms 0.83% Node::GetIndex 3ms 0.015% 76.79% 161ms 0.81% boost::numeric::ublas::vector_assign (inline) 71ms 0.36% 77.15% 156ms 0.78% AbstractElement::GetNodeLocation 80ms 0.4% 77.55% 156ms 0.78% __printf_fp_buffer_1 14ms 0.07% 77.62% 149ms 0.75% MeshBasedCellPopulationWithGhostNodes::CalculateForceBetweenGhostNodes 148ms 0.74% 78.36% 148ms 0.74% incircle 147ms 0.74% 79.10% 147ms 0.74% unlink_chunk 4ms 0.02% 79.12% 140ms 0.7% non-virtual thunk to WntCellCycleModel::AdjustOdeParameters(double) 97ms 0.49% 79.60% 137ms 0.69% std::_Rb_tree::equal_range (inline) 7ms 0.035% 79.64% 136ms 0.68% boost::numeric::ublas::c_vector::c_vector (inline) 0 0% 79.64% 133ms 0.67% AbstractCellBasedWriter::OpenOutputFileForAppend 6ms 0.03% 79.67% 132ms 0.66% CellPropertyCollection::HasProperty 0 0% 79.67% 131ms 0.66% OutputFileHandler::OpenOutputFile 31ms 0.16% 79.82% 130ms 0.65% ApcOneHitCellMutationState::~ApcOneHitCellMutationState (inline) 0 0% 79.82% 128ms 0.64% Cell::HasCellProperty (inline) 18ms 0.09% 79.91% 127ms 0.64% boost::detail::shared_count::~shared_count (inline) 45ms 0.23% 80.14% 127ms 0.64% boost::numeric::ublas::indexing_vector_assign 0 0% 80.14% 127ms 0.64% boost::shared_ptr::~shared_ptr (inline) 126ms 0.63% 80.77% 126ms 0.63% std::vector::size (inline) 1ms 0.005% 80.77% 122ms 0.61% WntCellCycleModel::ChangeCellProliferativeTypeDueToCurrentBetaCateninLevel 32ms 0.16% 80.93% 120ms 0.6% BetaCateninOneHitCellMutationState::~BetaCateninOneHitCellMutationState (inline) 12ms 0.06% 80.99% 119ms 0.6% ApcTwoHitCellMutationState::~ApcTwoHitCellMutationState (inline) 70ms 0.35% 81.34% 117ms 0.59% Cylindrical2dMesh::GetVectorFromAtoB 30ms 0.15% 81.50% 115ms 0.58% TetrahedralMesh::EdgesEnd 34ms 0.17% 81.67% 114ms 0.57% std::num_put::_M_insert_int 113ms 0.57% 82.23% 113ms 0.57% AbstractCellProperty::~AbstractCellProperty 0 0% 82.23% 112ms 0.56% AbstractCellPopulation::OpenRoundRobinWritersFilesForAppend 2ms 0.01% 82.24% 110ms 0.55% MeshBasedCellPopulation::SpringsEnd (inline) 110ms 0.55% 82.79% 110ms 0.55% [libchaste_mesh.so] 0 0% 82.79% 108ms 0.54% AbstractCellBasedSimulation::DoCellRemoval (inline) 1ms 0.005% 82.80% 108ms 0.54% CellLocationIndexWriter::VisitCell 43ms 0.22% 83.01% 108ms 0.54% std::__ostream_insert 0 0% 83.01% 107ms 0.54% Cell::SetCellProliferativeType 104ms 0.52% 83.53% 106ms 0.53% boost::detail::sp_counted_base::release 105ms 0.53% 84.06% 105ms 0.53% std::_Rb_tree_rebalance_for_erase 1ms 0.005% 84.06% 104ms 0.52% SloughingCellKiller::CheckAndLabelCellsForApoptosisOrDeath 15ms 0.075% 84.14% 103ms 0.52% Node::~Node 102ms 0.51% 84.65% 102ms 0.51% AbstractElement::IsDeleted 102ms 0.51% 85.16% 102ms 0.51% boost::shared_ptr::operator-> (inline) 101ms 0.51% 85.67% 101ms 0.51% counterclockwise 91ms 0.46% 86.12% 101ms 0.51% vertexsort