File: Test2DMeshBasedCryptRepresentativeSimulation Type: cpu Showing nodes accounting for 16982ms, 85.12% of 19950ms total Dropped 781 nodes (cum <= 99.75ms) flat flat% sum% cum cum% 0 0% 0% 19902ms 99.76% __libc_start_call_main 0 0% 0% 19902ms 99.76% __libc_start_main_impl 0 0% 0% 19902ms 99.76% _start 0 0% 0% 19881ms 99.65% CxxTest::ErrorFormatter::run (inline) 0 0% 0% 19881ms 99.65% CxxTest::TestRunner::runAllTests (inline) 0 0% 0% 19881ms 99.65% CxxTest::TestRunner::runWorld (inline) 0 0% 0% 19881ms 99.65% main 0 0% 0% 19845ms 99.47% CxxTest::TestRunner::runSuite (inline) 0 0% 0% 19845ms 99.47% CxxTest::TestRunner::runTest (inline) 0 0% 0% 19845ms 99.47% Test2DCryptRepresentativeSimulation::TestRepresentativeSimulationForProfiling 0 0% 0% 19817ms 99.33% AbstractCellBasedSimulation::Solve 0 0% 0% 15394ms 77.16% AbstractCellBasedSimulation::UpdateCellPopulation 2ms 0.01% 0.01% 10205ms 51.15% AbstractCellBasedSimulation::DoCellBirth 3ms 0.015% 0.025% 10122ms 50.74% Cell::ReadyToDivide 2ms 0.01% 0.035% 10052ms 50.39% AbstractPhaseBasedCellCycleModel::ReadyToDivide 3ms 0.015% 0.05% 9912ms 49.68% AbstractWntOdeBasedCellCycleModel::UpdateCellCyclePhase 14ms 0.07% 0.12% 9899ms 49.62% AbstractOdeBasedPhaseBasedCellCycleModel::UpdateCellCyclePhase 1ms 0.005% 0.13% 9885ms 49.55% CellCycleModelOdeHandler::SolveOdeToTime 67ms 0.34% 0.46% 9734ms 48.79% AbstractOneStepIvpOdeSolver::InternalSolve 908ms 4.55% 5.01% 8898ms 44.60% RungeKutta4IvpOdeSolver::CalculateNextYValue 3607ms 18.08% 23.09% 7787ms 39.03% WntCellCycleOdeSystem::EvaluateYDerivatives 1ms 0.005% 23.10% 5075ms 25.44% MeshBasedCellPopulation::Update 133ms 0.67% 23.76% 4207ms 21.09% AbstractCellProperty::IsType (inline) 6ms 0.03% 23.79% 3883ms 19.46% Cylindrical2dMesh::ReMesh 594ms 2.98% 26.77% 2975ms 14.91% AbstractCellProperty::IsSame 0 0% 26.77% 2454ms 12.30% OffLatticeSimulation::UpdateCellLocationsAndTopology 682ms 3.42% 30.19% 2381ms 11.93% std::type_info::operator== (inline) 0 0% 30.19% 2155ms 10.80% ForwardEulerNumericalMethod::UpdateAllNodePositions 0 0% 30.19% 2128ms 10.67% MutableMesh::ReMesh 13ms 0.065% 30.26% 2114ms 10.60% AbstractNumericalMethod::ComputeForcesIncludingDamping 0 0% 30.26% 1966ms 9.85% AbstractCellPopulation::WriteResultsToFiles 823ms 4.13% 34.38% 1877ms 9.41% std::_Rb_tree::_M_lower_bound (inline) 1709ms 8.57% 42.95% 1709ms 8.57% __strcmp_avx2 162ms 0.81% 43.76% 1678ms 8.41% TetrahedralMesh::EdgeIterator::operator++ 55ms 0.28% 44.04% 1382ms 6.93% std::_Rb_tree::find (inline) 2ms 0.01% 44.05% 1153ms 5.78% MeshBasedCellPopulation::UpdateNodePairs 4ms 0.02% 44.07% 1103ms 5.53% MeshBasedCellPopulationWithGhostNodes::ApplyGhostForces 19ms 0.095% 44.16% 1053ms 5.28% TetrahedralMesh::ImportFromMesher 18ms 0.09% 44.25% 1045ms 5.24% MeshBasedCellPopulation::SpringIterator::operator++ 35ms 0.18% 44.43% 1029ms 5.16% operator new 241ms 1.21% 45.63% 986ms 4.94% __GI___libc_malloc 11ms 0.055% 45.69% 969ms 4.86% std::set::insert (inline) 18ms 0.09% 45.78% 958ms 4.80% std::_Rb_tree::_M_insert_unique 31ms 0.16% 45.93% 884ms 4.43% std::__new_allocator::allocate (inline) 0 0% 45.93% 876ms 4.39% std::allocator_traits::allocate (inline) 0 0% 45.93% 833ms 4.18% std::set::count (inline) 0 0% 45.93% 831ms 4.17% triangulate 0 0% 45.93% 748ms 3.75% delaunay 4ms 0.02% 45.95% 748ms 3.75% divconqdelaunay 4ms 0.02% 45.97% 722ms 3.62% MeshBasedCellPopulationWithGhostNodes::AcceptCellWritersAcrossPopulation 53ms 0.27% 46.24% 718ms 3.60% std::map::operator[] (partial-inline) 2ms 0.01% 46.25% 709ms 3.55% AbstractTwoBodyInteractionForce::AddForceContribution 693ms 3.47% 49.72% 693ms 3.47% std::_Rb_tree::_S_right (inline) 10ms 0.05% 49.77% 686ms 3.44% CellPopulationElementWriter::Visit 393ms 1.97% 51.74% 671ms 3.36% _int_malloc 645ms 3.23% 54.98% 660ms 3.31% WntCellCycleOdeSystem::CalculateStoppingEvent 26ms 0.13% 55.11% 655ms 3.28% std::less::operator() (inline) 629ms 3.15% 58.26% 629ms 3.15% std::operator< (inline) 156ms 0.78% 59.04% 627ms 3.14% __dynamic_cast 12ms 0.06% 59.10% 601ms 3.01% AbstractCellPopulation::GetCellUsingLocationIndex 0 0% 59.10% 591ms 2.96% std::_Rb_tree::lower_bound (inline) 0 0% 59.10% 591ms 2.96% std::map::lower_bound (inline) 3ms 0.015% 59.12% 589ms 2.95% CellPropertyCollection::GetPropertiesType (inline) 29ms 0.15% 59.26% 588ms 2.95% AbstractVariableSizeTwoBodyInteractionForce::CalculateForceBetweenNodes 25ms 0.13% 59.39% 576ms 2.89% std::_Rb_tree::_M_insert_ (inline) 1ms 0.005% 59.39% 572ms 2.87% MeshBasedCellPopulation::AcceptCellWriter 0 0% 59.39% 569ms 2.85% std::_Rb_tree::_M_create_node (inline) 6ms 0.03% 59.42% 551ms 2.76% Element::Element 15ms 0.075% 59.50% 547ms 2.74% Cylindrical2dMesh::ReconstructCylindricalMesh 0 0% 59.50% 545ms 2.73% std::map::find (inline) 0 0% 59.50% 533ms 2.67% std::_Rb_tree::_M_get_node (inline) 0 0% 59.50% 521ms 2.61% std::_Rb_tree::_Alloc_node::operator() (inline) 356ms 1.78% 61.28% 508ms 2.55% AbstractCellMutationState::AbstractCellMutationState 5ms 0.025% 61.31% 488ms 2.45% AbstractCellProperty::IsSubType (inline) 6ms 0.03% 61.34% 483ms 2.42% MutableMesh::ReIndex 11ms 0.055% 61.39% 480ms 2.41% Element::RegisterWithNodes (inline) 12ms 0.06% 61.45% 471ms 2.36% Node::AddElement 2ms 0.01% 61.46% 459ms 2.30% std::ostream::operator<< (inline) 60ms 0.3% 61.76% 456ms 2.29% std::ostream::_M_insert 10ms 0.05% 61.81% 436ms 2.19% Cylindrical2dMesh::CorrectNonPeriodicMesh 150ms 0.75% 62.57% 394ms 1.97% __GI___libc_free 16ms 0.08% 62.65% 391ms 1.96% divconqrecurse 6ms 0.03% 62.68% 369ms 1.85% std::_Rb_tree::erase 1ms 0.005% 62.68% 369ms 1.85% std::set::erase (inline) 109ms 0.55% 63.23% 365ms 1.83% mergehulls 130ms 0.65% 63.88% 364ms 1.82% std::_Rb_tree::_M_get_insert_unique_pos 11ms 0.055% 63.93% 363ms 1.82% Node::RemoveElement 112ms 0.56% 64.50% 358ms 1.79% std::_Rb_tree::_M_erase 166ms 0.83% 65.33% 346ms 1.73% __cxxabiv1::__si_class_type_info::__do_dyncast 3ms 0.015% 65.34% 346ms 1.73% std::_Vector_base::_M_allocate (inline) 21ms 0.11% 65.45% 330ms 1.65% std::_Rb_tree::~_Rb_tree (inline) 11ms 0.055% 65.50% 329ms 1.65% std::__new_allocator::deallocate (inline) 0 0% 65.50% 325ms 1.63% std::allocator_traits::deallocate (inline) 3ms 0.015% 65.52% 322ms 1.61% LegacyCellProliferativeTypesWriter::VisitCell 4ms 0.02% 65.54% 318ms 1.59% Cell::GetCellProliferativeType 5ms 0.025% 65.56% 314ms 1.57% Cylindrical2dMesh::GenerateVectorsOfElementsStraddlingPeriodicBoundaries 17ms 0.085% 65.65% 308ms 1.54% Element::ResetIndex 3ms 0.015% 65.66% 308ms 1.54% NodeLocationWriter::Visit 2ms 0.01% 65.67% 306ms 1.53% Cell::GetMutationState 0 0% 65.67% 297ms 1.49% std::_Rb_tree::_M_drop_node (inline) 297ms 1.49% 67.16% 297ms 1.49% std::type_info::name (inline) 0 0% 67.16% 294ms 1.47% std::set::~set (inline) 4ms 0.02% 67.18% 276ms 1.38% AbstractCellPopulation::GetLocationIndexUsingCell 0 0% 67.18% 271ms 1.36% AbstractCellPopulation::Iterator::operator++ (inline) 43ms 0.22% 67.40% 268ms 1.34% AbstractCellPopulation::Iterator::IsRealCell (inline) 13ms 0.065% 67.46% 266ms 1.33% std::num_put::_M_insert_float 0 0% 67.46% 264ms 1.32% std::_Rb_tree::_M_put_node (inline) 13ms 0.065% 67.53% 259ms 1.30% AbstractCellPopulation::IsCellAttachedToLocationIndex 14ms 0.07% 67.60% 249ms 1.25% std::_Rb_tree::_Rb_tree (partial-inline) 185ms 0.93% 68.53% 244ms 1.22% _int_free 21ms 0.11% 68.63% 242ms 1.21% AbstractTetrahedralElement::CalculateJacobian 53ms 0.27% 68.90% 239ms 1.20% BetaCateninOneHitCellMutationState::BetaCateninOneHitCellMutationState 238ms 1.19% 70.09% 238ms 1.19% std::vector::operator[] (inline) 7ms 0.035% 70.13% 236ms 1.18% std::vector::push_back (inline) 5ms 0.025% 70.15% 235ms 1.18% std::set::set (inline) 228ms 1.14% 71.29% 228ms 1.14% [libchaste_cell_based.so] 18ms 0.09% 71.38% 228ms 1.14% std::_Rb_tree::_M_erase_aux (inline) 3ms 0.015% 71.40% 226ms 1.13% alternateaxes 59ms 0.3% 71.69% 225ms 1.13% ApcOneHitCellMutationState::ApcOneHitCellMutationState 210ms 1.05% 72.75% 223ms 1.12% vertexmedian 16ms 0.08% 72.83% 222ms 1.11% std::vector::_M_realloc_insert 4ms 0.02% 72.85% 221ms 1.11% std::__cxx11::collate::do_transform 1ms 0.005% 72.85% 219ms 1.10% TetrahedralMesh::RefreshJacobianCachedData 8ms 0.04% 72.89% 217ms 1.09% AbstractCentreBasedCellPopulation::GetNodeCorrespondingToCell (inline) 2ms 0.01% 72.90% 212ms 1.06% ___vsnprintf 14ms 0.07% 72.97% 212ms 1.06% std::_Rb_tree::_M_copy (inline) 0 0% 72.97% 210ms 1.05% __vsnprintf_internal (inline) 21ms 0.11% 73.08% 208ms 1.04% __printf_buffer 44ms 0.22% 73.30% 206ms 1.03% ApcTwoHitCellMutationState::ApcTwoHitCellMutationState 4ms 0.02% 73.32% 200ms 1.00% AbstractCentreBasedCellPopulation::IsCellAssociatedWithADeletedLocation 73ms 0.37% 73.68% 198ms 0.99% std::_Rb_tree::_M_clone_node (inline) 9ms 0.045% 73.73% 197ms 0.99% Element::MarkAsDeleted 3ms 0.015% 73.74% 195ms 0.98% MeshBasedCellPopulation::GetDampingConstant 0 0% 73.74% 192ms 0.96% AbstractCentreBasedCellPopulation::GetDampingConstant 0 0% 73.74% 191ms 0.96% OffLatticeSimulation::ApplyBoundaries 130ms 0.65% 74.40% 186ms 0.93% malloc_consolidate 8ms 0.04% 74.44% 182ms 0.91% AbstractTetrahedralElement::CalculateInverseJacobian 21ms 0.11% 74.54% 177ms 0.89% AbstractTetrahedralElement::RefreshJacobian 118ms 0.59% 75.13% 175ms 0.88% AbstractElement::GetNodeGlobalIndex 0 0% 75.13% 170ms 0.85% AbstractTetrahedralElement::AbstractTetrahedralElement 2ms 0.01% 75.14% 167ms 0.84% __printf_fp_spec (inline) 167ms 0.84% 75.98% 167ms 0.84% std::_Rb_tree_insert_and_rebalance 8ms 0.04% 76.02% 165ms 0.83% __printf_fp_l_buffer 5ms 0.025% 76.05% 159ms 0.8% CellPropertyCollection::HasProperty 158ms 0.79% 76.84% 158ms 0.79% Node::GetIndex 2ms 0.01% 76.85% 156ms 0.78% CellProliferativeTypesWriter::VisitCell 0 0% 76.85% 155ms 0.78% Cell::HasCellProperty (inline) 154ms 0.77% 77.62% 154ms 0.77% incircle 78ms 0.39% 78.01% 153ms 0.77% __printf_fp_buffer_1 10ms 0.05% 78.06% 149ms 0.75% TetrahedralMesh::Clear 6ms 0.03% 78.09% 148ms 0.74% MeshBasedCellPopulationWithGhostNodes::CalculateForceBetweenGhostNodes 99ms 0.5% 78.59% 144ms 0.72% std::_Rb_tree::equal_range (inline) 48ms 0.24% 78.83% 143ms 0.72% ApcOneHitCellMutationState::~ApcOneHitCellMutationState (inline) 141ms 0.71% 79.53% 141ms 0.71% unlink_chunk 67ms 0.34% 79.87% 138ms 0.69% AbstractElement::GetNodeLocation 4ms 0.02% 79.89% 138ms 0.69% boost::numeric::ublas::vector_assign (inline) 11ms 0.055% 79.94% 131ms 0.66% MeshBasedCellPopulation::SpringsEnd (inline) 131ms 0.66% 80.60% 131ms 0.66% std::vector::size (inline) 4ms 0.02% 80.62% 129ms 0.65% WntCellCycleModel::ChangeCellProliferativeTypeDueToCurrentBetaCateninLevel 5ms 0.025% 80.65% 124ms 0.62% non-virtual thunk to WntCellCycleModel::AdjustOdeParameters(double) 50ms 0.25% 80.90% 123ms 0.62% ApcTwoHitCellMutationState::~ApcTwoHitCellMutationState (inline) 122ms 0.61% 81.51% 122ms 0.61% AbstractElement::IsDeleted 36ms 0.18% 81.69% 119ms 0.6% TetrahedralMesh::EdgesEnd 7ms 0.035% 81.72% 118ms 0.59% boost::numeric::ublas::c_vector::c_vector (inline) 14ms 0.07% 81.79% 117ms 0.59% BetaCateninOneHitCellMutationState::~BetaCateninOneHitCellMutationState (inline) 67ms 0.34% 82.13% 116ms 0.58% Cylindrical2dMesh::GetVectorFromAtoB 0 0% 82.13% 115ms 0.58% AbstractCellBasedWriter::OpenOutputFileForAppend 0 0% 82.13% 114ms 0.57% OutputFileHandler::OpenOutputFile 103ms 0.52% 82.65% 114ms 0.57% vertexsort 1ms 0.005% 82.65% 112ms 0.56% AbstractCellBasedSimulation::DoCellRemoval (inline) 0 0% 82.65% 111ms 0.56% Cell::SetCellProliferativeType 14ms 0.07% 82.72% 111ms 0.56% boost::detail::shared_count::~shared_count (inline) 0 0% 82.72% 111ms 0.56% boost::shared_ptr::~shared_ptr (inline) 32ms 0.16% 82.88% 109ms 0.55% boost::numeric::ublas::indexing_vector_assign 106ms 0.53% 83.41% 106ms 0.53% boost::shared_ptr::operator-> (inline) 0 0% 83.41% 104ms 0.52% SloughingCellKiller::CheckAndLabelCellsForApoptosisOrDeath 0 0% 83.41% 102ms 0.51% AbstractCellPopulation::OpenRoundRobinWritersFilesForAppend 102ms 0.51% 83.92% 102ms 0.51% AbstractCellProperty::~AbstractCellProperty 39ms 0.2% 84.12% 102ms 0.51% std::__ostream_insert 100ms 0.5% 84.62% 100ms 0.5% AbstractCellMutationState::~AbstractCellMutationState 100ms 0.5% 85.12% 100ms 0.5% std::_Rb_tree_rebalance_for_erase