File: Test2dOffLatticeRepresentativeSimulation Type: cpu Showing nodes accounting for 6732ms, 84.41% of 7975ms total Dropped 588 nodes (cum <= 39.88ms) flat flat% sum% cum cum% 0 0% 0% 7939ms 99.55% __libc_start_call_main 0 0% 0% 7939ms 99.55% __libc_start_main_impl 0 0% 0% 7939ms 99.55% _start 0 0% 0% 7925ms 99.37% CxxTest::ErrorFormatter::run (inline) 0 0% 0% 7925ms 99.37% CxxTest::TestRunner::runAllTests (inline) 0 0% 0% 7925ms 99.37% CxxTest::TestRunner::runWorld (inline) 0 0% 0% 7925ms 99.37% main 0 0% 0% 7889ms 98.92% CxxTest::TestRunner::runSuite (inline) 0 0% 0% 7889ms 98.92% CxxTest::TestRunner::runTest (inline) 0 0% 0% 7889ms 98.92% Test2DMonolayerRepresentativeSimulation::Test2DMonolayerRepresentativeSimulationForProfiling 1ms 0.013% 0.013% 7886ms 98.88% AbstractCellBasedSimulation::Solve 0 0% 0.013% 3383ms 42.42% AbstractCellBasedSimulation::UpdateCellPopulation 3ms 0.038% 0.05% 2914ms 36.54% MeshBasedCellPopulation::Update 1ms 0.013% 0.063% 2907ms 36.45% AbstractCellPopulation::WriteResultsToFiles 1ms 0.013% 0.075% 1588ms 19.91% OffLatticeSimulation::UpdateCellLocationsAndTopology 3ms 0.038% 0.11% 1445ms 18.12% ForwardEulerNumericalMethod::UpdateAllNodePositions 1ms 0.013% 0.13% 1438ms 18.03% MeshBasedCellPopulation::UpdateNodePairs 0 0% 0.13% 1405ms 17.62% MutableMesh::ReMesh 10ms 0.13% 0.25% 1388ms 17.40% AbstractNumericalMethod::ComputeForcesIncludingDamping 24ms 0.3% 0.55% 1253ms 15.71% MeshBasedCellPopulation::SpringIterator::operator++ 135ms 1.69% 2.24% 1017ms 12.75% TetrahedralMesh::EdgeIterator::operator++ 2ms 0.025% 2.27% 949ms 11.90% AbstractTwoBodyInteractionForce::AddForceContribution 14ms 0.18% 2.45% 947ms 11.87% CellPropertyCollection::GetPropertiesType (inline) 4ms 0.05% 2.50% 944ms 11.84% AbstractCentreBasedCellPopulation::AcceptCellWritersAcrossPopulation 416ms 5.22% 7.71% 944ms 11.84% std::_Rb_tree::_M_lower_bound (inline) 292ms 3.66% 11.37% 921ms 11.55% __dynamic_cast 9ms 0.11% 11.49% 878ms 11.01% CellPopulationElementWriter::Visit 32ms 0.4% 11.89% 849ms 10.65% GeneralisedLinearSpringForce::CalculateForceBetweenNodes 7ms 0.088% 11.97% 801ms 10.04% MeshBasedCellPopulation::AcceptCellWriter 29ms 0.36% 12.34% 755ms 9.47% AbstractCellPopulation::GetCellUsingLocationIndex 10ms 0.13% 12.46% 736ms 9.23% TetrahedralMesh::ImportFromMesher 5ms 0.063% 12.53% 729ms 9.14% AbstractCellProperty::IsSubType (inline) 1ms 0.013% 12.54% 599ms 7.51% std::ostream::operator<< (inline) 94ms 1.18% 13.72% 598ms 7.50% std::ostream::_M_insert 53ms 0.66% 14.38% 589ms 7.39% operator new 45ms 0.56% 14.95% 566ms 7.10% std::map::operator[] (partial-inline) 3ms 0.038% 14.98% 534ms 6.70% Cell::GetCellProliferativeType 37ms 0.46% 15.45% 533ms 6.68% std::__new_allocator::allocate (inline) 19ms 0.24% 15.69% 530ms 6.65% std::_Rb_tree::find (inline) 0 0% 15.69% 528ms 6.62% std::allocator_traits::allocate (inline) 181ms 2.27% 17.96% 527ms 6.61% __GI___libc_malloc 14ms 0.18% 18.13% 523ms 6.56% std::set::insert (inline) 2ms 0.025% 18.16% 511ms 6.41% triangulate 14ms 0.18% 18.33% 510ms 6.39% std::_Rb_tree::_M_insert_unique 503ms 6.31% 24.64% 503ms 6.31% __strcmp_avx2 3ms 0.038% 24.68% 488ms 6.12% LegacyCellProliferativeTypesWriter::VisitCell 0 0% 24.68% 470ms 5.89% std::_Rb_tree::lower_bound (inline) 0 0% 24.68% 470ms 5.89% std::map::lower_bound (inline) 193ms 2.42% 27.10% 467ms 5.86% __cxxabiv1::__si_class_type_info::__do_dyncast 0 0% 27.10% 466ms 5.84% std::set::count (inline) 6ms 0.075% 27.17% 453ms 5.68% AbstractCellBasedSimulation::DoCellBirth 0 0% 27.17% 452ms 5.67% delaunay 0 0% 27.17% 452ms 5.67% divconqdelaunay 0 0% 27.17% 447ms 5.61% std::_Rb_tree::_M_create_node (inline) 0 0% 27.17% 426ms 5.34% std::_Rb_tree::_Alloc_node::operator() (inline) 0 0% 27.17% 413ms 5.18% std::_Rb_tree::_M_get_node (inline) 3ms 0.038% 27.21% 412ms 5.17% Cell::GetMutationState 29ms 0.36% 27.57% 402ms 5.04% std::_Rb_tree::~_Rb_tree (inline) 30ms 0.38% 27.95% 400ms 5.02% std::_Rb_tree::_Rb_tree (partial-inline) 4ms 0.05% 28.00% 381ms 4.78% NodeLocationWriter::Visit 0 0% 28.00% 381ms 4.78% std::set::~set (inline) 76ms 0.95% 28.95% 366ms 4.59% std::_Rb_tree::_M_erase 2ms 0.025% 28.98% 366ms 4.59% std::set::set (inline) 4ms 0.05% 29.03% 347ms 4.35% AbstractCentreBasedCellPopulation::GetDampingConstant 0 0% 29.03% 347ms 4.35% MeshBasedCellPopulation::GetDampingConstant 10ms 0.13% 29.15% 340ms 4.26% std::less::operator() (inline) 338ms 4.24% 33.39% 338ms 4.24% std::_Rb_tree::_S_right (inline) 37ms 0.46% 33.86% 331ms 4.15% std::_Rb_tree::_M_copy (inline) 330ms 4.14% 37.99% 330ms 4.14% std::operator< (inline) 19ms 0.24% 38.23% 322ms 4.04% std::_Rb_tree::_M_insert_ (inline) 20ms 0.25% 38.48% 320ms 4.01% std::num_put::_M_insert_float 93ms 1.17% 39.65% 313ms 3.92% __GI___libc_free 0 0% 39.65% 309ms 3.87% AbstractCellPopulation::OpenRoundRobinWritersFilesForAppend 0 0% 39.65% 307ms 3.85% AbstractCellBasedWriter::OpenOutputFileForAppend 0 0% 39.65% 302ms 3.79% OutputFileHandler::OpenOutputFile 4ms 0.05% 39.70% 295ms 3.70% Cell::ReadyToDivide 83ms 1.04% 40.74% 292ms 3.66% std::_Rb_tree::_M_clone_node (inline) 7ms 0.088% 40.83% 290ms 3.64% AbstractCellPopulation::IsCellAttachedToLocationIndex 2ms 0.025% 40.85% 290ms 3.64% Element::Element 2ms 0.025% 40.88% 271ms 3.40% CellProliferativeTypesWriter::VisitCell 0 0% 40.88% 271ms 3.40% std::_Rb_tree::_M_drop_node (inline) 15ms 0.19% 41.07% 265ms 3.32% std::__new_allocator::deallocate (inline) 185ms 2.32% 43.39% 260ms 3.26% _int_malloc 0 0% 43.39% 260ms 3.26% std::allocator_traits::deallocate (inline) 10ms 0.13% 43.51% 257ms 3.22% divconqrecurse 7ms 0.088% 43.60% 250ms 3.13% std::__cxx11::collate::do_transform 3ms 0.038% 43.64% 232ms 2.91% ___vsnprintf 66ms 0.83% 44.46% 231ms 2.90% mergehulls 0 0% 44.46% 229ms 2.87% __vsnprintf_internal (inline) 7ms 0.088% 44.55% 228ms 2.86% CellPropertyCollection::HasProperty 48ms 0.6% 45.15% 228ms 2.86% __printf_buffer 0 0% 45.15% 226ms 2.83% Cell::HasCellProperty (inline) 184ms 2.31% 47.46% 219ms 2.75% _int_free 2ms 0.025% 47.49% 214ms 2.68% AbstractCellProperty::IsType (inline) 0 0% 47.49% 214ms 2.68% std::_Rb_tree::_M_put_node (inline) 12ms 0.15% 47.64% 206ms 2.58% TetrahedralMesh::Clear 4ms 0.05% 47.69% 198ms 2.48% AbstractPhaseBasedCellCycleModel::ReadyToDivide 4ms 0.05% 47.74% 195ms 2.45% MeshBasedCellPopulation::SpringsEnd (inline) 1ms 0.013% 47.75% 194ms 2.43% Element::RegisterWithNodes (inline) 9ms 0.11% 47.86% 192ms 2.41% AbstractSimplePhaseBasedCellCycleModel::UpdateCellCyclePhase 4ms 0.05% 47.91% 189ms 2.37% Node::AddElement 53ms 0.66% 48.58% 174ms 2.18% std::_Rb_tree::_M_get_insert_unique_pos (inline) 1ms 0.013% 48.59% 165ms 2.07% __printf_fp_spec (inline) 6ms 0.075% 48.66% 164ms 2.06% __printf_fp_l_buffer 47ms 0.59% 49.25% 162ms 2.03% TetrahedralMesh::EdgesEnd (partial-inline) 38ms 0.48% 49.73% 157ms 1.97% AbstractCellProperty::IsSame 0 0% 49.73% 155ms 1.94% AbstractCellPopulation::CloseRoundRobinWritersFiles 2ms 0.025% 49.76% 155ms 1.94% OutputFileHandler::CommonConstructor 0 0% 49.76% 155ms 1.94% OutputFileHandler::OutputFileHandler 81ms 1.02% 50.77% 155ms 1.94% __printf_fp_buffer_1 1ms 0.013% 50.78% 152ms 1.91% AbstractCellBasedWriter::CloseFile 2ms 0.025% 50.81% 151ms 1.89% std::basic_ofstream::close (inline) 1ms 0.013% 50.82% 149ms 1.87% std::basic_filebuf::close 0 0% 50.82% 148ms 1.86% OutputFileHandler::MakeFoldersAndReturnFullPath 11ms 0.14% 50.96% 146ms 1.83% AbstractTetrahedralElement::CalculateJacobian 5ms 0.063% 51.02% 143ms 1.79% boost::numeric::ublas::vector_assign (inline) 0 0% 51.02% 138ms 1.73% FilesystemPermissions::SetFilePermissions (inline) 1ms 0.013% 51.03% 137ms 1.72% TetrahedralMesh::RefreshJacobianCachedData 2ms 0.025% 51.06% 137ms 1.72% std::filesystem::permissions 3ms 0.038% 51.10% 136ms 1.71% std::vector::push_back (inline) 3ms 0.038% 51.13% 135ms 1.69% boost::numeric::ublas::c_vector::c_vector (inline) 135ms 1.69% 52.83% 135ms 1.69% std::_Rb_tree_increment 134ms 1.68% 54.51% 134ms 1.68% __GI_fchmodat 30ms 0.38% 54.88% 132ms 1.66% std::num_put::_M_insert_int 20ms 0.25% 55.13% 131ms 1.64% MeshBasedCellPopulation::SpringIterator::SpringIterator 14ms 0.18% 55.31% 131ms 1.64% std::vector::_M_realloc_insert 8ms 0.1% 55.41% 130ms 1.63% std::_Rb_tree_const_iterator::operator++ (inline) 23ms 0.29% 55.70% 129ms 1.62% AbstractCellPopulation::Iterator::IsRealCell (inline) 0 0% 55.70% 127ms 1.59% AbstractCellPopulation::Iterator::operator++ (inline) 9ms 0.11% 55.81% 126ms 1.58% boost::detail::shared_count::~shared_count (inline) 0 0% 55.81% 126ms 1.58% boost::shared_ptr::~shared_ptr (inline) 0 0% 55.81% 125ms 1.57% std::basic_ofstream::basic_ofstream (inline) 55ms 0.69% 56.50% 124ms 1.55% std::__ostream_insert 0 0% 56.50% 123ms 1.54% std::basic_ofstream::open (inline) 6ms 0.075% 56.58% 122ms 1.53% AbstractTetrahedralElement::CalculateInverseJacobian 1ms 0.013% 56.59% 122ms 1.53% alternateaxes 1ms 0.013% 56.60% 122ms 1.53% std::basic_filebuf::open 27ms 0.34% 56.94% 119ms 1.49% std::type_info::operator== (inline) 111ms 1.39% 58.33% 118ms 1.48% vertexmedian 2ms 0.025% 58.36% 117ms 1.47% std::_Vector_base::_M_allocate (inline) 13ms 0.16% 58.52% 115ms 1.44% AbstractTetrahedralElement::RefreshJacobian 114ms 1.43% 59.95% 115ms 1.44% boost::detail::sp_counted_base::release 7ms 0.088% 60.04% 114ms 1.43% Node::~Node 25ms 0.31% 60.35% 108ms 1.35% boost::numeric::ublas::indexing_vector_assign 0 0% 60.35% 106ms 1.33% std::basic_filebuf::_M_terminate_output 2ms 0.025% 60.38% 106ms 1.33% std::basic_filebuf::overflow 3ms 0.038% 60.41% 104ms 1.30% AbstractCentreBasedCellPopulation::GetNodeCorrespondingToCell (partial-inline) 104ms 1.30% 61.72% 104ms 1.30% incircle 1ms 0.013% 61.73% 104ms 1.30% std::basic_filebuf::_M_convert_to_external 0 0% 61.73% 103ms 1.29% std::__basic_file::xsputn 101ms 1.27% 63.00% 102ms 1.28% __GI___libc_write 50ms 0.63% 63.62% 102ms 1.28% boost::shared_ptr::shared_ptr (inline) 3ms 0.038% 63.66% 102ms 1.28% std::operator<< (inline) 62ms 0.78% 64.44% 101ms 1.27% TetrahedralMesh::EdgeIterator::EdgeIterator (partial-inline) 2ms 0.025% 64.46% 100ms 1.25% AbstractTetrahedralElement::AbstractTetrahedralElement 97ms 1.22% 65.68% 97ms 1.22% std::_Rb_tree_insert_and_rebalance 1ms 0.013% 65.69% 92ms 1.15% AbstractCentreBasedCellPopulation::IsCellAssociatedWithADeletedLocation 0 0% 65.69% 92ms 1.15% _IO_new_fopen 1ms 0.013% 65.71% 92ms 1.15% __fopen_internal (inline) 0 0% 65.71% 92ms 1.15% std::__basic_file::open 0 0% 65.71% 89ms 1.12% _IO_new_file_fopen 2ms 0.025% 65.73% 88ms 1.10% __GI__IO_file_open 0 0% 65.73% 87ms 1.09% Cell::GetCellId 34ms 0.43% 66.16% 86ms 1.08% AbstractElement::GetNodeLocation 0 0% 66.16% 82ms 1.03% tcache_get (inline) 82ms 1.03% 67.18% 82ms 1.03% tcache_get_n (inline) 2ms 0.025% 67.21% 81ms 1.02% AbstractCellPopulation::GetLocationIndexUsingCell 81ms 1.02% 68.23% 81ms 1.02% __GI___fstatat64 1ms 0.013% 68.24% 81ms 1.02% std::filesystem::status 80ms 1.00% 69.24% 80ms 1.00% [libchaste_cell_based.so] 60ms 0.75% 69.99% 79ms 0.99% std::basic_streambuf::xsputn 51ms 0.64% 70.63% 77ms 0.97% std::basic_filebuf::xsputn 75ms 0.94% 71.57% 76ms 0.95% __libc_open64 0 0% 71.57% 74ms 0.93% FilesystemPermissions::CreateDirectoryWithPermissions (inline) 3ms 0.038% 71.61% 74ms 0.93% std::filesystem::create_directory 71ms 0.89% 72.50% 71ms 0.89% TetrahedralMesh::EdgeIterator::operator!= (partial-inline) 55ms 0.69% 73.19% 68ms 0.85% AbstractElement::GetNodeGlobalIndex 68ms 0.85% 74.04% 68ms 0.85% std::vector::size (inline) 59ms 0.74% 74.78% 66ms 0.83% vertexsort 4ms 0.05% 74.83% 65ms 0.82% CellPropertyCollection::AddProperty 65ms 0.82% 75.65% 65ms 0.82% Node::GetIndex 4ms 0.05% 75.70% 64ms 0.8% TetrahedralMesh::EdgeIterator::GetNodeB 3ms 0.038% 75.74% 63ms 0.79% TetrahedralMesh::EdgeIterator::GetNodeA 62ms 0.78% 76.51% 62ms 0.78% [libchaste_mesh.so] 5ms 0.063% 76.58% 61ms 0.76% Node::ConstructNodeAttributes (inline) 60ms 0.75% 77.33% 60ms 0.75% boost::shared_ptr::operator-> (inline) 45ms 0.56% 77.89% 60ms 0.75% malloc_consolidate 2ms 0.025% 77.92% 59ms 0.74% Node::ClearAppliedForce 24ms 0.3% 78.22% 58ms 0.73% AbstractTetrahedralMesh::GetElement 58ms 0.73% 78.95% 58ms 0.73% counterclockwise 0 0% 78.95% 57ms 0.71% std::_Rb_tree::_M_destroy_node (inline) 0 0% 78.95% 57ms 0.71% std::__new_allocator::destroy (inline) 0 0% 78.95% 57ms 0.71% std::allocator_traits::destroy (inline) 55ms 0.69% 79.64% 55ms 0.69% boost::numeric::ublas::c_vector::operator() (partial-inline) 0 0% 79.64% 53ms 0.66% AbstractCentreBasedCellPopulation::CreateCellPair 53ms 0.66% 80.30% 53ms 0.66% __memcpy_avx_unaligned_erms 0 0% 80.30% 53ms 0.66% std::map::find (inline) 51ms 0.64% 80.94% 52ms 0.65% boost::detail::shared_count::shared_count (inline) 0 0% 80.94% 52ms 0.65% boost::numeric::ublas::vector_scalar_unary::evaluate (inline) 0 0% 80.94% 52ms 0.65% boost::numeric::ublas::vector_scalar_unary::operator double (inline) 6ms 0.075% 81.02% 51ms 0.64% std::_Rb_tree::_M_emplace_hint_unique 0 0% 81.02% 50ms 0.63% TetrahedralMesh::EdgeIterator::~EdgeIterator (inline) 0 0% 81.02% 49ms 0.61% MeshBasedCellPopulation::SpringIterator::~SpringIterator (inline) 4ms 0.05% 81.07% 48ms 0.6% Element::~Element 48ms 0.6% 81.67% 48ms 0.6% [libstdc++.so.6.0.33] 34ms 0.43% 82.09% 48ms 0.6% std::num_put::do_put 21ms 0.26% 82.36% 47ms 0.59% AbstractTetrahedralMesh::GetNumAllElements 0 0% 82.36% 47ms 0.59% CellPropertyCollection::~CellPropertyCollection (inline) 2ms 0.025% 82.38% 47ms 0.59% std::_Vector_base::_M_deallocate (inline) 24ms 0.3% 82.68% 46ms 0.58% AbstractMesh::GetNode 30ms 0.38% 83.06% 46ms 0.58% hack_digit 3ms 0.038% 83.10% 45ms 0.56% AbstractTetrahedralElement::~AbstractTetrahedralElement (inline) 1ms 0.013% 83.11% 44ms 0.55% AbstractCentreBasedCellPopulation::IsMarkedSpring 0 0% 83.11% 43ms 0.54% BoundaryNodeWriter::Visit 19ms 0.24% 83.35% 41ms 0.51% AbstractCellCycleModel::GetAge 41ms 0.51% 83.86% 41ms 0.51% AbstractElement::IsDeleted 16ms 0.2% 84.06% 41ms 0.51% Determinant (inline) 24ms 0.3% 84.36% 41ms 0.51% boost::numeric::ublas::c_matrix::operator() (partial-inline) 4ms 0.05% 84.41% 40ms 0.5% NodeAttributes::NodeAttributes