File: Test2dOffLatticeRepresentativeSimulation Type: cpu Showing nodes accounting for 6589ms, 83.84% of 7859ms total Dropped 575 nodes (cum <= 39.30ms) flat flat% sum% cum cum% 0 0% 0% 7821ms 99.52% __libc_start_call_main 0 0% 0% 7821ms 99.52% __libc_start_main_impl 0 0% 0% 7821ms 99.52% _start 0 0% 0% 7804ms 99.30% CxxTest::ErrorFormatter::run (inline) 0 0% 0% 7804ms 99.30% CxxTest::TestRunner::runAllTests (inline) 0 0% 0% 7804ms 99.30% CxxTest::TestRunner::runWorld (inline) 0 0% 0% 7804ms 99.30% main 0 0% 0% 7766ms 98.82% CxxTest::TestRunner::runSuite (inline) 0 0% 0% 7766ms 98.82% CxxTest::TestRunner::runTest (inline) 0 0% 0% 7766ms 98.82% Test2DMonolayerRepresentativeSimulation::Test2DMonolayerRepresentativeSimulationForProfiling 0 0% 0% 7763ms 98.78% AbstractCellBasedSimulation::Solve 0 0% 0% 3377ms 42.97% AbstractCellBasedSimulation::UpdateCellPopulation 0 0% 0% 2898ms 36.87% AbstractCellPopulation::WriteResultsToFiles 0 0% 0% 2898ms 36.87% MeshBasedCellPopulation::Update 2ms 0.025% 0.025% 1480ms 18.83% OffLatticeSimulation::UpdateCellLocationsAndTopology 0 0% 0.025% 1424ms 18.12% MutableMesh::ReMesh 0 0% 0.025% 1421ms 18.08% MeshBasedCellPopulation::UpdateNodePairs 1ms 0.013% 0.038% 1335ms 16.99% ForwardEulerNumericalMethod::UpdateAllNodePositions 6ms 0.076% 0.11% 1277ms 16.25% AbstractNumericalMethod::ComputeForcesIncludingDamping 18ms 0.23% 0.34% 1240ms 15.78% MeshBasedCellPopulation::SpringIterator::operator++ 127ms 1.62% 1.96% 1041ms 13.25% TetrahedralMesh::EdgeIterator::operator++ 476ms 6.06% 8.02% 1011ms 12.86% std::_Rb_tree::_M_lower_bound (inline) 8ms 0.1% 8.12% 932ms 11.86% CellPopulationElementWriter::Visit 2ms 0.025% 8.14% 928ms 11.81% AbstractCentreBasedCellPopulation::AcceptCellWritersAcrossPopulation 20ms 0.25% 8.40% 907ms 11.54% CellPropertyCollection::GetPropertiesType (inline) 3ms 0.038% 8.44% 871ms 11.08% AbstractTwoBodyInteractionForce::AddForceContribution 263ms 3.35% 11.78% 842ms 10.71% __dynamic_cast 48ms 0.61% 12.39% 772ms 9.82% AbstractVariableSizeTwoBodyInteractionForce::CalculateForceBetweenNodes 2ms 0.025% 12.42% 770ms 9.80% MeshBasedCellPopulation::AcceptCellWriter 24ms 0.31% 12.72% 756ms 9.62% AbstractCellPopulation::GetCellUsingLocationIndex 16ms 0.2% 12.93% 739ms 9.40% TetrahedralMesh::ImportFromMesher 1ms 0.013% 12.94% 678ms 8.63% AbstractCellProperty::IsSubType (inline) 1ms 0.013% 12.95% 632ms 8.04% std::ostream::operator<< (inline) 83ms 1.06% 14.01% 630ms 8.02% std::ostream::_M_insert 47ms 0.6% 14.61% 620ms 7.89% std::map::operator[] (partial-inline) 7ms 0.089% 14.70% 576ms 7.33% std::set::insert (inline) 16ms 0.2% 14.90% 569ms 7.24% std::_Rb_tree::_M_insert_unique 2ms 0.025% 14.93% 561ms 7.14% triangulate 29ms 0.37% 15.29% 545ms 6.93% operator new 7ms 0.089% 15.38% 532ms 6.77% Cell::GetCellProliferativeType 0 0% 15.38% 530ms 6.74% std::_Rb_tree::lower_bound (inline) 0 0% 15.38% 530ms 6.74% std::map::lower_bound (inline) 14ms 0.18% 15.56% 525ms 6.68% std::_Rb_tree::find (inline) 164ms 2.09% 17.65% 509ms 6.48% __GI___libc_malloc 33ms 0.42% 18.07% 507ms 6.45% std::__new_allocator::allocate (inline) 0 0% 18.07% 505ms 6.43% std::allocator_traits::allocate (inline) 0 0% 18.07% 496ms 6.31% delaunay 1ms 0.013% 18.08% 495ms 6.30% divconqdelaunay 0 0% 18.08% 482ms 6.13% std::set::count (inline) 4ms 0.051% 18.13% 472ms 6.01% LegacyCellProliferativeTypesWriter::VisitCell 461ms 5.87% 24.00% 461ms 5.87% __strcmp_avx2 0 0% 24.00% 457ms 5.81% AbstractCellBasedSimulation::DoCellBirth 0 0% 24.00% 435ms 5.54% std::_Rb_tree::_M_create_node (inline) 35ms 0.45% 24.44% 415ms 5.28% std::_Rb_tree::~_Rb_tree (inline) 0 0% 24.44% 409ms 5.20% std::_Rb_tree::_Alloc_node::operator() (inline) 201ms 2.56% 27.00% 396ms 5.04% __cxxabiv1::__si_class_type_info::__do_dyncast 0 0% 27.00% 391ms 4.98% std::_Rb_tree::_M_get_node (inline) 0 0% 27.00% 391ms 4.98% std::set::~set (inline) 2ms 0.025% 27.03% 386ms 4.91% NodeLocationWriter::Visit 13ms 0.17% 27.19% 384ms 4.89% std::less::operator() (inline) 16ms 0.2% 27.40% 371ms 4.72% std::_Rb_tree::_Rb_tree (partial-inline) 371ms 4.72% 32.12% 371ms 4.72% std::operator< (inline) 80ms 1.02% 33.13% 369ms 4.70% std::_Rb_tree::_M_erase 4ms 0.051% 33.18% 365ms 4.64% Cell::GetMutationState 16ms 0.2% 33.39% 354ms 4.50% std::num_put::_M_insert_float 19ms 0.24% 33.63% 347ms 4.42% std::_Rb_tree::_M_insert_ (inline) 2ms 0.025% 33.66% 343ms 4.36% std::set::set (inline) 1ms 0.013% 33.67% 320ms 4.07% AbstractCentreBasedCellPopulation::GetDampingConstant 0 0% 33.67% 320ms 4.07% MeshBasedCellPopulation::GetDampingConstant 119ms 1.51% 35.18% 320ms 4.07% __GI___libc_free 7ms 0.089% 35.27% 318ms 4.05% AbstractCellPopulation::IsCellAttachedToLocationIndex 46ms 0.59% 35.86% 318ms 4.05% std::_Rb_tree::_M_copy (inline) 0 0% 35.86% 316ms 4.02% AbstractCellPopulation::OpenRoundRobinWritersFilesForAppend 316ms 4.02% 39.88% 316ms 4.02% std::_Rb_tree::_S_right (inline) 0 0% 39.88% 314ms 4.00% AbstractCellBasedWriter::OpenOutputFileForAppend 1ms 0.013% 39.89% 312ms 3.97% OutputFileHandler::OpenOutputFile 4ms 0.051% 39.94% 297ms 3.78% Cell::ReadyToDivide 6ms 0.076% 40.02% 292ms 3.72% Element::Element 10ms 0.13% 40.15% 283ms 3.60% std::__new_allocator::deallocate (inline) 21ms 0.27% 40.41% 280ms 3.56% divconqrecurse 10ms 0.13% 40.54% 279ms 3.55% std::__cxx11::collate::do_transform 193ms 2.46% 43.00% 276ms 3.51% _int_malloc 0 0% 43.00% 275ms 3.50% std::allocator_traits::deallocate (inline) 0 0% 43.00% 273ms 3.47% std::_Rb_tree::_M_drop_node (inline) 83ms 1.06% 44.05% 266ms 3.38% std::_Rb_tree::_M_clone_node (inline) 2ms 0.025% 44.08% 263ms 3.35% CellProliferativeTypesWriter::VisitCell 6ms 0.076% 44.15% 256ms 3.26% ___vsnprintf 65ms 0.83% 44.98% 252ms 3.21% mergehulls 0 0% 44.98% 251ms 3.19% __vsnprintf_internal (inline) 29ms 0.37% 45.35% 248ms 3.16% __printf_buffer 4ms 0.051% 45.40% 222ms 2.82% CellPropertyCollection::HasProperty 0 0% 45.40% 221ms 2.81% Cell::HasCellProperty (inline) 0 0% 45.40% 221ms 2.81% std::_Rb_tree::_M_put_node (inline) 19ms 0.24% 45.64% 214ms 2.72% TetrahedralMesh::Clear 4ms 0.051% 45.69% 209ms 2.66% AbstractCellProperty::IsType (inline) 70ms 0.89% 46.58% 206ms 2.62% std::_Rb_tree::_M_get_insert_unique_pos (inline) 4ms 0.051% 46.63% 200ms 2.54% AbstractPhaseBasedCellCycleModel::ReadyToDivide 172ms 2.19% 48.82% 200ms 2.54% _int_free 1ms 0.013% 48.84% 197ms 2.51% Element::RegisterWithNodes (inline) 16ms 0.2% 49.04% 196ms 2.49% __printf_fp_l_buffer 0 0% 49.04% 196ms 2.49% __printf_fp_spec (inline) 2ms 0.025% 49.06% 193ms 2.46% Node::AddElement 12ms 0.15% 49.22% 192ms 2.44% AbstractSimplePhaseBasedCellCycleModel::UpdateCellCyclePhase 91ms 1.16% 50.38% 176ms 2.24% __printf_fp_buffer_1 35ms 0.45% 50.82% 166ms 2.11% AbstractCellProperty::IsSame 0 0% 50.82% 166ms 2.11% std::basic_ofstream::basic_ofstream (inline) 0 0% 50.82% 158ms 2.01% std::basic_ofstream::open (inline) 2ms 0.025% 50.85% 157ms 2.00% std::basic_filebuf::open 4ms 0.051% 50.90% 150ms 1.91% MeshBasedCellPopulation::SpringsEnd (inline) 38ms 0.48% 51.38% 141ms 1.79% TetrahedralMesh::EdgesEnd (partial-inline) 0 0% 51.38% 139ms 1.77% OutputFileHandler::CommonConstructor 0 0% 51.38% 139ms 1.77% OutputFileHandler::OutputFileHandler 0 0% 51.38% 135ms 1.72% OutputFileHandler::MakeFoldersAndReturnFullPath 4ms 0.051% 51.43% 134ms 1.71% alternateaxes 25ms 0.32% 51.75% 134ms 1.71% std::num_put::_M_insert_int 14ms 0.18% 51.93% 133ms 1.69% AbstractTetrahedralElement::CalculateJacobian 12ms 0.15% 52.08% 132ms 1.68% AbstractCellPopulation::Iterator::IsRealCell (inline) 1ms 0.013% 52.09% 132ms 1.68% std::__basic_file::open 0 0% 52.09% 131ms 1.67% AbstractCellPopulation::Iterator::operator++ (inline) 0 0% 52.09% 131ms 1.67% _IO_new_fopen 0 0% 52.09% 131ms 1.67% __fopen_internal (inline) 32ms 0.41% 52.50% 131ms 1.67% std::type_info::operator== (inline) 59ms 0.75% 53.25% 129ms 1.64% std::__ostream_insert 1ms 0.013% 53.26% 128ms 1.63% _IO_new_file_fopen 118ms 1.50% 54.77% 128ms 1.63% vertexmedian 1ms 0.013% 54.78% 127ms 1.62% AbstractCellBasedWriter::CloseFile 0 0% 54.78% 127ms 1.62% AbstractCellPopulation::CloseRoundRobinWritersFiles 3ms 0.038% 54.82% 127ms 1.62% boost::numeric::ublas::vector_assign (inline) 0 0% 54.82% 126ms 1.60% std::basic_filebuf::close 0 0% 54.82% 126ms 1.60% std::basic_ofstream::close (inline) 4ms 0.051% 54.87% 125ms 1.59% Node::~Node 0 0% 54.87% 123ms 1.57% __GI__IO_file_open 0 0% 54.87% 121ms 1.54% FilesystemPermissions::SetFilePermissions (inline) 2ms 0.025% 54.89% 121ms 1.54% std::filesystem::permissions 4ms 0.051% 54.94% 120ms 1.53% boost::numeric::ublas::c_vector::c_vector (inline) 119ms 1.51% 56.46% 119ms 1.51% __GI_fchmodat 2ms 0.025% 56.48% 117ms 1.49% std::vector::push_back (inline) 12ms 0.15% 56.64% 116ms 1.48% boost::detail::shared_count::~shared_count (inline) 0 0% 56.64% 116ms 1.48% boost::shared_ptr::~shared_ptr (inline) 12ms 0.15% 56.79% 115ms 1.46% std::_Rb_tree_const_iterator::operator++ (inline) 1ms 0.013% 56.80% 115ms 1.46% std::_Vector_base::_M_allocate (inline) 113ms 1.44% 58.24% 113ms 1.44% incircle 58ms 0.74% 58.98% 112ms 1.43% boost::shared_ptr::shared_ptr (inline) 112ms 1.43% 60.40% 112ms 1.43% std::_Rb_tree_increment 7ms 0.089% 60.49% 111ms 1.41% std::vector::_M_realloc_insert 1ms 0.013% 60.50% 110ms 1.40% TetrahedralMesh::RefreshJacobianCachedData 107ms 1.36% 61.87% 107ms 1.36% __libc_open64 1ms 0.013% 61.88% 102ms 1.30% AbstractCentreBasedCellPopulation::IsCellAssociatedWithADeletedLocation 6ms 0.076% 61.95% 102ms 1.30% AbstractTetrahedralElement::CalculateInverseJacobian 100ms 1.27% 63.23% 102ms 1.30% boost::detail::sp_counted_base::release 102ms 1.30% 64.52% 102ms 1.30% std::_Rb_tree_insert_and_rebalance 4ms 0.051% 64.58% 102ms 1.30% std::operator<< (inline) 3ms 0.038% 64.61% 99ms 1.26% AbstractTetrahedralElement::AbstractTetrahedralElement 19ms 0.24% 64.86% 97ms 1.23% AbstractTetrahedralElement::RefreshJacobian 31ms 0.39% 65.25% 96ms 1.22% boost::numeric::ublas::indexing_vector_assign 2ms 0.025% 65.28% 96ms 1.22% std::basic_filebuf::_M_terminate_output 70ms 0.89% 66.17% 96ms 1.22% std::basic_filebuf::xsputn 2ms 0.025% 66.19% 95ms 1.21% AbstractCentreBasedCellPopulation::GetNodeCorrespondingToCell (partial-inline) 2ms 0.025% 66.22% 95ms 1.21% std::basic_filebuf::overflow 0 0% 66.22% 93ms 1.18% std::basic_filebuf::_M_convert_to_external 0 0% 66.22% 92ms 1.17% std::__basic_file::xsputn 91ms 1.16% 67.37% 91ms 1.16% __GI___libc_write 47ms 0.6% 67.97% 87ms 1.11% TetrahedralMesh::EdgeIterator::EdgeIterator (partial-inline) 1ms 0.013% 67.99% 84ms 1.07% Cell::GetCellId 14ms 0.18% 68.16% 83ms 1.06% MeshBasedCellPopulation::SpringIterator::SpringIterator 2ms 0.025% 68.19% 81ms 1.03% AbstractCellPopulation::GetLocationIndexUsingCell 9ms 0.11% 68.30% 79ms 1.01% CellPropertyCollection::AddProperty 78ms 0.99% 69.30% 78ms 0.99% [libchaste_cell_based.so] 73ms 0.93% 70.23% 73ms 0.93% TetrahedralMesh::EdgeIterator::operator!= (partial-inline) 4ms 0.051% 70.28% 70ms 0.89% TetrahedralMesh::EdgeIterator::GetNodeB 70ms 0.89% 71.17% 70ms 0.89% counterclockwise 24ms 0.31% 71.47% 69ms 0.88% AbstractElement::GetNodeLocation 0 0% 71.47% 69ms 0.88% FilesystemPermissions::CreateDirectoryWithPermissions (inline) 50ms 0.64% 72.11% 69ms 0.88% std::basic_streambuf::xsputn 0 0% 72.11% 69ms 0.88% std::filesystem::create_directory 57ms 0.73% 72.83% 68ms 0.87% AbstractElement::GetNodeGlobalIndex 56ms 0.71% 73.55% 68ms 0.87% vertexsort 66ms 0.84% 74.39% 66ms 0.84% __GI___fstatat64 2ms 0.025% 74.41% 66ms 0.84% std::filesystem::status 65ms 0.83% 75.24% 65ms 0.83% Node::GetIndex 48ms 0.61% 75.85% 64ms 0.81% malloc_consolidate 7ms 0.089% 75.94% 59ms 0.75% std::_Vector_base::_M_deallocate (inline) 48ms 0.61% 76.55% 59ms 0.75% std::num_put::do_put 59ms 0.75% 77.30% 59ms 0.75% std::vector::size (inline) 58ms 0.74% 78.04% 58ms 0.74% [libchaste_mesh.so] 57ms 0.73% 78.76% 57ms 0.73% boost::shared_ptr::operator-> (inline) 0 0% 78.76% 56ms 0.71% tcache_get (inline) 56ms 0.71% 79.48% 56ms 0.71% tcache_get_n (inline) 32ms 0.41% 79.88% 55ms 0.7% AbstractTetrahedralMesh::GetElement 54ms 0.69% 80.57% 54ms 0.69% __memcpy_avx_unaligned_erms 54ms 0.69% 81.26% 54ms 0.69% boost::detail::shared_count::shared_count (inline) 0 0% 81.26% 52ms 0.66% AbstractCentreBasedCellPopulation::CreateCellPair 4ms 0.051% 81.31% 52ms 0.66% Node::ConstructNodeAttributes (inline) 0 0% 81.31% 52ms 0.66% std::_Rb_tree::_M_destroy_node (inline) 0 0% 81.31% 52ms 0.66% std::__new_allocator::destroy (inline) 0 0% 81.31% 52ms 0.66% std::allocator_traits::destroy (inline) 20ms 0.25% 81.56% 50ms 0.64% AbstractCellCycleModel::GetAge 4ms 0.051% 81.61% 50ms 0.64% TetrahedralMesh::EdgeIterator::GetNodeA 0 0% 81.61% 49ms 0.62% TetrahedralMesh::EdgeIterator::~EdgeIterator (inline) 0 0% 81.61% 48ms 0.61% MeshBasedCellPopulation::SpringIterator::~SpringIterator (inline) 0 0% 81.61% 48ms 0.61% Node::ClearAppliedForce 0 0% 81.61% 48ms 0.61% std::vector::vector (inline) 1ms 0.013% 81.63% 47ms 0.6% std::__new_allocator::construct (inline) 0 0% 81.63% 47ms 0.6% std::allocator_traits::construct (inline) 44ms 0.56% 82.19% 44ms 0.56% [libstdc++.so.6.0.33] 0 0% 82.19% 44ms 0.56% std::_Rb_tree::_M_construct_node (inline) 44ms 0.56% 82.75% 44ms 0.56% std::ostream::sentry::sentry 43ms 0.55% 83.29% 43ms 0.55% Node::IsDeleted 0 0% 83.29% 43ms 0.55% std::_Rb_tree::_M_emplace_hint_unique 24ms 0.31% 83.60% 42ms 0.53% hack_digit 0 0% 83.60% 41ms 0.52% std::_Vector_base::_Vector_base (inline) 14ms 0.18% 83.78% 40ms 0.51% AbstractTetrahedralMesh::GetNumAllElements 5ms 0.064% 83.84% 40ms 0.51% Element::~Element