ASPECT
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Classes | |
struct | OutputHistory |
Public Member Functions | |
Visualization () | |
std::pair< std::string, std::string > | execute (TableHandler &statistics) override |
void | update () override |
std::list< std::string > | required_other_postprocessors () const override |
void | parse_parameters (ParameterHandler &prm) override |
void | save (std::map< std::string, std::string > &status_strings) const override |
void | load (const std::map< std::string, std::string > &status_strings) override |
template<class Archive > | |
void | serialize (Archive &ar, const unsigned int version) |
bool | output_pointwise_stress_and_strain () const |
DeclException1 (ExcPostprocessorNameNotFound, std::string,<< "Could not find entry <"<< arg1<< "> among the names of registered postprocessors.") | |
Public Member Functions inherited from aspect::Plugins::InterfaceBase | |
virtual | ~InterfaceBase ()=default |
virtual void | initialize () |
Public Member Functions inherited from aspect::SimulatorAccess< dim > | |
SimulatorAccess () | |
SimulatorAccess (const Simulator< dim > &simulator_object) | |
virtual | ~SimulatorAccess ()=default |
virtual void | initialize_simulator (const Simulator< dim > &simulator_object) |
const Introspection< dim > & | introspection () const |
const Simulator< dim > & | get_simulator () const |
const Parameters< dim > & | get_parameters () const |
SimulatorSignals< dim > & | get_signals () const |
MPI_Comm | get_mpi_communicator () const |
TimerOutput & | get_computing_timer () const |
const ConditionalOStream & | get_pcout () const |
double | get_time () const |
double | get_timestep () const |
double | get_old_timestep () const |
unsigned int | get_timestep_number () const |
const TimeStepping::Manager< dim > & | get_timestepping_manager () const |
unsigned int | get_nonlinear_iteration () const |
const parallel::distributed::Triangulation< dim > & | get_triangulation () const |
double | get_volume () const |
const Mapping< dim > & | get_mapping () const |
std::string | get_output_directory () const |
bool | include_adiabatic_heating () const |
bool | include_latent_heat () const |
bool | include_melt_transport () const |
int | get_stokes_velocity_degree () const |
double | get_adiabatic_surface_temperature () const |
double | get_surface_pressure () const |
bool | convert_output_to_years () const |
unsigned int | get_pre_refinement_step () const |
unsigned int | n_compositional_fields () const |
double | get_end_time () const |
void | get_refinement_criteria (Vector< float > &estimated_error_per_cell) const |
void | get_artificial_viscosity (Vector< float > &viscosity_per_cell, const bool skip_interior_cells=false) const |
void | get_artificial_viscosity_composition (Vector< float > &viscosity_per_cell, const unsigned int compositional_variable) const |
const LinearAlgebra::BlockVector & | get_current_linearization_point () const |
const LinearAlgebra::BlockVector & | get_solution () const |
const LinearAlgebra::BlockVector & | get_old_solution () const |
const LinearAlgebra::BlockVector & | get_old_old_solution () const |
const LinearAlgebra::BlockVector & | get_reaction_vector () const |
const LinearAlgebra::BlockVector & | get_mesh_velocity () const |
const DoFHandler< dim > & | get_dof_handler () const |
const FiniteElement< dim > & | get_fe () const |
const LinearAlgebra::BlockSparseMatrix & | get_system_matrix () const |
const LinearAlgebra::BlockSparseMatrix & | get_system_preconditioner_matrix () const |
const MaterialModel::Interface< dim > & | get_material_model () const |
const GravityModel::Interface< dim > & | get_gravity_model () const |
const InitialTopographyModel::Interface< dim > & | get_initial_topography_model () const |
const GeometryModel::Interface< dim > & | get_geometry_model () const |
const AdiabaticConditions::Interface< dim > & | get_adiabatic_conditions () const |
bool | has_boundary_temperature () const |
const BoundaryTemperature::Manager< dim > & | get_boundary_temperature_manager () const |
const BoundaryHeatFlux::Interface< dim > & | get_boundary_heat_flux () const |
bool | has_boundary_composition () const |
const BoundaryComposition::Manager< dim > & | get_boundary_composition_manager () const |
const BoundaryTraction::Manager< dim > & | get_boundary_traction_manager () const |
std::shared_ptr< const InitialTemperature::Manager< dim > > | get_initial_temperature_manager_pointer () const |
const InitialTemperature::Manager< dim > & | get_initial_temperature_manager () const |
std::shared_ptr< const InitialComposition::Manager< dim > > | get_initial_composition_manager_pointer () const |
const InitialComposition::Manager< dim > & | get_initial_composition_manager () const |
const std::set< types::boundary_id > & | get_fixed_temperature_boundary_indicators () const |
const std::set< types::boundary_id > & | get_fixed_heat_flux_boundary_indicators () const |
const std::set< types::boundary_id > & | get_fixed_composition_boundary_indicators () const |
const std::set< types::boundary_id > & | get_mesh_deformation_boundary_indicators () const |
const BoundaryVelocity::Manager< dim > & | get_boundary_velocity_manager () const |
const HeatingModel::Manager< dim > & | get_heating_model_manager () const |
const MeshRefinement::Manager< dim > & | get_mesh_refinement_manager () const |
const MeltHandler< dim > & | get_melt_handler () const |
const VolumeOfFluidHandler< dim > & | get_volume_of_fluid_handler () const |
const NewtonHandler< dim > & | get_newton_handler () const |
const MeshDeformation::MeshDeformationHandler< dim > & | get_mesh_deformation_handler () const |
const LateralAveraging< dim > & | get_lateral_averaging () const |
const AffineConstraints< double > & | get_current_constraints () const |
bool | simulator_is_past_initialization () const |
double | get_pressure_scaling () const |
bool | pressure_rhs_needs_compatibility_modification () const |
bool | model_has_prescribed_stokes_solution () const |
TableHandler & | get_statistics_object () const |
const Postprocess::Manager< dim > & | get_postprocess_manager () const |
unsigned int | n_particle_managers () const |
const Particle::Manager< dim > & | get_particle_manager (const unsigned int particle_manager_index) const |
Particle::Manager< dim > & | get_particle_manager (const unsigned int particle_manager_index) |
bool | is_stokes_matrix_free () |
const StokesMatrixFreeHandler< dim > & | get_stokes_matrix_free () const |
RotationProperties< dim > | compute_net_angular_momentum (const bool use_constant_density, const LinearAlgebra::BlockVector &solution, const bool limit_to_top_faces=false) const |
Static Public Member Functions | |
static void | register_visualization_postprocessor (const std::string &name, const std::string &description, void(*declare_parameters_function)(ParameterHandler &), std::unique_ptr< VisualizationPostprocessors::Interface< dim >>(*factory_function)()) |
static void | declare_parameters (ParameterHandler &prm) |
static void | write_plugin_graph (std::ostream &output_stream) |
Static Public Member Functions inherited from aspect::Plugins::InterfaceBase | |
static void | declare_parameters (ParameterHandler &prm) |
Static Public Member Functions inherited from aspect::SimulatorAccess< dim > | |
static void | get_composition_values_at_q_point (const std::vector< std::vector< double >> &composition_values, const unsigned int q, std::vector< double > &composition_values_at_q_point) |
Private Member Functions | |
void | set_last_output_time (const double current_time) |
void | mesh_changed_signal () |
template<typename DataOutType > | |
void | write_description_files (const DataOutType &data_out, const std::string &solution_file_prefix, const std::vector< std::string > &filenames, OutputHistory &output_history) const |
template<typename DataOutType > | |
std::string | write_data_out_data (DataOutType &data_out, OutputHistory &output_history, const std::map< std::string, std::string > &visualization_field_names_and_units) const |
Static Private Member Functions | |
static void | writer (const std::string &filename, const std::string &temporary_filename, const std::string &file_contents) |
Private Attributes | |
double | output_interval |
double | last_output_time |
unsigned int | maximum_timesteps_between_outputs |
unsigned int | last_output_timestep |
unsigned int | output_file_number |
std::string | output_format |
unsigned int | group_files |
std::string | temporary_output_location |
bool | interpolate_output |
bool | filter_output |
bool | pointwise_stress_and_strain |
bool | write_higher_order_output |
bool | output_mesh_velocity |
bool | output_mesh_displacement |
bool | output_undeformed_mesh |
bool | output_base_variables_on_mesh_surface |
bool | write_in_background_thread |
std::list< std::unique_ptr< VisualizationPostprocessors::Interface< dim > > > | postprocessors |
OutputHistory | cell_output_history |
OutputHistory | face_output_history |
A postprocessor that generates graphical output in periodic intervals or every time step. The time interval between generating graphical output is obtained from the parameter file.
While this class acts as a plugin, i.e. as a postprocessor that can be registered with the postprocessing manager class aspect::Postprocess::Manager, this class at the same time also acts as a manager for plugins itself, namely for classes derived from the VisualizationPostprocessors::Interface class that are used to output different aspects of the solution, such as for example a computed seismic wave speed from temperature, velocity and pressure.
Definition at line 317 of file visualization.h.
aspect::Postprocess::Visualization< dim >::Visualization | ( | ) |
Constructor.
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Generate graphical output from the current solution.
Implements aspect::Postprocess::Interface< dim >.
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Update any temporary information needed by the visualization postprocessor.
Reimplemented from aspect::Plugins::InterfaceBase.
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A function that is used to register visualization postprocessor objects in such a way that the Manager can deal with all of them without having to know them by name. This allows the files in which individual postprocessors are implement to register these postprocessors, rather than also having to modify the Manage class by adding the new postprocessor class.
name | The name under which this visualization postprocessor is to be called in parameter files. |
description | A text description of what this visualization plugin does and that will be listed in the documentation of the parameter file. |
declare_parameters_function | A pointer to a function that declares the parameters for this postprocessor. |
factory_function | A pointer to a function that creates such a postprocessor object and returns a pointer to it. |
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A function that is used to indicate to the postprocessor manager which other postprocessor(s) the current one depends upon.
For the current class, we simply loop over all of the visualization postprocessors and collect what they want.
Reimplemented from aspect::Postprocess::Interface< dim >.
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Declare the parameters this class takes through input files.
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Read the parameters this class declares from the parameter file.
Reimplemented from aspect::Plugins::InterfaceBase.
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Save the state of this object.
Reimplemented from aspect::Postprocess::Interface< dim >.
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Restore the state of the object.
Reimplemented from aspect::Postprocess::Interface< dim >.
void aspect::Postprocess::Visualization< dim >::serialize | ( | Archive & | ar, |
const unsigned int | version | ||
) |
Serialize the contents of this class as far as they are not read from input parameter files.
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For the current plugin subsystem, write a connection graph of all of the plugins we know about, in the format that the programs dot and neato understand. This allows for a visualization of how all of the plugins that ASPECT knows about are interconnected, and connect to other parts of the ASPECT code.
output_stream | The stream to write the output to. |
bool aspect::Postprocess::Visualization< dim >::output_pointwise_stress_and_strain | ( | ) | const |
Return the value of the parameter pointwise_stress_and_strain
that is controlled by the parameter "Point-wise stress and strain".
aspect::Postprocess::Visualization< dim >::DeclException1 | ( | ExcPostprocessorNameNotFound | , |
std::string | |||
) |
Exception.
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Set the time output was supposed to be written. In the simplest case, this is the previous last output time plus the interval, but in general we'd like to ensure that it is the largest supposed output time, which is smaller than the current time, to avoid falling behind with last_output_time and having to catch up once the time step becomes larger. This is done after every output.
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Record that the mesh changed. This helps some output writers avoid writing the same mesh multiple times.
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A function that writes the text in the second argument to a file with the name given in the first argument. The function is run on a separate thread to allow computations to continue even though writing data is still continuing.
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Write the various descriptive record files. These files are used by visualization programs to identify which of the output files in a directory, possibly one file written by each processor, belong to a single time step and/or form the different time steps of a simulation. For Paraview, this is a .pvtu
file per time step and a .pvd
for all time steps. For VisIt it is a .visit
file per time step and one for all time steps.
data_out | The DataOut object that was used to write the solutions. |
solution_file_prefix | The stem of the filename to be written. |
filenames | List of filenames for the current output from all processors. |
output_history | The OutputHistory object to fill. |
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A function, called from the execute() function, that takes a DataOut object, does some preliminary work with it, and then writes the result out to files via the writer() function (in the case of VTU output) or through the XDMF facilities.
The function returns the base name of the output files produced, which can then be used for the statistics file and screen output.
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Interval between the generation of graphical output. This parameter is read from the input file and consequently is not part of the state that needs to be saved and restored.
Definition at line 436 of file visualization.h.
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A time (in seconds) at which the last graphical output was supposed to be produced. Used to check for the next necessary output time.
Definition at line 442 of file visualization.h.
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Maximum number of steps between the generation of graphical output. This parameter is read from the input file and consequently is not part of the state that needs to be saved and restored.
Definition at line 450 of file visualization.h.
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Timestep at which the last graphical output was produced Used to check for the next necessary output time.
Definition at line 456 of file visualization.h.
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Consecutively counted number indicating the how-manyth time we will create output the next time we get to it.
Definition at line 462 of file visualization.h.
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Graphical output format.
Definition at line 467 of file visualization.h.
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VTU file output supports grouping files from several CPUs into one file using MPI I/O when writing on a parallel filesystem. 0 means no grouping (and no parallel I/O). 1 will generate one big file containing the whole solution.
Definition at line 475 of file visualization.h.
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On large clusters it can be advantageous to first write the output to a temporary file on a local file system and later move this file to a network file system. If this variable is set to a non-empty string it will be interpreted as a temporary storage location.
Definition at line 484 of file visualization.h.
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deal.II offers the possibility to linearly interpolate output fields of higher order elements to a finer resolution. This somewhat compensates the fact that most visualization software only offers linear interpolation between grid points and therefore the output file is a very coarse representation of the actual solution field. Activating this option increases the spatial resolution in each dimension by a factor equal to the polynomial degree used for the velocity finite element (usually 2).
Definition at line 496 of file visualization.h.
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deal.II offers the possibility to filter duplicate vertices in HDF5 output files. This merges the vertices of adjacent cells and therefore saves disk space, but misrepresents discontinuous output properties. Activating this function reduces the disk space by about a factor of \(2^{dim}\) for hdf5 output.
Definition at line 505 of file visualization.h.
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If true, return quantities related to stresses and strain with point-wise values. Otherwise the values will be averaged on each cell.
Definition at line 512 of file visualization.h.
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deal.II offers the possibility to write vtu files with higher order representations of the output data. This means each cell will correctly show the higher order representation of the output data instead of the linear interpolation between vertices that ParaView and VisIt usually show. Note that activating this option is safe and recommended, but requires that (i) Output format'' is set to
vtu'', (ii) ``Interpolate output'' is set to true, (iii) you use a sufficiently new version of Paraview or VisIt to read the files (Paraview version 5.5 or newer, and VisIt version to be determined), and (iv) you use deal.II version 9.1.0 or newer.
Definition at line 525 of file visualization.h.
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For mesh deformation computations ASPECT uses an Arbitrary-Lagrangian-Eulerian formulation to handle deforming the domain, so the mesh has its own velocity field. This may be written as an output field by setting output_mesh_velocity to true.
Definition at line 533 of file visualization.h.
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For mesh deformation computations ASPECT uses an Arbitrary-Lagrangian-Eulerian formulation to handle deforming the domain, so the mesh has a field that determines the displacement from the reference configuration. This may be written as an output field by setting this flag to true.
Definition at line 542 of file visualization.h.
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For mesh deformation computations ASPECT uses an Arbitrary-Lagrangian-Eulerian formulation to handle deforming the domain, and we output the mesh in its deformed state by default. If this flag is set to true, the mesh is written undeformed.
Definition at line 550 of file visualization.h.
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Whether or not ASPECT should also generate output for the base variables velocity, (fluid pressure and velocity), pressure, temperature and the compositional fields on the surface of the mesh. The mesh surface includes all boundaries of the domain.
Definition at line 558 of file visualization.h.
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File operations can potentially take a long time, blocking the progress of the rest of the model run. Setting this variable to 'true' moves this process into a background thread, while the rest of the model continues.
Definition at line 566 of file visualization.h.
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A list of postprocessor objects that have been requested in the parameter file.
Definition at line 599 of file visualization.h.
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Information about the history of writing graphical output for cells (via DataOut).
Definition at line 677 of file visualization.h.
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Information about the history of writing graphical output for faces (via DataOutFaces).
Definition at line 683 of file visualization.h.