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Chaste Commit::333233612e3dcc941d260418acd7b5ccdc30390e
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#include <ImmersedBoundarySvgWriter.hpp>
Public Member Functions | |
ImmersedBoundarySvgWriter () | |
virtual | ~ImmersedBoundarySvgWriter () |
virtual void | UpdateAtEndOfTimeStep (AbstractCellPopulation< DIM, DIM > &rCellPopulation) |
virtual void | SetupSolve (AbstractCellPopulation< DIM, DIM > &rCellPopulation, std::string outputDirectory) |
void | AddPointToSvgFile (out_stream &rSvgFile, c_vector< double, DIM > location, unsigned region, double rad) |
void | OutputSimulationModifierParameters (out_stream &rParamsFile) |
unsigned | GetSamplingMultiple () const |
void | SetSamplingMultiple (unsigned samplingMultiple) |
double | GetSvgSize () const |
void | SetSvgSize (double svgSize) |
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AbstractCellBasedSimulationModifier () | |
virtual | ~AbstractCellBasedSimulationModifier () |
virtual void | UpdateAtEndOfTimeStep (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation)=0 |
virtual void | UpdateAtEndOfOutputTimeStep (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation) |
virtual void | SetupSolve (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation, std::string outputDirectory)=0 |
virtual void | UpdateAtEndOfSolve (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation) |
void | OutputSimulationModifierInfo (out_stream &rParamsFile) |
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virtual | ~Identifiable () |
std::string | GetIdentifier () const |
Private Member Functions | |
template<class Archive > | |
void | serialize (Archive &archive, const unsigned int version) |
Private Attributes | |
unsigned | mSamplingMultiple |
double | mSvgSize |
std::string | mOutputDirectory |
std::string | mSvgHeader |
std::string | mSvgFooter |
Friends | |
class | TestImmersedBoundarySvgWriter |
class | boost::serialization::access |
A modifier class which after each simulation time step exports the simulation geometry to a scalable vector graphic (SVG) file.
Definition at line 50 of file ImmersedBoundarySvgWriter.hpp.
ImmersedBoundarySvgWriter< DIM >::ImmersedBoundarySvgWriter | ( | ) |
Default constructor.
Definition at line 40 of file ImmersedBoundarySvgWriter.cpp.
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virtual |
Destructor.
Definition at line 51 of file ImmersedBoundarySvgWriter.cpp.
void ImmersedBoundarySvgWriter< DIM >::AddPointToSvgFile | ( | out_stream & | rSvgFile, |
c_vector< double, DIM > | location, | ||
unsigned | region, | ||
double | rad | ||
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Helper method for UpdateAtEndOfTimeStep().
Add a circle representing a point location to the svg file.
rSvgFile | the svg file stream to add to |
location | the location of the point |
region | metadata to allow different colouring for points |
rad | the radius of circle representing the point |
Definition at line 147 of file ImmersedBoundarySvgWriter.cpp.
unsigned ImmersedBoundarySvgWriter< DIM >::GetSamplingMultiple | ( | ) | const |
Definition at line 203 of file ImmersedBoundarySvgWriter.cpp.
double ImmersedBoundarySvgWriter< DIM >::GetSvgSize | ( | ) | const |
Definition at line 216 of file ImmersedBoundarySvgWriter.cpp.
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virtual |
Overridden OutputSimulationModifierParameters() method. Output any simulation modifier parameters to file.
rParamsFile | the file stream to which the parameters are output |
Implements AbstractCellBasedSimulationModifier< DIM, DIM >.
Definition at line 195 of file ImmersedBoundarySvgWriter.cpp.
References AbstractCellBasedSimulationModifier< ELEMENT_DIM, SPACE_DIM >::OutputSimulationModifierParameters().
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inlineprivate |
Boost Serialization method for archiving/checkpointing. Archives the object and its member variables.
archive | The boost archive. |
version | The current version of this class. |
Definition at line 79 of file ImmersedBoundarySvgWriter.hpp.
References ImmersedBoundarySvgWriter< DIM >::mOutputDirectory, ImmersedBoundarySvgWriter< DIM >::mSamplingMultiple, ImmersedBoundarySvgWriter< DIM >::mSvgFooter, ImmersedBoundarySvgWriter< DIM >::mSvgHeader, and ImmersedBoundarySvgWriter< DIM >::mSvgSize.
void ImmersedBoundarySvgWriter< DIM >::SetSamplingMultiple | ( | unsigned | samplingMultiple | ) |
samplingMultiple | the new value of mSamplingMultiple |
Definition at line 209 of file ImmersedBoundarySvgWriter.cpp.
void ImmersedBoundarySvgWriter< DIM >::SetSvgSize | ( | double | svgSize | ) |
svgSize | the new value of mSvgSize |
Definition at line 222 of file ImmersedBoundarySvgWriter.cpp.
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virtual |
Overridden SetupSolve() method.
Specify what to do in the simulation before the start of the time loop.
rCellPopulation | reference to the cell population |
outputDirectory | the output directory, relative to where Chaste output is stored |
Definition at line 90 of file ImmersedBoundarySvgWriter.cpp.
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virtual |
Overridden UpdateAtEndOfTimeStep() method.
Specify what to do in the simulation at the end of each time step.
rCellPopulation | reference to the cell population |
Definition at line 56 of file ImmersedBoundarySvgWriter.cpp.
References ImmersedBoundaryMesh< ELEMENT_DIM, SPACE_DIM >::GetAverageNodeSpacingOfElement(), AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNodeIteratorBegin(), AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNodeIteratorEnd(), SimulationTime::GetTimeStepsElapsed(), SimulationTime::Instance(), OutputFileHandler::OpenOutputFile(), and AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::rGetMesh().
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friend |
Needed for serialization.
Definition at line 70 of file ImmersedBoundarySvgWriter.hpp.
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friend |
Definition at line 67 of file ImmersedBoundarySvgWriter.hpp.
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private |
Set to the output directory during SetupSolve()
Definition at line 59 of file ImmersedBoundarySvgWriter.hpp.
Referenced by ImmersedBoundarySvgWriter< DIM >::serialize().
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private |
The sampling frequency for exporting svg frames
Definition at line 53 of file ImmersedBoundarySvgWriter.hpp.
Referenced by ImmersedBoundarySvgWriter< DIM >::serialize().
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private |
The svg file footer, which will be constant for a given simulation
Definition at line 65 of file ImmersedBoundarySvgWriter.hpp.
Referenced by ImmersedBoundarySvgWriter< DIM >::serialize().
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private |
The svg file header, which will be constant for a given simulation
Definition at line 62 of file ImmersedBoundarySvgWriter.hpp.
Referenced by ImmersedBoundarySvgWriter< DIM >::serialize().
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private |
The width and height in pixels of the svg file
Definition at line 56 of file ImmersedBoundarySvgWriter.hpp.
Referenced by ImmersedBoundarySvgWriter< DIM >::serialize().