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Chaste Commit::333233612e3dcc941d260418acd7b5ccdc30390e
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#include <CellDeltaNotchWriter.hpp>
Public Member Functions | |
CellDeltaNotchWriter () | |
double | GetCellDataForVtkOutput (CellPtr pCell, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation) |
virtual void | VisitCell (CellPtr pCell, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation) |
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AbstractCellWriter (const std::string &rFileName) | |
virtual c_vector< double, SPACE_DIM > | GetVectorCellDataForVtkOutput (CellPtr pCell, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation) |
bool | GetOutputScalarData () |
bool | GetOutputVectorData () |
void | SetVtkCellDataName (std::string vtkCellDataName) |
void | SetVtkVectorCellDataName (std::string vtkCellDataName) |
std::string | GetVtkCellDataName () |
std::string | GetVtkVectorCellDataName () |
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AbstractCellBasedWriter (const std::string &rFileName) | |
virtual | ~AbstractCellBasedWriter () |
void | CloseFile () |
virtual void | OpenOutputFile (OutputFileHandler &rOutputFileHandler) |
void | OpenOutputFileForAppend (OutputFileHandler &rOutputFileHandler) |
virtual void | WriteTimeStamp () |
virtual void | WriteNewline () |
void | SetFileName (std::string fileName) |
std::string | GetFileName () |
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virtual | ~Identifiable () |
std::string | GetIdentifier () const |
Private Member Functions | |
template<class Archive > | |
void | serialize (Archive &archive, const unsigned int version) |
Friends | |
class | boost::serialization::access |
Additional Inherited Members | |
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bool | mOutputScalarData |
bool | mOutputVectorData |
std::string | mVtkCellDataName |
std::string | mVtkVectorCellDataName |
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std::string | mFileName |
out_stream | mpOutStream |
A class written using the visitor pattern for writing to file, for each cell, the level of delta, notch and mean level of delta among neighbouring cells.
The output file is called celldeltanotch.dat by default. If VTK is switched on, then the writer also specifies the VTK output for each cell, which is stored in the VTK cell data "Cell delta" by default.
Note: if you use a DeltaNotchSrnModel then the delta and notch levels are stored in CellData, and thus (if VTK is switched on) will be output as VTK cell data already.
Definition at line 56 of file CellDeltaNotchWriter.hpp.
CellDeltaNotchWriter< ELEMENT_DIM, SPACE_DIM >::CellDeltaNotchWriter | ( | ) |
Default constructor.
Definition at line 40 of file CellDeltaNotchWriter.cpp.
References AbstractCellWriter< ELEMENT_DIM, SPACE_DIM >::mVtkCellDataName.
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virtual |
Overridden GetCellDataForVtkOutput() method.
Get a double associated with a cell. This method reduces duplication of code between the methods VisitCell() and AddVtkData().
pCell | a cell |
pCellPopulation | a pointer to the cell population owning the cell |
Reimplemented from AbstractCellWriter< ELEMENT_DIM, SPACE_DIM >.
Definition at line 47 of file CellDeltaNotchWriter.cpp.
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inlineprivate |
Serialize the object and its member variables.
archive | the archive |
version | the current version of this class |
Definition at line 68 of file CellDeltaNotchWriter.hpp.
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virtual |
Overridden VisitCell() method.
Visit a cell and write its delta and notch data.
Outputs a line of space-separated values of the form: ...[location index] [cell id] [x-pos] [y-pos] [z-pos] [delta] [notch] [mean neighbouring delta]... with [y-pos] and [z-pos] included for 2 and 3 dimensional simulations, respectively.
This is appended to the output written by AbstractCellBasedWriter, which is a single value [present simulation time], followed by a tab.
pCell | a cell |
pCellPopulation | a pointer to the cell population owning the cell |
Implements AbstractCellWriter< ELEMENT_DIM, SPACE_DIM >.
Definition at line 54 of file CellDeltaNotchWriter.cpp.
References AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetLocationIndexUsingCell(), and AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetLocationOfCellCentre().
Needed for serialization.
Definition at line 60 of file CellDeltaNotchWriter.hpp.