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Chaste Commit::333233612e3dcc941d260418acd7b5ccdc30390e
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#include <CellMutationStatesCountWriter.hpp>
Public Member Functions | |
CellMutationStatesCountWriter () | |
virtual void | WriteHeader (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation) |
void | VisitAnyPopulation (AbstractCellPopulation< SPACE_DIM, SPACE_DIM > *pCellPopulation) |
virtual void | Visit (MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation) |
virtual void | Visit (CaBasedCellPopulation< SPACE_DIM > *pCellPopulation) |
virtual void | Visit (NodeBasedCellPopulation< SPACE_DIM > *pCellPopulation) |
virtual void | Visit (PottsBasedCellPopulation< SPACE_DIM > *pCellPopulation) |
virtual void | Visit (VertexBasedCellPopulation< SPACE_DIM > *pCellPopulation) |
virtual void | Visit (ImmersedBoundaryCellPopulation< SPACE_DIM > *pCellPopulation) |
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AbstractCellPopulationCountWriter (const std::string &rFileName) | |
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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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std::string | mFileName |
out_stream | mpOutStream |
A class written using the visitor pattern for writing cell mutations states from a cell population to file.
The output file is called cellmutationstates.dat by default.
Definition at line 49 of file CellMutationStatesCountWriter.hpp.
CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::CellMutationStatesCountWriter | ( | ) |
Default constructor.
Definition at line 47 of file CellMutationStatesCountWriter.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 61 of file CellMutationStatesCountWriter.hpp.
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virtual |
Visit the population and write the number of cells in the population that have each mutation state.
Outputs a line of tab-separated values of the form: [num mutation state 0] [num mutation state 1] [num mutation state 2] ...
where [num mutation state 0] denotes the number of cells in the population that have the mutation state with index 0 in the registry of cell properties, and so on. These counts are computed through the cell population method GetCellMutationStateCount(). The ordering of mutation states is usually specified by the cell population method SetDefaultCellMutationStateAndProliferativeTypeOrdering().
This line is appended to the output written by AbstractCellBasedWriter, which is a single value [present simulation time], followed by a tab.
pCellPopulation | a pointer to the CaBasedCellPopulation to visit. |
Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.
Definition at line 104 of file CellMutationStatesCountWriter.cpp.
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virtual |
Visit the population and write the data.
Just passes through to VisitAnyPopulation
pCellPopulation | a pointer to the ImmersedBoundaryBasedCellPopulation to visit. |
Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.
Definition at line 128 of file CellMutationStatesCountWriter.cpp.
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virtual |
Visit the population and write the number of cells in the population that have each mutation state.
Outputs a line of tab-separated values of the form: [num mutation state 0] [num mutation state 1] [num mutation state 2] ...
where [num mutation state 0] denotes the number of cells in the population that have the mutation state with index 0 in the registry of cell properties, and so on. These counts are computed through the cell population method GetCellMutationStateCount(). The ordering of mutation states is usually specified by the cell population method SetDefaultCellMutationStateAndProliferativeTypeOrdering().
This line is appended to the output written by AbstractCellBasedWriter, which is a single value [present simulation time], followed by a tab.
pCellPopulation | a pointer to the MeshBasedCellPopulation to visit. |
Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.
Definition at line 90 of file CellMutationStatesCountWriter.cpp.
References PetscTools::AmMaster(), and AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetCellMutationStateCount().
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virtual |
Visit the population and write the number of cells in the population that have each mutation state.
Outputs a line of tab-separated values of the form: [num mutation state 0] [num mutation state 1] [num mutation state 2] ...
where [num mutation state 0] denotes the number of cells in the population that have the mutation state with index 0 in the registry of cell properties, and so on. These counts are computed through the cell population method GetCellMutationStateCount(). The ordering of mutation states is usually specified by the cell population method SetDefaultCellMutationStateAndProliferativeTypeOrdering().
This line is appended to the output written by AbstractCellBasedWriter, which is a single value [present simulation time], followed by a tab.
pCellPopulation | a pointer to the NodeBasedCellPopulation to visit. |
Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.
Definition at line 110 of file CellMutationStatesCountWriter.cpp.
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virtual |
Visit the population and write the number of cells in the population that have each mutation state.
Outputs a line of tab-separated values of the form: [num mutation state 0] [num mutation state 1] [num mutation state 2] ...
where [num mutation state 0] denotes the number of cells in the population that have the mutation state with index 0 in the registry of cell properties, and so on. These counts are computed through the cell population method GetCellMutationStateCount(). The ordering of mutation states is usually specified by the cell population method SetDefaultCellMutationStateAndProliferativeTypeOrdering().
This line is appended to the output written by AbstractCellBasedWriter, which is a single value [present simulation time], followed by a tab.
pCellPopulation | a pointer to the PottsBasedCellPopulation to visit. |
Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.
Definition at line 116 of file CellMutationStatesCountWriter.cpp.
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virtual |
Visit the population and write the number of cells in the population that have each mutation state.
Outputs a line of tab-separated values of the form: [num mutation state 0] [num mutation state 1] [num mutation state 2] ...
where [num mutation state 0] denotes the number of cells in the population that have the mutation state with index 0 in the registry of cell properties, and so on. These counts are computed through the cell population method GetCellMutationStateCount(). The ordering of mutation states is usually specified by the cell population method SetDefaultCellMutationStateAndProliferativeTypeOrdering().
This line is appended to the output written by AbstractCellBasedWriter, which is a single value [present simulation time], followed by a tab.
pCellPopulation | a pointer to the VertexBasedCellPopulation to visit. |
Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.
Definition at line 122 of file CellMutationStatesCountWriter.cpp.
void CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::VisitAnyPopulation | ( | AbstractCellPopulation< SPACE_DIM, SPACE_DIM > * | pCellPopulation | ) |
A general method for writing to any population.
pCellPopulation | the population to write |
Definition at line 76 of file CellMutationStatesCountWriter.cpp.
References PetscTools::AmMaster(), and AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetCellMutationStateCount().
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virtual |
Overridden WriteHeader() method.
Write the header to file.
pCellPopulation | a pointer to the population to be written. |
Reimplemented from AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.
Definition at line 53 of file CellMutationStatesCountWriter.cpp.
References PetscTools::AmMaster(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetCellPropertyRegistry(), and AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::SetDefaultCellMutationStateAndProliferativeTypeOrdering().
Needed for serialization.
Definition at line 53 of file CellMutationStatesCountWriter.hpp.