Hdf5ToMeshalyzerConverter< ELEMENT_DIM, SPACE_DIM > Class Template Reference

#include <Hdf5ToMeshalyzerConverter.hpp>

Inheritance diagram for Hdf5ToMeshalyzerConverter< ELEMENT_DIM, SPACE_DIM >:

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Collaboration diagram for Hdf5ToMeshalyzerConverter< ELEMENT_DIM, SPACE_DIM >:

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List of all members.

Public Member Functions
	Hdf5ToMeshalyzerConverter (std::string inputDirectory, std::string fileBaseName, AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > *pMesh)
Private Member Functions
void	Write (std::string type)

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Detailed Description

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class Hdf5ToMeshalyzerConverter< ELEMENT_DIM, SPACE_DIM >

This class converts from Hdf5 format to meshalyzer format, ie, for voltage, one file, which looks like

V_node_0_time_0 .. V_node_N_time_0 V_node_0_time_1 .. V_node_N_time_1 V_node_0_time_2 .. V_node_N_time_M

The files that are written are [base_name]_V.dat or [base_name]_Phi_e.dat, where [base_name] is the base name of the original .h5 file. The new files are written in the same directory as the .h5 file. All paths are relative to the CHASTE_TEST_OUTPUT directory.

Definition at line 54 of file Hdf5ToMeshalyzerConverter.hpp.

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Constructor & Destructor Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

Hdf5ToMeshalyzerConverter< ELEMENT_DIM, SPACE_DIM >::Hdf5ToMeshalyzerConverter	(	std::string	inputDirectory,
		std::string	fileBaseName,
		AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > *	pMesh
	)			[inline]

Constructor, which does the conversion.

Note:

This method is collective, and hence must be called by all processes.

Parameters:

	inputDirectory	The input directory, relative to CHASTE_TEST_OUTPUT, where the .h5 file has been written
	fileBaseName	The base name of the data file.
	pMesh	Pointer to the mesh.

Todo:

What if the mesh has been scaled, translated or rotated?

Definition at line 83 of file Hdf5ToMeshalyzerConverter.cpp.

References PetscTools::Barrier(), HeartConfig::GetOutputDirectory(), Hdf5DataReader::GetVariableNames(), HeartConfig::Instance(), AbstractHdf5Converter< ELEMENT_DIM, SPACE_DIM >::mpMesh, AbstractHdf5Converter< ELEMENT_DIM, SPACE_DIM >::mpReader, Hdf5ToMeshalyzerConverter< ELEMENT_DIM, SPACE_DIM >::Write(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMesh(), and AbstractMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMeshReader().

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Member Function Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

void Hdf5ToMeshalyzerConverter< ELEMENT_DIM, SPACE_DIM >::Write

(

std::string

type

)

[inline, private]

A helper method which takes in a string, which must be 'V' or 'Phi_e' and reads the data corresponding to that string, writing it out in meshalyzer format.

Parameters:

type

- the type of data stored in this file (V/Phi_e)

Definition at line 42 of file Hdf5ToMeshalyzerConverter.cpp.

References PetscTools::AmMaster(), DistributedVectorFactory::CreateVec(), Hdf5DataReader::GetNumberOfRows(), ChasteBuildInfo::GetProvenanceString(), ReplicatableVector::GetSize(), Hdf5DataReader::GetUnlimitedDimensionValues(), Hdf5DataReader::GetVariableOverNodes(), AbstractHdf5Converter< ELEMENT_DIM, SPACE_DIM >::mFileBaseName, AbstractHdf5Converter< ELEMENT_DIM, SPACE_DIM >::mpOutputFileHandler, AbstractHdf5Converter< ELEMENT_DIM, SPACE_DIM >::mpReader, OutputFileHandler::OpenOutputFile(), and ReplicatableVector::ReplicatePetscVector().

Referenced by Hdf5ToMeshalyzerConverter< ELEMENT_DIM, SPACE_DIM >::Hdf5ToMeshalyzerConverter().

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The documentation for this class was generated from the following files:

• heart/src/postprocessing/Hdf5ToMeshalyzerConverter.hpp
• heart/src/postprocessing/Hdf5ToMeshalyzerConverter.cpp