EBAMRIO.H File Reference

#include "LevelData.H"
#include "REAL.H"
#include "Vector.H"
#include "EBCellFAB.H"
#include "IntVectSet.H"
#include "EBISBox.H"
#include "EBISLayout.H"
#include "EBFaceFAB.H"
#include "EBFluxFAB.H"
#include <string>
#include "NamespaceHeader.H"
#include "NamespaceFooter.H"

Include dependency graph for EBAMRIO.H:

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Go to the source code of this file.

Macros
#define	_EBAMRIO_H_

Functions
void	writeEBHDF5 (const string &filename, const Vector< DisjointBoxLayout > &a_vectGrids, const Vector< LevelData< EBCellFAB > * > &a_vectData, const Vector< string > &a_vectNames, const ProblemDomain &a_domain, const Real &a_dx, const Real &a_dt, const Real &a_time, const Vector< int > &a_vectRatio, const int &a_numLevels, const bool &a_replaceCovered, const Vector< Real > &a_coveredValues, IntVect a_ghostVect=IntVect::Zero)
void	writeEBHDF5 (const string &filename, const Vector< DisjointBoxLayout > &a_vectGrids, const Vector< LevelData< EBCellFAB > * > *a_phase1, const Vector< LevelData< EBCellFAB > * > *a_phase2, const Vector< LevelData< FArrayBox > * > *a_levelSet, const Vector< string > &a_vectNames, const ProblemDomain &a_domain, const Real &a_dx, const Real &a_dt, const Real &a_time, const Vector< int > &a_vectRatio, const int &a_numLevels, const bool &a_replaceCovered, const Vector< Real > &a_coveredValues, IntVect a_ghostVect=IntVect::Zero)
void	writeEBHDF5 (const string &a_filename, const DisjointBoxLayout &a_grids, const LevelData< EBCellFAB > &a_data, const Vector< string > &a_vectNames, const ProblemDomain &a_domain, const Real &a_dx, const Real &a_dt, const Real &a_time, const bool &a_replaceCovered, const Vector< Real > &a_coveredValues, IntVect a_ghostVect=IntVect::Zero)
void	writeEBHDF5 (const string &a_filename, const Box &a_grid, const EBCellFAB &a_data, const Vector< string > &a_vectNames, const ProblemDomain &a_domain, const Real &a_dx, const Real &a_dt, const Real &a_time, const bool &a_replaceCovered, const Vector< Real > &a_coveredValues, IntVect a_ghostVect=IntVect::Zero)
void	writeEBFAB (const EBCellFAB *a_dataPtr)
void	viewEBFAB (const EBCellFAB *a_dataPtr)
void	browseEBFAB (const EBCellFAB *a_dataPtr)
void	writeEBFABname (const EBCellFAB *a_dataPtr, const char *a_filename)
void	viewEBFluxLD (const LevelData< EBFluxFAB > *a_dataPtr, int a_dir)
void	viewEBFace (const EBFaceFAB *a_dataPtr)
void	browseEBFace (const EBFaceFAB *a_dataPtr)
void	writeEBLevel (const LevelData< EBCellFAB > *a_dataPtr)
void	viewEBLevel (const LevelData< EBCellFAB > *a_dataPtr)
void	browseEBLevel (const LevelData< EBCellFAB > *a_dataPtr)
void	writeEBLevelname (const LevelData< EBCellFAB > *a_dataPtr, const char *a_filename)
void	writeEBAMR (const Vector< LevelData< EBCellFAB > * > *a_dataPtr)
void	viewEBAMR (const Vector< LevelData< EBCellFAB > * > *a_dataPtr)
void	visEBAMR (const Vector< LevelData< EBCellFAB > * > *a_dataPtr)
void	browseEBAMR (const Vector< LevelData< EBCellFAB > * > *a_dataPtr)
void	writeEBAMRname (const Vector< LevelData< EBCellFAB > * > *a_dataPtr, const char *a_filename)
void	writeIVFAB (const BaseIVFAB< Real > *a_dataPtr)
void	viewIVFAB (const BaseIVFAB< Real > *a_dataPtr)
void	browseIVFAB (const BaseIVFAB< Real > *a_dataPtr)
void	writeIVFABname (const BaseIVFAB< Real > *a_dataPtr, const char *a_filename)
void	writeIVLevel (const LevelData< BaseIVFAB< Real > > *a_dataPtr)
void	viewIVLevel (const LevelData< BaseIVFAB< Real > > *a_dataPtr)
void	browseIVLevel (const LevelData< BaseIVFAB< Real > > *a_dataPtr)
void	writeIVLevelname (const LevelData< BaseIVFAB< Real > > *a_dataPtr, const char *a_filename)
void	createEBFile (HDF5Handle &a_handle, const std::string &a_filename, int a_numLevels, const Vector< int > &a_refRatios, const ProblemDomain &a_coarseDomain, const RealVect &a_coarseDx, const IntVect &a_ghost)
void	createEBFile (HDF5Handle &a_handle, const std::string &a_filename, int a_numLevels, const Vector< int > &a_refRatios, const ProblemDomain &a_coarseDomain, const RealVect &a_origin, const RealVect &a_coarseDx, const RealVect &a_aspect, const IntVect &a_ghost)
void	headerEBFile (HDF5Handle &a_handle, int a_numLevels, const Vector< int > &a_refRatios, const ProblemDomain &a_coarseDomain, const RealVect &a_coarseDx, const IntVect &a_ghost)
void	headerEBFile (HDF5Handle &a_handle, int a_numLevels, const Vector< int > &a_refRatios, const ProblemDomain &a_coarseDomain, const RealVect &a_origin, const RealVect &a_coarseDx, const RealVect &a_aspect, const IntVect &a_ghost)
void	writeCellCenteredNames (HDF5Handle &a_handle, const Vector< std::string > &a_names)
void	writeNodeCenteredNames (HDF5Handle &a_handle, const Vector< std::string > &a_names)
void	writeFaceCenteredNames (HDF5Handle &a_handle, int a_direction, const Vector< std::string > &a_names)
void	writeCellCentered (HDF5Handle &a_handle, int a_level, const LevelData< EBCellFAB > *a_data, Interval interval=Interval())
	if no CellCenteredNames have been assigned, then dummy values of CC1..CCn are set More...
void	writeCellCentered (HDF5Handle &a_handle, int a_level, const LevelData< FArrayBox > *a_data, Interval interval=Interval())
void	writeNodeCentered (HDF5Handle &a_handle, int a_level, const LevelData< FArrayBox > *a_data, Interval interval=Interval())
void	writeFaceCentered (HDF5Handle &a_handle, int a_level, int a_direction, const LevelData< EBFaceFAB > *a_data, Interval interval=Interval())
void	readCellCentered (HDF5Handle &a_handle, int a_level, const EBIndexSpace *eb, const int ebghost, LevelData< EBCellFAB > *a_data)
void	setWhichCellIndex (int a_whichCellIndex)
int	getWhichCellIndex ()
void	setCoveredCellValue (Real a_coveredCellValue)
Real	getCoveredCellValue ()
void	multiFaceValues (const EBFaceFAB *a_face, const int a_side, const int a_iv0, const int a_iv1, const int a_iv2)
void	multiCellValues (const EBCellFAB *a_face, const int a_iv0, const int a_iv1, const int a_iv2)

Macro Definition Documentation

_EBAMRIO_H_

#define _EBAMRIO_H_

Function Documentation

writeEBHDF5() [1/4]

void writeEBHDF5	(	const string &	filename,
		const Vector< DisjointBoxLayout > &	a_vectGrids,
		const Vector< LevelData< EBCellFAB > * > &	a_vectData,
		const Vector< string > &	a_vectNames,
		const ProblemDomain &	a_domain,
		const Real &	a_dx,
		const Real &	a_dt,
		const Real &	a_time,
		const Vector< int > &	a_vectRatio,
		const int &	a_numLevels,
		const bool &	a_replaceCovered,
		const Vector< Real > &	a_coveredValues,
		IntVect	a_ghostVect = IntVect::Zero
	)

Writes hierarchy of levels in HDF5 format. Only available if the preprocessor macro HDF5 is defined at compilation. Writes single-valued data using regular Chombo WriteAMRHierarchyHDF5

{ Arguments:}\ a_filename : file to output to.\ a_vectGrids : grids at each level.\ a_vectData : data at each level.\ a_vectNames: names of variables.\ a_domain : domain at coarsest level.\ a_dx : grid spacing at coarsest level.\ a_dt : time step at coarsest level.\ a_time : time.\ a_vectRatio : refinement ratio at all level.\ a_numLevels : number of levels to output.\ a_replaceCovered: flag for replacing covered values with a_coveredVal.\ a_coveredVal: sets Covered values to these if a_replaceCovered is true.\ (ith entry is refinement ratio between levels i and i + 1).\ This is blocking.

writeEBHDF5() [2/4]

void writeEBHDF5	(	const string &	filename,
		const Vector< DisjointBoxLayout > &	a_vectGrids,
		const Vector< LevelData< EBCellFAB > * > *	a_phase1,
		const Vector< LevelData< EBCellFAB > * > *	a_phase2,
		const Vector< LevelData< FArrayBox > * > *	a_levelSet,
		const Vector< string > &	a_vectNames,
		const ProblemDomain &	a_domain,
		const Real &	a_dx,
		const Real &	a_dt,
		const Real &	a_time,
		const Vector< int > &	a_vectRatio,
		const int &	a_numLevels,
		const bool &	a_replaceCovered,
		const Vector< Real > &	a_coveredValues,
		IntVect	a_ghostVect = IntVect::Zero
	)

Two phases (each a Vector<LevelData<EBCellFAB>>) : most general case.

writeEBHDF5() [3/4]

void writeEBHDF5	(	const string &	a_filename,
		const DisjointBoxLayout &	a_grids,
		const LevelData< EBCellFAB > &	a_data,
		const Vector< string > &	a_vectNames,
		const ProblemDomain &	a_domain,
		const Real &	a_dx,
		const Real &	a_dt,
		const Real &	a_time,
		const bool &	a_replaceCovered,
		const Vector< Real > &	a_coveredValues,
		IntVect	a_ghostVect = IntVect::Zero
	)

Write a single LevelData<EBCellFAB>.

writeEBHDF5() [4/4]

void writeEBHDF5	(	const string &	a_filename,
		const Box &	a_grid,
		const EBCellFAB &	a_data,
		const Vector< string > &	a_vectNames,
		const ProblemDomain &	a_domain,
		const Real &	a_dx,
		const Real &	a_dt,
		const Real &	a_time,
		const bool &	a_replaceCovered,
		const Vector< Real > &	a_coveredValues,
		IntVect	a_ghostVect = IntVect::Zero
	)

Write a single EBCellFAB.

writeEBFAB()

void writeEBFAB

(

const EBCellFAB *

a_dataPtr

)

Writes a plotfile using the same format as writeEBHDF5, but for a EBCellFAB. This is useful for debugging. *a_dataPtr is written to a file named fab.hdf5

Referenced by InitWriteEBFAB().

viewEBFAB()

void viewEBFAB

(

const EBCellFAB *

a_dataPtr

)

View *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) and then running ChomboVis with a python script which brings up a data browser by default. The file has the same format as writeEBHDF5, but for a single EBCellFAB. This is useful for debugging.

Referenced by InitWriteEBFAB().

browseEBFAB()

void browseEBFAB

(

const EBCellFAB *

a_dataPtr

)

View *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) and then running browse with a python script which brings up a data browser by default. The file has the same format as writeEBHDF5, but for a single EBCellFAB. This is useful for debugging.

writeEBFABname()

void writeEBFABname	(	const EBCellFAB *	a_dataPtr,
		const char *	a_filename
	)

Writes a plotfile using the same format as writeEBHDF5, but for a EBCellFAB. This is useful for debugging. *a_dataPtr is written to the file given by a_filename.

Referenced by InitWriteEBFAB().

viewEBFluxLD()

void viewEBFluxLD	(	const LevelData< EBFluxFAB > *	a_dataPtr,
		int	a_dir
	)

View the face centered, regular data (as cell center data) in *a_dataPtr by writing data on the a_dir face to an HDF5 plotfile (a temporary file). Then, run VisIt with a python script, bringing up a data browser by default. The file has the same format as writeEBHDF5, but the components of the EBFluxFAB are written out successively. This is useful for debugging.

viewEBFace()

void viewEBFace

(

const EBFaceFAB *

a_dataPtr

)

View the faced centered, regular data (as cell center data) in *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) and then running ChomboVis with a python script which brings up a data browser by default. The file has the same format as writeEBHDF5, but for a single EBFaceFAB. This is useful for debugging.

Referenced by InitWriteEBFAB().

browseEBFace()

void browseEBFace

(

const EBFaceFAB *

a_dataPtr

)

View the faced centered, regular data (as cell center data) in *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) and then running chombobrowser with a python script which brings up a data browser by default. The file has the same format as writeEBHDF5, but for a single EBFaceFAB. This is useful for debugging.

writeEBLevel()

void writeEBLevel

(

const LevelData< EBCellFAB > *

a_dataPtr

)

Write a plotfile using the same format as writeEBHDF5, but for a single LevelData<EBCellFAB>. Useful for debugging. *a_dataPtr is written to a file named EBLDF.hdf5.

Referenced by InitWriteEBFAB().

viewEBLevel()

void viewEBLevel

(

const LevelData< EBCellFAB > *

a_dataPtr

)

View *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) and then running ChomboVis with a python script which brings up a data browser by default. The file has the same format as writeEBHDF5, but for a single LevelData<EBCellFAB>. This is useful for debugging.

Referenced by InitWriteEBFAB().

browseEBLevel()

void browseEBLevel

(

const LevelData< EBCellFAB > *

a_dataPtr

)

View *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) and then running chombobrowser with a python script which brings up a data browser by default. The file has the same format as writeEBHDF5, but for a single LevelData<EBCellFAB>. This is useful for debugging.

writeEBLevelname()

void writeEBLevelname	(	const LevelData< EBCellFAB > *	a_dataPtr,
		const char *	a_filename
	)

Write a plotfile using the same format as writeEBHDF5, but for a single LevelData<EBCellFAB>. Useful for debugging. *a_dataPtr is written to the file given by a_filename.

Referenced by EBConductivityOp::dumpLevel(), EBAMRPoissonOp::dumpLevel(), InitWriteEBFAB(), and EBViscousTensorOp::outputLevel().

writeEBAMR()

void writeEBAMR

(

const Vector< LevelData< EBCellFAB > * > *

a_dataPtr

)

Write a plotfile using writeEBHDF5. Useful for debugging. *a_dataPtr is written to a file named EBAMR.hdf5.

Referenced by InitWriteEBFAB().

viewEBAMR()

void viewEBAMR

(

const Vector< LevelData< EBCellFAB > * > *

a_dataPtr

)

View *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) and then running ChomboVis with a python script which brings up a data browser by default. This is useful for debugging.

Referenced by InitWriteEBFAB().

visEBAMR()

void visEBAMR

(

const Vector< LevelData< EBCellFAB > * > *

a_dataPtr

)

View *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) and then running VisIt. This is useful for debugging.

browseEBAMR()

void browseEBAMR

(

const Vector< LevelData< EBCellFAB > * > *

a_dataPtr

)

View *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) and then running chombobrowser with a python script which brings up a data browser by default. This is useful for debugging.

writeEBAMRname()

void writeEBAMRname	(	const Vector< LevelData< EBCellFAB > * > *	a_dataPtr,
		const char *	a_filename
	)

Write a plotfile using writeEBHDF5. Useful for debugging. *a_dataPtr is written to the file given by a_filename.

Referenced by EBConductivityOp::dumpAMR(), EBAMRPoissonOp::dumpAMR(), InitWriteEBFAB(), and EBViscousTensorOp::outputAMR().

writeIVFAB()

void writeIVFAB

(

const BaseIVFAB< Real > *

a_dataPtr

)

Writes a plotfile using the basic Chombovis format, but for a BaseIVFAB<Real>. This is somewhat limited in functionality, since all it does is copy the BaseIVFAB to a FArrayBox in the appropriate cells, and then call writeFAB. This is useful for debugging. a_dataPtr is written to a file named ivfab.hdf5

Referenced by InitWriteEBFAB().

viewIVFAB()

void viewIVFAB

(

const BaseIVFAB< Real > *

a_dataPtr

)

View *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) using writeIVFAB and then running ChomboVis with a python script which brings up a data browser by default. The file has the same format as writeEBHDF5, but for a single EBCellFAB. This is useful for debugging.

Referenced by InitWriteEBFAB().

browseIVFAB()

void browseIVFAB

(

const BaseIVFAB< Real > *

a_dataPtr

)

View *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) and then running browse with a python script which brings up a data browser by default. The file has the same format as writeEBHDF5, but for a single BaseIVFAB<Real>. This is useful for debugging.

Referenced by InitWriteEBFAB().

writeIVFABname()

void writeIVFABname	(	const BaseIVFAB< Real > *	a_dataPtr,
		const char *	a_filename
	)

Writes a plotfile using the same format as writeEBHDF5, but for a BaseIVFAB<Real>. This is useful for debugging. a_dataPtr is written to the file given by a_filename.

Referenced by InitWriteEBFAB().

writeIVLevel()

void writeIVLevel

(

const LevelData< BaseIVFAB< Real > > *

a_dataPtr

)

Write a plotfile using the same format as writeLevel, but for a single LevelData<BaseIVFAB<Real> >. Useful for debugging. a_dataPtr is written to a file named IVLDF.hdf5.

Referenced by InitWriteEBFAB().

viewIVLevel()

void viewIVLevel

(

const LevelData< BaseIVFAB< Real > > *

a_dataPtr

)

View *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) and then running ChomboVis with a python script which brings up a data browser by default. The file has the same format as writeEBHDF5, but for a single LevelData<BaseIVFAB<Real> >. This is useful for debugging.

Referenced by InitWriteEBFAB().

browseIVLevel()

void browseIVLevel

(

const LevelData< BaseIVFAB< Real > > *

a_dataPtr

)

View *a_dataPtr by writing it to an HDF5 plotfile (to a temporary file) and then running chombobrowser with a python script which brings up a data browser by default. The file has the same format as writeEBHDF5, but for a single LevelData<BaseIVFAB<Real> >. This is useful for debugging.

Referenced by InitWriteEBFAB().

writeIVLevelname()

void writeIVLevelname	(	const LevelData< BaseIVFAB< Real > > *	a_dataPtr,
		const char *	a_filename
	)

Write a plotfile using the same format as writeEBHDF5, but for a single LevelData<BaseIVFAB<Real> >. Useful for debugging. a_dataPtr is written to the file given by a_filename.

Referenced by InitWriteEBFAB().

createEBFile() [1/2]

void createEBFile	(	HDF5Handle &	a_handle,
		const std::string &	a_filename,
		int	a_numLevels,
		const Vector< int > &	a_refRatios,
		const ProblemDomain &	a_coarseDomain,
		const RealVect &	a_coarseDx,
		const IntVect &	a_ghost
	)

createEBFile() [2/2]

void createEBFile	(	HDF5Handle &	a_handle,
		const std::string &	a_filename,
		int	a_numLevels,
		const Vector< int > &	a_refRatios,
		const ProblemDomain &	a_coarseDomain,
		const RealVect &	a_origin,
		const RealVect &	a_coarseDx,
		const RealVect &	a_aspect,
		const IntVect &	a_ghost
	)

headerEBFile() [1/2]

void headerEBFile	(	HDF5Handle &	a_handle,
		int	a_numLevels,
		const Vector< int > &	a_refRatios,
		const ProblemDomain &	a_coarseDomain,
		const RealVect &	a_coarseDx,
		const IntVect &	a_ghost
	)

headerEBFile() [2/2]

void headerEBFile	(	HDF5Handle &	a_handle,
		int	a_numLevels,
		const Vector< int > &	a_refRatios,
		const ProblemDomain &	a_coarseDomain,
		const RealVect &	a_origin,
		const RealVect &	a_coarseDx,
		const RealVect &	a_aspect,
		const IntVect &	a_ghost
	)

writeCellCenteredNames()

void writeCellCenteredNames	(	HDF5Handle &	a_handle,
		const Vector< std::string > &	a_names
	)

writeNodeCenteredNames()

void writeNodeCenteredNames	(	HDF5Handle &	a_handle,
		const Vector< std::string > &	a_names
	)

writeFaceCenteredNames()

void writeFaceCenteredNames	(	HDF5Handle &	a_handle,
		int	a_direction,
		const Vector< std::string > &	a_names
	)

writeCellCentered() [1/2]

void writeCellCentered	(	HDF5Handle &	a_handle,
		int	a_level,
		const LevelData< EBCellFAB > *	a_data,
		Interval	interval = Interval()
	)

if no CellCenteredNames have been assigned, then dummy values of CC1..CCn are set

writeCellCentered() [2/2]

void writeCellCentered	(	HDF5Handle &	a_handle,
		int	a_level,
		const LevelData< FArrayBox > *	a_data,
		Interval	interval = Interval()
	)

writeNodeCentered()

void writeNodeCentered	(	HDF5Handle &	a_handle,
		int	a_level,
		const LevelData< FArrayBox > *	a_data,
		Interval	interval = Interval()
	)

writeFaceCentered()

void writeFaceCentered	(	HDF5Handle &	a_handle,
		int	a_level,
		int	a_direction,
		const LevelData< EBFaceFAB > *	a_data,
		Interval	interval = Interval()
	)

readCellCentered()

void readCellCentered	(	HDF5Handle &	a_handle,
		int	a_level,
		const EBIndexSpace *	eb,
		const int	ebghost,
		LevelData< EBCellFAB > *	a_data
	)

setWhichCellIndex()

void setWhichCellIndex

(

int

a_whichCellIndex

)

Referenced by InitWriteEBFAB().

getWhichCellIndex()

int getWhichCellIndex

(

)

Referenced by InitWriteEBFAB().

setCoveredCellValue()

void setCoveredCellValue

(

Real

a_coveredCellValue

)

Referenced by InitWriteEBFAB().

getCoveredCellValue()

Real getCoveredCellValue

(

)

Referenced by InitWriteEBFAB().

multiFaceValues()

void multiFaceValues	(	const EBFaceFAB *	a_face,
		const int	a_side,
		const int	a_iv0,
		const int	a_iv1,
		const int	a_iv2
	)

Referenced by InitWriteEBFAB().

multiCellValues()

void multiCellValues	(	const EBCellFAB *	a_face,
		const int	a_iv0,
		const int	a_iv1,
		const int	a_iv2
	)

Referenced by InitWriteEBFAB().