#include <DCReaderNCDF.h>

Inheritance diagram for VAPoR::DCReaderNCDF:

Public Member Functions
	DCReaderNCDF (const std::vector< string > &files, const std::vector< string > &time_dimnames, const std::vector< string > &time_coordvars, const std::vector< string > &staggerd_dims, string missing_attr, size_t dims[3])

virtual	~DCReaderNCDF ()

virtual void	GetGridDim (size_t dim[3]) const

virtual void	GetBlockSize (size_t bs[3], int reflevel) const

virtual string	GetCoordSystemType () const

virtual string	GetGridType () const

virtual std::vector< double >	GetExtents (size_t ts=0) const

long	GetNumTimeSteps () const

virtual std::vector< string >	GetVariables3D () const

virtual std::vector< string >	GetVariables2DXY () const

virtual std::vector< string >	GetVariables2DXZ () const

virtual std::vector< string >	GetVariables2DYZ () const

virtual std::vector< string >	GetVariables3DExcluded () const

virtual std::vector< string >	GetVariables2DExcluded () const

virtual std::vector< string >	GetCoordinateVariables () const

virtual std::vector< long >	GetPeriodicBoundary () const

virtual std::vector< long >	GetGridPermutation () const

virtual double	GetTSUserTime (size_t ts) const

virtual void	GetTSUserTimeStamp (size_t ts, string &s) const

virtual bool	GetMissingValue (string varname, float &value) const

virtual bool	IsCoordinateVariable (string varname) const

virtual int	OpenVariableRead (size_t timestep, string varname, int reflevel=0, int lod=0)

virtual int	CloseVariable ()

virtual int	ReadSlice (float *slice)

NetCDFCollection *	GetNetCDFCollection () const

virtual bool	VariableExists (size_t ts, string varname, int i0=0, int i1=0) const

virtual void	GetLatLonExtents (size_t ts, double lon_exts[2], double lat_exts[2]) const

Public Member Functions inherited from VAPoR::DCReader
virtual	~DCReader ()

Public Member Functions inherited from VAPoR::Metadata
	Metadata ()

virtual	~Metadata ()

virtual int	GetNumTransforms () const

virtual std::vector< size_t >	GetCRatios () const

virtual std::vector< double >	GetTSXCoords (size_t ts) const

virtual std::vector< double >	GetTSYCoords (size_t ts) const

virtual std::vector< double >	GetTSZCoords (size_t ts) const

virtual std::vector< std::string >	GetVariableNames () const

virtual std::string	GetMapProjection () const

virtual void	GetTSUserTimeStamp (size_t ts, std::string &s) const =0

virtual void	GetDim (size_t dim[3], int reflevel=0) const

virtual void	GetDimBlk (size_t bdim[3], int reflevel=0) const

virtual bool	GetMissingValue (std::string varname, float &value) const

virtual void	MapVoxToBlk (const size_t vcoord[3], size_t bcoord[3], int reflevel=-1) const

virtual void	MapVoxToUser (size_t timestep, const size_t vcoord0[3], double vcoord1[3], int ref_level=0) const

void	MapUserToVox (size_t timestep, const double vcoord0[3], size_t vcoord1[3], int reflevel) const

virtual VarType_T	GetVarType (const std::string &varname) const

virtual int	IsValidRegion (const size_t min[3], const size_t max[3], int reflevel=0) const

virtual int	IsValidRegionBlk (const size_t min[3], const size_t max[3], int reflevel=0) const

virtual bool	IsCoordinateVariable (std::string varname) const

Public Member Functions inherited from VetsUtil::MyBase
	MyBase ()

const string &	getClassName () const

Additional Inherited Members
Public Types inherited from VAPoR::Metadata
enum	VarType_T { VARUNKNOWN = -1, VAR3D, VAR2D_XY, VAR2D_XZ, VAR2D_YZ }

Public Types inherited from VetsUtil::MyBase
typedef void(*	ErrMsgCB_T )(const char *msg, int err_code)

typedef void(*	DiagMsgCB_T )(const char *msg)

Static Public Member Functions inherited from VetsUtil::MyBase
static void	SetErrMsg (const char *format,...)
	Record a formatted error message. More...

static void	SetErrMsg (int errcode, const char *format,...)
	Record a formatted error message and an error code. More...

static const char *	GetErrMsg ()

static void	SetErrCode (int err_code)
	Record an error code. More...

static int	GetErrCode ()
	Retrieve the current error code. More...

static void	SetErrMsgCB (ErrMsgCB_T cb)

static ErrMsgCB_T	GetErrMsgCB ()

static void	SetErrMsgFilePtr (FILE *fp)

static const FILE *	SetErrMsgFilePtr ()

static void	SetDiagMsg (const char *format,...)
	Record a formatted diagnostic message. More...

static const char *	GetDiagMsg ()

static void	SetDiagMsgCB (DiagMsgCB_T cb)

static DiagMsgCB_T	GetDiagMsgCB ()

static void	SetDiagMsgFilePtr (FILE *fp)

static bool	EnableErrMsg (bool enable)

Static Public Attributes inherited from VetsUtil::MyBase
static char *	ErrMsg

static int	ErrCode

static int	ErrMsgSize

static FILE *	ErrMsgFilePtr

static ErrMsgCB_T	ErrMsgCB

static char *	DiagMsg

static int	DiagMsgSize

static FILE *	DiagMsgFilePtr

static DiagMsgCB_T	DiagMsgCB

static bool	Enabled

Protected Member Functions inherited from VetsUtil::MyBase
void	SetClassName (const string &name)

Protected Attributes inherited from VAPoR::Metadata
bool	_deprecated_get_dim

Detailed Description

???

Author: John Clyne

Version: $Revision$

Date: $Date$

Definition at line 27 of file DCReaderNCDF.h.

Constructor & Destructor Documentation

VAPoR::DCReaderNCDF::DCReaderNCDF	(	const std::vector< string > &	files,
		const std::vector< string > &	time_dimnames,
		const std::vector< string > &	time_coordvars,
		const std::vector< string > &	staggerd_dims,
		string	missing_attr,
		size_t	dims[3]
	)

virtual VAPoR::DCReaderNCDF::~DCReaderNCDF ( )

virtual

Member Function Documentation

virtual int VAPoR::DCReaderNCDF::CloseVariable ( )

virtual

Close the currently opened variable.

See also: OpenVariableRead()

Implements VAPoR::DCReader.

virtual void VAPoR::DCReaderNCDF::GetBlockSize	(	size_t	bs[3],
		int	reflevel
	)		const

virtual

Return the internal blocking factor at a given refinement level

For multi-resolution data this method returns the dimensions of a data block at refinement level reflevel, where reflevel is in the range 0 to GetNumTransforms(). A value of -1 may be specified to indicate the maximum refinement level. In fact, any value outside the valid refinement level range will be treated as the maximum refinement level.

Parameters

[in]	reflevel	Refinement level
	bs]	dim Transformed dimension.

Return values

bs	A three element vector containing the voxel dimension of a data block

Implements VAPoR::Metadata.

virtual std::vector<string> VAPoR::DCReaderNCDF::GetCoordinateVariables ( ) const

virtual

Return the names of the coordinate variables.

This method returns a three-element vector naming the X, Y, and Z coordinate variables, respectively. The special name "NONE" indicates that a coordinate variable name does not exist for a particular dimension.

Note: The existence of a coordinate variable name does not imply the existence of the coordinate variable itself.

Return values

vector is three-element vector of coordinate variable names.

Reimplemented from VAPoR::Metadata.

virtual string VAPoR::DCReaderNCDF::GetCoordSystemType ( ) const

virtual

Return the coordinate system type. One of cartesian or spherical

Return values

type

Reimplemented from VAPoR::Metadata.

virtual std::vector<double> VAPoR::DCReaderNCDF::GetExtents ( size_t ts = 0 ) const

virtual

Return the domain extents specified in user coordinates

Return the domain extents specified in user coordinates for the indicated time step. Variables in the data have spatial positions defined in a user coordinate system. These positions may vary with time. This method returns min and max bounds, in user coordinates, of all variables at a given time step.

Parameters

[in] ts A valid data set time step in the range from zero to GetNumTimeSteps() - 1. If ts is out of range, GetExtents() will return a reasonable default value.

Return values

extents A six-element array containing the min and max bounds of the data domain in user-defined coordinates. The first three elements specify the minimum X, Y, and Z bounds, respectively, the second three elements specify the maximum bounds.

Implements VAPoR::Metadata.

virtual void VAPoR::DCReaderNCDF::GetGridDim ( size_t dim[3] ) const

virtual

Get the native dimension of a volume

Returns the X,Y,Z coordinate dimensions of all data variables in grid (voxel) coordinates full resolution.

Parameters

[in]	reflevel	Refinement level of the variable
[out]	dim	A three element vector (ordered X, Y, Z) containing the voxel dimensions of the data at full resolution.

Implements VAPoR::Metadata.

virtual std::vector<long> VAPoR::DCReaderNCDF::GetGridPermutation ( ) const

virtual

Return a three-element integer array indicating the coordinate ordering permutation.

Return values

integer-vector

Implements VAPoR::Metadata.

virtual string VAPoR::DCReaderNCDF::GetGridType ( ) const

virtual

Return the grid type. One of regular, stretched, block_amr, or spherical

Return values

type

Reimplemented from VAPoR::Metadata.

virtual void VAPoR::DCReaderNCDF::GetLatLonExtents	(	size_t	ts,
		double	lon_exts[2],
		double	lat_exts[2]
	)		const

inlinevirtual

Return the Longitude and Latitude extents of the grid

This method returns the longitude extents (west-most and east-most) points, and the latitude extents (south-most and north-most) in degrees.

If the time step ts is invalid, or if for any reason the extents can't be calculated, both lat and lon extents will be set to zero.

Parameters

[in]	timestep	Time step of the grid
[out]	lon_exts	A two-element array containing the west-most, and east-most points, in that order. Moreover, lon[0] <= lon[1]
[out]	lat_exts	A two-element array containing the south-most, and north-most points, in that order. Moreover, lat[0] <= lat[1]

Implements VAPoR::DCReader.

Definition at line 107 of file DCReaderNCDF.h.

virtual bool VAPoR::DCReaderNCDF::GetMissingValue	(	string	varname,
		float &	value
	)		const

virtual

NetCDFCollection* VAPoR::DCReaderNCDF::GetNetCDFCollection ( ) const

inline

Definition at line 101 of file DCReaderNCDF.h.

long VAPoR::DCReaderNCDF::GetNumTimeSteps ( ) const

inlinevirtual

Return the number of time steps in the data collection

Return values

value The number of time steps

Implements VAPoR::Metadata.

Definition at line 50 of file DCReaderNCDF.h.

virtual std::vector<long> VAPoR::DCReaderNCDF::GetPeriodicBoundary ( ) const

virtual

Return a three-element boolean array indicating if the X,Y,Z axes have periodic boundaries, respectively.

Return values

boolean-vector

Implements VAPoR::Metadata.

virtual double VAPoR::DCReaderNCDF::GetTSUserTime ( size_t ts ) const

virtual

Return the time for a time step

This method returns the time, in user-defined coordinates, associated with the time step, ts. Variables such as velocity field components that are expressed in distance per units of time are expected to use the same time coordinates as the values returned by this mehtod.

Parameters

[in] ts A valid data set time step in the range from zero to GetNumTimeSteps() - 1.

Return values

value The user time at time step ts. If ts is outside the valid range zero is returned.

Implements VAPoR::Metadata.

virtual void VAPoR::DCReaderNCDF::GetTSUserTimeStamp	(	size_t	ts,
		string &	s
	)		const

virtual

virtual std::vector<string> VAPoR::DCReaderNCDF::GetVariables2DExcluded ( ) const

inlinevirtual

Implements VAPoR::DCReader.

Definition at line 74 of file DCReaderNCDF.h.

virtual std::vector<string> VAPoR::DCReaderNCDF::GetVariables2DXY ( ) const

inlinevirtual

Return the names of the 2D, XY variables in the collection

Return values

value is a vector of 2D XY variable names An emptry string is returned if no variables of this type are present

Implements VAPoR::Metadata.

Definition at line 58 of file DCReaderNCDF.h.

virtual std::vector<string> VAPoR::DCReaderNCDF::GetVariables2DXZ ( ) const

inlinevirtual

Return the names of the 2D, XZ variables in the collection

Return values

value is a vectort of 2D ZY variable names An emptry string is returned if no variables of this type are present

Implements VAPoR::Metadata.

Definition at line 62 of file DCReaderNCDF.h.

virtual std::vector<string> VAPoR::DCReaderNCDF::GetVariables2DYZ ( ) const

inlinevirtual

Return the names of the 2D, YZ variables in the collection

Return values

value is a vector of 2D YZ variable names An emptry string is returned if no variables of this type are present

Implements VAPoR::Metadata.

Definition at line 66 of file DCReaderNCDF.h.

virtual std::vector<string> VAPoR::DCReaderNCDF::GetVariables3D ( ) const

inlinevirtual

Return the names of the 3D variables in the collection

Return values

value is a vector of 3D variable names. An emptry string is returned if no variables of this type are present

Implements VAPoR::Metadata.

Definition at line 54 of file DCReaderNCDF.h.

virtual std::vector<string> VAPoR::DCReaderNCDF::GetVariables3DExcluded ( ) const

inlinevirtual

Implements VAPoR::DCReader.

Definition at line 70 of file DCReaderNCDF.h.

virtual bool VAPoR::DCReaderNCDF::IsCoordinateVariable ( string varname ) const

virtual

virtual int VAPoR::DCReaderNCDF::OpenVariableRead	(	size_t	timestep,
		string	varname,
		int	reflevel = `0`,
		int	lod = `0`
	)

virtual

Open the named variable for reading

This method prepares a data volume (slice), indicated by a variable name and time step pair, for subsequent read operations by methods of this class. The number of the refinement levels parameter, reflevel, indicates the resolution of the volume in the multiresolution hierarchy. The valid range of values for reflevel is [0..max_refinement], where max_refinement is the maximum refinement level of the data set: Metadata::GetNumTransforms(). A value of zero indicates the coarsest resolution data, a value of max_refinement (or -1) indicates the finest resolution data. The level-of-detail parameter, lod, selects the approximation level. Valid values for lod are integers in the range 0..GetCRatios().size()-1, or the value -1 may be used to select the best approximation available: GetCRatios().size()-1.

An error occurs, indicated by a negative return value, if the volume identified by the {varname, timestep, reflevel, lod} tupple is not available. Note the availability of a volume can be tested with the VariableExists() method.

Parameters

[in]	timestep	Time step of the variable to read
[in]	varname	Name of the variable to read
[in]	reflevel	Refinement level of the variable. A value of -1 indicates the maximum refinment level defined for the VDC
[in]	lod	Approximation level of the variable. A value of -1 indicates the maximum approximation level defined for the VDC

Return values

status Returns a non-negative value on success

See also: Metadata::GetVariableNames(), Metadata::GetNumTransforms(), GetNumTimeSteps(), GetCRatios()

Implements VAPoR::DCReader.

virtual int VAPoR::DCReaderNCDF::ReadSlice ( float * slice )

virtual

Read the next volume slice from the currently opened file Read in and return a slice (2D array) of voxels from the currently opened data volume at the current refinement level. Subsequent calls will read successive slices until the entire volume has been read. It is the caller's responsibility to ensure that the array pointed to by slice contains enough space to accomodate an NX by NY dimensioned slice, where NX is the dimesion of the volume along the X axis, specified in voxels, and NY is the Y axis dimension, as returned by GetDim().

Note: ReadSlice returns 0 if the entire volume has been read.

Parameters

[out] slice The requested volume slice

Return values

status Returns a non-negative value on success

See also: OpenVariableRead(), Metadata::GetDim()

Implements VAPoR::DCReader.

virtual bool VAPoR::DCReaderNCDF::VariableExists	(	size_t	ts,
		string	varname,
		int	reflevel = `0`,
		int	lod = `0`
	)		const

inlinevirtual

Return true if the named variable is available

This method returns true if the variable named by varname is available in the data collection at the time step given by ts, and the specified level-of-detail and resolution.. A variable may be contained in a data set, but not exist for all time steps, levels-of-detail, etc..

Parameters

[in]	timestep	Time step of the variable to read
[in]	varname	Name of the variable to read
[in]	reflevel	Refinement level of the variable. A value of -1 indicates the maximum refinment level defined for the VDC
[in]	lod	Approximation level of the variable. A value of -1 indicates the maximum approximation level defined for the VDC

Return values

status True if variable is present in the data collection

See also: GetNumTimeSteps(), GetVariableNames()

Reimplemented from VAPoR::DCReader.

Definition at line 103 of file DCReaderNCDF.h.

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

/Users/clyne/src/vapor/lib/vdf/DCReaderNCDF.h

Public Member Functions

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation