Package gov.nih.mipav.model.file

Class FileTrackVis

java.lang.Object

gov.nih.mipav.model.file.FileBase

gov.nih.mipav.model.file.FileTrackVis

public class FileTrackVis
extends FileBase

Reads a .trk track file as a MIPAV mask image.

Author:

justinsenseney

Field Summary

Fields

Modifier and Type	Field	Description
private FileInfoTrackVis	fileInfo	Fileinfo for image
private ModelImage	image	Created image
private short	nProperties	Number of properties associated with each track
private short	nScalars	Number of scalars for each datapoint
private int	numTracks	If 0 then # of tracks is unknown
private TransMatrix	trans	Transformation matrix for image

Fields inherited from class gov.nih.mipav.model.file.FileBase

BIG_ENDIAN, bitsPerPixel, fileNames, LITTLE_ENDIAN, pBarVisible, raFile, READ, READ_WRITE

Constructor Summary

Constructors

Constructor	Description
FileTrackVis(String fileName, String fileDir)

Method Summary

Modifier and Type	Method	Description
FileInfoTrackVis	getFileInfo()
boolean	readHeader()	Reads TrackVis header, first 1000 bytes of TRK file.
ModelImage	readImage()	Reads TrackVis series of tracks and creates masks from them, based on stored fileInfo.
void	setFileInfo(FileInfoTrackVis fileInfo)

Methods inherited from class gov.nih.mipav.model.file.FileBase

addProgressChangeListener, bytesToDouble, bytesToFloat, bytesToInt, bytesToShort, doubleToBytes, finalize, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, floatToBytes, getBufferDouble, getBufferFloat, getBufferInt, getBufferLong, getBufferShort, getBufferUShort, getDataType, getDouble, getFloat, getInt, getLong, getProgressChangeListeners, getRaFile, getSignedShort, getString, getUInt, getUnsignedByte, getUnsignedShort, intToBytes, isBigEndian, isProgressBarVisible, linkProgress, longToBytes, readDouble, readFloat, readInt, readLong, readShort, readString, readUnsignedShort, removeProgressChangeListener, setBigEndian, setBufferFloat, setBufferInt, setBufferLong, setBufferShort, setBufferString, setDataType, setEndianess, shortToBytes, writeBytes, writeDouble, writeFloat, writeInt, writeLong, writeShort

Methods inherited from class java.lang.Object

clone, equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Details

fileInfo

private FileInfoTrackVis fileInfo

Fileinfo for image

nScalars

private short nScalars

Number of scalars for each datapoint

nProperties

private short nProperties

Number of properties associated with each track

numTracks

private int numTracks

If 0 then # of tracks is unknown

image

private ModelImage image

Created image

trans

private TransMatrix trans

Transformation matrix for image

Constructor Details

FileTrackVis

public FileTrackVis(String fileName,
 String fileDir)
             throws IOException

Throws:

IOException

Method Details

readHeader

public boolean readHeader()
                   throws IOException

Reads TrackVis header, first 1000 bytes of TRK file.

Throws:

IOException - if there is an error reading the file

readImage

public ModelImage readImage()

Reads TrackVis series of tracks and creates masks from them, based on stored fileInfo.

getFileInfo

public FileInfoTrackVis getFileInfo()

setFileInfo

public void setFileInfo(FileInfoTrackVis fileInfo)