java.lang.Object
- gov.nih.mipav.model.file.FileBase
- - gov.nih.mipav.model.file.FileMedVision

```
public class FileMedVision
extends FileBase
```
The class reads MedVision files that have been saved as MAC bin files. The MAC files have needed image resolutions encoded in the in the resource section at the end of the file. MedVision also has method of saving images to the Intel world but pixel resolutions are not stored. Here I decode MAC MedVision files. It is easy to write a Intel MedVision reader or one could directly read in the file using using MIPA because they have a fixed offset and can be read in using the RAW file reader.

Version:

0.1 June 25, 1998

Author:

Matthew J. McAuliffe, Ph.D.

See Also:

FileIO, FileInfoMedVision, FileRaw, FileRawChunk

Field Summary

Fields
Modifier and Type	Field	Description
`static short`	`BIT16`	DOCUMENT ME!
`static short`	`BIT8`	DOCUMENT ME!
`private java.io.File`	`file`	DOCUMENT ME!
`private java.lang.String`	`fileDir`	DOCUMENT ME!
`private FileInfoMedVision`	`fileInfo`	DOCUMENT ME!
`private FileInfoMedVision`	`fileInfoCom`	DOCUMENT ME!
`private java.lang.String`	`fileName`	DOCUMENT ME!
`private ModelImage`	`image`	DOCUMENT ME!
`private ViewJProgressBar`	`progressBar`	DOCUMENT ME!
`private float[]`	`resolutions`	DOCUMENT ME!
`static short`	`S16BIT`	DOCUMENT ME!
`static short`	`S8BIT`	DOCUMENT ME!
`static short`	`SIGNED`	DOCUMENT ME!
`private double[]`	`slicePosition`	DOCUMENT ME!
`private double[][]`	`sliceResolutions`	DOCUMENT ME!
`static short`	`U16BIT`	DOCUMENT ME!
`static short`	`U8BIT`	DOCUMENT ME!
`static short`	`UNSIGNED`	DOCUMENT ME!

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

FileMedVision(java.lang.String fName, java.lang.String fDir)
FileMedVision - MedVision reader/writer constructor.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`private void`	`copyFileInfoCommon()`	copyFileInfoCommon - copy common file info into new header Better must exist but this works.
`private boolean`	`decodeFileHeader(boolean endianess)`	readFileHeader - reader image file header that encodes info about image.
`private void`	`decodeResourceFooter(boolean endianess)`	decodeResourceFooter - This is the tricky function that decodes the the resource footer at the end of the MAC file The data is coded is very odd manner.
`private boolean`	`decodeSliceHeader(long start, FileInfoMedVision fileInfo, boolean endianess)`	decodeSliceHeader - reads image slice header that encodes info about specific image slice.
`private double`	`getMedVisionDouble(boolean endianess)`	getMedVisionDouble - extracts double value from MedVision MAC resource fork.
`ModelImage`	`readImage()`	readImage - reads a MedVision file in MAC format (i.e., decodes resource info).

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 Detail
  - BIT8
```
public static final short BIT8
```
    DOCUMENT ME!
    
    See Also:
    
    Constant Field Values
  - BIT16
```
public static final short BIT16
```
    DOCUMENT ME!
    
    See Also:
    
    Constant Field Values
  - SIGNED
```
public static final short SIGNED
```
    DOCUMENT ME!
    
    See Also:
    
    Constant Field Values
  - UNSIGNED
```
public static final short UNSIGNED
```
    DOCUMENT ME!
    
    See Also:
    
    Constant Field Values
  - S8BIT
```
public static final short S8BIT
```
    DOCUMENT ME!
    
    See Also:
    
    Constant Field Values
  - U8BIT
```
public static final short U8BIT
```
    DOCUMENT ME!
    
    See Also:
    
    Constant Field Values
  - S16BIT
```
public static final short S16BIT
```
    DOCUMENT ME!
    
    See Also:
    
    Constant Field Values
  - U16BIT
```
public static final short U16BIT
```
    DOCUMENT ME!
    
    See Also:
    
    Constant Field Values
  - file
```
private java.io.File file
```
    DOCUMENT ME!
  - fileDir
```
private java.lang.String fileDir
```
    DOCUMENT ME!
  - fileInfo
```
private FileInfoMedVision fileInfo
```
    DOCUMENT ME!
  - fileInfoCom
```
private FileInfoMedVision fileInfoCom
```
    DOCUMENT ME!
  - fileName
```
private java.lang.String fileName
```
    DOCUMENT ME!
  - image
```
private ModelImage image
```
    DOCUMENT ME!
  - progressBar
```
private ViewJProgressBar progressBar
```
    DOCUMENT ME!
  - resolutions
```
private float[] resolutions
```
    DOCUMENT ME!
  - slicePosition
```
private double[] slicePosition
```
    DOCUMENT ME!
  - sliceResolutions
```
private double[][] sliceResolutions
```
    DOCUMENT ME!
- Constructor Detail
  - FileMedVision
```
public FileMedVision(java.lang.String fName,
                     java.lang.String fDir)
```
    FileMedVision - MedVision reader/writer constructor.
    
    Parameters:
    
    fName - file name
    
    fDir - file directory
- Method Detail
  - readImage
```
public ModelImage readImage()
                     throws java.io.IOException
```
    readImage - reads a MedVision file in MAC format (i.e., decodes resource info).
    
    Returns:
    
    image model of the data read in from the file
    
    Throws:
    
    java.io.IOException - if there is an error reading the file
    
    See Also:
    
    FileRawChunk
  - copyFileInfoCommon
```
private void copyFileInfoCommon()
```
    copyFileInfoCommon - copy common file info into new header Better must exist but this works.
  - decodeFileHeader
```
private boolean decodeFileHeader(boolean endianess)
                          throws java.io.IOException
```
    readFileHeader - reader image file header that encodes info about image.
    
    Parameters:
    
    endianess - boolean describing byte order
    
    Returns:
    
    boolean indicating successful read
    
    Throws:
    
    java.io.IOException - if there is an error reading the file
    
    See Also:
    
    FileInfoMedVision
  - decodeResourceFooter
```
private void decodeResourceFooter(boolean endianess)
                           throws java.io.IOException
```
    decodeResourceFooter - This is the tricky function that decodes the the resource footer at the end of the MAC file The data is coded is very odd manner. I was unable to find MAC documentation and decoded it by "hand"
    
    Parameters:
    
    endianess - boolean describing byte order
    
    Throws:
    
    java.io.IOException - if there is an error reading the file
  - decodeSliceHeader
```
private boolean decodeSliceHeader(long start,
                                  FileInfoMedVision fileInfo,
                                  boolean endianess)
                           throws java.io.IOException
```
    decodeSliceHeader - reads image slice header that encodes info about specific image slice.
    
    Parameters:
    
    start - start of file information
    
    fileInfo - file information
    
    endianess - boolean describing byte order
    
    Returns:
    
    boolean indicating successful decoding
    
    Throws:
    
    java.io.IOException - if there is an error reading the file
  - getMedVisionDouble
```
private double getMedVisionDouble(boolean endianess)
                           throws java.io.IOException
```
    getMedVisionDouble - extracts double value from MedVision MAC resource fork.
    
    Parameters:
    
    endianess - describes byte ordering of data
    
    Returns:
    
    returns extracted double
    
    Throws:
    
    java.io.IOException - if there is an error reading the file

Class FileMedVision

Field Summary

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

Constructor Summary

Method Summary

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

Methods inherited from class java.lang.Object

Field Detail

BIT8

BIT16

SIGNED

UNSIGNED

S8BIT

U8BIT

S16BIT

U16BIT

file

fileDir

fileInfo

fileInfoCom

fileName

image

progressBar

resolutions

slicePosition

sliceResolutions

Constructor Detail

FileMedVision

Method Detail

readImage

copyFileInfoCommon

decodeFileHeader

decodeResourceFooter

decodeSliceHeader

getMedVisionDouble