java.lang.Object
- gov.nih.mipav.model.structures.ModelSerialCloneable
- - gov.nih.mipav.model.file.FileInfoBase
  - - gov.nih.mipav.model.file.FileInfoDicom

All Implemented Interfaces:

java.io.Serializable, java.lang.Cloneable
```
public class FileInfoDicom
extends FileInfoBase
```
This class contains DICOM header information. It uses a table to store all the information about the tags. The FileDicomTagTable listing all known tags with empty values is in DicomDictionary. Also stored here is the offset of the image, the image number, the resolutions, some pixel data, the bytes allocated, and the dimensions of the image.

This file also contains a table used for displaying the tag information. There is an option to display just the standard tags or both the standard and the private tags.

Version:

1.0 Aug 1, 1999

See Also:

FileDicom, FileDicomTag, FileDicomTagTable, JDialogFileInfoDICOM, Serialized Form

Nested Class Summary

Nested Classes
Modifier and Type	Class	Description
`(package private) class`	`FileInfoDicom.LengthStorageUnit`	This class is a basic storage unit for a primitive integer variable.
`static class`	`FileInfoDicom.VRtype`

Nested classes/interfaces inherited from class gov.nih.mipav.model.file.FileInfoBase
FileInfoBase.AxisOrientation, FileInfoBase.ImageOrientation, FileInfoBase.Modality, FileInfoBase.Unit, FileInfoBase.UnitType

Field Summary

Fields
Modifier and Type	Field	Description
`static java.lang.String[]`	`anonymizeTagIDs`	these are the DICOM tag ID numbers corresponding to the tags which are anonymized.
`short`	`bitsAllocated`	Bits allocated per pixel.
`short`	`bitsStored`	Bits stored per pixel>
`short`	`bytesPerPixel`	Number of bytes per pixel.
`boolean`	`containsDICM`	True if the DICOM file has the ID DICM at beginning at file pointer 128.
`int`	`displayType`	Data type.
`short`	`highBit`
`int`	`instanceNumber`	DICOM instance number.
`boolean`	`isCurrentTagSQ`	Whether the tag currently being processed and read in is a sequence tag.
`private boolean`	`isEnhancedDicom`	whether it is enhanced dicom or not
`private ModelLUT`	`lut`	LUT for pre-processing of dicom file
`boolean`	`multiFrame`	True indicates image has multiple image planes in a single file.
`boolean`	`olderVersion`	True is image format < DICOM 3.0.
`java.lang.String`	`orientation`	Orientation - SAGITTAL, CORONAL, AXIAL.
`int`	`originalDataType`
`java.lang.String`	`photometricInterp`	Type of image - color, monochrome etc.
`java.lang.Short`	`pixelPaddingValue`	Pixel Padding Value (0028, 0120).
`short`	`pixelRepresentation`	DICOM tag (0028, 0103) -1 = undefined 0 = unsigned 1 = signed
`short`	`planarConfig`	0 = RGB, RGB, 1 = R R R, G G G, B B B.
`private int`	`RLETAMARencapsulatedOffset`
`private static long`	`serialVersionUID`	Use serialVersionUID for interoperability.
`static int`	`SIGNED_PIXEL_REP`	(0028,0103) Pixel Representations
`float`	`sliceLocation`	DICOM slice location.
`private FileDicomTagTable`	`tagTable`	Stores all the information about the DICOM tags.
`static int`	`UNDEFINED_PIXEL_REP`	(0028,0103) Pixel Representations
`static int`	`UNSIGNED_PIXEL_REP`	(0028,0103) Pixel Representations
`private FileInfoDicom.VRtype`	`vr_type`	VR type can be IMPLICIT or EXPLICIT.
`float`	`xLocation`	DICOM x coordianate of the slice location.
`float`	`yLocation`	DICOM y coordianate of the slice location.
`float`	`zLocation`	DICOM z coordianate of the slice location.

Fields inherited from class gov.nih.mipav.model.file.FileInfoBase
ANGSTROMS, ANGSTROMS_STRING, AXIAL, axisOrientation, axisOrientationStr, BIOMAGNETIC_IMAGING, cameraMake, cameraModel, CENTIMETERS, CENTIMETERS_STRING, COLOR_FLOW_DOPPLER, COMPRESSION_BZIP2, COMPRESSION_GZIP, COMPRESSION_NONE, COMPRESSION_ZIP, COMPUTED_RADIOGRAPHY, COMPUTED_TOMOGRAPHY, conversionSpaceTimeUnits, CORONAL, DEGREES, DEGREES_STRING, DIAPHANOGRAPHY, DIGITAL_RADIOGRAPHY, DUPLEX_DOPPLER, ENDOSCOPY, exposureTime, EXTERNAL_CAMERA_PHOTOGRAPHY, FA, fileName, fileSuffix, FNumber, focalLength, focalLength35, GENERAL_MICROSCOPY, HARDCOPY, HOURS, HOURS_STRING, HZ, HZ_STRING, ICG, imageOrientation, INCHES, INCHES_STRING, INTRAORAL_RADIOGRAPHY, ISOSpeedRating, KILOMETERS, KILOMETERS_STRING, LASER_SURFACE_SCAN, MAGNETIC_RESONANCE, MAGNETIC_RESONANCE_ANGIOGRAPHY, MAGNETIC_RESONANCE_SPECTROSCOPY, MAMMOGRAPHY, METERS, METERS_STRING, MICROMETERS, MICROMETERS_STRING, MICROSEC, MICROSEC_STRING, MILES, MILES_STRING, MILLIMETERS, MILLIMETERS_STRING, MILLISEC, MILLISEC_STRING, MILS, MILS_STRING, MINUTES, MINUTES_STRING, modality, NANOMETERS, NANOMETERS_STRING, NANOSEC, NANOSEC_STRING, NUCLEAR_MEDICINE, ORI_A2P_TYPE, ORI_I2S_TYPE, ORI_L2R_TYPE, ORI_P2A_TYPE, ORI_R2L_TYPE, ORI_S2I_TYPE, ORI_UNKNOWN_TYPE, origin, OTHER, PANORAMIC_XRAY, POSITRON_EMISSION_TOMOGRAPHY, PPM, PPM_STRING, RADIO_FLUOROSCOPY, RADIOGRAPHIC_IMAGING, RADIOTHERAPY_DOSE, RADIOTHERAPY_IMAGE, RADIOTHERAPY_PLAN, RADIOTHERAPY_RECORD, RADIOTHERAPY_STRUCTURE_SET, RADS, RADS_STRING, RED_FREE, SAGITTAL, SECONDS, SECONDS_STRING, SINGLE_PHOTON_EMISSION_COMPUTED_TOMOGRAPHY, SLIDE_MICROSCOPY, sUnits, tagDescription, tagName, THERMOGRAPHY, TRANSFORM_ANOTHER_DATASET, TRANSFORM_MNI_152, TRANSFORM_SCANNER_ANATOMICAL, TRANSFORM_TALAIRACH_TOURNOUX, TRANSFORM_UNKNOWN, tUnits, ULTRASOUND, unitsOfMeasure, UNKNOWN_MEASURE, UNKNOWN_MODALITY, UNKNOWN_ORIENT, UNKNOWN_STRING, XRAY_ANGIOGRAPHY

Constructor Summary

Constructors
Constructor	Description
`FileInfoDicom(java.lang.String name, java.lang.String directory, int format)`	DICOM file information constructor.
`FileInfoDicom(java.lang.String name, java.lang.String directory, int format, FileInfoDicom refInfo)`	DICOM file information constructor.

Method Summary

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`anonymize(boolean[] list, boolean removeValue)`	removes any and all personal information in the info that a doctor, patient, researcher may want to have deleted from the image, such as patient name or patient ID number--from this slice given by this fileInfoDicom.
`void`	`anonymizePublicSequenceTags(FileDicomKey[] keys, java.util.Vector<FileDicomSQItem> seqs, boolean removeValue)`	Method to anonymize public tags not in the DICOM Supplement 55 that may appear in sequence tags.
`void`	`anonymizePublicTags(FileDicomKey[] keys, boolean removeValue)`	Method to anonymize public tags that do not appear in the DICOM Supplement 55.
`void`	`anonymizeSequenceTags(boolean[] list, java.util.Vector<FileDicomSQItem> seqs, boolean removeValue)`	Method to anonymize the tags found in the DICOM supplement 55 that may appear in sequence tags.
`private void`	`appendLengthTag(FileDicomTag tag, java.util.HashMap<java.lang.Integer,FileInfoDicom.LengthStorageUnit> lengthComp)`
`void`	`displayAboutInfo(JDialogBase dialog, TransMatrix matrix)`	Super requires displayAboutInfo to be defined display of this class is held by JDialogFileInfoDICOM.
`void`	`finalize()`	Prepares this class for cleanup.
`java.lang.Object`	`generateNewTagValue(java.lang.String key, boolean remove)`	Generates a new version of a particular tag that is DICOM compatible
`static java.lang.Object`	`generateNewTagValue(java.lang.String key, FileDicomTagTable tagTable, boolean remove)`	Generates a new version of a particular tag in the given tag table with same length that is DICOM compatible
`static java.lang.Object`	`generateNewTagValue(java.lang.String key, java.lang.String strValue)`	Generates a new version of a particular tag in the standard DICOM tag table with same length that is DICOM compatible
`static java.lang.Object`	`generateNewTagValue(java.lang.String key, java.lang.String strValue, FileDicomTagInfo.VR vr)`	Generates a new version of a particular tag given an arbitrary value and returns a DICOM compatible result
`static java.lang.Object`	`generateNewTagValue(java.lang.String key, java.lang.String strValue, FileDicomTagInfo.VR vr, boolean remove)`
`ModelLUT`	`getLUT()`	returns the ModelLUT, if there, which might be specified by the `0028,1201`, `0028,1202`, `0028,1203` tags.
`protected static int`	`getModalityFromDicomStr(java.lang.String value)`	Returns the MIPAV modality constant for a given DICOM modality string.
`int`	`getOriginalDataType()`
`TransMatrix`	`getPatientOrientation()`	This method extracts directional cosines from the DICOM image header (tag = "0020, 0037").
`int`	`getRLETAMARencapsulatedOffset()`
`FileDicomTagTable`	`getTagTable()`	Returns a reference to the tag table for this dicom file info.
`FileInfoDicom.VRtype`	`getVr_type()`
`boolean`	`isEnhancedDicom()`
`boolean`	`isMultiFrame()`	Accessor for the status of this dicom info.
`java.lang.String[]`	`parseTagValue(java.lang.String tagName)`	Parse the string for Objects seperated by "\".
`void`	`removePrivateSequenceTags(FileDicomKey[] keys, java.util.Vector<FileDicomSQItem> seqs)`	Method to anonymize private tags that may appear in sequence tags.
`void`	`removePrivateSequenceTagsWhite(FileDicomKey[] keys, java.util.Vector<FileDicomSQItem> seqs)`
`void`	`removePrivateTags(FileDicomKey[] keys)`	Method to remove private tags from the file.
`void`	`removePrivateTagsWhite(FileDicomKey[] keys)`
`void`	`removeStampSecondaryCapture()`	In anonymization cases it may be necessary to hide the fact that MIPAV has processed this image (to remove any NIH affiliation).
`protected void`	`setInfoFromTag(FileDicomTag tag)`	Sets fields in this file info based on a given tag's key and value.
`void`	`setInfoFromTags()`	Public method for populating ModelImage data fields.
`private void`	`setInfoFromTags(FileDicomTagTable tagTable, boolean insideSequenceTag)`	After the tag table is filled, check for a number of tags to set up some fields in this file info object.
`void`	`setIsEnhancedDicom(boolean isEnhancedDicom)`
`protected void`	`setModalityFromDicomStr(java.lang.String value)`	Uses the DICOM tag value to set the Image modality field.
`void`	`setMultiFrame(boolean multiFrame)`	Sets whether the DICOM image is a multiFrame image.
`void`	`setOriginalDataType(int originalDataType)`
`void`	`setRLETAMARencapsulatedOffset(int offset)`
`void`	`setSecondaryCaptureTags(boolean isMultiFrame, int dataType)`	Changes a few dicom tags associated with a secondary capture image (marking it as having been created with mipav).
`void`	`setTagTable(FileDicomTagTable tagTable)`
`void`	`setVr_type(FileInfoDicom.VRtype vr_type)`
`private void`	`updateLengthTags(java.util.HashMap<java.lang.Integer,FileInfoDicom.LengthStorageUnit> lengthComp)`

Methods inherited from class gov.nih.mipav.model.file.FileInfoBase
copyCoreInfo, copyCoreInfo, displayAboutInfo, displayPrimaryInfo, getAboutInfo, getAllSameDimUnits, getAreaUnitsOfMeasureStr, getAxisDirection, getAxisOrientation, getAxisOrientation, getAxisOrientationFromStr, getAxisOrientationStr, getCameraMake, getCameraModel, getCompressionType, getDataType, getDataTypeFromStr, getEndianess, getEndianessFromStr, getExposureTime, getExtents, getFileDirectory, getFileFormat, getFileName, getFileSuffix, getFNumber, getFocalLength, getFocalLength35, getImageOrientation, getImageOrientationFromStr, getImageOrientationStr, getIs2_5D, getISOSpeedRating, getLPSOrigin, getMax, getMaxB, getMaxG, getMaxR, getMin, getMinB, getMinG, getMinR, getModality, getModalityFromStr, getModalityStr, getModalityStr, getMultiFile, getNumOfBytesPerPixel, getOffset, getOrigin, getOrigin, getOriginalEndianess, getOriginAtSlice, getPhotometric, getPixelPadValue, getPrimaryInfo, getRescaleIntercept, getRescaleSlope, getResolution, getResolutions, getSize, getSliceThickness, getUnitsOfMeasure, getUnitsOfMeasure, getUnitsOfMeasureAbbrevStr, getUnitsOfMeasureAbbrevStr, getUnitsOfMeasureFromStr, getUnitsOfMeasureStr, getUnitsOfMeasureStr, getVolumeUnitsOfMeasureStr, isDicomOrdered, oppositeOrient, sameAxis, setAxisOrientation, setAxisOrientation, setCameraMake, setCameraModel, setCompressionType, setDataType, setEndianess, setExposureTime, setExtents, setExtents, setFileDirectory, setFileFormat, setFileName, setFileSuffix, setFNumber, setFocalLength, setFocalLength35, setImageOrientation, setISOSpeedRating, setLUT, setMax, setMaxB, setMaxG, setMaxR, setMin, setMinB, setMinG, setMinR, setModality, setMultiFile, setOffset, setOrigin, setOrigin, setOriginalEndianess, setPhotometric, setPixelPadValue, setRescaleIntercept, setRescaleSlope, setResolutions, setResolutions, setSliceThickness, setTagDescription, setTagName, setUnitsOfMeasure, setUnitsOfMeasure, setUnitsOfMeasure, setUnitsOfMeasure, toString

Methods inherited from class gov.nih.mipav.model.structures.ModelSerialCloneable
clone, nativeClone

Methods inherited from class java.lang.Object
equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

- Field Detail
  - serialVersionUID
```
private static final long serialVersionUID
```
    Use serialVersionUID for interoperability.
    
    See Also:
    
    Constant Field Values
  - UNDEFINED_PIXEL_REP
```
public static final int UNDEFINED_PIXEL_REP
```
    (0028,0103) Pixel Representations
    
    See Also:
    
    Constant Field Values
  - UNSIGNED_PIXEL_REP
```
public static final int UNSIGNED_PIXEL_REP
```
    (0028,0103) Pixel Representations
    
    See Also:
    
    Constant Field Values
  - SIGNED_PIXEL_REP
```
public static final int SIGNED_PIXEL_REP
```
    (0028,0103) Pixel Representations
    
    See Also:
    
    Constant Field Values
  - RLETAMARencapsulatedOffset
```
private int RLETAMARencapsulatedOffset
```
  - anonymizeTagIDs
```
public static final java.lang.String[] anonymizeTagIDs
```
    these are the DICOM tag ID numbers corresponding to the tags which are anonymized. They are kept here for simplicity of updating (when it is decided that other tags are must be anonymized) and to the advantage of calling objects.
  - bitsAllocated
```
public short bitsAllocated
```
    Bits allocated per pixel.
  - bitsStored
```
public short bitsStored
```
    Bits stored per pixel>
  - highBit
```
public short highBit
```
  - bytesPerPixel
```
public short bytesPerPixel
```
    Number of bytes per pixel.
  - originalDataType
```
public int originalDataType
```
  - containsDICM
```
public boolean containsDICM
```
    True if the DICOM file has the ID DICM at beginning at file pointer 128.
  - displayType
```
public int displayType
```
    Data type.
  - instanceNumber
```
public int instanceNumber
```
    DICOM instance number.
  - isCurrentTagSQ
```
public boolean isCurrentTagSQ
```
    Whether the tag currently being processed and read in is a sequence tag.
  - multiFrame
```
public boolean multiFrame
```
    True indicates image has multiple image planes in a single file.
  - olderVersion
```
public boolean olderVersion
```
    True is image format < DICOM 3.0.
  - orientation
```
public java.lang.String orientation
```
    Orientation - SAGITTAL, CORONAL, AXIAL.
  - photometricInterp
```
public java.lang.String photometricInterp
```
    Type of image - color, monochrome etc.
  - pixelPaddingValue
```
public java.lang.Short pixelPaddingValue
```
    Pixel Padding Value (0028, 0120). Value of pixels added to non-rectangular image to pad to rectangular format.
  - pixelRepresentation
```
public short pixelRepresentation
```
    DICOM tag (0028, 0103) -1 = undefined 0 = unsigned 1 = signed
  - planarConfig
```
public short planarConfig
```
    0 = RGB, RGB, 1 = R R R, G G G, B B B.
  - sliceLocation
```
public float sliceLocation
```
    DICOM slice location.
  - vr_type
```
private FileInfoDicom.VRtype vr_type
```
    VR type can be IMPLICIT or EXPLICIT.
  - xLocation
```
public float xLocation
```
    DICOM x coordianate of the slice location.
  - yLocation
```
public float yLocation
```
    DICOM y coordianate of the slice location.
  - zLocation
```
public float zLocation
```
    DICOM z coordianate of the slice location.
  - tagTable
```
private FileDicomTagTable tagTable
```
    Stores all the information about the DICOM tags.
  - isEnhancedDicom
```
private boolean isEnhancedDicom
```
    whether it is enhanced dicom or not
  - lut
```
private ModelLUT lut
```
    LUT for pre-processing of dicom file
- Constructor Detail
  - FileInfoDicom
```
public FileInfoDicom(java.lang.String name,
                     java.lang.String directory,
                     int format)
```
    DICOM file information constructor. Used for the file info which contains the reference tag table for an image.
    
    Parameters:
    
    name - file name
    
    directory - file directory
    
    format - format (in this case, DICOM)
  - FileInfoDicom
```
public FileInfoDicom(java.lang.String name,
                     java.lang.String directory,
                     int format,
                     FileInfoDicom refInfo)
```
    DICOM file information constructor. Used for the file info which does NOT contain the reference tag table for an image.
    
    Parameters:
    
    name - file name
    
    directory - file directory
    
    format - format (in this case, DICOM)
    
    refInfo - The reference file info, containing the reference tag table.
- Method Detail
  - setRLETAMARencapsulatedOffset
```
public void setRLETAMARencapsulatedOffset(int offset)
```
  - getRLETAMARencapsulatedOffset
```
public int getRLETAMARencapsulatedOffset()
```
  - anonymize
```
public final void anonymize(boolean[] list,
                            boolean removeValue)
```
    removes any and all personal information in the info that a doctor, patient, researcher may want to have deleted from the image, such as patient name or patient ID number--from this slice given by this fileInfoDicom.
    In addition, it allows the change or removal of a whole list of information, such as: ("0010,0010") Patient name; ("0010,0020") patient ID number; ("0010,0050") patient Insurance plan code sequence; ("0010,1000") other patient IDs; ("0010,1001") other patient names; ("0010,1040") patient address; ("0010,1060") patient mother's birth name; ("0010,2154") patient telephone numbers; ("0010,2160") patient ethnic group; ("0010,21D0") patient's last menstrual date; ("0010,21F0") patient religious preference; and ("0010,4000") patient comments.
    
    Parameters:
    
    list - the list of tags to remove; it MUST correspond to anonymizeTagIDs list (or spurious errors result), and it must be of the same length, or this will throw an IllegalArgumentException.
    
    Throws:
    
    java.lang.IllegalArgumentException - DOCUMENT ME!
  - anonymizeSequenceTags
```
public void anonymizeSequenceTags(boolean[] list,
                                  java.util.Vector<FileDicomSQItem> seqs,
                                  boolean removeValue)
```
    Method to anonymize the tags found in the DICOM supplement 55 that may appear in sequence tags. A list of sequence tags should be passed in so that you do not have to figure out which tags are sequences every time.
  - removePrivateTags
```
public final void removePrivateTags(FileDicomKey[] keys)
```
    Method to remove private tags from the file. No option is given to anonymize the values. Requires an array of DICOM keys.
  - removePrivateTagsWhite
```
public final void removePrivateTagsWhite(FileDicomKey[] keys)
```
  - removePrivateSequenceTags
```
public final void removePrivateSequenceTags(FileDicomKey[] keys,
                                            java.util.Vector<FileDicomSQItem> seqs)
```
    Method to anonymize private tags that may appear in sequence tags. A list of sequence tags should be passed in so that you do not have to figure out which tags are sequences every time.
  - removePrivateSequenceTagsWhite
```
public final void removePrivateSequenceTagsWhite(FileDicomKey[] keys,
                                                 java.util.Vector<FileDicomSQItem> seqs)
```
  - anonymizePublicTags
```
public final void anonymizePublicTags(FileDicomKey[] keys,
                                      boolean removeValue)
```
    Method to anonymize public tags that do not appear in the DICOM Supplement 55. Like in the other anonymize methods, you may instead choose to replace the value with a blank string.
  - anonymizePublicSequenceTags
```
public final void anonymizePublicSequenceTags(FileDicomKey[] keys,
                                              java.util.Vector<FileDicomSQItem> seqs,
                                              boolean removeValue)
```
    Method to anonymize public tags not in the DICOM Supplement 55 that may appear in sequence tags. A list of sequence tags should be passed in so that you do not have to figure out which tags are sequences every time.
  - generateNewTagValue
```
public java.lang.Object generateNewTagValue(java.lang.String key,
                                            boolean remove)
```
    Generates a new version of a particular tag that is DICOM compatible
    
    Parameters:
    
    key -
    
    Returns:
  - getLUT
```
public final ModelLUT getLUT()
```
    returns the ModelLUT, if there, which might be specified by the 0028,1201, 0028,1202, 0028,1203 tags.
    
    Overrides:
    
    getLUT in class FileInfoBase
    
    Returns:
    
    DOCUMENT ME!
  - generateNewTagValue
```
public static java.lang.Object generateNewTagValue(java.lang.String key,
                                                   FileDicomTagTable tagTable,
                                                   boolean remove)
```
    Generates a new version of a particular tag in the given tag table with same length that is DICOM compatible
    
    Parameters:
    
    key -
    
    Returns:
  - generateNewTagValue
```
public static java.lang.Object generateNewTagValue(java.lang.String key,
                                                   java.lang.String strValue)
```
    Generates a new version of a particular tag in the standard DICOM tag table with same length that is DICOM compatible
    
    Parameters:
    
    key -
    
    Returns:
  - generateNewTagValue
```
public static java.lang.Object generateNewTagValue(java.lang.String key,
                                                   java.lang.String strValue,
                                                   FileDicomTagInfo.VR vr)
```
    Generates a new version of a particular tag given an arbitrary value and returns a DICOM compatible result
    
    Parameters:
    
    key -
    
    Returns:
  - generateNewTagValue
```
public static java.lang.Object generateNewTagValue(java.lang.String key,
                                                   java.lang.String strValue,
                                                   FileDicomTagInfo.VR vr,
                                                   boolean remove)
```
  - displayAboutInfo
```
public final void displayAboutInfo(JDialogBase dialog,
                                   TransMatrix matrix)
```
    Super requires displayAboutInfo to be defined display of this class is held by JDialogFileInfoDICOM. Should never be called.
    
    Specified by:
    
    displayAboutInfo in class FileInfoBase
    
    Parameters:
    
    dialog -
    
    matrix -
    
    See Also:
    
    JDialogFileInfoDICOM
  - finalize
```
public void finalize()
```
    Prepares this class for cleanup.
    
    Overrides:
    
    finalize in class FileInfoBase
  - setOriginalDataType
```
public void setOriginalDataType(int originalDataType)
```
  - getOriginalDataType
```
public int getOriginalDataType()
```
  - getPatientOrientation
```
public final TransMatrix getPatientOrientation()
```
    This method extracts directional cosines from the DICOM image header (tag = "0020, 0037"). Since the third row of transformation matrix is not given in the tag but can be derived by taking the cross product. The result is then put into a MIPAV transformation matrix object and returned.
    
    Returns:
    
    the transformation object extracted from the DICOM header. If this tag is null then the class returns null.
  - getTagTable
```
public final FileDicomTagTable getTagTable()
```
    Returns a reference to the tag table for this dicom file info.
    
    Returns:
    
    A reference to the tag table.
  - setTagTable
```
public final void setTagTable(FileDicomTagTable tagTable)
```
    Parameters:
    
    tagTable - the tagTable to set, useful when a tag table has been populated from an enhanced DICOM series.
  - isMultiFrame
```
public final boolean isMultiFrame()
```
    Accessor for the status of this dicom info.
    
    Returns:
    
    boolean true for images that think they are multi-frame.
  - setMultiFrame
```
public final void setMultiFrame(boolean multiFrame)
```
    Sets whether the DICOM image is a multiFrame image.
  - parseTagValue
```
public final java.lang.String[] parseTagValue(java.lang.String tagName)
```
    Parse the string for Objects seperated by "\". Uses the local method getValue to look at the Object held in the tag and decipher it for the user class into an array of strings.
    parseTagValue has not been updated for the newer versions of DicomTag
    
    Parameters:
    
    tagName - The name given as the key to search the Hashtable for.
    
    Returns:
    
    the array of Strings that were coded into the tag; a single string is given if the string in the tag has no "\" seporators. Each String in the array is a single value, and there are value multiplicity number of Strings in the array. NOTE: user class must convert this list to the correct type; (which does indicate user class knows what returned string is) If null then there were zero tokens in the tag
  - removeStampSecondaryCapture
```
public void removeStampSecondaryCapture()
```
    In anonymization cases it may be necessary to hide the fact that MIPAV has processed this image (to remove any NIH affiliation). This method removes those tags that identify any secondary capture device information contained within the image, to make it appear as if the image has not been processed.
    
    Parameters:
    
    fileInfo - File info structure to set.
  - setInfoFromTags
```
public final void setInfoFromTags()
```
    Public method for populating ModelImage data fields.
  - setInfoFromTags
```
private final void setInfoFromTags(FileDicomTagTable tagTable,
                                   boolean insideSequenceTag)
```
    After the tag table is filled, check for a number of tags to set up some fields in this file info object.
  - updateLengthTags
```
private void updateLengthTags(java.util.HashMap<java.lang.Integer,FileInfoDicom.LengthStorageUnit> lengthComp)
```
  - appendLengthTag
```
private void appendLengthTag(FileDicomTag tag,
                             java.util.HashMap<java.lang.Integer,FileInfoDicom.LengthStorageUnit> lengthComp)
```
  - setSecondaryCaptureTags
```
public void setSecondaryCaptureTags(boolean isMultiFrame,
                                    int dataType)
```
    Changes a few dicom tags associated with a secondary capture image (marking it as having been created with mipav). This is often used after a new image is created as the result of an algorithm and the source image's file infos are copied over to the new image.
  - getModalityFromDicomStr
```
protected static final int getModalityFromDicomStr(java.lang.String value)
```
    Returns the MIPAV modality constant for a given DICOM modality string.
    
    Parameters:
    
    value - The DICOM modality tag value.
    
    Returns:
    
    The equivalent MIPAV modality constant (or UNKNOWN_MODALITY if there is no equivalent found).
  - setInfoFromTag
```
protected final void setInfoFromTag(FileDicomTag tag)
```
    Sets fields in this file info based on a given tag's key and value.
    
    Parameters:
    
    tag - The tag to use to update the file info fields (not all tags cause field changes).
  - isEnhancedDicom
```
public boolean isEnhancedDicom()
```
  - setIsEnhancedDicom
```
public void setIsEnhancedDicom(boolean isEnhancedDicom)
```
  - setModalityFromDicomStr
```
protected final void setModalityFromDicomStr(java.lang.String value)
```
    Uses the DICOM tag value to set the Image modality field.
    
    Parameters:
    
    value - Object used is the value of DICOM tag (0008,0060)
  - getVr_type
```
public FileInfoDicom.VRtype getVr_type()
```
  - setVr_type
```
public void setVr_type(FileInfoDicom.VRtype vr_type)
```

Class FileInfoDicom

Nested Class Summary

Nested classes/interfaces inherited from class gov.nih.mipav.model.file.FileInfoBase

Field Summary

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

Constructor Summary

Method Summary

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

Methods inherited from class gov.nih.mipav.model.structures.ModelSerialCloneable

Methods inherited from class java.lang.Object

Field Detail

serialVersionUID

UNDEFINED_PIXEL_REP

UNSIGNED_PIXEL_REP

SIGNED_PIXEL_REP

RLETAMARencapsulatedOffset

anonymizeTagIDs

bitsAllocated

bitsStored

highBit

bytesPerPixel

originalDataType

containsDICM

displayType

instanceNumber

isCurrentTagSQ

multiFrame

olderVersion

orientation

photometricInterp

pixelPaddingValue

pixelRepresentation

planarConfig

sliceLocation

vr_type

xLocation

yLocation

zLocation

tagTable

isEnhancedDicom

lut

Constructor Detail

FileInfoDicom

FileInfoDicom

Method Detail

setRLETAMARencapsulatedOffset

getRLETAMARencapsulatedOffset

anonymize

anonymizeSequenceTags

removePrivateTags

removePrivateTagsWhite

removePrivateSequenceTags

removePrivateSequenceTagsWhite

anonymizePublicTags

anonymizePublicSequenceTags

generateNewTagValue

getLUT

generateNewTagValue

generateNewTagValue

generateNewTagValue

generateNewTagValue

displayAboutInfo

finalize

setOriginalDataType

getOriginalDataType

getPatientOrientation

getTagTable

setTagTable

isMultiFrame

setMultiFrame

parseTagValue

removeStampSecondaryCapture

setInfoFromTags

setInfoFromTags

updateLengthTags

appendLengthTag

setSecondaryCaptureTags

getModalityFromDicomStr

setInfoFromTag

isEnhancedDicom