com.pixelmed.convert

Class NIfTI1ToDicom

java.lang.Object

com.pixelmed.convert.NIfTI1ToDicom

public class NIfTI1ToDicom
extends java.lang.Object

A class for converting NIfTI-1 image input format files into images of a specified or appropriate SOP Class.

Constructor Summary

Constructors

Constructor and Description
NIfTI1ToDicom(java.lang.String inputFileName, java.lang.String outputFileName, java.lang.String patientName, java.lang.String patientID, java.lang.String studyID, java.lang.String seriesNumber, java.lang.String instanceNumber) Read a NIfTI-1 image input format files and create an image of a specified or appropriate SOP Class.
NIfTI1ToDicom(java.lang.String inputFileName, java.lang.String outputFileName, java.lang.String patientName, java.lang.String patientID, java.lang.String studyID, java.lang.String seriesNumber, java.lang.String instanceNumber, java.lang.String modality, java.lang.String sopClass) Read a NIfTI-1 image input format files and create an image of a specified or appropriate SOP Class.

Method Summary

Methods

Modifier and Type	Method and Description
static AttributeList	createFunctionalGroupsIfNotPresent(AttributeList list, int numberOfFrames) Create shared and per-frame functional group sequences if not already present.
static AttributeList	generateDICOMPixelDataModuleAttributesFromNIfTI1File(java.io.File inputFile, NIfTI1Header nifti, AttributeList list) Using a NIfTI-1 image input file and header, create DICOM Pixel Data Module attributes.
static AttributeList	generateGeometryFunctionalGroupsFromNIfTI1Header(NIfTI1Header nifti, AttributeList list, int numberOfFrames) Read a per-frame and shared functional group sequences for the geometry defined in a NIfTI-1 file header.
static AttributeList	generatePixelValueTransformationFunctionalGroup(AttributeList list, int numberOfFrames, double rescaleSlope, double rescaleIntercept, java.lang.String rescaleType) Insert a shared functional group sequence Pixel Value Transformation Sequence entry.
static AttributeList	generateVOILUTFunctionalGroup(AttributeList list, int numberOfFrames, double windowWidth, double windowCenter, java.lang.String voiLUTFunction) Insert a shared functional group sequence Frame VOI LUT Sequence entry.
static void	main(java.lang.String[] arg) Read a NIfTI-1 image input format files and create an image of a specified or appropriate SOP Class.

Methods inherited from class java.lang.Object

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

Constructor Detail

NIfTI1ToDicom

public NIfTI1ToDicom(java.lang.String inputFileName,
             java.lang.String outputFileName,
             java.lang.String patientName,
             java.lang.String patientID,
             java.lang.String studyID,
             java.lang.String seriesNumber,
             java.lang.String instanceNumber)
              throws java.io.IOException,
                     DicomException,
                     NIfTI1Exception

Read a NIfTI-1 image input format files and create an image of a specified or appropriate SOP Class.

Parameters:

inputFileName -

outputFileName -

patientName -

patientID -

studyID -

seriesNumber -

instanceNumber -

Throws:

java.io.IOException

DicomException

NIfTI1Exception

NIfTI1ToDicom

public NIfTI1ToDicom(java.lang.String inputFileName,
             java.lang.String outputFileName,
             java.lang.String patientName,
             java.lang.String patientID,
             java.lang.String studyID,
             java.lang.String seriesNumber,
             java.lang.String instanceNumber,
             java.lang.String modality,
             java.lang.String sopClass)
              throws java.io.IOException,
                     DicomException,
                     NIfTI1Exception

Read a NIfTI-1 image input format files and create an image of a specified or appropriate SOP Class.

Parameters:

inputFileName -

outputFileName -

patientName -

patientID -

studyID -

seriesNumber -

instanceNumber -

modality - may be null

sopClass - may be null

Throws:

java.io.IOException

DicomException

NIfTI1Exception

Method Detail

createFunctionalGroupsIfNotPresent

public static AttributeList createFunctionalGroupsIfNotPresent(AttributeList list,
                                               int numberOfFrames)

Create shared and per-frame functional group sequences if not already present.

Parameters:

list - an existing (possibly empty) attribute list, if null, a new one will be created; may already shared and per-frame functional group sequences or they will be added

numberOfFrames - return attribute list with empty per-frame and shared functional group sequences fadded

Throws:

DicomException

generatePixelValueTransformationFunctionalGroup

public static AttributeList generatePixelValueTransformationFunctionalGroup(AttributeList list,
                                                            int numberOfFrames,
                                                            double rescaleSlope,
                                                            double rescaleIntercept,
                                                            java.lang.String rescaleType)
                                                                     throws DicomException

Insert a shared functional group sequence Pixel Value Transformation Sequence entry.

Parameters:

list - an existing (possibly empty) attribute list, if null, a new one will be created; may already shared and per-frame functional group sequences or they will be added

numberOfFrames -

rescaleSlope -

rescaleIntercept -

rescaleType - return attribute list with per-frame and shared functional group sequences for VOI added

Throws:

DicomException

generateVOILUTFunctionalGroup

public static AttributeList generateVOILUTFunctionalGroup(AttributeList list,
                                          int numberOfFrames,
                                          double windowWidth,
                                          double windowCenter,
                                          java.lang.String voiLUTFunction)
                                                   throws DicomException

Insert a shared functional group sequence Frame VOI LUT Sequence entry.

Parameters:

list - an existing (possibly empty) attribute list, if null, a new one will be created; may already shared and per-frame functional group sequences or they will be added

numberOfFrames -

windowWidth -

windowCenter -

voiLUTFunction - return attribute list with per-frame and shared functional group sequences for VOI added

Throws:

DicomException

generateGeometryFunctionalGroupsFromNIfTI1Header

public static AttributeList generateGeometryFunctionalGroupsFromNIfTI1Header(NIfTI1Header nifti,
                                                             AttributeList list,
                                                             int numberOfFrames)
                                                                      throws DicomException

Read a per-frame and shared functional group sequences for the geometry defined in a NIfTI-1 file header.

Parameters:

nifti - a NIfTI-1 header

list - an existing (possibly empty) attribute list, if null, a new one will be created; may already shared and per-frame functional group sequences or they will be added

numberOfFrames - return attribute list with per-frame and shared functional group sequences for geometry added

Throws:

DicomException

generateDICOMPixelDataModuleAttributesFromNIfTI1File

public static AttributeList generateDICOMPixelDataModuleAttributesFromNIfTI1File(java.io.File inputFile,
                                                                 NIfTI1Header nifti,
                                                                 AttributeList list)
                                                                          throws java.io.IOException,
                                                                                 DicomException,
                                                                                 NIfTI1Exception

Using a NIfTI-1 image input file and header, create DICOM Pixel Data Module attributes.

Parameters:

inputFile - a NIfTI-1 format image file

nifti - a NIfTI-1 header already read from the inputFile

list - an existing (possibly empty) attribute list, if null, a new one will be created; may already include "better" image pixel module attributes to use return attribute list with Image Pixel Module (including Pixel Data) and other attributes added

Throws:

java.io.IOException

DicomException

NIfTI1Exception

main

public static void main(java.lang.String[] arg)

Read a NIfTI-1 image input format files and create an image of a specified or appropriate SOP Class.

Parameters:

arg - seven, eight or nine parameters, the inputFile, outputFile, patientName, patientID, studyID, seriesNumber, instanceNumber, and optionally the modality, and SOP Class