com.pixelmed.convert
Class ConvertAmicasJPEG2000FilesetToDicom

java.lang.Object
  com.pixelmed.convert.ConvertAmicasJPEG2000FilesetToDicom

public class ConvertAmicasJPEG2000FilesetToDicom
extends Object

This class provides conversion of a set of Amicas JPEG 2000 files to DICOM.

Nested Class Summary

class	ConvertAmicasJPEG2000FilesetToDicom.OnlyDirectoriesFileFilter Instances of this class select only Files that are directories.
class	ConvertAmicasJPEG2000FilesetToDicom.OnlySuffixFilenameFilter Instances of this class select only File names that end with the specified suffix.

Field Summary

protected static DicomDictionary	dictionary
protected PrintWriter	logger
protected String	mediaDirectoryPath
protected ConvertAmicasJPEG2000FilesetToDicom.OnlyDirectoriesFileFilter	onlyDirectoriesFileFilter
protected ConvertAmicasJPEG2000FilesetToDicom.OnlySuffixFilenameFilter	onlyXMLFilenameFilter
protected SpecificCharacterSet	specificCharacterSet
protected static UIDGenerator	uidGenerator

Constructor Summary

ConvertAmicasJPEG2000FilesetToDicom()
Construct an converter that will looked for files in the system default path.

ConvertAmicasJPEG2000FilesetToDicom(String mediaDirectoryPath)
Construct an converter that will looked for files in the specified path.

Method Summary

protected void	addDicomAttributeFromXmlAttribute(AttributeList list, AttributeTag tag, String xmlAttributeName, NamedNodeMap xmlAttributes, int type, String defaultValueForType1)
void	choosePathsAndConvertAmicasFiles() Pop up folder chooser dialogs that allow the user to specify the location of the amicas-patients folder, or the parent folder (for example, the drive or volume) in which the amicas-patients folder is located, and the output folder to store the converted DICOM files, and then perform the conversion.
void	convertAmicasFiles(String pathName, String dicomOutputFolder) Read an amicas-patients folder, and then convert any image files within.
protected void	createDicomImageFileFromAmicasImageFile(File amicasFolder, String amicasFileName, String dicomOutputFolder, String storingAETitle, AttributeList patientList, AttributeList studyList, AttributeList seriesList, AttributeList imageList)
protected String	getNamedAttributeValue(NamedNodeMap xmlAttributes, String xmlAttributeName)
static void	main(String[] arg) Convert a set of Amicas JPEG 2000 files to DICOM.
protected AttributeList	makeAttributeListForImage(NamedNodeMap xmlAttributes)
protected AttributeList	makeAttributeListForPatient(NamedNodeMap xmlAttributes)
protected AttributeList	makeAttributeListForSeries(NamedNodeMap xmlAttributes)
protected AttributeList	makeAttributeListForStudy(NamedNodeMap xmlAttributes)
protected Attribute	makeDicomAttributeFromXmlAttribute(AttributeTag tag, String xmlAttributeName, NamedNodeMap xmlAttributes, int type, String defaultValue)
protected Attribute	newAttribute(AttributeTag tag)
void	setLogger(JFrame content, int width, int height)
void	setLogger(OutputStream stream)
void	setLogger(PrintWriter logger)
protected static SpecificCharacterSet	setSpecificCharacterSetFromDocumentEncoding(Document document)

Methods inherited from class java.lang.Object

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

Field Detail

mediaDirectoryPath

protected String mediaDirectoryPath

logger

protected PrintWriter logger

onlyDirectoriesFileFilter

protected ConvertAmicasJPEG2000FilesetToDicom.OnlyDirectoriesFileFilter onlyDirectoriesFileFilter

onlyXMLFilenameFilter

protected ConvertAmicasJPEG2000FilesetToDicom.OnlySuffixFilenameFilter onlyXMLFilenameFilter

specificCharacterSet

protected SpecificCharacterSet specificCharacterSet

dictionary

protected static DicomDictionary dictionary

uidGenerator

protected static UIDGenerator uidGenerator

Constructor Detail

ConvertAmicasJPEG2000FilesetToDicom

public ConvertAmicasJPEG2000FilesetToDicom()

Construct an converter that will looked for files in the system default path.

ConvertAmicasJPEG2000FilesetToDicom

public ConvertAmicasJPEG2000FilesetToDicom(String mediaDirectoryPath)

Construct an converter that will looked for files in the specified path.

Parameters:

mediaDirectoryPath - where to begin looking for the amicas-patients folder

Method Detail

setLogger

public void setLogger(PrintWriter logger)

setLogger

public void setLogger(OutputStream stream)

setLogger

public void setLogger(JFrame content,
                      int width,
                      int height)

choosePathsAndConvertAmicasFiles

public void choosePathsAndConvertAmicasFiles()
                                      throws IOException,
                                             DicomException,
                                             ParserConfigurationException,
                                             SAXException

Pop up folder chooser dialogs that allow the user to specify the location of the amicas-patients folder, or the parent folder (for example, the drive or volume) in which the amicas-patients folder is located, and the output folder to store the converted DICOM files, and then perform the conversion.

Throws:

IOException

DicomException

ParserConfigurationException

SAXException

newAttribute

protected Attribute newAttribute(AttributeTag tag)
                          throws DicomException

Throws:

DicomException

getNamedAttributeValue

protected String getNamedAttributeValue(NamedNodeMap xmlAttributes,
                                        String xmlAttributeName)

makeDicomAttributeFromXmlAttribute

protected Attribute makeDicomAttributeFromXmlAttribute(AttributeTag tag,
                                                       String xmlAttributeName,
                                                       NamedNodeMap xmlAttributes,
                                                       int type,
                                                       String defaultValue)
                                                throws DicomException

Throws:

DicomException

addDicomAttributeFromXmlAttribute

protected void addDicomAttributeFromXmlAttribute(AttributeList list,
                                                 AttributeTag tag,
                                                 String xmlAttributeName,
                                                 NamedNodeMap xmlAttributes,
                                                 int type,
                                                 String defaultValueForType1)
                                          throws DicomException

Throws:

DicomException

makeAttributeListForPatient

protected AttributeList makeAttributeListForPatient(NamedNodeMap xmlAttributes)
                                             throws DicomException

Throws:

DicomException

makeAttributeListForStudy

protected AttributeList makeAttributeListForStudy(NamedNodeMap xmlAttributes)
                                           throws DicomException

Throws:

DicomException

makeAttributeListForSeries

protected AttributeList makeAttributeListForSeries(NamedNodeMap xmlAttributes)
                                            throws DicomException

Throws:

DicomException

makeAttributeListForImage

protected AttributeList makeAttributeListForImage(NamedNodeMap xmlAttributes)
                                           throws DicomException

Throws:

DicomException

setSpecificCharacterSetFromDocumentEncoding

protected static SpecificCharacterSet setSpecificCharacterSetFromDocumentEncoding(Document document)

createDicomImageFileFromAmicasImageFile

protected void createDicomImageFileFromAmicasImageFile(File amicasFolder,
                                                       String amicasFileName,
                                                       String dicomOutputFolder,
                                                       String storingAETitle,
                                                       AttributeList patientList,
                                                       AttributeList studyList,
                                                       AttributeList seriesList,
                                                       AttributeList imageList)
                                                throws IOException,
                                                       DicomException

Throws:

IOException

DicomException

convertAmicasFiles

public void convertAmicasFiles(String pathName,
                               String dicomOutputFolder)
                        throws IOException,
                               DicomException,
                               ParserConfigurationException,
                               SAXException

Read an amicas-patients folder, and then convert any image files within.

Parameters:

pathName - the path name to an amicas-patients folder or folder containing an amicas-patients folder

dicomOutputFolder - the path name to where to write the DICOM files

Throws:

IOException

DicomException

ParserConfigurationException

SAXException

main

public static void main(String[] arg)

Convert a set of Amicas JPEG 2000 files to DICOM.

Parameters:

arg - array of two strings - the path to the media or folder containing the files to convert, and the path to the folder to stored the converted images, or else will pop up file chooser dialogs to select these and create a frame to show the progress.