Package de.regnis.q.sequence.line

Class QSequenceLineMedia

java.lang.Object

de.regnis.q.sequence.line.QSequenceLineMedia

All Implemented Interfaces:

QSequenceMedia, QSequenceCachableMedia, QSequenceMediaComparer

public final class QSequenceLineMedia
extends java.lang.Object
implements QSequenceCachableMedia, QSequenceMediaComparer

Field Summary

Fields

Modifier and Type	Field	Description
static int	FILE_SEGMENT_SIZE
private QSequenceLineCache	leftCache
static int	MEMORY_THRESHOLD
private QSequenceLineCache	rightCache
static double	SEARCH_DEPTH_EXPONENT
static int	SEGMENT_ENTRY_SIZE

Constructor Summary

Constructors

Constructor	Description
QSequenceLineMedia(QSequenceLineCache leftCache, QSequenceLineCache rightCache)

Method Summary

Modifier and Type	Method	Description
static QSequenceLineResult	createBlocks(QSequenceLineRAData leftData, QSequenceLineRAData rightData)
static QSequenceLineResult	createBlocks(QSequenceLineRAData leftData, QSequenceLineRAData rightData, int memoryThreshold, int fileSegmentSize, double searchDepthExponent, QSequenceLineTempDirectoryFactory tempDirectoryFactory, QSequenceLineSimplifier simplifier)
static QSequenceLineResult	createBlocks(QSequenceLineRAData leftData, QSequenceLineRAData rightData, QSequenceLineSimplifier simplifier)
(package private) static QSequenceLineResult	createBlocksInFilesystem(QSequenceLineRAData leftData, QSequenceLineRAData rightData, QSequenceLineTempDirectoryFactory tempDirectoryFactory, double searchDepthExponent, int memoryThreshold, int fileSegmentSize, QSequenceLineSimplifier simplifier)
(package private) static QSequenceLineResult	createBlocksInMemory(java.io.InputStream leftStream, java.io.InputStream rightStream, double searchDepthExponent, QSequenceLineSimplifier simplifier)
boolean	equals(int leftIndex, int rightIndex)
boolean	equalsLeft(int left1, int left2)
boolean	equalsRight(int right1, int right2)
int	getLeftLength()
java.lang.Object	getMediaLeftObject(int index)
java.lang.Object	getMediaRightObject(int index)
int	getRightLength()
private static int	getSearchDepth(QSequenceLineMedia lineMedia, double searchDepthExponent)
private static int	parseMemoryTreshold(java.lang.String value)
static QSequenceLineCache	readLines(QSequenceLineRAData data)

Methods inherited from class java.lang.Object

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

Field Detail

FILE_SEGMENT_SIZE

public static final int FILE_SEGMENT_SIZE

See Also:

Constant Field Values

SEGMENT_ENTRY_SIZE

public static final int SEGMENT_ENTRY_SIZE

See Also:

Constant Field Values

MEMORY_THRESHOLD

public static final int MEMORY_THRESHOLD

SEARCH_DEPTH_EXPONENT

public static final double SEARCH_DEPTH_EXPONENT

leftCache

private final QSequenceLineCache leftCache

rightCache

private final QSequenceLineCache rightCache

Constructor Detail

QSequenceLineMedia

public QSequenceLineMedia(QSequenceLineCache leftCache,
                          QSequenceLineCache rightCache)

Method Detail

readLines

public static QSequenceLineCache readLines(QSequenceLineRAData data)
                                    throws java.io.IOException

Throws:

java.io.IOException

createBlocks

public static QSequenceLineResult createBlocks(QSequenceLineRAData leftData,
                                               QSequenceLineRAData rightData)
                                        throws java.io.IOException,
                                               QSequenceException

Throws:

java.io.IOException

QSequenceException

createBlocks

public static QSequenceLineResult createBlocks(QSequenceLineRAData leftData,
                                               QSequenceLineRAData rightData,
                                               QSequenceLineSimplifier simplifier)
                                        throws java.io.IOException,
                                               QSequenceException

Throws:

java.io.IOException

QSequenceException

createBlocks

public static QSequenceLineResult createBlocks(QSequenceLineRAData leftData,
                                               QSequenceLineRAData rightData,
                                               int memoryThreshold,
                                               int fileSegmentSize,
                                               double searchDepthExponent,
                                               QSequenceLineTempDirectoryFactory tempDirectoryFactory,
                                               QSequenceLineSimplifier simplifier)
                                        throws java.io.IOException,
                                               QSequenceException

Throws:

java.io.IOException

QSequenceException

createBlocksInMemory

static QSequenceLineResult createBlocksInMemory(java.io.InputStream leftStream,
                                                java.io.InputStream rightStream,
                                                double searchDepthExponent,
                                                QSequenceLineSimplifier simplifier)
                                         throws java.io.IOException,
                                                QSequenceException

Throws:

java.io.IOException

QSequenceException

createBlocksInFilesystem

static QSequenceLineResult createBlocksInFilesystem(QSequenceLineRAData leftData,
                                                    QSequenceLineRAData rightData,
                                                    QSequenceLineTempDirectoryFactory tempDirectoryFactory,
                                                    double searchDepthExponent,
                                                    int memoryThreshold,
                                                    int fileSegmentSize,
                                                    QSequenceLineSimplifier simplifier)
                                             throws java.io.IOException,
                                                    QSequenceException

Throws:

java.io.IOException

QSequenceException

getLeftLength

public int getLeftLength()

Specified by:

getLeftLength in interface QSequenceMedia

getRightLength

public int getRightLength()

Specified by:

getRightLength in interface QSequenceMedia

getMediaLeftObject

public java.lang.Object getMediaLeftObject(int index)
                                    throws QSequenceException

Specified by:

getMediaLeftObject in interface QSequenceCachableMedia

Throws:

QSequenceException

getMediaRightObject

public java.lang.Object getMediaRightObject(int index)
                                     throws QSequenceException

Specified by:

getMediaRightObject in interface QSequenceCachableMedia

Throws:

QSequenceException

equals

public boolean equals(int leftIndex,
                      int rightIndex)
               throws QSequenceException

Specified by:

equals in interface QSequenceMedia

Throws:

QSequenceException

equalsLeft

public boolean equalsLeft(int left1,
                          int left2)
                   throws QSequenceException

Specified by:

equalsLeft in interface QSequenceMediaComparer

Throws:

QSequenceException

equalsRight

public boolean equalsRight(int right1,
                           int right2)
                    throws QSequenceException

Specified by:

equalsRight in interface QSequenceMediaComparer

Throws:

QSequenceException

getSearchDepth

private static int getSearchDepth(QSequenceLineMedia lineMedia,
                                  double searchDepthExponent)

parseMemoryTreshold

private static int parseMemoryTreshold(java.lang.String value)