Package org.ujmp.core.doublematrix.impl
Class DenseFileMatrix
java.lang.Object
- All Implemented Interfaces:
Closeable
,Serializable
,AutoCloseable
,Cloneable
,Comparable<Matrix>
,HasMetaData
,BaseMatrix
,BooleanCalculations
,CanPerformCalculations
,DenseMatrix
,DenseMatrix2D
,DenseMatrixMultiD
,BaseDoubleMatrix
,BasicDoubleCalculations
,DoubleCalculations
,BasicEntrywiseDoubleCalculations
,CreatorDoubleCalculations
,EntrywiseDoubleCalculations
,HyperbolicDoubleCalculations
,MiscEntrywiseDoubleCalculations
,RoundingDoubleCalculations
,TrigonometricDoubleCalculations
,DecompositionDoubleCalculations
,DiscretizeCalculations
,GeneralDoubleCalculations
,MiscGeneralDoubleCalculations
,MissingValueDoubleCalculations
,StatisticalDoubleCalculations
,DenseDoubleMatrix
,DenseDoubleMatrix2D
,DenseDoubleMatrixMultiD
,DoubleMatrix
,DoubleMatrix2D
,DoubleMatrixMultiD
,SparseDoubleMatrix
,SparseDoubleMatrix2D
,SparseDoubleMatrixMultiD
,BaseGenericMatrix<Double>
,DenseGenericMatrix<Double>
,DenseGenericMatrix2D<Double>
,DenseGenericMatrixMultiD<Double>
,GenericMatrix<Double>
,GenericMatrix2D<Double>
,GenericMatrixMultiD<Double>
,SparseGenericMatrix<Double>
,SparseGenericMatrix2D<Double>
,SparseGenericMatrixMultiD<Double>
,BaseMatrixProperties
,Clearable
,Conversions
,CoordinateFunctions
,CoreObject
,DistanceMeasures
,Erasable
,ExtendedMatrixProperties
,GettersAndSetters
,HasDescription
,HasGUIObject
,HasId
,HasLabel
,IntCalculations
,Matrix
,Matrix2D
,MatrixMultiD
,BaseNumberMatrix<Double>
,DenseNumberMatrix<Double>
,DenseNumberMatrix2D<Double>
,DenseNumberMatrixMultiD<Double>
,NumberMatrix<Double>
,NumberMatrix2D<Double>
,NumberMatrixMultiD<Double>
,SparseNumberMatrix<Double>
,SparseNumberMatrix2D<Double>
,SparseNumberMatrixMultiD<Double>
,ObjectCalculations
,SparseMatrix
,SparseMatrix2D
,SparseMatrixMultiD
,StringCalculations
- Direct Known Subclasses:
WaveMatrix
- See Also:
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Field Summary
FieldsModifier and TypeFieldDescriptionprivate int
static final int
private int
static final int
private static ByteOrder
static final int
private int
static final int
private File
static final int
static final int
static final int
static final int
static final int
private long
private BufferedRandomAccessFile
private boolean
private static final long
static final int
static final int
static final int
static final int
Fields inherited from class org.ujmp.core.AbstractMatrix
guiObject, size
Fields inherited from interface org.ujmp.core.BaseMatrix
ALL, COLUMN, LINK, NEW, NONE, ORIG, ROW, X, Y, Z
Fields inherited from interface org.ujmp.core.doublematrix.DenseDoubleMatrix
Factory
Fields inherited from interface org.ujmp.core.DenseMatrix
Factory
Fields inherited from interface org.ujmp.core.DenseMatrix2D
Factory
Fields inherited from interface org.ujmp.core.doublematrix.DoubleMatrix
Factory
Fields inherited from interface org.ujmp.core.interfaces.HasDescription
DESCRIPTION
Fields inherited from interface org.ujmp.core.annotation.HasMetaData
DIMENSIONMETADATA
Fields inherited from interface org.ujmp.core.Matrix
chol, divideMatrix, divideScalar, eig, Factory, inv, lu, minusMatrix, minusScalar, mtimes, plusMatrix, plusScalar, qr, solve, svd, timesMatrix, timesScalar, transpose
Fields inherited from interface org.ujmp.core.SparseMatrix
Factory
Fields inherited from interface org.ujmp.core.SparseMatrix2D
Factory
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Constructor Summary
ConstructorsConstructorDescriptionDenseFileMatrix
(int bufferSize, File file, long offset, int dataType, boolean readOnly, long... size) DenseFileMatrix
(long... size) DenseFileMatrix
(File file) DenseFileMatrix
(File file, int dataType, long... size) DenseFileMatrix
(File file, long... size) DenseFileMatrix
(File file, long offset, int dataType, boolean readOnly, long... size) -
Method Summary
Modifier and TypeMethodDescriptionvoid
close()
private void
void
erase()
protected void
finalize()
private static final double
getBit
(byte b, double offset) int
private static final int
getBitsPerValue
(int dataType) int
long
int
double
getDouble
(long... c) Returns a double representation of an entry in the matrix.getFile()
long
static final int
getIntLittleEndian
(byte[] bytes) private long
getPos
(long... pos) static final int
getShortLittleEndian
(byte[] bytes) boolean
private void
private static final byte
setBit
(byte b, double offset) void
setBufferSize
(int bufferSize) void
setDouble
(double value, long... c) Sets an entry in the matrix to a double value.void
setSize
(long... size) Sets the size of the matrix.private void
Methods inherited from class org.ujmp.core.doublematrix.stub.AbstractDenseDoubleMatrixMultiD
availableCoordinates, clear, containsCoordinates, isSparse
Methods inherited from class org.ujmp.core.doublematrix.stub.AbstractDoubleMatrixMultiD
getDouble, getDouble, setDouble, setDouble
Methods inherited from class org.ujmp.core.doublematrix.stub.AbstractDoubleMatrix
getAsDouble, getNumber, getObject, getValueType, setAsDouble, setNumber, setObject
Methods inherited from class org.ujmp.core.genericmatrix.stub.AbstractGenericMatrix
getAsObject, getObject, getObject, setAsObject, setObject, setObject
Methods inherited from class org.ujmp.core.AbstractMatrix
abs, addMissing, allCoordinates, allValues, and, and, append, appendHorizontally, appendVertically, atimes, bigDecimalValue, bigIntegerValue, booleanValue, bootstrap, bootstrap, ceil, center, charValue, chebyshevDistanceTo, chol, clone, compareTo, containsBigDecimal, containsBigInteger, containsBoolean, containsByte, containsChar, containsDate, containsDouble, containsFloat, containsInt, containsLong, containsMissingValues, containsNull, containsObject, containsShort, containsString, convert, convertEncoding, corrcoef, cos, cosh, cosineSimilarity, cosineSimilarityTo, countMissing, cov, cumprod, cumsum, dateValue, delete, delete, delete, deleteColumns, deleteColumns, deleteColumnsWithMissingValues, deleteRows, deleteRows, deleteRowsWithMissingValues, det, diag, diff, discretize, discretize, discretizeToBoolean, discretizeToColumns, divide, divide, divide, divide, doubleValue, eig, eigSymm, eq, eq, equals, equalsAnnotation, equalsContent, euklideanDistance, euklideanDistanceTo, exp, exportTo, extractAnnotation, eye, fadeIn, fadeOut, fill, fireValueChanged, fireValueChanged, fireValueChanged, flipdim, floatValue, floor, ge, ge, getAbsoluteValueMean, getAbsoluteValueSum, getAsBigDecimal, getAsBigInteger, getAsBoolean, getAsByte, getAsByteArray, getAsChar, getAsDate, getAsFloat, getAsInt, getAsLong, getAsMatrix, getAsShort, getAsString, getColumnCount, getColumnForLabel, getColumnLabel, getColumnList, getCoordinatesOfMaximum, getCoordinatesOfMinimum, getCoreObjectId, getDescription, getDimensionCount, getDimensionLabel, getDimensionMetaData, getEuklideanValue, getFactory, getGUIObject, getId, getLabel, getLabelObject, getMaxValue, getMeanValue, getMetaData, getMetaData, getMetaDataDimensionMatrix, getMetaDataDouble, getMetaDataMatrix, getMetaDataString, getMinValue, getPositionForLabel, getPreferredObject, getRMS, getRowCount, getRowForLabel, getRowLabel, getRowList, getSize, getSize, getStdValue, getValueCount, getValueSum, getZCount, ginv, grayScale, gt, gt, importFrom, impute, includeAnnotation, indexOfMax, indexOfMin, intValue, inv, invSPD, invSymm, isColumnVector, isDiagonal, isEmpty, isMultidimensionalMatrix, isResizable, isRowVector, isScalar, isSingular, isSPD, isSquare, isSymmetric, isTransient, le, le, log, log10, log2, logistic, longValue, lowerCase, lt, lt, lu, manhattenDistance, manhattenDistanceTo, max, mean, min, minkowskiDistance, minkowskiDistanceTo, minus, minus, minus, minus, mtimes, mtimes, mutualInf, nans, ne, ne, nonZeroCoordinates, norm1, norm2, normalize, normF, normInf, not, ones, or, or, pairedTTest, pdet, pinv, pinv, plus, plus, plus, plus, power, power, princomp, prod, qr, rand, randn, rank, removePunctuation, removeWords, replace, replaceMissingBy, replaceRegex, replaceRegex, reshape, round, save, save, select, select, select, selectColumns, selectColumns, selectedCoordinates, selectedCoordinates, selectRows, selectRows, setAsBigDecimal, setAsBigInteger, setAsBoolean, setAsByte, setAsByteArray, setAsChar, setAsDate, setAsFloat, setAsInt, setAsLong, setAsMatrix, setAsShort, setAsString, setColumnLabel, setContent, setDescription, setDimensionLabel, setDimensionMetaData, setId, setLabel, setMetaData, setMetaData, setMetaDataDimensionMatrix, setRowLabel, share, share, showGUI, shuffle, sign, sin, sinh, solve, solveSPD, solveSymm, sortrows, sqrt, squeeze, standardize, std, stem, stringValue, subMatrix, sum, svd, svd, swap, tan, tanh, tanh, tfIdf, times, times, times, times, toBigDecimalArray, toBigDecimalMatrix, toBigIntegerArray, toBigIntegerMatrix, toBooleanArray, toBooleanMatrix, toByteArray, toByteMatrix, toCharArray, toCharMatrix, toColumnVector, toDateArray, toDoubleArray, toDoubleMatrix, toFloatArray, toFloatMatrix, toHtml, toIntArray, toIntMatrix, toListMatrix, toLongArray, toLongMatrix, toMapMatrix, toObjectArray, toObjectMatrix, toRowVector, toSetMatrix, toShortArray, toShortMatrix, toString, toStringArray, toStringMatrix, trace, translate, transpose, transpose, transpose, tril, triu, unique, uniqueValueCount, upperCase, var, xor, xor, zeros
Methods inherited from class java.lang.Number
byteValue, shortValue
Methods inherited from class java.lang.Object
getClass, hashCode, notify, notifyAll, wait, wait, wait
Methods inherited from interface org.ujmp.core.BaseMatrix
getFactory
Methods inherited from interface org.ujmp.core.interfaces.BaseMatrixProperties
allValues, equals, equalsAnnotation, equalsContent, getColumnCount, getColumnList, getDimensionCount, getRowCount, getRowList, getSize, getSize, getValueCount, getValueType, getZCount, isColumnVector, isDiagonal, isEmpty, isMultidimensionalMatrix, isResizable, isRowVector, isScalar, isSingular, isSquare, isSymmetric, isTransient, toString
Methods inherited from interface org.ujmp.core.doublematrix.calculation.basic.BasicDoubleCalculations
atimes, divide, divide, divide, divide, minus, minus, minus, minus, mtimes, mtimes, plus, plus, plus, plus, times, times, times, times
Methods inherited from interface org.ujmp.core.doublematrix.calculation.entrywise.basic.BasicEntrywiseDoubleCalculations
abs, exp, log, log10, log2, logistic, power, power, sign, sqrt
Methods inherited from interface org.ujmp.core.booleanmatrix.calculation.BooleanCalculations
and, and, eq, eq, ge, ge, gt, gt, le, le, lt, lt, ne, ne, not, or, or, xor, xor
Methods inherited from interface java.lang.Comparable
compareTo
Methods inherited from interface org.ujmp.core.interfaces.Conversions
toBigDecimalMatrix, toBigIntegerMatrix, toBooleanMatrix, toByteMatrix, toCharMatrix, toDoubleMatrix, toFloatMatrix, toIntMatrix, toListMatrix, toLongMatrix, toMapMatrix, toObjectMatrix, toSetMatrix, toShortMatrix, toStringMatrix
Methods inherited from interface org.ujmp.core.interfaces.CoordinateFunctions
allCoordinates, getCoordinatesOfMaximum, getCoordinatesOfMinimum, nonZeroCoordinates, selectedCoordinates, selectedCoordinates
Methods inherited from interface org.ujmp.core.interfaces.CoreObject
getCoreObjectId
Methods inherited from interface org.ujmp.core.doublematrix.calculation.entrywise.creators.CreatorDoubleCalculations
eye, nans, ones, rand, randn, zeros
Methods inherited from interface org.ujmp.core.doublematrix.calculation.general.decomposition.DecompositionDoubleCalculations
chol, eig, eigSymm, ginv, inv, invSPD, invSymm, lu, pinv, pinv, princomp, qr, solve, solveSPD, solveSymm, svd, svd
Methods inherited from interface org.ujmp.core.doublematrix.calculation.general.discretize.DiscretizeCalculations
discretize, discretize, discretizeToBoolean, discretizeToColumns
Methods inherited from interface org.ujmp.core.interfaces.DistanceMeasures
chebyshevDistanceTo, cosineSimilarity, cosineSimilarityTo, euklideanDistance, euklideanDistanceTo, manhattenDistance, manhattenDistanceTo, minkowskiDistance, minkowskiDistanceTo
Methods inherited from interface org.ujmp.core.interfaces.ExtendedMatrixProperties
bigDecimalValue, bigIntegerValue, booleanValue, byteValue, charValue, containsBigDecimal, containsBigInteger, containsBoolean, containsByte, containsChar, containsDate, containsDouble, containsFloat, containsInt, containsLong, containsMissingValues, containsNull, containsObject, containsShort, containsString, dateValue, det, doubleValue, floatValue, getAbsoluteValueMean, getAbsoluteValueSum, getEuklideanValue, getMaxValue, getMeanValue, getMinValue, getRMS, getStdValue, getValueSum, intValue, isSPD, longValue, norm1, norm2, normF, normInf, pdet, rank, setContent, shortValue, stringValue, trace
Methods inherited from interface org.ujmp.core.genericmatrix.GenericMatrix2D
getObject, getObject, setObject, setObject
Methods inherited from interface org.ujmp.core.genericmatrix.GenericMatrixMultiD
getObject, setObject
Methods inherited from interface org.ujmp.core.interfaces.GettersAndSetters
getAsBigDecimal, getAsBigInteger, getAsBoolean, getAsByte, getAsByteArray, getAsChar, getAsDate, getAsDouble, getAsFloat, getAsInt, getAsLong, getAsMatrix, getAsObject, getAsShort, getAsString, getPreferredObject, setAsBigDecimal, setAsBigInteger, setAsBoolean, setAsByte, setAsByteArray, setAsChar, setAsDate, setAsDouble, setAsFloat, setAsInt, setAsLong, setAsMatrix, setAsObject, setAsShort, setAsString, toBigDecimalArray, toBigIntegerArray, toBooleanArray, toByteArray, toCharArray, toDateArray, toDoubleArray, toFloatArray, toIntArray, toLongArray, toObjectArray, toShortArray, toStringArray
Methods inherited from interface org.ujmp.core.interfaces.HasDescription
getDescription, setDescription
Methods inherited from interface org.ujmp.core.interfaces.HasGUIObject
getGUIObject, showGUI
Methods inherited from interface org.ujmp.core.interfaces.HasLabel
getLabel, getLabelObject, setLabel
Methods inherited from interface org.ujmp.core.annotation.HasMetaData
getColumnForLabel, getColumnLabel, getDimensionLabel, getDimensionMetaData, getMetaData, getMetaData, getMetaDataDimensionMatrix, getMetaDataDouble, getMetaDataMatrix, getMetaDataString, getPositionForLabel, getRowForLabel, getRowLabel, setColumnLabel, setDimensionLabel, setDimensionMetaData, setMetaData, setMetaData, setMetaDataDimensionMatrix, setRowLabel
Methods inherited from interface org.ujmp.core.doublematrix.calculation.entrywise.hyperbolic.HyperbolicDoubleCalculations
cosh, sinh, tanh, tanh
Methods inherited from interface org.ujmp.core.Matrix
clone, exportTo, fireValueChanged, fireValueChanged, fireValueChanged, importFrom, save, save, share, share, toHtml
Methods inherited from interface org.ujmp.core.doublematrix.calculation.entrywise.misc.MiscEntrywiseDoubleCalculations
grayScale
Methods inherited from interface org.ujmp.core.doublematrix.calculation.general.misc.MiscGeneralDoubleCalculations
append, appendHorizontally, appendVertically, center, fadeIn, fadeOut, normalize, replaceMissingBy, standardize
Methods inherited from interface org.ujmp.core.doublematrix.calculation.general.missingvalues.MissingValueDoubleCalculations
addMissing, countMissing, deleteColumnsWithMissingValues, deleteRowsWithMissingValues, impute
Methods inherited from interface org.ujmp.core.numbermatrix.NumberMatrixMultiD
getNumber, setNumber
Methods inherited from interface org.ujmp.core.objectmatrix.calculation.ObjectCalculations
bootstrap, bootstrap, convert, delete, delete, delete, deleteColumns, deleteColumns, deleteRows, deleteRows, diag, extractAnnotation, fill, flipdim, includeAnnotation, replace, reshape, select, select, select, selectColumns, selectColumns, selectRows, selectRows, shuffle, sortrows, squeeze, subMatrix, swap, toColumnVector, toRowVector, transpose, transpose, transpose, tril, triu, unique, uniqueValueCount
Methods inherited from interface org.ujmp.core.doublematrix.calculation.entrywise.rounding.RoundingDoubleCalculations
ceil, floor, round
Methods inherited from interface org.ujmp.core.doublematrix.calculation.general.statistical.StatisticalDoubleCalculations
corrcoef, cov, cumprod, cumsum, diff, indexOfMax, indexOfMin, max, mean, min, mutualInf, pairedTTest, prod, std, sum, var
Methods inherited from interface org.ujmp.core.stringmatrix.calculation.StringCalculations
convertEncoding, lowerCase, removePunctuation, removeWords, replaceRegex, replaceRegex, stem, tfIdf, translate, upperCase
Methods inherited from interface org.ujmp.core.doublematrix.calculation.entrywise.trigonometric.TrigonometricDoubleCalculations
cos, sin, tan
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Field Details
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serialVersionUID
private static final long serialVersionUID- See Also:
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randomAccessFile
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bufferSize
private int bufferSize -
BYTE
public static final int BYTE- See Also:
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CHAR
public static final int CHAR- See Also:
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DOUBLE
public static final int DOUBLE- See Also:
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FLOAT
public static final int FLOAT- See Also:
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INT
public static final int INT- See Also:
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LONG
public static final int LONG- See Also:
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SHORT
public static final int SHORT- See Also:
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UNSIGNEDBYTE
public static final int UNSIGNEDBYTE- See Also:
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UNSIGNEDSHORT
public static final int UNSIGNEDSHORT- See Also:
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SHORTLITTLEENDIAN
public static final int SHORTLITTLEENDIAN- See Also:
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INTLITTLEENDIAN
public static final int INTLITTLEENDIAN- See Also:
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LONGLITTLEENDIAN
public static final int LONGLITTLEENDIAN- See Also:
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BOOLEAN
public static final int BOOLEAN- See Also:
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dataType
private int dataType -
file
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offset
private long offset -
bitsPerValue
private int bitsPerValue -
readOnly
private boolean readOnly -
byteOrder
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Constructor Details
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DenseFileMatrix
- Throws:
IOException
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DenseFileMatrix
- Throws:
IOException
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DenseFileMatrix
- Throws:
IOException
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DenseFileMatrix
public DenseFileMatrix(File file, long offset, int dataType, boolean readOnly, long... size) throws IOException - Throws:
IOException
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DenseFileMatrix
public DenseFileMatrix(int bufferSize, File file, long offset, int dataType, boolean readOnly, long... size) throws IOException - Throws:
IOException
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DenseFileMatrix
- Throws:
IOException
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DenseFileMatrix
- Throws:
IOException
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Method Details
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getBufferSize
public int getBufferSize() -
setBufferSize
public void setBufferSize(int bufferSize) -
createFile
private void createFile() -
getRandomAccessFile
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getFile
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getBitsPerValue
private static final int getBitsPerValue(int dataType) -
getBytesPerValue
public long getBytesPerValue() -
getBitsPerValue
public int getBitsPerValue() -
getPos
private long getPos(long... pos) -
getFileLength
public long getFileLength() -
getDataType
public int getDataType() -
getDouble
public double getDouble(long... c) Description copied from interface:DoubleMatrixMultiD
Returns a double representation of an entry in the matrix. The stored value will be converted to a double as good as possible.- Specified by:
getDouble
in interfaceDoubleMatrixMultiD
- Parameters:
c
- location of the entry- Returns:
- a double representation of the entry @
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setSize
public void setSize(long... size) Description copied from interface:BaseMatrixProperties
Sets the size of the matrix. This is an optional method that is not implemented for all matrices. If this method is not implemented, aMatrixException
is thrown.- Specified by:
setSize
in interfaceBaseMatrixProperties
- Overrides:
setSize
in classAbstractMatrix
- Parameters:
size
- the new size of the matrix
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getBit
private static final double getBit(byte b, double offset) -
setBit
private static final byte setBit(byte b, double offset) -
setDouble
public void setDouble(double value, long... c) Description copied from interface:DoubleMatrixMultiD
Sets an entry in the matrix to a double value. If the matrix cannot store double values, the value will be represented as good as possible.- Specified by:
setDouble
in interfaceDoubleMatrixMultiD
- Parameters:
value
- double valuec
- location of the entry @
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finalize
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isReadOnly
public boolean isReadOnly()- Specified by:
isReadOnly
in interfaceBaseMatrixProperties
- Overrides:
isReadOnly
in classAbstractMatrix
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getShortLittleEndian
public static final int getShortLittleEndian(byte[] bytes) -
getIntLittleEndian
public static final int getIntLittleEndian(byte[] bytes) -
writeObject
- Throws:
IOException
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readObject
- Throws:
IOException
ClassNotFoundException
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erase
- Specified by:
erase
in interfaceErasable
- Throws:
IOException
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close
- Specified by:
close
in interfaceAutoCloseable
- Specified by:
close
in interfaceCloseable
- Throws:
IOException
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