A C D E F G I J L M N O P Q R S T U V W

A

add(int, int) - Method in class com.multicorebsp.util.ComplexData

add(int, int) - Method in class com.multicorebsp.util.DoubleData

add(int, int) - Method in class com.multicorebsp.util.IntegerData

add(T) - Method in class com.multicorebsp.util.LazyCollection

Does not fold.

add(int, int) - Method in class com.multicorebsp.util.MatrixData

Adds the values of two nonzeroes and saves it at the last index available.

add(int, int) - Method in class com.multicorebsp.util.NoData

addAll(Collection<? extends T>) - Method in class com.multicorebsp.util.LazyCollection

Does not fold.

added - Variable in class com.multicorebsp.util.LazyCollection

Added collections since creation

added_items - Variable in class com.multicorebsp.util.LazyCollection

Added items since creation

addVector(DataType, int, int) - Method in class com.multicorebsp.util.VectorCollection

Adds a new vector.

C

clear(Collection<T>) - Static method in class com.multicorebsp.util.CollectionUtils

Empties a collection.

clear() - Method in class com.multicorebsp.util.LazyCollection

Only clears original and added buffers.

clone() - Method in class com.multicorebsp.util.MatrixData

clone() - Method in class com.multicorebsp.util.SparseMatrix

clone() - Method in class com.multicorebsp.util.TS

clone() - Method in class com.multicorebsp.util.VectorCollection

CollectionUtils - Class in com.multicorebsp.util

Supports various operations on various types of collections.

CollectionUtils() - Constructor for class com.multicorebsp.util.CollectionUtils

column_increment - Variable in class com.multicorebsp.util.ICRS

Column increment array

com.multicorebsp.util - package com.multicorebsp.util

ComplexData - Class in com.multicorebsp.util

Enables storage of complex data in matrices.

ComplexData() - Constructor for class com.multicorebsp.util.ComplexData

Base constructor, all data arrays remain null.

ComplexData(int) - Constructor for class com.multicorebsp.util.ComplexData

Base constructor, initialises zero data.

ComplexData(double[], double[]) - Constructor for class com.multicorebsp.util.ComplexData

Base constructor, copies data handle by reference(!).

ComplexData(ComplexData) - Constructor for class com.multicorebsp.util.ComplexData

Deep copy constructor.

contains(Collection<T>, Collection<T>) - Static method in class com.multicorebsp.util.CollectionUtils

Checks if any of the elements in c are contained in a.

contains(T[], Collection<T>) - Static method in class com.multicorebsp.util.CollectionUtils

Checks if any of the elements in c are contained in a.

contains(int[], Collection<Integer>) - Static method in class com.multicorebsp.util.CollectionUtils

Checks if any of the elements in c are contained in a.

contains(int[], int) - Static method in class com.multicorebsp.util.CollectionUtils

Checks if an element is contained in a collection.

contains(Object) - Method in class com.multicorebsp.util.LazyCollection

Any removed statements take precedance over added items! O(contains(n)), where contains(n) is the asymptotic running time of a contains operation on the datastructures used and n is the maximum number of elements of all buffers.

containsAll(Collection<?>) - Method in class com.multicorebsp.util.LazyCollection

If an element of c is contained in any of the removed buffers, will fold everything.

convertBase(int, int) - Method in class com.multicorebsp.util.IntegerData

Converts base of integer-valued array.

copy(double[]) - Static method in class com.multicorebsp.util.CollectionUtils

Copies a vector of doubles.

copyCollection(Collection<T>) - Static method in class com.multicorebsp.util.CollectionUtils

Copies elements from one collection into a new one.

copyCollection(T[]) - Static method in class com.multicorebsp.util.CollectionUtils

Copies elements from one collection into a new one.

copyCollection(int[]) - Static method in class com.multicorebsp.util.CollectionUtils

Copies elements from one collection into a new one.

copyCollection(double[]) - Static method in class com.multicorebsp.util.CollectionUtils

Copies elements from one collection into a new one.

CRS<DataType extends MatrixData<DataType>> - Class in com.multicorebsp.util

Compressed row storage of sparse matrices.

CRS(DataType, int, int, int) - Constructor for class com.multicorebsp.util.CRS

Base constructor.

CRS(TS<DataType>) - Constructor for class com.multicorebsp.util.CRS

Constructs CRS representation of a TS matrix.

CRS(CRS<DataType>) - Constructor for class com.multicorebsp.util.CRS

Deep copy constructor.

CRS2ICRS() - Method in class com.multicorebsp.util.ICRS

Internal conversion helper function.

CRSSort() - Method in class com.multicorebsp.util.TS

Sorts the data structure using the standard sort defined in the final class.

D

data - Variable in class com.multicorebsp.util.SparseMatrix

Holds the nonzero values

DoubleData - Class in com.multicorebsp.util

Enables storage of double data types in matrices.

DoubleData() - Constructor for class com.multicorebsp.util.DoubleData

Base constructor, all data arrays remain null.

DoubleData(int) - Constructor for class com.multicorebsp.util.DoubleData

Base constructor, initialises zero data.

DoubleData(double[]) - Constructor for class com.multicorebsp.util.DoubleData

Base constructor, copies data handle by reference(!).

DoubleData(DoubleData) - Constructor for class com.multicorebsp.util.DoubleData

Deep copy constructor.

E

EndOfFileException - Exception in com.multicorebsp.util

Signals an end of file event.

EndOfFileException(String) - Constructor for exception com.multicorebsp.util.EndOfFileException

Base constructor

F

flatten(Collection<S>) - Static method in class com.multicorebsp.util.CollectionUtils

Takes various collections of the same type and flattens them (takes consecutive unions) into a single collection.

flatten(Collection<S>, Collection<T>) - Static method in class com.multicorebsp.util.CollectionUtils

Takes various collections of the same type and flattens them (takes consecutive unions) into a single collection.

foldAll() - Method in class com.multicorebsp.util.LazyCollection

Empties all buffers to reconstruct the originals array.

G

getField() - Method in class com.multicorebsp.util.MMobject

getFilename() - Method in class com.multicorebsp.util.MMfile

getFileObject(String) - Method in class com.multicorebsp.util.MMfile

Scans read-in objects for one with a given name, and returns this object.

getFileObject() - Method in class com.multicorebsp.util.MMfile

getFileObjects() - Method in class com.multicorebsp.util.MMfile

getFormat() - Method in class com.multicorebsp.util.MMobject

getM() - Method in class com.multicorebsp.util.MMobject

getMatrix() - Method in class com.multicorebsp.util.MMobject

Returns the matrix object itself.

getN() - Method in class com.multicorebsp.util.MMobject

getName() - Method in class com.multicorebsp.util.MMobject

getNnz() - Method in class com.multicorebsp.util.MMobject

getSubMatrixColumnSizes() - Method in class com.multicorebsp.util.TS

This function assumes Pstart is not null.

getSubMatrixRowSizes() - Method in class com.multicorebsp.util.TS

This function assumes Pstart is not null.

getSymmetry() - Method in class com.multicorebsp.util.MMobject

getTS() - Method in class com.multicorebsp.util.MMobject

Call only if you are sure this is a sparse matrix and not a vector collection.

getType() - Method in class com.multicorebsp.util.MMobject

getVector(int) - Method in class com.multicorebsp.util.VectorCollection

Data accessor.

getVectorCollection() - Method in class com.multicorebsp.util.MMobject

Call only if you are sure this is a vector collection, and not a general sparse matrix or a dense vector.

getVersion() - Method in class com.multicorebsp.util.MMfile

getView() - Method in class com.multicorebsp.util.MMobject

I

i - Variable in class com.multicorebsp.util.TS

Holds, for each nonzero, the row index

ICRS<DataType extends MatrixData<DataType>> - Class in com.multicorebsp.util

Implements the Incremental CRS datastructure for sparse matrices.

ICRS(DataType, int, int, int) - Constructor for class com.multicorebsp.util.ICRS

Base constructor, creates a matrix with the given nonzero data and increment arrays zeroed out.

ICRS(CRS<DataType>) - Constructor for class com.multicorebsp.util.ICRS

Takes a CRS type matrix, copies and transforms it into ICRS.

ICRS(TS<DataType>) - Constructor for class com.multicorebsp.util.ICRS

Takes a TS type matrix, and copies it into ICRS format.

ICRS(TS<DataType>, int, int, int, int) - Constructor for class com.multicorebsp.util.ICRS

Takes a TS type matrix, and partially copies it into ICRS.

ICRS(ICRS<DataType>) - Constructor for class com.multicorebsp.util.ICRS

Deep copy constructor.

imag - Variable in class com.multicorebsp.util.ComplexData

Stores the complex values in double precision.

index_array - Variable in class com.multicorebsp.util.CRS

Column index array

IntegerData - Class in com.multicorebsp.util

Enables storage of integer data in matrices.

IntegerData() - Constructor for class com.multicorebsp.util.IntegerData

Base constructor, all data arrays remain null.

IntegerData(int) - Constructor for class com.multicorebsp.util.IntegerData

Base constructor, initialises zero data.

IntegerData(int[]) - Constructor for class com.multicorebsp.util.IntegerData

Base constructor, copies data handle by reference(!).

IntegerData(IntegerData) - Constructor for class com.multicorebsp.util.IntegerData

Deep copy constructor.

isEmpty() - Method in class com.multicorebsp.util.LazyCollection

Will fold everything >if removed buffer is nonempty< since duplicates may or may not exist in the datastructure used.

isSuccessfully_read() - Method in class com.multicorebsp.util.MMfile

iterator() - Method in class com.multicorebsp.util.LazyCollection

Will fold everything since duplicates may or may not exist in the datastructure used.

J

j - Variable in class com.multicorebsp.util.TS

Holds, for each nonzero, the column index

L

lazyAdd(S, T) - Static method in class com.multicorebsp.util.CollectionUtils

Adds an element to a collection, but does this lazily (no actual addition takes place unless necessary).

LazyCollection<T> - Class in com.multicorebsp.util

Aims for O(1) access on as many collection functions possible.

LazyCollection(Collection<T>) - Constructor for class com.multicorebsp.util.LazyCollection

LazyCollection(Collection<T>, Collection<T>, Collection<T>) - Constructor for class com.multicorebsp.util.LazyCollection

Base constructor.

M

m - Variable in class com.multicorebsp.util.Matrix

Matrix parameters (row size & number of data elements).

Matrix<DataType extends MatrixData<DataType>> - Class in com.multicorebsp.util

Very basic matrix representation.

Matrix() - Constructor for class com.multicorebsp.util.Matrix

MatrixData<T extends MatrixData<?>> - Class in com.multicorebsp.util

Class storing nonzero values of sparse matrices.

MatrixData() - Constructor for class com.multicorebsp.util.MatrixData

mm_read_banner(Scanner, MMobject, MMfile.VERSION, boolean) - Method in class com.multicorebsp.util.MMfile

Interprets the very first line of a matrix-market input file.

mm_read_mtx_crd_entry(Scanner, int, MMobject) - Method in class com.multicorebsp.util.MMfile

Reads in a single value from a matrix market file.

mm_read_mtx_crd_size(Scanner, MMobject) - Method in class com.multicorebsp.util.MMfile

Reads in the matrix dimensions and number of nonzeroes.

mm_read_mtx_pstart_entry(Scanner, int, MMobject) - Method in class com.multicorebsp.util.MMfile

Reads in an element from the Pstart vector.

mm_read_object(Scanner, boolean, Collection<String>) - Method in class com.multicorebsp.util.MMfile

Reads in a matrix-market object.

MMfile - Class in com.multicorebsp.util

Models, and parses, a matrix-market file.

MMfile(String) - Constructor for class com.multicorebsp.util.MMfile

Reads in a matrix market object from file.

MMfile(String, Collection<String>) - Constructor for class com.multicorebsp.util.MMfile

Reads in a matrix market object from file.

MMfile.VERSION - Enum in com.multicorebsp.util

Used to differentiate between original matrix-market and extended matrix market.

MMobject - Class in com.multicorebsp.util

Models various matrix-market object types

MMobject() - Constructor for class com.multicorebsp.util.MMobject

MMobject.FieldType - Enum in com.multicorebsp.util

All the supported data field types.

MMobject.FormatType - Enum in com.multicorebsp.util

All the supported input format types.

MMobject.ObjectType - Enum in com.multicorebsp.util

All the supported object types.

MMobject.SymmetryType - Enum in com.multicorebsp.util

All the supported symmetry types.

MMobject.ViewType - Enum in com.multicorebsp.util

All the supported view types.

N

n - Variable in class com.multicorebsp.util.SparseMatrix

Matrix column size (always constant in a sparse matrix)

n - Variable in class com.multicorebsp.util.VectorCollection

Length of each vector.

NoData - Class in com.multicorebsp.util

``Fake" data class, for example to be used for matrices storing pattern data.

NoData() - Constructor for class com.multicorebsp.util.NoData

nz - Variable in class com.multicorebsp.util.Matrix

Matrix parameters (row size & number of data elements).

O

original - Variable in class com.multicorebsp.util.LazyCollection

Original collection

OVERRIDE - Static variable in class com.multicorebsp.util.MMfile

Set to a version type to ignore banner errors and try to read with default values of MMmatrix.

P

p - Variable in class com.multicorebsp.util.TS

Holds, for matrices in global view, the processor index

p - Variable in class com.multicorebsp.util.VectorCollection

Global processor ID data.

parseAndWrite(int, Scanner) - Method in class com.multicorebsp.util.ComplexData

parseAndWrite(int, Scanner) - Method in class com.multicorebsp.util.DoubleData

parseAndWrite(int, Scanner) - Method in class com.multicorebsp.util.IntegerData

parseAndWrite(int, Scanner) - Method in class com.multicorebsp.util.MatrixData

Parses an input stream and writes the contect to the i'th index.

parseAndWrite(int, Scanner) - Method in class com.multicorebsp.util.NoData

partition(SortSupport<DataType, TS<DataType>>, int, int, int) - Method in class com.multicorebsp.util.TS

Quicksort helper function.

printCollection(Collection<?>) - Static method in class com.multicorebsp.util.CollectionUtils

Print a collection to screen.

printCollection(T[]) - Static method in class com.multicorebsp.util.CollectionUtils

Writes a collection to file.

printCollection(String, double[]) - Static method in class com.multicorebsp.util.CollectionUtils

Prints a collection to screen, preceded by a given prefix.

printCollection(String, int[]) - Static method in class com.multicorebsp.util.CollectionUtils

Prints a collection to screen, preceded by a given prefix.

printCollection(String, double[][]) - Static method in class com.multicorebsp.util.CollectionUtils

Prints a collection to screen, preceded by a given prefix.

printLocalStats() - Method in class com.multicorebsp.util.TS

Prints ranges of this matrix: for each processor, the size of its submatrix is reported.

Pstart - Variable in class com.multicorebsp.util.TS

Controls which parts of the triplet structure corresponds to which processor.

Q

quicksort() - Method in class com.multicorebsp.util.TS

Quicksort implementation on arbitrary datatypes.

quicksort(SortSupport<DataType, TS<DataType>>, int, int) - Method in class com.multicorebsp.util.TS

Quicksort implementation on arbitrary datatypes.

R

real - Variable in class com.multicorebsp.util.ComplexData

Stores the real values in double precision.

remove(Object) - Method in class com.multicorebsp.util.LazyCollection

removeAll(Collection<?>) - Method in class com.multicorebsp.util.LazyCollection

Does not fold.

removeAndAddDuplicates() - Method in class com.multicorebsp.util.CRS

removeAndAddDuplicates() - Method in class com.multicorebsp.util.ICRS

removeAndAddDuplicates() - Method in class com.multicorebsp.util.Matrix

Removes and combines any double entries.

removeAndAddDuplicates() - Method in class com.multicorebsp.util.TS

Takes care of detecting duplicates and adding combining those values.

removeAndAddDuplicates() - Method in class com.multicorebsp.util.VectorCollection

removed - Variable in class com.multicorebsp.util.LazyCollection

Removed collections since creation

removed_items - Variable in class com.multicorebsp.util.LazyCollection

Removed items since creation

removeDuplicates(int) - Method in class com.multicorebsp.util.ComplexData

removeDuplicates(int) - Method in class com.multicorebsp.util.DoubleData

removeDuplicates(int) - Method in class com.multicorebsp.util.IntegerData

removeDuplicates(int) - Method in class com.multicorebsp.util.MatrixData

Removes duplicates from the data structure.

removeDuplicates(int) - Method in class com.multicorebsp.util.NoData

retainAll(Collection<?>) - Method in class com.multicorebsp.util.LazyCollection

Folds everything since retainAll will have to compare every element.

row_increment - Variable in class com.multicorebsp.util.ICRS

Row increment array

S

safeClone() - Method in class com.multicorebsp.util.ComplexData

safeClone(int, int) - Method in class com.multicorebsp.util.ComplexData

safeClone() - Method in class com.multicorebsp.util.CRS

safeClone() - Method in class com.multicorebsp.util.DoubleData

safeClone(int, int) - Method in class com.multicorebsp.util.DoubleData

safeClone() - Method in class com.multicorebsp.util.ICRS

safeClone() - Method in class com.multicorebsp.util.IntegerData

safeClone(int, int) - Method in class com.multicorebsp.util.IntegerData

safeClone(int, int) - Method in class com.multicorebsp.util.MatrixData

Clones only a subset of the data.

safeClone() - Method in class com.multicorebsp.util.NoData

safeClone(int, int) - Method in class com.multicorebsp.util.NoData

safeClone() - Method in class com.multicorebsp.util.TS

safeClone() - Method in class com.multicorebsp.util.VectorCollection

setCRSSort() - Method in class com.multicorebsp.util.TS

Activates sorting for CRS-ordering

size() - Method in class com.multicorebsp.util.LazyCollection

Will fold everything since duplicates may or may not exist in the datastructure used.

SORT - Variable in class com.multicorebsp.util.TS

Sort method to be used for this class of matrices.

SparseMatrix<DataType extends MatrixData<DataType>,MatrixType extends SparseMatrix<DataType,MatrixType>> - Class in com.multicorebsp.util

General sparse matrix representation.

SparseMatrix(DataType) - Constructor for class com.multicorebsp.util.SparseMatrix

Base constructor.

SparseMatrix(DataType, int, int, int) - Constructor for class com.multicorebsp.util.SparseMatrix

Deep copy constructor.

start_array - Variable in class com.multicorebsp.util.CRS

Row start array

swap(int, int) - Method in class com.multicorebsp.util.ComplexData

swap(int, int) - Method in class com.multicorebsp.util.DoubleData

swap(int, int) - Method in class com.multicorebsp.util.IntegerData

swap(int, int) - Method in class com.multicorebsp.util.MatrixData

Swaps data elements.

swap(int, int) - Method in class com.multicorebsp.util.NoData

T

toArray() - Method in class com.multicorebsp.util.LazyCollection

Will fold everything.

toArray(U[]) - Method in class com.multicorebsp.util.LazyCollection

Will fold everything.

toCRS() - Method in class com.multicorebsp.util.CRS

toCRS() - Method in class com.multicorebsp.util.ICRS

toCRS() - Method in class com.multicorebsp.util.SparseMatrix

Warning: returns current matrix if this matrix already is CRS.

toCRS() - Method in class com.multicorebsp.util.TS

toICRS() - Method in class com.multicorebsp.util.CRS

toICRS() - Method in class com.multicorebsp.util.ICRS

toICRS() - Method in class com.multicorebsp.util.SparseMatrix

Warning: returns current matrix if this matrix already is CRS.

toICRS() - Method in class com.multicorebsp.util.TS

toLocalCRS() - Method in class com.multicorebsp.util.TS

toLocalICRS() - Method in class com.multicorebsp.util.TS

toLocalView(int[][], int[][]) - Method in class com.multicorebsp.util.MMobject

Transforms the current matrix to a local view.

toTS() - Method in class com.multicorebsp.util.CRS

toTS() - Method in class com.multicorebsp.util.ICRS

toTS() - Method in class com.multicorebsp.util.SparseMatrix

Warning: returns current matrix if this matrix already is TS.

toTS() - Method in class com.multicorebsp.util.TS

TS<DataType extends MatrixData<DataType>> - Class in com.multicorebsp.util

Base class for reading in a matrix in Triplet Scheme format, from an (Extended) Matrix-market file.

TS(DataType) - Constructor for class com.multicorebsp.util.TS

Constructs an empty 0 by 0 TS matrix.

TS(DataType, int, int, int, int, boolean) - Constructor for class com.multicorebsp.util.TS

Constructs a new matrix, holding the given data with the other arrays (e.g., i and j) zeroed-out.

TS(DataType, int, int, int, int[], int[], int[], int[]) - Constructor for class com.multicorebsp.util.TS

Deep copy constructor.

U

UnsupportedDataTypeException - Exception in com.multicorebsp.util

Error thrown upon encountering an unsupported data type

UnsupportedDataTypeException(String) - Constructor for exception com.multicorebsp.util.UnsupportedDataTypeException

Base constructor

V

valueOf(String) - Static method in enum com.multicorebsp.util.MMfile.VERSION

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum com.multicorebsp.util.MMobject.FieldType

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum com.multicorebsp.util.MMobject.FormatType

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum com.multicorebsp.util.MMobject.ObjectType

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum com.multicorebsp.util.MMobject.SymmetryType

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum com.multicorebsp.util.MMobject.ViewType

Returns the enum constant of this type with the specified name.

values - Variable in class com.multicorebsp.util.DoubleData

Stores the real values in double precision.

values - Variable in class com.multicorebsp.util.IntegerData

Stores the real values in double precision.

values() - Static method in enum com.multicorebsp.util.MMfile.VERSION

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum com.multicorebsp.util.MMobject.FieldType

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum com.multicorebsp.util.MMobject.FormatType

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum com.multicorebsp.util.MMobject.ObjectType

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum com.multicorebsp.util.MMobject.SymmetryType

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum com.multicorebsp.util.MMobject.ViewType

Returns an array containing the constants of this enum type, in the order they are declared.

VectorCollection<DataType extends MatrixData<DataType>> - Class in com.multicorebsp.util

Represents a `matrix' with variably-sized rows.

VectorCollection(int, boolean) - Constructor for class com.multicorebsp.util.VectorCollection

Base constructor.

VectorCollection(VectorCollection<DataType>) - Constructor for class com.multicorebsp.util.VectorCollection

Deep copy constructor.

W

writeCollection(String, int[]) - Static method in class com.multicorebsp.util.CollectionUtils

Writes a collection to file.

writeCollection(String, T[]) - Static method in class com.multicorebsp.util.CollectionUtils

Writes a collection to file.

writeCollection(String, Iterable<?>) - Static method in class com.multicorebsp.util.CollectionUtils

Writes a collection to file.

writeCollection(String, double[]) - Static method in class com.multicorebsp.util.CollectionUtils

Writes a collection to file.

writeCollection(String, double[][]) - Static method in class com.multicorebsp.util.CollectionUtils

Writes a collection to file.

A C D E F G I J L M N O P Q R S T U V W