A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

P

pack() - Method in class edu.rit.color.HSB

Pack this floating point HSB color into a packed color.

pack(float, float, float) - Static method in class edu.rit.color.HSB

Pack the given hue, saturation, and brightness components into a packed color.

pack() - Method in class edu.rit.color.IntRGB

Pack this integer RGB color into a packed color.

pack(int, int, int) - Static method in class edu.rit.color.IntRGB

Pack the given red, green, and blue components into a packed color.

pack() - Method in class edu.rit.color.RGB

Pack this floating point RGB color into a packed color.

pack(float, float, float) - Static method in class edu.rit.color.RGB

Pack the given red, green, and blue components into a packed color.

Packing - Class in edu.rit.util

Class Packing provides static methods for packing and unpacking arrays of bytes into and out of integers, long integers, and arrays thereof.

packIntBigEndian(byte[], int) - Static method in class edu.rit.util.Packing

Pack bytes from the given array into an integer in big-endian order.

packIntBigEndian(byte[], int, int[], int, int) - Static method in class edu.rit.util.Packing

Pack bytes from the given array into the given array of integers in big-endian order.

packIntLittleEndian(byte[], int) - Static method in class edu.rit.util.Packing

Pack bytes from the given array into an integer in little-endian order.

packIntLittleEndian(byte[], int, int[], int, int) - Static method in class edu.rit.util.Packing

Pack bytes from the given array into the given array of integers in little-endian order.

packLongBigEndian(byte[], int) - Static method in class edu.rit.util.Packing

Pack bytes from the given array into a long integer in big-endian order.

packLongBigEndian(byte[], int, long[], int, int) - Static method in class edu.rit.util.Packing

Pack bytes from the given array into the given array of long integers in big-endian order.

packLongLittleEndian(byte[], int) - Static method in class edu.rit.util.Packing

Pack bytes from the given array into a long integer in little-endian order.

packLongLittleEndian(byte[], int, long[], int, int) - Static method in class edu.rit.util.Packing

Pack bytes from the given array into the given array of long integers in little-endian order.

paintComponent(Graphics) - Method in class edu.rit.clu.antimatter.TrapPanel

Paint this trap panel's display.

paintComponent(Graphics) - Method in class edu.rit.swing.DisplayablePanel

Paint this displayable panel into the given graphics context.

paintComponent(Graphics) - Method in class edu.rit.swing.ImagePanel

Paint this image panel in the given graphics context.

ParallelConstruct - Class in edu.rit.pj

Class ParallelConstruct is the common base class for all parallel constructs that are executed by a ParallelTeam.

ParallelConstruct() - Constructor for class edu.rit.pj.ParallelConstruct

Construct a new parallel construct.

ParallelForLoop - Class in edu.rit.pj

Class ParallelForLoop is the abstract base class for a parallel for loop that is executed inside a ParallelRegion.

ParallelForLoop() - Constructor for class edu.rit.pj.ParallelForLoop

Construct a new parallel for loop.

ParallelIteration<T> - Class in edu.rit.pj

Class ParallelIteration is the abstract base class for a parallel iteration that is executed inside a ParallelRegion.

ParallelIteration() - Constructor for class edu.rit.pj.ParallelIteration

Construct a new parallel iteration.

ParallelRegion - Class in edu.rit.pj

Class ParallelRegion is the abstract base class for a parallel region that is executed by a ParallelTeam of threads.

ParallelRegion() - Constructor for class edu.rit.pj.ParallelRegion

Construct a new parallel region.

ParallelSection - Class in edu.rit.pj

Class ParallelSection is the abstract base class for a section of code to be executed in parallel.

ParallelSection() - Constructor for class edu.rit.pj.ParallelSection

Construct a new parallel section.

ParallelTeam - Class in edu.rit.pj

Class ParallelTeam provides a team of threads for executing a ParallelRegion in parallel.

ParallelTeam() - Constructor for class edu.rit.pj.ParallelTeam

Construct a new parallel team with the default number of threads.

ParallelTeam(int) - Constructor for class edu.rit.pj.ParallelTeam

Construct a new parallel team with the given number of threads.

param - Variable in class edu.rit.numeric.RobustFit

The model parameters.

ParameterizedFunction - Interface in edu.rit.numeric

Interface ParameterizedFunction specifies the interface for a real-valued function of a real-valued argument, with additional parameters.

parameterLength() - Method in interface edu.rit.numeric.ParameterizedFunction

Returns the number of parameters, M.

paramSeries - Variable in class edu.rit.numeric.RobustFit

The model parameter distribution.

parent(int) - Method in class edu.rit.compbio.phyl.DnaSequenceTree

Returns the parent of the given node in this tree.

parse(String) - Static method in class edu.rit.pj.IntegerSchedule

Returns a schedule object of a type determined by parsing the given string.

parse(String) - Static method in class edu.rit.pj.LongSchedule

Returns a schedule object of a type determined by parsing the given string.

patchBuffer(boolean[][], Range, Range) - Static method in class edu.rit.mp.BooleanBuf

Create a buffer for one patch of the given Boolean matrix.

patchBuffer(byte[][], Range, Range) - Static method in class edu.rit.mp.ByteBuf

Create a buffer for one patch of the given byte matrix.

patchBuffer(char[][], Range, Range) - Static method in class edu.rit.mp.CharacterBuf

Create a buffer for one patch of the given character matrix.

patchBuffer(double[][], Range, Range) - Static method in class edu.rit.mp.DoubleBuf

Create a buffer for one patch of the given double matrix.

patchBuffer(float[][], Range, Range) - Static method in class edu.rit.mp.FloatBuf

Create a buffer for one patch of the given float matrix.

patchBuffer(int[][], Range, Range) - Static method in class edu.rit.mp.IntegerBuf

Create a buffer for one patch of the given integer matrix.

patchBuffer(long[][], Range, Range) - Static method in class edu.rit.mp.LongBuf

Create a buffer for one patch of the given long matrix.

patchBuffer(T[][], Range, Range) - Static method in class edu.rit.mp.ObjectBuf

Create a buffer for one patch of the given object matrix.

patchBuffer(short[][], Range, Range) - Static method in class edu.rit.mp.ShortBuf

Create a buffer for one patch of the given short matrix.

patchBuffer(int[][], Range, Range) - Static method in class edu.rit.mp.Signed16BitIntegerBuf

Create a buffer for one patch of the given integer matrix.

patchBuffer(int[][], Range, Range) - Static method in class edu.rit.mp.Signed8BitIntegerBuf

Create a buffer for one patch of the given integer matrix.

patchBuffer(int[][], Range, Range) - Static method in class edu.rit.mp.Unsigned16BitIntegerBuf

Create a buffer for one patch of the given integer matrix.

patchBuffer(int[][], Range, Range) - Static method in class edu.rit.mp.Unsigned8BitIntegerBuf

Create a buffer for one patch of the given integer matrix.

patchBuffers(boolean[][], Range[], Range[]) - Static method in class edu.rit.mp.BooleanBuf

Create an array of buffers for multiple patches of the given Boolean matrix.

patchBuffers(byte[][], Range[], Range[]) - Static method in class edu.rit.mp.ByteBuf

Create an array of buffers for multiple patches of the given byte matrix.

patchBuffers(char[][], Range[], Range[]) - Static method in class edu.rit.mp.CharacterBuf

Create an array of buffers for multiple patches of the given character matrix.

patchBuffers(double[][], Range[], Range[]) - Static method in class edu.rit.mp.DoubleBuf

Create an array of buffers for multiple patches of the given double matrix.

patchBuffers(float[][], Range[], Range[]) - Static method in class edu.rit.mp.FloatBuf

Create an array of buffers for multiple patches of the given float matrix.

patchBuffers(int[][], Range[], Range[]) - Static method in class edu.rit.mp.IntegerBuf

Create an array of buffers for multiple patches of the given integer matrix.

patchBuffers(long[][], Range[], Range[]) - Static method in class edu.rit.mp.LongBuf

Create an array of buffers for multiple patches of the given long matrix.

patchBuffers(T[][], Range[], Range[]) - Static method in class edu.rit.mp.ObjectBuf

Create an array of buffers for multiple patches of the given object matrix.

patchBuffers(short[][], Range[], Range[]) - Static method in class edu.rit.mp.ShortBuf

Create an array of buffers for multiple patches of the given short matrix.

patchBuffers(int[][], Range[], Range[]) - Static method in class edu.rit.mp.Signed16BitIntegerBuf

Create an array of buffers for multiple patches of the given integer matrix.

patchBuffers(int[][], Range[], Range[]) - Static method in class edu.rit.mp.Signed8BitIntegerBuf

Create an array of buffers for multiple patches of the given integer matrix.

patchBuffers(int[][], Range[], Range[]) - Static method in class edu.rit.mp.Unsigned16BitIntegerBuf

Create an array of buffers for multiple patches of the given integer matrix.

patchBuffers(int[][], Range[], Range[]) - Static method in class edu.rit.mp.Unsigned8BitIntegerBuf

Create an array of buffers for multiple patches of the given integer matrix.

pattern() - Method in class edu.rit.swing.DecimalFormatTextField

Get this decimal format text field's pattern.

pattern(DecimalFormat) - Method in class edu.rit.swing.DecimalFormatTextField

Set this decimal format text field's pattern.

perform() - Method in class edu.rit.sim.Event

Perform this event.

perimeterIntersection(Point) - Method in class edu.rit.draw.item.Ellipse

Returns the point of intersection between (1) this ellipse's perimeter and (2) the line passing through this ellipse's center and the given point.

perimeterIntersection(double, double) - Method in class edu.rit.draw.item.Ellipse

Returns the point of intersection between (1) this ellipse's perimeter and (2) the line passing through this ellipse's center and the given point.

phase(int) - Method in class edu.rit.numeric.SeriesComplex

Returns the phase of the given complex value in this series.

phase(int) - Method in class edu.rit.numeric.XYSeriesComplex

Returns the phase of the given complex y value in this complex XY series.

phaseSeries() - Method in class edu.rit.numeric.SeriesComplex

Returns a new series consisting of the phases of the complex values in this series.

phaseSeries() - Method in class edu.rit.numeric.XYSeriesComplex

Returns a new series consisting of the phases of the complex y values in this complex XY series.

phaseXYSeries() - Method in class edu.rit.numeric.XYSeriesComplex

Returns a new XY series consisting of the x values and the phases of the complex y values in this complex XY series.

PhylogenyParsBnbHyb - Class in edu.rit.compbio.phyl

Class PhylogenyParsBnbHyb is a hybrid parallel program for maximum parsimony phylogenetic tree construction using branch-and-bound search.

PhylogenyParsBnbSeq - Class in edu.rit.compbio.phyl

Class PhylogenyParsBnbSeq is a sequential program for maximum parsimony phylogenetic tree construction using branch-and-bound search.

PhylogenyParsBnbSmp - Class in edu.rit.compbio.phyl

Class PhylogenyParsBnbSmp is an SMP parallel program for maximum parsimony phylogenetic tree construction using branch-and-bound search.

PhylogenyParsExhSeq - Class in edu.rit.compbio.phyl

Class PhylogenyParsExhSeq is a sequential program for maximum parsimony phylogenetic tree construction using exhaustive search.

PiClu - Class in edu.rit.clu.monte

Class PiClu is a cluster parallel program that calculates an approximate value for π using a Monte Carlo technique.

PiClu2 - Class in edu.rit.clu.monte

Class PiClu2 is a cluster parallel program that calculates an approximate value for π using a Monte Carlo technique.

PiHyb - Class in edu.rit.hyb.monte

Class PiHyb is a hybrid SMP cluster parallel program that calculates an approximate value for π using a Monte Carlo technique.

PINK - Static variable in class edu.rit.draw.item.ColorFill

Color fill object for the color pink.

PiSeq - Class in edu.rit.clu.monte

Class PiSeq is a sequential program that calculates an approximate value for π using a Monte Carlo technique.

PiSeq - Class in edu.rit.hyb.monte

Class PiSeq is a sequential program that calculates an approximate value for π using a Monte Carlo technique.

PiSeq - Class in edu.rit.smp.monte

Class PiSeq is a sequential program that calculates an approximate value for π using a Monte Carlo technique.

PiSeq3 - Class in edu.rit.smp.monte

Class PiSeq3 is a sequential program that calculates an approximate value for π using a Monte Carlo technique.

PiSmp - Class in edu.rit.smp.monte

Class PiSmp is an SMP parallel program that calculates an approximate value for π using a Monte Carlo technique.

PiSmp2 - Class in edu.rit.smp.monte

Class PiSmp2 is an SMP parallel program that calculates an approximate value for π using a Monte Carlo technique.

PiSmp3 - Class in edu.rit.smp.monte

Class PiSmp3 is an SMP parallel program that calculates an approximate value for π using a Monte Carlo technique.

PIXEL_COORDINATES - Static variable in class edu.rit.numeric.plot.impl.Label

The label's location is specified in pixel coordinates relative to the lower left corner of the plot area, rather than in plot coordinates.

PIXEL_COORDINATES - Static variable in class edu.rit.numeric.plot.Plot

The label's location is specified in pixel coordinates relative to the lower left corner of the plot area, rather than in plot coordinates.

PixelAnalysis - Class in edu.rit.mri

Class PixelAnalysis provides a routine for doing a spin relaxometry analysis on one pixel of a magnetic resonance image.

PixelChunk - Class in edu.rit.mri

Class PixelChunk encapsulates a chunk of pixels on which to perform a spin relaxometry analysis.

PixelChunk() - Constructor for class edu.rit.mri.PixelChunk

Construct a new, uninitialized pixel chunk object.

PixelChunk(int, int, int) - Constructor for class edu.rit.mri.PixelChunk

Construct a new pixel chunk object.

pixelCount() - Method in class edu.rit.mri.PixelChunk

Get the number of pixels to analyze.

pixelIndex() - Method in class edu.rit.mri.PixelChunk

Get the pixel index of the first pixel to analyze.

pixelIndex() - Method in class edu.rit.mri.PixelSignal

Get the pixel index.

pixelIndex(int) - Method in class edu.rit.mri.PixelSignal

Specify the pixel index.

pixelIndex() - Method in class edu.rit.mri.PixelTissues

Get the pixel index.

pixelIndex(int) - Method in class edu.rit.mri.PixelTissues

Specify the pixel index.

PixelSchedule - Class in edu.rit.mri

Class PixelSchedule provides a load balancing schedule object used by class SpinRelaxometryClu for partitioning the pixels of the input spin signal data sets among the workers.

PixelSchedule(int, String[]) - Constructor for class edu.rit.mri.PixelSchedule

Construct a new pixel schedule object.

PixelSignal - Class in edu.rit.mri

Class PixelSignal encapsulates the measured spin signal on one pixel of a magnetic resonance image.

PixelSignal() - Constructor for class edu.rit.mri.PixelSignal

Construct a new, uninitialized pixel signal object.

PixelSignal(int, int, short[]) - Constructor for class edu.rit.mri.PixelSignal

Construct a new pixel signal object.

PixelSignal(int, int, Series) - Constructor for class edu.rit.mri.PixelSignal

Construct a new pixel signal object.

PixelTissues - Class in edu.rit.mri

Class PixelTissues encapsulates the results of a spin relaxometry analysis on one pixel of a magnetic resonance image.

PixelTissues() - Constructor for class edu.rit.mri.PixelTissues

Construct a new, uninitialized pixel tissues object.

PixelTissues(int, int, List<Double>, List<Double>) - Constructor for class edu.rit.mri.PixelTissues

Construct a new pixel tissues object.

PJ_PORT - Static variable in class edu.rit.pj.cluster.Constants

The default port number to which the Job Scheduler listens for connections from job frontend processes (20617).

PJ_VERSION - Static variable in class edu.rit.pj.Version

The Parallel Java Library version.

PJG - Class in <Unnamed>

Class PJG is a program that displays a Parallel Java Graphics (PJG) image file.

PJGColorImage - Class in edu.rit.image

Class PJGColorImage provides a color image that is read from or written to a file in Parallel Java Graphics (PJG) format; class PJGColorImage is best suited when the image has a small number of discrete colors.

PJGColorImage() - Constructor for class edu.rit.image.PJGColorImage

Construct a new PJG color image.

PJGColorImage(int, int, int[][]) - Constructor for class edu.rit.image.PJGColorImage

Construct a new PJG color image with the given height, width, and underlying matrix.

PJGGrayImage - Class in edu.rit.image

Class PJGGrayImage provides an 8-bit grayscale image that is read from or written to a file in Parallel Java Graphics (PJG) format.

PJGGrayImage() - Constructor for class edu.rit.image.PJGGrayImage

Construct a new PJG grayscale image.

PJGGrayImage(int, int, byte[][]) - Constructor for class edu.rit.image.PJGGrayImage

Construct a new PJG grayscale image with the given height, width, and underlying matrix.

PJGGrayImage.Interpretation - Enum in edu.rit.image

Enum Interpretation specifies how to interpret a numerical pixel value as a shade of gray in a grayscale image.

PJGHueImage - Class in edu.rit.image

Class PJGHueImage provides a color image that is read from or written to a file in Parallel Java Graphics (PJG) format; class PJGHueImage is best suited when the image has a continuous range of hues.

PJGHueImage() - Constructor for class edu.rit.image.PJGHueImage

Construct a new PJG hue image.

PJGHueImage(int, int, int[][]) - Constructor for class edu.rit.image.PJGHueImage

Construct a new PJG hue image with the given height, width, and underlying matrix.

PJGImage - Class in edu.rit.image

Class PJGImage is the abstract base class for an image that is read from or written to a file in Parallel Java Graphics (PJG) format.

PJGImage.Reader - Class in edu.rit.image

Class PJGImage.Reader is the abstract base class for an object with which to read a PJGImage from an input stream.

PJGImage.Writer - Class in edu.rit.image

Class PJGImage.Writer is the abstract base class for an object with which to write a PJGImage to an output stream.

PJGImageFileFormatException - Exception in edu.rit.image

Class PJGImageFileFormatException is an IOException thrown if a PJG image file's contents are not formatted correctly.

PJGImageFileFormatException() - Constructor for exception edu.rit.image.PJGImageFileFormatException

Construct a new PJG image file format exception with no detail message and no cause.

PJGImageFileFormatException(String) - Constructor for exception edu.rit.image.PJGImageFileFormatException

Construct a new PJG image file format exception with the given detail message and no cause.

PJGImageFileFormatException(Throwable) - Constructor for exception edu.rit.image.PJGImageFileFormatException

Construct a new PJG image file format exception with the given cause and the default detail message.

PJGImageFileFormatException(String, Throwable) - Constructor for exception edu.rit.image.PJGImageFileFormatException

Construct a new PJG image file format exception with the given detail message and the given cause.

PJProperties - Class in edu.rit.pj

Class PJProperties provides static methods for reading Java system properties that control the behavior of Parallel Java.

pjrun - Class in <Unnamed>

Class pjrun is a main program that runs a program, other than a Parallel Java (PJ) program, on a cluster parallel computer using the PJ job queue.

Plot - Class in edu.rit.numeric.plot

Class Plot is a class for creating and displaying a plot.

Plot() - Constructor for class edu.rit.numeric.plot.Plot

Construct a new plot.

Plot.AxisKind - Enum in edu.rit.numeric.plot

Enum Plot.AxisKind enumerates the possible kinds of axis on a Plot.

PlotData - Class in edu.rit.mri.test

Class PlotData is a main program that displays a plot of a spin signal data set.

PlotPixel - Class in edu.rit.mri

Class PlotPixel is a main program that displays the results of a spin relaxometry analysis of a magnetic resonance image.

PlotSeries - Class in edu.rit.numeric.plot.impl

Class PlotSeries is the abstract base class for a plot series for an XYPlot.

PlotSeries() - Constructor for class edu.rit.numeric.plot.impl.PlotSeries

Construct a new plot series.

PlotSeries(XYSeries, Dots, BasicStroke, Color, boolean) - Constructor for class edu.rit.numeric.plot.impl.PlotSeries

Construct a new plot series.

plotTitle(String) - Method in class edu.rit.numeric.plot.Plot

Set the title for the plot.

plotTitleFont(Font) - Method in class edu.rit.numeric.plot.Plot

Set the title font for the plot.

plotTitleOffset(double) - Method in class edu.rit.numeric.plot.Plot

Set the offset from the plot area to the title for the plot.

Point - Class in edu.rit.draw.item

Class Point provides an (x,y) point on a drawing.

Point() - Constructor for class edu.rit.draw.item.Point

Construct a new point at location (0,0).

Point(double, double) - Constructor for class edu.rit.draw.item.Point

Construct a new point at location (x,y).

Point(Point) - Constructor for class edu.rit.draw.item.Point

Construct a new point at the same location as the given point.

Polygon - Class in edu.rit.draw.item

Class Polygon provides a polygon DrawingItem whose boundary consists of one or more straight line segments.

Polygon() - Constructor for class edu.rit.draw.item.Polygon

Construct a new polygon.

Polygon(Polygon) - Constructor for class edu.rit.draw.item.Polygon

Construct a new polygon with the same points, outline, and fill paint as the given polygon.

POST_METHOD - Static variable in class edu.rit.http.HttpRequest

The POST method string, "POST".

prepareToRead(InputStream) - Method in class edu.rit.clu.antimatter.AntiprotonFile

Prepare to read this antiproton file from the given input stream.

prepareToRead(InputStream) - Method in class edu.rit.image.PJGColorImage

Prepare to read this image from the given input stream.

prepareToRead(InputStream) - Method in class edu.rit.image.PJGGrayImage

Prepare to read this image from the given input stream.

prepareToRead(InputStream) - Method in class edu.rit.image.PJGHueImage

Prepare to read this image from the given input stream.

prepareToRead(InputStream) - Method in class edu.rit.image.PJGImage

Prepare to read this image from the given input stream.

prepareToRead(InputStream) - Method in class edu.rit.io.DoubleMatrixFile

Prepare to read this matrix file from the given input stream.

prepareToWrite(OutputStream) - Method in class edu.rit.clu.antimatter.AntiprotonFile

Prepare to write this antiproton file to the given output stream.

prepareToWrite(OutputStream) - Method in class edu.rit.image.PJGColorImage

Prepare to write this image to the given output stream.

prepareToWrite(OutputStream) - Method in class edu.rit.image.PJGGrayImage

Prepare to write this image to the given output stream.

prepareToWrite(OutputStream) - Method in class edu.rit.image.PJGHueImage

Prepare to write this image to the given output stream.

prepareToWrite(OutputStream) - Method in class edu.rit.image.PJGImage

Prepare to write this image to the given output stream.

prepareToWrite(OutputStream) - Method in class edu.rit.io.DoubleMatrixFile

Prepare to write this matrix file to the given output stream.

prepend(DrawingItem) - Method in class edu.rit.draw.item.Group

Add the given drawing item to the beginning of this group's list of drawing items.

Prime32File - Class in edu.rit.hyb.prime

Class Prime32File is a sequential program that stores a list of 32-bit prime numbers in a file.

Prime32List - Class in edu.rit.hyb.prime

Class Prime32List encapsulates a list of 32-bit prime numbers.

Prime32List(File) - Constructor for class edu.rit.hyb.prime.Prime32List

Construct a new 32-bit prime list.

PrimeCountFunctionHyb - Class in edu.rit.hyb.prime

Class PrimeCountFunctionHyb is a hybrid parallel program that calculates the prime counting function π(x).

PrimeCountFunctionSeq - Class in edu.rit.hyb.prime

Class PrimeCountFunctionSeq is a sequential program that calculates the prime counting function π(x).

print(PrintStream) - Method in interface edu.rit.compbio.seq.AlignmentStats

Print information about this alignment statistics object on the given print stream.

print(PrintStream) - Method in class edu.rit.compbio.seq.DefaultAlignmentStats

Print information about this alignment statistics object on the given print stream.

print() - Method in class edu.rit.numeric.Series

Print this series on the standard output.

print(PrintStream) - Method in class edu.rit.numeric.Series

Print this series on the given print stream.

print(PrintWriter) - Method in class edu.rit.numeric.Series

Print this series on the given print writer.

print() - Method in class edu.rit.numeric.SeriesComplex

Print this complex series on the standard output.

print(PrintStream) - Method in class edu.rit.numeric.SeriesComplex

Print this complex series on the given print stream.

print(PrintWriter) - Method in class edu.rit.numeric.SeriesComplex

Print this complex series on the given print writer.

print() - Method in class edu.rit.numeric.XYSeries

Print this XY series on the standard output.

print(PrintStream) - Method in class edu.rit.numeric.XYSeries

Print this XY series on the given print stream.

print(PrintWriter) - Method in class edu.rit.numeric.XYSeries

Print this XY series on the given print writer.

print() - Method in class edu.rit.numeric.XYSeriesComplex

Print this complex XY series on the standard output.

print(PrintStream) - Method in class edu.rit.numeric.XYSeriesComplex

Print this complex XY series on the given print stream.

print(PrintWriter) - Method in class edu.rit.numeric.XYSeriesComplex

Print this complex XY series on the given print writer.

print() - Method in class edu.rit.numeric.XYZSeries

Print this XYZ series on the standard output.

print(PrintStream) - Method in class edu.rit.numeric.XYZSeries

Print this XYZ series on the given print stream.

print(PrintWriter) - Method in class edu.rit.numeric.XYZSeries

Print this XYZ series on the given print writer.

printDetails(Alignment, Sequence, Sequence) - Method in class edu.rit.compbio.seq.AlignmentPrinter

Print details of the given alignment.

printStackTrace(PrintStream) - Method in exception edu.rit.pj.MultipleParallelException

Print this throwable and its backtrace to the specified print stream.

printStackTrace(PrintWriter) - Method in exception edu.rit.pj.MultipleParallelException

Print this throwable and its backtrace to the specified print writer.

PrintStreamLogger - Class in edu.rit.util

Class PrintStreamLogger provides an object that logs messages to a print stream.

PrintStreamLogger() - Constructor for class edu.rit.util.PrintStreamLogger

Construct a new print stream logger that logs to System.err.

PrintStreamLogger(PrintStream) - Constructor for class edu.rit.util.PrintStreamLogger

Construct a new print stream logger that logs to the given print stream.

printSummary(Alignment, Sequence) - Method in class edu.rit.compbio.seq.AlignmentPrinter

Print a summary of the given alignment.

printSyntaxError(PrintStream) - Method in exception edu.rit.compbio.phyl.TreeDrawing.SyntaxException

Print a syntax error message on the given print stream.

process(HttpRequest, HttpResponse) - Method in class edu.rit.http.HttpServer

Process the given HTTP request.

ProcessInfo - Class in edu.rit.pj.cluster

Class ProcessInfo provides a record of information about one job backend process in the PJ cluster middleware.

ProcessInfo(ProcessInfo.State, String, int, JobBackendRef, InetSocketAddress, InetSocketAddress, InetSocketAddress, Timer, Timer, int) - Constructor for class edu.rit.pj.cluster.ProcessInfo

Construct a new job information record.

ProcessInfo.State - Enum in edu.rit.pj.cluster

The state of a job backend process.

PRODUCT - Static variable in class edu.rit.pj.reduction.ByteOp

The byte product binary operation.

PRODUCT - Static variable in class edu.rit.pj.reduction.DoubleOp

The double product binary operation.

PRODUCT - Static variable in class edu.rit.pj.reduction.FloatOp

The float product binary operation.

PRODUCT - Static variable in class edu.rit.pj.reduction.IntegerOp

The integer product binary operation.

PRODUCT - Static variable in class edu.rit.pj.reduction.LongOp

The long product binary operation.

PRODUCT - Static variable in class edu.rit.pj.reduction.ShortOp

The short product binary operation.

Program1Clu - Class in <Unnamed>

Class Program1Clu is the cluster parallel version of the first program illustrating parallel computing.

Program1Seq - Class in <Unnamed>

Class Program1Seq is the sequential version of the first program illustrating parallel computing.

Program1Smp - Class in <Unnamed>

Class Program1Smp is the SMP parallel version of the first program illustrating parallel computing.

ProteinDatabase - Class in edu.rit.compbio.seq

Class ProteinDatabase encapsulates a protein sequence database stored in a file.

ProteinDatabase(File, File) - Constructor for class edu.rit.compbio.seq.ProteinDatabase

Construct a new protein sequence database.

ProteinLocalAlignment - Class in edu.rit.compbio.seq

Class ProteinLocalAlignment is the abstract base class for an object that does local alignments of ProteinSequences.

ProteinLocalAlignment() - Constructor for class edu.rit.compbio.seq.ProteinLocalAlignment

Construct a new protein sequence local alignment object.

ProteinLocalAlignmentSeq - Class in edu.rit.compbio.seq

Class ProteinLocalAlignmentSeq provides an object that does local alignments of ProteinSequences.

ProteinLocalAlignmentSeq() - Constructor for class edu.rit.compbio.seq.ProteinLocalAlignmentSeq

Construct a new protein sequence local alignment object.

ProteinLocalAlignmentSmp - Class in edu.rit.compbio.seq

Class ProteinLocalAlignmentSmp provides an object that does local alignments of ProteinSequences.

ProteinLocalAlignmentSmp(ParallelTeam) - Constructor for class edu.rit.compbio.seq.ProteinLocalAlignmentSmp

Construct a new protein sequence local alignment object.

ProteinSequence - Class in edu.rit.compbio.seq

Class ProteinSequence encapsulates a protein sequence.

ProteinSequence(String, String) - Constructor for class edu.rit.compbio.seq.ProteinSequence

Construct a new protein sequence from the given string.

ProteinSequence(File) - Constructor for class edu.rit.compbio.seq.ProteinSequence

Construct a new protein sequence read from the given file.

Proxy - Class in edu.rit.pj.cluster

Class Proxy is the abstract base class for a proxy object for sending messages to a PJ process.

Proxy(ChannelGroup, Channel) - Constructor for class edu.rit.pj.cluster.Proxy

Construct a new proxy.

put(int, boolean) - Method in class edu.rit.mp.BooleanBuf

Store the given item in this buffer.

put(int, boolean) - Method in class edu.rit.mp.buf.BooleanArrayBuf

Store the given item in this buffer.

put(int, boolean) - Method in class edu.rit.mp.buf.BooleanArrayBuf_1

Store the given item in this buffer.

put(int, boolean) - Method in class edu.rit.mp.buf.BooleanItemBuf

Store the given item in this buffer.

put(int, boolean) - Method in class edu.rit.mp.buf.BooleanMatrixBuf

Store the given item in this buffer.

put(int, boolean) - Method in class edu.rit.mp.buf.BooleanMatrixBuf_1

Store the given item in this buffer.

put(int, byte) - Method in class edu.rit.mp.buf.ByteArrayBuf

Store the given item in this buffer.

put(int, byte) - Method in class edu.rit.mp.buf.ByteArrayBuf_1

Store the given item in this buffer.

put(int, byte) - Method in class edu.rit.mp.buf.ByteItemBuf

Store the given item in this buffer.

put(int, byte) - Method in class edu.rit.mp.buf.ByteMatrixBuf

Store the given item in this buffer.

put(int, byte) - Method in class edu.rit.mp.buf.ByteMatrixBuf_1

Store the given item in this buffer.

put(int, char) - Method in class edu.rit.mp.buf.CharacterArrayBuf

Store the given item in this buffer.

put(int, char) - Method in class edu.rit.mp.buf.CharacterArrayBuf_1

Store the given item in this buffer.

put(int, char) - Method in class edu.rit.mp.buf.CharacterItemBuf

Store the given item in this buffer.

put(int, char) - Method in class edu.rit.mp.buf.CharacterMatrixBuf

Store the given item in this buffer.

put(int, char) - Method in class edu.rit.mp.buf.CharacterMatrixBuf_1

Store the given item in this buffer.

put(int, double) - Method in class edu.rit.mp.buf.DoubleArrayBuf

Store the given item in this buffer.

put(int, double) - Method in class edu.rit.mp.buf.DoubleArrayBuf_1

Store the given item in this buffer.

put(int, double) - Method in class edu.rit.mp.buf.DoubleItemBuf

Store the given item in this buffer.

put(int, double) - Method in class edu.rit.mp.buf.DoubleMatrixBuf

Store the given item in this buffer.

put(int, double) - Method in class edu.rit.mp.buf.DoubleMatrixBuf_1

Store the given item in this buffer.

put(int, boolean) - Method in class edu.rit.mp.buf.EmptyBooleanBuf

Store the given item in this buffer.

put(int, byte) - Method in class edu.rit.mp.buf.EmptyByteBuf

Store the given item in this buffer.

put(int, char) - Method in class edu.rit.mp.buf.EmptyCharacterBuf

Store the given item in this buffer.

put(int, double) - Method in class edu.rit.mp.buf.EmptyDoubleBuf

Store the given item in this buffer.

put(int, float) - Method in class edu.rit.mp.buf.EmptyFloatBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.EmptyIntegerBuf

Store the given item in this buffer.

put(int, long) - Method in class edu.rit.mp.buf.EmptyLongBuf

Store the given item in this buffer.

put(int, Object) - Method in class edu.rit.mp.buf.EmptyObjectBuf

Store the given item in this buffer.

put(int, short) - Method in class edu.rit.mp.buf.EmptyShortBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.EmptySigned16BitIntegerBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.EmptySigned8BitIntegerBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.EmptyUnsigned16BitIntegerBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.EmptyUnsigned8BitIntegerBuf

Store the given item in this buffer.

put(int, float) - Method in class edu.rit.mp.buf.FloatArrayBuf

Store the given item in this buffer.

put(int, float) - Method in class edu.rit.mp.buf.FloatArrayBuf_1

Store the given item in this buffer.

put(int, float) - Method in class edu.rit.mp.buf.FloatItemBuf

Store the given item in this buffer.

put(int, float) - Method in class edu.rit.mp.buf.FloatMatrixBuf

Store the given item in this buffer.

put(int, float) - Method in class edu.rit.mp.buf.FloatMatrixBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.IntegerArrayBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.IntegerArrayBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.IntegerItemBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.IntegerMatrixBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.IntegerMatrixBuf_1

Store the given item in this buffer.

put(int, long) - Method in class edu.rit.mp.buf.LongArrayBuf

Store the given item in this buffer.

put(int, long) - Method in class edu.rit.mp.buf.LongArrayBuf_1

Store the given item in this buffer.

put(int, long) - Method in class edu.rit.mp.buf.LongItemBuf

Store the given item in this buffer.

put(int, long) - Method in class edu.rit.mp.buf.LongMatrixBuf

Store the given item in this buffer.

put(int, long) - Method in class edu.rit.mp.buf.LongMatrixBuf_1

Store the given item in this buffer.

put(int, T) - Method in class edu.rit.mp.buf.ObjectArrayBuf

Store the given item in this buffer.

put(int, T) - Method in class edu.rit.mp.buf.ObjectArrayBuf_1

Store the given item in this buffer.

put(int, T) - Method in class edu.rit.mp.buf.ObjectItemBuf

Store the given item in this buffer.

put(int, T) - Method in class edu.rit.mp.buf.ObjectMatrixBuf

Store the given item in this buffer.

put(int, T) - Method in class edu.rit.mp.buf.ObjectMatrixBuf_1

Store the given item in this buffer.

put(int, boolean) - Method in class edu.rit.mp.buf.SharedBooleanArrayBuf

Store the given item in this buffer.

put(int, boolean) - Method in class edu.rit.mp.buf.SharedBooleanArrayBuf_1

Store the given item in this buffer.

put(int, boolean) - Method in class edu.rit.mp.buf.SharedBooleanBuf

Store the given item in this buffer.

put(int, byte) - Method in class edu.rit.mp.buf.SharedByteArrayBuf

Store the given item in this buffer.

put(int, byte) - Method in class edu.rit.mp.buf.SharedByteArrayBuf_1

Store the given item in this buffer.

put(int, byte) - Method in class edu.rit.mp.buf.SharedByteBuf

Store the given item in this buffer.

put(int, char) - Method in class edu.rit.mp.buf.SharedCharacterArrayBuf

Store the given item in this buffer.

put(int, char) - Method in class edu.rit.mp.buf.SharedCharacterArrayBuf_1

Store the given item in this buffer.

put(int, char) - Method in class edu.rit.mp.buf.SharedCharacterBuf

Store the given item in this buffer.

put(int, double) - Method in class edu.rit.mp.buf.SharedDoubleArrayBuf

Store the given item in this buffer.

put(int, double) - Method in class edu.rit.mp.buf.SharedDoubleArrayBuf_1

Store the given item in this buffer.

put(int, double) - Method in class edu.rit.mp.buf.SharedDoubleBuf

Store the given item in this buffer.

put(int, float) - Method in class edu.rit.mp.buf.SharedFloatArrayBuf

Store the given item in this buffer.

put(int, float) - Method in class edu.rit.mp.buf.SharedFloatArrayBuf_1

Store the given item in this buffer.

put(int, float) - Method in class edu.rit.mp.buf.SharedFloatBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedIntegerArrayBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedIntegerArrayBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedIntegerBuf

Store the given item in this buffer.

put(int, long) - Method in class edu.rit.mp.buf.SharedLongArrayBuf

Store the given item in this buffer.

put(int, long) - Method in class edu.rit.mp.buf.SharedLongArrayBuf_1

Store the given item in this buffer.

put(int, long) - Method in class edu.rit.mp.buf.SharedLongBuf

Store the given item in this buffer.

put(int, T) - Method in class edu.rit.mp.buf.SharedObjectArrayBuf

Store the given item in this buffer.

put(int, T) - Method in class edu.rit.mp.buf.SharedObjectArrayBuf_1

Store the given item in this buffer.

put(int, T) - Method in class edu.rit.mp.buf.SharedObjectBuf

Store the given item in this buffer.

put(int, short) - Method in class edu.rit.mp.buf.SharedShortArrayBuf

Store the given item in this buffer.

put(int, short) - Method in class edu.rit.mp.buf.SharedShortArrayBuf_1

Store the given item in this buffer.

put(int, short) - Method in class edu.rit.mp.buf.SharedShortBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedSigned16BitIntegerArrayBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedSigned16BitIntegerArrayBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedSigned16BitIntegerBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedSigned8BitIntegerArrayBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedSigned8BitIntegerArrayBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedSigned8BitIntegerBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedUnsigned16BitIntegerArrayBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedUnsigned16BitIntegerArrayBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedUnsigned16BitIntegerBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedUnsigned8BitIntegerArrayBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedUnsigned8BitIntegerArrayBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.SharedUnsigned8BitIntegerBuf

Store the given item in this buffer.

put(int, short) - Method in class edu.rit.mp.buf.ShortArrayBuf

Store the given item in this buffer.

put(int, short) - Method in class edu.rit.mp.buf.ShortArrayBuf_1

Store the given item in this buffer.

put(int, short) - Method in class edu.rit.mp.buf.ShortItemBuf

Store the given item in this buffer.

put(int, short) - Method in class edu.rit.mp.buf.ShortMatrixBuf

Store the given item in this buffer.

put(int, short) - Method in class edu.rit.mp.buf.ShortMatrixBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Signed16BitIntegerArrayBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Signed16BitIntegerArrayBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Signed16BitIntegerItemBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Signed16BitIntegerMatrixBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Signed16BitIntegerMatrixBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Signed8BitIntegerArrayBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Signed8BitIntegerArrayBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Signed8BitIntegerItemBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Signed8BitIntegerMatrixBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Signed8BitIntegerMatrixBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Unsigned16BitIntegerArrayBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Unsigned16BitIntegerArrayBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Unsigned16BitIntegerItemBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Unsigned16BitIntegerMatrixBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Unsigned16BitIntegerMatrixBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Unsigned8BitIntegerArrayBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Unsigned8BitIntegerArrayBuf_1

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Unsigned8BitIntegerItemBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Unsigned8BitIntegerMatrixBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.buf.Unsigned8BitIntegerMatrixBuf_1

Store the given item in this buffer.

put(int, byte) - Method in class edu.rit.mp.ByteBuf

Store the given item in this buffer.

put(int, char) - Method in class edu.rit.mp.CharacterBuf

Store the given item in this buffer.

put(int, double) - Method in class edu.rit.mp.DoubleBuf

Store the given item in this buffer.

put(int, float) - Method in class edu.rit.mp.FloatBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.IntegerBuf

Store the given item in this buffer.

put(int, long) - Method in class edu.rit.mp.LongBuf

Store the given item in this buffer.

put(int, T) - Method in class edu.rit.mp.ObjectBuf

Store the given item in this buffer.

put(int, short) - Method in class edu.rit.mp.ShortBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.Signed16BitIntegerBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.Signed8BitIntegerBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.test.Buf01

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.Unsigned16BitIntegerBuf

Store the given item in this buffer.

put(int, int) - Method in class edu.rit.mp.Unsigned8BitIntegerBuf

Store the given item in this buffer.

put(String, byte[]) - Method in class edu.rit.pj.cluster.ResourceCache

Store the given resource content under the given resource name in this resource cache.

pValue - Variable in class edu.rit.numeric.RobustFit

The goodness-of-fit p-value.