edu.ucla.stat.SOCR.analyses.command.volume
Class VolumeMultipleRegression

java.lang.Object
  edu.ucla.stat.SOCR.analyses.command.volume.VolumeMultipleRegression

public class VolumeMultipleRegression
extends java.lang.Object

Constructor Summary

VolumeMultipleRegression()

Method Summary

static int	byteArrayToInt(byte[] b, int offset) Convert the byte array to an int starting from the given offset.
static double[]	getNextInputDataBuffer(int data_type, int xLength, boolean flush) This method READS IN a bufferSize chunk of all input volumes and returns it as a double[]
static byte[]	intToBytes(int v) Convert an int to an array of 4 bytes.
static boolean	isRegressorValid(java.util.HashSet<java.lang.String> validRegressors, Regressor newRegressor) this method helps the parseRegressors method above in particular, it takes a list of validated regressor variables and a not-yet-validated regressor variable if the new variable is valid, this method returns true if not, then it returns false; the criteria for validity is described in the description of parseRegressors
static byte[]	longToBytes(long v) Convert a long to an array of 8 bytes.
static void	main(java.lang.String[] args)
static boolean	parseRegressors(java.util.StringTokenizer st) check regressor list for interactions in particular, each interaction variable must be composed of individual regressor variables that are also included in the regressor list; for instance, if we have an interaction variable A*B*C, we must have (minimally): -regressors A,B,C,A*B,B*C,A*C,A*B*C
static void	putNextOutputDataBuffer(double[] constantIntercept_P_B_R_T, double[] pValue, double[] beta, double[] rPartCor, double[] tStat, int independentLength, boolean writeResultsOrDefaults, boolean flush) This method WRITES OUT bufferSize chunks of all output volumes
static void	setByteOrder(javax.imageio.stream.MemoryCacheImageInputStream dis, java.lang.String byteorder) This method sets the Bite-Order for a MemoryCacheImageInputStream
static void	setByteOrder(javax.imageio.stream.MemoryCacheImageOutputStream dos, java.lang.String byteorder) This method sets the Bite-Order for a MemoryCacheImageOutputStream
static byte[]	shortToBytes(short v) Convert a short to an array of 2 bytes.
static void	skipNextInputDataBuffer(int data_type, int xLength, boolean flush) This method SKIPS in reading data from the bufferSize chunk of all input volumes
static char	swapChar(byte[] b, int offset) Returns the char resulting from swapping 2 bytes at a specified offset in a byte array.
static double	swapDouble(byte[] b, int offset) Returns the double resulting from reversing 8 bytes at a specified offset in a byte array.
static double	swapDouble(double v) Returns the double resulting from reversing 8 bytes of a specified double.
static float	swapFloat(byte[] b, int offset) Returns the float resulting from reversing 4 bytes at a specified offset in a byte array.
static float	swapFloat(float v) Returns the float resulting from reversing 4 bytes of a specified float.
static int	swapInt(byte[] b, int offset) Returns the int resulting from reversing 4 bytes at a specified offset in a byte array.
static int	swapInt(int v) Returns the int resulting from reversing 4 bytes of a specified int.
static long	swapLong(byte[] b, int offset) Returns the long resulting from reversing 8 bytes at a specified offset in a byte array.
static long	swapLong(long l) Returns the long resulting from reversing 8 bytes of a specified long.
static short	swapShort(byte[] b, int offset) Returns the short resulting from swapping 2 bytes at a specified offset in a byte array.
static short	swapShort(short s) Returns the short resulting from swapping 2 bytes of a specified short.

Methods inherited from class java.lang.Object

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

Constructor Detail

VolumeMultipleRegression

public VolumeMultipleRegression()

Method Detail

main

public static void main(java.lang.String[] args)

parseRegressors

public static boolean parseRegressors(java.util.StringTokenizer st)

check regressor list for interactions in particular, each interaction variable must be composed of individual regressor variables that are also included in the regressor list; for instance, if we have an interaction variable A*B*C, we must have (minimally): -regressors A,B,C,A*B,B*C,A*C,A*B*C

isRegressorValid

public static boolean isRegressorValid(java.util.HashSet<java.lang.String> validRegressors,
                                       Regressor newRegressor)

this method helps the parseRegressors method above in particular, it takes a list of validated regressor variables and a not-yet-validated regressor variable if the new variable is valid, this method returns true if not, then it returns false; the criteria for validity is described in the description of parseRegressors

setByteOrder

public static void setByteOrder(javax.imageio.stream.MemoryCacheImageInputStream dis,
                                java.lang.String byteorder)

This method sets the Bite-Order for a MemoryCacheImageInputStream

Parameters:

dis - - MemoryCacheImageInputStream

byteorder - - String representation of byteorder. Options are big (java.nio.ByteOrder.BIG_ENDIAN) little (java.nio.ByteOrder.LITTLE_ENDIAN) system (default system byteorder, java.nio.ByteOrder.nativeOrder())

setByteOrder

public static void setByteOrder(javax.imageio.stream.MemoryCacheImageOutputStream dos,
                                java.lang.String byteorder)

This method sets the Bite-Order for a MemoryCacheImageOutputStream

Parameters:

dis - - MemoryCacheImageOutputStream

byteorder - - String representation of byteorder. Options are big (java.nio.ByteOrder.BIG_ENDIAN) little (java.nio.ByteOrder.LITTLE_ENDIAN) system (default system byteorder, java.nio.ByteOrder.nativeOrder())

getNextInputDataBuffer

public static double[] getNextInputDataBuffer(int data_type,
                                              int xLength,
                                              boolean flush)

This method READS IN a bufferSize chunk of all input volumes and returns it as a double[]

Parameters:

data_type - - type of the input data

xLength - - number of volumes/subjects in the second-column (file-names) in the Design-matrix

flush - - boolean variable indicating whether the buffer should be flushed as the stream keeps in memory all the data it has read from disk. This will free up memory, but too frequent calls (frequent flushing will slow down the process!)

putNextOutputDataBuffer

public static void putNextOutputDataBuffer(double[] constantIntercept_P_B_R_T,
                                           double[] pValue,
                                           double[] beta,
                                           double[] rPartCor,
                                           double[] tStat,
                                           int independentLength,
                                           boolean writeResultsOrDefaults,
                                           boolean flush)

This method WRITES OUT bufferSize chunks of all output volumes

Parameters:

constantIntercept_P_B_R_T - contains the pValue, Beta, R_PartCorr and TStat parameters of the intercept in the GLM

pValue - is a Probability value outputed by (MultiLinearRegressionResult) Result object

beta - is a beta/regression value outputted by (MultiLinearRegressionResult) Result object

rPartCor - is a partial-correlation outputted by (MultiLinearRegressionResult) Result object

tStat - is a T-statistics as outputed by (MultiLinearRegressionResult) Result object

independentLength - - integer value representing the number of Independent X Variables

writeResultsOrDefaults - - true==results; false=Default

flush - - Boolean variable indicating whether the buffer should be flushed as teh ...keeps in memory all the data it has read from disk. This will free up memory, but too frequent calls (flush==true) will slow down the process!

skipNextInputDataBuffer

public static void skipNextInputDataBuffer(int data_type,
                                           int xLength,
                                           boolean flush)

This method SKIPS in reading data from the bufferSize chunk of all input volumes

Parameters:

data_type - - type of the input data

xLength - - number of volumes/subjects in the second-column (file-names) in the Design-matrix

flush - - boolean variable indicating whether the buffer should be flushed as the stream keeps in memory all the data it has read from disk. This will free up memory, but too frequent calls (frequent flushing will slow down the process!)

swapShort

public static short swapShort(byte[] b,
                              int offset)

Returns the short resulting from swapping 2 bytes at a specified offset in a byte array.

Parameters:

b - the byte array

offset - the offset of the first byte

Returns:

the short represented by the bytes b[offset+1], b[offset]

swapInt

public static int swapInt(byte[] b,
                          int offset)

Returns the int resulting from reversing 4 bytes at a specified offset in a byte array.

Parameters:

b - the byte array

offset - the offset of the first byte

Returns:

the int represented by the bytes b[offset+3], b[offset+2], ..., b[offset]

swapLong

public static long swapLong(byte[] b,
                            int offset)

Returns the long resulting from reversing 8 bytes at a specified offset in a byte array.

Parameters:

b - the byte array

offset - the offset of the first byte

Returns:

the long represented by the bytes b[offset+7], b[offset+6], ..., b[offset]

swapFloat

public static float swapFloat(byte[] b,
                              int offset)

Returns the float resulting from reversing 4 bytes at a specified offset in a byte array.

Parameters:

b - the byte array

offset - the offset of the first byte

Returns:

the float represented by the bytes b[offset+3], b[offset+2], ..., b[offset]

swapDouble

public static double swapDouble(byte[] b,
                                int offset)

Returns the double resulting from reversing 8 bytes at a specified offset in a byte array.

Parameters:

b - the byte array

offset - the offset of the first byte

Returns:

the double represented by the bytes b[offset+7], b[offset+6], ..., b[offset]

swapChar

public static char swapChar(byte[] b,
                            int offset)

Returns the char resulting from swapping 2 bytes at a specified offset in a byte array.

Parameters:

b - the byte array

offset - the offset of the first byte

Returns:

the char represented by the bytes b[offset+1], b[offset]

swapShort

public static short swapShort(short s)

Returns the short resulting from swapping 2 bytes of a specified short.

Parameters:

s - input value for which byte reversal is desired

Returns:

the value represented by the bytes of s reversed

swapInt

public static int swapInt(int v)

Returns the int resulting from reversing 4 bytes of a specified int.

Parameters:

v - input value for which byte reversal is desired

Returns:

the value represented by the bytes of v reversed

swapLong

public static long swapLong(long l)

Returns the long resulting from reversing 8 bytes of a specified long.

Parameters:

l - input value for which byte reversal is desired

Returns:

the value represented by the bytes of l reversed

swapFloat

public static float swapFloat(float v)

Returns the float resulting from reversing 4 bytes of a specified float.

Parameters:

v - input value for which byte reversal is desired

Returns:

the value represented by the bytes of v reversed

byteArrayToInt

public static int byteArrayToInt(byte[] b,
                                 int offset)

Convert the byte array to an int starting from the given offset.

Parameters:

b - The byte array

offset - The array offset

Returns:

The integer

swapDouble

public static double swapDouble(double v)

Returns the double resulting from reversing 8 bytes of a specified double.

Parameters:

v - input value for which byte reversal is desired

Returns:

the value represented by the bytes of v reversed

shortToBytes

public static byte[] shortToBytes(short v)

Convert a short to an array of 2 bytes.

Parameters:

v - input value

Returns:

the corresponding array of bytes

intToBytes

public static byte[] intToBytes(int v)

Convert an int to an array of 4 bytes.

Parameters:

v - input value

Returns:

the corresponding array of bytes

longToBytes

public static byte[] longToBytes(long v)

Convert a long to an array of 8 bytes.

Parameters:

v - input value

Returns:

the corresponding array of bytes