org.biojava.bio.structure.align.client
Class FarmJobParameters

java.lang.Object
  org.biojava.bio.structure.align.client.FarmJobParameters

public class FarmJobParameters
extends java.lang.Object

Field Summary

static int	DEFAULT_BATCH_SIZE
static boolean	DEFAULT_DIR_SPLIT
static int	DEFAULT_JOB_TIME
static int	DEFAULT_NR_ALIGNMENTS
static int	DEFAULT_NR_THREADS
static java.lang.String	DEFAULT_PDB_PATH
static java.lang.String	DEFAULT_SERVER_URL

Constructor Summary

FarmJobParameters()

Method Summary

int	getNrAlignments()
java.lang.String	getPdbFilePath()
java.lang.String	getServer()
int	getStepSize() how many pairs should be requested for alignment from server?
int	getThreads()
int	getTime()
java.lang.String	getUsername()
boolean	isPdbDirSplit()
boolean	isRunBackground() Flag if a job that only runs one parallell job should be run in its own thread or in the main thread.
boolean	isVerbose() Flag if the job should be run in verbose mode.
void	setNrAlignments(int nrAlignments)
void	setPdbDirSplit(boolean pdbDirSplit)
void	setPdbFilePath(java.lang.String pdbFilePath)
void	setRunBackground(boolean runBackground)
void	setServer(java.lang.String server)
void	setStepSize(int stepSize)
void	setThreads(int threads)
void	setTime(int time)
void	setUsername(java.lang.String username)
void	setVerbose(boolean verbose)
java.lang.String	toString()

Methods inherited from class java.lang.Object

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

Field Detail

DEFAULT_JOB_TIME

public static final int DEFAULT_JOB_TIME

See Also:

Constant Field Values

DEFAULT_NR_ALIGNMENTS

public static final int DEFAULT_NR_ALIGNMENTS

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Constant Field Values

DEFAULT_NR_THREADS

public static final int DEFAULT_NR_THREADS

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Constant Field Values

DEFAULT_SERVER_URL

public static final java.lang.String DEFAULT_SERVER_URL

DEFAULT_PDB_PATH

public static final java.lang.String DEFAULT_PDB_PATH

See Also:

Constant Field Values

DEFAULT_DIR_SPLIT

public static final boolean DEFAULT_DIR_SPLIT

See Also:

Constant Field Values

DEFAULT_BATCH_SIZE

public static final int DEFAULT_BATCH_SIZE

See Also:

Constant Field Values

Constructor Detail

FarmJobParameters

public FarmJobParameters()

Method Detail

getPdbFilePath

public java.lang.String getPdbFilePath()

setPdbFilePath

public void setPdbFilePath(java.lang.String pdbFilePath)

toString

public java.lang.String toString()

Overrides:

toString in class java.lang.Object

getNrAlignments

public int getNrAlignments()

setNrAlignments

public void setNrAlignments(int nrAlignments)

getTime

public int getTime()

setTime

public void setTime(int time)

getThreads

public int getThreads()

setThreads

public void setThreads(int threads)

getServer

public java.lang.String getServer()

setServer

public void setServer(java.lang.String server)

isPdbDirSplit

public boolean isPdbDirSplit()

setPdbDirSplit

public void setPdbDirSplit(boolean pdbDirSplit)

getUsername

public java.lang.String getUsername()

setUsername

public void setUsername(java.lang.String username)

isRunBackground

public boolean isRunBackground()

Flag if a job that only runs one parallell job should be run in its own thread or in the main thread. For User interface related apps should be set to true. Default: false;

Returns:

flag

setRunBackground

public void setRunBackground(boolean runBackground)

getStepSize

public int getStepSize()

how many pairs should be requested for alignment from server?

Returns:

stepsize

setStepSize

public void setStepSize(int stepSize)

isVerbose

public boolean isVerbose()

Flag if the job should be run in verbose mode. Default: false

Returns:

flag if the job should be run in verbose mode

setVerbose

public void setVerbose(boolean verbose)