compbio.runner._impl
Class NetNglyc

java.lang.Object
  compbio.runner._impl.NetNglyc

All Implemented Interfaces:

Executable<NetNglyc>

public class NetNglyc
extends Object
implements Executable<NetNglyc>

Nested Class Summary

Nested classes/interfaces inherited from interface compbio.engine.client.Executable

Executable.ExecProvider

Constructor Summary

NetNglyc()

Method Summary

NetNglyc	addParameters(List<String> parameters) Adds parameter to the list of parameters for a native executable
String	getClusterJobSettings()
String	getCommandName()
List<String>	getCreatedFiles()
String	getError()
String	getInput()
Limit<NetNglyc>	getLimit(String presetName)
LimitsManager<NetNglyc>	getLimits()
String	getOutput()
CommandBuilder<NetNglyc>	getParameters(Executable.ExecProvider provider)
<V> V	getResults(String directory)
static List<String>	getTestArgs()
static String	getTestCommand()
Executable<?>	loadRunConfiguration(RunConfiguration rconfig)

Methods inherited from class java.lang.Object

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

Constructor Detail

NetNglyc

public NetNglyc()

Method Detail

getParameters

public CommandBuilder<NetNglyc> getParameters(Executable.ExecProvider provider)

Specified by:

getParameters in interface Executable<NetNglyc>

getTestArgs

public static List<String> getTestArgs()

addParameters

public NetNglyc addParameters(List<String> parameters)

Description copied from interface: Executable

Adds parameter to the list of parameters for a native executable

Specified by:

addParameters in interface Executable<NetNglyc>

Returns:

this Executable

getTestCommand

public static String getTestCommand()

getCommandName

public String getCommandName()

getCreatedFiles

public List<String> getCreatedFiles()

Specified by:

getCreatedFiles in interface Executable<NetNglyc>

getInput

public String getInput()

Specified by:

getInput in interface Executable<NetNglyc>

getResults

public <V> V getResults(String directory)

Specified by:

getResults in interface Executable<NetNglyc>

loadRunConfiguration

public Executable<?> loadRunConfiguration(RunConfiguration rconfig)

Specified by:

loadRunConfiguration in interface Executable<NetNglyc>

getOutput

public String getOutput()

Specified by:

getOutput in interface Executable<NetNglyc>

getError

public String getError()

Specified by:

getError in interface Executable<NetNglyc>

getLimit

public Limit<NetNglyc> getLimit(String presetName)

Specified by:

getLimit in interface Executable<NetNglyc>

getLimits

public LimitsManager<NetNglyc> getLimits()

Specified by:

getLimits in interface Executable<NetNglyc>

getClusterJobSettings

public String getClusterJobSettings()

Specified by:

getClusterJobSettings in interface Executable<NetNglyc>