compbio.engine.client
Interface Executable<T>

Type Parameters:

T -

All Known Subinterfaces:

ConfiguredExecutable<T>, PipedExecutable<T>

All Known Implementing Classes:

_SkeletalCommandBuilder, AACon, BlastAll, ClustalO, ClustalW, ConfExecutable, Disembl, GlobPlot, IUPred, Jronn, Mafft, Mcl, Muscle, NetNglyc, OB, Probcons, PSIBlast, Ronn, RPSBlast, SkeletalExecutable, Tcoffee

public interface Executable<T>

Interface to a native executable.

Author:

pvtroshin

Nested Class Summary

static class

Executable.ExecProvider

Method Summary

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

Method Detail

addParameters

Executable<T> addParameters(List<String> parameters)

Adds parameter to the list of parameters for a native executable

Parameters:

parameters -

Returns:

this Executable

getCreatedFiles

@Deprecated
List<String> getCreatedFiles()

Deprecated.

getInput

String getInput()

getOutput

String getOutput()

getError

String getError()

getParameters

CommandBuilder<T> getParameters(Executable.ExecProvider provider)

getResults

<V> V getResults(String directory)
             throws ResultNotAvailableException

Throws:

ResultNotAvailableException

loadRunConfiguration

Executable<?> loadRunConfiguration(RunConfiguration rconfig)

getLimit

Limit<T> getLimit(String presetName)

getLimits

LimitsManager<T> getLimits()

getClusterJobSettings

String getClusterJobSettings()