Package fr.ens.biologie.genomique.eoulsan.galaxytools.executorinterpreters

Interface ExecutorInterpreter

All Known Implementing Classes:

AbstractExecutorInterpreter, DefaultExecutorInterpreter, DockerExecutorInterpreter, GenericExecutorInterpreter

public interface ExecutorInterpreter

This interface define a executor interpreter for Galaxy tools.

Since:

2.0

Author:

Laurent Jourdren

Method Summary

Modifier and Type	Method	Description
List<String>	createCommandLine(String arguments)	Create the command line for the the argument of the interpreter.
ToolExecutorResult	execute(List<String> commandLine, File executionDirectory, File temporaryDirectory, File stdoutFile, File stderrFile, File... filesUsed)	Execute a command line.
String	getName()	Get the name of the interpreter.

Method Details

getName

String getName()

Get the name of the interpreter.

Returns:

the name of the interpreter

createCommandLine

List<String> createCommandLine(String arguments)

Create the command line for the the argument of the interpreter.

Parameters:

arguments - the interpreter arguments

Returns:

the command line

execute

ToolExecutorResult execute(List<String> commandLine,
 File executionDirectory,
 File temporaryDirectory,
 File stdoutFile,
 File stderrFile,
 File... filesUsed)
                    throws IOException

Execute a command line.

Parameters:

commandLine - the command line to execute

executionDirectory - execution directory

temporaryDirectory - temporary directory

stdoutFile - stdout file

stderrFile - stderr file

filesUsed - files used

Returns:

a ToolExecutor object

Throws:

IOException - if an error occurs while executing the command