Package fr.ens.biologie.genomique.eoulsan.util.r

Class DockerRExecutor

java.lang.Object

fr.ens.biologie.genomique.eoulsan.util.r.AbstractRExecutor

fr.ens.biologie.genomique.eoulsan.util.r.ProcessRExecutor

fr.ens.biologie.genomique.eoulsan.util.r.DockerRExecutor

All Implemented Interfaces:

RExecutor

public class DockerRExecutor
extends ProcessRExecutor

This class define a Docker RExecutor.

Since:

2.0

Author:

Laurent Jourdren

Field Summary

Fields

Modifier and Type	Field	Description
static final String	REXECUTOR_NAME

Fields inherited from class fr.ens.biologie.genomique.eoulsan.util.r.ProcessRExecutor

RSCRIPT_EXECUTABLE

Constructor Summary

Constructors

Constructor	Description
DockerRExecutor(File outputDirectory, File temporaryDirectory, String dockerImage)	Constructor.

Method Summary

Modifier and Type	Method	Description
String	getDockerImage()	Get the Docker image used.
String	getName()	Get the name of the RExecutor.

Methods inherited from class fr.ens.biologie.genomique.eoulsan.util.r.ProcessRExecutor

closeConnection, executeR, writeFile

Methods inherited from class fr.ens.biologie.genomique.eoulsan.util.r.AbstractRExecutor

executeRScript, executeRScript, getOutputFiles, openConnection, putInputFile, putInputFile, removeInputFiles

Methods inherited from class java.lang.Object

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

Field Details

REXECUTOR_NAME

public static final String REXECUTOR_NAME

See Also:

• Constant Field Values

Constructor Details

DockerRExecutor

public DockerRExecutor(File outputDirectory,
 File temporaryDirectory,
 String dockerImage)
                throws IOException

Constructor.

Parameters:

outputDirectory - the output directory

temporaryDirectory - the temporary directory

dockerImage - docker image to use

Throws:

IOException - if an error occurs while creating the object

Method Details

getName

public String getName()

Description copied from interface: RExecutor

Get the name of the RExecutor.

Specified by:

getName in interface RExecutor

Overrides:

getName in class ProcessRExecutor

Returns:

the name of the RExecutor

getDockerImage

public String getDockerImage()

Get the Docker image used.

Returns:

the Docker image used