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

Class CheetahInterpreter

java.lang.Object

fr.ens.biologie.genomique.eoulsan.galaxytools.CheetahInterpreter

public class CheetahInterpreter
extends Object

This class create a Cheetah interpreter, it can build a command line tool from command tag from Galaxy tool XML file.

Since:

2.0

Author:

Sandrine Perrin

Field Summary

Fields

Modifier and Type	Field	Description
static final String	CALL_METHOD	The Constant CALL_METHOD.
static final String	PYTHON_VARIABLES_DICT_NAME	The Constant INSTANCE_NAME.
static final String	VAR_CMD_NAME	The Constant VAR_CMD_NAME.

Constructor Summary

Constructors

Constructor	Description
CheetahInterpreter(String cheetahScript, Map<String,String> variables)	Instantiates a new tool Cheetah script interpreter.

Method Summary

Modifier and Type	Method	Description
String	execute()	Execute script by Python interpreter and replace variable name by value.

Methods inherited from class java.lang.Object

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

Field Details

VAR_CMD_NAME

public static final String VAR_CMD_NAME

The Constant VAR_CMD_NAME.

See Also:

• Constant Field Values

PYTHON_VARIABLES_DICT_NAME

public static final String PYTHON_VARIABLES_DICT_NAME

The Constant INSTANCE_NAME.

See Also:

• Constant Field Values

CALL_METHOD

public static final String CALL_METHOD

The Constant CALL_METHOD.

See Also:

• Constant Field Values

Constructor Details

CheetahInterpreter

public CheetahInterpreter(String cheetahScript,
 Map<String,String> variables)
                   throws EoulsanException

Instantiates a new tool Cheetah script interpreter.

Parameters:

cheetahScript - the Cheetah script to execute

variables - the variables of the script

Throws:

EoulsanException - if the constructor fails

Method Details

execute

public String execute()
               throws EoulsanException

Execute script by Python interpreter and replace variable name by value.

Returns:

final command line

Throws:

EoulsanException - if an error throws by interpretation.