net.sf.basedb.util.export.spotdata
Class JepDynamicField

java.lang.Object
  net.sf.basedb.util.export.spotdata.JepDynamicField

All Implemented Interfaces:

DynamicField, ExportableField

public class JepDynamicField
extends Object
implements DynamicField

A dynamic field implementation that uses a JEP expression to generate the expression that is needed to select the data. One instance of this class is considered to be equal to another if they are configured with the same jep expression and title.

Version:

2.12

Author:

Nicklas

Last modified

$Date: 2010-08-13 12:48:17 +0200 (Fri, 13 Aug 2010) $

Field Summary

private Formula.AverageMethod	averageMethod
private Formatter<?>	formatter
private String	jep
private String	title
private Type	type

Constructor Summary

JepDynamicField()
Create a new object.

Method Summary

boolean	equals(Object obj) A jep dynamic field is equal to another field if it uses the same jep expression and has the same title.
Formula.AverageMethod	getAverageMethod() Get the average method to use if the exporter is exporting averaged data.
Expression	getExpression(DbControl dc, DynamicQuery query, BioAssaySet source, boolean forAverage) Converts the configured JEP expression using the BioAssaySetUtil.createJepExpression(DbControl, String, DynamicQuery) method.
Formatter<?>	getFormatter() Get a formatter that converts the values in this field to strings.
String	getJep() Get the configured JEP expression.
String	getTitle() Get the column header.
Type	getType() Get the data type of the field.
int	hashCode()
void	setAverageMethod(Formula.AverageMethod averageMethod) Set the average method to use when exporting averaged data.
void	setFormatter(Formatter<?> formatter) Set a formatter to use for formatting the exported values.
void	setJep(String jep) Set the expression used to select data in the query.
void	setTitle(String title) Set the column header title.
void	setType(Type type) Set the data type of the exported field.
String	toString()

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Field Detail

jep

private String jep

title

private String title

averageMethod

private Formula.AverageMethod averageMethod

formatter

private Formatter<?> formatter

type

private Type type

Constructor Detail

JepDynamicField

public JepDynamicField()

Create a new object. Before it can be used it must be configured.

Method Detail

getExpression

public Expression getExpression(DbControl dc,
                                DynamicQuery query,
                                BioAssaySet source,
                                boolean forAverage)

Converts the configured JEP expression using the BioAssaySetUtil.createJepExpression(DbControl, String, DynamicQuery) method. If 'forAverage' is TRUE the confgured Formula.AverageMethod is allowed to transform the expression. If no average method has been configured the average method specified by the IntensityTransform from the 'source' bioassay set is used.

Specified by:

getExpression in interface DynamicField

Parameters:

dc - The DbControl that is used for database access

query - The query the expression will be used with

source - The source bioassay set

forAverage - TRUE if the expression should generate an average of multiple values

Returns:

An expression, or null if it is not possible to create an expression in the given case (this will normally be replaced with an empty column in the output)

getTitle

public String getTitle()

Description copied from interface: ExportableField

Get the column header.

Specified by:

getTitle in interface ExportableField

getType

public Type getType()

Description copied from interface: ExportableField

Get the data type of the field.

Specified by:

getType in interface ExportableField

Returns:

A type object or null if not known

getFormatter

public Formatter<?> getFormatter()

Description copied from interface: ExportableField

Get a formatter that converts the values in this field to strings.

Specified by:

getFormatter in interface ExportableField

Returns:

A formatter or null to use default formatting (normally this means calling the toString() method).

equals

public boolean equals(Object obj)

A jep dynamic field is equal to another field if it uses the same jep expression and has the same title.

Overrides:

equals in class Object

Since:

2.15

hashCode

public int hashCode()

Overrides:

hashCode in class Object

Since:

2.15

toString

public String toString()

Overrides:

toString in class Object

Since:

2.15

getJep

public String getJep()

Get the configured JEP expression.

setJep

public void setJep(String jep)

Set the expression used to select data in the query. The expression is parsed and converted to an Expressions with the BioAssaySetUtil.createJepExpression(DbControl, String, DynamicQuery) method.

setTitle

public void setTitle(String title)

Set the column header title.

setType

public void setType(Type type)

Set the data type of the exported field.

Since:

2.15

getAverageMethod

public Formula.AverageMethod getAverageMethod()

Get the average method to use if the exporter is exporting averaged data. If no average method has been configured, the everage method specified by the IntensityTransform of the source bioassay set is used.

setAverageMethod

public void setAverageMethod(Formula.AverageMethod averageMethod)

Set the average method to use when exporting averaged data.

setFormatter

public void setFormatter(Formatter<?> formatter)

Set a formatter to use for formatting the exported values.