de.jstacs.parameters

Class MultiSelectionParameter

java.lang.Object

de.jstacs.AnnotatedEntity

de.jstacs.parameters.Parameter

de.jstacs.parameters.AbstractSelectionParameter

de.jstacs.parameters.MultiSelectionParameter

All Implemented Interfaces:

GalaxyConvertible, Rangeable, RangeIterator, Storable, Cloneable

public class MultiSelectionParameter
extends AbstractSelectionParameter
implements RangeIterator

Class for a Parameter that provides a collection of possible values. The user can select one or more values out of the collection as values of this Parameter.

Author:

Jan Grau, Jens Keilwagen

See Also:

AbstractSelectionParameter

Nested Class Summary

Nested classes/interfaces inherited from class de.jstacs.parameters.AbstractSelectionParameter

AbstractSelectionParameter.InconsistentCollectionException

Field Summary

Fields inherited from class de.jstacs.parameters.AbstractSelectionParameter

errorMessage, parameters, userSelected

Fields inherited from class de.jstacs.parameters.Parameter

parent

Fields inherited from class de.jstacs.AnnotatedEntity

comment, datatype, name

Constructor Summary

Constructors

Constructor and Description
MultiSelectionParameter(DataType datatype, String[] keys, Object[] values, String[] comments, String name, String comment, boolean required) Constructor for a MultiSelectionParameter.
MultiSelectionParameter(DataType datatype, String[] keys, Object[] values, String name, String comment, boolean required) Constructor for a MultiSelectionParameter.
MultiSelectionParameter(StringBuffer representation) The standard constructor for the interface Storable.
MultiSelectionParameter(String name, String comment, boolean required, Class<? extends ParameterSet>... values) Creates a new MultiSelectionParameter from an array of Classes of ParameterSets.
MultiSelectionParameter(String name, String comment, boolean required, ParameterSet... values) Creates a new MultiSelectionParameter from an array of ParameterSets.

Method Summary

Methods

Modifier and Type	Method and Description
protected void	appendFurtherInfos(StringBuffer sup) This method can be used in the method Storable.toXML() to extract further information (name, comment, datatype).
boolean	checkValue(Object value) Returns true if the key specified by value is in the set of keys of this AbstractSelectionParameter.
MultiSelectionParameter	clone()
protected void	extractFurtherInfos(StringBuffer representation) This method can be used in the constructor with parameter StringBuffer to extract the further information.
void	fromGalaxy(String namePrefix, StringBuffer command) Parses the contents of command in the format defined by configBuffer of GalaxyConvertible.toGalaxy(String, String, int, StringBuffer, StringBuffer, boolean) and sets the values of the Parameter or ParameterSet accordingly.
int	getNumberOfNexts(int afterIdx) Returns the number of calls of next() that can be called before false is returned.
int	getNumberOfValues() Returns the number of values in the collection.
int[]	getSelected() Returns the indexes of the selected options.
Object	getValue() Returns the value of the AnnotatedEntity.
Object	getValueFor(int idx) Returns the value of the option with no.
Object	getValueFor(String key) Returns the value for the option with key key.
Object[]	getValues() Returns the values of all selected options as an array.
String	getXMLTag() This method returns a tag used as outer tag of the XML description.
boolean	hasDefault() Returns true, if this AbstractSelectionParameter has a default value.
boolean	hasDefaultOrIsSet() Returns true if the parameter either has a default value or the value was set by the user, false otherwise.
boolean	isRanged() Returns true if this RangeIterator is ranging over a set of values.
boolean	isSelected(int idx) Returns true if the option at position idx is selected.
boolean	isSelected(String key) Returns the selection value of the option with key key.
boolean	next() Switches to the next value in the collection of values in the specified range.
void	reset() Resets the parameter and its contents to the default values or null if no defaults are given.
void	resetToFirst() Resets the current value in the collection to the first value.
void	setDefault(Object defaultValue) Sets the default value of this AbstractSelectionParameter to defaultValue.
void	setDefaultSelected(int[] defaultSelection) Sets the default selection of this MultiSelectionParameter to defaultSelection.
boolean	setSelected(int idx, boolean selected) Sets the selection of option with no.
boolean	setSelected(String key, boolean selected) Sets the selection of the option with key key to the value of selected.
void	setValue(Object value) Sets the value of this Parameter to value.
String	valuesToString() Returns a String representation of the set of values.

Methods inherited from class de.jstacs.parameters.AbstractSelectionParameter

check, createParameterSet, equals, getErrorMessage, getParametersInCollection, getRangedInstance, isAtomic, isComparable, isRangeable, isRequired, isSet, isUserSelected, setRangeable, toGalaxy

Methods inherited from class de.jstacs.parameters.Parameter

getParent, setParent

Methods inherited from class de.jstacs.AnnotatedEntity

getComment, getDatatype, getName, toXML

Methods inherited from class java.lang.Object

finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

MultiSelectionParameter

public MultiSelectionParameter(DataType datatype,
                       String[] keys,
                       Object[] values,
                       String name,
                       String comment,
                       boolean required)
                        throws AbstractSelectionParameter.InconsistentCollectionException,
                               SimpleParameter.IllegalValueException,
                               SimpleParameter.DatatypeNotValidException

Constructor for a MultiSelectionParameter. The first option in the selection is selected by default.

Parameters:

datatype - the data type of the parameters in the collection

keys - the keys/names of the values in the collection, this is the name the user will see in the user interface

values - the values the names stand for, this array must be of the same length as keys, a key at a certain position belongs to the value at the same position in the array

name - the name of the parameter

comment - a comment on the parameter

required - true if the parameter is required, false otherwise

Throws:

InconsistentCollectionException - if the lengths of keys and values are different or the collection is inconsistent for some other reason

SimpleParameter.IllegalValueException - if one of the values in values is not of type datatype

SimpleParameter.DatatypeNotValidException - if the datatype is not one of the allowed values

AbstractSelectionParameter.InconsistentCollectionException

MultiSelectionParameter

public MultiSelectionParameter(DataType datatype,
                       String[] keys,
                       Object[] values,
                       String[] comments,
                       String name,
                       String comment,
                       boolean required)
                        throws AbstractSelectionParameter.InconsistentCollectionException,
                               SimpleParameter.IllegalValueException,
                               SimpleParameter.DatatypeNotValidException

Constructor for a MultiSelectionParameter. The first option in the selection is selected by default.

Parameters:

datatype - the data type of the parameters in the collection

keys - the keys/names of the values in the collection, this is the name the user will see in the user interface

values - the values the names stand for, this array must be of the same length as keys, a key at a certain position belongs to the value at the same position in the array

comments - the comments on the values in the collection

name - the name of the parameter

comment - a comment on the parameter

required - true if the parameter is required, false otherwise

Throws:

InconsistentCollectionException - if the lengths of keys and values are different or the collection is inconsistent for some other reason

SimpleParameter.IllegalValueException - if one of the values in values is not of type datatype

SimpleParameter.DatatypeNotValidException - if the datatype is not one of the allowed values

AbstractSelectionParameter.InconsistentCollectionException

MultiSelectionParameter

public MultiSelectionParameter(String name,
                       String comment,
                       boolean required,
                       ParameterSet... values)

Creates a new MultiSelectionParameter from an array of ParameterSets. The first option in the selection is selected by default.

Parameters:

values - the options/values in the collection

name - the name of this MultiSelectionParameter

comment - the comment on this MultiSelectionParameter

required - true if this MultiSelectionParameter is required, false otherwise

MultiSelectionParameter

public MultiSelectionParameter(String name,
                       String comment,
                       boolean required,
                       Class<? extends ParameterSet>... values)

Creates a new MultiSelectionParameter from an array of Classes of ParameterSets. The first option in the selection is selected by default. It is the lazy evaluation variant of MultiSelectionParameter(String, String, boolean, ParameterSet...), i.e., the ParameterSets are only created if necessary.

Parameters:

values - the array of Classes of ParameterSets

name - the name of this MultiSelectionParameter

comment - the comment on this MultiSelectionParameter

required - true if this MultiSelectionParameter is required, false otherwise

MultiSelectionParameter

public MultiSelectionParameter(StringBuffer representation)
                        throws NonParsableException

The standard constructor for the interface Storable. Creates a new MultiSelectionParameter from its XML representation

Parameters:

representation - the XML representation as StringBuffer

Throws:

NonParsableException - if the StringBuffer representation could not be parsed

Method Detail

clone

public MultiSelectionParameter clone()
                              throws CloneNotSupportedException

Overrides:

clone in class AbstractSelectionParameter

Throws:

CloneNotSupportedException

setSelected

public boolean setSelected(String key,
                  boolean selected)

Sets the selection of the option with key key to the value of selected.

Parameters:

key - the key of the option

selected - the selection value

Returns:

true if the key could be found and set, false otherwise

isSelected

public boolean isSelected(String key)

Returns the selection value of the option with key key.

Parameters:

key - the key of the option

Returns:

the selection value or false if no such option exists

getValueFor

public Object getValueFor(String key)

Returns the value for the option with key key.

Parameters:

key - the key of the option

Returns:

the value or null if the corresponding option either does not exist or is not selected

checkValue

public boolean checkValue(Object value)

Description copied from class: AbstractSelectionParameter

Returns true if the key specified by value is in the set of keys of this AbstractSelectionParameter.

Overrides:

checkValue in class AbstractSelectionParameter

Parameters:

value - the value to be checked

Returns:

true if the key specified by value is in the set of keys of this AbstractSelectionParameter, false otherwise

setValue

public void setValue(Object value)
              throws SimpleParameter.IllegalValueException

Description copied from class: Parameter

Sets the value of this Parameter to value.

Specified by:

setValue in class Parameter

Parameters:

value - the new value of the Parameter

Throws:

SimpleParameter.IllegalValueException - if the specified value is not valid for this Parameter

getSelected

public int[] getSelected()

Returns the indexes of the selected options.

Returns:

the indexes of the selected options.

setSelected

public boolean setSelected(int idx,
                  boolean selected)

Sets the selection of option with no. idx to selected.

Parameters:

idx - the index of the option

selected - the selection value

Returns:

true if the option exists and could be set, false otherwise

isSelected

public boolean isSelected(int idx)

Description copied from class: AbstractSelectionParameter

Returns true if the option at position idx is selected.

Specified by:

isSelected in class AbstractSelectionParameter

Parameters:

idx - the position

Returns:

true if the option at position idx is selected, false otherwise

getValueFor

public Object getValueFor(int idx)

Returns the value of the option with no. idx.

Parameters:

idx - the index of the option

Returns:

the value or null if the corresponding option either does not exists or is not selected

getValues

public Object[] getValues()

Returns the values of all selected options as an array.

Returns:

the values of all selected options

getValue

public Object getValue()

Description copied from class: AnnotatedEntity

Returns the value of the AnnotatedEntity.

Specified by:

getValue in class AnnotatedEntity

Returns:

the value of the AnnotatedEntity

hasDefaultOrIsSet

public boolean hasDefaultOrIsSet()

Description copied from class: Parameter

Returns true if the parameter either has a default value or the value was set by the user, false otherwise.

Specified by:

hasDefaultOrIsSet in class Parameter

Returns:

true if value has a default value or was set, false otherwise

reset

public void reset()

Description copied from class: Parameter

Resets the parameter and its contents to the default values or null if no defaults are given.

Specified by:

reset in class Parameter

setDefault

public void setDefault(Object defaultValue)
                throws SimpleParameter.IllegalValueException

Description copied from class: AbstractSelectionParameter

Sets the default value of this AbstractSelectionParameter to defaultValue. This method also sets the current value of this AbstractSelectionParameter to the default and resets it such that AbstractSelectionParameter.isUserSelected() returns false.

Specified by:

setDefault in class AbstractSelectionParameter

Parameters:

defaultValue - the default value

Throws:

SimpleParameter.IllegalValueException

setDefaultSelected

public void setDefaultSelected(int[] defaultSelection)

Sets the default selection of this MultiSelectionParameter to defaultSelection. This method also sets the current selection of this MultiSelectionParameter to the default and resets it such that AbstractSelectionParameter.isUserSelected() returns false.

Parameters:

defaultSelection - the new default selection

getXMLTag

public String getXMLTag()

Description copied from class: AnnotatedEntity

This method returns a tag used as outer tag of the XML description.

Specified by:

getXMLTag in class AnnotatedEntity

Returns:

a tag used as outer tag of the XML description

appendFurtherInfos

protected void appendFurtherInfos(StringBuffer sup)

Description copied from class: AnnotatedEntity

This method can be used in the method Storable.toXML() to extract further information (name, comment, datatype).

Overrides:

appendFurtherInfos in class AbstractSelectionParameter

Parameters:

sup - a XML representation of the main information as StringBuffer

See Also:

Storable.toXML()

extractFurtherInfos

protected void extractFurtherInfos(StringBuffer representation)
                            throws NonParsableException

Description copied from class: AnnotatedEntity

This method can be used in the constructor with parameter StringBuffer to extract the further information.

Overrides:

extractFurtherInfos in class AbstractSelectionParameter

Parameters:

representation - a XML represenation of the main information as StringBuffer

Throws:

NonParsableException - if the XML representation is not parsable

See Also:

AnnotatedEntity.AnnotatedEntity(StringBuffer)

next

public boolean next()
             throws ParameterException

Description copied from interface: RangeIterator

Switches to the next value in the collection of values in the specified range.

Specified by:

next in interface RangeIterator

Returns:

true if the next element exists, false otherwise

Throws:

ParameterException - if the next value could not be fetched

resetToFirst

public void resetToFirst()

Description copied from interface: RangeIterator

Resets the current value in the collection to the first value.

Specified by:

resetToFirst in interface RangeIterator

getNumberOfValues

public int getNumberOfValues()

Description copied from interface: RangeIterator

Returns the number of values in the collection.

Specified by:

getNumberOfValues in interface RangeIterator

Returns:

the number of values

getNumberOfNexts

public int getNumberOfNexts(int afterIdx)

Returns the number of calls of next() that can be called before false is returned.

Parameters:

afterIdx - the index after which shall be counted

Returns:

the number of calls of next()

valuesToString

public String valuesToString()

Description copied from interface: RangeIterator

Returns a String representation of the set of values.

Specified by:

valuesToString in interface RangeIterator

Returns:

the String representation

isRanged

public boolean isRanged()

Description copied from interface: RangeIterator

Returns true if this RangeIterator is ranging over a set of values.

Specified by:

isRanged in interface RangeIterator

Returns:

true if this RangeIterator is ranging over a set of values, false otherwise

hasDefault

public boolean hasDefault()

Description copied from class: AbstractSelectionParameter

Returns true, if this AbstractSelectionParameter has a default value.

Specified by:

hasDefault in class AbstractSelectionParameter

Returns:

if this AbstractSelectionParameter has a default value

See Also:

AbstractSelectionParameter.setDefault(Object)

fromGalaxy

public void fromGalaxy(String namePrefix,
              StringBuffer command)
                throws Exception

Description copied from interface: GalaxyConvertible

Parses the contents of command in the format defined by configBuffer of GalaxyConvertible.toGalaxy(String, String, int, StringBuffer, StringBuffer, boolean) and sets the values of the Parameter or ParameterSet accordingly.

Specified by:

fromGalaxy in interface GalaxyConvertible

Parameters:

namePrefix - the prefix of the variable name

command - the command string

Throws:

Exception - if the command string could not be parsed