org.molgenis.omx.observ

Class ObservedValue

java.lang.Object

org.molgenis.util.AbstractEntity

org.molgenis.omx.observ.ObservedValue

All Implemented Interfaces:

Serializable, Autoid, Entity

@Entity
public class ObservedValue
extends AbstractEntity
implements Autoid

ObservedValue: Generic storage of values as part of one observation event. Values are atomatic observations, e.g., length (feature) of individual 1 (valueset.target) = 179cm (value). Values can also be qualified by some characteristic, e.g., QTL p-value (feature) between phenotype 'leaf count' (characteristic) and marker 'PVV4' (valueset.target) = 0.1^10+3 (value). .

Author:

MOLGENIS generator

See Also:

Serialized Form

Field Summary

Fields

Modifier and Type	Field and Description
static String	FEATURE
static String	FEATURE_IDENTIFIER
static String	ID
static String	OBSERVATIONSET
static String	OBSERVATIONSET_IDENTIFIER
static String	VALUE
static String	VALUE_ID

Constructor Summary

Constructors

Constructor and Description
ObservedValue()
ObservedValue(ObservedValue copyMe) copy constructor

Method Summary

Methods

Modifier and Type	Method and Description
ObservedValue	create(Entity entity)
boolean	equals(Object obj)
static List<? extends ObservedValue>	find(Database db, QueryRule... rules) Shorthand for db.find(ObservedValue.class, org.molgenis.framework.db.QueryRule ...
static ObservedValue	findById(Database db, Integer id)
Object	get(String name) Generic getter.
Integer	getFeature_Id()
String	getFeature_Identifier() Get a pretty label Identifier for cross reference Feature to ObservableFeature.Id.
ObservableFeature	getFeature() Get the References the ObservableFeature that this observation was made on.
ObservableFeature	getFeature(Database db) Deprecated.
Vector<String>	getFields()
Vector<String>	getFields(boolean skipAutoIds) Get the names of all public properties of ObservedValue.
String	getFields(String sep) Deprecated.
Integer	getId() Get the automatically generated internal id, only for internal use..
String	getIdField()
Object	getIdValue()
List<String>	getLabelFields()
Integer	getObservationSet_Id()
String	getObservationSet_Identifier() Get a pretty label Identifier for cross reference ObservationSet to ObservationSet.Id.
ObservationSet	getObservationSet() Get the Reference to the observation.
ObservationSet	getObservationSet(Database db) Deprecated.
Integer	getValue_Id()
Value	getValue() Get the The value observed.
Value	getValue(Database db) Deprecated.
String	getValues(String sep) Deprecated.
String	getXrefIdFieldName(String fieldName)
int	hashCode()
static Query<? extends ObservedValue>	query(Database db) Shorthand for db.query(ObservedValue.class).
void	set(Entity entity, boolean strict)
void	setFeature_Id(Integer feature_id) Set foreign key for field feature.
void	setFeature_Identifier(String feature_Identifier) Set a pretty label for cross reference Feature to ObservableFeature.Id.
void	setFeature(Integer feature_id)
void	setFeature(ObservableFeature feature) Set the References the ObservableFeature that this observation was made on.
void	setId(Integer id) Set the automatically generated internal id, only for internal use..
void	setObservationSet_Id(Integer observationSet_id) Set foreign key for field observationSet.
void	setObservationSet_Identifier(String observationSet_Identifier) Set a pretty label for cross reference ObservationSet to ObservationSet.Id.
void	setObservationSet(Integer observationSet_id)
void	setObservationSet(ObservationSet observationSet) Set the Reference to the observation.
void	setValue_Id(Integer value_id) Set foreign key for field value.
void	setValue(Integer value_id)
void	setValue(Value value) Set the The value observed.
String	toString()
String	toString(boolean verbose)
void	validate()

Methods inherited from class org.molgenis.util.AbstractEntity

get__Type, get__TypeLabel, get__TypeOptions, getLabelValue, getValues, isObjectRepresentation, isReadonly, set__Type, set, set, setReadonly, setValuesFromString, string2date

Methods inherited from class java.lang.Object

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

Methods inherited from interface org.molgenis.util.Entity

getLabelValue, getValues, isReadonly, set, set, setReadonly

Field Detail

ID

public static final String ID

See Also:

Constant Field Values

OBSERVATIONSET

public static final String OBSERVATIONSET

See Also:

Constant Field Values

OBSERVATIONSET_IDENTIFIER

public static final String OBSERVATIONSET_IDENTIFIER

See Also:

Constant Field Values

FEATURE

public static final String FEATURE

See Also:

Constant Field Values

FEATURE_IDENTIFIER

public static final String FEATURE_IDENTIFIER

See Also:

Constant Field Values

VALUE

public static final String VALUE

See Also:

Constant Field Values

VALUE_ID

public static final String VALUE_ID

See Also:

Constant Field Values

Constructor Detail

ObservedValue

public ObservedValue()

ObservedValue

public ObservedValue(ObservedValue copyMe)
              throws Exception

copy constructor

Throws:

Exception

Method Detail

query

public static Query<? extends ObservedValue> query(Database db)

Shorthand for db.query(ObservedValue.class).

find

public static List<? extends ObservedValue> find(Database db,
                                 QueryRule... rules)
                                          throws DatabaseException

Shorthand for db.find(ObservedValue.class, org.molgenis.framework.db.QueryRule ... rules).

Throws:

DatabaseException

findById

public static ObservedValue findById(Database db,
                     Integer id)
                              throws DatabaseException

Throws:

DatabaseException

getId

public Integer getId()

Get the automatically generated internal id, only for internal use..

Specified by:

getId in interface Autoid

Returns:

id.

setId

public void setId(Integer id)

Set the automatically generated internal id, only for internal use..

Specified by:

setId in interface Autoid

Parameters:

id -

getObservationSet

public ObservationSet getObservationSet()

Get the Reference to the observation. For example a particular patient visit or the application of a microarray or the calculation of a QTL model.

Returns:

observationSet.

getObservationSet

@Deprecated
public ObservationSet getObservationSet(Database db)

Deprecated.

setObservationSet

public void setObservationSet(ObservationSet observationSet)

Set the Reference to the observation. For example a particular patient visit or the application of a microarray or the calculation of a QTL model.

Parameters:

observationSet -

setObservationSet_Id

public void setObservationSet_Id(Integer observationSet_id)

Set foreign key for field observationSet. This will erase any foreign key objects currently set. FIXME: can we autoload the new object?

setObservationSet

public void setObservationSet(Integer observationSet_id)

getObservationSet_Id

public Integer getObservationSet_Id()

getObservationSet_Identifier

public String getObservationSet_Identifier()

Get a pretty label Identifier for cross reference ObservationSet to ObservationSet.Id.

setObservationSet_Identifier

public void setObservationSet_Identifier(String observationSet_Identifier)

Set a pretty label for cross reference ObservationSet to ObservationSet.Id. Implies setObservationSet(null) until save

getFeature

public ObservableFeature getFeature()

Get the References the ObservableFeature that this observation was made on. For example 'probe123'..

Returns:

feature.

getFeature

@Deprecated
public ObservableFeature getFeature(Database db)

Deprecated.

setFeature

public void setFeature(ObservableFeature feature)

Set the References the ObservableFeature that this observation was made on. For example 'probe123'..

Parameters:

feature -

setFeature_Id

public void setFeature_Id(Integer feature_id)

Set foreign key for field feature. This will erase any foreign key objects currently set. FIXME: can we autoload the new object?

setFeature

public void setFeature(Integer feature_id)

getFeature_Id

public Integer getFeature_Id()

getFeature_Identifier

public String getFeature_Identifier()

Get a pretty label Identifier for cross reference Feature to ObservableFeature.Id.

setFeature_Identifier

public void setFeature_Identifier(String feature_Identifier)

Set a pretty label for cross reference Feature to ObservableFeature.Id. Implies setFeature(null) until save

getValue

public Value getValue()

Get the The value observed.

Returns:

value.

getValue

@Deprecated
public Value getValue(Database db)

Deprecated.

setValue

public void setValue(Value value)

Set the The value observed.

Parameters:

value -

setValue_Id

public void setValue_Id(Integer value_id)

Set foreign key for field value. This will erase any foreign key objects currently set. FIXME: can we autoload the new object?

setValue

public void setValue(Integer value_id)

getValue_Id

public Integer getValue_Id()

get

public Object get(String name)

Generic getter. Get the property by using the name.

Specified by:

get in interface Entity

validate

public void validate()
              throws DatabaseException

Specified by:

validate in interface Entity

Throws:

DatabaseException

set

public void set(Entity entity,
       boolean strict)
         throws Exception

Specified by:

set in interface Entity

Throws:

Exception

toString

public String toString()

Overrides:

toString in class Object

toString

public String toString(boolean verbose)

getFields

public Vector<String> getFields(boolean skipAutoIds)

Get the names of all public properties of ObservedValue.

Specified by:

getFields in interface Entity

getFields

public Vector<String> getFields()

Specified by:

getFields in interface Entity

getIdField

public String getIdField()

Specified by:

getIdField in interface Entity

getLabelFields

public List<String> getLabelFields()

Specified by:

getLabelFields in interface Entity

getFields

@Deprecated
public String getFields(String sep)

Deprecated.

Specified by:

getFields in interface Entity

getIdValue

public Object getIdValue()

Specified by:

getIdValue in interface Entity

getXrefIdFieldName

public String getXrefIdFieldName(String fieldName)

Specified by:

getXrefIdFieldName in interface Entity

getValues

@Deprecated
public String getValues(String sep)

Deprecated.

Specified by:

getValues in interface Entity

Overrides:

getValues in class AbstractEntity

create

public ObservedValue create(Entity entity)
                     throws Exception

Specified by:

create in interface Entity

Throws:

Exception

equals

public boolean equals(Object obj)

Overrides:

equals in class Object

hashCode

public int hashCode()

Overrides:

hashCode in class Object