org.molgenis.omx.xgap

Class Sample

java.lang.Object

org.molgenis.util.AbstractEntity

org.molgenis.omx.observ.Characteristic

org.molgenis.omx.observ.ObservationTarget

org.molgenis.omx.xgap.Sample

All Implemented Interfaces:

Serializable, Autoid, Identifiable, Entity

@Entity
public class Sample
extends ObservationTarget

Sample: .

Author:

MOLGENIS generator

See Also:

Serialized Form

Field Summary

Fields

Modifier and Type	Field and Description
static String	ID
static String	INDIVIDUAL
static String	INDIVIDUAL_IDENTIFIER
static String	TISSUE
static String	TISSUE_IDENTIFIER

Fields inherited from class org.molgenis.omx.observ.Characteristic

__TYPE, DESCRIPTION, IDENTIFIER, NAME

Constructor Summary

Constructors

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

Method Summary

Methods

Modifier and Type	Method and Description
Sample	create(Entity entity)
boolean	equals(Object obj)
static List<? extends Sample>	find(Database db, QueryRule... rules) Shorthand for db.find(Sample.class, org.molgenis.framework.db.QueryRule ...
static Sample	findById(Database db, Integer id)
static Sample	findByIdentifier(Database db, String identifier)
Object	get(String name) Generic getter.
Vector<String>	getFields()
Vector<String>	getFields(boolean skipAutoIds) Get the names of all public properties of Sample.
String	getFields(String sep) Deprecated.
String	getIdField()
Object	getIdValue()
Integer	getIndividual_Id()
String	getIndividual_Identifier() Get a pretty label Identifier for cross reference Individual to Individual.Id.
Individual	getIndividual() Get the The individual from which this sample was taken..
Individual	getIndividual(Database db) Deprecated.
List<String>	getLabelFields()
Integer	getTissue_Id()
String	getTissue_Identifier() Get a pretty label Identifier for cross reference Tissue to OntologyTerm.Id.
OntologyTerm	getTissue() Get the The tissue from which this sample was taken..
OntologyTerm	getTissue(Database db) Deprecated.
String	getValues(String sep) Deprecated.
String	getXrefIdFieldName(String fieldName)
int	hashCode()
static Query<? extends Sample>	query(Database db) Shorthand for db.query(Sample.class).
void	set(Entity entity, boolean strict)
void	setIndividual_Id(Integer individual_id) Set foreign key for field individual.
void	setIndividual_Identifier(String individual_Identifier) Set a pretty label for cross reference Individual to Individual.Id.
void	setIndividual(Individual individual) Set the The individual from which this sample was taken..
void	setIndividual(Integer individual_id)
void	setTissue_Id(Integer tissue_id) Set foreign key for field tissue.
void	setTissue_Identifier(String tissue_Identifier) Set a pretty label for cross reference Tissue to OntologyTerm.Id.
void	setTissue(Integer tissue_id)
void	setTissue(OntologyTerm tissue) Set the The tissue from which this sample was taken..
String	toString()
String	toString(boolean verbose)
void	validate()

Methods inherited from class org.molgenis.omx.observ.Characteristic

get__Type, get__Type, get__TypeLabel, get__TypeOptions, getDescription, getDescription, getId, getIdentifier, getIdentifier, getName, getName, getValueMrefValueCollection, getValueMrefValueCollection, set__Type, setDescription, setId, setIdentifier, setName, setValueMrefValueCollection

Methods inherited from class org.molgenis.util.AbstractEntity

getLabelValue, getValues, isObjectRepresentation, isReadonly, 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

INDIVIDUAL

public static final String INDIVIDUAL

See Also:

Constant Field Values

INDIVIDUAL_IDENTIFIER

public static final String INDIVIDUAL_IDENTIFIER

See Also:

Constant Field Values

TISSUE

public static final String TISSUE

See Also:

Constant Field Values

TISSUE_IDENTIFIER

public static final String TISSUE_IDENTIFIER

See Also:

Constant Field Values

ID

public static final String ID

See Also:

Constant Field Values

Constructor Detail

Sample

public Sample()

Sample

public Sample(Sample copyMe)
       throws Exception

copy constructor

Throws:

Exception

Method Detail

query

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

Shorthand for db.query(Sample.class).

find

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

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

Throws:

DatabaseException

findById

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

Throws:

DatabaseException

findByIdentifier

public static Sample findByIdentifier(Database db,
                      String identifier)
                               throws DatabaseException

Throws:

DatabaseException

getIndividual

public Individual getIndividual()

Get the The individual from which this sample was taken..

Returns:

individual.

getIndividual

@Deprecated
public Individual getIndividual(Database db)

Deprecated.

setIndividual

public void setIndividual(Individual individual)

Set the The individual from which this sample was taken..

Parameters:

individual -

setIndividual_Id

public void setIndividual_Id(Integer individual_id)

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

setIndividual

public void setIndividual(Integer individual_id)

getIndividual_Id

public Integer getIndividual_Id()

getIndividual_Identifier

public String getIndividual_Identifier()

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

setIndividual_Identifier

public void setIndividual_Identifier(String individual_Identifier)

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

getTissue

public OntologyTerm getTissue()

Get the The tissue from which this sample was taken..

Returns:

tissue.

getTissue

@Deprecated
public OntologyTerm getTissue(Database db)

Deprecated.

setTissue

public void setTissue(OntologyTerm tissue)

Set the The tissue from which this sample was taken..

Parameters:

tissue -

setTissue_Id

public void setTissue_Id(Integer tissue_id)

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

setTissue

public void setTissue(Integer tissue_id)

getTissue_Id

public Integer getTissue_Id()

getTissue_Identifier

public String getTissue_Identifier()

Get a pretty label Identifier for cross reference Tissue to OntologyTerm.Id.

setTissue_Identifier

public void setTissue_Identifier(String tissue_Identifier)

Set a pretty label for cross reference Tissue to OntologyTerm.Id. Implies setTissue(null) until save

get

public Object get(String name)

Generic getter. Get the property by using the name.

Specified by:

get in interface Entity

Overrides:

get in class ObservationTarget

validate

public void validate()
              throws DatabaseException

Specified by:

validate in interface Entity

Overrides:

validate in class ObservationTarget

Throws:

DatabaseException

set

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

Specified by:

set in interface Entity

Overrides:

set in class ObservationTarget

Throws:

Exception

toString

public String toString()

Overrides:

toString in class ObservationTarget

toString

public String toString(boolean verbose)

Overrides:

toString in class ObservationTarget

getFields

public Vector<String> getFields(boolean skipAutoIds)

Get the names of all public properties of Sample.

Specified by:

getFields in interface Entity

Overrides:

getFields in class ObservationTarget

getFields

public Vector<String> getFields()

Specified by:

getFields in interface Entity

Overrides:

getFields in class ObservationTarget

getIdField

public String getIdField()

Specified by:

getIdField in interface Entity

Overrides:

getIdField in class ObservationTarget

getLabelFields

public List<String> getLabelFields()

Specified by:

getLabelFields in interface Entity

Overrides:

getLabelFields in class ObservationTarget

getFields

@Deprecated
public String getFields(String sep)

Deprecated.

Specified by:

getFields in interface Entity

Overrides:

getFields in class ObservationTarget

getIdValue

public Object getIdValue()

Specified by:

getIdValue in interface Entity

Overrides:

getIdValue in class ObservationTarget

getXrefIdFieldName

public String getXrefIdFieldName(String fieldName)

Specified by:

getXrefIdFieldName in interface Entity

Overrides:

getXrefIdFieldName in class ObservationTarget

getValues

@Deprecated
public String getValues(String sep)

Deprecated.

Specified by:

getValues in interface Entity

Overrides:

getValues in class ObservationTarget

create

public Sample create(Entity entity)
              throws Exception

Specified by:

create in interface Entity

Overrides:

create in class ObservationTarget

Throws:

Exception

equals

public boolean equals(Object obj)

Overrides:

equals in class ObservationTarget

hashCode

public int hashCode()

Overrides:

hashCode in class ObservationTarget