org.molgenis.omx.xgap

Class PairedSample

java.lang.Object

org.molgenis.util.AbstractEntity

org.molgenis.omx.observ.Characteristic

org.molgenis.omx.observ.ObservationTarget

org.molgenis.omx.xgap.PairedSample

All Implemented Interfaces:

Serializable, Autoid, Identifiable, Entity

@Entity
public class PairedSample
extends ObservationTarget

PairedSample: A pair of samples labeled for a two-color microarray experiment..

Author:

MOLGENIS generator

See Also:

Serialized Form

Field Summary

Fields

Modifier and Type	Field and Description
static String	ID
static String	LABEL1
static String	LABEL1_IDENTIFIER
static String	LABEL2
static String	LABEL2_IDENTIFIER
static String	SUBJECT1
static String	SUBJECT1_IDENTIFIER
static String	SUBJECT2
static String	SUBJECT2_IDENTIFIER

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

__TYPE, DESCRIPTION, IDENTIFIER, NAME

Constructor Summary

Constructors

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

Method Summary

Methods

Modifier and Type	Method and Description
PairedSample	create(Entity entity)
boolean	equals(Object obj)
static List<? extends PairedSample>	find(Database db, QueryRule... rules) Shorthand for db.find(PairedSample.class, org.molgenis.framework.db.QueryRule ...
static PairedSample	findById(Database db, Integer id)
static PairedSample	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 PairedSample.
String	getFields(String sep) Deprecated.
String	getIdField()
Object	getIdValue()
Integer	getLabel1_Id()
String	getLabel1_Identifier() Get a pretty label Identifier for cross reference Label1 to OntologyTerm.Id.
OntologyTerm	getLabel1() Get the Which channel or Fluorescent labeling is associated with the first subject.
OntologyTerm	getLabel1(Database db) Deprecated.
Integer	getLabel2_Id()
String	getLabel2_Identifier() Get a pretty label Identifier for cross reference Label2 to OntologyTerm.Id.
OntologyTerm	getLabel2() Get the Which channel or Fluorescent labeling is associated with the second subject.
OntologyTerm	getLabel2(Database db) Deprecated.
List<String>	getLabelFields()
Integer	getSubject1_Id()
String	getSubject1_Identifier() Get a pretty label Identifier for cross reference Subject1 to Individual.Id.
Individual	getSubject1() Get the The first subject.
Individual	getSubject1(Database db) Deprecated.
Integer	getSubject2_Id()
String	getSubject2_Identifier() Get a pretty label Identifier for cross reference Subject2 to Individual.Id.
Individual	getSubject2() Get the The second sample.
Individual	getSubject2(Database db) Deprecated.
String	getValues(String sep) Deprecated.
String	getXrefIdFieldName(String fieldName)
int	hashCode()
static Query<? extends PairedSample>	query(Database db) Shorthand for db.query(PairedSample.class).
void	set(Entity entity, boolean strict)
void	setLabel1_Id(Integer label1_id) Set foreign key for field label1.
void	setLabel1_Identifier(String label1_Identifier) Set a pretty label for cross reference Label1 to OntologyTerm.Id.
void	setLabel1(Integer label1_id)
void	setLabel1(OntologyTerm label1) Set the Which channel or Fluorescent labeling is associated with the first subject.
void	setLabel2_Id(Integer label2_id) Set foreign key for field label2.
void	setLabel2_Identifier(String label2_Identifier) Set a pretty label for cross reference Label2 to OntologyTerm.Id.
void	setLabel2(Integer label2_id)
void	setLabel2(OntologyTerm label2) Set the Which channel or Fluorescent labeling is associated with the second subject.
void	setSubject1_Id(Integer subject1_id) Set foreign key for field subject1.
void	setSubject1_Identifier(String subject1_Identifier) Set a pretty label for cross reference Subject1 to Individual.Id.
void	setSubject1(Individual subject1) Set the The first subject.
void	setSubject1(Integer subject1_id)
void	setSubject2_Id(Integer subject2_id) Set foreign key for field subject2.
void	setSubject2_Identifier(String subject2_Identifier) Set a pretty label for cross reference Subject2 to Individual.Id.
void	setSubject2(Individual subject2) Set the The second sample.
void	setSubject2(Integer subject2_id)
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

SUBJECT1

public static final String SUBJECT1

See Also:

Constant Field Values

SUBJECT1_IDENTIFIER

public static final String SUBJECT1_IDENTIFIER

See Also:

Constant Field Values

LABEL1

public static final String LABEL1

See Also:

Constant Field Values

LABEL1_IDENTIFIER

public static final String LABEL1_IDENTIFIER

See Also:

Constant Field Values

SUBJECT2

public static final String SUBJECT2

See Also:

Constant Field Values

SUBJECT2_IDENTIFIER

public static final String SUBJECT2_IDENTIFIER

See Also:

Constant Field Values

LABEL2

public static final String LABEL2

See Also:

Constant Field Values

LABEL2_IDENTIFIER

public static final String LABEL2_IDENTIFIER

See Also:

Constant Field Values

ID

public static final String ID

See Also:

Constant Field Values

Constructor Detail

PairedSample

public PairedSample()

PairedSample

public PairedSample(PairedSample copyMe)
             throws Exception

copy constructor

Throws:

Exception

Method Detail

query

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

Shorthand for db.query(PairedSample.class).

find

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

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

Throws:

DatabaseException

findById

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

Throws:

DatabaseException

findByIdentifier

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

Throws:

DatabaseException

getSubject1

public Individual getSubject1()

Get the The first subject.

Returns:

subject1.

getSubject1

@Deprecated
public Individual getSubject1(Database db)

Deprecated.

setSubject1

public void setSubject1(Individual subject1)

Set the The first subject.

Parameters:

subject1 -

setSubject1_Id

public void setSubject1_Id(Integer subject1_id)

Set foreign key for field subject1. This will erase any foreign key objects currently set. FIXME: can we autoload the new object?

setSubject1

public void setSubject1(Integer subject1_id)

getSubject1_Id

public Integer getSubject1_Id()

getSubject1_Identifier

public String getSubject1_Identifier()

Get a pretty label Identifier for cross reference Subject1 to Individual.Id.

setSubject1_Identifier

public void setSubject1_Identifier(String subject1_Identifier)

Set a pretty label for cross reference Subject1 to Individual.Id. Implies setSubject1(null) until save

getLabel1

public OntologyTerm getLabel1()

Get the Which channel or Fluorescent labeling is associated with the first subject.

Returns:

label1.

getLabel1

@Deprecated
public OntologyTerm getLabel1(Database db)

Deprecated.

setLabel1

public void setLabel1(OntologyTerm label1)

Set the Which channel or Fluorescent labeling is associated with the first subject.

Parameters:

label1 -

setLabel1_Id

public void setLabel1_Id(Integer label1_id)

Set foreign key for field label1. This will erase any foreign key objects currently set. FIXME: can we autoload the new object?

setLabel1

public void setLabel1(Integer label1_id)

getLabel1_Id

public Integer getLabel1_Id()

getLabel1_Identifier

public String getLabel1_Identifier()

Get a pretty label Identifier for cross reference Label1 to OntologyTerm.Id.

setLabel1_Identifier

public void setLabel1_Identifier(String label1_Identifier)

Set a pretty label for cross reference Label1 to OntologyTerm.Id. Implies setLabel1(null) until save

getSubject2

public Individual getSubject2()

Get the The second sample.

Returns:

subject2.

getSubject2

@Deprecated
public Individual getSubject2(Database db)

Deprecated.

setSubject2

public void setSubject2(Individual subject2)

Set the The second sample.

Parameters:

subject2 -

setSubject2_Id

public void setSubject2_Id(Integer subject2_id)

Set foreign key for field subject2. This will erase any foreign key objects currently set. FIXME: can we autoload the new object?

setSubject2

public void setSubject2(Integer subject2_id)

getSubject2_Id

public Integer getSubject2_Id()

getSubject2_Identifier

public String getSubject2_Identifier()

Get a pretty label Identifier for cross reference Subject2 to Individual.Id.

setSubject2_Identifier

public void setSubject2_Identifier(String subject2_Identifier)

Set a pretty label for cross reference Subject2 to Individual.Id. Implies setSubject2(null) until save

getLabel2

public OntologyTerm getLabel2()

Get the Which channel or Fluorescent labeling is associated with the second subject.

Returns:

label2.

getLabel2

@Deprecated
public OntologyTerm getLabel2(Database db)

Deprecated.

setLabel2

public void setLabel2(OntologyTerm label2)

Set the Which channel or Fluorescent labeling is associated with the second subject.

Parameters:

label2 -

setLabel2_Id

public void setLabel2_Id(Integer label2_id)

Set foreign key for field label2. This will erase any foreign key objects currently set. FIXME: can we autoload the new object?

setLabel2

public void setLabel2(Integer label2_id)

getLabel2_Id

public Integer getLabel2_Id()

getLabel2_Identifier

public String getLabel2_Identifier()

Get a pretty label Identifier for cross reference Label2 to OntologyTerm.Id.

setLabel2_Identifier

public void setLabel2_Identifier(String label2_Identifier)

Set a pretty label for cross reference Label2 to OntologyTerm.Id. Implies setLabel2(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 PairedSample.

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 PairedSample 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