org.molgenis.omx.xgap

Class Metabolite

java.lang.Object

org.molgenis.util.AbstractEntity

org.molgenis.omx.observ.Characteristic

org.molgenis.omx.observ.ObservationTarget

org.molgenis.omx.xgap.Metabolite

All Implemented Interfaces:

Serializable, Autoid, Identifiable, Entity

@Entity
public class Metabolite
extends ObservationTarget

Metabolite: Trait annotations specific for metabolites. .

Author:

MOLGENIS generator

See Also:

Serialized Form

Field Summary

Fields

Modifier and Type	Field and Description
static String	FORMULA
static String	ID
static String	MASS
static String	STRUCTURE

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

__TYPE, DESCRIPTION, IDENTIFIER, NAME

Constructor Summary

Constructors

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

Method Summary

Methods

Modifier and Type	Method and Description
Metabolite	create(Entity entity)
boolean	equals(Object obj)
static List<? extends Metabolite>	find(Database db, QueryRule... rules) Shorthand for db.find(Metabolite.class, org.molgenis.framework.db.QueryRule ...
static Metabolite	findById(Database db, Integer id)
static Metabolite	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 Metabolite.
String	getFields(String sep) Deprecated.
String	getFormula() Get the The chemical formula of a metabolite..
String	getFormula(Database db) Deprecated.
String	getIdField()
Object	getIdValue()
List<String>	getLabelFields()
Double	getMass() Get the The mass of this metabolite.
Double	getMass(Database db) Deprecated.
String	getStructure() Get the The chemical structure of a metabolite (in SMILES representation)..
String	getStructure(Database db) Deprecated.
String	getValues(String sep) Deprecated.
String	getXrefIdFieldName(String fieldName)
int	hashCode()
static Query<? extends Metabolite>	query(Database db) Shorthand for db.query(Metabolite.class).
void	set(Entity entity, boolean strict)
void	setFormula(String formula) Set the The chemical formula of a metabolite..
void	setMass(Double mass) Set the The mass of this metabolite.
void	setStructure(String structure) Set the The chemical structure of a metabolite (in SMILES representation)..
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

FORMULA

public static final String FORMULA

See Also:

Constant Field Values

MASS

public static final String MASS

See Also:

Constant Field Values

STRUCTURE

public static final String STRUCTURE

See Also:

Constant Field Values

ID

public static final String ID

See Also:

Constant Field Values

Constructor Detail

Metabolite

public Metabolite()

Metabolite

public Metabolite(Metabolite copyMe)
           throws Exception

copy constructor

Throws:

Exception

Method Detail

query

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

Shorthand for db.query(Metabolite.class).

find

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

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

Throws:

DatabaseException

findById

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

Throws:

DatabaseException

findByIdentifier

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

Throws:

DatabaseException

getFormula

public String getFormula()

Get the The chemical formula of a metabolite..

Returns:

formula.

getFormula

@Deprecated
public String getFormula(Database db)

Deprecated.

setFormula

public void setFormula(String formula)

Set the The chemical formula of a metabolite..

Parameters:

formula -

getMass

public Double getMass()

Get the The mass of this metabolite.

Returns:

mass.

getMass

@Deprecated
public Double getMass(Database db)

Deprecated.

setMass

public void setMass(Double mass)

Set the The mass of this metabolite.

Parameters:

mass -

getStructure

public String getStructure()

Get the The chemical structure of a metabolite (in SMILES representation)..

Returns:

structure.

getStructure

@Deprecated
public String getStructure(Database db)

Deprecated.

setStructure

public void setStructure(String structure)

Set the The chemical structure of a metabolite (in SMILES representation)..

Parameters:

structure -

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 Metabolite.

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 Metabolite 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