org.proteios.core.data
Class ModificationData

java.lang.Object
  org.proteios.core.data.BasicData
      org.proteios.core.data.OwnedData
          org.proteios.core.data.SharedData
              org.proteios.core.data.CommonData
                  org.proteios.core.data.ModificationData

All Implemented Interfaces:

IdentifiableData, NameableData, OwnableData, RemovableData, ShareableData

Direct Known Subclasses:

ObservedModificationData, SearchModificationData

public abstract class ModificationData
extends CommonData

This class is the root class for modifications.

Version:

2.0

Author:

Fredrik

See Also:

Modification

Hibernate: class

table="`Modifications`" lazy="false" abstract="true" discriminator-value="-1"

Hibernate: discriminator

column="`discriminator`" type="int"

Field Summary

float	averageDeltaMass
float	averageMass
static int	MAX_CVID_LENGTH Modification Controlled vocabulary ID
static int	MAX_DIFF_FORMULA_LENGTH Modification chemical differential formula
double	monoisotopicDeltaMass
double	monoisotopicMass

Fields inherited from interface org.proteios.core.data.NameableData

MAX_DESCRIPTION_LENGTH, MAX_NAME_LENGTH

Constructor Summary

ModificationData()

Method Summary

float	getAverageDeltaMass()
float	getAverageMass()
String	getCvId() Get the CV ID
String	getDiffFormula() Get the differential formula
double	getMonoisotopicDeltaMass()
double	getMonoisotopicMass()
int	getPosition()
boolean	isSubstitutionModification()
void	setAverageDeltaMass(float averageDeltaMass)
void	setAverageMass(float averageMass)
void	setCvId(String cvId)
void	setDiffFormula(String diffFormula)
void	setMonoisotopicDeltaMass(double monoisotopicDeltaMass)
void	setMonoisotopicMass(double monoisotopicMass)
void	setPosition(int position)
void	setSubstitutionModification(boolean substitutionModification)

Methods inherited from class org.proteios.core.data.CommonData

getDescription, getName, isRemoved, setDescription, setName, setRemoved

Methods inherited from class org.proteios.core.data.SharedData

getItemKey, getProjectKey, setItemKey, setProjectKey

Methods inherited from class org.proteios.core.data.OwnedData

getOwner, setOwner

Methods inherited from class org.proteios.core.data.BasicData

equals, getId, getVersion, hashCode, toString

Methods inherited from class java.lang.Object

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

Methods inherited from interface org.proteios.core.data.IdentifiableData

getId, getVersion

Methods inherited from interface org.proteios.core.data.OwnableData

getOwner, setOwner

Field Detail

averageMass

public float averageMass

averageDeltaMass

public float averageDeltaMass

monoisotopicMass

public double monoisotopicMass

monoisotopicDeltaMass

public double monoisotopicDeltaMass

MAX_DIFF_FORMULA_LENGTH

public static final int MAX_DIFF_FORMULA_LENGTH

Modification chemical differential formula

See Also:

Constant Field Values

MAX_CVID_LENGTH

public static final int MAX_CVID_LENGTH

Modification Controlled vocabulary ID

See Also:

Constant Field Values

Constructor Detail

ModificationData

public ModificationData()

Method Detail

isSubstitutionModification

public boolean isSubstitutionModification()

Returns:

Returns the substitutionModififcation flag

Hibernate: property

column="`substitutionModification`"

setSubstitutionModification

public void setSubstitutionModification(boolean substitutionModification)

getPosition

public int getPosition()

Returns:

Returns the position.

Hibernate: property

column="`position`"

setPosition

public void setPosition(int position)

Parameters:

position - The position to set.

getAverageMass

public float getAverageMass()

Returns:

Returns the average mass.

Hibernate: property

column="`averageMass`"

setAverageMass

public void setAverageMass(float averageMass)

Parameters:

averageMass - The averageMass to set.

getAverageDeltaMass

public float getAverageDeltaMass()

Returns:

Returns the average delta mass.

Hibernate: property

column="`averageDeltaMass`"

setAverageDeltaMass

public void setAverageDeltaMass(float averageDeltaMass)

Parameters:

averageDeltaMass - The averageDeltaMass to set.

getMonoisotopicMass

public double getMonoisotopicMass()

Returns:

Returns the monoisotopic mass.

Hibernate: property

column="`monoisotopicMass`"

setMonoisotopicMass

public void setMonoisotopicMass(double monoisotopicMass)

Parameters:

monoisotopicMass - The monoisotopicMass to set.

getMonoisotopicDeltaMass

public double getMonoisotopicDeltaMass()

Returns:

Returns the monoisotopic delta mass.

Hibernate: property

column="`monoisotopicDeltaMass`"

setMonoisotopicDeltaMass

public void setMonoisotopicDeltaMass(double monoisotopicDeltaMass)

Parameters:

monoisotopicDeltaMass - The monoisotopicDeltaMass to set.

getDiffFormula

public String getDiffFormula()

Get the differential formula

Hibernate: property

column="`diffFormula`" type="string" length="255" not-null="false"

setDiffFormula

public void setDiffFormula(String diffFormula)

getCvId

public String getCvId()

Get the CV ID

Hibernate: property

column="`cvId`" type="string" length="255" not-null="false"

setCvId

public void setCvId(String cvId)