org.proteios.core.data
Class PolyPeptideData

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.AnnotatedData
                      org.proteios.core.data.PolyPeptideData

All Implemented Interfaces:

AnnotatableData, IdentifiableData, NameableData, OwnableData, RemovableData, ShareableData

Direct Known Subclasses:

PeptideData, ProteinData

public abstract class PolyPeptideData
extends AnnotatedData

This class is the root class for biomaterials.

Version:

2.0

Author:

Nicklas

See Also:

PolyPeptide

Last modified

$Date: 2009-04-09 08:48:11 +0200 (Thu, 09 Apr 2009) $

Hibernate: class

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

Hibernate: discriminator

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

Field Summary

static int	MAX_ACCESSION_NUMBER_LENGTH Protein accession number
static int	MAX_LSID_LENGTH Protein LSID
static int	MAX_SEQUENCE_LENGTH Protein / Peptide sequence

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

MAX_DESCRIPTION_LENGTH, MAX_NAME_LENGTH

Constructor Summary

PolyPeptideData()

Method Summary

String	getAccessionNumber()
String	getLsid() Get the external id for the biomaterial
Set<ObservedModificationData>	getObservedModifications()
SearchResultData	getSearchResult()
String	getSequence() Get the sequence
void	setAccessionNumber(String accessionNumber)
void	setLsid(String lsid)
void	setObservedModifications(Set<ObservedModificationData> modifications)
void	setSearchResult(SearchResultData searchResult)
void	setSequence(String sequence)

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

getAnnotationSet, setAnnotationSet

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

MAX_ACCESSION_NUMBER_LENGTH

public static final int MAX_ACCESSION_NUMBER_LENGTH

Protein accession number

See Also:

Constant Field Values

MAX_SEQUENCE_LENGTH

public static final int MAX_SEQUENCE_LENGTH

Protein / Peptide sequence

See Also:

Constant Field Values

MAX_LSID_LENGTH

public static final int MAX_LSID_LENGTH

Protein LSID

See Also:

Constant Field Values

Constructor Detail

PolyPeptideData

public PolyPeptideData()

Method Detail

getAccessionNumber

public String getAccessionNumber()

Hibernate: property

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

setAccessionNumber

public void setAccessionNumber(String accessionNumber)

getSequence

public String getSequence()

Get the sequence

Hibernate: property

column="`sequence`" type="string" length="65000" not-null="false"

setSequence

public void setSequence(String sequence)

getLsid

public String getLsid()

Get the external id for the biomaterial

Hibernate: property

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

setLsid

public void setLsid(String lsid)

getSearchResult

public SearchResultData getSearchResult()

Returns:

Returns the searchResult.

Hibernate: many-to-one

column="`searchResultId`"

setSearchResult

public void setSearchResult(SearchResultData searchResult)

Parameters:

searchResult - The searchResult to set.

getObservedModifications

public Set<ObservedModificationData> getObservedModifications()

Returns:

Returns the Modifications.

Hibernate: set

table="`Modifications`" cascade="delete" lazy="true"

Hibernate: collection-key

column="`polypeptideId`"

Hibernate: collection-one-to-many

class="org.proteios.core.data.ModificationData" not-null="false"

setObservedModifications

public void setObservedModifications(Set<ObservedModificationData> modifications)

Parameters:

modifications - The modification set to set.