Package org.lifstools.jgoslin.domain

Klasse FattyAcid

java.lang.Object

org.lifstools.jgoslin.domain.FunctionalGroup

org.lifstools.jgoslin.domain.FattyAcid

Bekannte direkte Unterklassen:

LipidSpeciesInfo

public class FattyAcid
extends FunctionalGroup

A fatty acid with a specific type. This object defines the name, position, number of carbon atoms, hydroxyls and double bonds, as well as the bond type to the head group. A FattyAcid can carry optional modifications / functional groups and can report double bond positions.

Autor:

Dominik Kopczynski, Nils Hoffmann

Feldübersicht

Felder

Modifizierer und Typ	Feld	Beschreibung
static final Set<String>	fgExceptions
static final Set<LipidFaBondType>	LCB_STATES
protected LipidFaBondType	lipidFaBondType
protected int	numCarbon
boolean	unresolvedHiddenFa

Von Klasse geerbte Felder org.lifstools.jgoslin.domain.FunctionalGroup

atomic, count, doubleBonds, elements, functionalGroups, knownFunctionalGroups, name, position, ringStereo, stereoBound, stereochemistry

Konstruktorübersicht

Konstruktoren

Konstruktor	Beschreibung
FattyAcid(String _name, int _num_carbon, DoubleBonds _double_bonds)
FattyAcid(String _name, int _num_carbon, DoubleBonds _double_bonds, HashMap<String,ArrayList<FunctionalGroup>> _functional_groups, KnownFunctionalGroups knownFunctionalGroups)
FattyAcid(String _name, int _num_carbon, DoubleBonds _double_bonds, HashMap<String,ArrayList<FunctionalGroup>> _functional_groups, LipidFaBondType _lipid_FA_bond_type, int _position, KnownFunctionalGroups knownFunctionalGroups)
FattyAcid(String _name, int _num_carbon, DoubleBonds _double_bonds, HashMap<String,ArrayList<FunctionalGroup>> _functional_groups, LipidFaBondType _lipid_FA_bond_type, KnownFunctionalGroups knownFunctionalGroups)
FattyAcid(String _name, int _num_carbon, DoubleBonds _double_bonds, KnownFunctionalGroups knownFunctionalGroups)
FattyAcid(String _name, int _num_carbon, KnownFunctionalGroups knownFunctionalGroups)
FattyAcid(String _name, KnownFunctionalGroups knownFunctionalGroups)

Methodenübersicht

Modifizierer und Typ	Methode	Beschreibung
void	computeElements()
FunctionalGroup	copy()
ElementTable	getFunctionalGroupElements()
LipidFaBondType	getLipidFaBondType()
int	getNDoubleBonds()
int	getNumCarbon()
String	getPrefix(LipidFaBondType lipid_FA_bond_type)
boolean	lipidFaBondTypePrefix(LipidFaBondType lipid_FA_bond_type)
void	setLipidFaBondType(LipidFaBondType lipidFaBondType)
void	setNumCarbon(int numCarbon)
void	setType(LipidFaBondType _lipid_FA_bond_type)
String	toString(LipidLevel level)

Von Klasse geerbte Methoden org.lifstools.jgoslin.domain.FunctionalGroup

addPosition, computeAndCopyElements, getCount, getDoubleBonds, getElements, getFunctionalGroups, getFunctionalGroupsInternal, getName, getPosition, getRingStereo, getStereoBound, getStereochemistry, getTotalFunctionalGroupCount, isAtomic, setAtomic, setCount, setDoubleBonds, setElements, setFunctionalGroups, setName, setPosition, setRingStereo, setStereoBound, setStereochemistry, shiftPositions, stereoInformationMissing

Von Klasse geerbte Methoden java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Felddetails

fgExceptions

public static final Set<String> fgExceptions

LCB_STATES

public static final Set<LipidFaBondType> LCB_STATES

numCarbon

protected int numCarbon

lipidFaBondType

protected LipidFaBondType lipidFaBondType

unresolvedHiddenFa

public boolean unresolvedHiddenFa

Konstruktordetails

FattyAcid

public FattyAcid(String _name,
 KnownFunctionalGroups knownFunctionalGroups)

FattyAcid

public FattyAcid(String _name,
 int _num_carbon,
 DoubleBonds _double_bonds)

FattyAcid

public FattyAcid(String _name,
 int _num_carbon,
 DoubleBonds _double_bonds,
 KnownFunctionalGroups knownFunctionalGroups)

FattyAcid

public FattyAcid(String _name,
 int _num_carbon,
 KnownFunctionalGroups knownFunctionalGroups)

FattyAcid

public FattyAcid(String _name,
 int _num_carbon,
 DoubleBonds _double_bonds,
 HashMap<String,ArrayList<FunctionalGroup>> _functional_groups,
 KnownFunctionalGroups knownFunctionalGroups)

FattyAcid

public FattyAcid(String _name,
 int _num_carbon,
 DoubleBonds _double_bonds,
 HashMap<String,ArrayList<FunctionalGroup>> _functional_groups,
 LipidFaBondType _lipid_FA_bond_type,
 KnownFunctionalGroups knownFunctionalGroups)

FattyAcid

public FattyAcid(String _name,
 int _num_carbon,
 DoubleBonds _double_bonds,
 HashMap<String,ArrayList<FunctionalGroup>> _functional_groups,
 LipidFaBondType _lipid_FA_bond_type,
 int _position,
 KnownFunctionalGroups knownFunctionalGroups)

Methodendetails

copy

public FunctionalGroup copy()

Setzt außer Kraft:

copy in Klasse FunctionalGroup

setType

public void setType(LipidFaBondType _lipid_FA_bond_type)

getPrefix

public String getPrefix(LipidFaBondType lipid_FA_bond_type)

getNDoubleBonds

public int getNDoubleBonds()

Setzt außer Kraft:

getNDoubleBonds in Klasse FunctionalGroup

lipidFaBondTypePrefix

public boolean lipidFaBondTypePrefix(LipidFaBondType lipid_FA_bond_type)

toString

public String toString(LipidLevel level)

Setzt außer Kraft:

toString in Klasse FunctionalGroup

getFunctionalGroupElements

public ElementTable getFunctionalGroupElements()

Setzt außer Kraft:

getFunctionalGroupElements in Klasse FunctionalGroup

computeElements

public void computeElements()

Setzt außer Kraft:

computeElements in Klasse FunctionalGroup

getNumCarbon

public int getNumCarbon()

setNumCarbon

public void setNumCarbon(int numCarbon)

getLipidFaBondType

public LipidFaBondType getLipidFaBondType()

setLipidFaBondType

public void setLipidFaBondType(LipidFaBondType lipidFaBondType)