org.expasy.mzjava.glycomics.mol

Class Monosaccharide

java.lang.Object

org.expasy.mzjava.glycomics.mol.GlycanNode

org.expasy.mzjava.glycomics.mol.Monosaccharide

All Implemented Interfaces:

Weighable

public class Monosaccharide
extends GlycanNode

Version:

sqrt -1

Author:

Oliver Horlacher, Davide Alocci

Field Summary

Fields inherited from class org.expasy.mzjava.glycomics.mol.GlycanNode

composition, name

Constructor Summary

Constructors

Constructor and Description
Monosaccharide(Monosaccharide src)
Monosaccharide(String name, Composition composition, MonosaccharideSuperclass monosaccharideSuperclass, MonosaccharideClass monosaccharideClass, RingType ring, int firstCarbonRing, int lastCarbonRing)

Method Summary

Methods

Modifier and Type	Method and Description
boolean	checkLinkedCarbon(CutIndexes cutIndexes, CutDirection cutDirection, int carbonNumber) Check if a carbon of the ring is in the fragment specified by the cutIndexes and the cutDirection.
boolean	equals(Object o)
int	getFirstCarbonRing() Return the number of the first carbon in the ring of the Monosaccharide.
int	getLastCarbonRing() Return the number of the last carbon in the ring of the Monosaccharide.
MonosaccharideClass	getMonosaccharideClass() Return the class of the Monosaccharide
MonosaccharideSuperclass	getMonosaccharideSuperclass() Return the superclass of the Monosaccharide
RingType	getRing() Return the ring type of the Monosaccharide
int	hashCode()
String	toString()

Methods inherited from class org.expasy.mzjava.glycomics.mol.GlycanNode

getComposition, getMolecularMass, getName

Methods inherited from class java.lang.Object

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

Constructor Detail

Monosaccharide

public Monosaccharide(String name,
              Composition composition,
              MonosaccharideSuperclass monosaccharideSuperclass,
              MonosaccharideClass monosaccharideClass,
              RingType ring,
              int firstCarbonRing,
              int lastCarbonRing)

Monosaccharide

public Monosaccharide(Monosaccharide src)

Method Detail

getMonosaccharideClass

public MonosaccharideClass getMonosaccharideClass()

Return the class of the Monosaccharide

Returns:

the class of the Monosaccharide

getMonosaccharideSuperclass

public MonosaccharideSuperclass getMonosaccharideSuperclass()

Return the superclass of the Monosaccharide

Returns:

the superclass of the Monosaccharide

getRing

public RingType getRing()

Return the ring type of the Monosaccharide

Returns:

f if it is a furanose and p if it is a pyranose

getFirstCarbonRing

public int getFirstCarbonRing()

Return the number of the first carbon in the ring of the Monosaccharide.

Returns:

the numeber of the carbon

getLastCarbonRing

public int getLastCarbonRing()

Return the number of the last carbon in the ring of the Monosaccharide.

Returns:

the numeber of the carbon

checkLinkedCarbon

public boolean checkLinkedCarbon(CutIndexes cutIndexes,
                        CutDirection cutDirection,
                        int carbonNumber)

Check if a carbon of the ring is in the fragment specified by the cutIndexes and the cutDirection.

Parameters:

cutIndexes - cut to be applied on the ring.

cutDirection - part of the ring to take into account.

carbonNumber - the number of the carbon in the ring.

Returns:

true if the carbon is a part of the fragment; false otherwise

equals

public boolean equals(Object o)

Overrides:

equals in class Object

hashCode

public int hashCode()

Overrides:

hashCode in class Object

toString

public String toString()

Overrides:

toString in class Object