org.expasy.mzjava.glycomics.mol

Class Glycan.Builder

java.lang.Object

org.expasy.mzjava.glycomics.mol.SaccharideGraph.AbstractBuilder<Glycan>

org.expasy.mzjava.glycomics.mol.Glycan.Builder

Enclosing class:

Glycan

public static class Glycan.Builder
extends SaccharideGraph.AbstractBuilder<Glycan>

A builder to build Glycans. This builder is not reusable.

Nested Class Summary

Nested classes/interfaces inherited from class org.expasy.mzjava.glycomics.mol.SaccharideGraph.AbstractBuilder

SaccharideGraph.AbstractBuilder.BuildSate

Field Summary

Fields inherited from class org.expasy.mzjava.glycomics.mol.SaccharideGraph.AbstractBuilder

buildSate, graph

Constructor Summary

Constructors

Constructor and Description
Glycan.Builder()

Method Summary

Methods

Modifier and Type	Method and Description
Glycan	build() Build the Glycan.
Monosaccharide	setRoot(Monosaccharide monosaccharide, com.google.common.base.Optional<Anomericity> endAnomericity, String databaseIdentifier) Set the root of the Glycan.
Monosaccharide	setRoot(Monosaccharide monosaccharide, com.google.common.base.Optional<Anomericity> endAnomericity, String databaseIdentifier, Composition endComposition) Set the root of the Glycan.

Methods inherited from class org.expasy.mzjava.glycomics.mol.SaccharideGraph.AbstractBuilder

add, add, add, add, add, checkIsBuilding, checkMonosaccharidesPresence, getId, getNode

Methods inherited from class java.lang.Object

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

Constructor Detail

Glycan.Builder

public Glycan.Builder()

Method Detail

setRoot

public Monosaccharide setRoot(Monosaccharide monosaccharide,
                     com.google.common.base.Optional<Anomericity> endAnomericity,
                     String databaseIdentifier)

Set the root of the Glycan. Use this method if the glycan has a free end. Can only be called once.

Parameters:

monosaccharide - the monosaccharide that is to be the root

endAnomericity - the anomericity of the root

databaseIdentifier - the database identifier of the glycan

Returns:

the monosaccharide

setRoot

public Monosaccharide setRoot(Monosaccharide monosaccharide,
                     com.google.common.base.Optional<Anomericity> endAnomericity,
                     String databaseIdentifier,
                     Composition endComposition)

Set the root of the Glycan. Can only be called once.

Parameters:

monosaccharide - the monosaccharide that is to be the root

endAnomericity - the anomericity of the root

databaseIdentifier - the database identifier of the glycan

endComposition - the compostion of the end of the glycan.

Returns:

the monosaccharide

build

public Glycan build()

Build the Glycan.

Returns:

the new Glycan