SmarterJmolAdapter.AtomIterator

java.lang.Object
- org.jmol.api.JmolAdapter.AtomIterator
- - org.jmol.adapter.smarter.SmarterJmolAdapter.AtomIterator

Enclosing class:: SmarterJmolAdapter

 class SmarterJmolAdapter.AtomIterator
extends JmolAdapter.AtomIterator

Field Summary

Fields
Modifier and Type Field and Description

private Atom atom

private int atomCount

private Atom[] atoms

private java.util.BitSet bsAtoms

private int iatom

Fields
Modifier and Type	Field and Description
`private Atom`	`atom`
`private int`	`atomCount`
`private Atom[]`	`atoms`
`private java.util.BitSet`	`bsAtoms`
`private int`	`iatom`

Constructor Summary

Constructors
Constructor and Description

SmarterJmolAdapter.AtomIterator(AtomSetCollection atomSetCollection)

Constructors
Constructor and Description
`SmarterJmolAdapter.AtomIterator(AtomSetCollection atomSetCollection)`

Method Summary

Methods
Modifier and Type	Method and Description
`char`	`getAlternateLocationID()`
`java.lang.String`	`getAtomName()`
`int`	`getAtomSerial()`
`int`	`getAtomSetIndex()`
`int`	`getAtomSite()`
`java.util.BitSet`	`getAtomSymmetry()`
`float`	`getBfactor()`
`char`	`getChainID()`
`short`	`getElementNumber()`
`java.lang.Object[]`	`getEllipsoid()`
`int`	`getFormalCharge()`
`java.lang.String`	`getGroup3()`
`char`	`getInsertionCode()`
`boolean`	`getIsHetero()`
`int`	`getOccupancy()`
`float`	`getPartialCharge()`
`float`	`getRadius()`
`int`	`getSequenceNumber()`
`java.lang.Object`	`getUniqueID()`
`float`	`getVectorX()`
`float`	`getVectorY()`
`float`	`getVectorZ()`
`float`	`getX()`
`javax.vecmath.Point3f`	`getXYZ()`
`float`	`getY()`
`float`	`getZ()`
`boolean`	`hasNext()`

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Field Detail
  - iatom
```
private int iatom
```
  - atom
```
private Atom atom
```
  - atomCount
```
private int atomCount
```
  - atoms
```
private Atom[] atoms
```
  - bsAtoms
```
private java.util.BitSet bsAtoms
```
- Constructor Detail
  - SmarterJmolAdapter.AtomIterator
```
SmarterJmolAdapter.AtomIterator(AtomSetCollection atomSetCollection)
```
- Method Detail
  - hasNext
```
public boolean hasNext()
```
    Specified by:
    
    hasNext in class JmolAdapter.AtomIterator
  - getAtomSetIndex
```
public int getAtomSetIndex()
```
    Overrides:
    
    getAtomSetIndex in class JmolAdapter.AtomIterator
  - getAtomSymmetry
```
public java.util.BitSet getAtomSymmetry()
```
    Overrides:
    
    getAtomSymmetry in class JmolAdapter.AtomIterator
  - getAtomSite
```
public int getAtomSite()
```
    Overrides:
    
    getAtomSite in class JmolAdapter.AtomIterator
  - getUniqueID
```
public java.lang.Object getUniqueID()
```
    Specified by:
    
    getUniqueID in class JmolAdapter.AtomIterator
  - getElementNumber
```
public short getElementNumber()
```
    Overrides:
    
    getElementNumber in class JmolAdapter.AtomIterator
  - getAtomName
```
public java.lang.String getAtomName()
```
    Overrides:
    
    getAtomName in class JmolAdapter.AtomIterator
  - getFormalCharge
```
public int getFormalCharge()
```
    Overrides:
    
    getFormalCharge in class JmolAdapter.AtomIterator
  - getPartialCharge
```
public float getPartialCharge()
```
    Overrides:
    
    getPartialCharge in class JmolAdapter.AtomIterator
  - getEllipsoid
```
public java.lang.Object[] getEllipsoid()
```
    Overrides:
    
    getEllipsoid in class JmolAdapter.AtomIterator
  - getRadius
```
public float getRadius()
```
    Overrides:
    
    getRadius in class JmolAdapter.AtomIterator
  - getX
```
public float getX()
```
    Specified by:
    
    getX in class JmolAdapter.AtomIterator
  - getY
```
public float getY()
```
    Specified by:
    
    getY in class JmolAdapter.AtomIterator
  - getZ
```
public float getZ()
```
    Specified by:
    
    getZ in class JmolAdapter.AtomIterator
  - getVectorX
```
public float getVectorX()
```
    Overrides:
    
    getVectorX in class JmolAdapter.AtomIterator
  - getVectorY
```
public float getVectorY()
```
    Overrides:
    
    getVectorY in class JmolAdapter.AtomIterator
  - getVectorZ
```
public float getVectorZ()
```
    Overrides:
    
    getVectorZ in class JmolAdapter.AtomIterator
  - getBfactor
```
public float getBfactor()
```
    Overrides:
    
    getBfactor in class JmolAdapter.AtomIterator
  - getOccupancy
```
public int getOccupancy()
```
    Overrides:
    
    getOccupancy in class JmolAdapter.AtomIterator
  - getIsHetero
```
public boolean getIsHetero()
```
    Overrides:
    
    getIsHetero in class JmolAdapter.AtomIterator
  - getAtomSerial
```
public int getAtomSerial()
```
    Overrides:
    
    getAtomSerial in class JmolAdapter.AtomIterator
  - getChainID
```
public char getChainID()
```
    Overrides:
    
    getChainID in class JmolAdapter.AtomIterator
  - getAlternateLocationID
```
public char getAlternateLocationID()
```
    Overrides:
    
    getAlternateLocationID in class JmolAdapter.AtomIterator
  - getGroup3
```
public java.lang.String getGroup3()
```
    Overrides:
    
    getGroup3 in class JmolAdapter.AtomIterator
  - getSequenceNumber
```
public int getSequenceNumber()
```
    Overrides:
    
    getSequenceNumber in class JmolAdapter.AtomIterator
  - getInsertionCode
```
public char getInsertionCode()
```
    Overrides:
    
    getInsertionCode in class JmolAdapter.AtomIterator
  - getXYZ
```
public javax.vecmath.Point3f getXYZ()
```
    Specified by:
    
    getXYZ in class JmolAdapter.AtomIterator

Class SmarterJmolAdapter.AtomIterator

Field Summary

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Field Detail

iatom

atom

atomCount

atoms

bsAtoms

Constructor Detail

SmarterJmolAdapter.AtomIterator

Method Detail

hasNext

getAtomSetIndex

getAtomSymmetry

getAtomSite

getUniqueID

getElementNumber

getAtomName

getFormalCharge

getPartialCharge

getEllipsoid

getRadius

getX

getY

getZ

getVectorX

getVectorY

getVectorZ

getBfactor

getOccupancy

getIsHetero

getAtomSerial

getChainID

getAlternateLocationID

getGroup3

getSequenceNumber

getInsertionCode

getXYZ