AngleOrderDetectorPlus

java.lang.Object
- org.biojava.nbio.structure.symmetry.internal.AngleOrderDetectorPlus

All Implemented Interfaces:

OrderDetector
```
public class AngleOrderDetectorPlus
extends java.lang.Object
implements OrderDetector
```
Guesses an order of rotational symmetry from the angle.
Improves upon the AngleOrderDetector used in the paper by checking all rotations, not just the base one.

Since:

4.2.0

Author:

Spencer Bliven

Constructor Summary

Constructors
Constructor and Description
`AngleOrderDetectorPlus(double angleError)`
`AngleOrderDetectorPlus(int maxOrder)`
`AngleOrderDetectorPlus(int maxOrder, double angleError)`
`AngleOrderDetectorPlus(int maxOrder, double angleError, boolean normalize)` Determine order by finding the order (up to the maxOrder) which has the closest rotation angle to the observed rotation.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type Method and Description

int calculateOrder(AFPChain afpChain, Atom[] ca)

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

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`int`	`calculateOrder(AFPChain afpChain, Atom[] ca)`
`java.lang.String`	`toString()`

- Constructor Detail
  - AngleOrderDetectorPlus
```
public AngleOrderDetectorPlus(double angleError)
```
    Parameters:
    
    error - maximum angular error, in radians
  - AngleOrderDetectorPlus
```
public AngleOrderDetectorPlus(int maxOrder)
```
  - AngleOrderDetectorPlus
```
public AngleOrderDetectorPlus(int maxOrder,
                              double angleError)
```
    Parameters:
    
    maxOrder - maximum order to consider
    
    error - maximum angular error, in radians
  - AngleOrderDetectorPlus
```
public AngleOrderDetectorPlus(int maxOrder,
                              double angleError,
                              boolean normalize)
```
    Determine order by finding the order (up to the maxOrder) which has the closest rotation angle to the observed rotation. If normalized is false, then the error is taken to be the absolute error from the closest ideal angle (in radians). If normalized is true, error is taken to be relative to the fundamental rotation for a given order. For instance, for an error of .25, C2 order would be accepted for angles within .25*pi radians of 0 or pi, while C3 order would be acceptable within .25*2pi/3 radians of 0, 2pi/3, or 4pi/3. In the normalized case, numbers between 0 and .5 are sensible for error.
    
    Parameters:
    
    maxOrder - maximum order to consider
    
    error - maximum angular error
    
    normalize - indicates whether error should be normalized by the order
- Method Detail
  - calculateOrder
```
public int calculateOrder(AFPChain afpChain,
                          Atom[] ca)
                   throws RefinerFailedException
```
    Specified by:
    
    calculateOrder in interface OrderDetector
    
    Throws:
    
    RefinerFailedException
  - toString
```
public java.lang.String toString()
```
    Overrides:
    
    toString in class java.lang.Object

Class AngleOrderDetectorPlus

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Constructor Detail

AngleOrderDetectorPlus

AngleOrderDetectorPlus

AngleOrderDetectorPlus

AngleOrderDetectorPlus

Method Detail

calculateOrder

toString