CeCPUserArgumentProcessor (biojava 6.0.0 API)

java.lang.Object
- org.biojava.nbio.structure.align.ce.AbstractUserArgumentProcessor
- - org.biojava.nbio.structure.align.ce.CeUserArgumentProcessor
  - - org.biojava.nbio.structure.align.ce.CeCPUserArgumentProcessor

All Implemented Interfaces:: UserArgumentProcessor

public class CeCPUserArgumentProcessor
extends CeUserArgumentProcessor

Nested Class Summary

Nested Classes
Modifier and Type Class Description

protected class CeCPUserArgumentProcessor.CeCPStartupParams
- Nested classes/interfaces inherited from class org.biojava.nbio.structure.align.ce.CeUserArgumentProcessor
  CeUserArgumentProcessor.CeStartupParams

Field Summary
- Fields inherited from class org.biojava.nbio.structure.align.ce.AbstractUserArgumentProcessor
  mandatoryArgs, newline, params

Constructor Summary

Constructors
Constructor Description

CeCPUserArgumentProcessor()

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`StructureAlignment`	`getAlgorithm()`
`Object`	`getParameters()`
`protected StartupParameters`	`getStartupParametersInstance()`	StartupParameters is a bean to store all the possible command line parameters.

Methods inherited from class org.biojava.nbio.structure.align.ce.CeUserArgumentProcessor
getDbSearchLegend

Methods inherited from class org.biojava.nbio.structure.align.ce.AbstractUserArgumentProcessor
getDbSearchResult, printAboutMe, printHelp, process

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

- Constructor Detail
  - CeCPUserArgumentProcessor
```
public CeCPUserArgumentProcessor()
```
- Method Detail
  - getStartupParametersInstance
```
protected StartupParameters getStartupParametersInstance()
```
    Description copied from class: AbstractUserArgumentProcessor
    
    StartupParameters is a bean to store all the possible command line parameters. The `StartupParameter` class contains the basic set of CLI parameters common to all `StructureAligmnent`s. This method should return a subclass of StartupParameters which has been extended to store values for all additional parameters.
    
    Overrides:
    
    getStartupParametersInstance in class CeUserArgumentProcessor
    
    Returns:
    
    A new instance of the correct StartupParameters subclass
  - getAlgorithm
```
public StructureAlignment getAlgorithm()
```
    Overrides:
    
    getAlgorithm in class CeUserArgumentProcessor
  - getParameters
```
public Object getParameters()
```
    Overrides:
    
    getParameters in class CeUserArgumentProcessor