org.biojava.bio
Class BioException

java.lang.Object
  java.lang.Throwable
      java.lang.Exception
          org.biojava.bio.BioException

All Implemented Interfaces:

Serializable

Direct Known Subclasses:

AutomatonException, CircularReferenceException, DASException, DuplicateTaxonException, IllegalAlphabetException, IllegalIDException, IllegalSymbolException, IllegalTransitionException, ParseException, PDBParseException, RegexException, StructureException, UnsupportedChromatogramFormatException

public class BioException
extends Exception

A nestable biological exception.

Since:

1.0

Author:

Matthew Pocock

See Also:

Serialized Form

For general use:

Catch this whenever a method throws it, and you want to handle the exception.

Throw this whenever you have caught a Throwable and need to throw an Exception or BioException in your method.

For advanced users:

Be sure to wrap up any causual throwable. It makes debugging your (and other peoples') code much easier.

Constructor Summary

BioException()
Create a new BioException.

BioException(String message)
Create a new BioException with a message.

BioException(String message, Throwable ex)
Create a new BioException with a cause and a message.

BioException(Throwable ex)
Create a new BioException with a cause.

BioException(Throwable ex, String message)
Deprecated. use new BioException(message, ex) instead

Method Summary

Methods inherited from class java.lang.Throwable

fillInStackTrace, getCause, getLocalizedMessage, getMessage, getStackTrace, initCause, printStackTrace, printStackTrace, printStackTrace, setStackTrace, toString

Methods inherited from class java.lang.Object

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

Constructor Detail

BioException

public BioException(String message)

Create a new BioException with a message.

Parameters:

message - the message

BioException

public BioException(Throwable ex)

Create a new BioException with a cause.

Parameters:

ex - the Throwable that caused this BioException

BioException

public BioException(Throwable ex,
                    String message)

Deprecated. use new BioException(message, ex) instead

Create a new BioException with a cause and a message.

Parameters:

ex - the Throwable that caused this BioException

message - the message

BioException

public BioException(String message,
                    Throwable ex)

Create a new BioException with a cause and a message.

Parameters:

message - the message

ex - the Throwable that caused this BioException

BioException

public BioException()

Create a new BioException.