Alignments

Class AlignmentException

java.lang.Object

java.lang.Throwable

java.lang.Exception

Exceptions.GeneralException

Alignments.AlignmentException

All Implemented Interfaces:

java.io.Serializable

public class AlignmentException
extends GeneralException

Exception related to an alignment (currently only input errors)

Version:

2.0

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class Exceptions.GeneralException

GeneralException.Debug

Constructor Summary

Constructors

Constructor and Description
AlignmentException(java.lang.String msg) Constructor for when there is a problem unrelated to an input file
AlignmentException(java.lang.String location, java.lang.String text, java.lang.String reason, java.lang.Throwable cause) Constructor for when there is a problem in the input file

Method Summary

Methods inherited from class Exceptions.GeneralException

setDebug, toString

Methods inherited from class java.lang.Throwable

addSuppressed, fillInStackTrace, getCause, getLocalizedMessage, getMessage, getStackTrace, getSuppressed, initCause, printStackTrace, printStackTrace, printStackTrace, setStackTrace

Methods inherited from class java.lang.Object

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

Constructor Detail

AlignmentException

public AlignmentException(java.lang.String msg)

Constructor for when there is a problem unrelated to an input file

Parameters:

msg - The cause of the problem

AlignmentException

public AlignmentException(java.lang.String location,
                  java.lang.String text,
                  java.lang.String reason,
                  java.lang.Throwable cause)

Constructor for when there is a problem in the input file

Parameters:

location - Information on the location in the file

text - The text that caused the problem

reason - Why the text was problematic

cause - The Throwable that caused the problem (if applicable)