org.biojava.bio.program.xff
Class XFFTools

java.lang.Object
  extended byorg.biojava.bio.program.xff.XFFTools

public class XFFTools
extends java.lang.Object

Common functionality for manipulating XFF.

Author:
Matthew Pocock

Constructor Summary
XFFTools()
           
 
Method Summary
static void annotateXFF(java.io.File xffFile, Sequence sequence)
           
static Sequence readXFF(java.io.File xffFile, java.lang.String seqID, FiniteAlphabet alpha)
           
static void writeXFF(java.io.File xffFile, FeatureHolder features)
           
static void writeXFF(java.io.PrintWriter xffPR, FeatureHolder features)
           
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

XFFTools

public XFFTools()
Method Detail

annotateXFF

public static void annotateXFF(java.io.File xffFile,
                               Sequence sequence)
                        throws java.io.IOException,
                               org.xml.sax.SAXException,
                               BioException
Throws:
java.io.IOException
org.xml.sax.SAXException
BioException

readXFF

public static Sequence readXFF(java.io.File xffFile,
                               java.lang.String seqID,
                               FiniteAlphabet alpha)
                        throws java.io.IOException,
                               org.xml.sax.SAXException,
                               BioException
Throws:
java.io.IOException
org.xml.sax.SAXException
BioException

writeXFF

public static void writeXFF(java.io.File xffFile,
                            FeatureHolder features)
                     throws java.io.IOException
Throws:
java.io.IOException

writeXFF

public static void writeXFF(java.io.PrintWriter xffPR,
                            FeatureHolder features)
                     throws java.io.IOException
Throws:
java.io.IOException