XFFTools (biojava-legacy 1.9.5 API)

java.lang.Object
- org.biojava.bio.program.xff.XFFTools

```
public class XFFTools
extends Object
```
Common functionality for manipulating XFF.

Author:

Matthew Pocock

Field Summary

Fields
Modifier and Type Field Description

static String XFF_BIOJAVA_NS

static String XFF_NS

Fields
Modifier and Type	Field	Description
`static String`	`XFF_BIOJAVA_NS`
`static String`	`XFF_NS`

Constructor Summary

Constructors
Constructor Description

XFFTools()

Constructors
Constructor	Description
`XFFTools()`

Method Summary

All Methods Static Methods Concrete Methods
Modifier and Type	Method	Description
`static void`	`annotateXFF(File xffFile, Sequence sequence)`
`static void`	`annotateXFF(File xffFile, Sequence sequence, Annotation ann)`
`static Sequence`	`readXFF(File xffFile, String seqID)`
`static Sequence`	`readXFF(File xffFile, String seqID, FiniteAlphabet alpha)`
`static void`	`writeXFF(File xffFile, FeatureHolder features)`
`static void`	`writeXFF(PrintWriter xffPR, FeatureHolder features)`

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

Field Detail
- XFF_NS
```
public static final String XFF_NS
```
  See Also:
  
  Constant Field Values
- XFF_BIOJAVA_NS
```
public static final String XFF_BIOJAVA_NS
```
  See Also:
  
  Constant Field Values

Constructor Detail
- XFFTools
```
public XFFTools()
```

Method Detail

annotateXFF

public static void annotateXFF(File xffFile,
                               Sequence sequence)
                        throws IOException,
                               SAXException,
                               BioException

Throws:: IOException; SAXException; BioException

annotateXFF

public static void annotateXFF(File xffFile,
                               Sequence sequence,
                               Annotation ann)
                        throws IOException,
                               SAXException,
                               BioException

Throws:: IOException; SAXException; BioException

readXFF

public static Sequence readXFF(File xffFile,
                               String seqID,
                               FiniteAlphabet alpha)
                        throws IOException,
                               SAXException,
                               BioException

Throws:: IOException; SAXException; BioException

readXFF

public static Sequence readXFF(File xffFile,
                               String seqID)
                        throws IOException,
                               SAXException,
                               BioException

Throws:: IOException; SAXException; BioException

writeXFF

public static void writeXFF(File xffFile,
                            FeatureHolder features)
                     throws IOException

Throws:: IOException

writeXFF

public static void writeXFF(PrintWriter xffPR,
                            FeatureHolder features)
                     throws IOException

Throws:: IOException

Field Summary

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Field Detail

XFF_NS

XFF_BIOJAVA_NS

Constructor Detail

XFFTools

Method Detail

annotateXFF

annotateXFF

readXFF

readXFF

writeXFF

writeXFF