SangerFastqWriter (biojava-legacy 1.9.5 API)

java.lang.Object
- org.biojava.bio.program.fastq.SangerFastqWriter

All Implemented Interfaces:: FastqWriter

public final class SangerFastqWriter
extends Object

Since:: 1.7.1

Constructor Summary

Constructors
Constructor Description

SangerFastqWriter()

Constructors
Constructor	Description
`SangerFastqWriter()`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`<T extends Appendable> T`	`append(T appendable, Iterable<Fastq> fastq)`	Append the specified FASTQ formatted sequences to the specified appendable.
`<T extends Appendable> T`	`append(T appendable, Fastq... fastq)`	Append the specified FASTQ formatted sequences to the specified appendable.
`protected Fastq`	`convert(Fastq fastq)`	Convert the specified FASTQ formatted sequence if necessary.
`void`	`write(File file, Iterable<Fastq> fastq)`	Write the specified FASTQ formatted sequences to the specified file.
`void`	`write(File file, Fastq... fastq)`	Write the specified FASTQ formatted sequences to the specified file.
`void`	`write(OutputStream outputStream, Iterable<Fastq> fastq)`	Write the specified FASTQ formatted sequences to the specified output stream.
`void`	`write(OutputStream outputStream, Fastq... fastq)`	Write the specified FASTQ formatted sequences to the specified output stream.

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

- Constructor Detail
  - SangerFastqWriter
```
public SangerFastqWriter()
```
- Method Detail
  - convert
```
protected Fastq convert(Fastq fastq)
```
    Convert the specified FASTQ formatted sequence if necessary.
    
    Parameters:
    
    fastq - FASTQ formatted sequence to convert, must not be null
    
    Returns:
    
    the specified FASTQ formatted sequence or a new FASTA formatted sequence if conversion is necessary
  - append
```
public final <T extends Appendable> T append(T appendable,
                                             Fastq... fastq)
                                      throws IOException
```
    Description copied from interface: FastqWriter
    
    Append the specified FASTQ formatted sequences to the specified appendable.
    
    Specified by:
    
    append in interface FastqWriter
    
    Type Parameters:
    
    T - extends Appendable
    
    Parameters:
    
    appendable - appendable to append the specified FASTQ formatted sequences to, must not be null
    
    fastq - variable number of FASTQ formatted sequences to append, must not be null
    
    Returns:
    
    the specified appendable with the specified FASTQ formatted sequences appended
    
    Throws:
    
    IOException - if an I/O error occurs
  - append
```
public final <T extends Appendable> T append(T appendable,
                                             Iterable<Fastq> fastq)
                                      throws IOException
```
    Description copied from interface: FastqWriter
    
    Append the specified FASTQ formatted sequences to the specified appendable.
    
    Specified by:
    
    append in interface FastqWriter
    
    Type Parameters:
    
    T - extends Appendable
    
    Parameters:
    
    appendable - appendable to append the specified FASTQ formatted sequences to, must not be null
    
    fastq - zero or more FASTQ formatted sequences to append, must not be null
    
    Returns:
    
    the specified appendable with the specified FASTQ formatted sequences appended
    
    Throws:
    
    IOException - if an I/O error occurs
  - write
```
public final void write(File file,
                        Fastq... fastq)
                 throws IOException
```
    Description copied from interface: FastqWriter
    
    Write the specified FASTQ formatted sequences to the specified file.
    
    Specified by:
    
    write in interface FastqWriter
    
    Parameters:
    
    file - file to write to, must not be null
    
    fastq - variable number of FASTQ formatted sequences to write, must not be null
    
    Throws:
    
    IOException - if an I/O error occurs
  - write
```
public final void write(File file,
                        Iterable<Fastq> fastq)
                 throws IOException
```
    Description copied from interface: FastqWriter
    
    Write the specified FASTQ formatted sequences to the specified file.
    
    Specified by:
    
    write in interface FastqWriter
    
    Parameters:
    
    file - file to write to, must not be null
    
    fastq - zero or more FASTQ formatted sequences to write, must not be null
    
    Throws:
    
    IOException - if an I/O error occurs
  - write
```
public final void write(OutputStream outputStream,
                        Fastq... fastq)
                 throws IOException
```
    Description copied from interface: FastqWriter
    
    Write the specified FASTQ formatted sequences to the specified output stream.
    
    Specified by:
    
    write in interface FastqWriter
    
    Parameters:
    
    outputStream - output stream to write to, must not be null
    
    fastq - variable number of FASTQ formatted sequences to write, must not be null
    
    Throws:
    
    IOException - if an I/O error occurs
  - write
```
public final void write(OutputStream outputStream,
                        Iterable<Fastq> fastq)
                 throws IOException
```
    Description copied from interface: FastqWriter
    
    Write the specified FASTQ formatted sequences to the specified output stream.
    
    Specified by:
    
    write in interface FastqWriter
    
    Parameters:
    
    outputStream - output stream to write to, must not be null
    
    fastq - zero or more FASTQ formatted sequences to write, must not be null
    
    Throws:
    
    IOException - if an I/O error occurs

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Constructor Detail

SangerFastqWriter

Method Detail

convert

append

append

write

write

write

write