FastqReader
public final class IlluminaFastqReader
extends java.lang.Object
FastqVariant.FASTQ_ILLUMINA
formatted sequences.Constructor | Description |
---|---|
IlluminaFastqReader() |
Modifier and Type | Method | Description |
---|---|---|
protected FastqVariant |
getVariant() |
Return the FASTQ sequence format variant for this reader.
|
void |
parse(java.lang.Readable readable,
ParseListener listener) |
Parse the specified readable.
|
java.lang.Iterable<Fastq> |
read(java.io.File file) |
Read zero or more FASTQ formatted sequences from the specified file.
|
java.lang.Iterable<Fastq> |
read(java.io.InputStream inputStream) |
Read zero or more FASTQ formatted sequences from the specified input stream.
|
java.lang.Iterable<Fastq> |
read(java.net.URL url) |
Read zero or more FASTQ formatted sequences from the specified url.
|
void |
stream(java.lang.Readable readable,
StreamListener listener) |
Stream the specified readable.
|
protected FastqVariant getVariant()
public final void parse(java.lang.Readable readable, ParseListener listener) throws java.io.IOException
FastqReader
parse
in interface FastqReader
readable
- readable, must not be nulllistener
- low-level event based parser callback, must not be nulljava.io.IOException
- if an I/O error occurspublic final void stream(java.lang.Readable readable, StreamListener listener) throws java.io.IOException
FastqReader
stream
in interface FastqReader
readable
- readable, must not be nulllistener
- event based reader callback, must not be nulljava.io.IOException
- if an I/O error occurspublic final java.lang.Iterable<Fastq> read(java.io.File file) throws java.io.IOException
FastqReader
read
in interface FastqReader
file
- file to read from, must not be nulljava.io.IOException
- if an I/O error occurspublic final java.lang.Iterable<Fastq> read(java.net.URL url) throws java.io.IOException
FastqReader
read
in interface FastqReader
url
- URL to read from, must not be nulljava.io.IOException
- if an I/O error occurspublic final java.lang.Iterable<Fastq> read(java.io.InputStream inputStream) throws java.io.IOException
FastqReader
read
in interface FastqReader
inputStream
- input stream to read from, must not be nulljava.io.IOException
- if an I/O error occurs