picard.util

Class TabbedInputParser

java.lang.Object

htsjdk.samtools.util.AbstractIterator<java.lang.String[]>

picard.util.AbstractInputParser

picard.util.BasicInputParser

picard.util.TabbedInputParser

All Implemented Interfaces:

htsjdk.samtools.util.CloseableIterator<java.lang.String[]>, java.io.Closeable, java.lang.AutoCloseable, java.lang.Iterable<java.lang.String[]>, java.util.Iterator<java.lang.String[]>

public class TabbedInputParser
extends BasicInputParser

Parser for tab-delimited files

Author:

Kathleen Tibbetts

Field Summary

Fields inherited from class htsjdk.samtools.util.AbstractIterator

next

Constructor Summary

Constructors

Constructor and Description
TabbedInputParser(boolean treatGroupedDelimitersAsOne, java.io.File... file) Constructor
TabbedInputParser(boolean treatGroupedDelimitersAsOne, java.io.InputStream... stream) Constructor

Method Summary

Modifier and Type	Method and Description
protected boolean	isDelimiter(byte b) Determines whether a given character is a delimiter

Methods inherited from class picard.util.BasicInputParser

advanceFile, close, getCurrentLine, getCurrentLineNumber, getFileName, readNextLine

Methods inherited from class picard.util.AbstractInputParser

advance, calculateWordCount, getWordCount, isBlank, isComment, isSkipBlankLines, isTreatGroupedDelimitersAsOne, iterator, setSkipBlankLines, setTreatGroupedDelimitersAsOne, setWordCount

Methods inherited from class htsjdk.samtools.util.AbstractIterator

hasNext, isIterating, next, peek, remove

Methods inherited from class java.lang.Object

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

Methods inherited from interface java.lang.Iterable

forEach, spliterator

Methods inherited from interface htsjdk.samtools.util.CloseableIterator

stream, toList

Methods inherited from interface java.util.Iterator

forEachRemaining, hasNext, next, remove

Constructor Detail

TabbedInputParser

public TabbedInputParser(boolean treatGroupedDelimitersAsOne,
                         java.io.InputStream... stream)

Constructor

Parameters:

stream - The input stream(s) to parse

TabbedInputParser

public TabbedInputParser(boolean treatGroupedDelimitersAsOne,
                         java.io.File... file)

Constructor

Parameters:

file - The file(s) to parse

Method Detail

isDelimiter

protected boolean isDelimiter(byte b)

Determines whether a given character is a delimiter

Overrides:

isDelimiter in class AbstractInputParser

Parameters:

b - the character to evaluate

Returns:

true if b is a delimiter; otherwise false