picard.sam.util

Class ReadNameParsingUtils

java.lang.Object

picard.sam.util.ReadNameParsingUtils

public class ReadNameParsingUtils
extends Object

Common functions for quickly parsing strings. Used for parsing the tile and coordinates from the read names

Constructor Summary

Constructors

Constructor and Description
ReadNameParsingUtils()

Method Summary

Methods

Modifier and Type	Method and Description
static int	getRapidDefaultReadNameRegexSplit(String readName, char delim, int[] tokens) Single pass method to parse the read name for the default regex.
static int	rapidParseInt(String input) Very specialized method to rapidly parse a sequence of digits from a String up until the first non-digit character.

Methods inherited from class java.lang.Object

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

Constructor Detail

ReadNameParsingUtils

public ReadNameParsingUtils()

Method Detail

getRapidDefaultReadNameRegexSplit

public static int getRapidDefaultReadNameRegexSplit(String readName,
                                    char delim,
                                    int[] tokens)

Single pass method to parse the read name for the default regex. This will only insert the 2nd to the 4th tokens (inclusive). It will also stop after the fifth token has been successfully parsed.

rapidParseInt

public static int rapidParseInt(String input)

Very specialized method to rapidly parse a sequence of digits from a String up until the first non-digit character.