Main.java Source code

Introduction

Here is the source code for Main.java

Source

//package com.java2s;
/*
 * The MIT License
 *
 * Copyright (c) 2011 The Broad Institute
 *
 * Permission is hereby granted, free of charge, to any person obtaining a copy
 * of this software and associated documentation files (the "Software"), to deal
 * in the Software without restriction, including without limitation the rights
 * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
 * copies of the Software, and to permit persons to whom the Software is
 * furnished to do so, subject to the following conditions:
 *
 * The above copyright notice and this permission notice shall be included in
 * all copies or substantial portions of the Software.
 *
 * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
 * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
 * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
 * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
 * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
 * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
 * THE SOFTWARE.
 */

public class Main {
    /**
     * Parse the tile # from the read name.
     * If we find that there are other elements needed from the read name, it might be a good idea to put
     * makeReadName() and various get..() methods into a new class.
     *
     * @param readName As produced by IlluminaUtil.makeReadName()
     * @return tile number, or null if read name is not in correct format.
     */
    public static Integer getTileFromReadName(final String readName) {
        final int first = readName.indexOf(':');
        if (first > 0) {
            final int second = readName.indexOf(':', first + 1);
            if (second > 0) {
                final int third = readName.indexOf(':', second + 1);
                if (third > 0) {
                    return Integer.parseInt(readName.substring(second + 1, third));
                }
            }
        }

        return null;
    }
}