/* * The MIT License (MIT) * * Copyright (c) 2007-2015 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. */ package org.broad.igv.bbfile; import org.apache.log4j.Logger; /** * Created by IntelliJ IDEA. * User: martind * Date: Dec 20, 2009 * Time: 10:50:26 PM * To change this template use File | Settings | File Templates. */ /* Container class for B+ Tree child node format */ public class BPTreeChildNodeItem implements BPTreeNodeItem { private static Logger log = Logger.getLogger(BPTreeChildNodeItem.class); private final boolean isLeafItem = false; private long itemIndex; // item index in child node list // B+ Tree Child Node Item entities - BBFile Table H // Note the childOffset entity is replaced with the actual instance // of the child note it points to in the file. private String chromKey; // mChromosome/contig name; of keysize chars private BPTreeNode childNode; // child node /* * Constructs a B+ tree child node item with the supplied information. * * Parameters: * itemIndex - node item index * chromKey - chromosome name key * childNode - assigned child node object * */ public BPTreeChildNodeItem(int itemIndex, String chromKey, BPTreeNode childNode){ this.itemIndex = itemIndex; this.chromKey = chromKey; this.childNode = childNode; } /* * Method returns the index assigned to this node item. * * Returns: * index assigned to this node item * */ public long getItemIndex() { return itemIndex; } /* * Method returns if this node is a leaf item. * * Returns: * false because node is a child (non-leaf) item * */ public boolean isLeafItem() { return isLeafItem; } /* * Method returns the chromosome name key assigned to this node item. * * Returns: * chromosome name key assigned to this node item * */ public String getChromKey() { return chromKey; } /* * Method compares supplied chromosome key with leaf node key. * * Parameters: * chromKey - chromosome name ley to compare * * Returns: * true, if keys are equal; false if keys are different * */ public boolean chromKeysMatch(String chromKey) { String thisKey = this.chromKey; String thatKey = chromKey; // Note: must have the same length to compare chromosome names int thisKeyLength = thisKey.length(); int thatKeyLength = thatKey.length(); // check if need to truncate the larger string if(thisKeyLength > thatKeyLength) thisKey = thisKey.substring(0,thatKeyLength); else if(thatKeyLength > thisKeyLength) thatKey = thatKey.substring(0,thisKeyLength); if (thisKey.compareTo(thatKey) == 0) return true; else return false; } public void print() { log.debug("B+ Tree child node " + itemIndex); log.debug("Key value = " + chromKey); // recursively print chid node items childNode.printItems(); } // BPTreeLeafNodeItem specific methods public BPTreeNode getChildNode() { return childNode; } }