/* * The MIT License * * Copyright (c) 2013 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. */ package htsjdk.tribble; /** * A class to represent a header of a feature containing file. Specific to a codec. All * codecs must return a non-null value now for their header, but the header can be the * empty header object or the end case be set to NO_HEADER_END. * * Note that if the headerEnd value is > 0 the readers will skip the header for the codec upfront, * so that decode() doesn't have to deal with potentially seeing header records in the inputstream. * * @author Mark DePristo * @since 5/2/12 */ public class FeatureCodecHeader { /** The value of the headerEnd field when there's no header */ public final static long NO_HEADER_END = 0; /** An public instance representing no header */ public final static FeatureCodecHeader EMPTY_HEADER = new FeatureCodecHeader(null, NO_HEADER_END); private final Object headerValue; private final long headerEnd; /** * Create a FeatureCodecHeader indicating the contents of the header (can be null) * and the byte position in the file where the header ends (not inclusive). headerEnd * should be NO_HEADER_END when no header is present. * * @param headerValue the header data read by the codec * @param headerEnd the position (not inclusive) of the end of the header. 1 would * mean just the first byte of the file is the header. Zero indicates * there's no header at all */ public FeatureCodecHeader(final Object headerValue, final long headerEnd) { if ( headerEnd < 0 ) throw new TribbleException("Header end < 0"); this.headerValue = headerValue; this.headerEnd = headerEnd; } /** * @return the header value provided by the codec for this file */ public Object getHeaderValue() { return headerValue; } /** * @return to position, not inclusive, where the header ends. Must be >= 0 */ public long getHeaderEnd() { return headerEnd; } /** * @return true if we should skip some bytes to skip this header */ public boolean skipHeaderBytes() { return getHeaderEnd() != NO_HEADER_END; } }