/** * Copyright (C) 2012-2013 Selventa, Inc. * * This file is part of the OpenBEL Framework. * * This program is free software; you can redistribute it and/or modify it * under the terms of the GNU Lesser General Public License as published by * the Free Software Foundation, either version 3 of the License, or * (at your option) any later version. * * The OpenBEL Framework is distributed in the hope that it will be useful, but * WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY * or FITNESS FOR A PARTICULAR PURPOSE. See the GNU Lesser General Public * License for more details. * * You should have received a copy of the GNU Lesser General Public License * along with the OpenBEL Framework. If not, see <http://www.gnu.org/licenses/>. * * Additional Terms under LGPL v3: * * This license does not authorize you and you are prohibited from using the * name, trademarks, service marks, logos or similar indicia of Selventa, Inc., * or, in the discretion of other licensors or authors of the program, the * name, trademarks, service marks, logos or similar indicia of such authors or * licensors, in any marketing or advertising materials relating to your * distribution of the program or any covered product. This restriction does * not waive or limit your obligation to keep intact all copyright notices set * forth in the program as delivered to you. * * If you distribute the program in whole or in part, or any modified version * of the program, and you assume contractual liability to the recipient with * respect to the program or modified version, then you will indemnify the * authors and licensors of the program for any liabilities that these * contractual assumptions directly impose on those licensors and authors. */ package org.openbel.framework.core.df.beldata.namespace; import static org.openbel.framework.common.BELUtilities.asPath; import java.io.File; import java.io.FileOutputStream; import java.io.IOException; import java.io.ObjectOutputStream; import org.openbel.framework.core.df.beldata.BELDataConversionException; import org.openbel.framework.core.df.beldata.BELDataMissingPropertyException; import org.openbel.framework.core.indexer.IndexingFailure; /** * NamespaceHeaderProcessor processes a namespace {@link File} to produce a * {@link NamespaceHeader} that is written to the file system. * * @author Anthony Bargnesi {@code <abargnesi@selventa.com>} */ public class NamespaceHeaderProcessor { /** * Defines the byte offset in the namespace file where the namespace header * parsing ended. This allows further parsing of a namespace file from a * known offset. */ private long characterStopOffset = -1; /** * Returns the byte offset in the namespace file where the namespace header * parsing ended. * * @return <tt>long</tt> the character offset where the parsing of a * namespace file ended */ public long getCharacterStopOffset() { return characterStopOffset; } /** * Processes a namespace {@link File} into a {@link NamespaceHeader} that * is then written to the file system. * * @param rawNamespace {@link File}, the raw namespace file to parse * @param namespaceHomeFile {@link File}, the namespace header file to * write to * @return {@link File} the file location of the local parsed namespace * header file * @throws IndexingFailure Throws an namespace indexing exception is the * namespace header processing fails */ public File processNamespaceHeader(String resourceLocation, File rawNamespace, File namespaceHomeFile) throws IndexingFailure { NamespaceHeaderParser nshParser = new NamespaceHeaderParser(); NamespaceHeader namespaceHeader; try { namespaceHeader = nshParser.parseNamespace(resourceLocation, rawNamespace); characterStopOffset = nshParser.getNextCharacterOffset(); } catch (IOException e) { final String name = rawNamespace.getAbsolutePath(); throw new IndexingFailure(name, e); } catch (BELDataMissingPropertyException e) { final String name = rawNamespace.getAbsolutePath(); throw new IndexingFailure(name, e); } catch (BELDataConversionException e) { final String name = rawNamespace.getAbsolutePath(); throw new IndexingFailure(name, e); } String output = asPath(namespaceHomeFile.getAbsolutePath(), "namespace.header"); ObjectOutputStream oos = null; try { oos = new ObjectOutputStream( new FileOutputStream(output)); oos.writeObject(namespaceHeader); return new File(output); } catch (IOException e) { final String msg = "Error writing namespace header."; throw new IndexingFailure(resourceLocation, msg, e); } finally { if (oos != null) { try { oos.close(); } catch (IOException e) {} } } } }