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/**
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* '$RCSfile$'
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* Copyright: 2011 Regents of the University of California and the
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* National Center for Ecological Analysis and Synthesis
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*
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* '$Author$'
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* '$Date$'
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*
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* This program is free software; you can redistribute it and/or modify
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* it under the terms of the GNU General Public License as published by
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* the Free Software Foundation; either version 2 of the License, or
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* (at your option) any later version.
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*
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* This program is distributed in the hope that it will be useful,
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* but WITHOUT ANY WARRANTY; without even the implied warranty of
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* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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* GNU General Public License for more details.
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*
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* You should have received a copy of the GNU General Public License
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* along with this program; if not, write to the Free Software
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* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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*/
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package edu.ucsb.nceas.metacat.restservice.v2;
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import java.io.File;
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import java.io.FileInputStream;
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9122
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tao
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import java.io.FileNotFoundException;
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import java.io.IOException;
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import java.io.InputStream;
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import java.io.OutputStream;
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import java.util.Date;
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import java.util.Enumeration;
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import java.util.Iterator;
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import java.util.Map;
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6679
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import java.util.concurrent.ExecutorService;
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import java.util.concurrent.Executors;
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6264
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import javax.servlet.ServletContext;
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import javax.servlet.http.HttpServletRequest;
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import javax.servlet.http.HttpServletResponse;
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import javax.xml.parsers.ParserConfigurationException;
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import org.apache.commons.fileupload.FileUploadException;
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6264
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leinfelder
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import org.apache.commons.io.IOUtils;
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import org.apache.log4j.Logger;
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9235
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import org.dataone.client.v2.formats.ObjectFormatCache;
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import org.dataone.client.v2.formats.ObjectFormatInfo;
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import org.dataone.mimemultipart.MultipartRequest;
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import org.dataone.mimemultipart.MultipartRequestResolver;
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import org.dataone.portal.TokenGenerator;
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import org.dataone.service.exceptions.BaseException;
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import org.dataone.service.exceptions.IdentifierNotUnique;
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import org.dataone.service.exceptions.InsufficientResources;
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import org.dataone.service.exceptions.InvalidRequest;
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import org.dataone.service.exceptions.InvalidSystemMetadata;
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import org.dataone.service.exceptions.InvalidToken;
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import org.dataone.service.exceptions.NotAuthorized;
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import org.dataone.service.exceptions.NotFound;
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import org.dataone.service.exceptions.NotImplemented;
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import org.dataone.service.exceptions.ServiceFailure;
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import org.dataone.service.exceptions.SynchronizationFailed;
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import org.dataone.service.exceptions.UnsupportedType;
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import org.dataone.service.types.v1.Checksum;
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import org.dataone.service.types.v1.DescribeResponse;
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import org.dataone.service.types.v1.Identifier;
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import org.dataone.service.types.v1.NodeReference;
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import org.dataone.service.types.v1.ObjectFormatIdentifier;
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import org.dataone.service.types.v1.ObjectList;
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import org.dataone.service.types.v1.Permission;
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import org.dataone.service.types.v1.Person;
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import org.dataone.service.types.v1.Subject;
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import org.dataone.service.types.v1.SubjectInfo;
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import org.dataone.service.types.v1_1.QueryEngineDescription;
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import org.dataone.service.types.v1_1.QueryEngineList;
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import org.dataone.service.types.v2.Log;
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import org.dataone.service.types.v2.MediaType;
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import org.dataone.service.types.v2.MediaTypeProperty;
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import org.dataone.service.types.v2.Node;
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import org.dataone.service.types.v2.ObjectFormat;
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import org.dataone.service.types.v2.OptionList;
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import org.dataone.service.types.v2.SystemMetadata;
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import org.dataone.service.util.Constants;
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import org.dataone.service.util.DateTimeMarshaller;
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import org.dataone.service.util.ExceptionHandler;
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import org.dataone.service.util.TypeMarshaller;
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import org.jibx.runtime.JiBXException;
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import org.xml.sax.SAXException;
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import edu.ucsb.nceas.metacat.MetaCatServlet;
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import edu.ucsb.nceas.metacat.common.query.stream.ContentTypeInputStream;
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6264
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leinfelder
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import edu.ucsb.nceas.metacat.dataone.MNodeService;
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6994
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import edu.ucsb.nceas.metacat.properties.PropertyService;
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import edu.ucsb.nceas.metacat.restservice.D1ResourceHandler;
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8160
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import edu.ucsb.nceas.metacat.util.DeleteOnCloseFileInputStream;
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6994
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import edu.ucsb.nceas.utilities.PropertyNotFoundException;
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leinfelder
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/**
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* MN REST service implementation handler
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*
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* ******************
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* MNCore -- DONE
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* ping() - GET /d1/mn/monitor/ping
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* log() - GET /d1/mn/log
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* **getObjectStatistics() - GET /d1/mn/monitor/object
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* getOperationsStatistics - GET /d1/mn/monitor/event
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* **getStatus - GET /d1/mn/monitor/status
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* getCapabilities() - GET /d1/mn/ and /d1/mn/node
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*
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* MNRead -- DONE
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* get() - GET /d1/mn/object/PID
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* getSystemMetadata() - GET /d1/mn/meta/PID
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* describe() - HEAD /d1/mn/object/PID
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* getChecksum() - GET /d1/mn/checksum/PID
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* listObjects() - GET /d1/mn/object
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* synchronizationFailed() - POST /d1/mn/error
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*
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* MNAuthorization -- DONE
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* isAuthorized() - GET /d1/mn/isAuthorized/PID
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* setAccessPolicy() - PUT /d1/mn/accessRules/PID
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*
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* MNStorage - DONE
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* create() - POST /d1/mn/object/PID
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* update() - PUT /d1/mn/object/PID
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* delete() - DELETE /d1/mn/object/PID
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* archive() - PUT /d1/mn/archive/PID
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* updateSystemMetadata() - PUT /d1/mn/meta
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* systemMetadataChanged() - POST /dirtySystemMetadata/PID
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*
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* MNReplication
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* replicate() - POST /d1/mn/replicate
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6604
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cjones
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* getReplica() - GET /d1/mn/replica
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*
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* ******************
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* @author leinfelder
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*
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*/
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public class MNResourceHandler extends D1ResourceHandler {
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// MN-specific API Resources
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protected static final String RESOURCE_MONITOR = "monitor";
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protected static final String RESOURCE_REPLICATE = "replicate";
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protected static final String RESOURCE_REPLICAS = "replica";
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protected static final String RESOURCE_NODE = "node";
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protected static final String RESOURCE_ERROR = "error";
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protected static final String RESOURCE_META_CHANGED = "dirtySystemMetadata";
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protected static final String RESOURCE_GENERATE_ID = "generate";
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protected static final String RESOURCE_PUBLISH = "publish";
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protected static final String RESOURCE_PACKAGE = "packages";
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protected static final String RESOURCE_TOKEN = "token";
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9173
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protected static final String RESOURCE_WHOAMI = "whoami";
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7143
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leinfelder
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// shared executor
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private static ExecutorService executor = null;
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7143
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leinfelder
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static {
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// use a shared executor service with nThreads == one less than available processors
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int availableProcessors = Runtime.getRuntime().availableProcessors();
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int nThreads = availableProcessors * 1;
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nThreads--;
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7183
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nThreads = Math.max(1, nThreads);
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7143
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executor = Executors.newFixedThreadPool(nThreads);
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}
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167 |
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6264
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leinfelder
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/**
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* Initializes new instance by setting servlet context,request and response
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* */
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public MNResourceHandler(ServletContext servletContext,
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HttpServletRequest request, HttpServletResponse response) {
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super(servletContext, request, response);
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logMetacat = Logger.getLogger(MNResourceHandler.class);
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}
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@Override
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protected boolean isD1Enabled() {
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boolean enabled = false;
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try {
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182 |
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enabled = Boolean.parseBoolean(PropertyService.getProperty("dataone.mn.services.enabled"));
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} catch (PropertyNotFoundException e) {
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logMetacat.error("Could not check if DataONE is enabled: " + e.getMessage());
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}
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return enabled;
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}
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leinfelder
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/**
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191 |
6271
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leinfelder
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* This function is called from REST API servlet and handles each request to the servlet
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192 |
6264
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leinfelder
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*
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* @param httpVerb (GET, POST, PUT or DELETE)
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*/
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195 |
6271
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leinfelder
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@Override
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196 |
6264
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leinfelder
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public void handle(byte httpVerb) {
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197 |
6271
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leinfelder
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// prepare the handler
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super.handle(httpVerb);
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6264
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leinfelder
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try {
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6994
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leinfelder
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202 |
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// only service requests if we have D1 configured
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203 |
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if (!isD1Enabled()) {
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ServiceFailure se = new ServiceFailure("0000", "DataONE services are not enabled on this node");
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serializeException(se, response.getOutputStream());
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return;
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}
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209 |
6284
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leinfelder
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// get the resource
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String resource = request.getPathInfo();
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resource = resource.substring(resource.indexOf("/") + 1);
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212 |
6264
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leinfelder
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213 |
6284
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leinfelder
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// default to node info
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if (resource.equals("")) {
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215 |
6264
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leinfelder
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resource = RESOURCE_NODE;
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}
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217 |
6284
|
leinfelder
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// get the rest of the path info
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219 |
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String extra = null;
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220 |
6264
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leinfelder
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221 |
6272
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leinfelder
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logMetacat.debug("handling verb " + httpVerb + " request with resource '" + resource + "'");
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logMetacat.debug("resource: '" + resource + "'");
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223 |
6264
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leinfelder
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boolean status = false;
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if (resource != null) {
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227 |
6284
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leinfelder
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if (resource.startsWith(RESOURCE_NODE)) {
|
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6264
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leinfelder
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// node response
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node();
|
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status = true;
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8874
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leinfelder
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} else if (resource.startsWith(RESOURCE_TOKEN)) {
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logMetacat.debug("Using resource 'token'");
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// get
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234 |
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if (httpVerb == GET) {
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// after the command
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getToken();
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237 |
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status = true;
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}
|
239 |
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240 |
9173
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leinfelder
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} else if (resource.startsWith(RESOURCE_WHOAMI)) {
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241 |
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logMetacat.debug("Using resource 'whoami'");
|
242 |
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// get
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243 |
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if (httpVerb == GET) {
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244 |
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// after the command
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245 |
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whoami();
|
246 |
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status = true;
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247 |
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}
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248 |
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249 |
6284
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leinfelder
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} else if (resource.startsWith(RESOURCE_IS_AUTHORIZED)) {
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250 |
6264
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leinfelder
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if (httpVerb == GET) {
|
251 |
6514
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leinfelder
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// after the command
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252 |
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extra = parseTrailing(resource, RESOURCE_IS_AUTHORIZED);
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253 |
9300
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tao
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extra = decode(extra);
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254 |
6264
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leinfelder
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// check the access rules
|
255 |
6284
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leinfelder
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isAuthorized(extra);
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256 |
6264
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leinfelder
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status = true;
|
257 |
6272
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leinfelder
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logMetacat.debug("done getting access");
|
258 |
6264
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leinfelder
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}
|
259 |
6284
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leinfelder
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} else if (resource.startsWith(RESOURCE_META)) {
|
260 |
6272
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leinfelder
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logMetacat.debug("Using resource 'meta'");
|
261 |
6264
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leinfelder
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// get
|
262 |
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if (httpVerb == GET) {
|
263 |
9122
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tao
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logMetacat.debug("Using resource 'meta' for GET");
|
264 |
6514
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leinfelder
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// after the command
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265 |
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extra = parseTrailing(resource, RESOURCE_META);
|
266 |
9300
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tao
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extra = decode(extra);
|
267 |
6284
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leinfelder
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getSystemMetadataObject(extra);
|
268 |
6264
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leinfelder
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status = true;
|
269 |
9122
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tao
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} else if (httpVerb == PUT) {
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270 |
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logMetacat.debug("Using resource 'meta' for PUT");
|
271 |
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updateSystemMetadata();
|
272 |
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status = true;
|
273 |
6264
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leinfelder
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}
|
274 |
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275 |
6284
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leinfelder
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} else if (resource.startsWith(RESOURCE_OBJECTS)) {
|
276 |
6272
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leinfelder
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logMetacat.debug("Using resource 'object'");
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277 |
6514
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leinfelder
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// after the command
|
278 |
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extra = parseTrailing(resource, RESOURCE_OBJECTS);
|
279 |
9300
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tao
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extra = decode(extra);
|
280 |
6284
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leinfelder
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logMetacat.debug("objectId: " + extra);
|
281 |
6264
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leinfelder
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logMetacat.debug("verb:" + httpVerb);
|
282 |
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|
283 |
|
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if (httpVerb == GET) {
|
284 |
6284
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leinfelder
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getObject(extra);
|
285 |
6264
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leinfelder
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status = true;
|
286 |
|
|
} else if (httpVerb == POST) {
|
287 |
6972
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leinfelder
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// part of the params, not the URL
|
288 |
|
|
putObject(null, FUNCTION_NAME_INSERT);
|
289 |
6264
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leinfelder
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status = true;
|
290 |
|
|
} else if (httpVerb == PUT) {
|
291 |
6284
|
leinfelder
|
putObject(extra, FUNCTION_NAME_UPDATE);
|
292 |
6264
|
leinfelder
|
status = true;
|
293 |
|
|
} else if (httpVerb == DELETE) {
|
294 |
6284
|
leinfelder
|
deleteObject(extra);
|
295 |
6264
|
leinfelder
|
status = true;
|
296 |
|
|
} else if (httpVerb == HEAD) {
|
297 |
6284
|
leinfelder
|
describeObject(extra);
|
298 |
6264
|
leinfelder
|
status = true;
|
299 |
|
|
}
|
300 |
|
|
|
301 |
6284
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_LOG)) {
|
302 |
6272
|
leinfelder
|
logMetacat.debug("Using resource 'log'");
|
303 |
6264
|
leinfelder
|
// handle log events
|
304 |
|
|
if (httpVerb == GET) {
|
305 |
|
|
getLog();
|
306 |
|
|
status = true;
|
307 |
|
|
}
|
308 |
7153
|
leinfelder
|
} else if (resource.startsWith(Constants.RESOURCE_ARCHIVE)) {
|
309 |
|
|
logMetacat.debug("Using resource " + Constants.RESOURCE_ARCHIVE);
|
310 |
|
|
// handle archive events
|
311 |
|
|
if (httpVerb == PUT) {
|
312 |
|
|
extra = parseTrailing(resource, Constants.RESOURCE_ARCHIVE);
|
313 |
9300
|
tao
|
extra = decode(extra);
|
314 |
7153
|
leinfelder
|
archive(extra);
|
315 |
|
|
status = true;
|
316 |
|
|
}
|
317 |
7019
|
leinfelder
|
} else if (resource.startsWith(Constants.RESOURCE_CHECKSUM)) {
|
318 |
6272
|
leinfelder
|
logMetacat.debug("Using resource 'checksum'");
|
319 |
6264
|
leinfelder
|
// handle checksum requests
|
320 |
|
|
if (httpVerb == GET) {
|
321 |
6514
|
leinfelder
|
// after the command
|
322 |
7019
|
leinfelder
|
extra = parseTrailing(resource, Constants.RESOURCE_CHECKSUM);
|
323 |
9300
|
tao
|
extra = decode(extra);
|
324 |
6284
|
leinfelder
|
checksum(extra);
|
325 |
6264
|
leinfelder
|
status = true;
|
326 |
|
|
}
|
327 |
|
|
} else if (resource.startsWith(RESOURCE_MONITOR)) {
|
328 |
|
|
// there are various parts to monitoring
|
329 |
|
|
if (httpVerb == GET) {
|
330 |
6514
|
leinfelder
|
// after the command
|
331 |
|
|
extra = parseTrailing(resource, RESOURCE_MONITOR);
|
332 |
9300
|
tao
|
extra = decode(extra);
|
333 |
6803
|
leinfelder
|
// ping
|
334 |
|
|
if (extra.toLowerCase().equals("ping")) {
|
335 |
|
|
logMetacat.debug("processing ping request");
|
336 |
|
|
Date result = MNodeService.getInstance(request).ping();
|
337 |
|
|
// TODO: send to output
|
338 |
|
|
status = true;
|
339 |
|
|
|
340 |
|
|
}
|
341 |
|
|
|
342 |
6264
|
leinfelder
|
}
|
343 |
6284
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_REPLICATE)) {
|
344 |
6264
|
leinfelder
|
if (httpVerb == POST) {
|
345 |
6272
|
leinfelder
|
logMetacat.debug("processing replicate request");
|
346 |
6264
|
leinfelder
|
replicate();
|
347 |
|
|
status = true;
|
348 |
|
|
}
|
349 |
6284
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_ERROR)) {
|
350 |
6264
|
leinfelder
|
// sync error
|
351 |
|
|
if (httpVerb == POST) {
|
352 |
|
|
syncError();
|
353 |
|
|
status = true;
|
354 |
|
|
}
|
355 |
6604
|
cjones
|
} else if (resource.startsWith(RESOURCE_META_CHANGED)) {
|
356 |
|
|
// system metadata changed
|
357 |
|
|
if (httpVerb == POST) {
|
358 |
6650
|
leinfelder
|
systemMetadataChanged();
|
359 |
6604
|
cjones
|
status = true;
|
360 |
|
|
}
|
361 |
|
|
} else if (resource.startsWith(RESOURCE_REPLICAS)) {
|
362 |
|
|
// get replica
|
363 |
|
|
if (httpVerb == GET) {
|
364 |
|
|
extra = parseTrailing(resource, RESOURCE_REPLICAS);
|
365 |
9300
|
tao
|
extra = decode(extra);
|
366 |
6604
|
cjones
|
getReplica(extra);
|
367 |
|
|
status = true;
|
368 |
|
|
}
|
369 |
7417
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_QUERY)) {
|
370 |
|
|
logMetacat.debug("Using resource " + RESOURCE_QUERY);
|
371 |
|
|
// after the command
|
372 |
|
|
extra = parseTrailing(resource, RESOURCE_QUERY);
|
373 |
|
|
logMetacat.debug("query extra: " + extra);
|
374 |
|
|
|
375 |
|
|
String engine = null;
|
376 |
|
|
String query = null;
|
377 |
|
|
|
378 |
|
|
if (extra != null) {
|
379 |
|
|
// get the engine
|
380 |
|
|
int engineIndex = extra.length();
|
381 |
|
|
if (extra.indexOf("/") > -1) {
|
382 |
|
|
engineIndex = extra.indexOf("/");
|
383 |
|
|
}
|
384 |
|
|
engine = extra.substring(0, engineIndex);
|
385 |
9300
|
tao
|
engine = decode(engine);
|
386 |
7417
|
leinfelder
|
logMetacat.debug("query engine: " + engine);
|
387 |
|
|
|
388 |
9333
|
leinfelder
|
// check the query string first
|
389 |
|
|
query = request.getQueryString();
|
390 |
|
|
|
391 |
|
|
// if null, look at the whole endpoint
|
392 |
|
|
if (query == null) {
|
393 |
|
|
// get the query if it is there
|
394 |
|
|
query = extra.substring(engineIndex, extra.length());
|
395 |
|
|
if (query != null && query.length() == 0) {
|
396 |
|
|
query = null;
|
397 |
|
|
} else {
|
398 |
|
|
if (query.startsWith("/")) {
|
399 |
|
|
query = query.substring(1);
|
400 |
|
|
}
|
401 |
|
|
}
|
402 |
7417
|
leinfelder
|
}
|
403 |
9333
|
leinfelder
|
|
404 |
9300
|
tao
|
query = decode(query);
|
405 |
7417
|
leinfelder
|
logMetacat.debug("query: " + query);
|
406 |
|
|
|
407 |
|
|
}
|
408 |
|
|
logMetacat.debug("verb:" + httpVerb);
|
409 |
|
|
if (httpVerb == GET) {
|
410 |
|
|
doQuery(engine, query);
|
411 |
|
|
status = true;
|
412 |
|
|
}
|
413 |
7441
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_GENERATE_ID)) {
|
414 |
|
|
// generate an id
|
415 |
|
|
if (httpVerb == POST) {
|
416 |
|
|
generateIdentifier();
|
417 |
|
|
status = true;
|
418 |
|
|
}
|
419 |
7864
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_PUBLISH)) {
|
420 |
|
|
logMetacat.debug("Using resource: " + RESOURCE_PUBLISH);
|
421 |
|
|
// PUT
|
422 |
|
|
if (httpVerb == PUT) {
|
423 |
|
|
// after the command
|
424 |
|
|
extra = parseTrailing(resource, RESOURCE_PUBLISH);
|
425 |
9300
|
tao
|
extra = decode(extra);
|
426 |
7864
|
leinfelder
|
publish(extra);
|
427 |
|
|
status = true;
|
428 |
|
|
}
|
429 |
7855
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_PACKAGE)) {
|
430 |
|
|
logMetacat.debug("Using resource: " + RESOURCE_PACKAGE);
|
431 |
8810
|
leinfelder
|
// after the command
|
432 |
|
|
extra = parseTrailing(resource, RESOURCE_PACKAGE);
|
433 |
|
|
|
434 |
|
|
String format = null;
|
435 |
|
|
String pid = null;
|
436 |
|
|
|
437 |
|
|
if (extra != null) {
|
438 |
|
|
// get the format
|
439 |
|
|
int formatIndex = extra.length();
|
440 |
|
|
if (extra.indexOf("/") > -1) {
|
441 |
|
|
formatIndex = extra.indexOf("/");
|
442 |
|
|
}
|
443 |
|
|
format = extra.substring(0, formatIndex);
|
444 |
9300
|
tao
|
format = decode(format);
|
445 |
8810
|
leinfelder
|
logMetacat.debug("package format: " + format);
|
446 |
|
|
|
447 |
|
|
// get the pid if it is there
|
448 |
|
|
pid = extra.substring(formatIndex, extra.length());
|
449 |
|
|
if (pid != null && pid.length() == 0) {
|
450 |
|
|
pid = null;
|
451 |
|
|
} else {
|
452 |
|
|
if (pid.startsWith("/")) {
|
453 |
|
|
pid = pid.substring(1);
|
454 |
|
|
}
|
455 |
|
|
}
|
456 |
9300
|
tao
|
pid = decode(pid);
|
457 |
8810
|
leinfelder
|
logMetacat.debug("pid: " + pid);
|
458 |
|
|
|
459 |
|
|
}
|
460 |
|
|
|
461 |
7855
|
leinfelder
|
// get
|
462 |
|
|
if (httpVerb == GET) {
|
463 |
8810
|
leinfelder
|
|
464 |
|
|
getPackage(format, pid);
|
465 |
7855
|
leinfelder
|
status = true;
|
466 |
7861
|
leinfelder
|
}
|
467 |
|
|
} else if (resource.startsWith(RESOURCE_VIEWS)) {
|
468 |
|
|
logMetacat.debug("Using resource " + RESOURCE_VIEWS);
|
469 |
|
|
// after the command
|
470 |
|
|
extra = parseTrailing(resource, RESOURCE_VIEWS);
|
471 |
|
|
logMetacat.debug("view extra: " + extra);
|
472 |
|
|
|
473 |
|
|
String format = null;
|
474 |
|
|
String pid = null;
|
475 |
|
|
|
476 |
|
|
if (extra != null) {
|
477 |
|
|
// get the format
|
478 |
|
|
int formatIndex = extra.length();
|
479 |
|
|
if (extra.indexOf("/") > -1) {
|
480 |
|
|
formatIndex = extra.indexOf("/");
|
481 |
|
|
}
|
482 |
|
|
format = extra.substring(0, formatIndex);
|
483 |
9300
|
tao
|
format = decode(format);
|
484 |
7861
|
leinfelder
|
logMetacat.debug("view format: " + format);
|
485 |
|
|
|
486 |
|
|
// get the pid if it is there
|
487 |
|
|
pid = extra.substring(formatIndex, extra.length());
|
488 |
|
|
if (pid != null && pid.length() == 0) {
|
489 |
|
|
pid = null;
|
490 |
|
|
} else {
|
491 |
|
|
if (pid.startsWith("/")) {
|
492 |
|
|
pid = pid.substring(1);
|
493 |
|
|
}
|
494 |
|
|
}
|
495 |
9300
|
tao
|
pid = decode(pid);
|
496 |
7861
|
leinfelder
|
logMetacat.debug("pid: " + pid);
|
497 |
|
|
|
498 |
|
|
}
|
499 |
|
|
logMetacat.debug("verb:" + httpVerb);
|
500 |
|
|
if (httpVerb == GET) {
|
501 |
|
|
doViews(format, pid);
|
502 |
|
|
status = true;
|
503 |
|
|
}
|
504 |
9301
|
tao
|
} else {
|
505 |
|
|
throw new InvalidRequest("0000", "No resource matched for " + resource);
|
506 |
|
|
}
|
507 |
6264
|
leinfelder
|
|
508 |
|
|
if (!status) {
|
509 |
6273
|
leinfelder
|
throw new ServiceFailure("0000", "Unknown error, status = " + status);
|
510 |
6264
|
leinfelder
|
}
|
511 |
|
|
} else {
|
512 |
6273
|
leinfelder
|
throw new InvalidRequest("0000", "No resource matched for " + resource);
|
513 |
6264
|
leinfelder
|
}
|
514 |
|
|
} catch (BaseException be) {
|
515 |
|
|
// report Exceptions as clearly as possible
|
516 |
|
|
OutputStream out = null;
|
517 |
|
|
try {
|
518 |
|
|
out = response.getOutputStream();
|
519 |
|
|
} catch (IOException e) {
|
520 |
|
|
logMetacat.error("Could not get output stream from response", e);
|
521 |
|
|
}
|
522 |
|
|
serializeException(be, out);
|
523 |
|
|
} catch (Exception e) {
|
524 |
6273
|
leinfelder
|
// report Exceptions as clearly and generically as possible
|
525 |
|
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
526 |
|
|
OutputStream out = null;
|
527 |
|
|
try {
|
528 |
|
|
out = response.getOutputStream();
|
529 |
|
|
} catch (IOException ioe) {
|
530 |
|
|
logMetacat.error("Could not get output stream from response", ioe);
|
531 |
|
|
}
|
532 |
|
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
533 |
|
|
serializeException(se, out);
|
534 |
6264
|
leinfelder
|
}
|
535 |
|
|
}
|
536 |
|
|
|
537 |
6604
|
cjones
|
|
538 |
7417
|
leinfelder
|
private void doQuery(String engine, String query) {
|
539 |
|
|
|
540 |
|
|
OutputStream out = null;
|
541 |
|
|
|
542 |
|
|
try {
|
543 |
|
|
// NOTE: we set the session explicitly for the MNode instance since these methods do not provide a parameter
|
544 |
|
|
if (engine == null) {
|
545 |
|
|
// just looking for list of engines
|
546 |
|
|
MNodeService mnode = MNodeService.getInstance(request);
|
547 |
|
|
mnode.setSession(session);
|
548 |
8810
|
leinfelder
|
QueryEngineList qel = mnode.listQueryEngines(session);
|
549 |
7417
|
leinfelder
|
response.setContentType("text/xml");
|
550 |
|
|
response.setStatus(200);
|
551 |
|
|
out = response.getOutputStream();
|
552 |
|
|
TypeMarshaller.marshalTypeToOutputStream(qel, out);
|
553 |
|
|
return;
|
554 |
|
|
} else {
|
555 |
|
|
if (query != null) {
|
556 |
|
|
MNodeService mnode = MNodeService.getInstance(request);
|
557 |
|
|
mnode.setSession(session);
|
558 |
8810
|
leinfelder
|
InputStream stream = mnode.query(session, engine, query);
|
559 |
7417
|
leinfelder
|
|
560 |
7757
|
leinfelder
|
// set the content-type if we have it from the implementation
|
561 |
|
|
if (stream instanceof ContentTypeInputStream) {
|
562 |
|
|
//response.setContentType("application/octet-stream");
|
563 |
|
|
//response.setContentType("text/xml");
|
564 |
|
|
response.setContentType(((ContentTypeInputStream) stream).getContentType());
|
565 |
|
|
}
|
566 |
7417
|
leinfelder
|
response.setStatus(200);
|
567 |
|
|
out = response.getOutputStream();
|
568 |
|
|
// write the results to the output stream
|
569 |
|
|
IOUtils.copyLarge(stream, out);
|
570 |
|
|
return;
|
571 |
|
|
} else {
|
572 |
|
|
MNodeService mnode = MNodeService.getInstance(request);
|
573 |
|
|
mnode.setSession(session);
|
574 |
8810
|
leinfelder
|
QueryEngineDescription qed = mnode.getQueryEngineDescription(session, engine);
|
575 |
7417
|
leinfelder
|
response.setContentType("text/xml");
|
576 |
|
|
response.setStatus(200);
|
577 |
|
|
out = response.getOutputStream();
|
578 |
|
|
TypeMarshaller.marshalTypeToOutputStream(qed, out);
|
579 |
|
|
return;
|
580 |
|
|
}
|
581 |
|
|
}
|
582 |
|
|
|
583 |
|
|
|
584 |
|
|
} catch (BaseException be) {
|
585 |
|
|
// report Exceptions as clearly as possible
|
586 |
|
|
try {
|
587 |
|
|
out = response.getOutputStream();
|
588 |
|
|
} catch (IOException e) {
|
589 |
|
|
logMetacat.error("Could not get output stream from response", e);
|
590 |
|
|
}
|
591 |
|
|
serializeException(be, out);
|
592 |
|
|
} catch (Exception e) {
|
593 |
|
|
// report Exceptions as clearly and generically as possible
|
594 |
|
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
595 |
|
|
try {
|
596 |
|
|
out = response.getOutputStream();
|
597 |
|
|
} catch (IOException ioe) {
|
598 |
|
|
logMetacat.error("Could not get output stream from response", ioe);
|
599 |
|
|
}
|
600 |
|
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
601 |
|
|
serializeException(se, out);
|
602 |
|
|
}
|
603 |
|
|
}
|
604 |
|
|
|
605 |
7861
|
leinfelder
|
private void doViews(String format, String pid) {
|
606 |
|
|
|
607 |
|
|
OutputStream out = null;
|
608 |
|
|
MNodeService mnode = MNodeService.getInstance(request);
|
609 |
|
|
|
610 |
|
|
try {
|
611 |
|
|
// get a list of views
|
612 |
|
|
if (pid != null) {
|
613 |
|
|
Identifier identifier = new Identifier();
|
614 |
|
|
identifier.setValue(pid);
|
615 |
8810
|
leinfelder
|
InputStream stream = mnode.view(session, format, identifier);
|
616 |
7861
|
leinfelder
|
|
617 |
|
|
// set the content-type if we have it from the implementation
|
618 |
|
|
if (stream instanceof ContentTypeInputStream) {
|
619 |
|
|
response.setContentType(((ContentTypeInputStream) stream).getContentType());
|
620 |
|
|
}
|
621 |
|
|
response.setStatus(200);
|
622 |
|
|
out = response.getOutputStream();
|
623 |
|
|
// write the results to the output stream
|
624 |
|
|
IOUtils.copyLarge(stream, out);
|
625 |
|
|
return;
|
626 |
|
|
} else {
|
627 |
|
|
// TODO: list the registered views
|
628 |
9148
|
tao
|
//BaseException ni = new NotImplemented("9999", "MN.listViews() is not implemented at this node");
|
629 |
|
|
//throw ni;
|
630 |
|
|
OptionList list = mnode.listViews(session);
|
631 |
|
|
|
632 |
|
|
response.setContentType("text/xml");
|
633 |
|
|
response.setStatus(200);
|
634 |
|
|
TypeMarshaller.marshalTypeToOutputStream(list, response.getOutputStream());
|
635 |
7861
|
leinfelder
|
}
|
636 |
|
|
|
637 |
|
|
|
638 |
|
|
} catch (BaseException be) {
|
639 |
|
|
// report Exceptions as clearly as possible
|
640 |
|
|
try {
|
641 |
|
|
out = response.getOutputStream();
|
642 |
|
|
} catch (IOException e) {
|
643 |
|
|
logMetacat.error("Could not get output stream from response", e);
|
644 |
|
|
}
|
645 |
|
|
serializeException(be, out);
|
646 |
|
|
} catch (Exception e) {
|
647 |
|
|
// report Exceptions as clearly and generically as possible
|
648 |
|
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
649 |
|
|
try {
|
650 |
|
|
out = response.getOutputStream();
|
651 |
|
|
} catch (IOException ioe) {
|
652 |
|
|
logMetacat.error("Could not get output stream from response", ioe);
|
653 |
|
|
}
|
654 |
|
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
655 |
|
|
serializeException(se, out);
|
656 |
|
|
}
|
657 |
|
|
}
|
658 |
7417
|
leinfelder
|
|
659 |
6273
|
leinfelder
|
/**
|
660 |
6604
|
cjones
|
* Handles notification of system metadata changes for the given identifier
|
661 |
|
|
*
|
662 |
|
|
* @param id the identifier for the object
|
663 |
|
|
* @throws InvalidToken
|
664 |
|
|
* @throws InvalidRequest
|
665 |
|
|
* @throws NotAuthorized
|
666 |
|
|
* @throws ServiceFailure
|
667 |
|
|
* @throws NotImplemented
|
668 |
|
|
*/
|
669 |
6650
|
leinfelder
|
private void systemMetadataChanged()
|
670 |
6604
|
cjones
|
throws NotImplemented, ServiceFailure, NotAuthorized, InvalidRequest,
|
671 |
|
|
InvalidToken {
|
672 |
|
|
|
673 |
9327
|
tao
|
//final long serialVersion = 0L;
|
674 |
6604
|
cjones
|
String serialVersionStr = null;
|
675 |
|
|
String dateSysMetaLastModifiedStr = null;
|
676 |
|
|
|
677 |
6660
|
leinfelder
|
// mkae sure we have the multipart params
|
678 |
|
|
try {
|
679 |
|
|
initMultipartParams();
|
680 |
|
|
} catch (Exception e1) {
|
681 |
|
|
throw new ServiceFailure("1333", "Could not collect the multipart params for the request");
|
682 |
|
|
}
|
683 |
|
|
|
684 |
6650
|
leinfelder
|
// get the pid
|
685 |
9327
|
tao
|
String id = null;
|
686 |
6650
|
leinfelder
|
try {
|
687 |
9327
|
tao
|
id = multipartparams.get("pid").get(0);
|
688 |
6650
|
leinfelder
|
} catch (NullPointerException e) {
|
689 |
|
|
String msg = "The 'pid' must be provided as a parameter and was not.";
|
690 |
|
|
logMetacat.error(msg);
|
691 |
|
|
throw new InvalidRequest("1334", msg);
|
692 |
9327
|
tao
|
}
|
693 |
|
|
final Identifier pid = new Identifier();
|
694 |
|
|
pid.setValue(id);
|
695 |
6650
|
leinfelder
|
|
696 |
6604
|
cjones
|
// get the serialVersion
|
697 |
|
|
try {
|
698 |
6660
|
leinfelder
|
serialVersionStr = multipartparams.get("serialVersion").get(0);
|
699 |
6604
|
cjones
|
} catch (NullPointerException e) {
|
700 |
|
|
String msg = "The 'serialVersion' must be provided as a parameter and was not.";
|
701 |
|
|
logMetacat.error(msg);
|
702 |
|
|
throw new InvalidRequest("1334", msg);
|
703 |
|
|
|
704 |
9327
|
tao
|
}
|
705 |
6604
|
cjones
|
|
706 |
9327
|
tao
|
final long serialVersion = (new Long(serialVersionStr)).longValue();
|
707 |
|
|
|
708 |
6604
|
cjones
|
// get the dateSysMetaLastModified
|
709 |
|
|
try {
|
710 |
6660
|
leinfelder
|
dateSysMetaLastModifiedStr = multipartparams.get("dateSysMetaLastModified").get(0);
|
711 |
6604
|
cjones
|
|
712 |
9327
|
tao
|
|
713 |
6604
|
cjones
|
} catch (NullPointerException e) {
|
714 |
|
|
String msg =
|
715 |
|
|
"The 'dateSysMetaLastModified' must be provided as a " +
|
716 |
|
|
"parameter and was not, or was an invalid representation of the timestamp.";
|
717 |
|
|
logMetacat.error(msg);
|
718 |
|
|
throw new InvalidRequest("1334", msg);
|
719 |
|
|
|
720 |
9327
|
tao
|
}
|
721 |
|
|
final Date dateSysMetaLastModified = DateTimeMarshaller.deserializeDateToUTC(dateSysMetaLastModifiedStr);
|
722 |
6604
|
cjones
|
|
723 |
9327
|
tao
|
// run it in a thread to avoid connection timeout
|
724 |
|
|
Runnable runner = new Runnable() {
|
725 |
|
|
@Override
|
726 |
|
|
public void run() {
|
727 |
|
|
try {
|
728 |
|
|
// call the service
|
729 |
|
|
MNodeService.getInstance(request).systemMetadataChanged(session, pid, serialVersion, dateSysMetaLastModified);
|
730 |
|
|
} catch (Exception e) {
|
731 |
|
|
logMetacat.error("Error running replication: " + e.getMessage(), e);
|
732 |
|
|
throw new RuntimeException(e.getMessage(), e);
|
733 |
|
|
}
|
734 |
|
|
}
|
735 |
|
|
};
|
736 |
|
|
// submit the task, and that's it
|
737 |
|
|
executor.submit(runner);
|
738 |
|
|
|
739 |
|
|
// thread was started, so we return success
|
740 |
6604
|
cjones
|
response.setStatus(200);
|
741 |
|
|
}
|
742 |
7441
|
leinfelder
|
|
743 |
|
|
/**
|
744 |
|
|
* Handles identifier generation calls
|
745 |
|
|
*
|
746 |
|
|
* @throws InvalidRequest
|
747 |
|
|
* @throws NotImplemented
|
748 |
|
|
* @throws NotAuthorized
|
749 |
|
|
* @throws ServiceFailure
|
750 |
|
|
* @throws InvalidToken
|
751 |
|
|
* @throws IOException
|
752 |
|
|
* @throws JiBXException
|
753 |
|
|
*/
|
754 |
|
|
private void generateIdentifier() throws InvalidToken, ServiceFailure, NotAuthorized, NotImplemented, InvalidRequest, IOException, JiBXException {
|
755 |
|
|
|
756 |
|
|
// make sure we have the multipart params
|
757 |
|
|
try {
|
758 |
|
|
initMultipartParams();
|
759 |
|
|
} catch (Exception e1) {
|
760 |
|
|
throw new ServiceFailure("1333", "Could not collect the multipart params for the request");
|
761 |
|
|
}
|
762 |
|
|
|
763 |
|
|
// get the scheme
|
764 |
|
|
String scheme = null;
|
765 |
|
|
try {
|
766 |
|
|
scheme = multipartparams.get("scheme").get(0);
|
767 |
|
|
} catch (NullPointerException e) {
|
768 |
|
|
String msg = "The 'scheme' parameter was not provided, using default";
|
769 |
|
|
logMetacat.warn(msg);
|
770 |
|
|
}
|
771 |
|
|
|
772 |
|
|
// get the fragment
|
773 |
|
|
String fragment = null;
|
774 |
|
|
try {
|
775 |
|
|
fragment = multipartparams.get("fragment").get(0);
|
776 |
|
|
} catch (NullPointerException e) {
|
777 |
|
|
String msg = "The 'fragment' parameter was not provided, using default";
|
778 |
|
|
logMetacat.warn(msg);
|
779 |
|
|
}
|
780 |
6604
|
cjones
|
|
781 |
7441
|
leinfelder
|
// call the service
|
782 |
|
|
Identifier identifier = MNodeService.getInstance(request).generateIdentifier(session, scheme, fragment);
|
783 |
|
|
response.setStatus(200);
|
784 |
|
|
response.setContentType("text/xml");
|
785 |
|
|
OutputStream out = response.getOutputStream();
|
786 |
|
|
TypeMarshaller.marshalTypeToOutputStream(identifier, out);
|
787 |
|
|
}
|
788 |
|
|
|
789 |
6604
|
cjones
|
/**
|
790 |
6273
|
leinfelder
|
* Checks the access policy
|
791 |
|
|
* @param id
|
792 |
|
|
* @return
|
793 |
|
|
* @throws ServiceFailure
|
794 |
|
|
* @throws InvalidToken
|
795 |
|
|
* @throws NotFound
|
796 |
|
|
* @throws NotAuthorized
|
797 |
|
|
* @throws NotImplemented
|
798 |
|
|
* @throws InvalidRequest
|
799 |
|
|
*/
|
800 |
6264
|
leinfelder
|
private boolean isAuthorized(String id) throws ServiceFailure, InvalidToken, NotFound, NotAuthorized, NotImplemented, InvalidRequest {
|
801 |
|
|
Identifier pid = new Identifier();
|
802 |
|
|
pid.setValue(id);
|
803 |
|
|
Permission permission = null;
|
804 |
|
|
try {
|
805 |
6509
|
leinfelder
|
String perm = params.get("action")[0];
|
806 |
6373
|
leinfelder
|
permission = Permission.convert(perm);
|
807 |
6264
|
leinfelder
|
} catch (Exception e) {
|
808 |
|
|
logMetacat.warn("No permission specified");
|
809 |
|
|
}
|
810 |
6542
|
leinfelder
|
boolean result = MNodeService.getInstance(request).isAuthorized(session, pid, permission);
|
811 |
6264
|
leinfelder
|
response.setStatus(200);
|
812 |
|
|
response.setContentType("text/xml");
|
813 |
|
|
return result;
|
814 |
|
|
}
|
815 |
|
|
|
816 |
8874
|
leinfelder
|
private void getToken() throws Exception {
|
817 |
|
|
|
818 |
|
|
if (this.session != null) {
|
819 |
|
|
String userId = this.session.getSubject().getValue();
|
820 |
9009
|
leinfelder
|
String fullName = null;
|
821 |
|
|
try {
|
822 |
|
|
Person person = this.session.getSubjectInfo().getPerson(0);
|
823 |
|
|
fullName = person.getGivenName(0) + " " + person.getFamilyName();
|
824 |
|
|
} catch (Exception e) {
|
825 |
|
|
logMetacat.warn(e.getMessage(), e);
|
826 |
|
|
}
|
827 |
|
|
|
828 |
8874
|
leinfelder
|
String token = null;
|
829 |
9164
|
leinfelder
|
token = TokenGenerator.getInstance().getJWT(userId, fullName);
|
830 |
8874
|
leinfelder
|
|
831 |
|
|
response.setStatus(200);
|
832 |
|
|
response.setContentType("text/plain");
|
833 |
|
|
OutputStream out = response.getOutputStream();
|
834 |
|
|
out.write(token.getBytes(MetaCatServlet.DEFAULT_ENCODING));
|
835 |
|
|
out.close();
|
836 |
|
|
} else {
|
837 |
|
|
response.setStatus(401);
|
838 |
|
|
response.setContentType("text/plain");
|
839 |
|
|
OutputStream out = response.getOutputStream();
|
840 |
|
|
out.write("No session information found".getBytes(MetaCatServlet.DEFAULT_ENCODING));
|
841 |
|
|
out.close();
|
842 |
|
|
}
|
843 |
|
|
|
844 |
|
|
}
|
845 |
|
|
|
846 |
9173
|
leinfelder
|
private void whoami() throws Exception {
|
847 |
|
|
|
848 |
|
|
if (this.session != null) {
|
849 |
|
|
Subject subject = this.session.getSubject();
|
850 |
|
|
SubjectInfo subjectInfo = null;
|
851 |
|
|
try {
|
852 |
|
|
subjectInfo = this.session.getSubjectInfo();
|
853 |
|
|
} catch (Exception e) {
|
854 |
|
|
logMetacat.warn(e.getMessage(), e);
|
855 |
|
|
}
|
856 |
|
|
|
857 |
|
|
response.setStatus(200);
|
858 |
|
|
response.setContentType("text/plain");
|
859 |
|
|
OutputStream out = response.getOutputStream();
|
860 |
|
|
|
861 |
|
|
if (subjectInfo != null) {
|
862 |
|
|
TypeMarshaller.marshalTypeToOutputStream(subjectInfo, out);
|
863 |
|
|
} else {
|
864 |
|
|
TypeMarshaller.marshalTypeToOutputStream(subject, out);
|
865 |
|
|
}
|
866 |
|
|
|
867 |
|
|
out.close();
|
868 |
|
|
} else {
|
869 |
|
|
response.setStatus(401);
|
870 |
|
|
response.setContentType("text/plain");
|
871 |
|
|
OutputStream out = response.getOutputStream();
|
872 |
|
|
out.write("No session information found".getBytes(MetaCatServlet.DEFAULT_ENCODING));
|
873 |
|
|
out.close();
|
874 |
|
|
}
|
875 |
|
|
|
876 |
|
|
}
|
877 |
|
|
|
878 |
6273
|
leinfelder
|
/**
|
879 |
|
|
* Processes failed synchronization message
|
880 |
|
|
* @throws NotImplemented
|
881 |
|
|
* @throws ServiceFailure
|
882 |
|
|
* @throws NotAuthorized
|
883 |
|
|
* @throws InvalidRequest
|
884 |
|
|
* @throws JiBXException
|
885 |
6367
|
leinfelder
|
* @throws IllegalAccessException
|
886 |
|
|
* @throws InstantiationException
|
887 |
|
|
* @throws IOException
|
888 |
6273
|
leinfelder
|
*/
|
889 |
6367
|
leinfelder
|
private void syncError() throws NotImplemented, ServiceFailure, NotAuthorized, InvalidRequest, JiBXException, IOException, InstantiationException, IllegalAccessException {
|
890 |
6264
|
leinfelder
|
SynchronizationFailed syncFailed = null;
|
891 |
6472
|
leinfelder
|
try {
|
892 |
|
|
syncFailed = collectSynchronizationFailed();
|
893 |
|
|
} catch (ParserConfigurationException e) {
|
894 |
|
|
throw new ServiceFailure("2161", e.getMessage());
|
895 |
|
|
} catch (SAXException e) {
|
896 |
|
|
throw new ServiceFailure("2161", e.getMessage());
|
897 |
|
|
}
|
898 |
|
|
|
899 |
6542
|
leinfelder
|
MNodeService.getInstance(request).synchronizationFailed(session, syncFailed);
|
900 |
6264
|
leinfelder
|
}
|
901 |
6472
|
leinfelder
|
|
902 |
8810
|
leinfelder
|
/**
|
903 |
6273
|
leinfelder
|
* Calculate the checksum
|
904 |
|
|
* @throws NotImplemented
|
905 |
|
|
* @throws JiBXException
|
906 |
|
|
* @throws IOException
|
907 |
|
|
* @throws InvalidToken
|
908 |
|
|
* @throws ServiceFailure
|
909 |
|
|
* @throws NotAuthorized
|
910 |
|
|
* @throws NotFound
|
911 |
|
|
* @throws InvalidRequest
|
912 |
|
|
*/
|
913 |
6285
|
cjones
|
private void checksum(String pid) throws NotImplemented, JiBXException, IOException, InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest {
|
914 |
6264
|
leinfelder
|
String checksumAlgorithm = "MD5";
|
915 |
7222
|
leinfelder
|
try {
|
916 |
|
|
checksumAlgorithm = PropertyService.getProperty("dataone.checksumAlgorithm.default");
|
917 |
|
|
} catch(Exception e) {
|
918 |
|
|
logMetacat.warn("Could not lookup configured default checksum algorithm, using: " + checksumAlgorithm);
|
919 |
|
|
}
|
920 |
6284
|
leinfelder
|
|
921 |
6285
|
cjones
|
Identifier pidid = new Identifier();
|
922 |
|
|
pidid.setValue(pid);
|
923 |
6264
|
leinfelder
|
try {
|
924 |
|
|
checksumAlgorithm = params.get("checksumAlgorithm")[0];
|
925 |
|
|
} catch(Exception e) {
|
926 |
7222
|
leinfelder
|
//do nothing. use the default
|
927 |
6264
|
leinfelder
|
logMetacat.warn("No algorithm specified, using default: " + checksumAlgorithm);
|
928 |
|
|
}
|
929 |
6285
|
cjones
|
logMetacat.debug("getting checksum for object " + pid + " with algorithm " + checksumAlgorithm);
|
930 |
6273
|
leinfelder
|
|
931 |
6542
|
leinfelder
|
Checksum c = MNodeService.getInstance(request).getChecksum(session, pidid, checksumAlgorithm);
|
932 |
6273
|
leinfelder
|
logMetacat.debug("got checksum " + c.getValue());
|
933 |
|
|
response.setStatus(200);
|
934 |
|
|
logMetacat.debug("serializing response");
|
935 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(c, response.getOutputStream());
|
936 |
6273
|
leinfelder
|
logMetacat.debug("done serializing response.");
|
937 |
|
|
|
938 |
6264
|
leinfelder
|
}
|
939 |
|
|
|
940 |
|
|
/**
|
941 |
|
|
* handle the replicate action for MN
|
942 |
6273
|
leinfelder
|
* @throws JiBXException
|
943 |
|
|
* @throws FileUploadException
|
944 |
|
|
* @throws IOException
|
945 |
|
|
* @throws InvalidRequest
|
946 |
|
|
* @throws ServiceFailure
|
947 |
|
|
* @throws UnsupportedType
|
948 |
|
|
* @throws InsufficientResources
|
949 |
|
|
* @throws NotAuthorized
|
950 |
|
|
* @throws NotImplemented
|
951 |
6367
|
leinfelder
|
* @throws IllegalAccessException
|
952 |
|
|
* @throws InstantiationException
|
953 |
7142
|
leinfelder
|
* @throws InvalidToken
|
954 |
6264
|
leinfelder
|
*/
|
955 |
6678
|
cjones
|
private void replicate()
|
956 |
|
|
throws ServiceFailure, InvalidRequest, IOException, FileUploadException,
|
957 |
|
|
JiBXException, NotImplemented, NotAuthorized, InsufficientResources,
|
958 |
7142
|
leinfelder
|
UnsupportedType, InstantiationException, IllegalAccessException, InvalidToken {
|
959 |
6264
|
leinfelder
|
|
960 |
6272
|
leinfelder
|
logMetacat.debug("in POST replicate()");
|
961 |
6264
|
leinfelder
|
|
962 |
7064
|
leinfelder
|
// somewhat unorthodox, but the call is asynchronous and we'd like to return this info sooner
|
963 |
7142
|
leinfelder
|
boolean allowed = false;
|
964 |
7064
|
leinfelder
|
if (session == null) {
|
965 |
|
|
String msg = "No session was provided.";
|
966 |
|
|
NotAuthorized failure = new NotAuthorized("2152", msg);
|
967 |
|
|
throw failure;
|
968 |
7142
|
leinfelder
|
} else {
|
969 |
|
|
allowed = MNodeService.getInstance(request).isAdminAuthorized(session);
|
970 |
|
|
if (!allowed) {
|
971 |
|
|
String msg = "User is not an admin user";
|
972 |
|
|
NotAuthorized failure = new NotAuthorized("2152", msg);
|
973 |
|
|
throw failure;
|
974 |
|
|
}
|
975 |
7064
|
leinfelder
|
}
|
976 |
|
|
|
977 |
8810
|
leinfelder
|
// parse the systemMetadata
|
978 |
|
|
Map<String, File> files = collectMultipartFiles();
|
979 |
|
|
final SystemMetadata sysmeta = TypeMarshaller.unmarshalTypeFromFile(SystemMetadata.class, files.get("sysmeta"));
|
980 |
6264
|
leinfelder
|
|
981 |
6273
|
leinfelder
|
String sn = multipartparams.get("sourceNode").get(0);
|
982 |
6272
|
leinfelder
|
logMetacat.debug("sourceNode: " + sn);
|
983 |
6679
|
leinfelder
|
final NodeReference sourceNode = new NodeReference();
|
984 |
6548
|
cjones
|
sourceNode.setValue(sn);
|
985 |
6679
|
leinfelder
|
|
986 |
|
|
// run it in a thread to avoid connection timeout
|
987 |
|
|
Runnable runner = new Runnable() {
|
988 |
|
|
@Override
|
989 |
|
|
public void run() {
|
990 |
|
|
try {
|
991 |
|
|
MNodeService.getInstance(request).replicate(session, sysmeta, sourceNode);
|
992 |
|
|
} catch (Exception e) {
|
993 |
7091
|
leinfelder
|
logMetacat.error("Error running replication: " + e.getMessage(), e);
|
994 |
6679
|
leinfelder
|
throw new RuntimeException(e.getMessage(), e);
|
995 |
|
|
}
|
996 |
|
|
}
|
997 |
|
|
};
|
998 |
7143
|
leinfelder
|
// submit the task, and that's it
|
999 |
|
|
executor.submit(runner);
|
1000 |
6679
|
leinfelder
|
|
1001 |
|
|
// thread was started, so we return success
|
1002 |
6678
|
cjones
|
response.setStatus(200);
|
1003 |
6679
|
leinfelder
|
|
1004 |
6264
|
leinfelder
|
}
|
1005 |
6604
|
cjones
|
|
1006 |
6264
|
leinfelder
|
/**
|
1007 |
6604
|
cjones
|
* Handle the getReplica action for the MN
|
1008 |
|
|
* @param id the identifier for the object
|
1009 |
|
|
* @throws NotFound
|
1010 |
|
|
* @throws ServiceFailure
|
1011 |
|
|
* @throws NotImplemented
|
1012 |
|
|
* @throws NotAuthorized
|
1013 |
|
|
* @throws InvalidToken
|
1014 |
|
|
* @throws InvalidRequest
|
1015 |
|
|
*/
|
1016 |
|
|
private void getReplica(String id)
|
1017 |
|
|
throws InvalidRequest, InvalidToken, NotAuthorized, NotImplemented,
|
1018 |
|
|
ServiceFailure, NotFound {
|
1019 |
|
|
|
1020 |
|
|
Identifier pid = new Identifier();
|
1021 |
|
|
pid.setValue(id);
|
1022 |
|
|
OutputStream out = null;
|
1023 |
|
|
InputStream dataBytes = null;
|
1024 |
|
|
|
1025 |
|
|
try {
|
1026 |
|
|
// call the service
|
1027 |
|
|
dataBytes = MNodeService.getInstance(request).getReplica(session, pid);
|
1028 |
|
|
|
1029 |
|
|
response.setContentType("application/octet-stream");
|
1030 |
|
|
response.setStatus(200);
|
1031 |
|
|
out = response.getOutputStream();
|
1032 |
|
|
// write the object to the output stream
|
1033 |
|
|
IOUtils.copyLarge(dataBytes, out);
|
1034 |
|
|
|
1035 |
|
|
} catch (IOException e) {
|
1036 |
|
|
String msg = "There was an error writing the output: " + e.getMessage();
|
1037 |
|
|
logMetacat.error(msg);
|
1038 |
|
|
throw new ServiceFailure("2181", msg);
|
1039 |
|
|
|
1040 |
|
|
}
|
1041 |
|
|
|
1042 |
|
|
}
|
1043 |
|
|
|
1044 |
|
|
/**
|
1045 |
6264
|
leinfelder
|
* Get the Node information
|
1046 |
|
|
*
|
1047 |
|
|
* @throws JiBXException
|
1048 |
|
|
* @throws IOException
|
1049 |
|
|
* @throws InvalidRequest
|
1050 |
|
|
* @throws ServiceFailure
|
1051 |
|
|
* @throws NotAuthorized
|
1052 |
|
|
* @throws NotImplemented
|
1053 |
|
|
*/
|
1054 |
|
|
private void node()
|
1055 |
|
|
throws JiBXException, IOException, NotImplemented, NotAuthorized, ServiceFailure, InvalidRequest {
|
1056 |
|
|
|
1057 |
6542
|
leinfelder
|
Node n = MNodeService.getInstance(request).getCapabilities();
|
1058 |
6264
|
leinfelder
|
|
1059 |
|
|
response.setContentType("text/xml");
|
1060 |
|
|
response.setStatus(200);
|
1061 |
6501
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(n, response.getOutputStream());
|
1062 |
6264
|
leinfelder
|
|
1063 |
|
|
}
|
1064 |
|
|
|
1065 |
|
|
/**
|
1066 |
|
|
* MN_crud.describe()
|
1067 |
|
|
* http://mule1.dataone.org/ArchitectureDocs/mn_api_crud.html#MN_crud.describe
|
1068 |
6285
|
cjones
|
* @param pid
|
1069 |
6273
|
leinfelder
|
* @throws InvalidRequest
|
1070 |
|
|
* @throws NotImplemented
|
1071 |
|
|
* @throws NotFound
|
1072 |
|
|
* @throws NotAuthorized
|
1073 |
|
|
* @throws ServiceFailure
|
1074 |
|
|
* @throws InvalidToken
|
1075 |
6264
|
leinfelder
|
*/
|
1076 |
6285
|
cjones
|
private void describeObject(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, InvalidRequest
|
1077 |
6264
|
leinfelder
|
{
|
1078 |
7043
|
leinfelder
|
|
1079 |
6264
|
leinfelder
|
response.setContentType("text/xml");
|
1080 |
7043
|
leinfelder
|
|
1081 |
6264
|
leinfelder
|
Identifier id = new Identifier();
|
1082 |
6285
|
cjones
|
id.setValue(pid);
|
1083 |
6273
|
leinfelder
|
|
1084 |
7043
|
leinfelder
|
DescribeResponse dr = null;
|
1085 |
|
|
try {
|
1086 |
|
|
dr = MNodeService.getInstance(request).describe(session, id);
|
1087 |
|
|
} catch (BaseException e) {
|
1088 |
|
|
response.setStatus(e.getCode());
|
1089 |
|
|
response.addHeader("DataONE-Exception-Name", e.getClass().getName());
|
1090 |
|
|
response.addHeader("DataONE-Exception-DetailCode", e.getDetail_code());
|
1091 |
|
|
response.addHeader("DataONE-Exception-Description", e.getDescription());
|
1092 |
|
|
response.addHeader("DataONE-Exception-PID", id.getValue());
|
1093 |
|
|
return;
|
1094 |
|
|
}
|
1095 |
|
|
|
1096 |
|
|
response.setStatus(200);
|
1097 |
|
|
|
1098 |
6502
|
leinfelder
|
//response.addHeader("pid", pid);
|
1099 |
6507
|
leinfelder
|
response.addHeader("DataONE-Checksum", dr.getDataONE_Checksum().getAlgorithm() + "," + dr.getDataONE_Checksum().getValue());
|
1100 |
6502
|
leinfelder
|
response.addHeader("Content-Length", dr.getContent_Length() + "");
|
1101 |
|
|
response.addHeader("Last-Modified", DateTimeMarshaller.serializeDateToUTC(dr.getLast_Modified()));
|
1102 |
6691
|
leinfelder
|
response.addHeader("DataONE-ObjectFormat", dr.getDataONE_ObjectFormatIdentifier().getValue());
|
1103 |
6773
|
leinfelder
|
response.addHeader("DataONE-SerialVersion", dr.getSerialVersion().toString());
|
1104 |
|
|
|
1105 |
6502
|
leinfelder
|
|
1106 |
6264
|
leinfelder
|
}
|
1107 |
|
|
|
1108 |
|
|
/**
|
1109 |
|
|
* get the logs based on passed params. Available
|
1110 |
|
|
* See http://mule1.dataone.org/ArchitectureDocs/mn_api_crud.html#MN_crud.getLogRecords
|
1111 |
|
|
* for more info
|
1112 |
6273
|
leinfelder
|
* @throws NotImplemented
|
1113 |
|
|
* @throws InvalidRequest
|
1114 |
|
|
* @throws NotAuthorized
|
1115 |
|
|
* @throws ServiceFailure
|
1116 |
|
|
* @throws InvalidToken
|
1117 |
|
|
* @throws IOException
|
1118 |
|
|
* @throws JiBXException
|
1119 |
6264
|
leinfelder
|
*/
|
1120 |
6273
|
leinfelder
|
private void getLog() throws InvalidToken, ServiceFailure, NotAuthorized, InvalidRequest, NotImplemented, IOException, JiBXException
|
1121 |
6264
|
leinfelder
|
{
|
1122 |
6273
|
leinfelder
|
|
1123 |
|
|
Date fromDate = null;
|
1124 |
|
|
Date toDate = null;
|
1125 |
8810
|
leinfelder
|
String event = null;
|
1126 |
6273
|
leinfelder
|
Integer start = null;
|
1127 |
|
|
Integer count = null;
|
1128 |
7099
|
leinfelder
|
String pidFilter = null;
|
1129 |
6273
|
leinfelder
|
|
1130 |
6264
|
leinfelder
|
try {
|
1131 |
6273
|
leinfelder
|
String fromDateS = params.get("fromDate")[0];
|
1132 |
|
|
logMetacat.debug("param fromDateS: " + fromDateS);
|
1133 |
6469
|
leinfelder
|
fromDate = DateTimeMarshaller.deserializeDateToUTC(fromDateS);
|
1134 |
6273
|
leinfelder
|
} catch (Exception e) {
|
1135 |
|
|
logMetacat.warn("Could not parse fromDate: " + e.getMessage());
|
1136 |
6264
|
leinfelder
|
}
|
1137 |
6273
|
leinfelder
|
try {
|
1138 |
|
|
String toDateS = params.get("toDate")[0];
|
1139 |
|
|
logMetacat.debug("param toDateS: " + toDateS);
|
1140 |
6469
|
leinfelder
|
toDate = DateTimeMarshaller.deserializeDateToUTC(toDateS);
|
1141 |
6273
|
leinfelder
|
} catch (Exception e) {
|
1142 |
|
|
logMetacat.warn("Could not parse toDate: " + e.getMessage());
|
1143 |
|
|
}
|
1144 |
|
|
try {
|
1145 |
8810
|
leinfelder
|
event = params.get("event")[0];
|
1146 |
6273
|
leinfelder
|
} catch (Exception e) {
|
1147 |
|
|
logMetacat.warn("Could not parse event: " + e.getMessage());
|
1148 |
|
|
}
|
1149 |
|
|
logMetacat.debug("fromDate: " + fromDate + " toDate: " + toDate);
|
1150 |
|
|
|
1151 |
|
|
try {
|
1152 |
|
|
start = Integer.parseInt(params.get("start")[0]);
|
1153 |
|
|
} catch (Exception e) {
|
1154 |
|
|
logMetacat.warn("Could not parse start: " + e.getMessage());
|
1155 |
|
|
}
|
1156 |
|
|
try {
|
1157 |
|
|
count = Integer.parseInt(params.get("count")[0]);
|
1158 |
|
|
} catch (Exception e) {
|
1159 |
|
|
logMetacat.warn("Could not parse count: " + e.getMessage());
|
1160 |
|
|
}
|
1161 |
|
|
|
1162 |
7099
|
leinfelder
|
try {
|
1163 |
|
|
pidFilter = params.get("pidFilter")[0];
|
1164 |
|
|
} catch (Exception e) {
|
1165 |
|
|
logMetacat.warn("Could not parse pidFilter: " + e.getMessage());
|
1166 |
|
|
}
|
1167 |
|
|
|
1168 |
6273
|
leinfelder
|
logMetacat.debug("calling getLogRecords");
|
1169 |
7101
|
leinfelder
|
Log log = MNodeService.getInstance(request).getLogRecords(session, fromDate, toDate, event, pidFilter, start, count);
|
1170 |
6273
|
leinfelder
|
|
1171 |
|
|
OutputStream out = response.getOutputStream();
|
1172 |
|
|
response.setStatus(200);
|
1173 |
|
|
response.setContentType("text/xml");
|
1174 |
|
|
|
1175 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(log, out);
|
1176 |
6273
|
leinfelder
|
|
1177 |
6264
|
leinfelder
|
}
|
1178 |
|
|
|
1179 |
7417
|
leinfelder
|
|
1180 |
|
|
|
1181 |
6264
|
leinfelder
|
/**
|
1182 |
|
|
* Implements REST version of DataONE CRUD API --> get
|
1183 |
6285
|
cjones
|
* @param pid ID of data object to be read
|
1184 |
6273
|
leinfelder
|
* @throws NotImplemented
|
1185 |
|
|
* @throws InvalidRequest
|
1186 |
|
|
* @throws NotFound
|
1187 |
|
|
* @throws NotAuthorized
|
1188 |
|
|
* @throws ServiceFailure
|
1189 |
|
|
* @throws InvalidToken
|
1190 |
|
|
* @throws IOException
|
1191 |
|
|
* @throws JiBXException
|
1192 |
6264
|
leinfelder
|
*/
|
1193 |
6285
|
cjones
|
protected void getObject(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest, NotImplemented, IOException, JiBXException {
|
1194 |
6264
|
leinfelder
|
OutputStream out = null;
|
1195 |
6273
|
leinfelder
|
|
1196 |
6285
|
cjones
|
if (pid != null) { //get a specific document
|
1197 |
6273
|
leinfelder
|
Identifier id = new Identifier();
|
1198 |
6285
|
cjones
|
id.setValue(pid);
|
1199 |
6273
|
leinfelder
|
|
1200 |
6542
|
leinfelder
|
SystemMetadata sm = MNodeService.getInstance(request).getSystemMetadata(session, id);
|
1201 |
6264
|
leinfelder
|
|
1202 |
7412
|
leinfelder
|
// set the headers for the content
|
1203 |
9235
|
leinfelder
|
String mimeType = null;
|
1204 |
|
|
String charset = null;
|
1205 |
9244
|
leinfelder
|
ObjectFormat objectFormat = null;
|
1206 |
9235
|
leinfelder
|
|
1207 |
9244
|
leinfelder
|
try {
|
1208 |
|
|
objectFormat = ObjectFormatCache.getInstance().getFormat(sm.getFormatId());
|
1209 |
|
|
} catch (BaseException be) {
|
1210 |
|
|
logMetacat.warn("Could not lookup ObjectFormat for: " + sm.getFormatId(), be);
|
1211 |
|
|
}
|
1212 |
9235
|
leinfelder
|
// do we have mediaType/encoding in SM?
|
1213 |
|
|
MediaType mediaType = sm.getMediaType();
|
1214 |
|
|
if (mediaType == null) {
|
1215 |
|
|
try {
|
1216 |
9244
|
leinfelder
|
mediaType = objectFormat.getMediaType();
|
1217 |
|
|
} catch (Exception e) {
|
1218 |
|
|
logMetacat.warn("Could not lookup MediaType for: " + sm.getFormatId(), e);
|
1219 |
9235
|
leinfelder
|
}
|
1220 |
|
|
}
|
1221 |
|
|
if (mediaType != null) {
|
1222 |
9268
|
tao
|
mimeType = mediaType.getName();
|
1223 |
|
|
if (mediaType.getPropertyList() != null) {
|
1224 |
|
|
Iterator<MediaTypeProperty> iter = mediaType.getPropertyList().iterator();
|
1225 |
9235
|
leinfelder
|
while (iter.hasNext()) {
|
1226 |
|
|
MediaTypeProperty mtp = iter.next();
|
1227 |
|
|
if (mtp.getName().equalsIgnoreCase("charset")) {
|
1228 |
|
|
charset = mtp.getValue();
|
1229 |
|
|
mimeType += "; charset=" + charset;
|
1230 |
|
|
break;
|
1231 |
|
|
}
|
1232 |
|
|
}
|
1233 |
|
|
}
|
1234 |
|
|
}
|
1235 |
|
|
// check object format
|
1236 |
|
|
|
1237 |
|
|
// use the fallback from v1 impl
|
1238 |
7412
|
leinfelder
|
if (mimeType == null) {
|
1239 |
9235
|
leinfelder
|
mimeType = ObjectFormatInfo.instance().getMimeType(sm.getFormatId().getValue());
|
1240 |
|
|
|
1241 |
|
|
// still null?
|
1242 |
|
|
if (mimeType == null) {
|
1243 |
|
|
mimeType = "application/octet-stream";
|
1244 |
|
|
}
|
1245 |
6273
|
leinfelder
|
}
|
1246 |
9235
|
leinfelder
|
|
1247 |
|
|
// check for filename in SM first
|
1248 |
|
|
String filename = sm.getFileName();
|
1249 |
|
|
// then fallback to using id and extension
|
1250 |
|
|
if (filename == null) {
|
1251 |
9244
|
leinfelder
|
String extension = objectFormat.getExtension();
|
1252 |
|
|
if (extension == null) {
|
1253 |
|
|
extension = ObjectFormatInfo.instance().getExtension(sm.getFormatId().getValue());
|
1254 |
|
|
}
|
1255 |
9235
|
leinfelder
|
filename = id.getValue();
|
1256 |
|
|
if (extension != null) {
|
1257 |
|
|
filename = id.getValue() + extension;
|
1258 |
|
|
}
|
1259 |
7412
|
leinfelder
|
}
|
1260 |
|
|
response.setContentType(mimeType);
|
1261 |
|
|
response.setHeader("Content-Disposition", "inline; filename=" + filename);
|
1262 |
6273
|
leinfelder
|
|
1263 |
6542
|
leinfelder
|
InputStream data = MNodeService.getInstance(request).get(session, id);
|
1264 |
6273
|
leinfelder
|
|
1265 |
|
|
out = response.getOutputStream();
|
1266 |
|
|
IOUtils.copyLarge(data, out);
|
1267 |
|
|
|
1268 |
|
|
}
|
1269 |
|
|
else
|
1270 |
|
|
{ //call listObjects with specified params
|
1271 |
|
|
Date startTime = null;
|
1272 |
|
|
Date endTime = null;
|
1273 |
7100
|
leinfelder
|
ObjectFormatIdentifier formatId = null;
|
1274 |
8810
|
leinfelder
|
Identifier identifier = null;
|
1275 |
7462
|
leinfelder
|
boolean replicaStatus = true;
|
1276 |
6273
|
leinfelder
|
int start = 0;
|
1277 |
|
|
//TODO: make the max count into a const
|
1278 |
|
|
int count = 1000;
|
1279 |
|
|
Enumeration paramlist = request.getParameterNames();
|
1280 |
|
|
while (paramlist.hasMoreElements())
|
1281 |
|
|
{ //parse the params and make the crud call
|
1282 |
|
|
String name = (String) paramlist.nextElement();
|
1283 |
|
|
String[] value = (String[])request.getParameterValues(name);
|
1284 |
|
|
|
1285 |
6799
|
cjones
|
if (name.equals("fromDate") && value != null)
|
1286 |
6264
|
leinfelder
|
{
|
1287 |
6273
|
leinfelder
|
try
|
1288 |
6264
|
leinfelder
|
{
|
1289 |
6273
|
leinfelder
|
//startTime = dateFormat.parse(value[0]);
|
1290 |
6469
|
leinfelder
|
startTime = DateTimeMarshaller.deserializeDateToUTC(value[0]);
|
1291 |
|
|
//startTime = parseDateAndConvertToGMT(value[0]);
|
1292 |
6264
|
leinfelder
|
}
|
1293 |
6273
|
leinfelder
|
catch(Exception e)
|
1294 |
6799
|
cjones
|
{ //if we can't parse it, just don't use the fromDate param
|
1295 |
|
|
logMetacat.warn("Could not parse fromDate: " + value[0]);
|
1296 |
6273
|
leinfelder
|
startTime = null;
|
1297 |
6264
|
leinfelder
|
}
|
1298 |
6273
|
leinfelder
|
}
|
1299 |
6799
|
cjones
|
else if(name.equals("toDate") && value != null)
|
1300 |
6273
|
leinfelder
|
{
|
1301 |
|
|
try
|
1302 |
6264
|
leinfelder
|
{
|
1303 |
6469
|
leinfelder
|
endTime = DateTimeMarshaller.deserializeDateToUTC(value[0]);
|
1304 |
6264
|
leinfelder
|
}
|
1305 |
6273
|
leinfelder
|
catch(Exception e)
|
1306 |
6799
|
cjones
|
{ //if we can't parse it, just don't use the toDate param
|
1307 |
|
|
logMetacat.warn("Could not parse toDate: " + value[0]);
|
1308 |
6273
|
leinfelder
|
endTime = null;
|
1309 |
|
|
}
|
1310 |
6264
|
leinfelder
|
}
|
1311 |
7100
|
leinfelder
|
else if(name.equals("formatId") && value != null)
|
1312 |
6264
|
leinfelder
|
{
|
1313 |
7100
|
leinfelder
|
formatId = new ObjectFormatIdentifier();
|
1314 |
|
|
formatId.setValue(value[0]);
|
1315 |
6264
|
leinfelder
|
}
|
1316 |
8810
|
leinfelder
|
else if(name.equals("identifier") && value != null)
|
1317 |
|
|
{
|
1318 |
|
|
identifier = new Identifier();
|
1319 |
|
|
identifier.setValue(value[0]);
|
1320 |
|
|
}
|
1321 |
6273
|
leinfelder
|
else if(name.equals("replicaStatus") && value != null)
|
1322 |
6264
|
leinfelder
|
{
|
1323 |
6273
|
leinfelder
|
if(value != null &&
|
1324 |
|
|
value.length > 0 &&
|
1325 |
7462
|
leinfelder
|
(value[0].equalsIgnoreCase("false") || value[0].equalsIgnoreCase("no")))
|
1326 |
6273
|
leinfelder
|
{
|
1327 |
7462
|
leinfelder
|
replicaStatus = false;
|
1328 |
6273
|
leinfelder
|
}
|
1329 |
6264
|
leinfelder
|
}
|
1330 |
6273
|
leinfelder
|
else if(name.equals("start") && value != null)
|
1331 |
6264
|
leinfelder
|
{
|
1332 |
6273
|
leinfelder
|
start = new Integer(value[0]).intValue();
|
1333 |
6264
|
leinfelder
|
}
|
1334 |
6273
|
leinfelder
|
else if(name.equals("count") && value != null)
|
1335 |
6264
|
leinfelder
|
{
|
1336 |
6273
|
leinfelder
|
count = new Integer(value[0]).intValue();
|
1337 |
6264
|
leinfelder
|
}
|
1338 |
|
|
}
|
1339 |
6273
|
leinfelder
|
//make the crud call
|
1340 |
|
|
logMetacat.debug("session: " + session + " startTime: " + startTime +
|
1341 |
7100
|
leinfelder
|
" endTime: " + endTime + " formatId: " +
|
1342 |
|
|
formatId + " replicaStatus: " + replicaStatus +
|
1343 |
6273
|
leinfelder
|
" start: " + start + " count: " + count);
|
1344 |
|
|
|
1345 |
|
|
ObjectList ol =
|
1346 |
6542
|
leinfelder
|
MNodeService.getInstance(request).listObjects(session, startTime, endTime,
|
1347 |
8810
|
leinfelder
|
formatId, identifier, replicaStatus, start, count);
|
1348 |
6352
|
cjones
|
|
1349 |
6273
|
leinfelder
|
out = response.getOutputStream();
|
1350 |
|
|
response.setStatus(200);
|
1351 |
|
|
response.setContentType("text/xml");
|
1352 |
|
|
// Serialize and write it to the output stream
|
1353 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(ol, out);
|
1354 |
6273
|
leinfelder
|
|
1355 |
6264
|
leinfelder
|
}
|
1356 |
6273
|
leinfelder
|
|
1357 |
6264
|
leinfelder
|
}
|
1358 |
|
|
|
1359 |
6273
|
leinfelder
|
|
1360 |
6264
|
leinfelder
|
/**
|
1361 |
7855
|
leinfelder
|
* Retrieve data package as Bagit zip
|
1362 |
|
|
* @param pid
|
1363 |
|
|
* @throws NotImplemented
|
1364 |
|
|
* @throws NotFound
|
1365 |
|
|
* @throws NotAuthorized
|
1366 |
|
|
* @throws ServiceFailure
|
1367 |
|
|
* @throws InvalidToken
|
1368 |
|
|
* @throws IOException
|
1369 |
8810
|
leinfelder
|
* @throws InvalidRequest
|
1370 |
7855
|
leinfelder
|
*/
|
1371 |
8810
|
leinfelder
|
protected void getPackage(String format, String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, IOException, InvalidRequest {
|
1372 |
7855
|
leinfelder
|
|
1373 |
|
|
Identifier id = new Identifier();
|
1374 |
|
|
id.setValue(pid);
|
1375 |
8810
|
leinfelder
|
ObjectFormatIdentifier formatId = null;
|
1376 |
|
|
if (format != null) {
|
1377 |
|
|
formatId = new ObjectFormatIdentifier();
|
1378 |
|
|
formatId.setValue(format);
|
1379 |
|
|
}
|
1380 |
|
|
InputStream is = MNodeService.getInstance(request).getPackage(session, formatId , id);
|
1381 |
7855
|
leinfelder
|
|
1382 |
8160
|
leinfelder
|
// use the provided filename
|
1383 |
|
|
String filename = null;
|
1384 |
|
|
if (is instanceof DeleteOnCloseFileInputStream) {
|
1385 |
|
|
filename = ((DeleteOnCloseFileInputStream)is).getFile().getName();
|
1386 |
|
|
} else {
|
1387 |
|
|
filename = "dataPackage-" + System.currentTimeMillis() + ".zip";
|
1388 |
|
|
}
|
1389 |
8034
|
leinfelder
|
response.setHeader("Content-Disposition", "inline; filename=" + filename);
|
1390 |
7855
|
leinfelder
|
response.setContentType("application/zip");
|
1391 |
|
|
response.setStatus(200);
|
1392 |
|
|
OutputStream out = response.getOutputStream();
|
1393 |
|
|
|
1394 |
|
|
// write it to the output stream
|
1395 |
|
|
IOUtils.copyLarge(is, out);
|
1396 |
|
|
}
|
1397 |
|
|
|
1398 |
7864
|
leinfelder
|
protected void publish(String pid) throws InvalidToken, ServiceFailure,
|
1399 |
|
|
NotAuthorized, NotFound, NotImplemented, IOException,
|
1400 |
|
|
JiBXException, InvalidRequest, IdentifierNotUnique,
|
1401 |
|
|
UnsupportedType, InsufficientResources, InvalidSystemMetadata {
|
1402 |
|
|
|
1403 |
|
|
// publish the object
|
1404 |
|
|
Identifier originalIdentifier = new Identifier();
|
1405 |
|
|
originalIdentifier.setValue(pid);
|
1406 |
|
|
Identifier newIdentifier = MNodeService.getInstance(request).publish(session, originalIdentifier);
|
1407 |
|
|
|
1408 |
|
|
response.setStatus(200);
|
1409 |
|
|
response.setContentType("text/xml");
|
1410 |
|
|
OutputStream out = response.getOutputStream();
|
1411 |
|
|
|
1412 |
|
|
// write new identifier to the output stream
|
1413 |
|
|
TypeMarshaller.marshalTypeToOutputStream(newIdentifier, out);
|
1414 |
|
|
}
|
1415 |
|
|
|
1416 |
7855
|
leinfelder
|
/**
|
1417 |
6273
|
leinfelder
|
* Retrieve System Metadata
|
1418 |
6285
|
cjones
|
* @param pid
|
1419 |
6273
|
leinfelder
|
* @throws InvalidToken
|
1420 |
|
|
* @throws ServiceFailure
|
1421 |
|
|
* @throws NotAuthorized
|
1422 |
|
|
* @throws NotFound
|
1423 |
|
|
* @throws InvalidRequest
|
1424 |
|
|
* @throws NotImplemented
|
1425 |
|
|
* @throws IOException
|
1426 |
|
|
* @throws JiBXException
|
1427 |
6264
|
leinfelder
|
*/
|
1428 |
6285
|
cjones
|
protected void getSystemMetadataObject(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest, NotImplemented, IOException, JiBXException {
|
1429 |
6273
|
leinfelder
|
|
1430 |
|
|
Identifier id = new Identifier();
|
1431 |
6285
|
cjones
|
id.setValue(pid);
|
1432 |
6542
|
leinfelder
|
SystemMetadata sysmeta = MNodeService.getInstance(request).getSystemMetadata(session, id);
|
1433 |
6273
|
leinfelder
|
|
1434 |
|
|
response.setContentType("text/xml");
|
1435 |
|
|
response.setStatus(200);
|
1436 |
|
|
OutputStream out = response.getOutputStream();
|
1437 |
|
|
|
1438 |
|
|
// Serialize and write it to the output stream
|
1439 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(sysmeta, out);
|
1440 |
6273
|
leinfelder
|
}
|
1441 |
6264
|
leinfelder
|
|
1442 |
|
|
|
1443 |
|
|
/**
|
1444 |
|
|
* Inserts or updates the object
|
1445 |
|
|
*
|
1446 |
6285
|
cjones
|
* @param pid - ID of data object to be inserted or updated. If action is update, the pid
|
1447 |
6264
|
leinfelder
|
* is the existing pid. If insert, the pid is the new one
|
1448 |
6269
|
leinfelder
|
* @throws InvalidRequest
|
1449 |
|
|
* @throws ServiceFailure
|
1450 |
|
|
* @throws JiBXException
|
1451 |
|
|
* @throws NotImplemented
|
1452 |
|
|
* @throws InvalidSystemMetadata
|
1453 |
|
|
* @throws InsufficientResources
|
1454 |
|
|
* @throws UnsupportedType
|
1455 |
|
|
* @throws IdentifierNotUnique
|
1456 |
|
|
* @throws NotAuthorized
|
1457 |
|
|
* @throws InvalidToken
|
1458 |
|
|
* @throws NotFound
|
1459 |
6273
|
leinfelder
|
* @throws IOException
|
1460 |
6367
|
leinfelder
|
* @throws IllegalAccessException
|
1461 |
|
|
* @throws InstantiationException
|
1462 |
6264
|
leinfelder
|
*/
|
1463 |
6972
|
leinfelder
|
protected void putObject(String trailingPid, String action) throws ServiceFailure, InvalidRequest, JiBXException, InvalidToken, NotAuthorized, IdentifierNotUnique, UnsupportedType, InsufficientResources, InvalidSystemMetadata, NotImplemented, NotFound, IOException, InstantiationException, IllegalAccessException {
|
1464 |
|
|
|
1465 |
|
|
// Read the incoming data from its Mime Multipart encoding
|
1466 |
6269
|
leinfelder
|
Map<String, File> files = collectMultipartFiles();
|
1467 |
6972
|
leinfelder
|
|
1468 |
6975
|
leinfelder
|
Identifier pid = new Identifier();
|
1469 |
6972
|
leinfelder
|
if (trailingPid == null) {
|
1470 |
6975
|
leinfelder
|
// get the pid string from the body and set the value
|
1471 |
|
|
String pidString = multipartparams.get("pid").get(0);
|
1472 |
7051
|
cjones
|
if (pidString != null) {
|
1473 |
|
|
pid.setValue(pidString);
|
1474 |
|
|
|
1475 |
|
|
} else {
|
1476 |
|
|
throw new InvalidRequest("1102", "The pid param must be included and contain the identifier.");
|
1477 |
|
|
|
1478 |
|
|
}
|
1479 |
6972
|
leinfelder
|
} else {
|
1480 |
|
|
// use the pid included in the URL
|
1481 |
|
|
pid.setValue(trailingPid);
|
1482 |
|
|
}
|
1483 |
|
|
logMetacat.debug("putObject with pid " + pid.getValue());
|
1484 |
|
|
logMetacat.debug("Entering putObject: " + pid.getValue() + "/" + action);
|
1485 |
|
|
|
1486 |
6269
|
leinfelder
|
InputStream object = null;
|
1487 |
|
|
InputStream sysmeta = null;
|
1488 |
|
|
File smFile = files.get("sysmeta");
|
1489 |
|
|
sysmeta = new FileInputStream(smFile);
|
1490 |
|
|
File objFile = files.get("object");
|
1491 |
|
|
object = new FileInputStream(objFile);
|
1492 |
|
|
|
1493 |
6927
|
cjones
|
// ensure we have the object bytes
|
1494 |
|
|
if ( objFile == null ) {
|
1495 |
|
|
throw new InvalidRequest("1102", "The object param must contain the object bytes.");
|
1496 |
|
|
|
1497 |
|
|
}
|
1498 |
|
|
|
1499 |
|
|
// ensure we have the system metadata
|
1500 |
|
|
if ( smFile == null ) {
|
1501 |
|
|
throw new InvalidRequest("1102", "The sysmeta param must contain the system metadata document.");
|
1502 |
|
|
|
1503 |
|
|
}
|
1504 |
|
|
|
1505 |
6972
|
leinfelder
|
response.setStatus(200);
|
1506 |
|
|
response.setContentType("text/xml");
|
1507 |
|
|
OutputStream out = response.getOutputStream();
|
1508 |
|
|
|
1509 |
6269
|
leinfelder
|
if (action.equals(FUNCTION_NAME_INSERT)) {
|
1510 |
|
|
// handle inserts
|
1511 |
|
|
logMetacat.debug("Commence creation...");
|
1512 |
6367
|
leinfelder
|
SystemMetadata smd = TypeMarshaller.unmarshalTypeFromStream(SystemMetadata.class, sysmeta);
|
1513 |
6264
|
leinfelder
|
|
1514 |
6972
|
leinfelder
|
logMetacat.debug("creating object with pid " + pid.getValue());
|
1515 |
|
|
Identifier rId = MNodeService.getInstance(request).create(session, pid, object, smd);
|
1516 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(rId, out);
|
1517 |
6264
|
leinfelder
|
|
1518 |
6269
|
leinfelder
|
} else if (action.equals(FUNCTION_NAME_UPDATE)) {
|
1519 |
|
|
// handle updates
|
1520 |
|
|
|
1521 |
|
|
// construct pids
|
1522 |
6972
|
leinfelder
|
Identifier newPid = null;
|
1523 |
6269
|
leinfelder
|
try {
|
1524 |
|
|
String newPidString = multipartparams.get("newPid").get(0);
|
1525 |
6975
|
leinfelder
|
newPid = new Identifier();
|
1526 |
|
|
newPid.setValue(newPidString);
|
1527 |
6269
|
leinfelder
|
} catch (Exception e) {
|
1528 |
6972
|
leinfelder
|
logMetacat.error("Could not get newPid from request");
|
1529 |
6269
|
leinfelder
|
}
|
1530 |
|
|
logMetacat.debug("Commence update...");
|
1531 |
|
|
|
1532 |
|
|
// get the systemmetadata object
|
1533 |
6367
|
leinfelder
|
SystemMetadata smd = TypeMarshaller.unmarshalTypeFromStream(SystemMetadata.class, sysmeta);
|
1534 |
6264
|
leinfelder
|
|
1535 |
6972
|
leinfelder
|
Identifier rId = MNodeService.getInstance(request).update(session, pid, object, newPid, smd);
|
1536 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(rId, out);
|
1537 |
6269
|
leinfelder
|
} else {
|
1538 |
|
|
throw new InvalidRequest("1000", "Operation must be create or update.");
|
1539 |
|
|
}
|
1540 |
6972
|
leinfelder
|
|
1541 |
6264
|
leinfelder
|
}
|
1542 |
|
|
|
1543 |
|
|
/**
|
1544 |
|
|
* Handle delete
|
1545 |
6285
|
cjones
|
* @param pid ID of data object to be deleted
|
1546 |
6264
|
leinfelder
|
* @throws IOException
|
1547 |
6273
|
leinfelder
|
* @throws InvalidRequest
|
1548 |
|
|
* @throws NotImplemented
|
1549 |
|
|
* @throws NotFound
|
1550 |
|
|
* @throws NotAuthorized
|
1551 |
|
|
* @throws ServiceFailure
|
1552 |
|
|
* @throws InvalidToken
|
1553 |
|
|
* @throws JiBXException
|
1554 |
6264
|
leinfelder
|
*/
|
1555 |
6285
|
cjones
|
private void deleteObject(String pid) throws IOException, InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, InvalidRequest, JiBXException
|
1556 |
6264
|
leinfelder
|
{
|
1557 |
|
|
|
1558 |
|
|
OutputStream out = response.getOutputStream();
|
1559 |
|
|
response.setStatus(200);
|
1560 |
|
|
response.setContentType("text/xml");
|
1561 |
|
|
|
1562 |
|
|
Identifier id = new Identifier();
|
1563 |
6285
|
cjones
|
id.setValue(pid);
|
1564 |
6273
|
leinfelder
|
|
1565 |
|
|
logMetacat.debug("Calling delete");
|
1566 |
6542
|
leinfelder
|
MNodeService.getInstance(request).delete(session, id);
|
1567 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(id, out);
|
1568 |
6273
|
leinfelder
|
|
1569 |
7153
|
leinfelder
|
}
|
1570 |
|
|
|
1571 |
|
|
/**
|
1572 |
|
|
* Archives the given pid
|
1573 |
|
|
* @param pid
|
1574 |
|
|
* @throws InvalidToken
|
1575 |
|
|
* @throws ServiceFailure
|
1576 |
|
|
* @throws NotAuthorized
|
1577 |
|
|
* @throws NotFound
|
1578 |
|
|
* @throws NotImplemented
|
1579 |
|
|
* @throws IOException
|
1580 |
|
|
* @throws JiBXException
|
1581 |
|
|
*/
|
1582 |
|
|
private void archive(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, IOException, JiBXException {
|
1583 |
6264
|
leinfelder
|
|
1584 |
7153
|
leinfelder
|
OutputStream out = response.getOutputStream();
|
1585 |
|
|
response.setStatus(200);
|
1586 |
|
|
response.setContentType("text/xml");
|
1587 |
|
|
|
1588 |
|
|
Identifier id = new Identifier();
|
1589 |
|
|
id.setValue(pid);
|
1590 |
|
|
|
1591 |
7154
|
leinfelder
|
logMetacat.debug("Calling archive");
|
1592 |
7153
|
leinfelder
|
MNodeService.getInstance(request).archive(session, id);
|
1593 |
|
|
|
1594 |
|
|
TypeMarshaller.marshalTypeToOutputStream(id, out);
|
1595 |
|
|
|
1596 |
|
|
}
|
1597 |
|
|
|
1598 |
6514
|
leinfelder
|
protected SynchronizationFailed collectSynchronizationFailed() throws IOException, ServiceFailure, InvalidRequest, JiBXException, InstantiationException, IllegalAccessException, ParserConfigurationException, SAXException {
|
1599 |
|
|
|
1600 |
|
|
// Read the incoming data from its Mime Multipart encoding
|
1601 |
|
|
logMetacat.debug("Disassembling MIME multipart form");
|
1602 |
|
|
InputStream sf = null;
|
1603 |
|
|
|
1604 |
|
|
// handle MMP inputs
|
1605 |
|
|
File tmpDir = getTempDirectory();
|
1606 |
|
|
logMetacat.debug("temp dir: " + tmpDir.getAbsolutePath());
|
1607 |
|
|
MultipartRequestResolver mrr =
|
1608 |
9099
|
jones
|
new MultipartRequestResolver(tmpDir.getAbsolutePath(), MAX_UPLOAD_SIZE, 0);
|
1609 |
6514
|
leinfelder
|
MultipartRequest mr = null;
|
1610 |
|
|
try {
|
1611 |
|
|
mr = mrr.resolveMultipart(request);
|
1612 |
|
|
} catch (Exception e) {
|
1613 |
|
|
throw new ServiceFailure("2161",
|
1614 |
|
|
"Could not resolve multipart: " + e.getMessage());
|
1615 |
|
|
}
|
1616 |
|
|
logMetacat.debug("resolved multipart request");
|
1617 |
|
|
Map<String, File> files = mr.getMultipartFiles();
|
1618 |
|
|
if (files == null || files.keySet() == null) {
|
1619 |
|
|
throw new InvalidRequest("2163",
|
1620 |
|
|
"must have multipart file with name 'message'");
|
1621 |
|
|
}
|
1622 |
|
|
logMetacat.debug("got multipart files");
|
1623 |
|
|
|
1624 |
|
|
multipartparams = mr.getMultipartParameters();
|
1625 |
|
|
|
1626 |
|
|
File sfFile = files.get("message");
|
1627 |
|
|
if (sfFile == null) {
|
1628 |
|
|
throw new InvalidRequest("2163",
|
1629 |
|
|
"Missing the required file-part 'message' from the multipart request.");
|
1630 |
|
|
}
|
1631 |
|
|
logMetacat.debug("sfFile: " + sfFile.getAbsolutePath());
|
1632 |
|
|
sf = new FileInputStream(sfFile);
|
1633 |
|
|
|
1634 |
|
|
SynchronizationFailed syncFailed = (SynchronizationFailed) ExceptionHandler.deserializeXml(sf, "Error deserializing exception");
|
1635 |
|
|
return syncFailed;
|
1636 |
|
|
}
|
1637 |
9122
|
tao
|
|
1638 |
|
|
/**
|
1639 |
|
|
* Update the system metadata for a specified identifier
|
1640 |
|
|
* @throws ServiceFailure
|
1641 |
|
|
* @throws InvalidRequest
|
1642 |
|
|
* @throws InstantiationException
|
1643 |
|
|
* @throws IllegalAccessException
|
1644 |
|
|
* @throws IOException
|
1645 |
|
|
* @throws JiBXException
|
1646 |
|
|
* @throws NotImplemented
|
1647 |
|
|
* @throws NotAuthorized
|
1648 |
|
|
* @throws InvalidSystemMetadata
|
1649 |
|
|
* @throws InvalidToken
|
1650 |
|
|
*/
|
1651 |
|
|
protected void updateSystemMetadata() throws ServiceFailure, InvalidRequest,
|
1652 |
|
|
InstantiationException, IllegalAccessException, IOException, JiBXException, NotImplemented,
|
1653 |
|
|
NotAuthorized, InvalidSystemMetadata, InvalidToken {
|
1654 |
|
|
// Read the incoming data from its Mime Multipart encoding
|
1655 |
|
|
Map<String, File> files = collectMultipartFiles();
|
1656 |
|
|
|
1657 |
|
|
// get the encoded pid string from the body and make the object
|
1658 |
|
|
String pidString = multipartparams.get("pid").get(0);
|
1659 |
|
|
Identifier pid = new Identifier();
|
1660 |
|
|
pid.setValue(pidString);
|
1661 |
|
|
|
1662 |
|
|
logMetacat.debug("updateSystemMetadata: " + pid);
|
1663 |
6514
|
leinfelder
|
|
1664 |
9122
|
tao
|
// get the system metadata from the request
|
1665 |
|
|
File smFile = files.get("sysmeta");
|
1666 |
|
|
FileInputStream sysmeta = new FileInputStream(smFile);
|
1667 |
|
|
SystemMetadata systemMetadata = TypeMarshaller.unmarshalTypeFromStream(SystemMetadata.class, sysmeta);
|
1668 |
|
|
|
1669 |
|
|
logMetacat.debug("updating system metadata with pid " + pid.getValue());
|
1670 |
|
|
|
1671 |
|
|
MNodeService.getInstance(request).updateSystemMetadata(session, pid, systemMetadata);
|
1672 |
|
|
}
|
1673 |
|
|
|
1674 |
6264
|
leinfelder
|
}
|