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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: tao $'
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* '$Date: 2016-07-06 16:52:46 -0700 (Wed, 06 Jul 2016) $'
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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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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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import java.util.concurrent.ExecutorService;
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import java.util.concurrent.Executors;
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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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import org.apache.commons.io.IOUtils;
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import org.apache.log4j.Logger;
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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.exceptions.MarshallingException;
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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.xml.sax.SAXException;
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import edu.ucsb.nceas.metacat.MetaCatServlet;
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import edu.ucsb.nceas.metacat.ReadOnlyChecker;
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import edu.ucsb.nceas.metacat.common.query.stream.ContentTypeInputStream;
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import edu.ucsb.nceas.metacat.dataone.MNodeService;
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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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import edu.ucsb.nceas.metacat.util.DeleteOnCloseFileInputStream;
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import edu.ucsb.nceas.utilities.PropertyNotFoundException;
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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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* 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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protected static final String RESOURCE_WHOAMI = "whoami";
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// shared executor
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private static ExecutorService executor = null;
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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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nThreads = Math.max(1, nThreads);
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executor = Executors.newFixedThreadPool(nThreads);
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}
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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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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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/**
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* This function is called from REST API servlet and handles each request to the servlet
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*
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* @param httpVerb (GET, POST, PUT or DELETE)
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*/
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@Override
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public void handle(byte httpVerb) {
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// prepare the handler
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super.handle(httpVerb);
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try {
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// only service requests if we have D1 configured
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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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// 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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// default to node info
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if (resource.equals("")) {
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resource = RESOURCE_NODE;
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}
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// get the rest of the path info
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String extra = null;
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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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boolean status = false;
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if (resource != null) {
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if (resource.startsWith(RESOURCE_NODE)) {
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// node response
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node();
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status = true;
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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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if (httpVerb == GET) {
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// after the command
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getToken();
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status = true;
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}
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} else if (resource.startsWith(RESOURCE_WHOAMI)) {
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logMetacat.debug("Using resource 'whoami'");
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// get
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if (httpVerb == GET) {
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// after the command
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whoami();
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status = true;
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}
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} else if (resource.startsWith(RESOURCE_IS_AUTHORIZED)) {
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if (httpVerb == GET) {
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// after the command
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extra = parseTrailing(resource, RESOURCE_IS_AUTHORIZED);
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extra = decode(extra);
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// check the access rules
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isAuthorized(extra);
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status = true;
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logMetacat.debug("done getting access");
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}
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} else if (resource.startsWith(RESOURCE_META)) {
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logMetacat.debug("Using resource 'meta'");
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// get
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if (httpVerb == GET) {
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logMetacat.debug("Using resource 'meta' for GET");
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// after the command
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extra = parseTrailing(resource, RESOURCE_META);
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extra = decode(extra);
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getSystemMetadataObject(extra);
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status = true;
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} else if (httpVerb == PUT) {
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logMetacat.debug("Using resource 'meta' for PUT");
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updateSystemMetadata();
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status = true;
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}
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} else if (resource.startsWith(RESOURCE_OBJECTS)) {
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logMetacat.debug("Using resource 'object'");
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// after the command
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extra = parseTrailing(resource, RESOURCE_OBJECTS);
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extra = decode(extra);
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logMetacat.debug("objectId: " + extra);
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logMetacat.debug("verb:" + httpVerb);
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if (httpVerb == GET) {
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getObject(extra);
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status = true;
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} else if (httpVerb == POST) {
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// part of the params, not the URL
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putObject(null, FUNCTION_NAME_INSERT);
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status = true;
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} else if (httpVerb == PUT) {
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putObject(extra, FUNCTION_NAME_UPDATE);
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status = true;
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} else if (httpVerb == DELETE) {
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deleteObject(extra);
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status = true;
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} else if (httpVerb == HEAD) {
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describeObject(extra);
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status = true;
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}
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} else if (resource.startsWith(RESOURCE_LOG)) {
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logMetacat.debug("Using resource 'log'");
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// handle log events
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if (httpVerb == GET) {
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getLog();
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status = true;
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}
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} else if (resource.startsWith(Constants.RESOURCE_ARCHIVE)) {
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logMetacat.debug("Using resource " + Constants.RESOURCE_ARCHIVE);
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// handle archive events
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if (httpVerb == PUT) {
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extra = parseTrailing(resource, Constants.RESOURCE_ARCHIVE);
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extra = decode(extra);
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archive(extra);
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status = true;
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}
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} else if (resource.startsWith(Constants.RESOURCE_CHECKSUM)) {
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logMetacat.debug("Using resource 'checksum'");
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// handle checksum requests
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if (httpVerb == GET) {
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// after the command
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extra = parseTrailing(resource, Constants.RESOURCE_CHECKSUM);
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extra = decode(extra);
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checksum(extra);
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status = true;
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}
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328
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} else if (resource.startsWith(RESOURCE_MONITOR)) {
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329
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// there are various parts to monitoring
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if (httpVerb == GET) {
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// after the command
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extra = parseTrailing(resource, RESOURCE_MONITOR);
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extra = decode(extra);
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334
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// ping
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335
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if (extra.toLowerCase().equals("ping")) {
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336
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logMetacat.debug("processing ping request");
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337
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Date result = MNodeService.getInstance(request).ping();
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338
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// TODO: send to output
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339
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status = true;
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340
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341
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}
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342
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|
343
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}
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344
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} else if (resource.startsWith(RESOURCE_REPLICATE)) {
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if (httpVerb == POST) {
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346
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logMetacat.debug("processing replicate request");
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replicate();
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348
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status = true;
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349
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}
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350
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} else if (resource.startsWith(RESOURCE_ERROR)) {
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351
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// sync error
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352
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if (httpVerb == POST) {
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syncError();
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status = true;
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355
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}
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356
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} else if (resource.startsWith(RESOURCE_META_CHANGED)) {
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357
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// system metadata changed
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358
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if (httpVerb == POST) {
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359
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systemMetadataChanged();
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360
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status = true;
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361
|
}
|
362
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} else if (resource.startsWith(RESOURCE_REPLICAS)) {
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363
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// get replica
|
364
|
if (httpVerb == GET) {
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extra = parseTrailing(resource, RESOURCE_REPLICAS);
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366
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extra = decode(extra);
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getReplica(extra);
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368
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status = true;
|
369
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}
|
370
|
} else if (resource.startsWith(RESOURCE_QUERY)) {
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371
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logMetacat.debug("Using resource " + RESOURCE_QUERY);
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372
|
// after the command
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373
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extra = parseTrailing(resource, RESOURCE_QUERY);
|
374
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logMetacat.debug("query extra: " + extra);
|
375
|
|
376
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String engine = null;
|
377
|
String query = null;
|
378
|
|
379
|
if (extra != null) {
|
380
|
// get the engine
|
381
|
int engineIndex = extra.length();
|
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|
if (extra.indexOf("/") > -1) {
|
383
|
engineIndex = extra.indexOf("/");
|
384
|
}
|
385
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engine = extra.substring(0, engineIndex);
|
386
|
engine = decode(engine);
|
387
|
logMetacat.debug("query engine: " + engine);
|
388
|
|
389
|
// check the query string first
|
390
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query = request.getQueryString();
|
391
|
|
392
|
// if null, look at the whole endpoint
|
393
|
if (query == null) {
|
394
|
// get the query if it is there
|
395
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query = extra.substring(engineIndex, extra.length());
|
396
|
if (query != null && query.length() == 0) {
|
397
|
query = null;
|
398
|
} else {
|
399
|
if (query.startsWith("/")) {
|
400
|
query = query.substring(1);
|
401
|
}
|
402
|
}
|
403
|
}
|
404
|
|
405
|
query = decode(query);
|
406
|
logMetacat.debug("query: " + query);
|
407
|
|
408
|
}
|
409
|
logMetacat.debug("verb:" + httpVerb);
|
410
|
if (httpVerb == GET) {
|
411
|
doQuery(engine, query);
|
412
|
status = true;
|
413
|
}
|
414
|
} else if (resource.startsWith(RESOURCE_GENERATE_ID)) {
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415
|
// generate an id
|
416
|
if (httpVerb == POST) {
|
417
|
generateIdentifier();
|
418
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status = true;
|
419
|
}
|
420
|
} else if (resource.startsWith(RESOURCE_PUBLISH)) {
|
421
|
logMetacat.debug("Using resource: " + RESOURCE_PUBLISH);
|
422
|
// PUT
|
423
|
if (httpVerb == PUT) {
|
424
|
// after the command
|
425
|
extra = parseTrailing(resource, RESOURCE_PUBLISH);
|
426
|
extra = decode(extra);
|
427
|
publish(extra);
|
428
|
status = true;
|
429
|
}
|
430
|
} else if (resource.startsWith(RESOURCE_PACKAGE)) {
|
431
|
logMetacat.debug("Using resource: " + RESOURCE_PACKAGE);
|
432
|
// after the command
|
433
|
extra = parseTrailing(resource, RESOURCE_PACKAGE);
|
434
|
|
435
|
String format = null;
|
436
|
String pid = null;
|
437
|
|
438
|
if (extra != null) {
|
439
|
// get the format
|
440
|
int formatIndex = extra.length();
|
441
|
if (extra.indexOf("/") > -1) {
|
442
|
formatIndex = extra.indexOf("/");
|
443
|
}
|
444
|
format = extra.substring(0, formatIndex);
|
445
|
format = decode(format);
|
446
|
logMetacat.debug("package format: " + format);
|
447
|
|
448
|
// get the pid if it is there
|
449
|
pid = extra.substring(formatIndex, extra.length());
|
450
|
if (pid != null && pid.length() == 0) {
|
451
|
pid = null;
|
452
|
} else {
|
453
|
if (pid.startsWith("/")) {
|
454
|
pid = pid.substring(1);
|
455
|
}
|
456
|
}
|
457
|
pid = decode(pid);
|
458
|
logMetacat.debug("pid: " + pid);
|
459
|
|
460
|
}
|
461
|
|
462
|
// get
|
463
|
if (httpVerb == GET) {
|
464
|
|
465
|
getPackage(format, pid);
|
466
|
status = true;
|
467
|
}
|
468
|
} else if (resource.startsWith(RESOURCE_VIEWS)) {
|
469
|
logMetacat.debug("Using resource " + RESOURCE_VIEWS);
|
470
|
// after the command
|
471
|
extra = parseTrailing(resource, RESOURCE_VIEWS);
|
472
|
logMetacat.debug("view extra: " + extra);
|
473
|
|
474
|
String format = null;
|
475
|
String pid = null;
|
476
|
|
477
|
if (extra != null) {
|
478
|
// get the format
|
479
|
int formatIndex = extra.length();
|
480
|
if (extra.indexOf("/") > -1) {
|
481
|
formatIndex = extra.indexOf("/");
|
482
|
}
|
483
|
format = extra.substring(0, formatIndex);
|
484
|
format = decode(format);
|
485
|
logMetacat.debug("view format: " + format);
|
486
|
|
487
|
// get the pid if it is there
|
488
|
pid = extra.substring(formatIndex, extra.length());
|
489
|
if (pid != null && pid.length() == 0) {
|
490
|
pid = null;
|
491
|
} else {
|
492
|
if (pid.startsWith("/")) {
|
493
|
pid = pid.substring(1);
|
494
|
}
|
495
|
}
|
496
|
pid = decode(pid);
|
497
|
logMetacat.debug("pid: " + pid);
|
498
|
|
499
|
}
|
500
|
logMetacat.debug("verb:" + httpVerb);
|
501
|
if (httpVerb == GET) {
|
502
|
doViews(format, pid);
|
503
|
status = true;
|
504
|
}
|
505
|
} else {
|
506
|
throw new InvalidRequest("0000", "No resource matched for " + resource);
|
507
|
}
|
508
|
|
509
|
if (!status) {
|
510
|
throw new ServiceFailure("0000", "Unknown error, status = " + status);
|
511
|
}
|
512
|
} else {
|
513
|
throw new InvalidRequest("0000", "No resource matched for " + resource);
|
514
|
}
|
515
|
} catch (BaseException be) {
|
516
|
// report Exceptions as clearly as possible
|
517
|
OutputStream out = null;
|
518
|
try {
|
519
|
out = response.getOutputStream();
|
520
|
} catch (IOException e) {
|
521
|
logMetacat.error("Could not get output stream from response", e);
|
522
|
}
|
523
|
serializeException(be, out);
|
524
|
} catch (Exception e) {
|
525
|
// report Exceptions as clearly and generically as possible
|
526
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
527
|
OutputStream out = null;
|
528
|
try {
|
529
|
out = response.getOutputStream();
|
530
|
} catch (IOException ioe) {
|
531
|
logMetacat.error("Could not get output stream from response", ioe);
|
532
|
}
|
533
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
534
|
serializeException(se, out);
|
535
|
}
|
536
|
}
|
537
|
|
538
|
|
539
|
private void doQuery(String engine, String query) {
|
540
|
|
541
|
OutputStream out = null;
|
542
|
|
543
|
try {
|
544
|
// NOTE: we set the session explicitly for the MNode instance since these methods do not provide a parameter
|
545
|
if (engine == null) {
|
546
|
// just looking for list of engines
|
547
|
MNodeService mnode = MNodeService.getInstance(request);
|
548
|
mnode.setSession(session);
|
549
|
QueryEngineList qel = mnode.listQueryEngines(session);
|
550
|
response.setContentType("text/xml");
|
551
|
response.setStatus(200);
|
552
|
out = response.getOutputStream();
|
553
|
TypeMarshaller.marshalTypeToOutputStream(qel, out);
|
554
|
return;
|
555
|
} else {
|
556
|
if (query != null) {
|
557
|
MNodeService mnode = MNodeService.getInstance(request);
|
558
|
mnode.setSession(session);
|
559
|
InputStream stream = mnode.query(session, engine, query);
|
560
|
|
561
|
// set the content-type if we have it from the implementation
|
562
|
if (stream instanceof ContentTypeInputStream) {
|
563
|
//response.setContentType("application/octet-stream");
|
564
|
//response.setContentType("text/xml");
|
565
|
response.setContentType(((ContentTypeInputStream) stream).getContentType());
|
566
|
}
|
567
|
response.setStatus(200);
|
568
|
out = response.getOutputStream();
|
569
|
// write the results to the output stream
|
570
|
IOUtils.copyLarge(stream, out);
|
571
|
return;
|
572
|
} else {
|
573
|
MNodeService mnode = MNodeService.getInstance(request);
|
574
|
mnode.setSession(session);
|
575
|
QueryEngineDescription qed = mnode.getQueryEngineDescription(session, engine);
|
576
|
response.setContentType("text/xml");
|
577
|
response.setStatus(200);
|
578
|
out = response.getOutputStream();
|
579
|
TypeMarshaller.marshalTypeToOutputStream(qed, out);
|
580
|
return;
|
581
|
}
|
582
|
}
|
583
|
|
584
|
|
585
|
} catch (BaseException be) {
|
586
|
// report Exceptions as clearly as possible
|
587
|
try {
|
588
|
out = response.getOutputStream();
|
589
|
} catch (IOException e) {
|
590
|
logMetacat.error("Could not get output stream from response", e);
|
591
|
}
|
592
|
serializeException(be, out);
|
593
|
} catch (Exception e) {
|
594
|
// report Exceptions as clearly and generically as possible
|
595
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
596
|
try {
|
597
|
out = response.getOutputStream();
|
598
|
} catch (IOException ioe) {
|
599
|
logMetacat.error("Could not get output stream from response", ioe);
|
600
|
}
|
601
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
602
|
serializeException(se, out);
|
603
|
}
|
604
|
}
|
605
|
|
606
|
private void doViews(String format, String pid) {
|
607
|
|
608
|
OutputStream out = null;
|
609
|
MNodeService mnode = MNodeService.getInstance(request);
|
610
|
|
611
|
try {
|
612
|
// get a list of views
|
613
|
if (pid != null) {
|
614
|
Identifier identifier = new Identifier();
|
615
|
identifier.setValue(pid);
|
616
|
InputStream stream = mnode.view(session, format, identifier);
|
617
|
|
618
|
// set the content-type if we have it from the implementation
|
619
|
if (stream instanceof ContentTypeInputStream) {
|
620
|
response.setContentType(((ContentTypeInputStream) stream).getContentType());
|
621
|
}
|
622
|
response.setStatus(200);
|
623
|
out = response.getOutputStream();
|
624
|
// write the results to the output stream
|
625
|
IOUtils.copyLarge(stream, out);
|
626
|
return;
|
627
|
} else {
|
628
|
// TODO: list the registered views
|
629
|
//BaseException ni = new NotImplemented("9999", "MN.listViews() is not implemented at this node");
|
630
|
//throw ni;
|
631
|
OptionList list = mnode.listViews(session);
|
632
|
|
633
|
response.setContentType("text/xml");
|
634
|
response.setStatus(200);
|
635
|
TypeMarshaller.marshalTypeToOutputStream(list, response.getOutputStream());
|
636
|
}
|
637
|
|
638
|
|
639
|
} catch (BaseException be) {
|
640
|
// report Exceptions as clearly as possible
|
641
|
try {
|
642
|
out = response.getOutputStream();
|
643
|
} catch (IOException e) {
|
644
|
logMetacat.error("Could not get output stream from response", e);
|
645
|
}
|
646
|
serializeException(be, out);
|
647
|
} catch (Exception e) {
|
648
|
// report Exceptions as clearly and generically as possible
|
649
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
650
|
try {
|
651
|
out = response.getOutputStream();
|
652
|
} catch (IOException ioe) {
|
653
|
logMetacat.error("Could not get output stream from response", ioe);
|
654
|
}
|
655
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
656
|
serializeException(se, out);
|
657
|
}
|
658
|
}
|
659
|
|
660
|
/**
|
661
|
* Handles notification of system metadata changes for the given identifier
|
662
|
*
|
663
|
* @param id the identifier for the object
|
664
|
* @throws InvalidToken
|
665
|
* @throws InvalidRequest
|
666
|
* @throws NotAuthorized
|
667
|
* @throws ServiceFailure
|
668
|
* @throws NotImplemented
|
669
|
*/
|
670
|
private void systemMetadataChanged()
|
671
|
throws NotImplemented, ServiceFailure, NotAuthorized, InvalidRequest,
|
672
|
InvalidToken {
|
673
|
|
674
|
ReadOnlyChecker checker = new ReadOnlyChecker();
|
675
|
boolean isReadOnlyMode = checker.isReadOnly();
|
676
|
if(isReadOnlyMode) {
|
677
|
throw new ServiceFailure("1333", ReadOnlyChecker.DATAONEERROR);
|
678
|
}
|
679
|
|
680
|
//final long serialVersion = 0L;
|
681
|
String serialVersionStr = null;
|
682
|
String dateSysMetaLastModifiedStr = null;
|
683
|
|
684
|
// mkae sure we have the multipart params
|
685
|
try {
|
686
|
initMultipartParams();
|
687
|
} catch (Exception e1) {
|
688
|
throw new ServiceFailure("1333", "Could not collect the multipart params for the request");
|
689
|
}
|
690
|
|
691
|
// get the pid
|
692
|
String id = null;
|
693
|
try {
|
694
|
id = multipartparams.get("pid").get(0);
|
695
|
} catch (NullPointerException e) {
|
696
|
String msg = "The 'pid' must be provided as a parameter and was not.";
|
697
|
logMetacat.error(msg);
|
698
|
throw new InvalidRequest("1334", msg);
|
699
|
}
|
700
|
final Identifier pid = new Identifier();
|
701
|
pid.setValue(id);
|
702
|
|
703
|
// get the serialVersion
|
704
|
try {
|
705
|
serialVersionStr = multipartparams.get("serialVersion").get(0);
|
706
|
} catch (NullPointerException e) {
|
707
|
String msg = "The 'serialVersion' must be provided as a parameter and was not.";
|
708
|
logMetacat.error(msg);
|
709
|
throw new InvalidRequest("1334", msg);
|
710
|
|
711
|
}
|
712
|
|
713
|
final long serialVersion = (new Long(serialVersionStr)).longValue();
|
714
|
|
715
|
// get the dateSysMetaLastModified
|
716
|
try {
|
717
|
dateSysMetaLastModifiedStr = multipartparams.get("dateSysMetaLastModified").get(0);
|
718
|
|
719
|
|
720
|
} catch (NullPointerException e) {
|
721
|
String msg =
|
722
|
"The 'dateSysMetaLastModified' must be provided as a " +
|
723
|
"parameter and was not, or was an invalid representation of the timestamp.";
|
724
|
logMetacat.error(msg);
|
725
|
throw new InvalidRequest("1334", msg);
|
726
|
|
727
|
}
|
728
|
final Date dateSysMetaLastModified = DateTimeMarshaller.deserializeDateToUTC(dateSysMetaLastModifiedStr);
|
729
|
|
730
|
// check authorization before sending to implementation
|
731
|
boolean authorized = MNodeService.getInstance(request).isAdminAuthorized(session);
|
732
|
if (!authorized) {
|
733
|
String msg = "User is not authorized to call systemMetadataChanged";
|
734
|
NotAuthorized failure = new NotAuthorized("1331", msg);
|
735
|
throw failure;
|
736
|
}
|
737
|
|
738
|
// run it in a thread to avoid connection timeout
|
739
|
Runnable runner = new Runnable() {
|
740
|
@Override
|
741
|
public void run() {
|
742
|
try {
|
743
|
// call the service
|
744
|
MNodeService.getInstance(request).systemMetadataChanged(session, pid, serialVersion, dateSysMetaLastModified);
|
745
|
} catch (Exception e) {
|
746
|
logMetacat.error("Error running replication: " + e.getMessage(), e);
|
747
|
throw new RuntimeException(e.getMessage(), e);
|
748
|
}
|
749
|
}
|
750
|
};
|
751
|
// submit the task, and that's it
|
752
|
executor.submit(runner);
|
753
|
|
754
|
// thread was started, so we return success
|
755
|
response.setStatus(200);
|
756
|
}
|
757
|
|
758
|
/**
|
759
|
* Handles identifier generation calls
|
760
|
*
|
761
|
* @throws InvalidRequest
|
762
|
* @throws NotImplemented
|
763
|
* @throws NotAuthorized
|
764
|
* @throws ServiceFailure
|
765
|
* @throws InvalidToken
|
766
|
* @throws IOException
|
767
|
* @throws MarshallingException
|
768
|
*/
|
769
|
private void generateIdentifier() throws InvalidToken, ServiceFailure, NotAuthorized, NotImplemented, InvalidRequest, IOException, MarshallingException {
|
770
|
|
771
|
// make sure we have the multipart params
|
772
|
try {
|
773
|
initMultipartParams();
|
774
|
} catch (Exception e1) {
|
775
|
throw new ServiceFailure("1333", "Could not collect the multipart params for the request");
|
776
|
}
|
777
|
|
778
|
// get the scheme
|
779
|
String scheme = null;
|
780
|
try {
|
781
|
scheme = multipartparams.get("scheme").get(0);
|
782
|
} catch (NullPointerException e) {
|
783
|
String msg = "The 'scheme' parameter was not provided, using default";
|
784
|
logMetacat.warn(msg);
|
785
|
}
|
786
|
|
787
|
// get the fragment
|
788
|
String fragment = null;
|
789
|
try {
|
790
|
fragment = multipartparams.get("fragment").get(0);
|
791
|
} catch (NullPointerException e) {
|
792
|
String msg = "The 'fragment' parameter was not provided, using default";
|
793
|
logMetacat.warn(msg);
|
794
|
}
|
795
|
|
796
|
// call the service
|
797
|
Identifier identifier = MNodeService.getInstance(request).generateIdentifier(session, scheme, fragment);
|
798
|
response.setStatus(200);
|
799
|
response.setContentType("text/xml");
|
800
|
OutputStream out = response.getOutputStream();
|
801
|
TypeMarshaller.marshalTypeToOutputStream(identifier, out);
|
802
|
}
|
803
|
|
804
|
/**
|
805
|
* Checks the access policy
|
806
|
* @param id
|
807
|
* @return
|
808
|
* @throws ServiceFailure
|
809
|
* @throws InvalidToken
|
810
|
* @throws NotFound
|
811
|
* @throws NotAuthorized
|
812
|
* @throws NotImplemented
|
813
|
* @throws InvalidRequest
|
814
|
*/
|
815
|
private boolean isAuthorized(String id) throws ServiceFailure, InvalidToken, NotFound, NotAuthorized, NotImplemented, InvalidRequest {
|
816
|
Identifier pid = new Identifier();
|
817
|
pid.setValue(id);
|
818
|
Permission permission = null;
|
819
|
try {
|
820
|
String perm = params.get("action")[0];
|
821
|
permission = Permission.convert(perm);
|
822
|
} catch (Exception e) {
|
823
|
logMetacat.warn("No permission specified");
|
824
|
}
|
825
|
boolean result = MNodeService.getInstance(request).isAuthorized(session, pid, permission);
|
826
|
response.setStatus(200);
|
827
|
response.setContentType("text/xml");
|
828
|
return result;
|
829
|
}
|
830
|
|
831
|
private void getToken() throws Exception {
|
832
|
|
833
|
if (this.session != null) {
|
834
|
String userId = this.session.getSubject().getValue();
|
835
|
String fullName = null;
|
836
|
try {
|
837
|
Person person = this.session.getSubjectInfo().getPerson(0);
|
838
|
fullName = person.getGivenName(0) + " " + person.getFamilyName();
|
839
|
} catch (Exception e) {
|
840
|
logMetacat.warn(e.getMessage(), e);
|
841
|
}
|
842
|
|
843
|
String token = null;
|
844
|
token = TokenGenerator.getInstance().getJWT(userId, fullName);
|
845
|
|
846
|
response.setStatus(200);
|
847
|
response.setContentType("text/plain");
|
848
|
OutputStream out = response.getOutputStream();
|
849
|
out.write(token.getBytes(MetaCatServlet.DEFAULT_ENCODING));
|
850
|
out.close();
|
851
|
} else {
|
852
|
response.setStatus(401);
|
853
|
response.setContentType("text/plain");
|
854
|
OutputStream out = response.getOutputStream();
|
855
|
out.write("No session information found".getBytes(MetaCatServlet.DEFAULT_ENCODING));
|
856
|
out.close();
|
857
|
}
|
858
|
|
859
|
}
|
860
|
|
861
|
private void whoami() throws Exception {
|
862
|
|
863
|
if (this.session != null) {
|
864
|
Subject subject = this.session.getSubject();
|
865
|
SubjectInfo subjectInfo = null;
|
866
|
try {
|
867
|
subjectInfo = this.session.getSubjectInfo();
|
868
|
} catch (Exception e) {
|
869
|
logMetacat.warn(e.getMessage(), e);
|
870
|
}
|
871
|
|
872
|
response.setStatus(200);
|
873
|
response.setContentType("text/plain");
|
874
|
OutputStream out = response.getOutputStream();
|
875
|
|
876
|
if (subjectInfo != null) {
|
877
|
TypeMarshaller.marshalTypeToOutputStream(subjectInfo, out);
|
878
|
} else {
|
879
|
TypeMarshaller.marshalTypeToOutputStream(subject, out);
|
880
|
}
|
881
|
|
882
|
out.close();
|
883
|
} else {
|
884
|
response.setStatus(401);
|
885
|
response.setContentType("text/plain");
|
886
|
OutputStream out = response.getOutputStream();
|
887
|
out.write("No session information found".getBytes(MetaCatServlet.DEFAULT_ENCODING));
|
888
|
out.close();
|
889
|
}
|
890
|
|
891
|
}
|
892
|
|
893
|
/**
|
894
|
* Processes failed synchronization message
|
895
|
* @throws NotImplemented
|
896
|
* @throws ServiceFailure
|
897
|
* @throws NotAuthorized
|
898
|
* @throws InvalidRequest
|
899
|
* @throws MarshallingException
|
900
|
* @throws IllegalAccessException
|
901
|
* @throws InstantiationException
|
902
|
* @throws IOException
|
903
|
*/
|
904
|
private void syncError() throws NotImplemented, ServiceFailure, NotAuthorized, InvalidRequest, MarshallingException, IOException, InstantiationException, IllegalAccessException {
|
905
|
SynchronizationFailed syncFailed = null;
|
906
|
try {
|
907
|
syncFailed = collectSynchronizationFailed();
|
908
|
} catch (ParserConfigurationException e) {
|
909
|
throw new ServiceFailure("2161", e.getMessage());
|
910
|
} catch (SAXException e) {
|
911
|
throw new ServiceFailure("2161", e.getMessage());
|
912
|
}
|
913
|
|
914
|
MNodeService.getInstance(request).synchronizationFailed(session, syncFailed);
|
915
|
}
|
916
|
|
917
|
/**
|
918
|
* Calculate the checksum
|
919
|
* @throws NotImplemented
|
920
|
* @throws MarshallingException
|
921
|
* @throws IOException
|
922
|
* @throws InvalidToken
|
923
|
* @throws ServiceFailure
|
924
|
* @throws NotAuthorized
|
925
|
* @throws NotFound
|
926
|
* @throws InvalidRequest
|
927
|
*/
|
928
|
private void checksum(String pid) throws NotImplemented, MarshallingException, IOException, InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest {
|
929
|
String checksumAlgorithm = "MD5";
|
930
|
try {
|
931
|
checksumAlgorithm = PropertyService.getProperty("dataone.checksumAlgorithm.default");
|
932
|
} catch(Exception e) {
|
933
|
logMetacat.warn("Could not lookup configured default checksum algorithm, using: " + checksumAlgorithm);
|
934
|
}
|
935
|
|
936
|
Identifier pidid = new Identifier();
|
937
|
pidid.setValue(pid);
|
938
|
try {
|
939
|
checksumAlgorithm = params.get("checksumAlgorithm")[0];
|
940
|
} catch(Exception e) {
|
941
|
//do nothing. use the default
|
942
|
logMetacat.warn("No algorithm specified, using default: " + checksumAlgorithm);
|
943
|
}
|
944
|
logMetacat.debug("getting checksum for object " + pid + " with algorithm " + checksumAlgorithm);
|
945
|
|
946
|
Checksum c = MNodeService.getInstance(request).getChecksum(session, pidid, checksumAlgorithm);
|
947
|
logMetacat.debug("got checksum " + c.getValue());
|
948
|
response.setStatus(200);
|
949
|
logMetacat.debug("serializing response");
|
950
|
TypeMarshaller.marshalTypeToOutputStream(c, response.getOutputStream());
|
951
|
logMetacat.debug("done serializing response.");
|
952
|
|
953
|
}
|
954
|
|
955
|
/**
|
956
|
* handle the replicate action for MN
|
957
|
* @throws MarshallingException
|
958
|
* @throws FileUploadException
|
959
|
* @throws IOException
|
960
|
* @throws InvalidRequest
|
961
|
* @throws ServiceFailure
|
962
|
* @throws UnsupportedType
|
963
|
* @throws InsufficientResources
|
964
|
* @throws NotAuthorized
|
965
|
* @throws NotImplemented
|
966
|
* @throws IllegalAccessException
|
967
|
* @throws InstantiationException
|
968
|
* @throws InvalidToken
|
969
|
*/
|
970
|
private void replicate()
|
971
|
throws ServiceFailure, InvalidRequest, IOException, FileUploadException,
|
972
|
MarshallingException, NotImplemented, NotAuthorized, InsufficientResources,
|
973
|
UnsupportedType, InstantiationException, IllegalAccessException, InvalidToken {
|
974
|
|
975
|
logMetacat.debug("in POST replicate()");
|
976
|
ReadOnlyChecker checker = new ReadOnlyChecker();
|
977
|
boolean isReadOnlyMode = checker.isReadOnly();
|
978
|
if(isReadOnlyMode) {
|
979
|
throw new ServiceFailure("2151", ReadOnlyChecker.DATAONEERROR);
|
980
|
}
|
981
|
|
982
|
// somewhat unorthodox, but the call is asynchronous and we'd like to return this info sooner
|
983
|
boolean allowed = false;
|
984
|
if (session == null) {
|
985
|
String msg = "No session was provided.";
|
986
|
NotAuthorized failure = new NotAuthorized("2152", msg);
|
987
|
throw failure;
|
988
|
} else {
|
989
|
allowed = MNodeService.getInstance(request).isAdminAuthorized(session);
|
990
|
if (!allowed) {
|
991
|
String msg = "User is not an admin user";
|
992
|
NotAuthorized failure = new NotAuthorized("2152", msg);
|
993
|
throw failure;
|
994
|
}
|
995
|
}
|
996
|
|
997
|
// parse the systemMetadata
|
998
|
Map<String, File> files = collectMultipartFiles();
|
999
|
final SystemMetadata sysmeta = TypeMarshaller.unmarshalTypeFromFile(SystemMetadata.class, files.get("sysmeta"));
|
1000
|
|
1001
|
String sn = multipartparams.get("sourceNode").get(0);
|
1002
|
logMetacat.debug("sourceNode: " + sn);
|
1003
|
final NodeReference sourceNode = new NodeReference();
|
1004
|
sourceNode.setValue(sn);
|
1005
|
|
1006
|
// run it in a thread to avoid connection timeout
|
1007
|
Runnable runner = new Runnable() {
|
1008
|
@Override
|
1009
|
public void run() {
|
1010
|
try {
|
1011
|
MNodeService.getInstance(request).replicate(session, sysmeta, sourceNode);
|
1012
|
} catch (Exception e) {
|
1013
|
logMetacat.error("Error running replication: " + e.getMessage(), e);
|
1014
|
throw new RuntimeException(e.getMessage(), e);
|
1015
|
}
|
1016
|
}
|
1017
|
};
|
1018
|
// submit the task, and that's it
|
1019
|
executor.submit(runner);
|
1020
|
|
1021
|
// thread was started, so we return success
|
1022
|
response.setStatus(200);
|
1023
|
|
1024
|
}
|
1025
|
|
1026
|
/**
|
1027
|
* Handle the getReplica action for the MN
|
1028
|
* @param id the identifier for the object
|
1029
|
* @throws NotFound
|
1030
|
* @throws ServiceFailure
|
1031
|
* @throws NotImplemented
|
1032
|
* @throws NotAuthorized
|
1033
|
* @throws InvalidToken
|
1034
|
* @throws InvalidRequest
|
1035
|
*/
|
1036
|
private void getReplica(String id)
|
1037
|
throws InvalidRequest, InvalidToken, NotAuthorized, NotImplemented,
|
1038
|
ServiceFailure, NotFound {
|
1039
|
|
1040
|
Identifier pid = new Identifier();
|
1041
|
pid.setValue(id);
|
1042
|
OutputStream out = null;
|
1043
|
InputStream dataBytes = null;
|
1044
|
|
1045
|
try {
|
1046
|
// call the service
|
1047
|
dataBytes = MNodeService.getInstance(request).getReplica(session, pid);
|
1048
|
|
1049
|
response.setContentType("application/octet-stream");
|
1050
|
response.setStatus(200);
|
1051
|
out = response.getOutputStream();
|
1052
|
// write the object to the output stream
|
1053
|
IOUtils.copyLarge(dataBytes, out);
|
1054
|
|
1055
|
} catch (IOException e) {
|
1056
|
String msg = "There was an error writing the output: " + e.getMessage();
|
1057
|
logMetacat.error(msg);
|
1058
|
throw new ServiceFailure("2181", msg);
|
1059
|
|
1060
|
}
|
1061
|
|
1062
|
}
|
1063
|
|
1064
|
/**
|
1065
|
* Get the Node information
|
1066
|
*
|
1067
|
* @throws MarshallingException
|
1068
|
* @throws IOException
|
1069
|
* @throws InvalidRequest
|
1070
|
* @throws ServiceFailure
|
1071
|
* @throws NotAuthorized
|
1072
|
* @throws NotImplemented
|
1073
|
*/
|
1074
|
private void node()
|
1075
|
throws MarshallingException, IOException, NotImplemented, NotAuthorized, ServiceFailure, InvalidRequest {
|
1076
|
|
1077
|
Node n = MNodeService.getInstance(request).getCapabilities();
|
1078
|
|
1079
|
response.setContentType("text/xml");
|
1080
|
response.setStatus(200);
|
1081
|
TypeMarshaller.marshalTypeToOutputStream(n, response.getOutputStream());
|
1082
|
|
1083
|
}
|
1084
|
|
1085
|
/**
|
1086
|
* MN_crud.describe()
|
1087
|
* http://mule1.dataone.org/ArchitectureDocs/mn_api_crud.html#MN_crud.describe
|
1088
|
* @param pid
|
1089
|
* @throws InvalidRequest
|
1090
|
* @throws NotImplemented
|
1091
|
* @throws NotFound
|
1092
|
* @throws NotAuthorized
|
1093
|
* @throws ServiceFailure
|
1094
|
* @throws InvalidToken
|
1095
|
*/
|
1096
|
private void describeObject(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, InvalidRequest
|
1097
|
{
|
1098
|
|
1099
|
response.setContentType("text/xml");
|
1100
|
|
1101
|
Identifier id = new Identifier();
|
1102
|
id.setValue(pid);
|
1103
|
|
1104
|
DescribeResponse dr = null;
|
1105
|
try {
|
1106
|
dr = MNodeService.getInstance(request).describe(session, id);
|
1107
|
} catch (BaseException e) {
|
1108
|
response.setStatus(e.getCode());
|
1109
|
response.addHeader("DataONE-Exception-Name", e.getClass().getName());
|
1110
|
response.addHeader("DataONE-Exception-DetailCode", e.getDetail_code());
|
1111
|
response.addHeader("DataONE-Exception-Description", e.getDescription());
|
1112
|
response.addHeader("DataONE-Exception-PID", id.getValue());
|
1113
|
return;
|
1114
|
}
|
1115
|
|
1116
|
response.setStatus(200);
|
1117
|
|
1118
|
//response.addHeader("pid", pid);
|
1119
|
response.addHeader("DataONE-Checksum", dr.getDataONE_Checksum().getAlgorithm() + "," + dr.getDataONE_Checksum().getValue());
|
1120
|
response.addHeader("Content-Length", dr.getContent_Length() + "");
|
1121
|
response.addHeader("Last-Modified", DateTimeMarshaller.serializeDateToUTC(dr.getLast_Modified()));
|
1122
|
response.addHeader("DataONE-ObjectFormat", dr.getDataONE_ObjectFormatIdentifier().getValue());
|
1123
|
response.addHeader("DataONE-SerialVersion", dr.getSerialVersion().toString());
|
1124
|
|
1125
|
|
1126
|
}
|
1127
|
|
1128
|
/**
|
1129
|
* get the logs based on passed params. Available
|
1130
|
* See http://mule1.dataone.org/ArchitectureDocs/mn_api_crud.html#MN_crud.getLogRecords
|
1131
|
* for more info
|
1132
|
* @throws NotImplemented
|
1133
|
* @throws InvalidRequest
|
1134
|
* @throws NotAuthorized
|
1135
|
* @throws ServiceFailure
|
1136
|
* @throws InvalidToken
|
1137
|
* @throws IOException
|
1138
|
* @throws MarshallingException
|
1139
|
*/
|
1140
|
private void getLog() throws InvalidToken, ServiceFailure, NotAuthorized, InvalidRequest, NotImplemented, IOException, MarshallingException
|
1141
|
{
|
1142
|
|
1143
|
Date fromDate = null;
|
1144
|
Date toDate = null;
|
1145
|
String event = null;
|
1146
|
Integer start = null;
|
1147
|
Integer count = null;
|
1148
|
String pidFilter = null;
|
1149
|
|
1150
|
try {
|
1151
|
String fromDateS = params.get("fromDate")[0];
|
1152
|
logMetacat.debug("param fromDateS: " + fromDateS);
|
1153
|
fromDate = DateTimeMarshaller.deserializeDateToUTC(fromDateS);
|
1154
|
} catch (Exception e) {
|
1155
|
logMetacat.warn("Could not parse fromDate: " + e.getMessage());
|
1156
|
}
|
1157
|
try {
|
1158
|
String toDateS = params.get("toDate")[0];
|
1159
|
logMetacat.debug("param toDateS: " + toDateS);
|
1160
|
toDate = DateTimeMarshaller.deserializeDateToUTC(toDateS);
|
1161
|
} catch (Exception e) {
|
1162
|
logMetacat.warn("Could not parse toDate: " + e.getMessage());
|
1163
|
}
|
1164
|
try {
|
1165
|
event = params.get("event")[0];
|
1166
|
} catch (Exception e) {
|
1167
|
logMetacat.warn("Could not parse event: " + e.getMessage());
|
1168
|
}
|
1169
|
logMetacat.debug("fromDate: " + fromDate + " toDate: " + toDate);
|
1170
|
|
1171
|
try {
|
1172
|
start = Integer.parseInt(params.get("start")[0]);
|
1173
|
} catch (Exception e) {
|
1174
|
logMetacat.warn("Could not parse start: " + e.getMessage());
|
1175
|
}
|
1176
|
try {
|
1177
|
count = Integer.parseInt(params.get("count")[0]);
|
1178
|
} catch (Exception e) {
|
1179
|
logMetacat.warn("Could not parse count: " + e.getMessage());
|
1180
|
}
|
1181
|
|
1182
|
try {
|
1183
|
pidFilter = params.get("idFilter")[0];
|
1184
|
} catch (Exception e) {
|
1185
|
logMetacat.warn("Could not parse pidFilter: " + e.getMessage());
|
1186
|
}
|
1187
|
|
1188
|
logMetacat.debug("calling getLogRecords");
|
1189
|
Log log = MNodeService.getInstance(request).getLogRecords(session, fromDate, toDate, event, pidFilter, start, count);
|
1190
|
|
1191
|
OutputStream out = response.getOutputStream();
|
1192
|
response.setStatus(200);
|
1193
|
response.setContentType("text/xml");
|
1194
|
|
1195
|
TypeMarshaller.marshalTypeToOutputStream(log, out);
|
1196
|
|
1197
|
}
|
1198
|
|
1199
|
|
1200
|
|
1201
|
/**
|
1202
|
* Implements REST version of DataONE CRUD API --> get
|
1203
|
* @param pid ID of data object to be read
|
1204
|
* @throws NotImplemented
|
1205
|
* @throws InvalidRequest
|
1206
|
* @throws NotFound
|
1207
|
* @throws NotAuthorized
|
1208
|
* @throws ServiceFailure
|
1209
|
* @throws InvalidToken
|
1210
|
* @throws IOException
|
1211
|
* @throws MarshallingException
|
1212
|
*/
|
1213
|
protected void getObject(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest, NotImplemented, IOException, MarshallingException {
|
1214
|
OutputStream out = null;
|
1215
|
|
1216
|
if (pid != null) { //get a specific document
|
1217
|
Identifier id = new Identifier();
|
1218
|
id.setValue(pid);
|
1219
|
|
1220
|
SystemMetadata sm = MNodeService.getInstance(request).getSystemMetadata(session, id);
|
1221
|
|
1222
|
// set the headers for the content
|
1223
|
String mimeType = null;
|
1224
|
String charset = null;
|
1225
|
ObjectFormat objectFormat = null;
|
1226
|
|
1227
|
try {
|
1228
|
objectFormat = ObjectFormatCache.getInstance().getFormat(sm.getFormatId());
|
1229
|
} catch (BaseException be) {
|
1230
|
logMetacat.warn("Could not lookup ObjectFormat for: " + sm.getFormatId(), be);
|
1231
|
}
|
1232
|
// do we have mediaType/encoding in SM?
|
1233
|
MediaType mediaType = sm.getMediaType();
|
1234
|
if (mediaType == null && objectFormat != null) {
|
1235
|
try {
|
1236
|
mediaType = objectFormat.getMediaType();
|
1237
|
} catch (Exception e) {
|
1238
|
logMetacat.warn("Could not lookup MediaType for: " + sm.getFormatId(), e);
|
1239
|
}
|
1240
|
}
|
1241
|
if (mediaType != null) {
|
1242
|
mimeType = mediaType.getName();
|
1243
|
if (mediaType.getPropertyList() != null) {
|
1244
|
Iterator<MediaTypeProperty> iter = mediaType.getPropertyList().iterator();
|
1245
|
while (iter.hasNext()) {
|
1246
|
MediaTypeProperty mtp = iter.next();
|
1247
|
if (mtp.getName().equalsIgnoreCase("charset")) {
|
1248
|
charset = mtp.getValue();
|
1249
|
mimeType += "; charset=" + charset;
|
1250
|
break;
|
1251
|
}
|
1252
|
}
|
1253
|
}
|
1254
|
}
|
1255
|
// check object format
|
1256
|
|
1257
|
// use the fallback from v1 impl
|
1258
|
if (mimeType == null) {
|
1259
|
mimeType = ObjectFormatInfo.instance().getMimeType(sm.getFormatId().getValue());
|
1260
|
|
1261
|
// still null?
|
1262
|
if (mimeType == null) {
|
1263
|
mimeType = "application/octet-stream";
|
1264
|
}
|
1265
|
}
|
1266
|
|
1267
|
// check for filename in SM first
|
1268
|
String filename = sm.getFileName();
|
1269
|
// then fallback to using id and extension
|
1270
|
if (filename == null) {
|
1271
|
String extension = objectFormat.getExtension();
|
1272
|
if (extension == null) {
|
1273
|
extension = ObjectFormatInfo.instance().getExtension(sm.getFormatId().getValue());
|
1274
|
}
|
1275
|
filename = id.getValue();
|
1276
|
if (extension != null) {
|
1277
|
filename = id.getValue() + "." + extension;
|
1278
|
}
|
1279
|
}
|
1280
|
response.setContentType(mimeType);
|
1281
|
response.setHeader("Content-Disposition", "inline; filename=" + filename);
|
1282
|
|
1283
|
InputStream data = MNodeService.getInstance(request).get(session, id);
|
1284
|
|
1285
|
out = response.getOutputStream();
|
1286
|
IOUtils.copyLarge(data, out);
|
1287
|
|
1288
|
}
|
1289
|
else
|
1290
|
{ //call listObjects with specified params
|
1291
|
Date startTime = null;
|
1292
|
Date endTime = null;
|
1293
|
ObjectFormatIdentifier formatId = null;
|
1294
|
Identifier identifier = null;
|
1295
|
boolean replicaStatus = true;
|
1296
|
int start = 0;
|
1297
|
//TODO: make the max count into a const
|
1298
|
int count = 1000;
|
1299
|
Enumeration paramlist = request.getParameterNames();
|
1300
|
while (paramlist.hasMoreElements())
|
1301
|
{ //parse the params and make the crud call
|
1302
|
String name = (String) paramlist.nextElement();
|
1303
|
String[] value = (String[])request.getParameterValues(name);
|
1304
|
|
1305
|
if (name.equals("fromDate") && value != null)
|
1306
|
{
|
1307
|
try
|
1308
|
{
|
1309
|
//startTime = dateFormat.parse(value[0]);
|
1310
|
startTime = DateTimeMarshaller.deserializeDateToUTC(value[0]);
|
1311
|
//startTime = parseDateAndConvertToGMT(value[0]);
|
1312
|
}
|
1313
|
catch(Exception e)
|
1314
|
{ //if we can't parse it, just don't use the fromDate param
|
1315
|
logMetacat.warn("Could not parse fromDate: " + value[0]);
|
1316
|
startTime = null;
|
1317
|
}
|
1318
|
}
|
1319
|
else if(name.equals("toDate") && value != null)
|
1320
|
{
|
1321
|
try
|
1322
|
{
|
1323
|
endTime = DateTimeMarshaller.deserializeDateToUTC(value[0]);
|
1324
|
}
|
1325
|
catch(Exception e)
|
1326
|
{ //if we can't parse it, just don't use the toDate param
|
1327
|
logMetacat.warn("Could not parse toDate: " + value[0]);
|
1328
|
endTime = null;
|
1329
|
}
|
1330
|
}
|
1331
|
else if(name.equals("formatId") && value != null)
|
1332
|
{
|
1333
|
formatId = new ObjectFormatIdentifier();
|
1334
|
formatId.setValue(value[0]);
|
1335
|
}
|
1336
|
else if(name.equals("identifier") && value != null)
|
1337
|
{
|
1338
|
identifier = new Identifier();
|
1339
|
identifier.setValue(value[0]);
|
1340
|
}
|
1341
|
else if(name.equals("replicaStatus") && value != null)
|
1342
|
{
|
1343
|
if(value != null &&
|
1344
|
value.length > 0 &&
|
1345
|
(value[0].equalsIgnoreCase("false") || value[0].equalsIgnoreCase("no")))
|
1346
|
{
|
1347
|
replicaStatus = false;
|
1348
|
}
|
1349
|
}
|
1350
|
else if(name.equals("start") && value != null)
|
1351
|
{
|
1352
|
start = new Integer(value[0]).intValue();
|
1353
|
}
|
1354
|
else if(name.equals("count") && value != null)
|
1355
|
{
|
1356
|
count = new Integer(value[0]).intValue();
|
1357
|
}
|
1358
|
}
|
1359
|
//make the crud call
|
1360
|
logMetacat.debug("session: " + session + " startTime: " + startTime +
|
1361
|
" endTime: " + endTime + " formatId: " +
|
1362
|
formatId + " replicaStatus: " + replicaStatus +
|
1363
|
" start: " + start + " count: " + count);
|
1364
|
|
1365
|
ObjectList ol =
|
1366
|
MNodeService.getInstance(request).listObjects(session, startTime, endTime,
|
1367
|
formatId, identifier, replicaStatus, start, count);
|
1368
|
|
1369
|
out = response.getOutputStream();
|
1370
|
response.setStatus(200);
|
1371
|
response.setContentType("text/xml");
|
1372
|
// Serialize and write it to the output stream
|
1373
|
TypeMarshaller.marshalTypeToOutputStream(ol, out);
|
1374
|
|
1375
|
}
|
1376
|
|
1377
|
}
|
1378
|
|
1379
|
|
1380
|
/**
|
1381
|
* Retrieve data package as Bagit zip
|
1382
|
* @param pid
|
1383
|
* @throws NotImplemented
|
1384
|
* @throws NotFound
|
1385
|
* @throws NotAuthorized
|
1386
|
* @throws ServiceFailure
|
1387
|
* @throws InvalidToken
|
1388
|
* @throws IOException
|
1389
|
* @throws InvalidRequest
|
1390
|
*/
|
1391
|
protected void getPackage(String format, String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, IOException, InvalidRequest {
|
1392
|
|
1393
|
Identifier id = new Identifier();
|
1394
|
id.setValue(pid);
|
1395
|
ObjectFormatIdentifier formatId = null;
|
1396
|
if (format != null) {
|
1397
|
formatId = new ObjectFormatIdentifier();
|
1398
|
formatId.setValue(format);
|
1399
|
}
|
1400
|
InputStream is = MNodeService.getInstance(request).getPackage(session, formatId , id);
|
1401
|
|
1402
|
// use the provided filename
|
1403
|
String filename = null;
|
1404
|
if (is instanceof DeleteOnCloseFileInputStream) {
|
1405
|
filename = ((DeleteOnCloseFileInputStream)is).getFile().getName();
|
1406
|
} else {
|
1407
|
filename = "dataPackage-" + System.currentTimeMillis() + ".zip";
|
1408
|
}
|
1409
|
response.setHeader("Content-Disposition", "inline; filename=" + filename);
|
1410
|
response.setContentType("application/zip");
|
1411
|
response.setStatus(200);
|
1412
|
OutputStream out = response.getOutputStream();
|
1413
|
|
1414
|
// write it to the output stream
|
1415
|
IOUtils.copyLarge(is, out);
|
1416
|
}
|
1417
|
|
1418
|
protected void publish(String pid) throws InvalidToken, ServiceFailure,
|
1419
|
NotAuthorized, NotFound, NotImplemented, IOException,
|
1420
|
MarshallingException, InvalidRequest, IdentifierNotUnique,
|
1421
|
UnsupportedType, InsufficientResources, InvalidSystemMetadata {
|
1422
|
|
1423
|
// publish the object
|
1424
|
Identifier originalIdentifier = new Identifier();
|
1425
|
originalIdentifier.setValue(pid);
|
1426
|
Identifier newIdentifier = MNodeService.getInstance(request).publish(session, originalIdentifier);
|
1427
|
|
1428
|
response.setStatus(200);
|
1429
|
response.setContentType("text/xml");
|
1430
|
OutputStream out = response.getOutputStream();
|
1431
|
|
1432
|
// write new identifier to the output stream
|
1433
|
TypeMarshaller.marshalTypeToOutputStream(newIdentifier, out);
|
1434
|
}
|
1435
|
|
1436
|
/**
|
1437
|
* Retrieve System Metadata
|
1438
|
* @param pid
|
1439
|
* @throws InvalidToken
|
1440
|
* @throws ServiceFailure
|
1441
|
* @throws NotAuthorized
|
1442
|
* @throws NotFound
|
1443
|
* @throws InvalidRequest
|
1444
|
* @throws NotImplemented
|
1445
|
* @throws IOException
|
1446
|
* @throws MarshallingException
|
1447
|
*/
|
1448
|
protected void getSystemMetadataObject(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest, NotImplemented, IOException, MarshallingException {
|
1449
|
|
1450
|
Identifier id = new Identifier();
|
1451
|
id.setValue(pid);
|
1452
|
SystemMetadata sysmeta = MNodeService.getInstance(request).getSystemMetadata(session, id);
|
1453
|
|
1454
|
response.setContentType("text/xml");
|
1455
|
response.setStatus(200);
|
1456
|
OutputStream out = response.getOutputStream();
|
1457
|
|
1458
|
// Serialize and write it to the output stream
|
1459
|
TypeMarshaller.marshalTypeToOutputStream(sysmeta, out);
|
1460
|
}
|
1461
|
|
1462
|
|
1463
|
/**
|
1464
|
* Inserts or updates the object
|
1465
|
*
|
1466
|
* @param pid - ID of data object to be inserted or updated. If action is update, the pid
|
1467
|
* is the existing pid. If insert, the pid is the new one
|
1468
|
* @throws InvalidRequest
|
1469
|
* @throws ServiceFailure
|
1470
|
* @throws MarshallingException
|
1471
|
* @throws NotImplemented
|
1472
|
* @throws InvalidSystemMetadata
|
1473
|
* @throws InsufficientResources
|
1474
|
* @throws UnsupportedType
|
1475
|
* @throws IdentifierNotUnique
|
1476
|
* @throws NotAuthorized
|
1477
|
* @throws InvalidToken
|
1478
|
* @throws NotFound
|
1479
|
* @throws IOException
|
1480
|
* @throws IllegalAccessException
|
1481
|
* @throws InstantiationException
|
1482
|
*/
|
1483
|
protected void putObject(String trailingPid, String action) throws ServiceFailure, InvalidRequest, MarshallingException, InvalidToken, NotAuthorized, IdentifierNotUnique, UnsupportedType, InsufficientResources, InvalidSystemMetadata, NotImplemented, NotFound, IOException, InstantiationException, IllegalAccessException {
|
1484
|
|
1485
|
// Read the incoming data from its Mime Multipart encoding
|
1486
|
Map<String, File> files = collectMultipartFiles();
|
1487
|
|
1488
|
Identifier pid = new Identifier();
|
1489
|
if (trailingPid == null) {
|
1490
|
// get the pid string from the body and set the value
|
1491
|
String pidString = multipartparams.get("pid").get(0);
|
1492
|
if (pidString != null) {
|
1493
|
pid.setValue(pidString);
|
1494
|
|
1495
|
} else {
|
1496
|
throw new InvalidRequest("1102", "The pid param must be included and contain the identifier.");
|
1497
|
|
1498
|
}
|
1499
|
} else {
|
1500
|
// use the pid included in the URL
|
1501
|
pid.setValue(trailingPid);
|
1502
|
}
|
1503
|
logMetacat.debug("putObject with pid " + pid.getValue());
|
1504
|
logMetacat.debug("Entering putObject: " + pid.getValue() + "/" + action);
|
1505
|
|
1506
|
InputStream object = null;
|
1507
|
InputStream sysmeta = null;
|
1508
|
File smFile = files.get("sysmeta");
|
1509
|
sysmeta = new FileInputStream(smFile);
|
1510
|
File objFile = files.get("object");
|
1511
|
object = new FileInputStream(objFile);
|
1512
|
|
1513
|
// ensure we have the object bytes
|
1514
|
if ( objFile == null ) {
|
1515
|
throw new InvalidRequest("1102", "The object param must contain the object bytes.");
|
1516
|
|
1517
|
}
|
1518
|
|
1519
|
// ensure we have the system metadata
|
1520
|
if ( smFile == null ) {
|
1521
|
throw new InvalidRequest("1102", "The sysmeta param must contain the system metadata document.");
|
1522
|
|
1523
|
}
|
1524
|
|
1525
|
response.setStatus(200);
|
1526
|
response.setContentType("text/xml");
|
1527
|
OutputStream out = response.getOutputStream();
|
1528
|
|
1529
|
if (action.equals(FUNCTION_NAME_INSERT)) {
|
1530
|
// handle inserts
|
1531
|
logMetacat.debug("Commence creation...");
|
1532
|
SystemMetadata smd = TypeMarshaller.unmarshalTypeFromStream(SystemMetadata.class, sysmeta);
|
1533
|
|
1534
|
logMetacat.debug("creating object with pid " + pid.getValue());
|
1535
|
Identifier rId = MNodeService.getInstance(request).create(session, pid, object, smd);
|
1536
|
TypeMarshaller.marshalTypeToOutputStream(rId, out);
|
1537
|
|
1538
|
} else if (action.equals(FUNCTION_NAME_UPDATE)) {
|
1539
|
// handle updates
|
1540
|
|
1541
|
// construct pids
|
1542
|
Identifier newPid = null;
|
1543
|
try {
|
1544
|
String newPidString = multipartparams.get("newPid").get(0);
|
1545
|
newPid = new Identifier();
|
1546
|
newPid.setValue(newPidString);
|
1547
|
} catch (Exception e) {
|
1548
|
logMetacat.error("Could not get newPid from request");
|
1549
|
}
|
1550
|
logMetacat.debug("Commence update...");
|
1551
|
|
1552
|
// get the systemmetadata object
|
1553
|
SystemMetadata smd = TypeMarshaller.unmarshalTypeFromStream(SystemMetadata.class, sysmeta);
|
1554
|
|
1555
|
Identifier rId = MNodeService.getInstance(request).update(session, pid, object, newPid, smd);
|
1556
|
TypeMarshaller.marshalTypeToOutputStream(rId, out);
|
1557
|
} else {
|
1558
|
throw new InvalidRequest("1000", "Operation must be create or update.");
|
1559
|
}
|
1560
|
|
1561
|
}
|
1562
|
|
1563
|
/**
|
1564
|
* Handle delete
|
1565
|
* @param pid ID of data object to be deleted
|
1566
|
* @throws IOException
|
1567
|
* @throws InvalidRequest
|
1568
|
* @throws NotImplemented
|
1569
|
* @throws NotFound
|
1570
|
* @throws NotAuthorized
|
1571
|
* @throws ServiceFailure
|
1572
|
* @throws InvalidToken
|
1573
|
* @throws MarshallingException
|
1574
|
*/
|
1575
|
private void deleteObject(String pid) throws IOException, InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, InvalidRequest, MarshallingException
|
1576
|
{
|
1577
|
|
1578
|
OutputStream out = response.getOutputStream();
|
1579
|
response.setStatus(200);
|
1580
|
response.setContentType("text/xml");
|
1581
|
|
1582
|
Identifier id = new Identifier();
|
1583
|
id.setValue(pid);
|
1584
|
|
1585
|
logMetacat.debug("Calling delete");
|
1586
|
MNodeService.getInstance(request).delete(session, id);
|
1587
|
TypeMarshaller.marshalTypeToOutputStream(id, out);
|
1588
|
|
1589
|
}
|
1590
|
|
1591
|
/**
|
1592
|
* Archives the given pid
|
1593
|
* @param pid
|
1594
|
* @throws InvalidToken
|
1595
|
* @throws ServiceFailure
|
1596
|
* @throws NotAuthorized
|
1597
|
* @throws NotFound
|
1598
|
* @throws NotImplemented
|
1599
|
* @throws IOException
|
1600
|
* @throws MarshallingException
|
1601
|
*/
|
1602
|
private void archive(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, IOException, MarshallingException {
|
1603
|
|
1604
|
OutputStream out = response.getOutputStream();
|
1605
|
response.setStatus(200);
|
1606
|
response.setContentType("text/xml");
|
1607
|
|
1608
|
Identifier id = new Identifier();
|
1609
|
id.setValue(pid);
|
1610
|
|
1611
|
logMetacat.debug("Calling archive");
|
1612
|
MNodeService.getInstance(request).archive(session, id);
|
1613
|
|
1614
|
TypeMarshaller.marshalTypeToOutputStream(id, out);
|
1615
|
|
1616
|
}
|
1617
|
|
1618
|
protected SynchronizationFailed collectSynchronizationFailed() throws IOException, ServiceFailure, InvalidRequest, MarshallingException, InstantiationException, IllegalAccessException, ParserConfigurationException, SAXException {
|
1619
|
|
1620
|
// Read the incoming data from its Mime Multipart encoding
|
1621
|
logMetacat.debug("Disassembling MIME multipart form");
|
1622
|
InputStream sf = null;
|
1623
|
|
1624
|
// handle MMP inputs
|
1625
|
File tmpDir = getTempDirectory();
|
1626
|
logMetacat.debug("temp dir: " + tmpDir.getAbsolutePath());
|
1627
|
MultipartRequestResolver mrr =
|
1628
|
new MultipartRequestResolver(tmpDir.getAbsolutePath(), MAX_UPLOAD_SIZE, 0);
|
1629
|
MultipartRequest mr = null;
|
1630
|
try {
|
1631
|
mr = mrr.resolveMultipart(request);
|
1632
|
} catch (Exception e) {
|
1633
|
throw new ServiceFailure("2161",
|
1634
|
"Could not resolve multipart: " + e.getMessage());
|
1635
|
}
|
1636
|
logMetacat.debug("resolved multipart request");
|
1637
|
Map<String, File> files = mr.getMultipartFiles();
|
1638
|
if (files == null || files.keySet() == null) {
|
1639
|
throw new InvalidRequest("2163",
|
1640
|
"must have multipart file with name 'message'");
|
1641
|
}
|
1642
|
logMetacat.debug("got multipart files");
|
1643
|
|
1644
|
multipartparams = mr.getMultipartParameters();
|
1645
|
|
1646
|
File sfFile = files.get("message");
|
1647
|
if (sfFile == null) {
|
1648
|
throw new InvalidRequest("2163",
|
1649
|
"Missing the required file-part 'message' from the multipart request.");
|
1650
|
}
|
1651
|
logMetacat.debug("sfFile: " + sfFile.getAbsolutePath());
|
1652
|
sf = new FileInputStream(sfFile);
|
1653
|
|
1654
|
SynchronizationFailed syncFailed = (SynchronizationFailed) ExceptionHandler.deserializeXml(sf, "Error deserializing exception");
|
1655
|
return syncFailed;
|
1656
|
}
|
1657
|
|
1658
|
/**
|
1659
|
* Update the system metadata for a specified identifier
|
1660
|
* @throws ServiceFailure
|
1661
|
* @throws InvalidRequest
|
1662
|
* @throws InstantiationException
|
1663
|
* @throws IllegalAccessException
|
1664
|
* @throws IOException
|
1665
|
* @throws MarshallingException
|
1666
|
* @throws NotImplemented
|
1667
|
* @throws NotAuthorized
|
1668
|
* @throws InvalidSystemMetadata
|
1669
|
* @throws InvalidToken
|
1670
|
*/
|
1671
|
protected void updateSystemMetadata() throws ServiceFailure, InvalidRequest,
|
1672
|
InstantiationException, IllegalAccessException, IOException, MarshallingException, NotImplemented,
|
1673
|
NotAuthorized, InvalidSystemMetadata, InvalidToken {
|
1674
|
// Read the incoming data from its Mime Multipart encoding
|
1675
|
Map<String, File> files = collectMultipartFiles();
|
1676
|
|
1677
|
// get the encoded pid string from the body and make the object
|
1678
|
String pidString = multipartparams.get("pid").get(0);
|
1679
|
Identifier pid = new Identifier();
|
1680
|
pid.setValue(pidString);
|
1681
|
|
1682
|
logMetacat.debug("updateSystemMetadata: " + pid);
|
1683
|
|
1684
|
// get the system metadata from the request
|
1685
|
File smFile = files.get("sysmeta");
|
1686
|
FileInputStream sysmeta = new FileInputStream(smFile);
|
1687
|
SystemMetadata systemMetadata = TypeMarshaller.unmarshalTypeFromStream(SystemMetadata.class, sysmeta);
|
1688
|
|
1689
|
logMetacat.debug("updating system metadata with pid " + pid.getValue());
|
1690
|
|
1691
|
MNodeService.getInstance(request).updateSystemMetadata(session, pid, systemMetadata);
|
1692
|
}
|
1693
|
|
1694
|
}
|