Revision 47517
Added by Alessia Bardi over 7 years ago
| modules/cnr-mongo-mdstore/trunk/src/test/java/eu/dnetlib/data/mdstore/modular/mongodb/IndexFieldParserTest.java | ||
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package eu.dnetlib.data.mdstore.modular.mongodb; |
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import eu.dnetlib.data.mdstore.modular.MDFormatDescription; |
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import eu.dnetlib.data.mdstore.modular.mongodb.utils.IndexFieldRecordParser; |
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import org.apache.commons.io.IOUtils; |
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import org.junit.Test; |
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import java.io.IOException; |
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import java.io.InputStream; |
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import java.util.ArrayList; |
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import java.util.List; |
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import java.util.Map; |
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import eu.dnetlib.data.mdstore.MDStoreServiceException; |
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import eu.dnetlib.data.mdstore.modular.MDFormatDescription; |
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import eu.dnetlib.data.mdstore.modular.mongodb.utils.IndexFieldRecordParser; |
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import eu.dnetlib.data.mdstore.modular.mongodb.utils.IndexFieldRecordParserException; |
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import org.apache.commons.io.IOUtils; |
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import org.junit.Test; |
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/** |
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* Created by sandro on 11/29/16. |
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*/ |
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@Test |
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public void parserTest() throws IOException {
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public void parserTest() throws IOException, MDStoreServiceException, IndexFieldRecordParserException {
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InputStream inputStream = this.getClass().getResourceAsStream("/eu/dnetlib/data/mdstore/modular/mongodb/inputRecord.xml");
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final String inputRecord = IOUtils.toString(inputStream); |
| modules/cnr-mongo-mdstore/trunk/src/main/java/eu/dnetlib/data/mdstore/modular/mongodb/utils/IndexFieldRecordParserException.java | ||
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package eu.dnetlib.data.mdstore.modular.mongodb.utils; |
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/** |
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* Created by Alessia Bardi on 14/06/2017. |
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* |
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* @author Alessia Bardi |
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*/ |
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public class IndexFieldRecordParserException extends Exception {
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public IndexFieldRecordParserException() {
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super(); |
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} |
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public IndexFieldRecordParserException(final String message) {
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super(message); |
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} |
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public IndexFieldRecordParserException(final String message, final Throwable cause) {
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super(message, cause); |
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} |
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public IndexFieldRecordParserException(final Throwable cause) {
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super(cause); |
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} |
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} |
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| modules/cnr-mongo-mdstore/trunk/src/main/java/eu/dnetlib/data/mdstore/modular/mongodb/utils/IndexFieldRecordParser.java | ||
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package eu.dnetlib.data.mdstore.modular.mongodb.utils; |
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import java.util.ArrayList; |
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import java.util.HashMap; |
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import java.util.List; |
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import java.util.Map; |
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import com.ximpleware.AutoPilot; |
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import com.ximpleware.VTDGen; |
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import com.ximpleware.VTDNav; |
| ... | ... | |
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import org.apache.commons.logging.Log; |
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import org.apache.commons.logging.LogFactory; |
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import java.util.ArrayList; |
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import java.util.HashMap; |
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import java.util.List; |
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import java.util.Map; |
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/** |
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* Created by sandro on 11/29/16. |
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*/ |
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private static final Log log = LogFactory.getLog(IndexFieldRecordParser.class); |
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public static List<String> getTextValue(final AutoPilot ap, final VTDNav vn, final String xpath) throws Exception {
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private static List<String> getTextValue(final AutoPilot ap, final VTDNav vn, final String xpath) throws Exception {
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List<String> results = new ArrayList<>(); |
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ap.selectXPath(xpath); |
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while (ap.evalXPath() != -1) {
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return results; |
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} |
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public Map<String, List<String>> parseRecord(final String record, final List<MDFormatDescription> mdformats) {
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public Map<String, List<String>> parseRecord(final String record, final List<MDFormatDescription> mdformats) throws IndexFieldRecordParserException {
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if (mdformats == null || mdformats.size() == 0) |
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return null; |
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final Map<String, List<String>> result = new HashMap<>(); |
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result.put(description.getName(), xpathResult); |
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} |
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return result; |
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} catch (Throwable e) {
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log.error("Error on parsing record " + record, e);
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throw new IndexFieldRecordParserException("Cannot index record", e);
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} |
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return result; |
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} |
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| modules/cnr-mongo-mdstore/trunk/src/main/java/eu/dnetlib/data/mdstore/modular/mongodb/MongoBulkWritesManager.java | ||
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package eu.dnetlib.data.mdstore.modular.mongodb; |
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import java.util.List; |
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import java.util.Map; |
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import com.google.common.collect.Lists; |
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import com.mongodb.BasicDBObject; |
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import com.mongodb.DBObject; |
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import com.mongodb.WriteConcern; |
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import com.mongodb.client.MongoCollection; |
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import com.mongodb.client.model.*; |
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import eu.dnetlib.data.mdstore.MDStoreServiceException; |
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import eu.dnetlib.data.mdstore.modular.MDFormatDescription; |
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import eu.dnetlib.data.mdstore.modular.RecordParser; |
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import eu.dnetlib.data.mdstore.modular.mongodb.utils.IndexFieldRecordParser; |
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import eu.dnetlib.data.mdstore.modular.mongodb.utils.IndexFieldRecordParserException; |
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import org.apache.commons.logging.Log; |
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import org.apache.commons.logging.LogFactory; |
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import java.util.List; |
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import java.util.Map; |
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public class MongoBulkWritesManager {
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private static final Log log = LogFactory.getLog(MongoBulkWritesManager.class); |
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private final boolean discardRecords; |
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private final boolean indexRecords;
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private final IndexFieldRecordParser indexFieldRecordParser = new IndexFieldRecordParser();
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private final List<MDFormatDescription> mdref;
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private RecordParser recordParser;
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private final boolean indexRecords;
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private final IndexFieldRecordParser indexFieldRecordParser = new IndexFieldRecordParser();
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private final List<MDFormatDescription> mdref;
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private RecordParser recordParser;
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private MongoCollection<DBObject> validCollection; |
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private List<WriteModel<DBObject>> validBulkOperationList; |
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private BulkWriteOptions writeOptions; |
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private int bulkSize; |
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public MongoBulkWritesManager(final MongoCollection<DBObject> collection, |
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final MongoCollection<DBObject> discardedCollection,
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final List<MDFormatDescription> mdref,
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final int bulkSize,
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final RecordParser parser,
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final boolean discardRecords) {
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final MongoCollection<DBObject> discardedCollection,
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final List<MDFormatDescription> mdref,
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final int bulkSize,
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final RecordParser parser,
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final boolean discardRecords) {
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this.validCollection = collection.withWriteConcern(WriteConcern.ACKNOWLEDGED); |
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this.validBulkOperationList = Lists.newArrayList(); |
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this.bulkSize = bulkSize; |
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this.recordParser = parser; |
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this.discardRecords = discardRecords; |
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this.mdref = mdref;
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this.mdref = mdref;
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this.indexRecords = this.mdref != null;
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this.writeOptions = new BulkWriteOptions().ordered(false);
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this.indexRecords = this.mdref != null;
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this.writeOptions = new BulkWriteOptions().ordered(false);
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} |
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public void insert(final String record) {
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public void insert(final String record) throws MDStoreServiceException {
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Map<String, String> recordProperties = null; |
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try {
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final Map<String, String> recordProperties = recordParser.parseRecord(record); |
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Map<String, List<String>> indexRecordField = null; |
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if (indexRecords) {
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indexRecordField = indexFieldRecordParser.parseRecord(record, mdref); |
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} |
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log.debug("found props: " + recordProperties);
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if (recordProperties.containsKey("id")) {
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final DBObject obj = buildDBObject(record, recordProperties, indexRecordField); |
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if (log.isDebugEnabled()) {
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log.debug("Saving object" + obj);
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} |
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validBulkOperationList.add(new ReplaceOneModel(new BasicDBObject("id", obj.get("id")), obj, new UpdateOptions().upsert(true)));
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if (((validBulkOperationList.size() % bulkSize) == 0) && !validBulkOperationList.isEmpty()) {
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validCollection.bulkWrite(validBulkOperationList, writeOptions); |
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validBulkOperationList.clear(); |
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} |
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} else {
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if (discardRecords) {
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log.debug("parsed record seems invalid");
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discardRecord(record); |
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} |
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} |
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recordProperties = recordParser.parseRecord(record); |
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} catch (Throwable e) {
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if (discardRecords) {
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log.debug("unhandled exception: " + e.getMessage());
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discardRecord(record); |
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} |
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} |
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Map<String, List<String>> indexRecordField = null; |
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try {
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if (indexRecords) {
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indexRecordField = indexFieldRecordParser.parseRecord(record, mdref); |
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} |
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} catch (IndexFieldRecordParserException e) {
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// could not index record fields |
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throw new MDStoreServiceException("Are you using the correct type of store / index definition for the records in " + validCollection.getNamespace() + " ?", e);
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} |
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log.debug("found props: " + recordProperties);
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if (recordProperties.containsKey("id")) {
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final DBObject obj = buildDBObject(record, recordProperties, indexRecordField); |
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if (log.isDebugEnabled()) {
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log.debug("Saving object" + obj);
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} |
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validBulkOperationList.add(new ReplaceOneModel(new BasicDBObject("id", obj.get("id")), obj, new UpdateOptions().upsert(true)));
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if (((validBulkOperationList.size() % bulkSize) == 0) && !validBulkOperationList.isEmpty()) {
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validCollection.bulkWrite(validBulkOperationList, writeOptions); |
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validBulkOperationList.clear(); |
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} |
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} else {
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if (discardRecords) {
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log.debug("parsed record seems invalid");
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discardRecord(record); |
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} |
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} |
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} |
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private void discardRecord(final String record) {
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discardedCollection = getCollectionWithWriteConcern(discardedCollection, WriteConcern.ACKNOWLEDGED); |
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} |
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private DBObject buildDBObject(final String record, final Map<String, String> recordProperties, final Map<String, List<String>> indexFieldProperties) {
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final DBObject obj = new BasicDBObject();
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private DBObject buildDBObject(final String record, final Map<String, String> recordProperties, final Map<String, List<String>> indexFieldProperties) {
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final DBObject obj = new BasicDBObject();
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obj.put("id", recordProperties.get("id"));
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obj.put("originalId", recordProperties.get("originalId"));
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obj.put("body", record);
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obj.put("timestamp", System.currentTimeMillis());
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if (indexFieldProperties != null)
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obj.putAll(indexFieldProperties);
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return obj;
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if (indexFieldProperties != null)
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obj.putAll(indexFieldProperties);
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return obj;
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} |
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private MongoCollection<DBObject> getCollectionWithWriteConcern(MongoCollection<DBObject> collection, WriteConcern writeConcern) {
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Also available in: Unified diff
Stroing in mdstore fails if the VTD Parser cannot properly apply the xpaths on records to index