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org.elasticsearch.river.mongodb.OplogSlurper Maven / Gradle / Ivy
package org.elasticsearch.river.mongodb;
import java.util.List;
import java.util.concurrent.atomic.AtomicLong;
import org.bson.BasicBSONObject;
import org.bson.types.ObjectId;
import org.elasticsearch.client.Client;
import org.elasticsearch.common.collect.ImmutableList;
import org.elasticsearch.river.mongodb.util.MongoDBHelper;
import org.elasticsearch.river.mongodb.util.MongoDBRiverHelper;
import com.mongodb.BasicDBObject;
import com.mongodb.Bytes;
import com.mongodb.DB;
import com.mongodb.DBCollection;
import com.mongodb.DBCursor;
import com.mongodb.DBObject;
import com.mongodb.MongoClient;
import com.mongodb.MongoCursorNotFoundException;
import com.mongodb.MongoInterruptedException;
import com.mongodb.MongoSocketException;
import com.mongodb.MongoTimeoutException;
import com.mongodb.QueryOperators;
import com.mongodb.gridfs.GridFS;
import com.mongodb.gridfs.GridFSDBFile;
import com.mongodb.gridfs.GridFSFile;
import com.mongodb.util.JSONSerializers;
class OplogSlurper extends MongoDBRiverComponent implements Runnable {
class SlurperException extends Exception {
private static final long serialVersionUID = 1L;
SlurperException(String message) {
super(message);
}
}
private final MongoDBRiver river;
private final MongoDBRiverDefinition definition;
private final SharedContext context;
private final BasicDBObject findKeys;
private final String gridfsOplogNamespace;
private final String cmdOplogNamespace;
private final ImmutableList oplogOperations = ImmutableList.of(MongoDBRiver.OPLOG_DELETE_OPERATION,
MongoDBRiver.OPLOG_UPDATE_ROW_OPERATION, // from TokuMX
MongoDBRiver.OPLOG_UPDATE_OPERATION, MongoDBRiver.OPLOG_INSERT_OPERATION, MongoDBRiver.OPLOG_COMMAND_OPERATION);
private final Client esClient;
private final MongoClient mongoClusterClient;
private final MongoClient mongoShardClient;
private Timestamp timestamp;
private final DB slurpedDb;
private final DB oplogDb;
private final DBCollection oplogCollection, oplogRefsCollection;
private final AtomicLong totalDocuments = new AtomicLong();
public OplogSlurper(MongoDBRiver river, Timestamp timestamp, MongoClient mongoClusterClient, MongoClient mongoShardClient) {
super(river);
this.river = river;
this.timestamp = timestamp;
this.definition = river.definition;
this.context = river.context;
this.esClient = river.esClient;
this.mongoClusterClient = mongoClusterClient;
this.mongoShardClient = mongoShardClient;
this.findKeys = new BasicDBObject();
this.gridfsOplogNamespace = definition.getMongoOplogNamespace() + MongoDBRiver.GRIDFS_FILES_SUFFIX;
this.cmdOplogNamespace = definition.getMongoDb() + "." + MongoDBRiver.OPLOG_NAMESPACE_COMMAND;
if (definition.getExcludeFields() != null) {
for (String key : definition.getExcludeFields()) {
findKeys.put(key, 0);
}
} else if (definition.getIncludeFields() != null) {
for (String key : definition.getIncludeFields()) {
findKeys.put(key, 1);
}
}
this.oplogDb = mongoShardClient.getDB(MongoDBRiver.MONGODB_LOCAL_DATABASE);
this.oplogCollection = oplogDb.getCollection(MongoDBRiver.OPLOG_COLLECTION);
this.oplogRefsCollection = oplogDb.getCollection(MongoDBRiver.OPLOG_REFS_COLLECTION);
this.slurpedDb = mongoShardClient.getDB(definition.getMongoDb());
}
@Override
public void run() {
while (context.getStatus() == Status.RUNNING) {
try {
// Slurp from oplog
DBCursor cursor = null;
try {
cursor = oplogCursor(timestamp);
if (cursor == null) {
cursor = processFullOplog();
}
while (cursor.hasNext()) {
DBObject item = cursor.next();
// TokuMX secondaries can have ops in the oplog that
// have not yet been applied
// We need to wait until they have been applied before
// processing them
Object applied = item.get("a");
if (applied != null && !applied.equals(Boolean.TRUE)) {
logger.debug("Encountered oplog entry with a:false, ts:" + item.get("ts"));
break;
}
timestamp = processOplogEntry(item, timestamp);
}
logger.debug("Before waiting for 500 ms");
Thread.sleep(500);
} finally {
if (cursor != null) {
logger.trace("Closing oplog cursor");
cursor.close();
}
}
} catch (SlurperException e) {
logger.error("Exception in slurper", e);
Thread.currentThread().interrupt();
break;
} catch (MongoInterruptedException | InterruptedException e) {
logger.info("river-mongodb slurper interrupted");
Thread.currentThread().interrupt();
break;
} catch (MongoSocketException | MongoTimeoutException | MongoCursorNotFoundException e) {
logger.info("Oplog tailing - {} - {}. Will retry.", e.getClass().getSimpleName(), e.getMessage());
logger.debug("Total documents inserted so far by river {}: {}", definition.getRiverName(), totalDocuments.get());
try {
Thread.sleep(MongoDBRiver.MONGODB_RETRY_ERROR_DELAY_MS);
} catch (InterruptedException iEx) {
logger.info("river-mongodb slurper interrupted");
Thread.currentThread().interrupt();
break;
}
} catch (Exception e) {
logger.error("Exception while looping in cursor", e);
Thread.currentThread().interrupt();
break;
}
}
logger.info("Slurper is stopping. River has status {}", context.getStatus());
}
protected boolean riverHasIndexedFromOplog() {
return MongoDBRiver.getLastTimestamp(esClient, definition) != null;
}
protected boolean isIndexEmpty() {
return MongoDBRiver.getIndexCount(esClient, definition) == 0;
}
private Timestamp getCurrentOplogTimestamp() {
try (DBCursor cursor = oplogCollection.find().sort(new BasicDBObject(MongoDBRiver.INSERTION_ORDER_KEY, -1)).limit(1)) {
return Timestamp.on(cursor.next());
}
}
private DBCursor processFullOplog() throws InterruptedException, SlurperException {
Timestamp currentTimestamp = getCurrentOplogTimestamp();
return oplogCursor(currentTimestamp);
}
private Timestamp processOplogEntry(final DBObject entry, final Timestamp startTimestamp) throws InterruptedException {
// To support transactions, TokuMX wraps one or more operations in a
// single oplog entry, in a list.
// As long as clients are not transaction-aware, we can pretty safely
// assume there will only be one operation in the list.
// Supporting genuine multi-operation transactions will require a bit
// more logic here.
flattenOps(entry);
if (!isValidOplogEntry(entry, startTimestamp)) {
return startTimestamp;
}
Operation operation = Operation.fromString(entry.get(MongoDBRiver.OPLOG_OPERATION).toString());
String namespace = entry.get(MongoDBRiver.OPLOG_NAMESPACE).toString();
String collection = null;
Timestamp oplogTimestamp = Timestamp.on(entry);
DBObject object = (DBObject) entry.get(MongoDBRiver.OPLOG_OBJECT);
if (definition.isImportAllCollections()) {
if (namespace.startsWith(definition.getMongoDb()) && !namespace.equals(cmdOplogNamespace)) {
collection = getCollectionFromNamespace(namespace);
}
} else {
collection = definition.getMongoCollection();
}
if (namespace.equals(cmdOplogNamespace)) {
if (object.containsField(MongoDBRiver.OPLOG_DROP_COMMAND_OPERATION)) {
operation = Operation.DROP_COLLECTION;
if (definition.isImportAllCollections()) {
collection = object.get(MongoDBRiver.OPLOG_DROP_COMMAND_OPERATION).toString();
if (collection.startsWith("tmp.mr.")) {
return startTimestamp;
}
}
}
if (object.containsField(MongoDBRiver.OPLOG_DROP_DATABASE_COMMAND_OPERATION)) {
operation = Operation.DROP_DATABASE;
}
}
logger.trace("namespace: {} - operation: {}", namespace, operation);
if (namespace.equals(MongoDBRiver.OPLOG_ADMIN_COMMAND)) {
if (operation == Operation.COMMAND) {
processAdminCommandOplogEntry(entry, startTimestamp);
return startTimestamp;
}
}
if (logger.isTraceEnabled()) {
String deserialized = object.toString();
if (deserialized.length() < 400) {
logger.trace("MongoDB object deserialized: {}", deserialized);
} else {
logger.trace("MongoDB object deserialized is {} characters long", deserialized.length());
}
logger.trace("collection: {}", collection);
logger.trace("oplog entry - namespace [{}], operation [{}]", namespace, operation);
if (deserialized.length() < 400) {
logger.trace("oplog processing item {}", entry);
}
}
String objectId = getObjectIdFromOplogEntry(entry);
if (operation == Operation.DELETE) {
// Include only _id in data, as vanilla MongoDB does, so
// transformation scripts won't be broken by Toku
if (object.containsField(MongoDBRiver.MONGODB_ID_FIELD)) {
if (object.keySet().size() > 1) {
entry.put(MongoDBRiver.OPLOG_OBJECT, object = new BasicDBObject(MongoDBRiver.MONGODB_ID_FIELD, objectId));
}
} else {
throw new NullPointerException(MongoDBRiver.MONGODB_ID_FIELD);
}
}
if (definition.isMongoGridFS() && namespace.endsWith(MongoDBRiver.GRIDFS_FILES_SUFFIX)
&& (operation == Operation.INSERT || operation == Operation.UPDATE)) {
if (objectId == null) {
throw new NullPointerException(MongoDBRiver.MONGODB_ID_FIELD);
}
GridFS grid = new GridFS(mongoShardClient.getDB(definition.getMongoDb()), collection);
GridFSDBFile file = grid.findOne(new ObjectId(objectId));
if (file != null) {
logger.trace("Caught file: {} - {}", file.getId(), file.getFilename());
object = file;
} else {
logger.error("Cannot find file from id: {}", objectId);
}
}
if (object instanceof GridFSDBFile) {
if (objectId == null) {
throw new NullPointerException(MongoDBRiver.MONGODB_ID_FIELD);
}
if (logger.isTraceEnabled()) {
logger.trace("Add attachment: {}", objectId);
}
addToStream(operation, oplogTimestamp, applyFieldFilter(object), collection);
} else {
if (operation == Operation.UPDATE) {
DBObject update = (DBObject) entry.get(MongoDBRiver.OPLOG_UPDATE);
logger.trace("Updated item: {}", update);
addQueryToStream(operation, oplogTimestamp, update, collection);
} else {
if (operation == Operation.INSERT) {
addInsertToStream(oplogTimestamp, applyFieldFilter(object), collection);
} else {
addToStream(operation, oplogTimestamp, applyFieldFilter(object), collection);
}
}
}
return oplogTimestamp;
}
@SuppressWarnings("unchecked")
private void flattenOps(DBObject entry) {
Object ref = entry.removeField(MongoDBRiver.OPLOG_REF);
Object ops = ref == null ? entry.removeField(MongoDBRiver.OPLOG_OPS) : getRefOps(ref);
if (ops != null) {
try {
for (DBObject op : (List) ops) {
String operation = (String) op.get(MongoDBRiver.OPLOG_OPERATION);
if (operation.equals(MongoDBRiver.OPLOG_COMMAND_OPERATION)) {
DBObject object = (DBObject) op.get(MongoDBRiver.OPLOG_OBJECT);
if (object.containsField(MongoDBRiver.OPLOG_CREATE_COMMAND)) {
continue;
}
}
entry.putAll(op);
}
} catch (ClassCastException e) {
logger.error(e.toString(), e);
}
}
}
private Object getRefOps(Object ref) {
// db.oplog.refs.find({_id: {$gte: {oid: %ref%}}}).limit(1)
DBObject query = new BasicDBObject(MongoDBRiver.MONGODB_ID_FIELD, new BasicDBObject(QueryOperators.GTE,
new BasicDBObject(MongoDBRiver.MONGODB_OID_FIELD, ref)));
DBObject oplog = oplogRefsCollection.findOne(query);
return oplog == null ? null : oplog.get("ops");
}
private void processAdminCommandOplogEntry(final DBObject entry, final Timestamp startTimestamp) throws InterruptedException {
if (logger.isTraceEnabled()) {
logger.trace("processAdminCommandOplogEntry - [{}]", entry);
}
DBObject object = (DBObject) entry.get(MongoDBRiver.OPLOG_OBJECT);
if (definition.isImportAllCollections()) {
if (object.containsField(MongoDBRiver.OPLOG_RENAME_COLLECTION_COMMAND_OPERATION) && object.containsField(MongoDBRiver.OPLOG_TO)) {
String to = object.get(MongoDBRiver.OPLOG_TO).toString();
if (to.startsWith(definition.getMongoDb())) {
String newCollection = getCollectionFromNamespace(to);
DBCollection coll = slurpedDb.getCollection(newCollection);
CollectionSlurper importer = new CollectionSlurper(river, mongoClusterClient);
importer.importCollection(coll, timestamp);
}
}
}
}
private String getCollectionFromNamespace(String namespace) {
if (namespace.startsWith(definition.getMongoDb() + '.')) {
return namespace.substring(definition.getMongoDb().length() + 1);
}
logger.error("Cannot get collection from namespace [{}]", namespace);
return null;
}
private boolean isValidOplogEntry(final DBObject entry, final Timestamp startTimestamp) {
if (!entry.containsField(MongoDBRiver.OPLOG_OPERATION)) {
logger.trace("[Empty Oplog Entry] - can be ignored. {}", JSONSerializers.getStrict().serialize(entry));
return false;
}
if (MongoDBRiver.OPLOG_NOOP_OPERATION.equals(entry.get(MongoDBRiver.OPLOG_OPERATION))) {
logger.trace("[No-op Oplog Entry] - can be ignored. {}", JSONSerializers.getStrict().serialize(entry));
return false;
}
String namespace = (String) entry.get(MongoDBRiver.OPLOG_NAMESPACE);
// Initial support for sharded collection -
// https://jira.mongodb.org/browse/SERVER-4333
// Not interested in operation from migration or sharding
if (entry.containsField(MongoDBRiver.OPLOG_FROM_MIGRATE) && ((BasicBSONObject) entry).getBoolean(MongoDBRiver.OPLOG_FROM_MIGRATE)) {
logger.trace("[Invalid Oplog Entry] - from migration or sharding operation. Can be ignored. {}", JSONSerializers.getStrict().serialize(entry));
return false;
}
// Not interested by chunks - skip all
if (namespace.endsWith(MongoDBRiver.GRIDFS_CHUNKS_SUFFIX)) {
return false;
}
if (startTimestamp != null) {
Timestamp oplogTimestamp = Timestamp.on(entry);
if (Timestamp.compare(oplogTimestamp, startTimestamp) < 0) {
logger.error("[Invalid Oplog Entry] - entry timestamp [{}] before startTimestamp [{}]",
JSONSerializers.getStrict().serialize(entry), startTimestamp);
return false;
}
}
boolean validNamespace = false;
if (definition.isMongoGridFS()) {
validNamespace = gridfsOplogNamespace.equals(namespace);
} else {
if (definition.isImportAllCollections()) {
// Skip temp entry generated by map / reduce
if (namespace.startsWith(definition.getMongoDb()) && !namespace.startsWith(definition.getMongoDb() + ".tmp.mr")) {
validNamespace = true;
}
} else {
if (definition.getMongoOplogNamespace().equals(namespace)) {
validNamespace = true;
}
}
if (cmdOplogNamespace.equals(namespace)) {
validNamespace = true;
}
if (MongoDBRiver.OPLOG_ADMIN_COMMAND.equals(namespace)) {
validNamespace = true;
}
}
if (!validNamespace) {
logger.trace("[Invalid Oplog Entry] - namespace [{}] is not valid", namespace);
return false;
}
String operation = (String) entry.get(MongoDBRiver.OPLOG_OPERATION);
if (!oplogOperations.contains(operation)) {
logger.trace("[Invalid Oplog Entry] - operation [{}] is not valid", operation);
return false;
}
// TODO: implement a better solution
if (definition.getMongoOplogFilter() != null) {
DBObject object = (DBObject) entry.get(MongoDBRiver.OPLOG_OBJECT);
BasicDBObject filter = definition.getMongoOplogFilter();
if (!filterMatch(filter, object)) {
logger.trace("[Invalid Oplog Entry] - filter [{}] does not match object [{}]", filter, object);
return false;
}
}
return true;
}
private boolean filterMatch(DBObject filter, DBObject object) {
for (String key : filter.keySet()) {
if (!object.containsField(key)) {
return false;
}
if (!filter.get(key).equals(object.get(key))) {
return false;
}
}
return true;
}
private DBObject applyFieldFilter(DBObject object) {
if (object instanceof GridFSFile) {
GridFSFile file = (GridFSFile) object;
DBObject metadata = file.getMetaData();
if (metadata != null) {
file.setMetaData(applyFieldFilter(metadata));
}
} else {
object = MongoDBHelper.applyExcludeFields(object, definition.getExcludeFields());
object = MongoDBHelper.applyIncludeFields(object, definition.getIncludeFields());
}
return object;
}
/*
* Extract "_id" from "o" if it fails try to extract from "o2"
*/
private String getObjectIdFromOplogEntry(DBObject entry) {
if (entry.containsField(MongoDBRiver.OPLOG_OBJECT)) {
DBObject object = (DBObject) entry.get(MongoDBRiver.OPLOG_OBJECT);
if (object.containsField(MongoDBRiver.MONGODB_ID_FIELD)) {
return object.get(MongoDBRiver.MONGODB_ID_FIELD).toString();
}
}
if (entry.containsField(MongoDBRiver.OPLOG_UPDATE)) {
DBObject object = (DBObject) entry.get(MongoDBRiver.OPLOG_UPDATE);
if (object.containsField(MongoDBRiver.MONGODB_ID_FIELD)) {
return object.get(MongoDBRiver.MONGODB_ID_FIELD).toString();
}
}
return null;
}
private DBCursor oplogCursor(final Timestamp time) throws SlurperException {
DBObject indexFilter = time.getOplogFilter();
if (indexFilter == null) {
return null;
}
int options = Bytes.QUERYOPTION_TAILABLE | Bytes.QUERYOPTION_AWAITDATA | Bytes.QUERYOPTION_NOTIMEOUT
// Using OPLOGREPLAY to improve performance:
// https://jira.mongodb.org/browse/JAVA-771
| Bytes.QUERYOPTION_OPLOGREPLAY;
DBCursor cursor = oplogCollection.find(indexFilter).setOptions(options);
// Toku sometimes gets stuck without this hint:
if (indexFilter.containsField(MongoDBRiver.MONGODB_ID_FIELD)) {
cursor = cursor.hint("_id_");
}
isRiverStale(cursor, time);
return cursor;
}
private void isRiverStale(DBCursor cursor, Timestamp time) throws SlurperException {
if (cursor == null || time == null) {
return;
}
if (definition.getInitialTimestamp() != null && time.equals(definition.getInitialTimestamp())) {
return;
}
DBObject entry = cursor.next();
Timestamp oplogTimestamp = Timestamp.on(entry);
if (!time.equals(oplogTimestamp)) {
MongoDBRiverHelper.setRiverStatus(esClient, definition.getRiverName(), Status.RIVER_STALE);
throw new SlurperException("River out of sync with oplog.rs collection");
}
}
private void addQueryToStream(final Operation operation, final Timestamp currentTimestamp, final DBObject update,
final String collection) throws InterruptedException {
if (logger.isTraceEnabled()) {
logger.trace("addQueryToStream - operation [{}], currentTimestamp [{}], update [{}]", operation, currentTimestamp, update);
}
if (collection == null) {
for (String name : slurpedDb.getCollectionNames()) {
DBCollection slurpedCollection = slurpedDb.getCollection(name);
addQueryToStream(operation, currentTimestamp, update, name, slurpedCollection);
}
} else {
DBCollection slurpedCollection = slurpedDb.getCollection(collection);
addQueryToStream(operation, currentTimestamp, update, collection, slurpedCollection);
}
}
private void addQueryToStream(final Operation operation, final Timestamp currentTimestamp, final DBObject update,
final String collection, final DBCollection slurpedCollection) throws InterruptedException {
try (DBCursor cursor = slurpedCollection.find(update, findKeys)) {
for (DBObject item : cursor) {
addToStream(operation, currentTimestamp, item, collection);
}
}
}
private String addInsertToStream(final Timestamp currentTimestamp, final DBObject data, final String collection)
throws InterruptedException {
totalDocuments.incrementAndGet();
addToStream(Operation.INSERT, currentTimestamp, data, collection);
if (data == null) {
return null;
} else {
return data.containsField(MongoDBRiver.MONGODB_ID_FIELD) ? data.get(MongoDBRiver.MONGODB_ID_FIELD).toString() : null;
}
}
private void addToStream(final Operation operation, final Timestamp currentTimestamp, final DBObject data, final String collection)
throws InterruptedException {
if (logger.isTraceEnabled()) {
String dataString = data.toString();
if (dataString.length() > 400) {
logger.trace("addToStream - operation [{}], currentTimestamp [{}], data (_id:[{}], serialized length:{}), collection [{}]",
operation, currentTimestamp, data.get("_id"), dataString.length(), collection);
} else {
logger.trace("addToStream - operation [{}], currentTimestamp [{}], data [{}], collection [{}]",
operation, currentTimestamp, dataString, collection);
}
}
if (operation == Operation.DROP_DATABASE) {
logger.info("addToStream - Operation.DROP_DATABASE, currentTimestamp [{}], data [{}], collection [{}]",
currentTimestamp, data, collection);
if (definition.isImportAllCollections()) {
for (String name : slurpedDb.getCollectionNames()) {
logger.info("addToStream - isImportAllCollections - Operation.DROP_DATABASE, currentTimestamp [{}], data [{}], collection [{}]",
currentTimestamp, data, name);
context.getStream().put(new MongoDBRiver.QueueEntry(currentTimestamp, Operation.DROP_COLLECTION, data, name));
}
} else {
context.getStream().put(new MongoDBRiver.QueueEntry(currentTimestamp, Operation.DROP_COLLECTION, data, collection));
}
} else {
context.getStream().put(new MongoDBRiver.QueueEntry(currentTimestamp, operation, data, collection));
}
}
}
