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A java library providing fingerprinting and service interaction for the Victims Project.

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package com.redhat.victims.database;

/*
 * #%L
 * This file is part of victims-lib.
 * %%
 * Copyright (C) 2013 The Victims Project
 * %%
 * This program is free software: you can redistribute it and/or modify
 * it under the terms of the GNU Affero General Public License as published by
 * the Free Software Foundation, either version 3 of the License, or
 * (at your option) any later version.
 * 
 * This program is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 * GNU General Public License for more details.
 * 
 * You should have received a copy of the GNU Affero General Public License
 * along with this program.  If not, see .
 * #L%
 */

import java.io.File;
import java.io.IOException;
import java.sql.Connection;
import java.sql.ResultSet;
import java.sql.SQLException;
import java.sql.Savepoint;
import java.sql.Statement;
import java.text.ParseException;
import java.text.SimpleDateFormat;
import java.util.Date;
import java.util.HashMap;
import java.util.HashSet;
import java.util.Set;

import org.apache.commons.io.FileUtils;

import com.redhat.victims.VictimsConfig;
import com.redhat.victims.VictimsException;
import com.redhat.victims.VictimsRecord;
import com.redhat.victims.VictimsService;
import com.redhat.victims.VictimsService.RecordStream;
import com.redhat.victims.fingerprint.Algorithms;

/**
 * This class implements {@link VictimsDBInterface} for SQL databases.
 * 
 * @author abn
 * 
 */
public class VictimsSqlDB extends VictimsSqlManager implements
		VictimsDBInterface {
	// The default file for storing the last sync'ed {@link Date}
	protected static final String UPDATE_FILE_NAME = "lastUpdate";
	protected File lastUpdate;

	// Stores a cache of the content (filehash) count per record
	protected HashMap cachedCount;

	/**
	 * Create a new instance with the given parameters.
	 * 
	 * @param driver
	 *            The driver class to use.
	 * @param dbUrl
	 *            The connection string without username and password.
	 * @param create
	 *            Are we creating this database? If so initialize.
	 * @throws IOException
	 * @throws ClassNotFoundException
	 * @throws SQLException
	 */
	public VictimsSqlDB(String driver, String dbUrl, boolean create)
			throws IOException, ClassNotFoundException, SQLException {
		super(driver, dbUrl, create);
		lastUpdate = FileUtils.getFile(VictimsConfig.cache(), UPDATE_FILE_NAME);
	}

	/**
	 * Remove all records matching the records in the given {@link RecordStream}
	 * if it exists.
	 * 
	 * @param recordStream
	 * @throws SQLException
	 * @throws IOException
	 */
	protected void remove(RecordStream recordStream) throws SQLException,
			IOException {
		while (recordStream.hasNext()) {
			VictimsRecord vr = recordStream.getNext();
			addBatch(Query.DELETE_RECORD_HASH, vr.hash);
		}
		executeBatchQueue();
	}

	/**
	 * Update all records in the given {@link RecordStream}. This will remove
	 * the record if it already exits and then add it. Otherwise, it just adds
	 * it.
	 * 
	 * @param recordStream
	 * @throws SQLException
	 * @throws IOException
	 */
	protected void update(RecordStream recordStream) throws SQLException,
			IOException {
		while (recordStream.hasNext()) {
			VictimsRecord vr = recordStream.getNext();
			String hash = vr.hash.trim();

			// remove if already present
			deleteRecord(hash);

			// add the new/updated hash
			int id = insertRecord(hash);

			// insert file hahes
			for (String filehash : vr.getHashes(Algorithms.SHA512).keySet()) {
				addBatch(Query.INSERT_FILEHASH, id, filehash.trim());
			}

			// insert metadata key-value pairs
			HashMap md = vr.getFlattenedMetaData();
			for (String key : md.keySet()) {
				addBatch(Query.INSERT_META, id, key, md.get(key));
			}

			// insert cves
			for (String cve : vr.cves) {
				addBatch(Query.INSERT_CVES, id, cve.trim());
			}
		}
		executeBatchQueue();
	}

	/**
	 * Sets the last updated date. Once done, next call to lastUpdated() method
	 * will return this date.
	 * 
	 * @param date
	 *            The date to set.
	 * @throws IOException
	 */
	protected void setLastUpdate(Date date) throws IOException {
		SimpleDateFormat sdf = new SimpleDateFormat(VictimsRecord.DATE_FORMAT);
		String stamp = sdf.format(date);
		FileUtils.write(lastUpdate, stamp);
	}

	public Date lastUpdated() throws VictimsException {
		Throwable throwable = null;
		try {
			SimpleDateFormat sdf = new SimpleDateFormat(
					VictimsRecord.DATE_FORMAT);
			Date since;

			// The default start
			since = sdf.parse("1970-01-01T00:00:00");

			if (VictimsConfig.forcedUpdate()) {
				return since;
			}

			// get last updated if available
			try {
				if (lastUpdate.exists()) {
					String temp;
					temp = FileUtils.readFileToString(lastUpdate).trim();
					since = sdf.parse(temp);
				}
			} catch (IOException e) {
				throwable = e;
			}
			return since;
		} catch (ParseException e) {
			throwable = e;
		}
		throw new VictimsException("Failed to retreive last updated data",
				throwable);
	}

	public void synchronize() throws VictimsException {
		Throwable throwable = null;
		try {
			Connection connection = connection();
			boolean auto = connection.getAutoCommit();
			connection.setAutoCommit(false);
			Savepoint savepoint = connection.setSavepoint();

			try {
				VictimsService service = new VictimsService();
				Date since = lastUpdated();

				remove(service.removed(since));
				update(service.updates(since));

				setLastUpdate(new Date());

				// reset cache
				cachedCount = null;
			} catch (IOException e) {
				throwable = e;
			} catch (SQLException e) {
				throwable = e;
			} finally {
				if (throwable != null) {
					connection.rollback(savepoint);
				}
				connection.releaseSavepoint(savepoint);
				connection.commit();
				connection.setAutoCommit(auto);
			}
		} catch (SQLException e) {
			throwable = e;
		}

		if (throwable != null) {
			throw new VictimsException("Failed to sync database", throwable);
		}
	}

	/**
	 * Returns CVEs that are ascociated with a given record id.
	 * 
	 * @param recordId
	 * @return
	 * @throws SQLException
	 */
	protected HashSet getVulnerabilities(int recordId)
			throws SQLException {
		HashSet cves = new HashSet();
		ResultSet matches = executeQuery(Query.FIND_CVES, recordId);
		while (matches.next()) {
			cves.add(matches.getString(1));
		}
		matches.close();
		return cves;
	}

	public HashSet getVulnerabilities(String sha512)
			throws VictimsException {
		try {
			int id = selectRecordId(sha512);
			return getVulnerabilities(id);
		} catch (SQLException e) {
			throw new VictimsException("Failed to get vulnerabilities for "
					+ sha512, e);
		}
	}

	public HashSet getVulnerabilities(HashMap props)
			throws VictimsException {
		try {
			HashSet cves = new HashSet();

			int requiredMinCount = props.size();
			HashMap matchedPropCount = new HashMap();

			ResultSet rs;
			for (String key : props.keySet()) {
				String value = props.get(key);
				// TODO: Look at batching this
				rs = executeQuery(Query.PROPERTY_MATCH, key, value);
				while (rs.next()) {
					Integer id = rs.getInt("record");
					if (!matchedPropCount.containsKey(id)) {
						matchedPropCount.put(id, new MutableInteger());
					} else {
						MutableInteger count = matchedPropCount.get(id);
						count.increment();
						if (count.get() == requiredMinCount) {
							cves.addAll(getVulnerabilities(id));
						}
					}
				}
			}
			return cves;
		} catch (SQLException e) {
			throw new VictimsException("Failed to search on properties", e);
		}

	}

	protected HashMap embeddedHashCount(Set hashes)
			throws SQLException {
		HashMap hashCount = new HashMap();
		// TODO: Is there a better way?
		String sql = constructInStringsQuery(Query.FILEHASH_MATCHES_PER_RECORD,
				hashes);
		Connection connection = getConnection();
		Statement stmt = connection.createStatement();
		try {
			ResultSet resultSet = stmt.executeQuery(sql);
			while (resultSet.next()) {
				hashCount.put(resultSet.getInt(1), resultSet.getInt(2));
			}
			resultSet.close();
		} finally {
			stmt.close();
			connection.close();
		}
		return hashCount;
	}

	/**
	 * Internal method implementing search for vulnerabilities checking if the
	 * given {@link VictimsRecord}'s contents are a superset of a record in the
	 * victims database.
	 * 
	 * @param vr
	 * @return
	 * @throws SQLException
	 */
	protected HashSet getEmbeddedVulnerabilities(VictimsRecord vr)
			throws SQLException {
		HashSet cves = new HashSet();

		Set hashes = vr.getHashes(Algorithms.SHA512).keySet();
		if (hashes.size() <= 0) {
			return cves;
		}

		HashMap hashCount = embeddedHashCount(hashes);
		if (hashCount.size() > 0) {
			if (cachedCount == null) {
				// populate cache if not available
				cachedCount = new HashMap();
				ResultSet resultSet = executeQuery(Query.FILEHASH_COUNT_PER_RECORD);
				while (resultSet.next()) {
					cachedCount.put(resultSet.getInt("record"),
							resultSet.getInt(2));
				}
				resultSet.close();
			}

			for (Integer id : hashCount.keySet()) {
				// Match every record that has all its filehashes in
				// the provided VictimsRecord
				if (hashCount.get(id).equals(cachedCount.get(id))) {
					cves.addAll(getVulnerabilities(id));
				}
			}
		}
		return cves;
	}

	public HashSet getVulnerabilities(VictimsRecord vr)
			throws VictimsException {
		try {
			HashSet cves = new HashSet();
			// Match jar sha512
			cves.addAll(getVulnerabilities(vr.hash.trim()));
			// Match any embedded filehashes
			cves.addAll(getEmbeddedVulnerabilities(vr));
			return cves;
		} catch (SQLException e) {
			throw new VictimsException(
					"Could not determine vulnerabilities for hash: " + vr.hash,
					e);
		}
	}

	/**
	 * This class is used internally to store counts.
	 * 
	 * @author abn
	 * 
	 */
	protected static class MutableInteger {
		/*
		 * http://stackoverflow.com/questions/81346
		 */
		int value = 1; // note that we start at 1 since we're counting

		public void increment() {
			++value;
		}

		public int get() {
			return value;
		}
	}
}




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