updated java depenencies

.gitignore

@@ -32,4 +32,4 @@ tags
 **/yarn.lock
 **/*.blg
 **/*.log
-**/.*.out
+**/*.out

pom.xml

@@ -22,12 +22,12 @@
 
 	<properties>
 		<java.version>1.8</java.version>
-		<spring.version>5.0.5.RELEASE</spring.version>
-		<spring.security.version>5.0.4.RELEASE</spring.security.version>
+		<spring.version>5.0.7.RELEASE</spring.version>
+		<spring.security.version>5.0.6.RELEASE</spring.security.version>
 		<main.basedir>${project.basedir}</main.basedir>
 		<hibernate.version>5.2.16.Final</hibernate.version>
-		<flyway.version>5.0.7</flyway.version>
-		<leak-prevention.version>2.6.0</leak-prevention.version>
+		<flyway.version>5.1.4</flyway.version>
+		<leak-prevention.version>2.6.1</leak-prevention.version>
 		<current.version>1.0.0-RELEASE</current.version>
 		<slf4j.version>1.7.25</slf4j.version>
 		<findbugs.version>3.0.5</findbugs.version>
@@ -295,7 +295,7 @@
 		<dependency>
 			<groupId>org.springframework.data</groupId>
 			<artifactId>spring-data-jpa</artifactId>
-			<version>2.0.6.RELEASE</version>
+			<version>2.0.8.RELEASE</version>
 		</dependency>
 
 		<dependency>

portal_common/pom.xml

@@ -57,12 +57,12 @@
 		<dependency>
 			<groupId>org.apache.commons</groupId>
 			<artifactId>commons-dbcp2</artifactId>
-			<version>2.2.0</version>
+			<version>2.4.0</version>
 		</dependency>
 		<dependency>
 			<groupId>org.apache.commons</groupId>
 			<artifactId>commons-pool2</artifactId>
-			<version>2.5.0</version>
+			<version>2.6.0</version>
 		</dependency>
 
 		<!-- Apache http client -->

portal_common/src/main/java/net/locusworks/portal/common/PortalDataSource.java

@@ -110,7 +110,7 @@ public class PortalDataSource {
     pcf.setValidationQuery("SELECT 1");
     pcf.setDefaultAutoCommit(true);
 
-    GenericObjectPoolConfig poolConfig = new GenericObjectPoolConfig();
+    GenericObjectPoolConfig<PoolableConnection> poolConfig = new GenericObjectPoolConfig<>();
     poolConfig.setMinIdle(10);
     poolConfig.setMaxTotal(100);
 

portal_database/pom.xml

@@ -91,13 +91,6 @@
 			</exclusions>
 		</dependency>
 
-		<!-- https://mvnrepository.com/artifact/com.google.protobuf/protobuf-java -->
-		<dependency>
-			<groupId>com.google.protobuf</groupId>
-			<artifactId>protobuf-java</artifactId>
-			<version>3.5.1</version>
-		</dependency>
-
 		<dependency>
 			<groupId>org.hibernate</groupId>
 			<artifactId>hibernate-core</artifactId>

portal_migration/pom.xml

@@ -14,7 +14,7 @@
 
 	<properties>
 		<main.basedir>${project.parent.basedir}</main.basedir>
-		<database.driver>com.mysql.jdbc.Driver</database.driver>
+		<database.driver>com.mysql.cj.jdbc.Driver</database.driver>
 	</properties>
 
 	<reporting>

portal_migration/src/main/java/net/locusworks/portal/migration/util/MigrationItem.java

@@ -50,6 +50,20 @@ public class MigrationItem {
     return pendingMigrations.length;
   }
   
+  public void repair() {
+    //Perform a repair just in case an upgrade before 5.0 happens 
+    try {
+      //TODO find a better way to perform repair if previous version was before 5.0
+      String schemas = Arrays.toString(getSchemas()).replace("[", "").replace("]", "");
+      logger.info(String.format("Repair status for %s:%n%s", schemas, getAllMigrationsLog()));
+      flyway.repair();
+    } catch (Exception e) {
+      String message = String.format("%nDatabase repair error:%n %s %nPortal webapp cannot continue.", e.getMessage());
+      logger.error(message);
+      throw new RuntimeException(message, e); 
+    }
+  }
+
   /**
    * Perform the migration
    */

portal_migration/src/main/java/net/locusworks/portal/migration/util/MigrationManager.java

@@ -40,7 +40,10 @@ public class MigrationManager {
     
     DataSource ds = portalDatasource.getPortalRootDataSource();
     migrations = Utils.toList( new MigrationItem(PortalMigration.getFlyway(ds)) );
-    migrations.forEach(item -> item.migrate());
+    migrations.forEach(item -> {
+      item.repair();
+      item.migrate();
+    });
     portalDatasource.closeRootDataSource();
   }
 }

portal_webapp/pom.xml

@@ -216,7 +216,7 @@
 		<dependency>
 			<groupId>org.eclipse.jgit</groupId>
 			<artifactId>org.eclipse.jgit</artifactId>
-			<version>4.11.0.201803080745-r</version>
+			<version>5.0.1.201806211838-r</version>
 			<exclusions>
 				<exclusion>
 					<groupId>org.slf4j</groupId>

portal_webapp/src/main/java/net/locusworks/portal/websocket/WebsocketOutboundChannelInterceptor.java

@@ -2,7 +2,7 @@ package net.locusworks.portal.websocket;
 
 import org.springframework.messaging.Message;
 import org.springframework.messaging.MessageChannel;
-import org.springframework.messaging.support.ChannelInterceptorAdapter;
+import org.springframework.messaging.support.ChannelInterceptor;
 
 /**
  * class to handle websocket outbound connections
@@ -11,7 +11,7 @@ import org.springframework.messaging.support.ChannelInterceptorAdapter;
  * @version 1.0
  *
  */
-public class WebsocketOutboundChannelInterceptor extends ChannelInterceptorAdapter {
+public class WebsocketOutboundChannelInterceptor implements ChannelInterceptor {
   
   @Override
   public Message<?> preSend(Message<?> message, MessageChannel channel) {