Mysql JDBC error in ambari

[#1]

#/usr/jdk64/jdk1.8.0_112/bin/java -cp
/usr/lib/ambari-agent/DBConnectionVerification.jar:/usr/share/java/mysql-connector-java-5.1.37.jar
org.apache.ambari.server.DBConnectionVerification "jdbc:mysql://
xxxxxxx:3306/ambari" "ambari" "xxxxx" com.mysql.jdbc.Driver
ERROR: Unable to connect to the DB. Please check DB connection properties.
com.mysql.jdbc.exceptions.jdbc4.CommunicationsException: Communications
link failure
The last packet sent successfully to the server was 0 milliseconds ago. The
driver has not received any packets from the server.




#ambari-server setup --jdbc-db=mysql
--jdbc-driver=/usr/share/java/mysql-connector-java-5.1.37.jar
Using python /usr/bin/python
Setup ambari-server
Copying /usr/share/java/mysql-connector-java-5.1.37.jar to
/var/lib/ambari-server/resources/mysql-connector-java-5.1.37.jar
Creating symlink
/var/lib/ambari-server/resources/mysql-connector-java-5.1.37.jar to
/var/lib/ambari-server/resources/mysql-connector-java.jar
If you are updating existing jdbc driver jar for mysql with
mysql-connector-java-5.1.37.jar. Please remove the old driver jar, from all
hosts. Restarting services that need the driver, will automatically copy
the new jar to the hosts.
JDBC driver was successfully initialized.
Ambari Server 'setup' completed successfully.

[#2 · Accepted solution]

@Manoj690 

Can you run the below commands, you shouldn't copy the way you did? The below steps should resolve that  issue

Check  yum repo

# yum repolist

Install the mysql driver

# yum install -y mysql-connector-java 

Launch the ambari setup
# ambari-server setup --jdbc-db=mysql --jdbc-driver=/usr/share/java/mysql-connector-java.jar

Please revert

[#3]

2019-12-02 10:57:06,580 ERROR [main] AmbariServer:1114 - Failed to run the Ambari Server
javax.persistence.PersistenceException: Exception [EclipseLink-4002] (Eclipse Persistence Services - 2.6.2.v20151217-774c696): org.eclipse.persistence.exceptions.DatabaseException
Internal Exception: java.sql.SQLException: Connections could not be acquired from the underlying database!
Error Code: 0
at org.eclipse.persistence.internal.jpa.EntityManagerSetupImpl.deploy(EntityManagerSetupImpl.java:815)
at org.eclipse.persistence.internal.jpa.EntityManagerFactoryDelegate.getAbstractSession(EntityManagerFactoryDelegate.java:205)
at org.eclipse.persistence.internal.jpa.EntityManagerFactoryDelegate.createEntityManagerImpl(EntityManagerFactoryDelegate.java:305)
at org.eclipse.persistence.internal.jpa.EntityManagerFactoryImpl.createEntityManagerImpl(EntityManagerFactoryImpl.java:337)
at org.eclipse.persistence.internal.jpa.EntityManagerFactoryImpl.createEntityManager(EntityManagerFactoryImpl.java:303)
at com.google.inject.persist.jpa.JpaPersistService.begin(JpaPersistService.java:77)
at com.google.inject.persist.jpa.AmbariJpaPersistService.begin(AmbariJpaPersistService.java:28)
at org.apache.ambari.server.orm.AmbariLocalSessionInterceptor.invoke(AmbariLocalSessionInterceptor.java:40)
at org.apache.ambari.server.checks.DatabaseConsistencyCheckHelper.checkDBVersionCompatible(DatabaseConsistencyCheckHelper.java:222)
at org.apache.ambari.server.controller.AmbariServer.main(AmbariServer.java:1099)
Caused by: Exception [EclipseLink-4002] (Eclipse Persistence Services - 2.6.2.v20151217-774c696): org.eclipse.persistence.exceptions.DatabaseException
Internal Exception: java.sql.SQLException: Connections could not be acquired from the underlying database!
Error Code: 0
at org.eclipse.persistence.exceptions.DatabaseException.sqlException(DatabaseException.java:316)
at org.eclipse.persistence.sessions.JNDIConnector.connect(JNDIConnector.java:147)
at org.eclipse.persistence.sessions.DatasourceLogin.connectToDatasource(DatasourceLogin.java:162)
at org.eclipse.persistence.internal.sessions.DatabaseSessionImpl.setOrDetectDatasource(DatabaseSessionImpl.java:207)
at org.eclipse.persistence.internal.sessions.DatabaseSessionImpl.loginAndDetectDatasource(DatabaseSessionImpl.java:760)
at org.eclipse.persistence.internal.jpa.EntityManagerFactoryProvider.login(EntityManagerFactoryProvider.java:265)
at org.eclipse.persistence.internal.jpa.EntityManagerSetupImpl.deploy(EntityManagerSetupImpl.java:731)
... 9 more
Caused by: java.sql.SQLException: Connections could not be acquired from the underlying database!
at com.mchange.v2.sql.SqlUtils.toSQLException(SqlUtils.java:118)
at com.mchange.v2.c3p0.impl.C3P0PooledConnectionPool.checkoutPooledConnection(C3P0PooledConnectionPool.java:692)
at com.mchange.v2.c3p0.impl.AbstractPoolBackedDataSource.getConnection(AbstractPoolBackedDataSource.java:146)
at org.eclipse.persistence.sessions.JNDIConnector.connect(JNDIConnector.java:144)
... 14 more
Caused by: com.mchange.v2.resourcepool.CannotAcquireResourceException: A ResourcePool could not acquire a resource from its primary factory or source.
at com.mchange.v2.resourcepool.BasicResourcePool.awaitAvailable(BasicResourcePool.java:1469)
at com.mchange.v2.resourcepool.BasicResourcePool.prelimCheckoutResource(BasicResourcePool.java:644)
at com.mchange.v2.resourcepool.BasicResourcePool.checkoutResource(BasicResourcePool.java:554)
at com.mchange.v2.c3p0.impl.C3P0PooledConnectionPool.checkoutAndMarkConnectionInUse(C3P0PooledConnectionPool.java:758)
at com.mchange.v2.c3p0.impl.C3P0PooledConnectionPool.checkoutPooledConnection(C3P0PooledConnectionPool.java:685)
... 16 more
Caused by: java.sql.SQLException: Access denied for user 'ambari'@'xxxxxxxxx' (using password: YES)
at com.mysql.jdbc.SQLError.createSQLException(SQLError.java:959)
at com.mysql.jdbc.MysqlIO.checkErrorPacket(MysqlIO.java:3870)
at com.mysql.jdbc.MysqlIO.checkErrorPacket(MysqlIO.java:3806)
at com.mysql.jdbc.MysqlIO.checkErrorPacket(MysqlIO.java:871)
at com.mysql.jdbc.MysqlIO.proceedHandshakeWithPluggableAuthentication(MysqlIO.java:1686)
at com.mysql.jdbc.MysqlIO.doHandshake(MysqlIO.java:1207)
at com.mysql.jdbc.ConnectionImpl.coreConnect(ConnectionImpl.java:2254)
at com.mysql.jdbc.ConnectionImpl.connectOneTryOnly(ConnectionImpl.java:2285)
at com.mysql.jdbc.ConnectionImpl.createNewIO(ConnectionImpl.java:2084)
at com.mysql.jdbc.ConnectionImpl.<init>(ConnectionImpl.java:795)
at com.mysql.jdbc.JDBC4Connection.<init>(JDBC4Connection.java:44)
at sun.reflect.GeneratedConstructorAccessor43.newInstance(Unknown Source)
at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
at java.lang.reflect.Constructor.newInstance(Constructor.java:423)
at com.mysql.jdbc.Util.handleNewInstance(Util.java:404)
at com.mysql.jdbc.ConnectionImpl.getInstance(ConnectionImpl.java:400)
at com.mysql.jdbc.NonRegisteringDriver.connect(NonRegisteringDriver.java:327)
at com.mchange.v2.c3p0.DriverManagerDataSource.getConnection(DriverManagerDataSource.java:175)
at com.mchange.v2.c3p0.WrapperConnectionPoolDataSource.getPooledConnection(WrapperConnectionPoolDataSource.java:220)
at com.mchange.v2.c3p0.WrapperConnectionPoolDataSource.getPooledConnection(WrapperConnectionPoolDataSource.java:206)
at com.mchange.v2.c3p0.impl.C3P0PooledConnectionPool$1PooledConnectionResourcePoolManager.acquireResource(C3P0PooledConnectionPool.java:203)
at com.mchange.v2.resourcepool.BasicResourcePool.doAcquire(BasicResourcePool.java:1138)
at com.mchange.v2.resourcepool.BasicResourcePool.doAcquireAndDecrementPendingAcquiresWithinLockOnSuccess(BasicResourcePool.java:1125)
at com.mchange.v2.resourcepool.BasicResourcePool.access$700(BasicResourcePool.java:44)
at com.mchange.v2.resourcepool.BasicResourcePool$ScatteredAcquireTask.run(BasicResourcePool.java:1870)
at com.mchange.v2.async.ThreadPoolAsynchronousRunner$PoolThread.run(ThreadPoolAsynchronousRunner.java:696)