While trying to connect to MySql database in RDS from EMR Jupyter Notebook, I have found the following error :
Code Used:
from pyspark.sql import SparkSession
hostname="hostname"
dbname = "mysql"
jdbcPort = 3306
username = "user"
password = "password"
jdbc_url = "jdbc:mysql://{0}:{1}/{2}?user={3}&password={4}".format(hostname,jdbcPort, dbname,username,password)
query = "(select * from framework.File_Columns) as table1"
df1 = spark.read.format('jdbc').options(driver = 'com.mysql.jdbc.Driver',url=jdbc_url, dbtable=query ).load()
df1.show()
Error message:
An error occurred while calling o89.showString. : org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 in stage 0.0 failed 4 times, most recent failure: Lost task 0.3 in stage 0.0 (TID 3, ip-172-31-37-50.us-west-2.compute.internal, executor 1): java.lang.ClassNotFoundException: com.mysql.jdbc.Driver
I have downloaded the required mysql-connector-java-5.1.47.jar to /home/hadoop/mysql-connector-java-5.1.47.jar and have updated the Spark configuration file as follows:
spark.master yarn
spark.driver.extraClassPath :/usr/lib/hadoop-lzo/lib/*:/usr/lib/hadoop/hadoop-aws.jar:/usr/share/aws/aws-java-sdk/*:/usr/share/aws/emr/emrfs/conf:/usr/share/aws/emr/emrfs/lib/*:/usr/share/aws/emr/emrfs/auxlib/*:/usr/share/aws/emr/goodies/lib/emr-spark-goodies.jar:/usr/share/aws/emr/security/conf:/usr/share/aws/emr/security/lib/*:/usr/share/aws/hmclient/lib/aws-glue-datacatalog-spark-client.jar:/usr/share/java/Hive-JSON-Serde/hive-openx-serde.jar:/usr/share/aws/sagemaker-spark-sdk/lib/sagemaker-spark-sdk.jar:/home/hadoop/extrajars/*:/home/hadoop/extrajars/mysql-connector-java-5.1.47.jar
spark.driver.extraLibraryPath /usr/lib/hadoop/lib/native:/usr/lib/hadoop-lzo/lib/native:/home/hadoop/extrajars/*:/home/hadoop/extrajars/mysql-connector-java-5.1.47.jar
spark.executor.extraClassPath :/usr/lib/hadoop-lzo/lib/*:/usr/lib/hadoop/hadoop-aws.jar:/usr/share/aws/aws-java-sdk/*:/usr/share/aws/emr/emrfs/conf:/usr/share/aws/emr/emrfs/lib/*:/usr/share/aws/emr/emrfs/auxlib/*:/usr/share/aws/emr/goodies/lib/emr-spark-goodies.jar:/usr/share/aws/emr/security/conf:/usr/share/aws/emr/security/lib/*:/usr/share/aws/hmclient/lib/aws-glue-datacatalog-spark-client.jar:/usr/share/java/Hive-JSON-Serde/hive-openx-serde.jar:/usr/share/aws/sagemaker-spark-sdk/lib/sagemaker-spark-sdk.jar:/home/hadoop/extrajars/*:/home/hadoop/extrajars/mysql-connector-java-5.1.47.jar
spark.executor.extraLibraryPath /usr/lib/hadoop/lib/native:/usr/lib/hadoop-lzo/lib/native:/home/hadoop/extrajars/*:/home/hadoop/extrajars/mysql-connector-java-5.1.47.jar
Is there anything more that I have to do, so as to connect to the MySql DB from the Jupyter Notebook?
