Spark Scala DataFrame repartition by a column error - scala

I have a DS joined in Spark. I am using scala. I want to partition the DS on a column "date". I am using the following syntax. The code does not throw Compile Error:
joined.repartition(joined.col("date")).show()
The Scala repartition function is defined as follows:
def repartition(partitionExprs : org.apache.spark.sql.Column*) : org.apache.spark.sql.Dataset[T] = { /* compiled code */ }
However when I execute the code in Spark, I get the following error in Run time. What am I doing wrong?
Exception in thread "main" java.lang.NoSuchMethodError: scala.runtime.ScalaRunTime$.wrapRefArray([Ljava/lang/Object;)Lscala/collection/immutable/ArraySeq;
at example.Stocks$.main(Stocks.scala:38)
at example.Stocks.main(Stocks.scala)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at org.apache.spark.deploy.JavaMainApplication.start(SparkApplication.scala:52)
at org.apache.spark.deploy.SparkSubmit.org$apache$spark$deploy$SparkSubmit$$runMain(SparkSubmit.scala:951)
at org.apache.spark.deploy.SparkSubmit.doRunMain$1(SparkSubmit.scala:180)
at org.apache.spark.deploy.SparkSubmit.submit(SparkSubmit.scala:203)
at org.apache.spark.deploy.SparkSubmit.doSubmit(SparkSubmit.scala:90)
at org.apache.spark.deploy.SparkSubmit$$anon$2.doSubmit(SparkSubmit.scala:1030)
at org.apache.spark.deploy.SparkSubmit$.main(SparkSubmit.scala:1039)
at org.apache.spark.deploy.SparkSubmit.main(SparkSubmit.scala)

You are probably compiling to the wrong version of Scala (and probably Spark as well). You can verify your running version with spark-submit --version.

If you can isolate then, may be try to run the same on spark-shell. I usually use it for troubleshooting the spark jobs.

Related

SparkNLP NerDLModel load throws NoSuchMethodException

I am currently using John Snow labs SparkNLP library to train a custom NER Model. I am able to successfully complete the training and the model is getting saved to the disk. When I try to load the model for next step to actually tag some sample data I run into the following error. I using the Ubuntu on Windows 10. spark-nlp_2.12:3.1.2 with Spark 3.1.2, scala 2.12.10 OpenJDK 8
I have also tried the same on PySpark I get same the exact error
pyspark error:
java.lang.NoSuchMethodException:
org.apache.spark.ml.PipelineModel.(java.lang.String)
at java.lang.Class.getConstructor0(Class.java:3082)
at java.lang.Class.getConstructor(Class.java:1825)
at org.apache.spark.ml.util.DefaultParamsReader.load(ReadWrite.scala:468)
at com.johnsnowlabs.nlp.FeaturesReader.load(ParamsAndFeaturesReadable.scala:12)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at py4j.reflection.MethodInvoker.invoke(MethodInvoker.java:244)
at py4j.reflection.ReflectionEngine.invoke(ReflectionEngine.java:357)
at py4j.Gateway.invoke(Gateway.java:282)
at py4j.commands.AbstractCommand.invokeMethod(AbstractCommand.java:132)
at py4j.commands.CallCommand.execute(CallCommand.java:79)
at py4j.GatewayConnection.run(GatewayConnection.java:238)
at java.lang.Thread.run(Thread.java:748)
Any help is appreciated. Scala version error
java.lang.NoSuchMethodException:
org.apache.spark.ml.PipelineModel.(java.lang.String) at
java.lang.Class.getConstructor0(Class.java:3082) at
java.lang.Class.getConstructor(Class.java:1825) at
org.apache.spark.ml.util.DefaultParamsReader.load(ReadWrite.scala:468)
at
com.johnsnowlabs.nlp.FeaturesReader.load(ParamsAndFeaturesReadable.scala:12)
at
com.johnsnowlabs.nlp.FeaturesReader.load(ParamsAndFeaturesReadable.scala:8)
val loaded_ner_model = NerDLModel.load("./NER_bert_prod_20200221")
.setInputCols("sentence", "token", "bert")
.setOutputCol("ner")

Create MongoDB External View using SparkSQL Only

I'm trying to query MongoDB using Spark SQL shell. I have a limitation that I can only use SQL: no Scala, Python, etc. I intend to use Thrift, but for proof of concept, I am using spark-sql. I'm using EMR with Spark version 2.4.4. More info:
Using Scala version 2.11.12, OpenJDK 64-Bit Server VM, 1.8.0_242
Branch HEAD
Compiled by user ec2-user on 2019-12-14T00:54:30Z
Revision 5f788d5e8f90539ee331702c753fa250727128f4
Url git#aws157git.com:/pkg/Aws157BigTop
Type --help for more information.
I start my shell with a pointer to MongoDB Spark maven coordinates:
spark-sql --packages org.mongodb.spark:mongo-spark-connector_2.12:2.4.1 --conf spark.mongodb.input.uri=mongodb://something.real/development?readPreference=secondary
Spark SQL seems to recognise the jar, via the logs:
org.mongodb.spark#mongo-spark-connector_2.12 added as a dependency
Then I run
CREATE TEMPORARY VIEW mongo
USING com.mongodb.spark.sql.DefaultSource
OPTIONS (
collection 'accounts'
);
And I get the following error:
java.lang.NoSuchMethodError: scala.Product.$init$(Lscala/Product;)V
at com.mongodb.spark.rdd.partitioner.DefaultMongoPartitioner$.<init>(DefaultMongoPartitioner.scala:64)
at com.mongodb.spark.rdd.partitioner.DefaultMongoPartitioner$.<clinit>(DefaultMongoPartitioner.scala)
at com.mongodb.spark.config.ReadConfig$.<init>(ReadConfig.scala:48)
at com.mongodb.spark.config.ReadConfig$.<clinit>(ReadConfig.scala)
at com.mongodb.spark.sql.DefaultSource.constructRelation(DefaultSource.scala:91)
at com.mongodb.spark.sql.DefaultSource.createRelation(DefaultSource.scala:50)
at org.apache.spark.sql.execution.datasources.DataSource.resolveRelation(DataSource.scala:318)
at org.apache.spark.sql.execution.datasources.CreateTempViewUsing.run(ddl.scala:93)
at org.apache.spark.sql.execution.command.ExecutedCommandExec.sideEffectResult$lzycompute(commands.scala:70)
at org.apache.spark.sql.execution.command.ExecutedCommandExec.sideEffectResult(commands.scala:68)
at org.apache.spark.sql.execution.command.ExecutedCommandExec.executeCollect(commands.scala:79)
at org.apache.spark.sql.Dataset$$anonfun$6.apply(Dataset.scala:194)
at org.apache.spark.sql.Dataset$$anonfun$6.apply(Dataset.scala:194)
at org.apache.spark.sql.Dataset$$anonfun$52.apply(Dataset.scala:3370)
at org.apache.spark.sql.execution.SQLExecution$$anonfun$withNewExecutionId$1.apply(SQLExecution.scala:84)
at org.apache.spark.sql.execution.SQLExecution$.withSQLConfPropagated(SQLExecution.scala:165)
at org.apache.spark.sql.execution.SQLExecution$.withNewExecutionId(SQLExecution.scala:74)
at org.apache.spark.sql.Dataset.withAction(Dataset.scala:3369)
at org.apache.spark.sql.Dataset.<init>(Dataset.scala:194)
at org.apache.spark.sql.Dataset$.ofRows(Dataset.scala:79)
at org.apache.spark.sql.SparkSession.sql(SparkSession.scala:643)
at org.apache.spark.sql.SQLContext.sql(SQLContext.scala:694)
at org.apache.spark.sql.hive.thriftserver.SparkSQLDriver.run(SparkSQLDriver.scala:62)
at org.apache.spark.sql.hive.thriftserver.SparkSQLCLIDriver.processCmd(SparkSQLCLIDriver.scala:371)
at org.apache.hadoop.hive.cli.CliDriver.processLine(CliDriver.java:376)
at org.apache.spark.sql.hive.thriftserver.SparkSQLCLIDriver$.main(SparkSQLCLIDriver.scala:274)
at org.apache.spark.sql.hive.thriftserver.SparkSQLCLIDriver.main(SparkSQLCLIDriver.scala)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at org.apache.spark.deploy.JavaMainApplication.start(SparkApplication.scala:52)
at org.apache.spark.deploy.SparkSubmit.org$apache$spark$deploy$SparkSubmit$$runMain(SparkSubmit.scala:853)
at org.apache.spark.deploy.SparkSubmit.doRunMain$1(SparkSubmit.scala:161)
at org.apache.spark.deploy.SparkSubmit.submit(SparkSubmit.scala:184)
at org.apache.spark.deploy.SparkSubmit.doSubmit(SparkSubmit.scala:86)
at org.apache.spark.deploy.SparkSubmit$$anon$2.doSubmit(SparkSubmit.scala:928)
at org.apache.spark.deploy.SparkSubmit$.main(SparkSubmit.scala:937)
at org.apache.spark.deploy.SparkSubmit.main(SparkSubmit.scala)
java.lang.NoSuchMethodError: scala.Product.$init$(Lscala/Product;)V
at com.mongodb.spark.rdd.partitioner.DefaultMongoPartitioner$.<init>(DefaultMongoPartitioner.scala:64)
at com.mongodb.spark.rdd.partitioner.DefaultMongoPartitioner$.<clinit>(DefaultMongoPartitioner.scala)
at com.mongodb.spark.config.ReadConfig$.<init>(ReadConfig.scala:48)
at com.mongodb.spark.config.ReadConfig$.<clinit>(ReadConfig.scala)
at com.mongodb.spark.sql.DefaultSource.constructRelation(DefaultSource.scala:91)
at com.mongodb.spark.sql.DefaultSource.createRelation(DefaultSource.scala:50)
at org.apache.spark.sql.execution.datasources.DataSource.resolveRelation(DataSource.scala:318)
at org.apache.spark.sql.execution.datasources.CreateTempViewUsing.run(ddl.scala:93)
at org.apache.spark.sql.execution.command.ExecutedCommandExec.sideEffectResult$lzycompute(commands.scala:70)
at org.apache.spark.sql.execution.command.ExecutedCommandExec.sideEffectResult(commands.scala:68)
at org.apache.spark.sql.execution.command.ExecutedCommandExec.executeCollect(commands.scala:79)
at org.apache.spark.sql.Dataset$$anonfun$6.apply(Dataset.scala:194)
at org.apache.spark.sql.Dataset$$anonfun$6.apply(Dataset.scala:194)
at org.apache.spark.sql.Dataset$$anonfun$52.apply(Dataset.scala:3370)
at org.apache.spark.sql.execution.SQLExecution$$anonfun$withNewExecutionId$1.apply(SQLExecution.scala:84)
at org.apache.spark.sql.execution.SQLExecution$.withSQLConfPropagated(SQLExecution.scala:165)
at org.apache.spark.sql.execution.SQLExecution$.withNewExecutionId(SQLExecution.scala:74)
at org.apache.spark.sql.Dataset.withAction(Dataset.scala:3369)
at org.apache.spark.sql.Dataset.<init>(Dataset.scala:194)
at org.apache.spark.sql.Dataset$.ofRows(Dataset.scala:79)
at org.apache.spark.sql.SparkSession.sql(SparkSession.scala:643)
at org.apache.spark.sql.SQLContext.sql(SQLContext.scala:694)
at org.apache.spark.sql.hive.thriftserver.SparkSQLDriver.run(SparkSQLDriver.scala:62)
at org.apache.spark.sql.hive.thriftserver.SparkSQLCLIDriver.processCmd(SparkSQLCLIDriver.scala:371)
at org.apache.hadoop.hive.cli.CliDriver.processLine(CliDriver.java:376)
at org.apache.spark.sql.hive.thriftserver.SparkSQLCLIDriver$.main(SparkSQLCLIDriver.scala:274)
at org.apache.spark.sql.hive.thriftserver.SparkSQLCLIDriver.main(SparkSQLCLIDriver.scala)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at org.apache.spark.deploy.JavaMainApplication.start(SparkApplication.scala:52)
at org.apache.spark.deploy.SparkSubmit.org$apache$spark$deploy$SparkSubmit$$runMain(SparkSubmit.scala:853)
at org.apache.spark.deploy.SparkSubmit.doRunMain$1(SparkSubmit.scala:161)
at org.apache.spark.deploy.SparkSubmit.submit(SparkSubmit.scala:184)
at org.apache.spark.deploy.SparkSubmit.doSubmit(SparkSubmit.scala:86)
at org.apache.spark.deploy.SparkSubmit$$anon$2.doSubmit(SparkSubmit.scala:928)
at org.apache.spark.deploy.SparkSubmit$.main(SparkSubmit.scala:937)
at org.apache.spark.deploy.SparkSubmit.main(SparkSubmit.scala)
Any idea how to set up this view using SQL only, ideally without any startup command line options except the Maven coordinates would also be ace.
Looks like a mismatch between Scala versions.
Starting spark-sql with spark-sql --packages org.mongodb.spark:mongo-spark-connector_2.11:2.4.1 worked alright.
To create the Mongo view using SQL only:
CREATE TEMPORARY VIEW source
USING mongo
OPTIONS (
uri 'mongodb://…',
collection 'my_collection'
);

spark-submit NoSuchMethodError BigDecimalDeserializer

I have scala code which uses the Htable class of Hbase , I am building that as jar and running using spark-submit like below
spark2-submit --conf spark.driver.extraClassPath=/opt/cloudera/parcels/CDH-5.11.0-1.cdh5.11.0.p0.34/lib/hbase/lib/* --class commontest scala-maven-plugin-0.0.1-SNAPSHOT.jar
I am passing the hbase class path using extraClassPath , but still getting below error, has anyone got this error ?
Exception in thread "main" java.lang.NoSuchMethodError: com.fasterxml.jackson.module.scala.deser.BigDecimalDeserializer$.handledType()Ljava/lang/Class;
at com.fasterxml.jackson.module.scala.deser.NumberDeserializers$.<init>(ScalaNumberDeserializersModule.scala:49)
at com.fasterxml.jackson.module.scala.deser.NumberDeserializers$.<clinit>(ScalaNumberDeserializersModule.scala)
at com.fasterxml.jackson.module.scala.deser.ScalaNumberDeserializersModule$class.$init$(ScalaNumberDeserializersModule.scala:61)
at com.fasterxml.jackson.module.scala.DefaultScalaModule.<init>(DefaultScalaModule.scala:20)
at com.fasterxml.jackson.module.scala.DefaultScalaModule$.<init>(DefaultScalaModule.scala:37)
at com.fasterxml.jackson.module.scala.DefaultScalaModule$.<clinit>(DefaultScalaModule.scala)
at org.apache.spark.util.JsonProtocol$.<init>(JsonProtocol.scala:59)
at org.apache.spark.util.JsonProtocol$.<clinit>(JsonProtocol.scala)
at org.apache.spark.scheduler.EventLoggingListener$.initEventLog(EventLoggingListener.scala:270)
at org.apache.spark.scheduler.EventLoggingListener.start(EventLoggingListener.scala:121)
at org.apache.spark.SparkContext.<init>(SparkContext.scala:531)
at KPICommonDeviceDayUsage$.main(KPICommonDeviceDayUsage.scala:339)
at KPICommonDeviceDayUsage.main(KPICommonDeviceDayUsage.scala)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at org.apache.spark.deploy.SparkSubmit$.org$apache$spark$deploy$SparkSubmit$$runMain(SparkSubmit.scala:738)
at org.apache.spark.deploy.SparkSubmit$.doRunMain$1(SparkSubmit.scala:187)
at org.apache.spark.deploy.SparkSubmit$.submit(SparkSubmit.scala:212)
at org.apache.spark.deploy.SparkSubmit$.main(SparkSubmit.scala:126)
at org.apache.spark.deploy.SparkSubmit.main(SparkSubmit.scala)
Exception in thread "main" java.lang.NoSuchMethodError:
com.fasterxml.jackson.module.scala.deser.BigDecimalDeserializer$.handledType()Ljava/lang/Class;
This exception indicates that you have multiple versions of the library available at run-time.

Hive error : Exception in thread "main" java.lang.NoClassDefFoundError: scala/collection/Iterable

I am facing an error when I try to query a table in hive when hive uses spark. For example, when I do:
select count(*) from ma_table;
I get this:
Exception in thread "main" java.lang.NoClassDefFoundError: scala/collection/Iterable
at org.apache.hadoop.hive.ql.parse.spark.GenSparkProcContext.<init>(GenSparkProcContext.java:163)
at org.apache.hadoop.hive.ql.parse.spark.SparkCompiler.generateTaskTree(SparkCompiler.java:195)
at org.apache.hadoop.hive.ql.parse.TaskCompiler.compile(TaskCompiler.java:267)
at org.apache.hadoop.hive.ql.parse.SemanticAnalyzer.analyzeInternal(SemanticAnalyzer.java:10947)
at org.apache.hadoop.hive.ql.parse.CalcitePlanner.analyzeInternal(CalcitePlanner.java:246)
at org.apache.hadoop.hive.ql.parse.BaseSemanticAnalyzer.analyze(BaseSemanticAnalyzer.java:250)
at org.apache.hadoop.hive.ql.Driver.compile(Driver.java:477)
at org.apache.hadoop.hive.ql.Driver.compileInternal(Driver.java:1242)
at org.apache.hadoop.hive.ql.Driver.runInternal(Driver.java:1384)
at org.apache.hadoop.hive.ql.Driver.run(Driver.java:1171)
at org.apache.hadoop.hive.ql.Driver.run(Driver.java:1161)
at org.apache.hadoop.hive.cli.CliDriver.processLocalCmd(CliDriver.java:232)
at org.apache.hadoop.hive.cli.CliDriver.processCmd(CliDriver.java:183)
at org.apache.hadoop.hive.cli.CliDriver.processLine(CliDriver.java:399)
at org.apache.hadoop.hive.cli.CliDriver.executeDriver(CliDriver.java:776)
at org.apache.hadoop.hive.cli.CliDriver.run(CliDriver.java:714)
at org.apache.hadoop.hive.cli.CliDriver.main(CliDriver.java:641)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at org.apache.hadoop.util.RunJar.run(RunJar.java:234)
at org.apache.hadoop.util.RunJar.main(RunJar.java:148)
Caused by: java.lang.ClassNotFoundException: scala.collection.Iterable
at java.net.URLClassLoader.findClass(URLClassLoader.java:381)
at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:335)
at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
... 23 more
After some research, I tried to had this to my bashrc (and sourced it ;) ) :
for f in ${HIVE_LIB}/*.jar; do
CLASSPATH=${CLASSPATH}:$f;
done
for f in ${SPARK_HOME}/jars/*.jar; do
CLASSPATH=${CLASSPATH}:$f;
done
for f in ${SCALA_HOME}/lib/*.jar; do
CLASSPATH=${CLASSPATH}:$f;
done
I checked and I have all these jars in the CLASSPATH and still get the error.
I am using Hive 2.1, Hadoop 2.8 and Spark 2.1.
Any ideas? Thanks a lot by advance!
After coming back to it, I found that scala jars files weren't in the lib of Hive.
If you are facing something similar, have a look there:
https://www.linkedin.com/pulse/hive-spark-configuration-common-issues-mohamed-k

ERROR SparkContext: Error initializing SparkContext

I am using spark-1.5.0-cdh5.6.0. tried the sample application (scala)
command is:
> spark-submit --class com.cloudera.spark.simbox.sparksimbox.WordCount --master local /home/hadoop/work/testspark.jar
Got the following error:
ERROR SparkContext: Error initializing SparkContext.
java.io.FileNotFoundException: File file:/user/spark/applicationHistory does not exist
at org.apache.hadoop.fs.RawLocalFileSystem.deprecatedGetFileStatus(RawLocalFileSystem.java:534)
at org.apache.hadoop.fs.RawLocalFileSystem.getFileLinkStatusInternal(RawLocalFileSystem.java:747)
at org.apache.hadoop.fs.RawLocalFileSystem.getFileStatus(RawLocalFileSystem.java:524)
at org.apache.hadoop.fs.FilterFileSystem.getFileStatus(FilterFileSystem.java:424)
at org.apache.spark.scheduler.EventLoggingListener.start(EventLoggingListener.scala:100)
at org.apache.spark.SparkContext.<init>(SparkContext.scala:541)
at com.cloudera.spark.simbox.sparksimbox.WordCount$.main(WordCount.scala:12)
at com.cloudera.spark.simbox.sparksimbox.WordCount.main(WordCount.scala)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at org.apache.spark.deploy.SparkSubmit$.org$apache$spark$deploy$SparkSubmit$$runMain(SparkSubmit.scala:672)
at org.apache.spark.deploy.SparkSubmit$.doRunMain$1(SparkSubmit.scala:180)
at org.apache.spark.deploy.SparkSubmit$.submit(SparkSubmit.scala:205)
at org.apache.spark.deploy.SparkSubmit$.main(SparkSubmit.scala:120)
at org.apache.spark.deploy.SparkSubmit.main(SparkSubmit.scala)
Spark has a feature called "history server" which allows you to browse historical events after the SparkContext dies. This property is set via setting spark.eventLog.enabled to true.
You have two options, either specify a valid directory to store the event log via the spark.eventLog.dir config value, or simply set spark.eventLog.enabled to false if you don't need it.
You can read more on that in the Spark Configuration page.
I got the same error which working with nltk in spark, To fix this I just removed all the nltk related properties from spark-conf.default.