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From Josh Mahonin <jmaho...@gmail.com>
Subject Re: [EXTERNAL] Re: Confusion Installing Phoenix Spark Plugin / Various Errors
Date Wed, 09 Dec 2015 20:14:42 GMT
Hi Jonathan,

Thanks, I'm digging into this as we speak. That SPARK-8332 issue looks like
the same issue, and to quote one of the comments in that issue 'Classpath
hell is hell'.

What is interesting is that the unit tests in Phoenix 4.6.0 successfully
run against Spark 1.5.2 [1], so I wonder if this is issue is specific to
the spark-shell. You may have some success compiling your app as an
assembly JAR and submitting it to a Spark cluster instead.

Could you do me a favour and file a JIRA ticket for this, and copy all the
relevant information you've posted there?

Thanks!

Josh

[1]
https://github.com/apache/phoenix/blob/master/phoenix-spark/src/it/scala/org/apache/phoenix/spark/PhoenixSparkIT.scala

On Wed, Dec 9, 2015 at 2:52 PM, Cox, Jonathan A <jacox@sandia.gov> wrote:

> Josh,
>
>
>
> I’d like to give you a little more information regarding this error. It
> looks like when I add the Phoenix Client JAR to Spark, it causes Spark to
> fail:
>
> spark.executor.extraClassPath
> /usr/local/phoenix/phoenix-4.6.0-HBase-1.1-client.jar
>
> spark.driver.extraClassPath
> /usr/local/phoenix/phoenix-4.6.0-HBase-1.1-client.jar
>
>
>
> After adding this JAR, I get the following error when excuting the
> following command:
>
> scala> val textFile = sc.textFile("README.md")
>
> 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$.<clinit>(ScalaNumberDeserializersModule.scala)
>
>
>
> As you can see, adding this phoenix JAR is breaking other Spark
> functionality for me. My naïve guess is that there is a different version
> of the Jackson FasterXML classes packaged inside
> phoenix-4.6.0-HBase-1.1-client.jar that is breaking Spark.
>
>
>
> Have you seen anything like this before?
>
>
>
> Regards,
>
> Jonathan
>
>
>
> *From:* Cox, Jonathan A [mailto:jacox@sandia.gov]
> *Sent:* Wednesday, December 09, 2015 11:58 AM
> *To:* user@phoenix.apache.org
> *Subject:* [EXTERNAL] Re: Confusion Installing Phoenix Spark Plugin /
> Various Errors
>
>
>
> Josh,
>
>
>
> So using user provided Hadoop 2.6 solved the immediate Phoenix / Spark
> integration problem I was having. However, I now have another problem,
> which seems to be similar to:
>
> https://issues.apache.org/jira/browse/SPARK-8332
>
> java.lang.NoSuchMethodError:
> com.fasterxml.jackson.module.scala.deser.BigDecimalDeserializer
>
>
>
> I’m getting this error when executing the simple example in the Phoenix /
> Spark Plugin page:
>
> Spark context available as sc.
>
> 15/12/09 11:51:02 INFO repl.SparkILoop: Created sql context..
>
> SQL context available as sqlContext.
>
>
>
> scala> val df = sqlContext.load(
>
>      |   "org.apache.phoenix.spark",
>
>      |   Map("table" -> "TABLE1", "zkUrl" -> "phoenix-server:2181")
>
>      | )
>
> warning: there were 1 deprecation warning(s); re-run with -deprecation for
> details
>
> java.lang.NoSuchMethodError:
> com.fasterxml.jackson.module.scala.deser.BigDecimalDeserializer$.handledType()Ljava/lang/Class;
>
>
>
> I did try upgrading the Hadoop Jackson JARs from 2.2.3 to 2.4.3, as some
> suggested in the link above, and including them in Spark’s classpath.
> However, the error was the same.
>
>
>
> *From:* Josh Mahonin [mailto:jmahonin@gmail.com <jmahonin@gmail.com>]
> *Sent:* Wednesday, December 09, 2015 11:21 AM
> *To:* user@phoenix.apache.org
> *Subject:* Re: [EXTERNAL] Re: Confusion Installing Phoenix Spark Plugin /
> Various Errors
>
>
>
> Definitely. I'd like to dig into what the root cause is, but it might be
> optimistic to think I'll be able to get to that any time soon.
>
>
>
> I'll try get the docs updated today.
>
>
>
> On Wed, Dec 9, 2015 at 1:09 PM, James Taylor <jamestaylor@apache.org>
> wrote:
>
> Would it make sense to tweak the Spark installation instructions slightly
> with this information, Josh?
>
>
>
> On Wed, Dec 9, 2015 at 9:11 AM, Cox, Jonathan A <jacox@sandia.gov> wrote:
>
> Josh,
>
>
>
> Previously, I was using the SPARK_CLASSPATH, but then read that it was
> deprecated and switched to the spark-defaults.conf file. The result was the
> same.
>
>
>
> Also, I was using ‘spark-1.5.2-bin-hadoop2.6.tgz’, which includes some
> Hadoop 2.6 JARs. This caused the trouble. However, by separately
> downloading Hadoop 2.6 and Spark without Hadoop, the errors went away.
>
>
>
> -Jonathan
>
>
>
> *From:* Josh Mahonin [mailto:jmahonin@gmail.com]
> *Sent:* Wednesday, December 09, 2015 5:57 AM
> *To:* user@phoenix.apache.org
> *Subject:* Re: [EXTERNAL] Re: Confusion Installing Phoenix Spark Plugin /
> Various Errors
>
>
>
> Hi Jonathan,
>
>
>
> Thanks for the information. If you're able, could you also try the
> 'SPARK_CLASSPATH' environment variable instead of the spark-defaults.conf
> setting, and let us know if that works? Also the exact Spark package you're
> using would be helpful as well (from source, prebuilt for 2.6+, 2.4+, CDH,
> etc.)
>
> Thanks,
>
>
>
> Josh
>
>
>
> On Wed, Dec 9, 2015 at 12:08 AM, Cox, Jonathan A <jacox@sandia.gov> wrote:
>
> Alright, I reproduced what you did exactly, and it now works. The problem
> is that the Phoenix client JAR is not working correctly with the Spark
> builds that include Hadoop.
>
>
>
> When I downloaded the Spark build with user provided Hadoop, and also
> installed Hadoop manually, Spark works with Phoenix correctly!
>
>
>
> Thank you much,
>
> Jonathan
>
> Sent from my iPhone
>
>
> On Dec 8, 2015, at 8:54 PM, Josh Mahonin <jmahonin@gmail.com> wrote:
>
> Hi Jonathan,
>
>
>
> Spark only needs the client JAR. It contains all the other Phoenix
> dependencies as well.
>
>
>
> I'm not sure exactly what the issue you're seeing is. I just downloaded
> and extracted fresh copies of Spark 1.5.2 (pre-built with user-provided
> Hadoop), and the latest Phoenix 4.6.0 binary release.
>
>
>
> I copied the 'phoenix-4.6.0-HBase-1.1-client.jar' to /tmp and created a
> 'spark-defaults.conf' in the 'conf' folder of the Spark install with the
> following:
>
>
> spark.executor.extraClassPath /tmp/phoenix-4.6.0-HBase-1.1-client.jar
>
> spark.driver.extraClassPath /tmp/phoenix-4.6.0-HBase-1.1-client.jar
>
> I then launched the 'spark-shell', and was able to execute:
>
> import org.apache.phoenix.spark._
>
>
>
> From there, you should be able to use the methods provided by the
> phoenix-spark integration within the Spark shell.
>
>
>
> Good luck,
>
>
>
> Josh
>
>
>
> On Tue, Dec 8, 2015 at 8:51 PM, Cox, Jonathan A <jacox@sandia.gov> wrote:
>
> I am trying to get Spark up and running with Phoenix, but the installation
> instructions are not clear to me, or there is something else wrong. I’m
> using Spark 1.5.2, HBase 1.1.2 and Phoenix 4.6.0 with a standalone install
> (no HDFS or cluster) with Debian Linux 8 (Jessie) x64. I’m also using Java
> 1.8.0_40.
>
>
>
> The instructions state:
>
> 1.       Ensure that all requisite Phoenix / HBase platform dependencies
> are available on the classpath for the Spark executors and drivers
>
> 2.       One method is to add the phoenix-4.4.0-client.jar to
> ‘SPARK_CLASSPATH’ in spark-env.sh, or setting both
> ‘spark.executor.extraClassPath’ and ‘spark.driver.extraClassPath’ in
> spark-defaults.conf
>
>
>
> *First off, what are “all requisite Phoenix / HBase platform
> dependencies”?* #2 suggests that all I need to do is add
>  ‘phoenix-4.6.0-HBase-1.1-client.jar’ to Spark’s class path. But what about
> ‘phoenix-spark-4.6.0-HBase-1.1.jar’ or ‘phoenix-core-4.6.0-HBase-1.1.jar’?
> Do either of these (or anything else) need to be added to Spark’s class
> path?
>
>
>
> Secondly, if I follow the instructions exactly, and add only
> ‘phoenix-4.6.0-HBase-1.1-client.jar’ to ‘spark-defaults.conf’:
>
> spark.executor.extraClassPath
> /usr/local/phoenix/phoenix-4.6.0-HBase-1.1-client.jar
>
> spark.driver.extraClassPath
> /usr/local/phoenix/phoenix-4.6.0-HBase-1.1-client.jar
>
> Then I get the following error when starting the interactive Spark shell
> with ‘spark-shell’:
>
> 15/12/08 18:38:05 WARN ObjectStore: Version information not found in
> metastore. hive.metastore.schema.verification is not enabled so recording
> the schema version 1.2.0
>
> 15/12/08 18:38:05 WARN ObjectStore: Failed to get database default,
> returning NoSuchObjectException
>
> 15/12/08 18:38:05 WARN Hive: Failed to access metastore. This class should
> not accessed in runtime.
>
> org.apache.hadoop.hive.ql.metadata.HiveException:
> java.lang.RuntimeException: Unable to instantiate
> org.apache.hadoop.hive.ql.metadata.SessionHiveMetaStoreClient
>
>                 at
> org.apache.hadoop.hive.ql.metadata.Hive.getAllDatabases(Hive.java:1236)
>
> …
>
>
>
> <console>:10: error: not found: value sqlContext
>
>        import sqlContext.implicits._
>
>               ^
>
> <console>:10: error: not found: value sqlContext
>
>        import sqlContext.sql
>
>
>
> On the other hand, if I include all three of the aforementioned JARs, I
> get the same error. However, *if I include only the
> ‘phoenix-spark-4.6.0-HBase-1.1.jar’*, spark-shell seems so launch without
> error. Nevertheless, if I then try the simple tutorial commands in
> spark-shell, I get the following:
>
> *Spark output:* SQL context available as sqlContext.
>
>
>
> *scala >>* import org.apache.spark.SparkContext
>
> import org.apache.spark.sql.SQLContext
>
> import org.apache.phoenix.spark._
>
>
>
>                                 val sqlContext = new SQLContext(sc)
>
>
>
>                                 val df =
> sqlContext.load("org.apache.phoenix.spark", Map("table" -> "TABLE1",
> "zkUrl" -> "phoenix-server:2181")
>
>
>
>                 *Spark error:*
>
>                                 *java.lang.NoClassDefFoundError:
> org/apache/hadoop/hbase/HBaseConfiguration*
>
>                 at
> org.apache.phoenix.spark.PhoenixRDD.getPhoenixConfiguration(PhoenixRDD.scala:71)
>
>                 at
> org.apache.phoenix.spark.PhoenixRDD.phoenixConf$lzycompute(PhoenixRDD.scala:39)
>
>                 at
> org.apache.phoenix.spark.PhoenixRDD.phoenixConf(PhoenixRDD.scala:38)
>
>                 at
> org.apache.phoenix.spark.PhoenixRDD.<init>(PhoenixRDD.scala:42)
>
>                 at
> org.apache.phoenix.spark.PhoenixRelation.schema(PhoenixRelation.scala:50)
>
>                 at
> org.apache.spark.sql.execution.datasources.LogicalRelation.<init>(LogicalRelation.scala:37)
>
>                 at
> org.apache.spark.sql.DataFrameReader.load(DataFrameReader.scala:120)
>
>
>
> This final error seems similar to the one in mailing list post Phoenix-spark
> : NoClassDefFoundError: HBaseConfiguration
> <http://mail-archives.apache.org/mod_mbox/phoenix-user/201511.mbox/ajax/%3CCAKwwsRSEJHkotiF28kzumDZM6kgBVeTJNGUoJnZcLiuEGCTjHQ%40mail.gmail.com%3E>
> <
> http://mail-archives.apache.org/mod_mbox/phoenix-user/201511.mbox/ajax/%3CCAKwwsRSEJHkotiF28kzumDZM6kgBVeTJNGUoJnZcLiuEGCTjHQ%40mail.gmail.com%3E>.
> But the question does not seem to have been answered satisfactory. Also
> note, if I include all three JARs, as he did, I get an error when launching
> spark-shell.
>
>
>
> *Can you please clarify what is the proper way to install and configure
> Phoenix with Spark?*
>
>
>
> Sincerely,
>
> Jonathan
>
>
>
>
>
>
>
>
>

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