Ah I see now you are trying to use a spark 1.2 cluster - you will need to be running spark 1.3 on your EC2 cluster in order to run programs built against spark 1.3.
You will need to terminate and restart your cluster with spark 1.3 — Sent from Mailbox On Wed, Mar 25, 2015 at 6:39 PM, roni <roni.epi...@gmail.com> wrote: > Even if H2o and ADA are dependent on 1.2.1 , it should be backword > compatible, right? > So using 1.3 should not break them. > And the code is not using the classes from those libs. > I tried sbt clean compile .. same errror > Thanks > _R > On Wed, Mar 25, 2015 at 9:26 AM, Nick Pentreath <nick.pentre...@gmail.com> > wrote: >> What version of Spark do the other dependencies rely on (Adam and H2O?) - >> that could be it >> >> Or try sbt clean compile >> >> — >> Sent from Mailbox <https://www.dropbox.com/mailbox> >> >> >> On Wed, Mar 25, 2015 at 5:58 PM, roni <roni.epi...@gmail.com> wrote: >> >>> I have a EC2 cluster created using spark version 1.2.1. >>> And I have a SBT project . >>> Now I want to upgrade to spark 1.3 and use the new features. >>> Below are issues . >>> Sorry for the long post. >>> Appreciate your help. >>> Thanks >>> -Roni >>> >>> Question - Do I have to create a new cluster using spark 1.3? >>> >>> Here is what I did - >>> >>> In my SBT file I changed to - >>> libraryDependencies += "org.apache.spark" %% "spark-core" % "1.3.0" >>> >>> But then I started getting compilation error. along with >>> Here are some of the libraries that were evicted: >>> [warn] * org.apache.spark:spark-core_2.10:1.2.0 -> 1.3.0 >>> [warn] * org.apache.hadoop:hadoop-client:(2.5.0-cdh5.2.0, 2.2.0) -> 2.6.0 >>> [warn] Run 'evicted' to see detailed eviction warnings >>> >>> constructor cannot be instantiated to expected type; >>> [error] found : (T1, T2) >>> [error] required: org.apache.spark.sql.catalyst.expressions.Row >>> [error] val ty = joinRDD.map{case(word, >>> (file1Counts, file2Counts)) => KmerIntesect(word, file1Counts,"xyz")} >>> [error] ^ >>> >>> Here is my SBT and code -- >>> SBT - >>> >>> version := "1.0" >>> >>> scalaVersion := "2.10.4" >>> >>> resolvers += "Sonatype OSS Snapshots" at " >>> https://oss.sonatype.org/content/repositories/snapshots";; >>> resolvers += "Maven Repo1" at "https://repo1.maven.org/maven2";; >>> resolvers += "Maven Repo" at " >>> https://s3.amazonaws.com/h2o-release/h2o-dev/master/1056/maven/repo/";; >>> >>> /* Dependencies - %% appends Scala version to artifactId */ >>> libraryDependencies += "org.apache.hadoop" % "hadoop-client" % "2.6.0" >>> libraryDependencies += "org.apache.spark" %% "spark-core" % "1.3.0" >>> libraryDependencies += "org.bdgenomics.adam" % "adam-core" % "0.16.0" >>> libraryDependencies += "ai.h2o" % "sparkling-water-core_2.10" % "0.2.10" >>> >>> >>> CODE -- >>> import org.apache.spark.{SparkConf, SparkContext} >>> case class KmerIntesect(kmer: String, kCount: Int, fileName: String) >>> >>> object preDefKmerIntersection { >>> def main(args: Array[String]) { >>> >>> val sparkConf = new SparkConf().setAppName("preDefKmer-intersect") >>> val sc = new SparkContext(sparkConf) >>> import sqlContext.createSchemaRDD >>> val sqlContext = new org.apache.spark.sql.SQLContext(sc) >>> val bedFile = sc.textFile("s3n://a/b/c",40) >>> val hgfasta = sc.textFile("hdfs://a/b/c",40) >>> val hgPair = hgfasta.map(_.split (",")).map(a=> (a(0), >>> a(1).trim().toInt)) >>> val filtered = hgPair.filter(kv => kv._2 == 1) >>> val bedPair = bedFile.map(_.split (",")).map(a=> (a(0), >>> a(1).trim().toInt)) >>> val joinRDD = bedPair.join(filtered) >>> val ty = joinRDD.map{case(word, (file1Counts, >>> file2Counts)) => KmerIntesect(word, file1Counts,"xyz")} >>> ty.registerTempTable("KmerIntesect") >>> ty.saveAsParquetFile("hdfs://x/y/z/kmerIntersect.parquet") >>> } >>> } >>> >>> >>
