Looks like you haven't installed the 'e1071' package. 2020년 6월 24일 (수) 오후 6:49, Anwar AliKhan <anwaralikhan...@gmail.com>님이 작성:
> ./dev/make-distribution.sh --name custom-spark --pip --r --tgz -Psparkr > -Phive -Phive-thriftserver -Pmesos -Pyarn -Pkubernetes > <http://www.backbutton.co.uk/> > > > minor error Spark r test failed , I don't use r so it doesn't effect me. > > ***installing help indices > ** building package indices > ** installing vignettes > ** testing if installed package can be loaded from temporary location > ** testing if installed package can be loaded from final location > ** testing if installed package keeps a record of temporary installation > path > * DONE (SparkR) > ++ cd /opt/spark/R/lib > ++ jar cfM /opt/spark/R/lib/sparkr.zip SparkR > ++ popd > ++ cd /opt/spark/R/.. > ++ pwd > + SPARK_HOME=/opt/spark > + . /opt/spark/bin/load-spark-env.sh > ++ '[' -z /opt/spark ']' > ++ SPARK_ENV_SH=spark-env.sh > ++ '[' -z '' ']' > ++ export SPARK_ENV_LOADED=1 > ++ SPARK_ENV_LOADED=1 > ++ export SPARK_CONF_DIR=/opt/spark/conf > ++ SPARK_CONF_DIR=/opt/spark/conf > ++ SPARK_ENV_SH=/opt/spark/conf/spark-env.sh > ++ [[ -f /opt/spark/conf/spark-env.sh ]] > ++ set -a > ++ . /opt/spark/conf/spark-env.sh > +++ export SPARK_LOCAL_IP=192.168.0.786 > +++ SPARK_LOCAL_IP=192.168.0.786 > ++ set +a > ++ export SPARK_SCALA_VERSION=2.12 > ++ SPARK_SCALA_VERSION=2.12 > + '[' -f /opt/spark/RELEASE ']' > + SPARK_JARS_DIR=/opt/spark/assembly/target/scala-2.12/jars > + '[' -d /opt/spark/assembly/target/scala-2.12/jars ']' > + SPARK_HOME=/opt/spark > + /usr/bin/R CMD build /opt/spark/R/pkg > * checking for file ‘/opt/spark/R/pkg/DESCRIPTION’ ... OK > * preparing ‘SparkR’: > * checking DESCRIPTION meta-information ... OK > * installing the package to build vignettes > * creating vignettes ... ERROR > --- re-building ‘sparkr-vignettes.Rmd’ using rmarkdown > > Attaching package: 'SparkR' > > The following objects are masked from 'package:stats': > > cov, filter, lag, na.omit, predict, sd, var, window > > The following objects are masked from 'package:base': > > as.data.frame, colnames, colnames<-, drop, endsWith, intersect, > rank, rbind, sample, startsWith, subset, summary, transform, union > > Picked up _JAVA_OPTIONS: -XX:-UsePerfData > Picked up _JAVA_OPTIONS: -XX:-UsePerfData > 20/06/24 10:23:54 WARN NativeCodeLoader: Unable to load native-hadoop > library for your platform... using builtin-java classes where applicable > Setting default log level to "WARN". > To adjust logging level use sc.setLogLevel(newLevel). For SparkR, use > setLogLevel(newLevel). > > [Stage 0:> (0 + > 1) / 1] > > > > > [Stage 9:=================================================> (88 + 1) > / 100] > > > > > [Stage 13:=======================================> (147 + 1) > / 200] > > > > 20/06/24 10:24:04 WARN Instrumentation: [79237008] regParam is zero, which > might cause numerical instability and overfitting. > 20/06/24 10:24:04 WARN BLAS: Failed to load implementation from: > com.github.fommil.netlib.NativeSystemBLAS > 20/06/24 10:24:04 WARN BLAS: Failed to load implementation from: > com.github.fommil.netlib.NativeRefBLAS > 20/06/24 10:24:04 WARN LAPACK: Failed to load implementation from: > com.github.fommil.netlib.NativeSystemLAPACK > 20/06/24 10:24:04 WARN LAPACK: Failed to load implementation from: > com.github.fommil.netlib.NativeRefLAPACK > 20/06/24 10:24:09 WARN package: Truncated the string representation of a > plan since it was too large. This behavior can be adjusted by setting > 'spark.sql.debug.maxToStringFields'. > > [Stage 67:============> (45 + 1) > / 200] > > [Stage 67:=================> (62 + 1) > / 200] > > [Stage 67:======================> (80 + 1) > / 200] > > [Stage 67:==========================> (98 + 1) > / 200] > > [Stage 67:==============================> (114 + 1) > / 200] > > [Stage 67:===================================> (132 + 1) > / 200] > > [Stage 67:=======================================> (148 + 1) > / 200] > > [Stage 67:============================================> (166 + 1) > / 200] > > [Stage 67:=================================================> (184 + 1) > / 200] > > > > > [Stage 69:============> (44 + 1) > / 200] > > [Stage 69:================> (61 + 1) > / 200] > > [Stage 69:=====================> (79 + 1) > / 200] > > [Stage 69:==========================> (97 + 1) > / 200] > > [Stage 69:===============================> (116 + 1) > / 200] > > [Stage 69:====================================> (134 + 1) > / 200] > > [Stage 69:=========================================> (152 + 1) > / 200] > > [Stage 69:=============================================> (169 + 1) > / 200] > > [Stage 69:==================================================> (187 + 1) > / 200] > > > > > [Stage 70:> (0 + > 1) / 5] > 20/06/24 10:24:14 ERROR Executor: Exception in task 0.0 in stage 70.0 (TID > 1148) > org.apache.spark.SparkException: R unexpectedly exited. > R worker produced errors: Error in FUN(X[[i]], ...) : > requireNamespace("e1071", quietly = TRUE) is not TRUE > > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator$$anonfun$1.applyOrElse(BaseRRunner.scala:144) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator$$anonfun$1.applyOrElse(BaseRRunner.scala:137) > at > scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:38) > at org.apache.spark.api.r.RRunner$$anon$1.read(RRunner.scala:128) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.hasNext(BaseRRunner.scala:113) > at scala.collection.Iterator.foreach(Iterator.scala:941) > at scala.collection.Iterator.foreach$(Iterator.scala:941) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.foreach(BaseRRunner.scala:102) > at > scala.collection.generic.Growable.$plus$plus$eq(Growable.scala:62) > at > scala.collection.generic.Growable.$plus$plus$eq$(Growable.scala:53) > at > scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:105) > at > scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:49) > at scala.collection.TraversableOnce.to > <http://scala.collection.traversableonce.to/>(TraversableOnce.scala:315) > at scala.collection.TraversableOnce.to > <http://scala.collection.traversableonce.to/>$(TraversableOnce.scala:313) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.to(BaseRRunner.scala:102) > at > scala.collection.TraversableOnce.toBuffer(TraversableOnce.scala:307) > at > scala.collection.TraversableOnce.toBuffer$(TraversableOnce.scala:307) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.toBuffer(BaseRRunner.scala:102) > at > scala.collection.TraversableOnce.toArray(TraversableOnce.scala:294) > at > scala.collection.TraversableOnce.toArray$(TraversableOnce.scala:288) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.toArray(BaseRRunner.scala:102) > at org.apache.spark.rdd.RDD.$anonfun$collect$2(RDD.scala:1030) > at > org.apache.spark.SparkContext.$anonfun$runJob$5(SparkContext.scala:2148) > at > org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:90) > at org.apache.spark.scheduler.Task.run(Task.scala:127) > at > org.apache.spark.executor.Executor$TaskRunner.$anonfun$run$3(Executor.scala:464) > at > org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1377) > at > org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:467) > at > java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) > at > java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) > at java.lang.Thread.run(Thread.java:748) > Caused by: java.io.EOFException > at java.io.DataInputStream.readInt(DataInputStream.java:392) > at org.apache.spark.api.r.RRunner$$anon$1.read(RRunner.scala:98) > ... 27 more > 20/06/24 10:24:14 WARN TaskSetManager: Lost task 0.0 in stage 70.0 (TID > 1148, 192.168.0.38, executor driver): org.apache.spark.SparkException: R > unexpectedly exited. > R worker produced errors: Error in FUN(X[[i]], ...) : > requireNamespace("e1071", quietly = TRUE) is not TRUE > > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator$$anonfun$1.applyOrElse(BaseRRunner.scala:144) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator$$anonfun$1.applyOrElse(BaseRRunner.scala:137) > at > scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:38) > at org.apache.spark.api.r.RRunner$$anon$1.read(RRunner.scala:128) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.hasNext(BaseRRunner.scala:113) > at scala.collection.Iterator.foreach(Iterator.scala:941) > at scala.collection.Iterator.foreach$(Iterator.scala:941) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.foreach(BaseRRunner.scala:102) > at > scala.collection.generic.Growable.$plus$plus$eq(Growable.scala:62) > at > scala.collection.generic.Growable.$plus$plus$eq$(Growable.scala:53) > at > scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:105) > at > scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:49) > at scala.collection.TraversableOnce.to > <http://scala.collection.traversableonce.to/>(TraversableOnce.scala:315) > at scala.collection.TraversableOnce.to > <http://scala.collection.traversableonce.to/>$(TraversableOnce.scala:313) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.to(BaseRRunner.scala:102) > at > scala.collection.TraversableOnce.toBuffer(TraversableOnce.scala:307) > at > scala.collection.TraversableOnce.toBuffer$(TraversableOnce.scala:307) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.toBuffer(BaseRRunner.scala:102) > at > scala.collection.TraversableOnce.toArray(TraversableOnce.scala:294) > at > scala.collection.TraversableOnce.toArray$(TraversableOnce.scala:288) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.toArray(BaseRRunner.scala:102) > at org.apache.spark.rdd.RDD.$anonfun$collect$2(RDD.scala:1030) > at > org.apache.spark.SparkContext.$anonfun$runJob$5(SparkContext.scala:2148) > at > org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:90) > at org.apache.spark.scheduler.Task.run(Task.scala:127) > at > org.apache.spark.executor.Executor$TaskRunner.$anonfun$run$3(Executor.scala:464) > at > org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1377) > at > org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:467) > at > java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) > at > java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) > at java.lang.Thread.run(Thread.java:748) > Caused by: java.io.EOFException > at java.io.DataInputStream.readInt(DataInputStream.java:392) > at org.apache.spark.api.r.RRunner$$anon$1.read(RRunner.scala:98) > ... 27 more > > 20/06/24 10:24:14 ERROR TaskSetManager: Task 0 in stage 70.0 failed 1 > times; aborting job > 20/06/24 10:24:14 ERROR RBackendHandler: collect on 358 failed > java.lang.reflect.InvocationTargetException > 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.api.r.RBackendHandler.handleMethodCall(RBackendHandler.scala:164) > at > org.apache.spark.api.r.RBackendHandler.channelRead0(RBackendHandler.scala:105) > at > org.apache.spark.api.r.RBackendHandler.channelRead0(RBackendHandler.scala:39) > at > io.netty.channel.SimpleChannelInboundHandler.channelRead(SimpleChannelInboundHandler.java:99) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:379) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:365) > at > io.netty.channel.AbstractChannelHandlerContext.fireChannelRead(AbstractChannelHandlerContext.java:357) > at > io.netty.handler.timeout.IdleStateHandler.channelRead(IdleStateHandler.java:286) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:379) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:365) > at > io.netty.channel.AbstractChannelHandlerContext.fireChannelRead(AbstractChannelHandlerContext.java:357) > at > io.netty.handler.codec.MessageToMessageDecoder.channelRead(MessageToMessageDecoder.java:102) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:379) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:365) > at > io.netty.channel.AbstractChannelHandlerContext.fireChannelRead(AbstractChannelHandlerContext.java:357) > at > io.netty.handler.codec.ByteToMessageDecoder.fireChannelRead(ByteToMessageDecoder.java:321) > at > io.netty.handler.codec.ByteToMessageDecoder.channelRead(ByteToMessageDecoder.java:295) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:379) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:365) > at > io.netty.channel.AbstractChannelHandlerContext.fireChannelRead(AbstractChannelHandlerContext.java:357) > at > io.netty.channel.DefaultChannelPipeline$HeadContext.channelRead(DefaultChannelPipeline.java:1410) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:379) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:365) > at > io.netty.channel.DefaultChannelPipeline.fireChannelRead(DefaultChannelPipeline.java:919) > at > io.netty.channel.nio.AbstractNioByteChannel$NioByteUnsafe.read(AbstractNioByteChannel.java:163) > at > io.netty.channel.nio.NioEventLoop.processSelectedKey(NioEventLoop.java:714) > at > io.netty.channel.nio.NioEventLoop.processSelectedKeysOptimized(NioEventLoop.java:650) > at > io.netty.channel.nio.NioEventLoop.processSelectedKeys(NioEventLoop.java:576) > at io.netty.channel.nio.NioEventLoop.run(NioEventLoop.java:493) > at > io.netty.util.concurrent.SingleThreadEventExecutor$4.run(SingleThreadEventExecutor.java:989) > at > io.netty.util.internal.ThreadExecutorMap$2.run(ThreadExecutorMap.java:74) > at > io.netty.util.concurrent.FastThreadLocalRunnable.run(FastThreadLocalRunnable.java:30) > at java.lang.Thread.run(Thread.java:748) > Caused by: org.apache.spark.SparkException: Job aborted due to stage > failure: Task 0 in stage 70.0 failed 1 times, most recent failure: Lost > task 0.0 in stage 70.0 (TID 1148, 192.168.0.38, executor driver): > org.apache.spark.SparkException: R unexpectedly exited. > R worker produced errors: Error in FUN(X[[i]], ...) : > requireNamespace("e1071", quietly = TRUE) is not TRUE > > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator$$anonfun$1.applyOrElse(BaseRRunner.scala:144) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator$$anonfun$1.applyOrElse(BaseRRunner.scala:137) > at > scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:38) > at org.apache.spark.api.r.RRunner$$anon$1.read(RRunner.scala:128) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.hasNext(BaseRRunner.scala:113) > at scala.collection.Iterator.foreach(Iterator.scala:941) > at scala.collection.Iterator.foreach$(Iterator.scala:941) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.foreach(BaseRRunner.scala:102) > at > scala.collection.generic.Growable.$plus$plus$eq(Growable.scala:62) > at > scala.collection.generic.Growable.$plus$plus$eq$(Growable.scala:53) > at > scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:105) > at > scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:49) > at scala.collection.TraversableOnce.to > <http://scala.collection.traversableonce.to/>(TraversableOnce.scala:315) > at scala.collection.TraversableOnce.to > <http://scala.collection.traversableonce.to/>$(TraversableOnce.scala:313) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.to(BaseRRunner.scala:102) > at > scala.collection.TraversableOnce.toBuffer(TraversableOnce.scala:307) > at > scala.collection.TraversableOnce.toBuffer$(TraversableOnce.scala:307) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.toBuffer(BaseRRunner.scala:102) > at > scala.collection.TraversableOnce.toArray(TraversableOnce.scala:294) > at > scala.collection.TraversableOnce.toArray$(TraversableOnce.scala:288) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.toArray(BaseRRunner.scala:102) > at org.apache.spark.rdd.RDD.$anonfun$collect$2(RDD.scala:1030) > at > org.apache.spark.SparkContext.$anonfun$runJob$5(SparkContext.scala:2148) > at > org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:90) > at org.apache.spark.scheduler.Task.run(Task.scala:127) > at > org.apache.spark.executor.Executor$TaskRunner.$anonfun$run$3(Executor.scala:464) > at > org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1377) > at > org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:467) > at > java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) > at > java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) > at java.lang.Thread.run(Thread.java:748) > Caused by: java.io.EOFException > at java.io.DataInputStream.readInt(DataInputStream.java:392) > at org.apache.spark.api.r.RRunner$$anon$1.read(RRunner.scala:98) > ... 27 more > > Driver stacktrace: > at > org.apache.spark.scheduler.DAGScheduler.failJobAndIndependentStages(DAGScheduler.scala:2117) > at > org.apache.spark.scheduler.DAGScheduler.$anonfun$abortStage$2(DAGScheduler.scala:2066) > at > org.apache.spark.scheduler.DAGScheduler.$anonfun$abortStage$2$adapted(DAGScheduler.scala:2065) > at > scala.collection.mutable.ResizableArray.foreach(ResizableArray.scala:62) > at > scala.collection.mutable.ResizableArray.foreach$(ResizableArray.scala:55) > at > scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:49) > at > org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:2065) > at > org.apache.spark.scheduler.DAGScheduler.$anonfun$handleTaskSetFailed$1(DAGScheduler.scala:1021) > at > org.apache.spark.scheduler.DAGScheduler.$anonfun$handleTaskSetFailed$1$adapted(DAGScheduler.scala:1021) > at scala.Option.foreach(Option.scala:407) > at > org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:1021) > at > org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:2297) > at > org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:2246) > at > org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:2235) > at org.apache.spark.util.EventLoop$$anon$1.run(EventLoop.scala:49) > at > org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:823) > at org.apache.spark.SparkContext.runJob(SparkContext.scala:2108) > at org.apache.spark.SparkContext.runJob(SparkContext.scala:2129) > at org.apache.spark.SparkContext.runJob(SparkContext.scala:2148) > at org.apache.spark.SparkContext.runJob(SparkContext.scala:2173) > at org.apache.spark.rdd.RDD.$anonfun$collect$1(RDD.scala:1030) > at > org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151) > at > org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:112) > at org.apache.spark.rdd.RDD.withScope(RDD.scala:414) > at org.apache.spark.rdd.RDD.collect(RDD.scala:1029) > at > org.apache.spark.api.java.JavaRDDLike.collect(JavaRDDLike.scala:361) > at > org.apache.spark.api.java.JavaRDDLike.collect$(JavaRDDLike.scala:360) > at > org.apache.spark.api.java.AbstractJavaRDDLike.collect(JavaRDDLike.scala:45) > ... 37 more > Caused by: org.apache.spark.SparkException: R unexpectedly exited. > R worker produced errors: Error in FUN(X[[i]], ...) : > requireNamespace("e1071", quietly = TRUE) is not TRUE > > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator$$anonfun$1.applyOrElse(BaseRRunner.scala:144) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator$$anonfun$1.applyOrElse(BaseRRunner.scala:137) > at > scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:38) > at org.apache.spark.api.r.RRunner$$anon$1.read(RRunner.scala:128) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.hasNext(BaseRRunner.scala:113) > at scala.collection.Iterator.foreach(Iterator.scala:941) > at scala.collection.Iterator.foreach$(Iterator.scala:941) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.foreach(BaseRRunner.scala:102) > at > scala.collection.generic.Growable.$plus$plus$eq(Growable.scala:62) > at > scala.collection.generic.Growable.$plus$plus$eq$(Growable.scala:53) > at > scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:105) > at > scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:49) > at scala.collection.TraversableOnce.to > <http://scala.collection.traversableonce.to/>(TraversableOnce.scala:315) > at scala.collection.TraversableOnce.to > <http://scala.collection.traversableonce.to/>$(TraversableOnce.scala:313) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.to(BaseRRunner.scala:102) > at > scala.collection.TraversableOnce.toBuffer(TraversableOnce.scala:307) > at > scala.collection.TraversableOnce.toBuffer$(TraversableOnce.scala:307) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.toBuffer(BaseRRunner.scala:102) > at > scala.collection.TraversableOnce.toArray(TraversableOnce.scala:294) > at > scala.collection.TraversableOnce.toArray$(TraversableOnce.scala:288) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.toArray(BaseRRunner.scala:102) > at org.apache.spark.rdd.RDD.$anonfun$collect$2(RDD.scala:1030) > at > org.apache.spark.SparkContext.$anonfun$runJob$5(SparkContext.scala:2148) > at > org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:90) > at org.apache.spark.scheduler.Task.run(Task.scala:127) > at > org.apache.spark.executor.Executor$TaskRunner.$anonfun$run$3(Executor.scala:464) > at > org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1377) > at > org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:467) > at > java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) > at > java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) > ... 1 more > Caused by: java.io.EOFException > at java.io.DataInputStream.readInt(DataInputStream.java:392) > at org.apache.spark.api.r.RRunner$$anon$1.read(RRunner.scala:98) > ... 27 more > 20/06/24 10:24:14 ERROR RRunner: R Writer thread got an exception > org.apache.spark.TaskKilledException > at > org.apache.spark.TaskContextImpl.killTaskIfInterrupted(TaskContextImpl.scala:156) > at > org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:36) > at > org.apache.spark.api.r.BaseRRunner$WriterThread.run(BaseRRunner.scala:197) > Quitting from lines 470-471 (sparkr-vignettes.Rmd) > Error: processing vignette 'sparkr-vignettes.Rmd' failed with diagnostics: > org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 > in stage 70.0 failed 1 times, most recent failure: Lost task 0.0 in stage > 70.0 (TID 1148, 192.168.0.38, executor driver): > org.apache.spark.SparkException: R unexpectedly exited. > R worker produced errors: Error in FUN(X[[i]], ...) : > requireNamespace("e1071", quietly = TRUE) is not TRUE > > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator$$anonfun$1.applyOrElse(BaseRRunner.scala:144) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator$$anonfun$1.applyOrElse(BaseRRunner.scala:137) > at > scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:38) > at org.apache.spark.api.r.RRunner$$anon$1.read(RRunner.scala:128) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.hasNext(BaseRRunner.scala:113) > at scala.collection.Iterator.foreach(Iterator.scala:941) > at scala.collection.Iterator.foreach$(Iterator.scala:941) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.foreach(BaseRRunner.scala:102) > at > scala.collection.generic.Growable.$plus$plus$eq(Growable.scala:62) > at > scala.collection.generic.Growable.$plus$plus$eq$(Growable.scala:53) > at > scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:105) > at > scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:49) > at scala.collection.TraversableOnce.to > <http://scala.collection.traversableonce.to/>(TraversableOnce.scala:315) > at scala.collection.TraversableOnce.to > <http://scala.collection.traversableonce.to/>$(TraversableOnce.scala:313) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.to(BaseRRunner.scala:102) > at > scala.collection.TraversableOnce.toBuffer(TraversableOnce.scala:307) > at > scala.collection.TraversableOnce.toBuffer$(TraversableOnce.scala:307) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.toBuffer(BaseRRunner.scala:102) > at > scala.collection.TraversableOnce.toArray(TraversableOnce.scala:294) > at > scala.collection.TraversableOnce.toArray$(TraversableOnce.scala:288) > at > org.apache.spark.api.r.BaseRRunner$ReaderIterator.toArray(BaseRRunner.scala:102) > at org.apache.spark.rdd.RDD.$anonfun$collect$2(RDD.scala:1030) > at > org.apache.spark.SparkContext.$anonfun$runJob$5(SparkContext.scala:2148) > at > org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:90) > at org.apache.spark.scheduler.Task.run(Task.scala:127) > at > org.apache.spark.executor.Executor$TaskRunner.$anonfun$run$3(Executor.scala:464) > at > org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1377) > at > org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:467) > at > java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) > at > java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) > at java.lang.Thread.run(Thread.java:748) > Caused by: java.io.EOFException > at java.io.DataInputStream.readInt(DataInputStream.java:392) > at org.apache.spark.api.r.RRunner$$anon$1.read(RRunner.scala:98) > ... 27 more > > Driver stacktrace: > at > org.apache.spark.scheduler.DAGScheduler.failJobAndIndependentStages(DAGScheduler.scala:2117) > at > org.apache.spark.scheduler.DAGScheduler.$anonfun$abortStage$2(DAGScheduler.scala:2066) > at > org.apache.spark.scheduler.DAGScheduler.$anonfun$abortStage$2$adapted(DAGScheduler.scala:2065) > at > scala.collection.mutable.ResizableArray.foreach(ResizableArray.scala:62) > at > scala.collection.mutable.ResizableArray.foreach$(ResizableArray.scala:55) > at > scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:49) > at > org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:2065) > at > org.apache.spark.scheduler.DAGScheduler.$anonfun$handleTaskSetFailed$1(DAGScheduler.scala:1021) > at > org.apache.spark.scheduler.DAGScheduler.$anonfun$handleTaskSetFailed$1$adapted(DAGScheduler.scala:1021) > at scala.Option.foreach(Option.scala:407) > at > org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:1021) > at > org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:2297) > at > org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:2246) > at > org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:2235) > at org.apache.spark.util.EventLoop$$anon$1.run(EventLoop.scala:49) > at > org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:823) > at org.apache.spark.SparkContext.runJob(SparkContext.scala:2108) > at org.apache.spark.SparkContext.runJob(SparkContext.scala:2129) > at org.apache.spark.SparkContext.runJob(SparkContext.scala:2148) > at org.apache.spark.SparkContext.runJob(SparkContext.scala:2173) > at org.apache.spark.rdd.RDD.$anonfun$collect$1(RDD.scala:1030) > at > org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151) > at > org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:112) > at org.apache.spark.rdd.RDD.withScope(RDD.scala:414) > at org.apache.spark.rdd.RDD.collect(RDD.scala:1029) > at > org.apache.spark.api.java.JavaRDDLike.collect(JavaRDDLike.scala:361) > at > org.apache.spark.api.java.JavaRDDLike.collect$(JavaRDDLike.scala:360) > at > org.apache.spark.api.java.AbstractJavaRDDLike.collect(JavaRDDLike.scala:45) > 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.api.r.RBackendHandler.handleMethodCall(RBackendHandler.scala:164) > at > org.apache.spark.api.r.RBackendHandler.channelRead0(RBackendHandler.scala:105) > at > org.apache.spark.api.r.RBackendHandler.channelRead0(RBackendHandler.scala:39) > at > io.netty.channel.SimpleChannelInboundHandler.channelRead(SimpleChannelInboundHandler.java:99) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:379) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:365) > at > io.netty.channel.AbstractChannelHandlerContext.fireChannelRead(AbstractChannelHandlerContext.java:357) > at > io.netty.handler.timeout.IdleStateHandler.channelRead(IdleStateHandler.java:286) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:379) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:365) > at > io.netty.channel.AbstractChannelHandlerContext.fireChannelRead(AbstractChannelHandlerContext.java:357) > at > io.netty.handler.codec.MessageToMessageDecoder.channelRead(MessageToMessageDecoder.java:102) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:379) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:365) > at > io.netty.channel.AbstractChannelHandlerContext.fireChannelRead(AbstractChannelHandlerContext.java:357) > at > io.netty.handler.codec.ByteToMessageDecoder.fireChannelRead(ByteToMessageDecoder.java:321) > at > io.netty.handler.codec.ByteToMessageDecoder.channelRead(ByteToMessageDecoder.java:295) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:379) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:365) > at > io.netty.channel.AbstractChannelHandlerContext.fireChannelRead(AbstractChannelHandlerContext.java:357) > at > io.netty.channel.DefaultChannelPipeline$HeadContext.channelRead(DefaultChannelPipeline.java:1410) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:379) > at > io.netty.channel.AbstractChannelHandlerContext.invokeChannelRead(AbstractChannelHandlerContext.java:365) > at > io.netty.channel.DefaultChannelPipeline.fireChannelRead(DefaultChannelPipeline.java:919) > at > io.netty.channel.nio.AbstractNioByteChannel$NioByteUnsafe.read(AbstractNioByteChannel.java:163) > at > io.netty.channel.nio.NioEventLoop.processSelectedKey(NioEventLoop.java:714) > at > io.netty.channel.nio.NioEventLoop.processSelectedKeysOptimized(NioEventLoop.java:650) > at > io.netty.channel.nio.NioEventLoop.processSelectedKeys(NioEventLoop.java:576) > at io.netty.channel.nio.NioEventLoop.run(NioEventLo > --- failed re-building ‘sparkr-vignettes.Rmd’ > > SUMMARY: processing the following file failed: > ‘sparkr-vignettes.Rmd’ > > Error: Vignette re-building failed. > Execution halted > 20/06/24 10:24:15 WARN TaskSetManager: Lost task 1.0 in stage 70.0 (TID > 1149, 192.168.0.38, executor driver): TaskKilled (Stage cancelled) > > <http://www.backbutton.co.uk/> > >
