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https://issues.apache.org/jira/browse/SPARK-4520?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel
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Michael Armbrust updated SPARK-4520:
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Affects Version/s: 1.2.0
> SparkSQL exception when reading certain columns from a parquet file
> -------------------------------------------------------------------
>
> Key: SPARK-4520
> URL: https://issues.apache.org/jira/browse/SPARK-4520
> Project: Spark
> Issue Type: Bug
> Components: SQL
> Affects Versions: 1.2.0
> Reporter: sadhan sood
> Attachments: part-r-00000.parquet
>
>
> I am seeing this issue with spark sql throwing an exception when trying to
> read selective columns from a thrift parquet file and also when caching them.
> On some further digging, I was able to narrow it down to at-least one
> particular column type: map<string, set<string>> to be causing this issue. To
> reproduce this I created a test thrift file with a very basic schema and
> stored some sample data in a parquet file:
> Test.thrift
> ===========
> typedef binary SomeId
> enum SomeExclusionCause {
> WHITELIST = 1,
> HAS_PURCHASE = 2,
> }
> struct SampleThriftObject {
> 10: string col_a;
> 20: string col_b;
> 30: string col_c;
> 40: optional map<SomeExclusionCause, set<SomeId>> col_d;
> }
> =============
> And loading the data in spark through schemaRDD:
> import org.apache.spark.sql.SchemaRDD
> val sqlContext = new org.apache.spark.sql.SQLContext(sc);
> val parquetFile = "/path/to/generated/parquet/file"
> val parquetFileRDD = sqlContext.parquetFile(parquetFile)
> parquetFileRDD.printSchema
> root
> |-- col_a: string (nullable = true)
> |-- col_b: string (nullable = true)
> |-- col_c: string (nullable = true)
> |-- col_d: map (nullable = true)
> | |-- key: string
> | |-- value: array (valueContainsNull = true)
> | | |-- element: string (containsNull = false)
> parquetFileRDD.registerTempTable("test")
> sqlContext.cacheTable("test")
> sqlContext.sql("select col_a from test").collect() <-- see the exception
> stack here
> org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 in
> stage 0.0 failed 1 times, most recent failure: Lost task 0.0 in stage 0.0
> (TID 0, localhost): parquet.io.ParquetDecodingException: Can not read value
> at 0 in block -1 in file file:/tmp/xyz/part-r-00000.parquet
> at
> parquet.hadoop.InternalParquetRecordReader.nextKeyValue(InternalParquetRecordReader.java:213)
> at
> parquet.hadoop.ParquetRecordReader.nextKeyValue(ParquetRecordReader.java:204)
> at
> org.apache.spark.rdd.NewHadoopRDD$$anon$1.hasNext(NewHadoopRDD.scala:145)
> at
> org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:39)
> at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:327)
> at scala.collection.Iterator$$anon$14.hasNext(Iterator.scala:388)
> at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:327)
> at scala.collection.Iterator$class.foreach(Iterator.scala:727)
> at scala.collection.AbstractIterator.foreach(Iterator.scala:1157)
> at
> scala.collection.generic.Growable$class.$plus$plus$eq(Growable.scala:48)
> at
> scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:103)
> at
> scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:47)
> at scala.collection.TraversableOnce$class.to(TraversableOnce.scala:273)
> at scala.collection.AbstractIterator.to(Iterator.scala:1157)
> at
> scala.collection.TraversableOnce$class.toBuffer(TraversableOnce.scala:265)
> at scala.collection.AbstractIterator.toBuffer(Iterator.scala:1157)
> at
> scala.collection.TraversableOnce$class.toArray(TraversableOnce.scala:252)
> at scala.collection.AbstractIterator.toArray(Iterator.scala:1157)
> at org.apache.spark.rdd.RDD$$anonfun$16.apply(RDD.scala:780)
> at org.apache.spark.rdd.RDD$$anonfun$16.apply(RDD.scala:780)
> at
> org.apache.spark.SparkContext$$anonfun$runJob$3.apply(SparkContext.scala:1223)
> at
> org.apache.spark.SparkContext$$anonfun$runJob$3.apply(SparkContext.scala:1223)
> at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:61)
> at org.apache.spark.scheduler.Task.run(Task.scala:56)
> at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:195)
> at
> java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
> at
> java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
> at java.lang.Thread.run(Thread.java:745)
> Caused by: java.lang.ArrayIndexOutOfBoundsException: -1
> at java.util.ArrayList.elementData(ArrayList.java:418)
> at java.util.ArrayList.get(ArrayList.java:431)
> at parquet.io.GroupColumnIO.getLast(GroupColumnIO.java:95)
> at parquet.io.GroupColumnIO.getLast(GroupColumnIO.java:95)
> at parquet.io.PrimitiveColumnIO.getLast(PrimitiveColumnIO.java:80)
> at parquet.io.PrimitiveColumnIO.isLast(PrimitiveColumnIO.java:74)
> at
> parquet.io.RecordReaderImplementation.<init>(RecordReaderImplementation.java:282)
> at parquet.io.MessageColumnIO$1.visit(MessageColumnIO.java:131)
> at parquet.io.MessageColumnIO$1.visit(MessageColumnIO.java:96)
> at
> parquet.filter2.compat.FilterCompat$NoOpFilter.accept(FilterCompat.java:136)
> at parquet.io.MessageColumnIO.getRecordReader(MessageColumnIO.java:96)
> at
> parquet.hadoop.InternalParquetRecordReader.checkRead(InternalParquetRecordReader.java:126)
> at
> parquet.hadoop.InternalParquetRecordReader.nextKeyValue(InternalParquetRecordReader.java:193)
> ... 27 more
> If you take out the col_d from the thrift file, the problem goes away. The
> problem also shows up when trying to read the particular column without
> caching the table first. The same file can be dumped/read using parquet-tools
> just fine. Here is the file dump using parquet-tools:
> row group 0
> --------------------------------------------------------------------------------
> col_a: BINARY UNCOMPRESSED DO:0 FPO:4 SZ:89/89/1.00 VC:9 ENC
> [more]...
> col_b: BINARY UNCOMPRESSED DO:0 FPO:93 SZ:89/89/1.00 VC:9 EN
> [more]...
> col_c: BINARY UNCOMPRESSED DO:0 FPO:182 SZ:89/89/1.00 VC:9 E
> [more]...
> col_d:
> .map:
> ..key: BINARY UNCOMPRESSED DO:0 FPO:271 SZ:29/29/1.00 VC:9 E
> [more]...
> ..value:
> ...value_tuple: BINARY UNCOMPRESSED DO:0 FPO:300 SZ:29/29/1.00 VC:9 E
> [more]...
> col_a TV=9 RL=0 DL=1
>
> ----------------------------------------------------------------------------
> page 0: DLE:RLE RLE:BIT_PACKED VLE:PLAIN SZ:60 VC:9
> col_b TV=9 RL=0 DL=1
>
> ----------------------------------------------------------------------------
> page 0: DLE:RLE RLE:BIT_PACKED VLE:PLAIN SZ:60 VC:9
> col_c TV=9 RL=0 DL=1
>
> ----------------------------------------------------------------------------
> page 0: DLE:RLE RLE:BIT_PACKED VLE:PLAIN SZ:60 VC:9
> col_d.map.key TV=9 RL=1 DL=2
>
> ----------------------------------------------------------------------------
> page 0: DLE:RLE RLE:RLE VLE:PLAIN SZ:12 VC:9
> col_d.map.value.value_tuple TV=9 RL=2 DL=4
>
> ----------------------------------------------------------------------------
> page 0: DLE:RLE RLE:RLE VLE:PLAIN SZ:12 VC:9
> BINARY col_a
> --------------------------------------------------------------------------------
> *** row group 1 of 1, values 1 to 9 ***
> value 1: R:1 D:1 V:a1
> value 2: R:1 D:1 V:a2
> value 3: R:1 D:1 V:a3
> value 4: R:1 D:1 V:a4
> value 5: R:1 D:1 V:a5
> value 6: R:1 D:1 V:a6
> value 7: R:1 D:1 V:a7
> value 8: R:1 D:1 V:a8
> value 9: R:1 D:1 V:a9
> BINARY col_b
> --------------------------------------------------------------------------------
> *** row group 1 of 1, values 1 to 9 ***
> value 1: R:1 D:1 V:b1
> value 2: R:1 D:1 V:b2
> value 3: R:1 D:1 V:b3
> value 4: R:1 D:1 V:b4
> value 5: R:1 D:1 V:b5
> value 6: R:1 D:1 V:b6
> value 7: R:1 D:1 V:b7
> value 8: R:1 D:1 V:b8
> value 9: R:1 D:1 V:b9
> BINARY col_c
> --------------------------------------------------------------------------------
> *** row group 1 of 1, values 1 to 9 ***
> value 1: R:1 D:1 V:c1
> value 2: R:1 D:1 V:c2
> value 3: R:1 D:1 V:c3
> value 4: R:1 D:1 V:c4
> value 5: R:1 D:1 V:c5
> value 6: R:1 D:1 V:c6
> value 7: R:1 D:1 V:c7
> value 8: R:1 D:1 V:c8
> value 9: R:1 D:1 V:c9
> BINARY col_d.map.key
> --------------------------------------------------------------------------------
> *** row group 1 of 1, values 1 to 9 ***
> value 1: R:0 D:0 V:<null>
> value 2: R:0 D:0 V:<null>
> value 3: R:0 D:0 V:<null>
> value 4: R:0 D:0 V:<null>
> value 5: R:0 D:0 V:<null>
> value 6: R:0 D:0 V:<null>
> value 7: R:0 D:0 V:<null>
> value 8: R:0 D:0 V:<null>
> value 9: R:0 D:0 V:<null>
> BINARY col_d.map.value.value_tuple
> --------------------------------------------------------------------------------
> *** row group 1 of 1, values 1 to 9 ***
> value 1: R:0 D:0 V:<null>
> value 2: R:0 D:0 V:<null>
> value 3: R:0 D:0 V:<null>
> value 4: R:0 D:0 V:<null>
> value 5: R:0 D:0 V:<null>
> value 6: R:0 D:0 V:<null>
> value 7: R:0 D:0 V:<null>
> value 8: R:0 D:0 V:<null>
> value 9: R:0 D:0 V:<null>
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