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From "Hyukjin Kwon (JIRA)" <j...@apache.org>
Subject [jira] [Commented] (SPARK-22516) CSV Read breaks: When "multiLine" = "true", if "comment" option is set as last line's first character
Date Wed, 22 Nov 2017 14:54:00 GMT

    [ https://issues.apache.org/jira/browse/SPARK-22516?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=16262738#comment-16262738
] 

Hyukjin Kwon commented on SPARK-22516:
--------------------------------------

Sure. Please go ahead. Probably, you could refer the changes here - https://github.com/apache/spark/pull/19113/files.
I opened a PR bumping the version of Univocity library before in order to to resolve an issue
fixed in higher version of it. We probably also need a test case too likewise.

> CSV Read breaks: When "multiLine" = "true", if "comment" option is set as last line's
first character
> -----------------------------------------------------------------------------------------------------
>
>                 Key: SPARK-22516
>                 URL: https://issues.apache.org/jira/browse/SPARK-22516
>             Project: Spark
>          Issue Type: Bug
>          Components: Spark Core
>    Affects Versions: 2.2.0
>            Reporter: Kumaresh C R
>            Priority: Minor
>              Labels: csvparser
>         Attachments: testCommentChar.csv, test_file_without_eof_char.csv
>
>
> Try to read attached CSV file with following parse properties,
> scala> *val csvFile = spark.read.option("header","true").option("inferSchema", "true").option("parserLib",
"univocity").option("comment", "c").csv("hdfs://localhost:8020/test
> CommentChar.csv");   *                                                              
                                                                                         
> csvFile: org.apache.spark.sql.DataFrame = [a: string, b: string]                    
                                                                                        
>                                                                                     
                                                                                        
> scala> csvFile.show                                                              
                                                                                         
 
> +---+---+                                                                           
                                                                                        
> |  a|  b|                                                                           
                                                                                        
> +---+---+                                                                           
                                                                                        
> +---+---+   
> {color:#8eb021}*Noticed that it works fine.*{color}
> If we add an option "multiLine" = "true", it fails with below exception. This happens
only if we pass "comment" == input dataset's last line's first character
> scala> val csvFile = *spark.read.option("header","true").{color:red}{color:#d04437}option("multiLine","true"){color}{color}.option("inferSchema",
"true").option("parserLib", "univocity").option("comment", "c").csv("hdfs://localhost:8020/testCommentChar.csv");*
> 17/11/14 14:26:17 ERROR Executor: Exception in task 0.0 in stage 8.0 (TID 8)
> com.univocity.parsers.common.TextParsingException: java.lang.IllegalArgumentException
- Unable to skip 1 lines from line 2. End of input reached
> Parser Configuration: CsvParserSettings:
>         Auto configuration enabled=true
>         Autodetect column delimiter=false
>         Autodetect quotes=false
>         Column reordering enabled=true
>         Empty value=null
>         Escape unquoted values=false
>         Header extraction enabled=null
>         Headers=null
>         Ignore leading whitespaces=false
>         Ignore trailing whitespaces=false
>         Input buffer size=128
>         Input reading on separate thread=false
>         Keep escape sequences=false
>         Keep quotes=false
>         Length of content displayed on error=-1
>         Line separator detection enabled=false
>         Maximum number of characters per column=-1
>         Maximum number of columns=20480
>         Normalize escaped line separators=true
>         Null value=
>         Number of records to read=all
>         Processor=none
>         Restricting data in exceptions=false
>         RowProcessor error handler=null
>         Selected fields=none
>         Skip empty lines=true
>         Unescaped quote handling=STOP_AT_DELIMITERFormat configuration:
>         CsvFormat:
>                 Comment character=c
>                 Field delimiter=,
>                 Line separator (normalized)=\n
>                 Line separator sequence=\r\n
>                 Quote character="
>                 Quote escape character=\
>                 Quote escape escape character=null
> Internal state when error was thrown: line=3, column=0, record=1, charIndex=19
>         at com.univocity.parsers.common.AbstractParser.handleException(AbstractParser.java:339)
>         at com.univocity.parsers.common.AbstractParser.parseNext(AbstractParser.java:475)
>         at org.apache.spark.sql.execution.datasources.csv.UnivocityParser$$anon$1.next(UnivocityParser.scala:281)
>         at scala.collection.Iterator$$anon$12.next(Iterator.scala:444)
>         at scala.collection.Iterator$$anon$10.next(Iterator.scala:393)
>         at scala.collection.Iterator$class.foreach(Iterator.scala:893)
>         at scala.collection.AbstractIterator.foreach(Iterator.scala:1336)
>         at scala.collection.generic.Growable$class.$plus$plus$eq(Growable.scala:59)
>         at scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:104)
>         at scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:48)
>         at scala.collection.TraversableOnce$class.to(TraversableOnce.scala:310)
>         at scala.collection.AbstractIterator.to(Iterator.scala:1336)
>         at scala.collection.TraversableOnce$class.toBuffer(TraversableOnce.scala:302)
>         at scala.collection.AbstractIterator.toBuffer(Iterator.scala:1336)
>         at scala.collection.TraversableOnce$class.toArray(TraversableOnce.scala:289)
>         at scala.collection.AbstractIterator.toArray(Iterator.scala:1336)
>         at org.apache.spark.rdd.RDD$$anonfun$take$1$$anonfun$29.apply(RDD.scala:1354)
>         at org.apache.spark.rdd.RDD$$anonfun$take$1$$anonfun$29.apply(RDD.scala:1354)
>         at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:2062)
>         at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:2062)
>         at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
>         at org.apache.spark.scheduler.Task.run(Task.scala:108)
>         at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:335)
>         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:748)
> Caused by: java.lang.IllegalArgumentException: Unable to skip 1 lines from line 2. End
of input reached
>         at com.univocity.parsers.common.input.AbstractCharInputReader.skipLines(AbstractCharInputReader.java:262)
>         at com.univocity.parsers.common.AbstractParser.processComment(AbstractParser.java:96)
>         at com.univocity.parsers.common.AbstractParser.parseNext(AbstractParser.java:440)
>         ... 24 more
> 17/11/14 14:26:17 WARN TaskSetManager: Lost task 0.0 in stage 8.0 (TID 8, localhost,
executor driver): com.univocity.parsers.common.TextParsingException: java.lang.IllegalArgumentException
- Unable to skip 1 lines from line 2. End of input reached
> Parser Configuration: CsvParserSettings:
>         Auto configuration enabled=true
>         Autodetect column delimiter=false
>         Autodetect quotes=false
>         Column reordering enabled=true
>         Empty value=null
>         Escape unquoted values=false
>         Header extraction enabled=null
>         Headers=null
>         Ignore leading whitespaces=false
>         Ignore trailing whitespaces=false
>         Input buffer size=128
>         Input reading on separate thread=false
>         Keep escape sequences=false
>         Keep quotes=false
>         Length of content displayed on error=-1
>         Line separator detection enabled=false
>         Maximum number of characters per column=-1
>         Maximum number of columns=20480
>         Normalize escaped line separators=true
>         Null value=
>         Number of records to read=all
>         Processor=none
>         Restricting data in exceptions=false
>         RowProcessor error handler=null
>         Selected fields=none
>         Skip empty lines=true
>         Unescaped quote handling=STOP_AT_DELIMITERFormat configuration:
>         CsvFormat:
>                 Comment character=c
>                 Field delimiter=,
>                 Line separator (normalized)=\n
>                 Line separator sequence=\r\n
>                 Quote character="
>                 Quote escape character=\
>                 Quote escape escape character=null
> Internal state when error was thrown: line=3, column=0, record=1, charIndex=19
>         at com.univocity.parsers.common.AbstractParser.handleException(AbstractParser.java:339)
>         at com.univocity.parsers.common.AbstractParser.parseNext(AbstractParser.java:475)
>         at org.apache.spark.sql.execution.datasources.csv.UnivocityParser$$anon$1.next(UnivocityParser.scala:281)
>         at scala.collection.Iterator$$anon$12.next(Iterator.scala:444)
>         at scala.collection.Iterator$$anon$10.next(Iterator.scala:393)
>         at scala.collection.Iterator$class.foreach(Iterator.scala:893)
>         at scala.collection.AbstractIterator.foreach(Iterator.scala:1336)
>         at scala.collection.generic.Growable$class.$plus$plus$eq(Growable.scala:59)
>         at scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:104)
>         at scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:48)
>         at scala.collection.TraversableOnce$class.to(TraversableOnce.scala:310)
>         at scala.collection.AbstractIterator.to(Iterator.scala:1336)
>         at scala.collection.TraversableOnce$class.toBuffer(TraversableOnce.scala:302)
>         at scala.collection.AbstractIterator.toBuffer(Iterator.scala:1336)
>         at scala.collection.TraversableOnce$class.toArray(TraversableOnce.scala:289)
>         at scala.collection.AbstractIterator.toArray(Iterator.scala:1336)
>         at org.apache.spark.rdd.RDD$$anonfun$take$1$$anonfun$29.apply(RDD.scala:1354)
>         at org.apache.spark.rdd.RDD$$anonfun$take$1$$anonfun$29.apply(RDD.scala:1354)
>         at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:2062)
>         at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:2062)
>         at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
>         at org.apache.spark.scheduler.Task.run(Task.scala:108)
>         at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:335)
>         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:748)
> Caused by: java.lang.IllegalArgumentException: Unable to skip 1 lines from line 2. End
of input reached
>         at com.univocity.parsers.common.input.AbstractCharInputReader.skipLines(AbstractCharInputReader.java:262)
>         at com.univocity.parsers.common.AbstractParser.processComment(AbstractParser.java:96)
>         at com.univocity.parsers.common.AbstractParser.parseNext(AbstractParser.java:440)
>         ... 24 more
> 17/11/14 14:26:17 ERROR TaskSetManager: Task 0 in stage 8.0 failed 1 times; aborting
job
> org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 in stage 8.0
failed 1 times, most recent failure: Lost task 0.0 in stage 8.0 (TID 8, localhost, executor
driver): com.univocity.parsers.common.TextParsingException: java.lang.IllegalArgumentException
- Unable to skip 1 lines from line 2. End of input reached
> Parser Configuration: CsvParserSettings:
>         Auto configuration enabled=true
>         Autodetect column delimiter=false
>         Autodetect quotes=false
>         Column reordering enabled=true
>         Empty value=null
>         Escape unquoted values=false
>         Header extraction enabled=null
>         Headers=null
>         Ignore leading whitespaces=false
>         Ignore trailing whitespaces=false
>         Input buffer size=128
>         Input reading on separate thread=false
>         Keep escape sequences=false
>         Keep quotes=false
>         Length of content displayed on error=-1
>         Line separator detection enabled=false
>         Maximum number of characters per column=-1
>         Maximum number of columns=20480
>         Normalize escaped line separators=true
>         Null value=
>         Number of records to read=all
>         Processor=none
>         Restricting data in exceptions=false
>         RowProcessor error handler=null
>         Selected fields=none
>         Skip empty lines=true
>         Unescaped quote handling=STOP_AT_DELIMITERFormat configuration:
>         CsvFormat:
>                 Comment character=c
>                 Field delimiter=,
>                 Line separator (normalized)=\n
>                 Line separator sequence=\r\n
>                 Quote character="
>                 Quote escape character=\
>                 Quote escape escape character=null
> Internal state when error was thrown: line=3, column=0, record=1, charIndex=19
>         at com.univocity.parsers.common.AbstractParser.handleException(AbstractParser.java:339)
>         at com.univocity.parsers.common.AbstractParser.parseNext(AbstractParser.java:475)
>         at org.apache.spark.sql.execution.datasources.csv.UnivocityParser$$anon$1.next(UnivocityParser.scala:281)
>         at scala.collection.Iterator$$anon$12.next(Iterator.scala:444)
>         at scala.collection.Iterator$$anon$10.next(Iterator.scala:393)
>         at scala.collection.Iterator$class.foreach(Iterator.scala:893)
>         at scala.collection.AbstractIterator.foreach(Iterator.scala:1336)
>         at scala.collection.generic.Growable$class.$plus$plus$eq(Growable.scala:59)
>         at scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:104)
>         at scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:48)
>         at scala.collection.TraversableOnce$class.to(TraversableOnce.scala:310)
>         at scala.collection.AbstractIterator.to(Iterator.scala:1336)
>         at scala.collection.TraversableOnce$class.toBuffer(TraversableOnce.scala:302)
>         at scala.collection.AbstractIterator.toBuffer(Iterator.scala:1336)
>         at scala.collection.TraversableOnce$class.toArray(TraversableOnce.scala:289)
>         at scala.collection.AbstractIterator.toArray(Iterator.scala:1336)
>         at org.apache.spark.rdd.RDD$$anonfun$take$1$$anonfun$29.apply(RDD.scala:1354)
>         at org.apache.spark.rdd.RDD$$anonfun$take$1$$anonfun$29.apply(RDD.scala:1354)
>         at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:2062)
>         at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:2062)
>         at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
>         at org.apache.spark.scheduler.Task.run(Task.scala:108)
>         at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:335)
>         at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
>         at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
>         at java.lang.Thread.run(Thread.java:748)
> Caused by: java.lang.IllegalArgumentException: Unable to skip 1 lines from line 2. End
of input reached
>         at com.univocity.parsers.common.input.AbstractCharInputReader.skipLines(AbstractCharInputReader.java:262)
>         at com.univocity.parsers.common.AbstractParser.processComment(AbstractParser.java:96)
>         at com.univocity.parsers.common.AbstractParser.parseNext(AbstractParser.java:440)
>         ... 24 more
> Driver stacktrace:
>   at org.apache.spark.scheduler.DAGScheduler.org$apache$spark$scheduler$DAGScheduler$$failJobAndIndependentStages(DAGScheduler.scala:1499)
>   at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1487)
>   at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1486)
>   at scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59)
>   at scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:48)
>   at org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:1486)
>   at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:814)
>   at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:814)
>   at scala.Option.foreach(Option.scala:257)
>   at org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:814)
>   at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:1714)
>   at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1669)
>   at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1658)
>   at org.apache.spark.util.EventLoop$$anon$1.run(EventLoop.scala:48)
>   at org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:630)
>   at org.apache.spark.SparkContext.runJob(SparkContext.scala:2022)
>   at org.apache.spark.SparkContext.runJob(SparkContext.scala:2043)
>   at org.apache.spark.SparkContext.runJob(SparkContext.scala:2062)
>   at org.apache.spark.rdd.RDD$$anonfun$take$1.apply(RDD.scala:1354)
>   at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151)
>   at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:112)
>   at org.apache.spark.rdd.RDD.withScope(RDD.scala:362)
>   at org.apache.spark.rdd.RDD.take(RDD.scala:1327)
>   at org.apache.spark.sql.execution.datasources.csv.MultiLineCSVDataSource$.infer(CSVDataSource.scala:224)
>   at org.apache.spark.sql.execution.datasources.csv.CSVDataSource.inferSchema(CSVDataSource.scala:62)
>   at org.apache.spark.sql.execution.datasources.csv.CSVFileFormat.inferSchema(CSVFileFormat.scala:57)
>   at org.apache.spark.sql.execution.datasources.DataSource$$anonfun$7.apply(DataSource.scala:177)
>   at org.apache.spark.sql.execution.datasources.DataSource$$anonfun$7.apply(DataSource.scala:177)
>   at scala.Option.orElse(Option.scala:289)
>   at org.apache.spark.sql.execution.datasources.DataSource.getOrInferFileFormatSchema(DataSource.scala:176)
>   at org.apache.spark.sql.execution.datasources.DataSource.resolveRelation(DataSource.scala:366)
>   at org.apache.spark.sql.DataFrameReader.load(DataFrameReader.scala:178)
>   at org.apache.spark.sql.DataFrameReader.csv(DataFrameReader.scala:533)
>   at org.apache.spark.sql.DataFrameReader.csv(DataFrameReader.scala:412)
>   ... 48 elided
> Caused by: com.univocity.parsers.common.TextParsingException: java.lang.IllegalArgumentException
- Unable to skip 1 lines from line 2. End of input reached
> Parser Configuration: CsvParserSettings:
>         Auto configuration enabled=true
>         Autodetect column delimiter=false
>         Autodetect quotes=false
>         Column reordering enabled=true
>         Empty value=null
>         Escape unquoted values=false
>         Header extraction enabled=null
>         Headers=null
>         Ignore leading whitespaces=false
>         Ignore trailing whitespaces=false
>         Input buffer size=128
>         Input reading on separate thread=false
>         Keep escape sequences=false
>         Keep quotes=false
>         Length of content displayed on error=-1
>         Line separator detection enabled=false
>         Maximum number of characters per column=-1
>         Maximum number of columns=20480
>         Normalize escaped line separators=true
>         Null value=
>         Number of records to read=all
>         Processor=none
>         Restricting data in exceptions=false
>         RowProcessor error handler=null
>         Selected fields=none
>         Skip empty lines=true
>         Unescaped quote handling=STOP_AT_DELIMITERFormat configuration:
>         CsvFormat:
>                 Comment character=c
>                 Field delimiter=,
>                 Line separator (normalized)=\n
>                 Line separator sequence=\r\n
>                 Quote character="
>                 Quote escape character=\
>                 Quote escape escape character=null
> Internal state when error was thrown: line=3, column=0, record=1, charIndex=19
>   at com.univocity.parsers.common.AbstractParser.handleException(AbstractParser.java:339)
>   at com.univocity.parsers.common.AbstractParser.parseNext(AbstractParser.java:475)
>   at org.apache.spark.sql.execution.datasources.csv.UnivocityParser$$anon$1.next(UnivocityParser.scala:281)
>   at scala.collection.Iterator$$anon$12.next(Iterator.scala:444)
>   at scala.collection.Iterator$$anon$10.next(Iterator.scala:393)
>   at scala.collection.Iterator$class.foreach(Iterator.scala:893)
>   at scala.collection.AbstractIterator.foreach(Iterator.scala:1336)
>   at scala.collection.generic.Growable$class.$plus$plus$eq(Growable.scala:59)
>   at scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:104)
>   at scala.collection.mutable.ArrayBuffer.$plus$plus$eq(ArrayBuffer.scala:48)
>   at scala.collection.TraversableOnce$class.to(TraversableOnce.scala:310)
>   at scala.collection.AbstractIterator.to(Iterator.scala:1336)
>   at scala.collection.TraversableOnce$class.toBuffer(TraversableOnce.scala:302)
>   at scala.collection.AbstractIterator.toBuffer(Iterator.scala:1336)
>   at scala.collection.TraversableOnce$class.toArray(TraversableOnce.scala:289)
>   at scala.collection.AbstractIterator.toArray(Iterator.scala:1336)
>   at org.apache.spark.rdd.RDD$$anonfun$take$1$$anonfun$29.apply(RDD.scala:1354)
>   at org.apache.spark.rdd.RDD$$anonfun$take$1$$anonfun$29.apply(RDD.scala:1354)
>   at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:2062)
>   at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:2062)
>   at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
>   at org.apache.spark.scheduler.Task.run(Task.scala:108)
>   at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:335)
>   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:748)
> Caused by: java.lang.IllegalArgumentException: Unable to skip 1 lines from line 2. End
of input reached
>   at com.univocity.parsers.common.input.AbstractCharInputReader.skipLines(AbstractCharInputReader.java:262)
>   at com.univocity.parsers.common.AbstractParser.processComment(AbstractParser.java:96)
>   at com.univocity.parsers.common.AbstractParser.parseNext(AbstractParser.java:440)
>   ... 24 more
> scala>



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