I had the exact same issue, and overcame it by overriding
NativeS3FileSystem with my own class, where I replaced the implementation
of globStatus. It's a hack but it works.
Then I set the hadoop config fs.myschema.impl to my class name, and
accessed the files through myschema:// instead of s3n://
@Override
public FileStatus[] globStatus(final Path pathPattern, final PathFilter filter)
throws IOException {
final FileStatus[] statusList = super.listStatus(pathPattern);
final List<FileStatus> result = Lists.newLinkedList();
for (FileStatus fileStatus : statusList) {
if (filter.accept(fileStatus.getPath())) {
result.add(fileStatus);
}
}
return result.toArray(new FileStatus[] {});
}
On Wed, Aug 19, 2015 at 9:14 PM Steve Loughran <ste...@hortonworks.com>
wrote:
> you might want to think about filing a JIRA on issues.apache.org against
> HADOOP here, component being fs/s3. That doesn't mean it is fixable, only
> known.
>
> Every FS has its own set of forbidden characters & filenames; unix doesn't
> files named "."; windows doesn't allow files called COM1, ..., so hitting
> some filesystem rule is sometimes a problem. Here, though, you've got the
> file in S3, the listing finds it, but other bits of the codepath are
> failing -which implies that it is something in the Hadoop libs.
>
>
> > On 18 Aug 2015, at 08:20, Brian Stempin <brian.stem...@gmail.com> wrote:
> >
> > Hi,
> > I'm running Spark on Amazon EMR (Spark 1.4.1, Hadoop 2.6.0). I'm seeing
> the
> > exception below when encountering file names that contain colons. Any
> idea
> > on how to get around this?
> >
> > scala> val files = sc.textFile("s3a://redactedbucketname/*")
> >
> > 2015-08-18 04:38:34,567 INFO [main] storage.MemoryStore
> > (Logging.scala:logInfo(59)) - ensureFreeSpace(242224) called with
> > curMem=669367, maxMem=285203496
> >
> > 2015-08-18 04:38:34,568 INFO [main] storage.MemoryStore
> > (Logging.scala:logInfo(59)) - Block broadcast_3 stored as values in
> memory
> > (estimated size 236.5 KB, free 271.1 MB)
> >
> > 2015-08-18 04:38:34,663 INFO [main] storage.MemoryStore
> > (Logging.scala:logInfo(59)) - ensureFreeSpace(21533) called with
> > curMem=911591, maxMem=285203496
> >
> > 2015-08-18 04:38:34,664 INFO [main] storage.MemoryStore
> > (Logging.scala:logInfo(59)) - Block broadcast_3_piece0 stored as bytes in
> > memory (estimated size 21.0 KB, free 271.1 MB)
> >
> > 2015-08-18 04:38:34,665 INFO
> [sparkDriver-akka.actor.default-dispatcher-19]
> > storage.BlockManagerInfo (Logging.scala:logInfo(59)) - Added
> > broadcast_3_piece0 in memory on 10.182.184.26:60338 (size: 21.0 KB,
> free:
> > 271.9 MB)
> >
> > 2015-08-18 04:38:34,667 INFO [main] spark.SparkContext
> > (Logging.scala:logInfo(59)) - Created broadcast 3 from textFile at
> > <console>:21
> >
> > files: org.apache.spark.rdd.RDD[String] = MapPartitionsRDD[7] at
> textFile at
> > <console>:21
> >
> >
> > scala> files.count
> >
> > 2015-08-18 04:38:37,262 INFO [main] s3a.S3AFileSystem
> > (S3AFileSystem.java:listStatus(533)) - List status for path:
> > s3a://redactedbucketname/
> >
> > 2015-08-18 04:38:37,262 INFO [main] s3a.S3AFileSystem
> > (S3AFileSystem.java:getFileStatus(684)) - Getting path status for
> > s3a://redactedbucketname/ ()
> >
> > java.lang.IllegalArgumentException: java.net.URISyntaxException: Relative
> > path in absolute URI:
> >
> [922-212-4438]-[119]-[1]-[2015-08-13T15:43:12.346193%5D-%5B2015-01-01T00:00:00%5D-redacted.csv
> >
> > at org.apache.hadoop.fs.Path.initialize(Path.java:206)
> >
> > at org.apache.hadoop.fs.Path.<init>(Path.java:172)
> >
> > at org.apache.hadoop.fs.Path.<init>(Path.java:94)
> >
> > at org.apache.hadoop.fs.Globber.glob(Globber.java:240)
> >
> > at org.apache.hadoop.fs.FileSystem.globStatus(FileSystem.java:1700)
> >
> > at
> >
> org.apache.hadoop.mapred.FileInputFormat.singleThreadedListStatus(FileInputFormat.java:229)
> >
> > at
> >
> org.apache.hadoop.mapred.FileInputFormat.listStatus(FileInputFormat.java:200)
> >
> > at
> >
> org.apache.hadoop.mapred.FileInputFormat.getSplits(FileInputFormat.java:279)
> >
> > at org.apache.spark.rdd.HadoopRDD.getPartitions(HadoopRDD.scala:207)
> >
> > at org.apache.spark.rdd.RDD$anonfun$partitions$2.apply(RDD.scala:219)
> >
> > at org.apache.spark.rdd.RDD$anonfun$partitions$2.apply(RDD.scala:217)
> >
> > at scala.Option.getOrElse(Option.scala:120)
> >
> > at org.apache.spark.rdd.RDD.partitions(RDD.scala:217)
> >
> > at
> >
> org.apache.spark.rdd.MapPartitionsRDD.getPartitions(MapPartitionsRDD.scala:32)
> >
> > at org.apache.spark.rdd.RDD$anonfun$partitions$2.apply(RDD.scala:219)
> >
> > at org.apache.spark.rdd.RDD$anonfun$partitions$2.apply(RDD.scala:217)
> >
> > at scala.Option.getOrElse(Option.scala:120)
> >
> > at org.apache.spark.rdd.RDD.partitions(RDD.scala:217)
> >
> > at org.apache.spark.SparkContext.runJob(SparkContext.scala:1781)
> >
> > at org.apache.spark.rdd.RDD.count(RDD.scala:1099)
> >
> > at $iwC$iwC$iwC$iwC$iwC$iwC$iwC$iwC.<init>(<console>:24)
> >
> > at $iwC$iwC$iwC$iwC$iwC$iwC$iwC.<init>(<console>:29)
> >
> > at $iwC$iwC$iwC$iwC$iwC$iwC.<init>(<console>:31)
> >
> > at $iwC$iwC$iwC$iwC$iwC.<init>(<console>:33)
> >
> > at $iwC$iwC$iwC$iwC.<init>(<console>:35)
> >
> > at $iwC$iwC$iwC.<init>(<console>:37)
> >
> > at $iwC$iwC.<init>(<console>:39)
> >
> > at $iwC.<init>(<console>:41)
> >
> > at <init>(<console>:43)
> >
> > at .<init>(<console>:47)
> >
> > at .<clinit>(<console>)
> >
> > at .<init>(<console>:7)
> >
> > at .<clinit>(<console>)
> >
> > at $print(<console>)
> >
> > at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
> >
> > at
> >
> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
> >
> > at
> >
> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
> >
> > at java.lang.reflect.Method.invoke(Method.java:606)
> >
> > at
> >
> org.apache.spark.repl.SparkIMain$ReadEvalPrint.call(SparkIMain.scala:1065)
> >
> > at
> >
> org.apache.spark.repl.SparkIMain$Request.loadAndRun(SparkIMain.scala:1338)
> >
> > at org.apache.spark.repl.SparkIMain.loadAndRunReq$1(SparkIMain.scala:840)
> >
> > at org.apache.spark.repl.SparkIMain.interpret(SparkIMain.scala:871)
> >
> > at org.apache.spark.repl.SparkIMain.interpret(SparkIMain.scala:819)
> >
> > at
> org.apache.spark.repl.SparkILoop.reallyInterpret$1(SparkILoop.scala:857)
> >
> > at
> >
> org.apache.spark.repl.SparkILoop.interpretStartingWith(SparkILoop.scala:902)
> >
> > at org.apache.spark.repl.SparkILoop.command(SparkILoop.scala:814)
> >
> > at org.apache.spark.repl.SparkILoop.processLine$1(SparkILoop.scala:657)
> >
> > at org.apache.spark.repl.SparkILoop.innerLoop$1(SparkILoop.scala:665)
> >
> > at
> > org.apache.spark.repl.SparkILoop.org
> $apache$spark$repl$SparkILoop$loop(SparkILoop.scala:670)
> >
> > at
> >
> org.apache.spark.repl.SparkILoop$anonfun$org$apache$spark$repl$SparkILoop$process$1.apply$mcZ$sp(SparkILoop.scala:997)
> >
> > at
> >
> org.apache.spark.repl.SparkILoop$anonfun$org$apache$spark$repl$SparkILoop$process$1.apply(SparkILoop.scala:945)
> >
> > at
> >
> org.apache.spark.repl.SparkILoop$anonfun$org$apache$spark$repl$SparkILoop$process$1.apply(SparkILoop.scala:945)
> >
> > at
> >
> scala.tools.nsc.util.ScalaClassLoader$.savingContextLoader(ScalaClassLoader.scala:135)
> >
> > at
> > org.apache.spark.repl.SparkILoop.org
> $apache$spark$repl$SparkILoop$process(SparkILoop.scala:945)
> >
> > at org.apache.spark.repl.SparkILoop.process(SparkILoop.scala:1059)
> >
> > at org.apache.spark.repl.Main$.main(Main.scala:31)
> >
> > at org.apache.spark.repl.Main.main(Main.scala)
> >
> > at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
> >
> > at
> >
> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
> >
> > at
> >
> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
> >
> > at java.lang.reflect.Method.invoke(Method.java:606)
> >
> > at
> >
> org.apache.spark.deploy.SparkSubmit$.org$apache$spark$deploy$SparkSubmit$runMain(SparkSubmit.scala:665)
> >
> > at
> org.apache.spark.deploy.SparkSubmit$.doRunMain$1(SparkSubmit.scala:170)
> >
> > at org.apache.spark.deploy.SparkSubmit$.submit(SparkSubmit.scala:193)
> >
> > at org.apache.spark.deploy.SparkSubmit$.main(SparkSubmit.scala:112)
> >
> > at org.apache.spark.deploy.SparkSubmit.main(SparkSubmit.scala)
> >
> > Caused by: java.net.URISyntaxException: Relative path in absolute URI:
> >
> [922-212-4438]-[119]-[1]-[2015-08-13T15:43:12.346193%5D-%5B2015-01-01T00:00:00%5D-redacted.csv
> >
> > at java.net.URI.checkPath(URI.java:1804)
> >
> > at java.net.URI.<init>(URI.java:752)
> >
> > at org.apache.hadoop.fs.Path.initialize(Path.java:203)
> >
> > ... 65 more
> >
> >
> >
> > --
> > View this message in context:
> http://apache-spark-user-list.1001560.n3.nabble.com/Issues-with-S3-paths-that-contain-colons-tp24320.html
> > Sent from the Apache Spark User List mailing list archive at Nabble.com.
> >
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> >
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