Re: Problems with KMeans clustering

Sun, 26 Oct 2008 06:49:12 -0700 

Did this work with 0.18.0 or other prior versions for you?


On Oct 25, 2008, at 7:23 PM, Philippe Lamarche wrote:


Hi,
I just updated to hadoop 0.18.1 and got a clean version of mahout from svn. However, I am having problems with KMeans, that can be traced down to : 

2008-10-25 19:10:16,987 INFO org.apache.hadoop.mapred.Merger: Merging
2 sorted segments
2008-10-25 19:10:16,987 INFO org.apache.hadoop.mapred.Merger: Down to
the last merge-pass, with 2 segments left of total size: 5011 bytes
2008-10-25 19:10:16,999 WARN org.apache.hadoop.mapred.ReduceTask:
attempt_200810251826_0013_r_000000_0 Merge of the inmemory files threw
an exception: java.io.IOException: Intermedate merge failed
at org.apache.hadoop.mapred.ReduceTask$ReduceCopier $InMemFSMergeThread.doInMemMerge(ReduceTask.java:2147) at org.apache.hadoop.mapred.ReduceTask$ReduceCopier $InMemFSMergeThread.run(ReduceTask.java:2078) 
Caused by: java.lang.NumberFormatException: For input string: "["
at sun.misc.FloatingDecimal.readJavaFormatString(FloatingDecimal.java: 1224) 
        at java.lang.Double.parseDouble(Double.java:510)
at org.apache.mahout.matrix.DenseVector.decodeFormat(DenseVector.java:60) at org .apache .mahout.matrix.AbstractVector.decodeVector(AbstractVector.java:256) at org .apache .mahout.clustering.kmeans.KMeansCombiner.reduce(KMeansCombiner.java: 38) at org .apache .mahout.clustering.kmeans.KMeansCombiner.reduce(KMeansCombiner.java: 31) at org.apache.hadoop.mapred.ReduceTask $ReduceCopier.combineAndSpill(ReduceTask.java:2174) at org.apache.hadoop.mapred.ReduceTask$ReduceCopier.access $3100(ReduceTask.java:341) at org.apache.hadoop.mapred.ReduceTask$ReduceCopier $InMemFSMergeThread.doInMemMerge(ReduceTask.java:2134) 
        ... 1 more

2008-10-25 19:10:16,999 INFO org.apache.hadoop.mapred.ReduceTask:
In-memory merge complete: 0 files left.
2008-10-25 19:10:17,000 WARN org.apache.hadoop.mapred.TaskTracker:
Error running child
java.io.IOException: attempt_200810251826_0013_r_000000_0The reduce
copier failed
        at org.apache.hadoop.mapred.ReduceTask.run(ReduceTask.java:255)
at org.apache.hadoop.mapred.TaskTracker$Child.main(TaskTracker.java: 2207)
This is while running the synthetic_control.data example, but I have the 
same problems with any other input data.

I am able to do other map-reduce job without problems.

Here is the output of the jar task:

[EMAIL PROTECTED]:/usr/local/hadoop$ bin/hadoop jar
/home/philippe/workspace/MahoutJava/examples/dist/apache-mahout- examples-0.1-dev.jar 
org.apache.mahout.clustering.syntheticcontrol.kmeans.Job
08/10/25 19:09:27 WARN mapred.JobClient: Use GenericOptionsParser for
parsing the arguments. Applications should implement Tool for the same. 08/10/25 19:09:28 INFO mapred.FileInputFormat: Total input paths to process 
: 1
08/10/25 19:09:28 INFO mapred.FileInputFormat: Total input paths to process 
: 1
08/10/25 19:09:28 INFO mapred.JobClient: Running job: job_200810251826_0010 
08/10/25 19:09:29 INFO mapred.JobClient:  map 0% reduce 0%
08/10/25 19:09:31 INFO mapred.JobClient:  map 50% reduce 0%
08/10/25 19:09:32 INFO mapred.JobClient: Job complete: job_200810251826_0010 
08/10/25 19:09:32 INFO mapred.JobClient: Counters: 7
08/10/25 19:09:32 INFO mapred.JobClient:   File Systems
08/10/25 19:09:32 INFO mapred.JobClient:     HDFS bytes read=291644
08/10/25 19:09:32 INFO mapred.JobClient:     HDFS bytes written=323660
08/10/25 19:09:32 INFO mapred.JobClient:   Job Counters
08/10/25 19:09:32 INFO mapred.JobClient:     Launched map tasks=2
08/10/25 19:09:32 INFO mapred.JobClient:     Data-local map tasks=2
08/10/25 19:09:32 INFO mapred.JobClient:   Map-Reduce Framework
08/10/25 19:09:32 INFO mapred.JobClient:     Map input records=600
08/10/25 19:09:32 INFO mapred.JobClient:     Map input bytes=288374
08/10/25 19:09:32 INFO mapred.JobClient:     Map output records=600
08/10/25 19:09:32 WARN mapred.JobClient: Use GenericOptionsParser for
parsing the arguments. Applications should implement Tool for the same. 08/10/25 19:09:32 INFO mapred.FileInputFormat: Total input paths to process 
: 2
08/10/25 19:09:32 INFO mapred.FileInputFormat: Total input paths to process 
: 2
08/10/25 19:09:32 INFO mapred.JobClient: Running job: job_200810251826_0011 
08/10/25 19:09:33 INFO mapred.JobClient:  map 0% reduce 0%
08/10/25 19:09:37 INFO mapred.JobClient:  map 50% reduce 0%
08/10/25 19:09:39 INFO mapred.JobClient:  map 100% reduce 0%
08/10/25 19:09:44 INFO mapred.JobClient:  map 100% reduce 16%
08/10/25 19:09:52 INFO mapred.JobClient: Job complete: job_200810251826_0011 
08/10/25 19:09:52 INFO mapred.JobClient: Counters: 16
08/10/25 19:09:52 INFO mapred.JobClient:   File Systems
08/10/25 19:09:52 INFO mapred.JobClient:     HDFS bytes read=323660
08/10/25 19:09:52 INFO mapred.JobClient:     HDFS bytes written=1447
08/10/25 19:09:52 INFO mapred.JobClient:     Local bytes read=1389
08/10/25 19:09:52 INFO mapred.JobClient:     Local bytes written=37878
08/10/25 19:09:52 INFO mapred.JobClient:   Job Counters
08/10/25 19:09:52 INFO mapred.JobClient:     Launched reduce tasks=1
08/10/25 19:09:52 INFO mapred.JobClient:     Launched map tasks=2
08/10/25 19:09:52 INFO mapred.JobClient:     Data-local map tasks=2
08/10/25 19:09:52 INFO mapred.JobClient:   Map-Reduce Framework
08/10/25 19:09:52 INFO mapred.JobClient:     Reduce input groups=1
08/10/25 19:09:52 INFO mapred.JobClient:     Combine output records=29
08/10/25 19:09:52 INFO mapred.JobClient:     Map input records=600
08/10/25 19:09:52 INFO mapred.JobClient:     Reduce output records=1
08/10/25 19:09:52 INFO mapred.JobClient:     Map output bytes=943020
08/10/25 19:09:52 INFO mapred.JobClient:     Map input bytes=323660
08/10/25 19:09:52 INFO mapred.JobClient: Combine input records=1760 
08/10/25 19:09:52 INFO mapred.JobClient:     Map output records=1732
08/10/25 19:09:52 INFO mapred.JobClient:     Reduce input records=1
08/10/25 19:09:53 WARN mapred.JobClient: Use GenericOptionsParser for
parsing the arguments. Applications should implement Tool for the same. 08/10/25 19:09:53 INFO mapred.FileInputFormat: Total input paths to process 
: 2
08/10/25 19:09:53 INFO mapred.FileInputFormat: Total input paths to process 
: 2
08/10/25 19:09:53 INFO mapred.JobClient: Running job: job_200810251826_0012 
08/10/25 19:09:54 INFO mapred.JobClient:  map 0% reduce 0%
08/10/25 19:09:56 INFO mapred.JobClient:  map 50% reduce 0%
08/10/25 19:09:58 INFO mapred.JobClient:  map 100% reduce 0%
08/10/25 19:10:02 INFO mapred.JobClient: Job complete: job_200810251826_0012 
08/10/25 19:10:02 INFO mapred.JobClient: Counters: 16
08/10/25 19:10:02 INFO mapred.JobClient:   File Systems
08/10/25 19:10:02 INFO mapred.JobClient:     HDFS bytes read=326554
08/10/25 19:10:02 INFO mapred.JobClient: HDFS bytes written=1137260 
08/10/25 19:10:02 INFO mapred.JobClient:     Local bytes read=1147358
08/10/25 19:10:02 INFO mapred.JobClient: Local bytes written=2304490 
08/10/25 19:10:02 INFO mapred.JobClient:   Job Counters
08/10/25 19:10:02 INFO mapred.JobClient:     Launched reduce tasks=1
08/10/25 19:10:02 INFO mapred.JobClient:     Launched map tasks=2
08/10/25 19:10:02 INFO mapred.JobClient:     Data-local map tasks=2
08/10/25 19:10:02 INFO mapred.JobClient:   Map-Reduce Framework
08/10/25 19:10:02 INFO mapred.JobClient:     Reduce input groups=1
08/10/25 19:10:02 INFO mapred.JobClient:     Combine output records=0
08/10/25 19:10:02 INFO mapred.JobClient:     Map input records=600
08/10/25 19:10:02 INFO mapred.JobClient:     Reduce output records=600
08/10/25 19:10:02 INFO mapred.JobClient:     Map output bytes=1139660
08/10/25 19:10:02 INFO mapred.JobClient:     Map input bytes=323660
08/10/25 19:10:02 INFO mapred.JobClient:     Combine input records=0
08/10/25 19:10:02 INFO mapred.JobClient:     Map output records=600
08/10/25 19:10:02 INFO mapred.JobClient:     Reduce input records=600
08/10/25 19:10:02 INFO kmeans.KMeansDriver: Iteration 0
08/10/25 19:10:02 WARN mapred.JobClient: Use GenericOptionsParser for
parsing the arguments. Applications should implement Tool for the same. 08/10/25 19:10:02 INFO mapred.FileInputFormat: Total input paths to process 
: 2
08/10/25 19:10:02 INFO mapred.FileInputFormat: Total input paths to process 
: 2
08/10/25 19:10:03 INFO mapred.JobClient: Running job: job_200810251826_0013 
08/10/25 19:10:04 INFO mapred.JobClient:  map 0% reduce 0%
08/10/25 19:10:08 INFO mapred.JobClient:  map 50% reduce 0%
08/10/25 19:10:09 INFO mapred.JobClient:  map 100% reduce 0%
08/10/25 19:10:21 INFO mapred.JobClient: Task Id :
attempt_200810251826_0013_r_000000_0, Status : FAILED
java.io.IOException: attempt_200810251826_0013_r_000000_0The reduce copier 
failed
   at org.apache.hadoop.mapred.ReduceTask.run(ReduceTask.java:255)
   at
org.apache.hadoop.mapred.TaskTracker$Child.main(TaskTracker.java:2207)


I am not sure if I am doing something wrong here.

Thanks for the help,

Philippe.


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