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From Fabian Hueske <fhue...@gmail.com>
Subject Re: HBase TableOutputFormat fix (Flink 0.8.1)
Date Wed, 01 Apr 2015 12:32:39 GMT
What ever works best for you.
We can easily backport or forwardport the patch.

2015-04-01 14:12 GMT+02:00 Flavio Pompermaier <pompermaier@okkam.it>:

> Ok..I'd like to have this fix in the next release. Should I branch Flink
> 0.8.1 or 0.9 or which version?
>
> On Wed, Apr 1, 2015 at 2:04 PM, Maximilian Michels <mxm@apache.org> wrote:
>
> > Hi Flavio,
> >
> > Thanks for looking into this problem. Actually, it's a bit difficult to
> > discuss your changes here because of the formatting/syntax highlighting
> and
> > missing context of the classes. Usually, we do that in a pull request. Do
> > you have a GitHub account? If so, push your changes to your forked Flink
> > repository. GitHub will then offer you to create a pull request for your
> > modified branch.
> >
> > Let's discuss your changes on GitHub.
> >
> > Best,
> > Max
> >
> > On Wed, Apr 1, 2015 at 1:44 PM, Flavio Pompermaier <pompermaier@okkam.it
> >
> > wrote:
> >
> > > Any feedback about this?
> > >
> > > On Tue, Mar 31, 2015 at 7:07 PM, Flavio Pompermaier <
> > pompermaier@okkam.it>
> > > wrote:
> > >
> > > > Hi Flink devs,
> > > > this is my final report about the HBaseOutputFormat problem (with
> Flink
> > > > 0.8.1) and I hope you could suggest me the best way to make a PR:
> > > >
> > > > 1) The following code produce the error reported below (this should
> be
> > > > fixed in 0.9 right?)
> > > >       Job job = Job.getInstance();
> > > >   myDataset.output( new HadoopOutputFormat<Text, *Mutation*>(new
> > > > *TableOutputFormat*<Text>(), job));
> > > >
> > > > org.apache.flink.api.common.functions.InvalidTypesException:
> Interfaces
> > > > and abstract classes are not valid types: class
> > > > org.apache.hadoop.hbase.client.Mutation
> > > > at
> > > >
> > >
> >
> org.apache.flink.api.java.typeutils.TypeExtractor.privateGetForClass(TypeExtractor.java:885)
> > > > at
> > > >
> > >
> >
> org.apache.flink.api.java.typeutils.TypeExtractor.privateGetForClass(TypeExtractor.java:877)
> > > > at
> > > >
> > >
> >
> org.apache.flink.api.java.typeutils.TypeExtractor.createTypeInfoWithTypeHierarchy(TypeExtractor.java:376)
> > > > at
> > > >
> > >
> >
> org.apache.flink.api.java.typeutils.TypeExtractor.createTypeInfoWithTypeHierarchy(TypeExtractor.java:296)
> > > > at
> > > >
> > >
> >
> org.apache.flink.api.java.typeutils.TypeExtractor.privateCreateTypeInfo(TypeExtractor.java:224)
> > > > at
> > > >
> > >
> >
> org.apache.flink.api.java.typeutils.TypeExtractor.getUnaryOperatorReturnType(TypeExtractor.java:152)
> > > > at
> > > >
> > >
> >
> org.apache.flink.api.java.typeutils.TypeExtractor.getMapReturnTypes(TypeExtractor.java:79)
> > > > at org.apache.flink.api.java.DataSet.map(DataSet.java:160)
> > > >
> > > > 2)  So I created a custom HBaseTableOutputFormat -*see at the end of
> > the
> > > > mail-* (that is basically copied from to the HBase TableInputFormat)
> > that
> > > >  sets correctly the "mapred.output.dir" param required by the
> > > > HadoopOutputFormatBase so I can make it work:
> > > >                 Job job = Job.getInstance();
> > > > job.getConfiguration().set(TableOutputFormat.OUTPUT_TABLE,
> > > > outputTableName);
> > > > HBaseTableOutputFormat<Text> hbaseTOF = new
> HBaseTableOutputFormat<>();
> > > > HadoopOutputFormat<Text, Put> outOF = new
> > > > HadoopOutputFormat<>(hbaseTOF, job);
> > > > myDataset.output(outOF);
> > > >
> > > > 3) However this does still not work unless you call setConf() of
> > > > Configurable subclasses in the HadoopOutputFormatBase:
> > > >
> > > > - in the* public void finalizeGlobal(int parallelism) throws
> > IOException*
> > > >  method:
> > > > ....
> > > >                * if(this.mapreduceOutputFormat instanceof
> > Configurable){*
> > > > *
> > >
> ((Configurable)this.mapreduceOutputFormat).setConf(this.configuration);*
> > > > * }*
> > > > this.fileOutputCommitter = new FileOutputCommitter(new
> > > > Path(this.configuration.get("mapred.output.dir")), taskContext);
> > > > ....
> > > > - In the* public void open(int taskNumber, int numTasks) throws
> > > > IOException*  method:
> > > > ....
> > > >
> > > >               *  if(this.mapreduceOutputFormat instanceof
> > Configurable){*
> > > > *
> > >
> ((Configurable)this.mapreduceOutputFormat).setConf(this.configuration);*
> > > > * }*
> > > >  try {
> > > > this.context =
> > > > HadoopUtils.instantiateTaskAttemptContext(this.configuration,
> > > > taskAttemptID);
> > > > } catch (Exception e) {
> > > > throw new RuntimeException(e);
> > > > }
> > > > ....
> > > >
> > > > 4) Probably the modifications apported in point 3 should be applied
> > both
> > > > for mapreduce and mapred packages..
> > > >
> > > > Thanks in advace,
> > > > Flavio
> > > >
> > > >
> > > >
> > > >
> -----------------------------------------------------------------------
> > > > this is the HadoopOutputFormatBase.java:
> > > >
> -----------------------------------------------------------------------
> > > > import java.io.IOException;
> > > >
> > > > import org.apache.commons.logging.Log;
> > > > import org.apache.commons.logging.LogFactory;
> > > > import org.apache.hadoop.classification.InterfaceAudience;
> > > > import org.apache.hadoop.classification.InterfaceStability;
> > > > import org.apache.hadoop.conf.Configurable;
> > > > import org.apache.hadoop.conf.Configuration;
> > > > import org.apache.hadoop.hbase.HBaseConfiguration;
> > > > import org.apache.hadoop.hbase.HConstants;
> > > > import org.apache.hadoop.hbase.client.Delete;
> > > > import org.apache.hadoop.hbase.client.HTable;
> > > > import org.apache.hadoop.hbase.client.Put;
> > > > import org.apache.hadoop.hbase.mapreduce.TableOutputCommitter;
> > > > import org.apache.hadoop.hbase.util.FSUtils;
> > > > import org.apache.hadoop.hbase.zookeeper.ZKUtil;
> > > > import org.apache.hadoop.mapreduce.JobContext;
> > > > import org.apache.hadoop.mapreduce.OutputCommitter;
> > > > import org.apache.hadoop.mapreduce.OutputFormat;
> > > > import org.apache.hadoop.mapreduce.RecordWriter;
> > > > import org.apache.hadoop.mapreduce.TaskAttemptContext;
> > > >
> > > > /**
> > > >  * Convert Map/Reduce output and write it to an HBase table. The KEY
> is
> > > > ignored
> > > >  * while the output value <u>must</u> be either a {@link Put}
or a
> > > >  * {@link Delete} instance.
> > > >  *
> > > >  * @param <KEY>  The type of the key. Ignored in this class.
> > > >  */
> > > > @InterfaceAudience.Public
> > > > @InterfaceStability.Stable
> > > > public class HBaseTableOutputFormat<KEY>* extends OutputFormat<KEY,
> > Put>*
> > > > implements Configurable {
> > > >
> > > >   private final Log LOG =
> > > LogFactory.getLog(HBaseTableOutputFormat.class);
> > > >
> > > >   /** Job parameter that specifies the output table. */
> > > >   public static final String OUTPUT_TABLE =
> "hbase.mapred.outputtable";
> > > >
> > > >   /**
> > > >    * Optional job parameter to specify a peer cluster.
> > > >    * Used specifying remote cluster when copying between hbase
> clusters
> > > > (the
> > > >    * source is picked up from <code>hbase-site.xml</code>).
> > > >    * @see TableMapReduceUtil#initTableReducerJob(String, Class,
> > > > org.apache.hadoop.mapreduce.Job, Class, String, String, String)
> > > >    */
> > > >   public static final String QUORUM_ADDRESS =
> > > "hbase.mapred.output.quorum";
> > > >
> > > >   /** Optional job parameter to specify peer cluster's ZK client port
> > */
> > > >   public static final String QUORUM_PORT =
> > > > "hbase.mapred.output.quorum.port";
> > > >
> > > >   /** Optional specification of the rs class name of the peer cluster
> > */
> > > >   public static final String
> > > >       REGION_SERVER_CLASS = "hbase.mapred.output.rs.class";
> > > >   /** Optional specification of the rs impl name of the peer cluster
> */
> > > >   public static final String
> > > >       REGION_SERVER_IMPL = "hbase.mapred.output.rs.impl";
> > > >
> > > >   /** The configuration. */
> > > >   private Configuration conf = null;
> > > >
> > > >   private HTable table;
> > > >
> > > >   /**
> > > >    * Writes the reducer output to an HBase table.
> > > >    *
> > > >    * @param <KEY>  The type of the key.
> > > >    */
> > > >   protected static class TableRecordWriter<KEY>
> > > >   *extends RecordWriter<KEY, Put> *{
> > > >
> > > >     /** The table to write to. */
> > > >     private HTable table;
> > > >
> > > >     /**
> > > >      * Instantiate a TableRecordWriter with the HBase HClient for
> > > writing.
> > > >      *
> > > >      * @param table  The table to write to.
> > > >      */
> > > >     public TableRecordWriter(HTable table) {
> > > >       this.table = table;
> > > >     }
> > > >
> > > >     /**
> > > >      * Closes the writer, in this case flush table commits.
> > > >      *
> > > >      * @param context  The context.
> > > >      * @throws IOException When closing the writer fails.
> > > >      * @see
> > > >
> > >
> >
> org.apache.hadoop.mapreduce.RecordWriter#close(org.apache.hadoop.mapreduce.TaskAttemptContext)
> > > >      */
> > > >     @Override
> > > >     public void close(TaskAttemptContext context)
> > > >     throws IOException {
> > > >       table.close();
> > > >     }
> > > >
> > > >     /**
> > > >      * Writes a key/value pair into the table.
> > > >      *
> > > >      * @param key  The key.
> > > >      * @param value  The value.
> > > >      * @throws IOException When writing fails.
> > > >      * @see
> > > > org.apache.hadoop.mapreduce.RecordWriter#write(java.lang.Object,
> > > > java.lang.Object)
> > > >      */
> > > >     @Override
> > > >     *public void write(KEY key, Put value)*
> > > > *    throws IOException {*
> > > > *      if (value instanceof Put) this.table.put(new
> Put((Put)value));*
> > > > *//      else if (value instanceof Delete) this.table.delete(new
> > > > Delete((Delete)value));*
> > > > *      else throw new IOException("Pass a Delete or a Put");*
> > > > *    }*
> > > >   }
> > > >
> > > >   /**
> > > >    * Creates a new record writer.
> > > >    *
> > > >    * @param context  The current task context.
> > > >    * @return The newly created writer instance.
> > > >    * @throws IOException When creating the writer fails.
> > > >    * @throws InterruptedException When the jobs is cancelled.
> > > >    * @see
> > > >
> > >
> >
> org.apache.hadoop.mapreduce.lib.output.FileOutputFormat#getRecordWriter(org.apache.hadoop.mapreduce.TaskAttemptContext)
> > > >    */
> > > >   @Override
> > > >   public RecordWriter<KEY, *Put*> getRecordWriter(
> > > >     TaskAttemptContext context)
> > > >   throws IOException, InterruptedException {
> > > >     return new TableRecordWriter<KEY>(this.table);
> > > >   }
> > > >
> > > >   /**
> > > >    * Checks if the output target exists.
> > > >    *
> > > >    * @param context  The current context.
> > > >    * @throws IOException When the check fails.
> > > >    * @throws InterruptedException When the job is aborted.
> > > >    * @see
> > > >
> > >
> >
> org.apache.hadoop.mapreduce.OutputFormat#checkOutputSpecs(org.apache.hadoop.mapreduce.JobContext)
> > > >    */
> > > >   @Override
> > > >   public void checkOutputSpecs(JobContext context) throws
> IOException,
> > > >       InterruptedException {
> > > >     // TODO Check if the table exists?
> > > >
> > > >   }
> > > >
> > > >   /**
> > > >    * Returns the output committer.
> > > >    *
> > > >    * @param context  The current context.
> > > >    * @return The committer.
> > > >    * @throws IOException When creating the committer fails.
> > > >    * @throws InterruptedException When the job is aborted.
> > > >    * @see
> > > >
> > >
> >
> org.apache.hadoop.mapreduce.OutputFormat#getOutputCommitter(org.apache.hadoop.mapreduce.TaskAttemptContext)
> > > >    */
> > > >   @Override
> > > >   public OutputCommitter getOutputCommitter(TaskAttemptContext
> context)
> > > >   throws IOException, InterruptedException {
> > > >     return new TableOutputCommitter();
> > > >   }
> > > >
> > > >   public Configuration getConf() {
> > > >     return conf;
> > > >   }
> > > >
> > > >   @Override
> > > >   public void setConf(Configuration otherConf) {
> > > >     this.conf = HBaseConfiguration.create(otherConf);
> > > >
> > > >     String tableName = this.conf.get(OUTPUT_TABLE);
> > > >     if(tableName == null || tableName.length() <= 0) {
> > > >       throw new IllegalArgumentException("Must specify table name");
> > > >     }
> > > >
> > > >     String address = this.conf.get(QUORUM_ADDRESS);
> > > >     int zkClientPort = this.conf.getInt(QUORUM_PORT, 0);
> > > >     String serverClass = this.conf.get(REGION_SERVER_CLASS);
> > > >     String serverImpl = this.conf.get(REGION_SERVER_IMPL);
> > > >
> > > >     try {
> > > >       if (address != null) {
> > > >         ZKUtil.applyClusterKeyToConf(this.conf, address);
> > > >       }
> > > >       if (serverClass != null) {
> > > >         this.conf.set(HConstants.REGION_SERVER_IMPL, serverImpl);
> > > >       }
> > > >       if (zkClientPort != 0) {
> > > >         this.conf.setInt(HConstants.ZOOKEEPER_CLIENT_PORT,
> > zkClientPort);
> > > >       }
> > > >       this.table = new HTable(this.conf, tableName);
> > > >       this.table.setAutoFlush(false, true);
> > > >     *  String outDir = FSUtils.getTableDir(FSUtils.getRootDir(conf),
> > > > this.table.getName()).toString();*
> > > > *      this.conf.set("mapred.output.dir", outDir);*
> > > > *      otherConf.set("mapred.output.dir", outDir);*
> > > >       LOG.info("Created table instance for "  + tableName);
> > > >     } catch(IOException e) {
> > > >       LOG.error(e);
> > > >       throw new RuntimeException(e);
> > > >     }
> > > >   }
> > > > }
> > > >
> > > >
> > >
> >
>

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