Commit graph

729 commits

Author SHA1 Message Date
Zheng RuiFeng 0a4b620f31 [SPARK-13551][MLLIB] Fix wrong comment and remove meanless lines in mllib.JavaBisectingKMeansExample
JIRA: https://issues.apache.org/jira/browse/SPARK-13551

## What changes were proposed in this pull request?

Fix wrong comment and remove meanless lines in mllib.JavaBisectingKMeansExample

## How was this patch tested?

manual test

Author: Zheng RuiFeng <ruifengz@foxmail.com>

Closes #11429 from zhengruifeng/mllib_bkm_je.
2016-02-29 22:24:43 -08:00
Dongjoon Hyun 7af0de076f [SPARK-11381][DOCS] Replace example code in mllib-linear-methods.md using include_example
## What changes were proposed in this pull request?

This PR replaces example codes in `mllib-linear-methods.md` using `include_example`
by doing the followings:
  * Extracts the example codes(Scala,Java,Python) as files in `example` module.
  * Merges some dialog-style examples into a single file.
  * Hide redundant codes in HTML for the consistency with other docs.

## How was the this patch tested?

manual test.
This PR can be tested by document generations, `SKIP_API=1 jekyll build`.

Author: Dongjoon Hyun <dongjoon@apache.org>

Closes #11320 from dongjoon-hyun/SPARK-11381.
2016-02-26 08:31:55 -08:00
Cheng Lian 99dfcedbfd [SPARK-13457][SQL] Removes DataFrame RDD operations
## What changes were proposed in this pull request?

This is another try of PR #11323.

This PR removes DataFrame RDD operations except for `foreach` and `foreachPartitions` (they are actions rather than transformations). Original calls are now replaced by calls to methods of `DataFrame.rdd`.

PR #11323 was reverted because it introduced a regression: both `DataFrame.foreach` and `DataFrame.foreachPartitions` wrap underlying RDD operations with `withNewExecutionId` to track Spark jobs. But they are removed in #11323.

## How was the this patch tested?

No extra tests are added. Existing tests should do the work.

Author: Cheng Lian <lian@databricks.com>

Closes #11388 from liancheng/remove-df-rdd-ops.
2016-02-27 00:28:30 +08:00
Davies Liu 751724b132 Revert "[SPARK-13457][SQL] Removes DataFrame RDD operations"
This reverts commit 157fe64f3e.
2016-02-25 11:53:48 -08:00
Cheng Lian 157fe64f3e [SPARK-13457][SQL] Removes DataFrame RDD operations
## What changes were proposed in this pull request?

This PR removes DataFrame RDD operations. Original calls are now replaced by calls to methods of `DataFrame.rdd`.

## How was the this patch tested?

No extra tests are added. Existing tests should do the work.

Author: Cheng Lian <lian@databricks.com>

Closes #11323 from liancheng/remove-df-rdd-ops.
2016-02-25 23:07:59 +08:00
JeremyNixon 230bbeaa61 [SPARK-10759][ML] update cross validator with include_example
This pull request uses {%include_example%} to add an example for the python cross validator to ml-guide.

Author: JeremyNixon <jnixon2@gmail.com>

Closes #11240 from JeremyNixon/pipeline_include_example.
2016-02-23 15:57:29 -08:00
movelikeriver 5cd3e6f60b [SPARK-13257][IMPROVEMENT] Refine naive Bayes example by checking model after loading it
Refine naive Bayes example by checking model after loading it

Author: movelikeriver <mars.lenjoy@gmail.com>

Closes #11125 from movelikeriver/naive_bayes.
2016-02-22 23:58:54 -08:00
Devaraj K 02b1fefffb [SPARK-13012][DOCUMENTATION] Replace example code in ml-guide.md using include_example
Replaced example code in ml-guide.md using include_example

Author: Devaraj K <devaraj@apache.org>

Closes #11053 from devaraj-kavali/SPARK-13012.
2016-02-22 17:21:37 -08:00
Devaraj K 9f410871ca [SPARK-13016][DOCUMENTATION] Replace example code in mllib-dimensionality-reduction.md using include_example
Replaced example example code in mllib-dimensionality-reduction.md using
include_example

Author: Devaraj K <devaraj@apache.org>

Closes #11132 from devaraj-kavali/SPARK-13016.
2016-02-22 17:16:56 -08:00
Luciano Resende 1a340da8d7 [SPARK-13248][STREAMING] Remove deprecated Streaming APIs.
Remove deprecated Streaming APIs and adjust sample applications.

Author: Luciano Resende <lresende@apache.org>

Closes #11139 from lresende/streaming-deprecated-apis.
2016-02-21 16:27:56 +00:00
Sean Owen b84404865b [SPARK-13324][CORE][BUILD] Update plugin, test, example dependencies for 2.x
Phase 1: update plugin versions, test dependencies, some example and third-party versions

Author: Sean Owen <sowen@cloudera.com>

Closes #11206 from srowen/SPARK-13324.
2016-02-17 19:03:29 -08:00
shijinkui 97ee85daf6 [SPARK-12953][EXAMPLES] RDDRelation writer set overwrite mode
https://issues.apache.org/jira/browse/SPARK-12953

fix error when run RDDRelation.main():
"path file:/Users/sjk/pair.parquet already exists"

Set DataFrameWriter's mode to SaveMode.Overwrite

Author: shijinkui <shijinkui666@163.com>

Closes #10864 from shijinkui/set_mode.
2016-02-17 15:08:22 -08:00
BenFradet 00c72d27bf [SPARK-12247][ML][DOC] Documentation for spark.ml's ALS and collaborative filtering in general
This documents the implementation of ALS in `spark.ml` with example code in scala, java and python.

Author: BenFradet <benjamin.fradet@gmail.com>

Closes #10411 from BenFradet/SPARK-12247.
2016-02-16 13:03:28 +00:00
Xin Ren e4675c2402 [SPARK-13018][DOCS] Replace example code in mllib-pmml-model-export.md using include_example
Replace example code in mllib-pmml-model-export.md using include_example
https://issues.apache.org/jira/browse/SPARK-13018

The example code in the user guide is embedded in the markdown and hence it is not easy to test. It would be nice to automatically test them. This JIRA is to discuss options to automate example code testing and see what we can do in Spark 1.6.

Goal is to move actual example code to spark/examples and test compilation in Jenkins builds. Then in the markdown, we can reference part of the code to show in the user guide. This requires adding a Jekyll tag that is similar to https://github.com/jekyll/jekyll/blob/master/lib/jekyll/tags/include.rb, e.g., called include_example.
`{% include_example scala/org/apache/spark/examples/mllib/PMMLModelExportExample.scala %}`
Jekyll will find `examples/src/main/scala/org/apache/spark/examples/mllib/PMMLModelExportExample.scala` and pick code blocks marked "example" and replace code block in
`{% highlight %}`
 in the markdown.

See more sub-tasks in parent ticket: https://issues.apache.org/jira/browse/SPARK-11337

Author: Xin Ren <iamshrek@126.com>

Closes #11126 from keypointt/SPARK-13018.
2016-02-15 20:17:21 -08:00
Liang-Chi Hsieh e3441e3f68 [SPARK-12363][MLLIB] Remove setRun and fix PowerIterationClustering failed test
JIRA: https://issues.apache.org/jira/browse/SPARK-12363

This issue is pointed by yanboliang. When `setRuns` is removed from PowerIterationClustering, one of the tests will be failed. I found that some `dstAttr`s of the normalized graph are not correct values but 0.0. By setting `TripletFields.All` in `mapTriplets` it can work.

Author: Liang-Chi Hsieh <viirya@gmail.com>
Author: Xiangrui Meng <meng@databricks.com>

Closes #10539 from viirya/fix-poweriter.
2016-02-13 15:56:20 -08:00
Sean Owen 68ed3632c5 [SPARK-13170][STREAMING] Investigate replacing SynchronizedQueue as it is deprecated
Replace SynchronizeQueue with synchronized access to a Queue

Author: Sean Owen <sowen@cloudera.com>

Closes #11111 from srowen/SPARK-13170.
2016-02-09 11:23:29 +00:00
sachin aggarwal d9ba4d27f4 [SPARK-13177][EXAMPLES] Update ActorWordCount example to not directly use low level linked list as it is deprecated.
Author: sachin aggarwal <different.sachin@gmail.com>

Closes #11113 from agsachin/master.
2016-02-09 08:52:58 +00:00
Josh Rosen 289373b28c [SPARK-6363][BUILD] Make Scala 2.11 the default Scala version
This patch changes Spark's build to make Scala 2.11 the default Scala version. To be clear, this does not mean that Spark will stop supporting Scala 2.10: users will still be able to compile Spark for Scala 2.10 by following the instructions on the "Building Spark" page; however, it does mean that Scala 2.11 will be the default Scala version used by our CI builds (including pull request builds).

The Scala 2.11 compiler is faster than 2.10, so I think we'll be able to look forward to a slight speedup in our CI builds (it looks like it's about 2X faster for the Maven compile-only builds, for instance).

After this patch is merged, I'll update Jenkins to add new compile-only jobs to ensure that Scala 2.10 compilation doesn't break.

Author: Josh Rosen <joshrosen@databricks.com>

Closes #10608 from JoshRosen/SPARK-6363.
2016-01-30 00:20:28 -08:00
Sean Owen 649e9d0f5b [SPARK-3369][CORE][STREAMING] Java mapPartitions Iterator->Iterable is inconsistent with Scala's Iterator->Iterator
Fix Java function API methods for flatMap and mapPartitions to require producing only an Iterator, not Iterable. Also fix DStream.flatMap to require a function producing TraversableOnce only, not Traversable.

CC rxin pwendell for API change; tdas since it also touches streaming.

Author: Sean Owen <sowen@cloudera.com>

Closes #10413 from srowen/SPARK-3369.
2016-01-26 11:55:28 +00:00
Mark Grover 006906db59 [SPARK-12960] [PYTHON] Some examples are missing support for python2
Without importing the print_function, the lines later on like ```print("Usage: direct_kafka_wordcount.py <broker_list> <topic>", file=sys.stderr)``` fail when using python2.*. Import fixes that problem and doesn't break anything on python3 either.

Author: Mark Grover <mark@apache.org>

Closes #10872 from markgrover/python2_compat.
2016-01-21 21:17:36 -08:00
Shixiong Zhu b7d74a602f [SPARK-7799][SPARK-12786][STREAMING] Add "streaming-akka" project
Include the following changes:

1. Add "streaming-akka" project and org.apache.spark.streaming.akka.AkkaUtils for creating an actorStream
2. Remove "StreamingContext.actorStream" and "JavaStreamingContext.actorStream"
3. Update the ActorWordCount example and add the JavaActorWordCount example
4. Make "streaming-zeromq" depend on "streaming-akka" and update the codes accordingly

Author: Shixiong Zhu <shixiong@databricks.com>

Closes #10744 from zsxwing/streaming-akka-2.
2016-01-20 13:55:41 -08:00
Reynold Xin ad1503f92e [SPARK-12667] Remove block manager's internal "external block store" API
This pull request removes the external block store API. This is rarely used, and the file system interface is actually a better, more standard way to interact with external storage systems.

There are some other things to remove also, as pointed out by JoshRosen. We will do those as follow-up pull requests.

Author: Reynold Xin <rxin@databricks.com>

Closes #10752 from rxin/remove-offheap.
2016-01-15 12:03:28 -08:00
Reynold Xin fe7246fea6 [SPARK-12830] Java style: disallow trailing whitespaces.
Author: Reynold Xin <rxin@databricks.com>

Closes #10764 from rxin/SPARK-12830.
2016-01-14 23:33:45 -08:00
Kousuke Saruta 39ae04e6b7 [SPARK-12692][BUILD][STREAMING] Scala style: Fix the style violation (Space before "," or ":")
Fix the style violation (space before , and :).
This PR is a followup for #10643.

Author: Kousuke Saruta <sarutak@oss.nttdata.co.jp>

Closes #10685 from sarutak/SPARK-12692-followup-streaming.
2016-01-11 21:06:22 -08:00
Yanbo Liang ee4ee02b86 [SPARK-12603][MLLIB] PySpark MLlib GaussianMixtureModel should support single instance predict/predictSoft
PySpark MLlib ```GaussianMixtureModel``` should support single instance ```predict/predictSoft``` just like Scala do.

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #10552 from yanboliang/spark-12603.
2016-01-11 14:43:25 -08:00
Udo Klein bd723bd53d removed lambda from sortByKey()
According to the documentation the sortByKey method does not take a lambda as an argument, thus the example is flawed. Removed the argument completely as this will default to ascending sort.

Author: Udo Klein <git@blinkenlight.net>

Closes #10640 from udoklein/patch-1.
2016-01-11 09:30:08 +00:00
Josh Rosen f13c7f8f7d [SPARK-12734][HOTFIX][TEST-MAVEN] Fix bug in Netty exclusions
This is a hotfix for a build bug introduced by the Netty exclusion changes in #10672. We can't exclude `io.netty:netty` because Akka depends on it. There's not a direct conflict between `io.netty:netty` and `io.netty:netty-all`, because the former puts classes in the `org.jboss.netty` namespace while the latter uses the `io.netty` namespace. However, there still is a conflict between `org.jboss.netty:netty` and `io.netty:netty`, so we need to continue to exclude the JBoss version of that artifact.

While the diff here looks somewhat large, note that this is only a revert of a some of the changes from #10672. You can see the net changes in pom.xml at 3119206b71...5211ab8 (diff-600376dffeb79835ede4a0b285078036)

Author: Josh Rosen <joshrosen@databricks.com>

Closes #10693 from JoshRosen/netty-hotfix.
2016-01-11 00:31:29 -08:00
Josh Rosen 3ab0138b0f [SPARK-12734][BUILD] Fix Netty exclusion and use Maven Enforcer to prevent future bugs
Netty classes are published under multiple artifacts with different names, so our build needs to exclude the `io.netty:netty` and `org.jboss.netty:netty` versions of the Netty artifact. However, our existing exclusions were incomplete, leading to situations where duplicate Netty classes would wind up on the classpath and cause compile errors (or worse).

This patch fixes the exclusion issue by adding more exclusions and uses Maven Enforcer's [banned dependencies](https://maven.apache.org/enforcer/enforcer-rules/bannedDependencies.html) rule to prevent these classes from accidentally being reintroduced. I also updated `dev/test-dependencies.sh` to run `mvn validate` so that the enforcer rules can run as part of pull request builds.

/cc rxin srowen pwendell. I'd like to backport at least the exclusion portion of this fix to `branch-1.5` in order to fix the documentation publishing job, which fails nondeterministically due to incompatible versions of Netty classes taking precedence on the compile-time classpath.

Author: Josh Rosen <rosenville@gmail.com>
Author: Josh Rosen <joshrosen@databricks.com>

Closes #10672 from JoshRosen/enforce-netty-exclusions.
2016-01-10 19:59:01 -08:00
Kousuke Saruta e5904bb5e7 [SPARK-12692][BUILD][MLLIB] Scala style: Fix the style violation (Space before "," or ":")
Fix the style violation (space before , and :).
This PR is a followup for #10643.

Author: Kousuke Saruta <sarutak@oss.nttdata.co.jp>

Closes #10684 from sarutak/SPARK-12692-followup-mllib.
2016-01-10 12:38:57 -08:00
Sean Owen 659fd9d04b [SPARK-4819] Remove Guava's "Optional" from public API
Replace Guava `Optional` with (an API clone of) Java 8 `java.util.Optional` (edit: and a clone of Guava `Optional`)

See also https://github.com/apache/spark/pull/10512

Author: Sean Owen <sowen@cloudera.com>

Closes #10513 from srowen/SPARK-4819.
2016-01-08 13:02:30 -08:00
Udo Klein 8c70cb4c62 fixed numVertices in transitive closure example
Author: Udo Klein <git@blinkenlight.net>

Closes #10642 from udoklein/patch-2.
2016-01-08 20:32:37 +00:00
Sean Owen b9c8353378 [SPARK-12618][CORE][STREAMING][SQL] Clean up build warnings: 2.0.0 edition
Fix most build warnings: mostly deprecated API usages. I'll annotate some of the changes below. CC rxin who is leading the charge to remove the deprecated APIs.

Author: Sean Owen <sowen@cloudera.com>

Closes #10570 from srowen/SPARK-12618.
2016-01-08 17:47:44 +00:00
Shixiong Zhu c0c397509b [SPARK-12510][STREAMING] Refactor ActorReceiver to support Java
This PR includes the following changes:

1. Rename `ActorReceiver` to `ActorReceiverSupervisor`
2. Remove `ActorHelper`
3. Add a new `ActorReceiver` for Scala and `JavaActorReceiver` for Java
4. Add `JavaActorWordCount` example

Author: Shixiong Zhu <shixiong@databricks.com>

Closes #10457 from zsxwing/java-actor-stream.
2016-01-07 15:26:55 -08:00
Jacek Laskowski 8113dbda0b [STREAMING][DOCS][EXAMPLES] Minor fixes
Author: Jacek Laskowski <jacek@japila.pl>

Closes #10603 from jaceklaskowski/streaming-actor-custom-receiver.
2016-01-07 00:27:13 -08:00
Reynold Xin 8ce645d4ee [SPARK-12615] Remove some deprecated APIs in RDD/SparkContext
I looked at each case individually and it looks like they can all be removed. The only one that I had to think twice was toArray (I even thought about un-deprecating it, until I realized it was a problem in Java to have toArray returning java.util.List).

Author: Reynold Xin <rxin@databricks.com>

Closes #10569 from rxin/SPARK-12615.
2016-01-05 11:10:14 -08:00
Marcelo Vanzin 7058dc1150 [SPARK-3873][EXAMPLES] Import ordering fixes.
Author: Marcelo Vanzin <vanzin@cloudera.com>

Closes #10575 from vanzin/SPARK-3873-examples.
2016-01-04 22:42:54 -08:00
Sean Owen 15bd73627e [SPARK-12481][CORE][STREAMING][SQL] Remove usage of Hadoop deprecated APIs and reflection that supported 1.x
Remove use of deprecated Hadoop APIs now that 2.2+ is required

Author: Sean Owen <sowen@cloudera.com>

Closes #10446 from srowen/SPARK-12481.
2016-01-02 13:15:53 +00:00
Reynold Xin ee8f8d3184 [SPARK-12588] Remove HttpBroadcast in Spark 2.0.
We switched to TorrentBroadcast in Spark 1.1, and HttpBroadcast has been undocumented since then. It's time to remove it in Spark 2.0.

Author: Reynold Xin <rxin@databricks.com>

Closes #10531 from rxin/SPARK-12588.
2015-12-30 18:07:07 -08:00
Shixiong Zhu 20591afd79 [SPARK-12429][STREAMING][DOC] Add Accumulator and Broadcast example for Streaming
This PR adds Scala, Java and Python examples to show how to use Accumulator and Broadcast in Spark Streaming to support checkpointing.

Author: Shixiong Zhu <shixiong@databricks.com>

Closes #10385 from zsxwing/accumulator-broadcast-example.
2015-12-22 16:39:10 -08:00
Reynold Xin 284e29a870 [SPARK-11808] Remove Bagel.
Author: Reynold Xin <rxin@databricks.com>

Closes #10395 from rxin/SPARK-11808.
2015-12-19 22:40:35 -08:00
Reynold Xin f496031bd2 Bump master version to 2.0.0-SNAPSHOT.
Author: Reynold Xin <rxin@databricks.com>

Closes #10387 from rxin/version-bump.
2015-12-19 15:13:05 -08:00
Jeff L ea59b0f3a6 [SPARK-9057][STREAMING] Twitter example joining to static RDD of word sentiment values
Example of joining a static RDD of word sentiments to a streaming RDD of Tweets in order to demo the usage of the transform() method.

Author: Jeff L <sha0lin@alumni.carnegiemellon.edu>

Closes #8431 from Agent007/SPARK-9057.
2015-12-18 15:06:54 +00:00
Shixiong Zhu 540b5aeadc [SPARK-12410][STREAMING] Fix places that use '.' and '|' directly in split
String.split accepts a regular expression, so we should escape "." and "|".

Author: Shixiong Zhu <shixiong@databricks.com>

Closes #10361 from zsxwing/reg-bug.
2015-12-17 13:23:48 -08:00
Yanbo Liang 1a8b2a17db [SPARK-12364][ML][SPARKR] Add ML example for SparkR
We have DataFrame example for SparkR, we also need to add ML example under ```examples/src/main/r```.

cc mengxr jkbradley shivaram

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #10324 from yanboliang/spark-12364.
2015-12-16 12:59:22 -08:00
Yu ISHIKAWA 7b6dc29d0e [SPARK-6518][MLLIB][EXAMPLE][DOC] Add example code and user guide for bisecting k-means
This PR includes only an example code in order to finish it quickly.
I'll send another PR for the docs soon.

Author: Yu ISHIKAWA <yuu.ishikawa@gmail.com>

Closes #9952 from yu-iskw/SPARK-6518.
2015-12-16 10:55:42 -08:00
Yu ISHIKAWA 26d70bd2b4 [SPARK-12215][ML][DOC] User guide section for KMeans in spark.ml
cc jkbradley

Author: Yu ISHIKAWA <yuu.ishikawa@gmail.com>

Closes #10244 from yu-iskw/SPARK-12215.
2015-12-16 10:43:45 -08:00
Yanbo Liang b24c12d733 [MINOR][ML] Rename weights to coefficients for examples/DeveloperApiExample
Rename ```weights``` to ```coefficients``` for examples/DeveloperApiExample.

cc mengxr jkbradley

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #10280 from yanboliang/spark-coefficients.
2015-12-15 16:29:39 -08:00
Xusen Yin 98b212d36b [SPARK-12199][DOC] Follow-up: Refine example code in ml-features.md
https://issues.apache.org/jira/browse/SPARK-12199

Follow-up PR of SPARK-11551. Fix some errors in ml-features.md

mengxr

Author: Xusen Yin <yinxusen@gmail.com>

Closes #10193 from yinxusen/SPARK-12199.
2015-12-12 17:47:01 -08:00
Yanbo Liang a0ff6d16ef [SPARK-11978][ML] Move dataset_example.py to examples/ml and rename to dataframe_example.py
Since ```Dataset``` has a new meaning in Spark 1.6, we should rename it to avoid confusion.
#9873 finished the work of Scala example, here we focus on the Python one.
Move dataset_example.py to ```examples/ml``` and rename to ```dataframe_example.py```.
BTW, fix minor missing issues of #9873.
cc mengxr

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #9957 from yanboliang/SPARK-11978.
2015-12-11 18:02:24 -08:00
Yanbo Liang 0fb9825556 [SPARK-12146][SPARKR] SparkR jsonFile should support multiple input files
* ```jsonFile``` should support multiple input files, such as:
```R
jsonFile(sqlContext, c(“path1”, “path2”)) # character vector as arguments
jsonFile(sqlContext, “path1,path2”)
```
* Meanwhile, ```jsonFile``` has been deprecated by Spark SQL and will be removed at Spark 2.0. So we mark ```jsonFile``` deprecated and use ```read.json``` at SparkR side.
* Replace all ```jsonFile``` with ```read.json``` at test_sparkSQL.R, but still keep jsonFile test case.
* If this PR is accepted, we should also make almost the same change for ```parquetFile```.

cc felixcheung sun-rui shivaram

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #10145 from yanboliang/spark-12146.
2015-12-11 11:47:35 -08:00
Bryan Cutler 6a6c1fc5c8 [SPARK-11713] [PYSPARK] [STREAMING] Initial RDD updateStateByKey for PySpark
Adding ability to define an initial state RDD for use with updateStateByKey PySpark.  Added unit test and changed stateful_network_wordcount example to use initial RDD.

Author: Bryan Cutler <bjcutler@us.ibm.com>

Closes #10082 from BryanCutler/initial-rdd-updateStateByKey-SPARK-11713.
2015-12-10 14:21:15 -08:00
Tathagata Das bd2cd4f53d [SPARK-12244][SPARK-12245][STREAMING] Rename trackStateByKey to mapWithState and change tracking function signature
SPARK-12244:

Based on feedback from early users and personal experience attempting to explain it, the name trackStateByKey had two problem.
"trackState" is a completely new term which really does not give any intuition on what the operation is
the resultant data stream of objects returned by the function is called in docs as the "emitted" data for the lack of a better.
"mapWithState" makes sense because the API is like a mapping function like (Key, Value) => T with State as an additional parameter. The resultant data stream is "mapped data". So both problems are solved.

SPARK-12245:

From initial experiences, not having the key in the function makes it hard to return mapped stuff, as the whole information of the records is not there. Basically the user is restricted to doing something like mapValue() instead of map(). So adding the key as a parameter.

Author: Tathagata Das <tathagata.das1565@gmail.com>

Closes #10224 from tdas/rename.
2015-12-09 20:47:15 -08:00
Xusen Yin 051c6a066f [SPARK-11551][DOC] Replace example code in ml-features.md using include_example
PR on behalf of somideshmukh, thanks!

Author: Xusen Yin <yinxusen@gmail.com>
Author: somideshmukh <somilde@us.ibm.com>

Closes #10219 from yinxusen/SPARK-11551.
2015-12-09 12:00:48 -08:00
BenFradet 06746b3005 [SPARK-12159][ML] Add user guide section for IndexToString transformer
Documentation regarding the `IndexToString` label transformer with code snippets in Scala/Java/Python.

Author: BenFradet <benjamin.fradet@gmail.com>

Closes #10166 from BenFradet/SPARK-12159.
2015-12-08 12:45:34 -08:00
Yuhao Yang 5cb4695051 [SPARK-11605][MLLIB] ML 1.6 QA: API: Java compatibility, docs
jira: https://issues.apache.org/jira/browse/SPARK-11605
Check Java compatibility for MLlib for this release.

fix:

1. `StreamingTest.registerStream` needs java friendly interface.

2. `GradientBoostedTreesModel.computeInitialPredictionAndError` and `GradientBoostedTreesModel.updatePredictionError` has java compatibility issue. Mark them as `developerAPI`.

TBD:
[updated] no fix for now per discussion.
`org.apache.spark.mllib.classification.LogisticRegressionModel`
`public scala.Option<java.lang.Object> getThreshold();` has wrong return type for Java invocation.
`SVMModel` has the similar issue.

Yet adding a `scala.Option<java.util.Double> getThreshold()` would result in an overloading error due to the same function signature. And adding a new function with different name seems to be not necessary.

cc jkbradley feynmanliang

Author: Yuhao Yang <hhbyyh@gmail.com>

Closes #10102 from hhbyyh/javaAPI.
2015-12-08 11:46:26 -08:00
Yuhao Yang 872a2ee281 [SPARK-10393] use ML pipeline in LDA example
jira: https://issues.apache.org/jira/browse/SPARK-10393

Since the logic of the text processing part has been moved to ML estimators/transformers, replace the related code in LDA Example with the ML pipeline.

Author: Yuhao Yang <hhbyyh@gmail.com>
Author: yuhaoyang <yuhao@zhanglipings-iMac.local>

Closes #8551 from hhbyyh/ldaExUpdate.
2015-12-08 10:29:51 -08:00
Cheng Lian da2012a0e1 [SPARK-11551][DOC][EXAMPLE] Revert PR #10002
This reverts PR #10002, commit 78209b0cca.

The original PR wasn't tested on Jenkins before being merged.

Author: Cheng Lian <lian@databricks.com>

Closes #10200 from liancheng/revert-pr-10002.
2015-12-08 19:18:59 +08:00
Yanbo Liang 4a39b5a1be [SPARK-11958][SPARK-11957][ML][DOC] SQLTransformer user guide and example code
Add ```SQLTransformer``` user guide, example code and make Scala API doc more clear.

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #10006 from yanboliang/spark-11958.
2015-12-07 23:50:57 -08:00
somideshmukh 78209b0cca [SPARK-11551][DOC][EXAMPLE] Replace example code in ml-features.md using include_example
Made new patch contaning only markdown examples moved to exmaple/folder.
Ony three  java code were not shfted since they were contaning compliation error ,these classes are
1)StandardScale 2)NormalizerExample 3)VectorIndexer

Author: Xusen Yin <yinxusen@gmail.com>
Author: somideshmukh <somilde@us.ibm.com>

Closes #10002 from somideshmukh/SomilBranch1.33.
2015-12-07 23:26:34 -08:00
Xusen Yin 871e85d9c1 [SPARK-11963][DOC] Add docs for QuantileDiscretizer
https://issues.apache.org/jira/browse/SPARK-11963

Author: Xusen Yin <yinxusen@gmail.com>

Closes #9962 from yinxusen/SPARK-11963.
2015-12-07 13:16:47 -08:00
Shixiong Zhu 3af53e61fd [SPARK-12084][CORE] Fix codes that uses ByteBuffer.array incorrectly
`ByteBuffer` doesn't guarantee all contents in `ByteBuffer.array` are valid. E.g, a ByteBuffer returned by `ByteBuffer.slice`. We should not use the whole content of `ByteBuffer` unless we know that's correct.

This patch fixed all places that use `ByteBuffer.array` incorrectly.

Author: Shixiong Zhu <shixiong@databricks.com>

Closes #10083 from zsxwing/bytebuffer-array.
2015-12-04 17:02:04 -08:00
Josh Rosen b7204e1d41 [SPARK-12112][BUILD] Upgrade to SBT 0.13.9
We should upgrade to SBT 0.13.9, since this is a requirement in order to use SBT's new Maven-style resolution features (which will be done in a separate patch, because it's blocked by some binary compatibility issues in the POM reader plugin).

I also upgraded Scalastyle to version 0.8.0, which was necessary in order to fix a Scala 2.10.5 compatibility issue (see https://github.com/scalastyle/scalastyle/issues/156). The newer Scalastyle is slightly stricter about whitespace surrounding tokens, so I fixed the new style violations.

Author: Josh Rosen <joshrosen@databricks.com>

Closes #10112 from JoshRosen/upgrade-to-sbt-0.13.9.
2015-12-05 08:15:30 +08:00
Dmitry Erastov d0d8222778 [SPARK-6990][BUILD] Add Java linting script; fix minor warnings
This replaces https://github.com/apache/spark/pull/9696

Invoke Checkstyle and print any errors to the console, failing the step.
Use Google's style rules modified according to
https://cwiki.apache.org/confluence/display/SPARK/Spark+Code+Style+Guide
Some important checks are disabled (see TODOs in `checkstyle.xml`) due to
multiple violations being present in the codebase.

Suggest fixing those TODOs in a separate PR(s).

More on Checkstyle can be found on the [official website](http://checkstyle.sourceforge.net/).

Sample output (from [build 46345](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/46345/consoleFull)) (duplicated because I run the build twice with different profiles):

> Checkstyle checks failed at following occurrences:
[ERROR] src/main/java/org/apache/spark/sql/execution/datasources/parquet/UnsafeRowParquetRecordReader.java:[217,7] (coding) MissingSwitchDefault: switch without "default" clause.
> [ERROR] src/main/java/org/apache/spark/sql/execution/datasources/parquet/SpecificParquetRecordReaderBase.java:[198,10] (modifier) ModifierOrder: 'protected' modifier out of order with the JLS suggestions.
> [ERROR] src/main/java/org/apache/spark/sql/execution/datasources/parquet/UnsafeRowParquetRecordReader.java:[217,7] (coding) MissingSwitchDefault: switch without "default" clause.
> [ERROR] src/main/java/org/apache/spark/sql/execution/datasources/parquet/SpecificParquetRecordReaderBase.java:[198,10] (modifier) ModifierOrder: 'protected' modifier out of order with the JLS suggestions.
> [error] running /home/jenkins/workspace/SparkPullRequestBuilder2/dev/lint-java ; received return code 1

Also fix some of the minor violations that didn't require sweeping changes.

Apologies for the previous botched PRs - I finally figured out the issue.

cr: JoshRosen, pwendell

> I state that the contribution is my original work, and I license the work to the project under the project's open source license.

Author: Dmitry Erastov <derastov@gmail.com>

Closes #9867 from dskrvk/master.
2015-12-04 12:03:45 -08:00
Xusen Yin e76431f886 [SPARK-11961][DOC] Add docs of ChiSqSelector
https://issues.apache.org/jira/browse/SPARK-11961

Author: Xusen Yin <yinxusen@gmail.com>

Closes #9965 from yinxusen/SPARK-11961.
2015-12-01 15:21:53 -08:00
Feynman Liang 5535888930 [SPARK-11960][MLLIB][DOC] User guide for streaming tests
CC jkbradley mengxr josepablocam

Author: Feynman Liang <feynman.liang@gmail.com>

Closes #10005 from feynmanliang/streaming-test-user-guide.
2015-11-30 15:38:44 -08:00
Yanbo Liang de64b65f7c [SPARK-11975][ML] Remove duplicate mllib example (DT/RF/GBT in Java/Python)
Remove duplicate mllib example (DT/RF/GBT in Java/Python).
Since we have tutorial code for DT/RF/GBT classification/regression in Scala/Java/Python and example applications for DT/RF/GBT in Scala, so we mark these as duplicated and remove them.
mengxr

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #9954 from yanboliang/SPARK-11975.
2015-11-30 15:01:08 -08:00
Yuhao Yang e232720a65 [SPARK-11689][ML] Add user guide and example code for LDA under spark.ml
jira: https://issues.apache.org/jira/browse/SPARK-11689

Add simple user guide for LDA under spark.ml and example code under examples/. Use include_example to include example code in the user guide markdown. Check SPARK-11606 for instructions.

Original PR is reverted due to document build error. https://github.com/apache/spark/pull/9722

mengxr feynmanliang yinxusen  Sorry for the troubling.

Author: Yuhao Yang <hhbyyh@gmail.com>

Closes #9974 from hhbyyh/ldaMLExample.
2015-11-30 14:56:51 -08:00
Yanbo Liang 56a0aba0a6 [SPARK-11952][ML] Remove duplicate ml examples
Remove duplicate ml examples (only for ml).  mengxr

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #9933 from yanboliang/SPARK-11685.
2015-11-24 09:52:53 -08:00
Yanbo Liang 98d7ec7df4 [SPARK-11920][ML][DOC] ML LinearRegression should use correct dataset in examples and user guide doc
ML ```LinearRegression``` use ```data/mllib/sample_libsvm_data.txt``` as dataset in examples and user guide doc, but it's actually classification dataset rather than regression dataset. We should use ```data/mllib/sample_linear_regression_data.txt``` instead.
The deeper causes is that ```LinearRegression``` with "normal" solver can not solve this dataset correctly, may be due to the ill condition and unreasonable label. This issue has been reported at [SPARK-11918](https://issues.apache.org/jira/browse/SPARK-11918).
It will confuse users if they run the example code but get exception, so we should make this change which can clearly illustrate the usage of ```LinearRegression``` algorithm.

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #9905 from yanboliang/spark-11920.
2015-11-23 11:51:29 -08:00
Xiangrui Meng fe89c1817d [SPARK-11895][ML] rename and refactor DatasetExample under mllib/examples
We used the name `Dataset` to refer to `SchemaRDD` in 1.2 in ML pipelines and created this example file. Since `Dataset` has a new meaning in Spark 1.6, we should rename it to avoid confusion. This PR also removes support for dense format to simplify the example code.

cc: yinxusen

Author: Xiangrui Meng <meng@databricks.com>

Closes #9873 from mengxr/SPARK-11895.
2015-11-22 21:45:46 -08:00
Xiangrui Meng a2dce22e0a Revert "[SPARK-11689][ML] Add user guide and example code for LDA under spark.ml"
This reverts commit e359d5dcf5.
2015-11-20 16:51:47 -08:00
Vikas Nelamangala ed47b1e660 [SPARK-11549][DOCS] Replace example code in mllib-evaluation-metrics.md using include_example
Author: Vikas Nelamangala <vikasnelamangala@Vikass-MacBook-Pro.local>

Closes #9689 from vikasnp/master.
2015-11-20 15:18:41 -08:00
Yuhao Yang e359d5dcf5 [SPARK-11689][ML] Add user guide and example code for LDA under spark.ml
jira: https://issues.apache.org/jira/browse/SPARK-11689

Add simple user guide for LDA under spark.ml and example code under examples/. Use include_example to include example code in the user guide markdown. Check SPARK-11606 for instructions.

Author: Yuhao Yang <hhbyyh@gmail.com>

Closes #9722 from hhbyyh/ldaMLExample.
2015-11-20 09:57:09 -08:00
Yuhao Yang 67c75828ff [SPARK-11816][ML] fix some style issue in ML/MLlib examples
jira: https://issues.apache.org/jira/browse/SPARK-11816
Currently I only fixed some obvious comments issue like
// scalastyle:off println
on the bottom.

Yet the style in examples is not quite consistent, like only half of the examples  are with
// Example usage: ./bin/run-example mllib.FPGrowthExample \,

Author: Yuhao Yang <hhbyyh@gmail.com>

Closes #9808 from hhbyyh/exampleStyle.
2015-11-18 18:49:46 -08:00
Josh Rosen 4b11712190 [SPARK-11495] Fix potential socket / file handle leaks that were found via static analysis
The HP Fortify Opens Source Review team (https://www.hpfod.com/open-source-review-project) reported a handful of potential resource leaks that were discovered using their static analysis tool. We should fix the issues identified by their scan.

Author: Josh Rosen <joshrosen@databricks.com>

Closes #9455 from JoshRosen/fix-potential-resource-leaks.
2015-11-18 16:00:35 -08:00
Viveka Kulharia 1429e0a2b5 rmse was wrongly calculated
It was multiplying with U instaed of dividing by U

Author: Viveka Kulharia <vivkul@iitk.ac.in>

Closes #9771 from vivkul/patch-1.
2015-11-18 09:10:15 +00:00
Xusen Yin 9154f89bef [SPARK-11728] Replace example code in ml-ensembles.md using include_example
JIRA issue https://issues.apache.org/jira/browse/SPARK-11728.

The ml-ensembles.md file contains `OneVsRestExample`. Instead of writing new code files of two `OneVsRestExample`s, I use two existing files in the examples directory, they are `OneVsRestExample.scala` and `JavaOneVsRestExample.scala`.

Author: Xusen Yin <yinxusen@gmail.com>

Closes #9716 from yinxusen/SPARK-11728.
2015-11-17 23:44:06 -08:00
Rohan Bhanderi e29656f8e7 [MINOR] Correct comments in JavaDirectKafkaWordCount
Author: Rohan Bhanderi <rohan.bhanderi@sjsu.edu>

Closes #9781 from RohanBhanderi/patch-3.
2015-11-17 15:45:46 -08:00
Xusen Yin 328eb49e62 [SPARK-11729] Replace example code in ml-linear-methods.md using include_example
JIRA link: https://issues.apache.org/jira/browse/SPARK-11729

Author: Xusen Yin <yinxusen@gmail.com>

Closes #9713 from yinxusen/SPARK-11729.
2015-11-17 13:59:59 -08:00
jerryshao bd10eb81c9 [EXAMPLE][MINOR] Add missing awaitTermination in click stream example
Author: jerryshao <sshao@hortonworks.com>

Closes #9730 from jerryshao/clickstream-fix.
2015-11-16 17:02:21 -08:00
Rohan Bhanderi 22e96b87fb Typo in comment: use 2 seconds instead of 1
Use 2 seconds batch size as duration specified in JavaStreamingContext constructor is 2000 ms

Author: Rohan Bhanderi <rohan.bhanderi@sjsu.edu>

Closes #9714 from RohanBhanderi/patch-2.
2015-11-14 13:38:53 +00:00
Yanbo Liang 99693fef0a [SPARK-11723][ML][DOC] Use LibSVM data source rather than MLUtils.loadLibSVMFile to load DataFrame
Use LibSVM data source rather than MLUtils.loadLibSVMFile to load DataFrame, include:
* Use libSVM data source for all example codes under examples/ml, and remove unused import.
* Use libSVM data source for user guides under ml-*** which were omitted by #8697.
* Fix bug: We should use ```sqlContext.read().format("libsvm").load(path)``` at Java side, but the API doc and user guides misuse as ```sqlContext.read.format("libsvm").load(path)```.
* Code cleanup.

mengxr

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #9690 from yanboliang/spark-11723.
2015-11-13 08:43:05 -08:00
Rishabh Bhardwaj 61a28486cc [SPARK-11445][DOCS] Replaced example code in mllib-ensembles.md using include_example
I have made the required changes and tested.
Kindly review the changes.

Author: Rishabh Bhardwaj <rbnext29@gmail.com>

Closes #9407 from rishabhbhardwaj/SPARK-11445.
2015-11-13 08:36:46 -08:00
Yanbo Liang ea5ae2705a [SPARK-11629][ML][PYSPARK][DOC] Python example code for Multilayer Perceptron Classification
Add Python example code for Multilayer Perceptron Classification, and make example code in user guide document testable. mengxr

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #9594 from yanboliang/spark-11629.
2015-11-12 21:29:43 -08:00
Shixiong Zhu 0f1d00a905 [SPARK-11663][STREAMING] Add Java API for trackStateByKey
TODO
- [x] Add Java API
- [x] Add API tests
- [x] Add a function test

Author: Shixiong Zhu <shixiong@databricks.com>

Closes #9636 from zsxwing/java-track.
2015-11-12 17:48:43 -08:00
Tathagata Das 99f5f98861 [SPARK-11290][STREAMING] Basic implementation of trackStateByKey
Current updateStateByKey provides stateful processing in Spark Streaming. It allows the user to maintain per-key state and manage that state using an updateFunction. The updateFunction is called for each key, and it uses new data and existing state of the key, to generate an updated state. However, based on community feedback, we have learnt the following lessons.
* Need for more optimized state management that does not scan every key
* Need to make it easier to implement common use cases - (a) timeout of idle data, (b) returning items other than state

The high level idea that of this PR
* Introduce a new API trackStateByKey that, allows the user to update per-key state, and emit arbitrary records. The new API is necessary as this will have significantly different semantics than the existing updateStateByKey API. This API will have direct support for timeouts.
* Internally, the system will keep the state data as a map/list within the partitions of the state RDDs. The new data RDDs will be partitioned appropriately, and for all the key-value data, it will lookup the map/list in the state RDD partition and create a new list/map of updated state data. The new state RDD partition will be created based on the update data and if necessary, with old data.
Here is the detailed design doc. Please take a look and provide feedback as comments.
https://docs.google.com/document/d/1NoALLyd83zGs1hNGMm0Pc5YOVgiPpMHugGMk6COqxxE/edit#heading=h.ph3w0clkd4em

This is still WIP. Major things left to be done.
- [x] Implement basic functionality of state tracking, with initial RDD and timeouts
- [x] Unit tests for state tracking
- [x] Unit tests for initial RDD and timeout
- [ ] Unit tests for TrackStateRDD
       - [x] state creating, updating, removing
       - [ ] emitting
       - [ ] checkpointing
- [x] Misc unit tests for State, TrackStateSpec, etc.
- [x] Update docs and experimental tags

Author: Tathagata Das <tathagata.das1565@gmail.com>

Closes #9256 from tdas/trackStateByKey.
2015-11-10 23:16:18 -08:00
Pravin Gadakh 638c51d938 [SPARK-11550][DOCS] Replace example code in mllib-optimization.md using include_example
Author: Pravin Gadakh <pravingadakh177@gmail.com>

Closes #9516 from pravingadakh/SPARK-11550.
2015-11-10 14:47:04 -08:00
Xusen Yin a81f47ff74 [SPARK-11382] Replace example code in mllib-decision-tree.md using include_example
https://issues.apache.org/jira/browse/SPARK-11382

B.T.W. I fix an error in naive_bayes_example.py.

Author: Xusen Yin <yinxusen@gmail.com>

Closes #9596 from yinxusen/SPARK-11382.
2015-11-10 10:05:53 -08:00
Rishabh Bhardwaj b7720fa455 [SPARK-11548][DOCS] Replaced example code in mllib-collaborative-filtering.md using include_example
Kindly review the changes.

Author: Rishabh Bhardwaj <rbnext29@gmail.com>

Closes #9519 from rishabhbhardwaj/SPARK-11337.
2015-11-09 14:27:36 -08:00
sachin aggarwal 51d41e4b1a [SPARK-11552][DOCS][Replaced example code in ml-decision-tree.md using include_example]
I have tested it on my local, it is working fine, please review

Author: sachin aggarwal <different.sachin@gmail.com>

Closes #9539 from agsachin/SPARK-11552-real.
2015-11-09 14:25:42 -08:00
Yanbo Liang d50a66cc04 [SPARK-10689][ML][DOC] User guide and example code for AFTSurvivalRegression
Add user guide and example code for ```AFTSurvivalRegression```.

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #9491 from yanboliang/spark-10689.
2015-11-09 08:57:29 -08:00
Pravin Gadakh 820064e613 [SPARK-11380][DOCS] Replace example code in mllib-frequent-pattern-mining.md using include_example
Author: Pravin Gadakh <pravingadakh177@gmail.com>
Author: Pravin Gadakh <prgadakh@in.ibm.com>

Closes #9340 from pravingadakh/SPARK-11380.
2015-11-04 08:32:08 -08:00
Rishabh Bhardwaj 2804674a7a [SPARK-11383][DOCS] Replaced example code in mllib-naive-bayes.md/mllib-isotonic-regression.md using include_example
I have made the required changes in mllib-naive-bayes.md/mllib-isotonic-regression.md and also verified them.
Kindle Review it.

Author: Rishabh Bhardwaj <rbnext29@gmail.com>

Closes #9353 from rishabhbhardwaj/SPARK-11383.
2015-11-02 14:03:50 -08:00
Xusen Yin 943d4fa204 [SPARK-11289][DOC] Substitute code examples in ML features extractors with include_example
mengxr https://issues.apache.org/jira/browse/SPARK-11289

I make some changes in ML feature extractors. I.e. TF-IDF, Word2Vec, and CountVectorizer. I add new example code in spark/examples, hope it is the right place to add those examples.

Author: Xusen Yin <yinxusen@gmail.com>

Closes #9266 from yinxusen/SPARK-11289.
2015-10-26 21:17:53 -07:00
sethah 098be27ad5 [SPARK-9715] [ML] Store numFeatures in all ML PredictionModel types
All prediction models should store `numFeatures` indicating the number of features the model was trained on. Default value of -1 added for backwards compatibility.

Author: sethah <seth.hendrickson16@gmail.com>

Closes #8675 from sethah/SPARK-9715.
2015-09-23 15:00:52 -07:00
Feynman Liang aeef44a3e3 [SPARK-3147] [MLLIB] [STREAMING] Streaming 2-sample statistical significance testing
Implementation of significance testing using Streaming API.

Author: Feynman Liang <fliang@databricks.com>
Author: Feynman Liang <feynman.liang@gmail.com>

Closes #4716 from feynmanliang/ab_testing.
2015-09-21 13:11:28 -07:00
Reynold Xin 09b7e7c198 Update version to 1.6.0-SNAPSHOT.
Author: Reynold Xin <rxin@databricks.com>

Closes #8350 from rxin/1.6.
2015-09-15 00:54:20 -07:00
Josh Rosen b3a7480ab0 [SPARK-10330] Add Scalastyle rule to require use of SparkHadoopUtil JobContext methods
This is a followup to #8499 which adds a Scalastyle rule to mandate the use of SparkHadoopUtil's JobContext accessor methods and fixes the existing violations.

Author: Josh Rosen <joshrosen@databricks.com>

Closes #8521 from JoshRosen/SPARK-10330-part2.
2015-09-12 16:23:55 -07:00
martinzapletal e8ea5bafee [SPARK-9910] [ML] User guide for train validation split
Author: martinzapletal <zapletal-martin@email.cz>

Closes #8377 from zapletal-martin/SPARK-9910.
2015-08-28 21:03:48 -07:00
Shuo Xiang 45723214e6 [SPARK-10336][example] fix not being able to set intercept in LR example
`fitIntercept` is a command line option but not set in the main program.

dbtsai

Author: Shuo Xiang <sxiang@pinterest.com>

Closes #8510 from coderxiang/intercept and squashes the following commits:

57c9b7d [Shuo Xiang] fix not being able to set intercept in LR example
2015-08-28 13:09:13 -07:00