Commit graph

317 commits

Author SHA1 Message Date
Herman van Hovell a9b93e0739 [SPARK-14211][SQL] Remove ANTLR3 based parser
### What changes were proposed in this pull request?

This PR removes the ANTLR3 based parser, and moves the new ANTLR4 based parser into the `org.apache.spark.sql.catalyst.parser package`.

### How was this patch tested?

Existing unit tests.

cc rxin andrewor14 yhuai

Author: Herman van Hovell <hvanhovell@questtec.nl>

Closes #12071 from hvanhovell/SPARK-14211.
2016-03-31 09:25:09 -07:00
Herman van Hovell 600c0b69ca [SPARK-13713][SQL] Migrate parser from ANTLR3 to ANTLR4
### What changes were proposed in this pull request?
The current ANTLR3 parser is quite complex to maintain and suffers from code blow-ups. This PR introduces a new parser that is based on ANTLR4.

This parser is based on the [Presto's SQL parser](https://github.com/facebook/presto/blob/master/presto-parser/src/main/antlr4/com/facebook/presto/sql/parser/SqlBase.g4). The current implementation can parse and create Catalyst and SQL plans. Large parts of the HiveQl DDL and some of the DML functionality is currently missing, the plan is to add this in follow-up PRs.

This PR is a work in progress, and work needs to be done in the following area's:

- [x] Error handling should be improved.
- [x] Documentation should be improved.
- [x] Multi-Insert needs to be tested.
- [ ] Naming and package locations.

### How was this patch tested?

Catalyst and SQL unit tests.

Author: Herman van Hovell <hvanhovell@questtec.nl>

Closes #11557 from hvanhovell/ngParser.
2016-03-28 12:31:12 -07:00
Shixiong Zhu 24587ce433 [SPARK-14073][STREAMING][TEST-MAVEN] Move flume back to Spark
## What changes were proposed in this pull request?

This PR moves flume back to Spark as per the discussion in the dev mail-list.

## How was this patch tested?

Existing Jenkins tests.

Author: Shixiong Zhu <shixiong@databricks.com>

Closes #11895 from zsxwing/move-flume-back.
2016-03-25 17:37:16 -07:00
Holden Karau 55a605763d [SPARK-13887][PYTHON][TRIVIAL][BUILD] Make lint-python script fail fast
## What changes were proposed in this pull request?

Change lint python script to stop on first error rather than building them up so its clearer why we failed (requested by rxin). Also while in the file, remove the commented out code.

## How was this patch tested?

Manually ran lint-python script with & without pep8 errors locally and verified expected results.

Author: Holden Karau <holden@us.ibm.com>

Closes #11898 from holdenk/SPARK-13887-pylint-fast-fail.
2016-03-25 12:53:34 +00:00
Sun Rui 7d1175011c [SPARK-14074][SPARKR] Specify commit sha1 ID when using install_github to install intr package.
## What changes were proposed in this pull request?

In dev/lint-r.R, `install_github` makes our builds depend on a unstable source. This may cause un-expected test failures and then build break. This PR adds a specified commit sha1 ID to `install_github` to get a stable source.

## How was this patch tested?
dev/lint-r

Author: Sun Rui <rui.sun@intel.com>

Closes #11913 from sun-rui/SPARK-14074.
2016-03-23 07:57:03 -07:00
Dongjoon Hyun 20fd254101 [SPARK-14011][CORE][SQL] Enable LineLength Java checkstyle rule
## What changes were proposed in this pull request?

[Spark Coding Style Guide](https://cwiki.apache.org/confluence/display/SPARK/Spark+Code+Style+Guide) has 100-character limit on lines, but it's disabled for Java since 11/09/15. This PR enables **LineLength** checkstyle again. To help that, this also introduces **RedundantImport** and **RedundantModifier**, too. The following is the diff on `checkstyle.xml`.

```xml
-        <!-- TODO: 11/09/15 disabled - the lengths are currently > 100 in many places -->
-        <!--
         <module name="LineLength">
             <property name="max" value="100"/>
             <property name="ignorePattern" value="^package.*|^import.*|a href|href|http://|https://|ftp://"/>
         </module>
-        -->
         <module name="NoLineWrap"/>
         <module name="EmptyBlock">
             <property name="option" value="TEXT"/>
 -167,5 +164,7
         </module>
         <module name="CommentsIndentation"/>
         <module name="UnusedImports"/>
+        <module name="RedundantImport"/>
+        <module name="RedundantModifier"/>
```

## How was this patch tested?

Currently, `lint-java` is disabled in Jenkins. It needs a manual test.
After passing the Jenkins tests, `dev/lint-java` should passes locally.

Author: Dongjoon Hyun <dongjoon@apache.org>

Closes #11831 from dongjoon-hyun/SPARK-14011.
2016-03-21 07:58:57 +00:00
Josh Rosen 82066a1667 [SPARK-13948] MiMa check should catch if the visibility changes to private
MiMa excludes are currently generated using both the current Spark version's classes and Spark 1.2.0's classes, but this doesn't make sense: we should only be ignoring classes which were `private` in the previous Spark version, not classes which became private in the current version.

This patch updates `dev/mima` to only generate excludes with respect to the previous artifacts that MiMa checks against. It also updates `MimaBuild` so that `excludeClass` only applies directly to the class being excluded and not to its companion object (since a class and its companion object can have different accessibility).

Author: Josh Rosen <joshrosen@databricks.com>

Closes #11774 from JoshRosen/SPARK-13948.
2016-03-16 23:02:25 -07:00
Marcelo Vanzin 48978abfa4 [SPARK-13576][BUILD] Don't create assembly for examples.
As part of the goal to stop creating assemblies in Spark, this change
modifies the mvn and sbt builds to not create an assembly for examples.

Instead, dependencies are copied to the build directory (under
target/scala-xx/jars), and in the final archive, into the "examples/jars"
directory.

To avoid having to deal too much with Windows batch files, I made examples
run through the launcher library; the spark-submit launcher now has a
special mode to run examples, which adds all the necessary jars to the
spark-submit command line, and replaces the bash and batch scripts that
were used to run examples. The scripts are now just a thin wrapper around
spark-submit; another advantage is that now all spark-submit options are
supported.

There are a few glitches; in the mvn build, a lot of duplicated dependencies
get copied, because they are promoted to "compile" scope due to extra
dependencies in the examples module (such as HBase). In the sbt build,
all dependencies are copied, because there doesn't seem to be an easy
way to filter things.

I plan to clean some of this up when the rest of the tasks are finished.
When the main assembly is replaced with jars, we can remove duplicate jars
from the examples directory during packaging.

Tested by running SparkPi in: maven build, sbt build, dist created by
make-distribution.sh.

Finally: note that running the "assembly" target in sbt doesn't build
the examples anymore. You need to run "package" for that.

Author: Marcelo Vanzin <vanzin@cloudera.com>

Closes #11452 from vanzin/SPARK-13576.
2016-03-15 09:44:51 -07:00
Shixiong Zhu 06dec37455 [SPARK-13843][STREAMING] Remove streaming-flume, streaming-mqtt, streaming-zeromq, streaming-akka, streaming-twitter to Spark packages
## What changes were proposed in this pull request?

Currently there are a few sub-projects, each for integrating with different external sources for Streaming.  Now that we have better ability to include external libraries (spark packages) and with Spark 2.0 coming up, we can move the following projects out of Spark to https://github.com/spark-packages

- streaming-flume
- streaming-akka
- streaming-mqtt
- streaming-zeromq
- streaming-twitter

They are just some ancillary packages and considering the overhead of maintenance, running tests and PR failures, it's better to maintain them out of Spark. In addition, these projects can have their different release cycles and we can release them faster.

I have already copied these projects to https://github.com/spark-packages

## How was this patch tested?

Jenkins tests

Author: Shixiong Zhu <shixiong@databricks.com>

Closes #11672 from zsxwing/remove-external-pkg.
2016-03-14 16:56:04 -07:00
Josh Rosen 07cb323e7a [SPARK-13848][SPARK-5185] Update to Py4J 0.9.2 in order to fix classloading issue
This patch upgrades Py4J from 0.9.1 to 0.9.2 in order to include a patch which modifies Py4J to use the current thread's ContextClassLoader when performing reflection / class loading. This is necessary in order to fix [SPARK-5185](https://issues.apache.org/jira/browse/SPARK-5185), a longstanding issue affecting the use of `--jars` and `--packages` in PySpark.

In order to demonstrate that the fix works, I removed the workarounds which were added as part of [SPARK-6027](https://issues.apache.org/jira/browse/SPARK-6027) / #4779 and other patches.

Py4J diff: https://github.com/bartdag/py4j/compare/0.9.1...0.9.2

/cc zsxwing tdas davies brkyvz

Author: Josh Rosen <joshrosen@databricks.com>

Closes #11687 from JoshRosen/py4j-0.9.2.
2016-03-14 12:22:02 -07:00
Dongjoon Hyun 473263f959 [SPARK-13834][BUILD] Update sbt and sbt plugins for 2.x.
## What changes were proposed in this pull request?

For 2.0.0, we had better make **sbt** and **sbt plugins** up-to-date. This PR checks the status of each plugins and bumps the followings.

* sbt: 0.13.9 --> 0.13.11
* sbteclipse-plugin: 2.2.0 --> 4.0.0
* sbt-dependency-graph: 0.7.4 --> 0.8.2
* sbt-mima-plugin: 0.1.6 --> 0.1.9
* sbt-revolver: 0.7.2 --> 0.8.0

All other plugins are up-to-date. (Note that `sbt-avro` seems to be change from 0.3.2 to 1.0.1, but it's not published in the repository.)

During upgrade, this PR also updated the following MiMa error. Note that the related excluding filter is already registered correctly. It seems due to the change of MiMa exception result.
```
 // SPARK-12896 Send only accumulator updates to driver, not TaskMetrics
 ProblemFilters.exclude[IncompatibleMethTypeProblem]("org.apache.spark.Accumulable.this"),
-ProblemFilters.exclude[IncompatibleMethTypeProblem]("org.apache.spark.Accumulator.this"),
+ProblemFilters.exclude[DirectMissingMethodProblem]("org.apache.spark.Accumulator.this"),
```

## How was this patch tested?

Pass the Jenkins build.

Author: Dongjoon Hyun <dongjoon@apache.org>

Closes #11669 from dongjoon-hyun/update_mima.
2016-03-13 18:47:04 -07:00
Cheng Lian 6d37e1eb90 [SPARK-13817][BUILD][SQL] Re-enable MiMA and removes object DataFrame
## What changes were proposed in this pull request?

PR #11443 temporarily disabled MiMA check, this PR re-enables it.

One extra change is that `object DataFrame` is also removed. The only purpose of introducing `object DataFrame` was to use it as an internal factory for creating `Dataset[Row]`. By replacing this internal factory with `Dataset.newDataFrame`, both `DataFrame` and `DataFrame$` are entirely removed from the API, so that we can simply put a `MissingClassProblem` filter in `MimaExcludes.scala` for most DataFrame API  changes.

## How was this patch tested?

Tested by MiMA check triggered by Jenkins.

Author: Cheng Lian <lian@databricks.com>

Closes #11656 from liancheng/re-enable-mima.
2016-03-11 22:17:50 +08:00
Josh Rosen 6ca990fb36 [SPARK-13294][PROJECT INFRA] Remove MiMa's dependency on spark-class / Spark assembly
This patch removes the need to build a full Spark assembly before running the `dev/mima` script.

- I modified the `tools` project to remove a direct dependency on Spark, so `sbt/sbt tools/fullClasspath` will now return the classpath for the `GenerateMIMAIgnore` class itself plus its own dependencies.
   - This required me to delete two classes full of dead code that we don't use anymore
- `GenerateMIMAIgnore` now uses [ClassUtil](http://software.clapper.org/classutil/) to find all of the Spark classes rather than our homemade JAR traversal code. The problem in our own code was that it didn't handle folders of classes properly, which is necessary in order to generate excludes with an assembly-free Spark build.
- `./dev/mima` no longer runs through `spark-class`, eliminating the need to reason about classpath ordering between `SPARK_CLASSPATH` and the assembly.

Author: Josh Rosen <joshrosen@databricks.com>

Closes #11178 from JoshRosen/remove-assembly-in-run-tests.
2016-03-10 23:28:34 -08:00
Cheng Lian 1d542785b9 [SPARK-13244][SQL] Migrates DataFrame to Dataset
## What changes were proposed in this pull request?

This PR unifies DataFrame and Dataset by migrating existing DataFrame operations to Dataset and make `DataFrame` a type alias of `Dataset[Row]`.

Most Scala code changes are source compatible, but Java API is broken as Java knows nothing about Scala type alias (mostly replacing `DataFrame` with `Dataset<Row>`).

There are several noticeable API changes related to those returning arrays:

1.  `collect`/`take`

    -   Old APIs in class `DataFrame`:

        ```scala
        def collect(): Array[Row]
        def take(n: Int): Array[Row]
        ```

    -   New APIs in class `Dataset[T]`:

        ```scala
        def collect(): Array[T]
        def take(n: Int): Array[T]

        def collectRows(): Array[Row]
        def takeRows(n: Int): Array[Row]
        ```

    Two specialized methods `collectRows` and `takeRows` are added because Java doesn't support returning generic arrays. Thus, for example, `DataFrame.collect(): Array[T]` actually returns `Object` instead of `Array<T>` from Java side.

    Normally, Java users may fall back to `collectAsList` and `takeAsList`.  The two new specialized versions are added to avoid performance regression in ML related code (but maybe I'm wrong and they are not necessary here).

1.  `randomSplit`

    -   Old APIs in class `DataFrame`:

        ```scala
        def randomSplit(weights: Array[Double], seed: Long): Array[DataFrame]
        def randomSplit(weights: Array[Double]): Array[DataFrame]
        ```

    -   New APIs in class `Dataset[T]`:

        ```scala
        def randomSplit(weights: Array[Double], seed: Long): Array[Dataset[T]]
        def randomSplit(weights: Array[Double]): Array[Dataset[T]]
        ```

    Similar problem as above, but hasn't been addressed for Java API yet.  We can probably add `randomSplitAsList` to fix this one.

1.  `groupBy`

    Some original `DataFrame.groupBy` methods have conflicting signature with original `Dataset.groupBy` methods.  To distinguish these two, typed `Dataset.groupBy` methods are renamed to `groupByKey`.

Other noticeable changes:

1.  Dataset always do eager analysis now

    We used to support disabling DataFrame eager analysis to help reporting partially analyzed malformed logical plan on analysis failure.  However, Dataset encoders requires eager analysi during Dataset construction.  To preserve the error reporting feature, `AnalysisException` now takes an extra `Option[LogicalPlan]` argument to hold the partially analyzed plan, so that we can check the plan tree when reporting test failures.  This plan is passed by `QueryExecution.assertAnalyzed`.

## How was this patch tested?

Existing tests do the work.

## TODO

- [ ] Fix all tests
- [ ] Re-enable MiMA check
- [ ] Update ScalaDoc (`since`, `group`, and example code)

Author: Cheng Lian <lian@databricks.com>
Author: Yin Huai <yhuai@databricks.com>
Author: Wenchen Fan <wenchen@databricks.com>
Author: Cheng Lian <liancheng@users.noreply.github.com>

Closes #11443 from liancheng/ds-to-df.
2016-03-10 17:00:17 -08:00
Sean Owen 927e22eff8 [SPARK-13663][CORE] Upgrade Snappy Java to 1.1.2.1
## What changes were proposed in this pull request?

Update snappy to 1.1.2.1 to pull in a single fix -- the OOM fix we already worked around.
Supersedes https://github.com/apache/spark/pull/11524

## How was this patch tested?

Jenkins tests.

Author: Sean Owen <sowen@cloudera.com>

Closes #11631 from srowen/SPARK-13663.
2016-03-10 15:17:37 +00:00
Sean Owen 256704c771 [SPARK-13595][BUILD] Move docker, extras modules into external
## What changes were proposed in this pull request?

Move `docker` dirs out of top level into `external/`; move `extras/*` into `external/`

## How was this patch tested?

This is tested with Jenkins tests.

Author: Sean Owen <sowen@cloudera.com>

Closes #11523 from srowen/SPARK-13595.
2016-03-09 18:27:44 +00:00
Dongjoon Hyun 7771c7314f [HOT-FIX][BUILD] Use the new location of checkstyle-suppressions.xml
## What changes were proposed in this pull request?

This PR fixes `dev/lint-java` and `mvn checkstyle:check` failures due the recent file location change.
The following is the error message of current master.
```
Checkstyle checks failed at following occurrences:
[ERROR] Failed to execute goal org.apache.maven.plugins:maven-checkstyle-plugin:2.17:check (default-cli) on project spark-parent_2.11: Failed during checkstyle configuration: cannot initialize module SuppressionFilter - Cannot set property 'file' to 'checkstyle-suppressions.xml' in module SuppressionFilter: InvocationTargetException: Unable to find: checkstyle-suppressions.xml -> [Help 1]
```

## How was this patch tested?

Manual. The following command should run correctly.
```
./dev/lint-java
mvn checkstyle:check
```

Author: Dongjoon Hyun <dongjoon@apache.org>

Closes #11567 from dongjoon-hyun/hotfix_checkstyle_suppression.
2016-03-08 10:27:52 +00:00
Sean Owen 0eea12a3d9 [SPARK-13596][BUILD] Move misc top-level build files into appropriate subdirs
## What changes were proposed in this pull request?

Move many top-level files in dev/ or other appropriate directory. In particular, put `make-distribution.sh` in `dev` and update docs accordingly. Remove deprecated `sbt/sbt`.

I was (so far) unable to figure out how to move `tox.ini`. `scalastyle-config.xml` should be movable but edits to the project `.sbt` files didn't work; config file location is updatable for compile but not test scope.

## How was this patch tested?

`./dev/run-tests` to verify RAT and checkstyle work. Jenkins tests for the rest.

Author: Sean Owen <sowen@cloudera.com>

Closes #11522 from srowen/SPARK-13596.
2016-03-07 14:48:02 -08:00
Dongjoon Hyun 941b270b70 [MINOR] Fix typos in comments and testcase name of code
## What changes were proposed in this pull request?

This PR fixes typos in comments and testcase name of code.

## How was this patch tested?

manual.

Author: Dongjoon Hyun <dongjoon@apache.org>

Closes #11481 from dongjoon-hyun/minor_fix_typos_in_code.
2016-03-03 22:42:12 +00:00
Steve Loughran 9a48c656ee [SPARK-13599][BUILD] remove transitive groovy dependencies from Hive
## What changes were proposed in this pull request?

Modifies the dependency declarations of the all the hive artifacts, to explicitly exclude the groovy-all JAR.

This stops the groovy classes *and everything else in that uber-JAR* from getting into spark-assembly JAR.

## How was this patch tested?

1. Pre-patch build was made: `mvn clean install -Pyarn,hive,hive-thriftserver`
1. spark-assembly expanded, observed to have the org.codehaus.groovy packages and JARs
1. A maven dependency tree was created `mvn dependency:tree -Pyarn,hive,hive-thriftserver  -Dverbose > target/dependencies.txt`
1. This text file examined to confirm that groovy was being imported as a dependency of `org.spark-project.hive`
1. Patch applied
1. Repeated step1: clean build of project with ` -Pyarn,hive,hive-thriftserver` set
1. Examined created spark-assembly, verified no org.codehaus packages
1. Verified that the maven dependency tree no longer references groovy

Note also that the size of the assembly JAR was 181628646 bytes before this patch, 166318515 after —15MB smaller. That's a good metric of things being excluded

Author: Steve Loughran <stevel@hortonworks.com>

Closes #11449 from steveloughran/fixes/SPARK-13599-groovy-dependency.
2016-03-03 09:35:49 -08:00
Wojciech Jurczyk 75e618def1 Fix run-tests.py typos
## What changes were proposed in this pull request?

The PR fixes typos in an error message in dev/run-tests.py.

Author: Wojciech Jurczyk <wojciech.jurczyk@codilime.com>

Closes #11467 from wjur/wjur/typos_run_tests.
2016-03-02 15:32:32 +00:00
jerryshao b4d096ded6 [BUILD][MINOR] Fix SBT build error with network-yarn module
## What changes were proposed in this pull request?

```
error] Expected ID character
[error] Not a valid command: common (similar: completions)
[error] Expected project ID
[error] Expected configuration
[error] Expected ':' (if selecting a configuration)
[error] Expected key
[error] Not a valid key: common (similar: commands)
[error] common/network-yarn/test
```

`common/network-yarn` is not a valid sbt project, we should change to `network-yarn`.

## How was this patch tested?

Locally run the the unit-test.

CC rxin , we should either change here, or change the sbt project name.

Author: jerryshao <sshao@hortonworks.com>

Closes #11456 from jerryshao/build-fix.
2016-03-01 21:28:30 -08:00
Reynold Xin 9e01dcc644 [SPARK-13529][BUILD] Move network/* modules into common/network-*
## What changes were proposed in this pull request?
As the title says, this moves the three modules currently in network/ into common/network-*. This removes one top level, non-user-facing folder.

## How was this patch tested?
Compilation and existing tests. We should run both SBT and Maven.

Author: Reynold Xin <rxin@databricks.com>

Closes #11409 from rxin/SPARK-13529.
2016-02-28 17:25:07 -08:00
mark800 ec0cc75e15 [SPARK-7483][MLLIB] Upgrade Chill to 0.7.2 to support Kryo with FPGrowth
It registers more Scala classes, including ListBuffer to support Kryo with FPGrowth.

See https://github.com/twitter/chill/releases for Chill's change log.

Author: mark800 <yky800@126.com>

Closes #11041 from mark800/master.
2016-02-27 13:50:37 +00:00
Josh Rosen f77dc4e1e2 [SPARK-13474][PROJECT INFRA] Update packaging scripts to push artifacts to home.apache.org
Due to the people.apache.org -> home.apache.org migration, we need to update our packaging scripts to publish artifacts to the new server. Because the new server only supports sftp instead of ssh, we need to update the scripts to use lftp instead of ssh + rsync.

Author: Josh Rosen <joshrosen@databricks.com>

Closes #11350 from JoshRosen/update-release-scripts-for-apache-home.
2016-02-26 18:40:00 -08:00
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
Holden Karau 64515e5fbf [SPARK-13154][PYTHON] Add linting for pydocs
We should have lint rules using sphinx to automatically catch the pydoc issues that are sometimes introduced.

Right now ./dev/lint-python will skip building the docs if sphinx isn't present - but it might make sense to fail hard - just a matter of if we want to insist all PySpark developers have sphinx present.

Author: Holden Karau <holden@us.ibm.com>

Closes #11109 from holdenk/SPARK-13154-add-pydoc-lint-for-docs.
2016-02-12 02:13:06 -08:00
Luciano Resende 2dbb916440 [SPARK-13189] Cleanup build references to Scala 2.10
Author: Luciano Resende <lresende@apache.org>

Closes #11092 from lresende/SPARK-13189.
2016-02-09 11:56:25 -08:00
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
Josh Rosen 41f0c85f9b [SPARK-13023][PROJECT INFRA] Fix handling of root module in modules_to_test()
There's a minor bug in how we handle the `root` module in the `modules_to_test()` function in `dev/run-tests.py`: since `root` now depends on `build` (since every test needs to run on any build test), we now need to check for the presence of root in `modules_to_test` instead of `changed_modules`.

Author: Josh Rosen <joshrosen@databricks.com>

Closes #10933 from JoshRosen/build-module-fix.
2016-01-27 08:32:13 -08:00
Josh Rosen ee74498de3 [SPARK-8725][PROJECT-INFRA] Test modules in topologically-sorted order in dev/run-tests
This patch improves our `dev/run-tests` script to test modules in a topologically-sorted order based on modules' dependencies.  This will help to ensure that bugs in upstream projects are not misattributed to downstream projects because those projects' tests were the first ones to exhibit the failure

Topological sorting is also useful for shortening the feedback loop when testing pull requests: if I make a change in SQL then the SQL tests should run before MLlib, not after.

In addition, this patch also updates our test module definitions to split `sql` into `catalyst`, `sql`, and `hive` in order to allow more tests to be skipped when changing only `hive/` files.

Author: Josh Rosen <joshrosen@databricks.com>

Closes #10885 from JoshRosen/SPARK-8725.
2016-01-26 14:20:11 -08:00
Holden Karau a83400135d [SPARK-10498][TOOLS][BUILD] Add requirements.txt file for dev python tools
Minor since so few people use them, but it would probably be good to have a requirements file for our python release tools for easier setup (also version pinning).

cc JoshRosen who looked at the original JIRA.

Author: Holden Karau <holden@us.ibm.com>

Closes #10871 from holdenk/SPARK-10498-add-requirements-file-for-dev-python-tools.
2016-01-24 11:48:28 -08:00
Cheng Lian 1c690ddafa [SPARK-12933][SQL] Initial implementation of Count-Min sketch
This PR adds an initial implementation of count min sketch, contained in a new module spark-sketch under `common/sketch`. The implementation is based on the [`CountMinSketch` class in stream-lib][1].

As required by the [design doc][2], spark-sketch should have no external dependency.
Two classes, `Murmur3_x86_32` and `Platform` are copied to spark-sketch from spark-unsafe for hashing facilities. They'll also be used in the upcoming bloom filter implementation.

The following features will be added in future follow-up PRs:

- Serialization support
- DataFrame API integration

[1]: aac6b4d23a/src/main/java/com/clearspring/analytics/stream/frequency/CountMinSketch.java
[2]: https://issues.apache.org/jira/secure/attachment/12782378/BloomFilterandCount-MinSketchinSpark2.0.pdf

Author: Cheng Lian <lian@databricks.com>

Closes #10851 from liancheng/count-min-sketch.
2016-01-23 00:34:55 -08:00
Shixiong Zhu bc1babd63d [SPARK-7997][CORE] Remove Akka from Spark Core and Streaming
- Remove Akka dependency from core. Note: the streaming-akka project still uses Akka.
- Remove HttpFileServer
- Remove Akka configs from SparkConf and SSLOptions
- Rename `spark.akka.frameSize` to `spark.rpc.message.maxSize`. I think it's still worth to keep this config because using `DirectTaskResult` or `IndirectTaskResult`  depends on it.
- Update comments and docs

Author: Shixiong Zhu <shixiong@databricks.com>

Closes #10854 from zsxwing/remove-akka.
2016-01-22 21:20:04 -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
Shixiong Zhu 4bcea1b859 Revert "[SPARK-12829] Turn Java style checker on"
This reverts commit 591c88c9e2. `lint-java` doesn't work on a machine with a clean Maven cache.
2016-01-18 16:26:52 -08:00
Josh Rosen 8dbbf3e75e [SPARK-12842][TEST-HADOOP2.7] Add Hadoop 2.7 build profile
This patch adds a Hadoop 2.7 build profile in order to let us automate tests against that version.

/cc rxin srowen

Author: Josh Rosen <joshrosen@databricks.com>

Closes #10775 from JoshRosen/add-hadoop-2.7-profile.
2016-01-15 17:07:24 -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
Hossein 5f83c6991c [SPARK-12833][SQL] Initial import of spark-csv
CSV is the most common data format in the "small data" world. It is often the first format people want to try when they see Spark on a single node. Having to rely on a 3rd party component for this leads to poor user experience for new users. This PR merges the popular spark-csv data source package (https://github.com/databricks/spark-csv) with SparkSQL.

This is a first PR to bring the functionality to spark 2.0 master. We will complete items outlines in the design document (see JIRA attachment) in follow up pull requests.

Author: Hossein <hossein@databricks.com>
Author: Reynold Xin <rxin@databricks.com>

Closes #10766 from rxin/csv.
2016-01-15 11:46:46 -08:00
Reynold Xin 591c88c9e2 [SPARK-12829] Turn Java style checker on
It was previously turned off because there was a problem with a pull request. We should turn it on now.

Author: Reynold Xin <rxin@databricks.com>

Closes #10763 from rxin/SPARK-12829.
2016-01-14 21:02:18 -08:00
Kousuke Saruta bcc7373f67 [SPARK-12821][BUILD] Style checker should run when some configuration files for style are modified but any source files are not.
When running the `run-tests` script, style checkers run only when any source files are modified but they should run when configuration files related to style are modified.

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

Closes #10754 from sarutak/SPARK-12821.
2016-01-14 10:43:39 -08:00
Josh Rosen 97e0c7c5af [SPARK-9383][PROJECT-INFRA] PR merge script should reset back to previous branch when possible
This patch modifies our PR merge script to reset back to a named branch when restoring the original checkout upon exit. When the committer is originally checked out to a detached head, then they will be restored back to that same ref (the same as today's behavior).

This is a slightly updated version of #7569, with an extra fix to handle the detached head corner-case.

Author: Josh Rosen <joshrosen@databricks.com>

Closes #10709 from JoshRosen/SPARK-9383.
2016-01-13 11:56:30 -08:00
Shixiong Zhu 4f60651cbe [SPARK-12652][PYSPARK] Upgrade Py4J to 0.9.1
- [x] Upgrade Py4J to 0.9.1
- [x] SPARK-12657: Revert SPARK-12617
- [x] SPARK-12658: Revert SPARK-12511
  - Still keep the change that only reading checkpoint once. This is a manual change and worth to take a look carefully. bfd4b5c040
- [x] Verify no leak any more after reverting our workarounds

Author: Shixiong Zhu <shixiong@databricks.com>

Closes #10692 from zsxwing/py4j-0.9.1.
2016-01-12 14:27:05 -08:00
Josh Rosen a44991453a [SPARK-12734][HOTFIX] Build changes must trigger all tests; clean after install in dep tests
This patch fixes a build/test issue caused by the combination of #10672 and a latent issue in the original `dev/test-dependencies` script.

First, changes which _only_ touched build files were not triggering full Jenkins runs, making it possible for a build change to be merged even though it could cause failures in other tests. The `root` build module now depends on `build`, so all tests will now be run whenever a build-related file is changed.

I also added a `clean` step to the Maven install step in `dev/test-dependencies` in order to address an issue where the dummy JARs stuck around and caused "multiple assembly JARs found" errors in tests.

/cc zsxwing

Author: Josh Rosen <joshrosen@databricks.com>

Closes #10704 from JoshRosen/fix-build-test-problems.
2016-01-11 12:56:43 -08:00
BrianLondon 8fe928b4fe [SPARK-12269][STREAMING][KINESIS] Update aws-java-sdk version
The current Spark Streaming kinesis connector references a quite old version 1.9.40 of the AWS Java SDK (1.10.40 is current). Numerous AWS features including Kinesis Firehose are unavailable in 1.9. Those two versions of the AWS SDK in turn require conflicting versions of Jackson (2.4.4 and 2.5.3 respectively) such that one cannot include the current AWS SDK in a project that also uses the Spark Streaming Kinesis ASL.

Author: BrianLondon <brian@seatgeek.com>

Closes #10256 from BrianLondon/master.
2016-01-11 09:32:06 +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
Reynold Xin 5b0d544339 [SPARK-12735] Consolidate & move spark-ec2 to AMPLab managed repository.
Author: Reynold Xin <rxin@databricks.com>

Closes #10673 from rxin/SPARK-12735.
2016-01-09 20:28:20 -08:00
Herman van Hovell ea489f14f1 [SPARK-12573][SPARK-12574][SQL] Move SQL Parser from Hive to Catalyst
This PR moves a major part of the new SQL parser to Catalyst. This is a prelude to start using this parser for all of our SQL parsing. The following key changes have been made:

The ANTLR Parser & Supporting classes have been moved to the Catalyst project. They are now part of the ```org.apache.spark.sql.catalyst.parser``` package. These classes contained quite a bit of code that was originally from the Hive project, I have added aknowledgements whenever this applied. All Hive dependencies have been factored out. I have also taken this chance to clean-up the ```ASTNode``` class, and to improve the error handling.

The HiveQl object that provides the functionality to convert an AST into a LogicalPlan has been refactored into three different classes, one for every SQL sub-project:
- ```CatalystQl```: This implements Query and Expression parsing functionality.
- ```SparkQl```: This is a subclass of CatalystQL and provides SQL/Core only functionality such as Explain and Describe.
- ```HiveQl```: This is a subclass of ```SparkQl``` and this adds Hive-only functionality to the parser such as Analyze, Drop, Views, CTAS & Transforms. This class still depends on Hive.

cc rxin

Author: Herman van Hovell <hvanhovell@questtec.nl>

Closes #10583 from hvanhovell/SPARK-12575.
2016-01-06 11:16:53 -08:00
felixcheung cc4d5229c9 [SPARK-12625][SPARKR][SQL] replace R usage of Spark SQL deprecated API
rxin davies shivaram
Took save mode from my PR #10480, and move everything to writer methods. This is related to PR #10559

- [x] it seems jsonRDD() is broken, need to investigate - this is not a public API though; will look into some more tonight. (fixed)

Author: felixcheung <felixcheung_m@hotmail.com>

Closes #10584 from felixcheung/rremovedeprecated.
2016-01-04 22:32:07 -08:00