When I build a graph with a file format error, there will be an ArrayIndexOutOfBoundsException
Author: Leolh <leosandylh@gmail.com>
Closes#4176 from Leolh/patch-1 and squashes the following commits:
94f6d22 [Leolh] Update GraphLoader.scala
23767f1 [Leolh] [SPARK-3650][GraphX] There will be an ArrayIndexOutOfBoundsException if the format of the source file is wrong
This is part (1a) of the updates from the design doc in [https://docs.google.com/document/d/1BH9el33kBX8JiDdgUJXdLW14CA2qhTCWIG46eXZVoJs]
**UPDATE**: Most of the APIs are being kept private[spark] to allow further discussion. Here is a list of changes which are public:
* new output columns: rawPrediction, probabilities
* The “score” column is now called “rawPrediction”
* Classifiers now provide numClasses
* Params.get and .set are now protected instead of private[ml].
* ParamMap now has a size method.
* new classes: LinearRegression, LinearRegressionModel
* LogisticRegression now has an intercept.
### Sketch of APIs (most of which are private[spark] for now)
Abstract classes for learning algorithms (+ corresponding Model abstractions):
* Classifier (+ ClassificationModel)
* ProbabilisticClassifier (+ ProbabilisticClassificationModel)
* Regressor (+ RegressionModel)
* Predictor (+ PredictionModel)
* *For all of these*:
* There is no strongly typed training-time API.
* There is a strongly typed test-time (prediction) API which helps developers implement new algorithms.
Concrete classes: learning algorithms
* LinearRegression
* LogisticRegression (updated to use new abstract classes)
* Also, removed "score" in favor of "probability" output column. Changed BinaryClassificationEvaluator to match. (SPARK-5031)
Other updates:
* params.scala: Changed Params.set/get to be protected instead of private[ml]
* This was needed for the example of defining a class from outside of the MLlib namespace.
* VectorUDT: Will later change from private[spark] to public.
* This is needed for outside users to write their own validateAndTransformSchema() methods using vectors.
* Also, added equals() method.f
* SPARK-4942 : ML Transformers should allow output cols to be turned on,off
* Update validateAndTransformSchema
* Update transform
* (Updated examples, test suites according to other changes)
New examples:
* DeveloperApiExample.scala (example of defining algorithm from outside of the MLlib namespace)
* Added Java version too
Test Suites:
* LinearRegressionSuite
* LogisticRegressionSuite
* + Java versions of above suites
CC: mengxr etrain shivaram
Author: Joseph K. Bradley <joseph@databricks.com>
Closes#3637 from jkbradley/ml-api-part1 and squashes the following commits:
405bfb8 [Joseph K. Bradley] Last edits based on code review. Small cleanups
fec348a [Joseph K. Bradley] Added JavaDeveloperApiExample.java and fixed other issues: Made developer API private[spark] for now. Added constructors Java can understand to specialized Param types.
8316d5e [Joseph K. Bradley] fixes after rebasing on master
fc62406 [Joseph K. Bradley] fixed test suites after last commit
bcb9549 [Joseph K. Bradley] Fixed issues after rebasing from master (after move from SchemaRDD to DataFrame)
9872424 [Joseph K. Bradley] fixed JavaLinearRegressionSuite.java Java sql api
f542997 [Joseph K. Bradley] Added MIMA excludes for VectorUDT (now public), and added DeveloperApi annotation to it
216d199 [Joseph K. Bradley] fixed after sql datatypes PR got merged
f549e34 [Joseph K. Bradley] Updates based on code review. Major ones are: * Created weakly typed Predictor.train() method which is called by fit() so that developers do not have to call schema validation or copy parameters. * Made Predictor.featuresDataType have a default value of VectorUDT. * NOTE: This could be dangerous since the FeaturesType type parameter cannot have a default value.
343e7bd [Joseph K. Bradley] added blanket mima exclude for ml package
82f340b [Joseph K. Bradley] Fixed bug in LogisticRegression (introduced in this PR). Fixed Java suites
0a16da9 [Joseph K. Bradley] Fixed Linear/Logistic RegressionSuites
c3c8da5 [Joseph K. Bradley] small cleanup
934f97b [Joseph K. Bradley] Fixed bugs from previous commit.
1c61723 [Joseph K. Bradley] * Made ProbabilisticClassificationModel into a subclass of ClassificationModel. Also introduced ProbabilisticClassifier. * This was to support output column “probabilityCol” in transform().
4e2f711 [Joseph K. Bradley] rat fix
bc654e1 [Joseph K. Bradley] Added spark.ml LinearRegressionSuite
8d13233 [Joseph K. Bradley] Added methods: * Classifier: batch predictRaw() * Predictor: train() without paramMap ProbabilisticClassificationModel.predictProbabilities() * Java versions of all above batch methods + others
1680905 [Joseph K. Bradley] Added JavaLabeledPointSuite.java for spark.ml, and added constructor to LabeledPoint which defaults weight to 1.0
adbe50a [Joseph K. Bradley] * fixed LinearRegression train() to use embedded paramMap * added Predictor.predict(RDD[Vector]) method * updated Linear/LogisticRegressionSuites
58802e3 [Joseph K. Bradley] added train() to Predictor subclasses which does not take a ParamMap.
57d54ab [Joseph K. Bradley] * Changed semantics of Predictor.train() to merge the given paramMap with the embedded paramMap. * remove threshold_internal from logreg * Added Predictor.copy() * Extended LogisticRegressionSuite
e433872 [Joseph K. Bradley] Updated docs. Added LabeledPointSuite to spark.ml
54b7b31 [Joseph K. Bradley] Fixed issue with logreg threshold being set correctly
0617d61 [Joseph K. Bradley] Fixed bug from last commit (sorting paramMap by parameter names in toString). Fixed bug in persisting logreg data. Added threshold_internal to logreg for faster test-time prediction (avoiding map lookup).
601e792 [Joseph K. Bradley] Modified ParamMap to sort parameters in toString. Cleaned up classes in class hierarchy, before implementing tests and examples.
d705e87 [Joseph K. Bradley] Added LinearRegression and Regressor back from ml-api branch
52f4fde [Joseph K. Bradley] removing everything except for simple class hierarchy for classification
d35bb5d [Joseph K. Bradley] fixed compilation issues, but have not added tests yet
bfade12 [Joseph K. Bradley] Added lots of classes for new ML API:
This is the second part of SPARK-5604, which removes checkpointDir from tree strategies. Note that this is a break change. I will mention it in the migration guide.
Author: Xiangrui Meng <meng@databricks.com>
Closes#4407 from mengxr/SPARK-5604-1 and squashes the following commits:
13a276d [Xiangrui Meng] remove checkpointDir from trees
Author: Reynold Xin <rxin@databricks.com>
Closes#4410 from rxin/df-renameCol and squashes the following commits:
a6a796e [Reynold Xin] [SPARK-5639][SQL] Support DataFrame.renameColumn.
Because of the way we shade jetty, we lose its dependency orbit
in the assembly jar, which includes the javax servlet API's. This
adds back orbit explicitly, using the version that matches
our jetty version.
Author: Patrick Wendell <patrick@databricks.com>
Closes#4411 from pwendell/servlet-api and squashes the following commits:
445f868 [Patrick Wendell] SPARK-5557: Explicitly include servlet API in dependencies.
Ideally we should convert Metastore Parquet tables with our own Parquet implementation on both read path and write path. However, the write path is not well covered, and causes this test failure. This PR is a hotfix to bring back Jenkins PR builder. A proper fix will be delivered in a follow-up PR.
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Author: Cheng Lian <lian@databricks.com>
Closes#4413 from liancheng/hotfix-parquet-ctas and squashes the following commits:
5291289 [Cheng Lian] Hot fix for "SQLQuerySuite.CTAS with serde"
Author: Reynold Xin <rxin@databricks.com>
Closes#4408 from rxin/df-config-eager and squashes the following commits:
c0204cf [Reynold Xin] [SPARK-5638][SQL] Add a config flag to disable eager analysis of DataFrames.
It seems that `(ScalaUnidoc, unidoc)` is the correct way to overwrite `scalacOptions` in unidoc.
CC: rxin gzm0
Author: Xiangrui Meng <meng@databricks.com>
Closes#4404 from mengxr/SPARK-5620 and squashes the following commits:
f890cf5 [Xiangrui Meng] add -groups to scalacOptions in unidoc
This PR adds three major improvements to Parquet data source:
1. Partition discovery
While reading Parquet files resides in Hive style partition directories, `ParquetRelation2` automatically discovers partitioning information and infers partition column types.
This is also a partial work for [SPARK-5182] [1], which aims to provide first class partitioning support for the data source API. Related code in this PR can be easily extracted to the data source API level in future versions.
1. Schema merging
When enabled, Parquet data source collects schema information from all Parquet part-files and tries to merge them. Exceptions are thrown when incompatible schemas are detected. This feature is controlled by data source option `parquet.mergeSchema`, and is enabled by default.
1. Metastore Parquet table conversion moved to analysis phase
This greatly simplifies the conversion logic. `ParquetConversion` strategy can be removed once the old Parquet implementation is removed in the future.
This version of Parquet data source aims to entirely replace the old Parquet implementation. However, the old version hasn't been removed yet. Users can fall back to the old version by turning off SQL configuration `spark.sql.parquet.useDataSourceApi`.
Other JIRA tickets fixed as side effects in this PR:
- [SPARK-5509] [3]: `EqualTo` now uses a proper `Ordering` to compare binary types.
- [SPARK-3575] [4]: Metastore schema is now preserved and passed to `ParquetRelation2` via data source option `parquet.metastoreSchema`.
TODO:
- [ ] More test cases for partition discovery
- [x] Fix write path after data source write support (#4294) is merged
It turned out to be non-trivial to fall back to old Parquet implementation on the write path when Parquet data source is enabled. Since we're planning to include data source write support in 1.3.0, I simply ignored two test cases involving Parquet insertion for now.
- [ ] Fix outdated comments and documentations
PS: This PR looks big, but more than a half of the changed lines in this PR are trivial changes to test cases. To test Parquet with and without the new data source, almost all Parquet test cases are moved into wrapper driver functions. This introduces hundreds of lines of changes.
[1]: https://issues.apache.org/jira/browse/SPARK-5182
[2]: https://issues.apache.org/jira/browse/SPARK-5528
[3]: https://issues.apache.org/jira/browse/SPARK-5509
[4]: https://issues.apache.org/jira/browse/SPARK-3575
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Author: Cheng Lian <lian@databricks.com>
Closes#4308 from liancheng/parquet-partition-discovery and squashes the following commits:
b6946e6 [Cheng Lian] Fixes MiMA issues, addresses comments
8232e17 [Cheng Lian] Write support for Parquet data source
a49bd28 [Cheng Lian] Fixes spelling typo in trait name "CreateableRelationProvider"
808380f [Cheng Lian] Fixes issues introduced while rebasing
50dd8d1 [Cheng Lian] Addresses @rxin's comment, fixes UDT schema merging
adf2aae [Cheng Lian] Fixes compilation error introduced while rebasing
4e0175f [Cheng Lian] Fixes Python Parquet API, we need Py4J array to call varargs method
0d8ec1d [Cheng Lian] Adds more test cases
b35c8c6 [Cheng Lian] Fixes some typos and outdated comments
dd704fd [Cheng Lian] Fixes Python Parquet API
596c312 [Cheng Lian] Uses switch to control whether use Parquet data source or not
7d0f7a2 [Cheng Lian] Fixes Metastore Parquet table conversion
a1896c7 [Cheng Lian] Fixes all existing Parquet test suites except for ParquetMetastoreSuite
5654c9d [Cheng Lian] Draft version of Parquet partition discovery and schema merging
`checkpointDir` is a Spark global configuration. Users should set it outside LDA. This PR also hides some methods under `private[clustering] object LDA`, so they don't show up in the generated Java doc (SPARK-5610).
jkbradley
Author: Xiangrui Meng <meng@databricks.com>
Closes#4390 from mengxr/SPARK-5604 and squashes the following commits:
a34bb39 [Xiangrui Meng] remove checkpointDir from LDA
Because `deleteAllCheckpoints` has IOException potential.
fix issue.
Author: x1- <viva008@gmail.com>
Closes#4347 from x1-/SPARK-5460 and squashes the following commits:
7a3d8de [x1-] change `Try()` to `try catch { case ... }` ar RandomForest.
3a52745 [x1-] modified typo. 'faild' -> 'failed' and remove disused '-'.
1572576 [x1-] Wrapped `Try` around `deleteAllCheckpoints` - RandomForest.
Hi, rxin marmbrus
I considered your suggestion (in #4127) and now re-write it. This is now up-to-date.
Could u please review it ?
Author: OopsOutOfMemory <victorshengli@126.com>
Closes#4227 from OopsOutOfMemory/describe and squashes the following commits:
053826f [OopsOutOfMemory] describe
SQLQuerySuite test failure:
[info] - simple select (22 milliseconds)
[info] - sorting (722 milliseconds)
[info] - external sorting (728 milliseconds)
[info] - limit (95 milliseconds)
[info] - date row *** FAILED *** (35 milliseconds)
[info] Results do not match for query:
[info] 'Limit 1
[info] 'Project [CAST(2015-01-28, DateType) AS c0#3630]
[info] 'UnresolvedRelation [testData], None
[info]
[info] == Analyzed Plan ==
[info] Limit 1
[info] Project [CAST(2015-01-28, DateType) AS c0#3630]
[info] LogicalRDD [key#0,value#1], MapPartitionsRDD[1] at mapPartitions at ExistingRDD.scala:35
[info]
[info] == Physical Plan ==
[info] Limit 1
[info] Project [16463 AS c0#3630]
[info] PhysicalRDD [key#0,value#1], MapPartitionsRDD[1] at mapPartitions at ExistingRDD.scala:35
[info]
[info] == Results ==
[info] !== Correct Answer - 1 == == Spark Answer - 1 ==
[info] ![2015-01-28] [2015-01-27] (QueryTest.scala:77)
[info] org.scalatest.exceptions.TestFailedException:
[info] at org.scalatest.Assertions$class.newAssertionFailedException(Assertions.scala:495)
[info] at org.scalatest.FunSuite.newAssertionFailedException(FunSuite.scala:1555)
[info] at org.scalatest.Assertions$class.fail(Assertions.scala:1328)
[info] at org.scalatest.FunSuite.fail(FunSuite.scala:1555)
[info] at org.apache.spark.sql.QueryTest.checkAnswer(QueryTest.scala:77)
[info] at org.apache.spark.sql.QueryTest.checkAnswer(QueryTest.scala:95)
[info] at org.apache.spark.sql.SQLQuerySuite$$anonfun$23.apply$mcV$sp(SQLQuerySuite.scala:300)
[info] at org.apache.spark.sql.SQLQuerySuite$$anonfun$23.apply(SQLQuerySuite.scala:300)
[info] at org.apache.spark.sql.SQLQuerySuite$$anonfun$23.apply(SQLQuerySuite.scala:300)
[info] at org.scalatest.Transformer$$anonfun$apply$1.apply$mcV$sp(Transformer.scala:22)
[info] at org.scalatest.OutcomeOf$class.outcomeOf(OutcomeOf.scala:85)
[info] at org.scalatest.OutcomeOf$.outcomeOf(OutcomeOf.scala:104)
[info] at org.scalatest.Transformer.apply(Transformer.scala:22)
[info] at org.scalatest.Transformer.apply(Transformer.scala:20)
[info] at org.scalatest.FunSuiteLike$$anon$1.apply(FunSuiteLike.scala:166)
[info] at org.scalatest.Suite$class.withFixture(Suite.scala:1122)
[info] at org.scalatest.FunSuite.withFixture(FunSuite.scala:1555)
[info] at org.scalatest.FunSuiteLike$class.invokeWithFixture$1(FunSuiteLike.scala:163)
[info] at org.scalatest.FunSuiteLike$$anonfun$runTest$1.apply(FunSuiteLike.scala:175)
[info] at org.scalatest.FunSuiteLike$$anonfun$runTest$1.apply(FunSuiteLike.scala:175)
[info] at org.scalatest.SuperEngine.runTestImpl(Engine.scala:306)
[info] at org.scalatest.FunSuiteLike$class.runTest(FunSuiteLike.scala:175)
[info] at org.scalatest.FunSuite.runTest(FunSuite.scala:1555)
[info] at org.scalatest.FunSuiteLike$$anonfun$runTests$1.apply(FunSuiteLike.scala:208)
[info] at org.scalatest.FunSuiteLike$$anonfun$runTests$1.apply(FunSuiteLike.scala:208)
[info] at org.scalatest.SuperEngine$$anonfun$traverseSubNode
Author: wangfei <wangfei1@huawei.com>
Closes#4395 from scwf/SQLQuerySuite and squashes the following commits:
1431a2d [wangfei] fix conflicts
c35fe5e [wangfei] minor fix
01dab3a [wangfei] fix test failure of SQLQuerySuite
Trivial fix.
Author: Daoyuan Wang <daoyuan.wang@intel.com>
Closes#4400 from adrian-wang/docdate and squashes the following commits:
31bbe40 [Daoyuan Wang] doc fix for date
`Await.result` and `selection.resolveOne` runs the same timeout simultaneously. When `Await.result` timeout is reached first, then `TimeoutException` is thrown. On the other hand, when `selection.resolveOne` timeout is reached first, `ActorNotFoundException` is thrown. This is an obvious race condition and the easiest way to fix it is to increase the timeout of one method to make sure the code fails on the other method first.
Author: Jacek Lewandowski <lewandowski.jacek@gmail.com>
Closes#4343 from jacek-lewandowski/SPARK-5548-1.3 and squashes the following commits:
b9ba47e [Jacek Lewandowski] SPARK-5548: Fixed a race condition in AkkaUtilsSuite
Author: GuoQiang Li <witgo@qq.com>
Closes#4263 from witgo/SPARK-5474 and squashes the following commits:
ef397ff [GuoQiang Li] review commits
a398324 [GuoQiang Li] curl should support URL redirection in build/mvn
- Add meta description tags on some of the most important doc pages
- Shorten the titles of some pages to have more relevant keywords; for
example there's no reason to have "Spark SQL Programming Guide - Spark
1.2.0 documentation", we can just say "Spark SQL - Spark 1.2.0
documentation".
Author: Matei Zaharia <matei@databricks.com>
Closes#4381 from mateiz/docs-seo and squashes the following commits:
4940563 [Matei Zaharia] [SPARK-5608] Improve SEO of Spark documentation pages
This adds a recursive option to the addFile API to satisfy Hive's needs. It only allows specifying HDFS dirs that will be copied down on every executor.
There are a couple outstanding questions.
* Should we allow specifying local dirs as well? The best way to do this would probably be to archive them. The drawback is that it would require a fair bit of code that I don't know of any current use cases for.
* The addFiles implementation has a caching component that I don't entirely understand. What events are we caching between? AFAICT it's users calling addFile on the same file in the same app at different times? Do we want/need to add something similar for addDirectory.
* The addFiles implementation will check to see if an added file already exists and has the same contents. I imagine we want the same behavior, so planning to add this unless people think otherwise.
I plan to add some tests if people are OK with the approach.
Author: Sandy Ryza <sandy@cloudera.com>
Closes#3670 from sryza/sandy-spark-4687 and squashes the following commits:
f9fc77f [Sandy Ryza] Josh's comments
70cd24d [Sandy Ryza] Add another test
13da824 [Sandy Ryza] Revert executor changes
38bf94d [Sandy Ryza] Marcelo's comments
ca83849 [Sandy Ryza] Add addFile test
1941be3 [Sandy Ryza] Fix test and avoid HTTP server in local mode
31f15a9 [Sandy Ryza] Use cache recursively and fix some compile errors
0239c3d [Sandy Ryza] Change addDirectory to addFile with recursive
46fe70a [Sandy Ryza] SPARK-4687. Add a addDirectory API
Now spark version is only support ```SELECT -key FROM DECIMAL_UDF;``` in HiveContext.
This patch is used to support ```SELECT +key FROM DECIMAL_UDF;``` in HiveContext.
Author: q00251598 <qiyadong@huawei.com>
Closes#4378 from watermen/SPARK-5606 and squashes the following commits:
777f132 [q00251598] sql-case22
74dd368 [q00251598] sql-case22
1a67410 [q00251598] sql-case22
c5cd5bc [q00251598] sql-case22
There are no break changes (against 1.2) in this PR. I hide the PythonMLLibAPI, which is only called by Py4J, and renamed `SparseMatrix.diag` to `SparseMatrix.spdiag`. All other changes are documentation and annotations. The `Experimental` tag is removed from `ALS.setAlpha` and `Rating`. One issue not addressed in this PR is the `setCheckpointDir` in `LDA` (https://issues.apache.org/jira/browse/SPARK-5604).
CC: srowen jkbradley
Author: Xiangrui Meng <meng@databricks.com>
Closes#4377 from mengxr/SPARK-5599 and squashes the following commits:
17975dc [Xiangrui Meng] fix tests
4487f20 [Xiangrui Meng] remove experimental tag from each stat method because Statistics is experimental already
3cd969a [Xiangrui Meng] remove freeman (sorry~) from StreamLA public doc
55900f5 [Xiangrui Meng] make IR experimental and update its doc
9b8eed3 [Xiangrui Meng] graduate Rating and setAlpha in ALS
b854d28 [Xiangrui Meng] correct iid doc in RandomRDDs
27f5bdd [Xiangrui Meng] update linalg docs and some new method signatures
371721b [Xiangrui Meng] mark fpg as experimental and update its doc
8aca7ee [Xiangrui Meng] change SLR to experimental and update the doc
ebbb2e9 [Xiangrui Meng] mark PIC experimental and update the doc
7830d3b [Xiangrui Meng] mark GMM experimental
a378496 [Xiangrui Meng] use the correct subscript syntax in PIC
c65c424 [Xiangrui Meng] update LDAModel doc
a213b0c [Xiangrui Meng] update GMM constructor
3993054 [Xiangrui Meng] hide algorithm in SLR
ad6b9ce [Xiangrui Meng] Revert "make ClassificatinModel.predict(JavaRDD) return JavaDoubleRDD"
0054684 [Xiangrui Meng] add doc to LRModel's constructor
a89763b [Xiangrui Meng] make ClassificatinModel.predict(JavaRDD) return JavaDoubleRDD
7c0946c [Xiangrui Meng] hide PythonMLLibAPI
This is a PR for Parquet-based model import/export. Please see the design doc on [the JIRA](https://issues.apache.org/jira/browse/SPARK-4587).
Note: This includes only a subset of regression and classification models:
* NaiveBayes, SVM, LogisticRegression
* LinearRegression, RidgeRegression, Lasso
Follow-up PRs will cover other models.
Sketch of current contents:
* New traits: Saveable, Loader
* Implementations for some algorithms
* Also: Added LogisticRegressionModel.getThreshold method (so that unit test could check the threshold)
CC: mengxr selvinsource
Author: Joseph K. Bradley <joseph@databricks.com>
Closes#4233 from jkbradley/ml-import-export and squashes the following commits:
87c4eb8 [Joseph K. Bradley] small cleanups
12d9059 [Joseph K. Bradley] Many cleanups after code review. Major changes: Storing numFeatures, numClasses in model metadata. Improvements to unit tests
b4ee064 [Joseph K. Bradley] Reorganized save/load for regression and classification. Renamed concepts to Saveable, Loader
a34aef5 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into ml-import-export
ee99228 [Joseph K. Bradley] scala style fix
79675d5 [Joseph K. Bradley] cleanups in LogisticRegression after rebasing after multinomial PR
d1e5882 [Joseph K. Bradley] organized imports
2935963 [Joseph K. Bradley] Added save/load and tests for most classification and regression models
c495dba [Joseph K. Bradley] made version for model import/export local to each model
1496852 [Joseph K. Bradley] Added save/load for NaiveBayes
8d46386 [Joseph K. Bradley] Added save/load to NaiveBayes
1577d70 [Joseph K. Bradley] fixed issues after rebasing on master (DataFrame patch)
64914a3 [Joseph K. Bradley] added getThreshold to SVMModel
b1fc5ec [Joseph K. Bradley] small cleanups
418ba1b [Joseph K. Bradley] Added save, load to mllib.classification.LogisticRegressionModel, plus test suite
Our existing Kryo version actually embeds objenesis 1.2 classes in
its jar, causing dependency conflicts during tests. This updates us to
Kryo 2.24.0 (which was changed to not embed objenesis) to avoid this
behavior. See the JIRA for more detail.
Author: Patrick Wendell <patrick@databricks.com>
Closes#4383 from pwendell/SPARK-5607 and squashes the following commits:
c3b8d27 [Patrick Wendell] SPARK-5607: Update to Kryo 2.24.0 to avoid including objenesis 1.2.
1. Added methods to create DataFrames from Seq[Product]
2. Added executeTake to avoid running a Spark job on LocalRelations.
Author: Reynold Xin <rxin@databricks.com>
Closes#4372 from rxin/localDataFrame and squashes the following commits:
f696858 [Reynold Xin] style checker.
839ef7f [Reynold Xin] [SPARK-5602][SQL] Better support for creating DataFrame from local data collection.
Author: Reynold Xin <rxin@databricks.com>
Closes#4379 from rxin/CachedTableSuite and squashes the following commits:
f2b44ce [Reynold Xin] [SQL] Fix flaky CachedTableSuite.
1. Removed LocalHiveContext in Python.
2. Reduced DSL UDF support from 22 arguments to 10 arguments so JavaDoc/ScalaDoc look nicer.
Author: Reynold Xin <rxin@databricks.com>
Closes#4374 from rxin/df-style and squashes the following commits:
e493342 [Reynold Xin] [SQL][DataFrame] Minor cleanup.
...aised in SPARK-4520.
The exception is thrown only for a thrift generated parquet file. The array element schema name is assumed as "array" as per ParquetAvro but for thrift generated parquet files, it is array_name + "_tuple". This leads to missing child of array group type and hence when the parquet rows are being materialized leads to the exception.
Author: Sadhan Sood <sadhan@tellapart.com>
Closes#4148 from sadhan/SPARK-4520 and squashes the following commits:
c5ccde8 [Sadhan Sood] [SPARK-4520] [SQL] This pr fixes the ArrayIndexOutOfBoundsException as raised in SPARK-4520.
Author: Reynold Xin <rxin@databricks.com>
Closes#4376 from rxin/SPARK-5605 and squashes the following commits:
c55f5fa [Reynold Xin] Added a Python test.
f4b8dbb [Reynold Xin] [SPARK-5605][SQL][DF] Allow using String to specify colum name in DSL aggregate functions.
This patch introduces a new configuration option, `spark.extraListeners`, that allows SparkListeners to be specified in SparkConf and registered before the SparkContext is initialized. From the configuration documentation:
> A comma-separated list of classes that implement SparkListener; when initializing SparkContext, instances of these classes will be created and registered with Spark's listener bus. If a class has a single-argument constructor that accepts a SparkConf, that constructor will be called; otherwise, a zero-argument constructor will be called. If no valid constructor can be found, the SparkContext creation will fail with an exception.
This motivation for this patch is to allow monitoring code to be easily injected into existing Spark programs without having to modify those programs' code.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#4111 from JoshRosen/SPARK-5190-register-sparklistener-in-sc-constructor and squashes the following commits:
8370839 [Josh Rosen] Two minor fixes after merging with master
6e0122c [Josh Rosen] Merge remote-tracking branch 'origin/master' into SPARK-5190-register-sparklistener-in-sc-constructor
1a5b9a0 [Josh Rosen] Remove SPARK_EXTRA_LISTENERS environment variable.
2daff9b [Josh Rosen] Add a couple of explanatory comments for SPARK_EXTRA_LISTENERS.
b9973da [Josh Rosen] Add test to ensure that conf and env var settings are merged, not overriden.
d6f3113 [Josh Rosen] Use getConstructors() instead of try-catch to find right constructor.
d0d276d [Josh Rosen] Move code into setupAndStartListenerBus() method
b22b379 [Josh Rosen] Instantiate SparkListeners from classes listed in configurations.
9c0d8f1 [Josh Rosen] Revert "[SPARK-5190] Allow SparkListeners to be registered before SparkContext starts."
217ecc0 [Josh Rosen] Revert "Add addSparkListener to JavaSparkContext"
25988f3 [Josh Rosen] Add addSparkListener to JavaSparkContext
163ba19 [Josh Rosen] [SPARK-5190] Allow SparkListeners to be registered before SparkContext starts.
Author: guowei2 <guowei2@asiainfo.com>
Closes#3921 from guowei2/SPARK-5118 and squashes the following commits:
b1ba3be [guowei2] add table file check in test case
9da56f8 [guowei2] test case only run in Shim13
112a0b6 [guowei2] add test case
187c7d8 [guowei2] Fix: create table test stored as parquet as select ..
`client.getDatabaseCurrent` uses SessionState's local variable which can be an issue.
Author: Yin Huai <yhuai@databricks.com>
Closes#4355 from yhuai/defaultTablePath and squashes the following commits:
84a29e5 [Yin Huai] Use HiveContext's sessionState instead of using SessionState's thread local variable.
Author: Yin Huai <yhuai@databricks.com>
Closes#4314 from yhuai/minor and squashes the following commits:
d3870a7 [Yin Huai] Update test.
6e4b0c0 [Yin Huai] Two minor changes.
Add `import org.apache.spark.sql.Dsl._` to make DSL query works.
Since queryExecution is not avaliable in DataFrame, so remove it.
Author: OopsOutOfMemory <victorshengli@126.com>
Author: Sheng, Li <OopsOutOfMemory@users.noreply.github.com>
Closes#4330 from OopsOutOfMemory/hiveconsole and squashes the following commits:
46eb790 [Sheng, Li] Update SparkBuild.scala
d23ee9f [OopsOutOfMemory] minor
d4dd593 [OopsOutOfMemory] refine hive console
A follow up for #4163: support `select array(key, *) from src`
Since array(key, *) will not go into this case
```
case Alias(f UnresolvedFunction(_, args), name) if containsStar(args) =>
val expandedArgs = args.flatMap {
case s: Star => s.expand(child.output, resolver)
case o => o :: Nil
}
```
here added a case to cover the corner case of array.
/cc liancheng
Author: wangfei <wangfei1@huawei.com>
Author: scwf <wangfei1@huawei.com>
Closes#4353 from scwf/udf-star1 and squashes the following commits:
4350d17 [wangfei] minor fix
a7cd191 [wangfei] minor fix
0942fb1 [wangfei] follow up: support select array(key, *) from src
6ae00db [wangfei] also fix problem with array
da1da09 [scwf] minor fix
f87b5f9 [scwf] added test case
587bf7e [wangfei] compile fix
eb93c16 [wangfei] fix star resolve issue in udf
Right now the PR adds few helper methods for java apis. But the issue was opened mainly to get rid of transformations in java api like `.rdd` and `.toJavaRDD` while working with `SQLContext` or `HiveContext`.
Author: kul <kuldeep.bora@gmail.com>
Closes#4243 from kul/master and squashes the following commits:
2390fba [kul] [SPARK-5426][SQL] Add SparkSQL Java API helper methods.
Support change database owner, here i do not add the golden files since the golden answer is related to the tmp dir path (see 6331e4ac0f)
Author: wangfei <wangfei1@huawei.com>
Closes#4357 from scwf/db_owner and squashes the following commits:
f761533 [wangfei] remove the alter_db_owner which have added to whitelist
79413c6 [wangfei] Revert "added golden files"
6331e4a [wangfei] added golden files
6f7cacd [wangfei] support change database owner
Now CTAS runs successfully but will throw a NoSuchObjectException.
```
create table sc as select *
from (select '2011-01-11', '2011-01-11+14:18:26' from src tablesample (1 rows)
union all
select '2011-01-11', '2011-01-11+15:18:26' from src tablesample (1 rows)
union all
select '2011-01-11', '2011-01-11+16:18:26' from src tablesample (1 rows) ) s;
```
Get this exception:
ERROR Hive: NoSuchObjectException(message:default.sc table not found)
at org.apache.hadoop.hive.metastore.HiveMetaStore$HMSHandler.get_table(HiveMetaStore.java:1560)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:601)
at org.apache.hadoop.hive.metastore.RetryingHMSHandler.invoke(RetryingHMSHandler.java:105)
at $Proxy8.get_table(Unknown Source)
at org.apache.hadoop.hive.metastore.HiveMetaStoreClient.getTable(HiveMetaStoreClient.java:997)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:601)
at org.apache.hadoop.hive.metastore.RetryingMetaStoreClient.invoke(RetryingMetaStoreClient.java:89)
at $Proxy9.getTable(Unknown Source)
at org.apache.hadoop.hive.ql.metadata.Hive.getTable(Hive.java:976)
at org.apache.hadoop.hive.ql.metadata.Hive.getTable(Hive.java:950)
at org.apache.spark.sql.hive.HiveMetastoreCatalog.tableExists(HiveMetastoreCatalog.scala:152)
at org.apache.spark.sql.hive.HiveContext$$anon$2.org$apache$spark$sql$catalyst$analysis$OverrideCatalog$$super$tableExists(HiveContext.scala:309)
at org.apache.spark.sql.catalyst.analysis.OverrideCatalog$class.tableExists(Catalog.scala:121)
at org.apache.spark.sql.hive.HiveContext$$anon$2.tableExists(HiveContext.scala:309)
at org.apache.spark.sql.hive.execution.CreateTableAsSelect.run(CreateTableAsSelect.scala:63)
at org.apache.spark.sql.execution.ExecutedCommand.sideEffectResult$lzycompute(commands.scala:53)
Author: wangfei <wangfei1@huawei.com>
Closes#4365 from scwf/ctas-exception and squashes the following commits:
c7c67bc [wangfei] no used imports
f54eb2a [wangfei] fix exception for CTAS
Currently, if there are different locality in a task set, the tasks with NODE_LOCAL only get scheduled after all the PROCESS_LOCAL tasks are scheduled and timeout with spark.locality.wait.process (3 seconds by default). In local mode, the LocalScheduler will never call resourceOffer() again once it failed to get a task with same locality, then all the NODE_LOCAL tasks will be never scheduled.
This bug could be reproduced by run example python/streaming/stateful_network_wordcount.py, it will hang after finished a batch with some data.
This patch will check whether there is task for current locality level, if not, it will change to next locality level without waiting for `spark.locality.wait.process` seconds. It works for all locality levels.
Because the list of pending tasks are updated lazily, the check can be false-positive, it means it will not move to next locality level even there is no valid pending tasks, it will wait for timeout.
Author: Davies Liu <davies@databricks.com>
Closes#3779 from davies/local_streaming and squashes the following commits:
2d25fb3 [Davies Liu] Update TaskSetManager.scala
1550668 [Davies Liu] add comment
1c37aac [Davies Liu] address comments
6b13824 [Davies Liu] address comments
906f456 [Davies Liu] Merge branch 'master' of github.com:apache/spark into local_streaming
414e79e [Davies Liu] fix bug, add logging
ff8eabb [Davies Liu] Merge branch 'master' into local_streaming
28d1b3c [Davies Liu] check tasks
9d0ceab [Davies Liu] Merge branch 'master' of github.com:apache/spark into local_streaming
37a2804 [Davies Liu] fix tests
49bda82 [Davies Liu] address comment
d8fb95a [Davies Liu] move to next locality level if no more tasks
2d6ae73 [Davies Liu] add comments
32d363f [Davies Liu] add regression test
7d8c5a5 [Davies Liu] jump to next locality if no pending tasks for executors
...ck generator fails to store data.
The Reliable Kafka Receiver commits offsets only when events are actually stored, which ensures that on restart we will actually start where we left off. But if the failure happens in the store() call, and the block generator reports an error the receiver does not do anything and will continue reading from the current offset and not the last commit. This means that messages between the last commit and the current offset will be lost.
This PR retries the store call four times and then stops the receiver with an error message and the last exception that was received from the store.
Author: Hari Shreedharan <hshreedharan@apache.org>
Closes#3655 from harishreedharan/kafka-failure-fix and squashes the following commits:
5e2e7ad [Hari Shreedharan] [SPARK-4704][STREAMING] Reliable Kafka Receiver can lose data if the block generator fails to store data.
Author: cody koeninger <cody@koeninger.org>
Closes#3798 from koeninger/kafkaRdd and squashes the following commits:
1dc2941 [cody koeninger] [SPARK-4964] silence ConsumerConfig warnings about broker connection props
59e29f6 [cody koeninger] [SPARK-4964] settle on "Direct" as a naming convention for the new stream
8c31855 [cody koeninger] [SPARK-4964] remove HasOffsetRanges interface from return types
0df3ebe [cody koeninger] [SPARK-4964] add comments per pwendell / dibbhatt
8991017 [cody koeninger] [SPARK-4964] formatting
825110f [cody koeninger] [SPARK-4964] rename stuff per TD
4354bce [cody koeninger] [SPARK-4964] per td, remove java interfaces, replace with final classes, corresponding changes to KafkaRDD constructor and checkpointing
9adaa0a [cody koeninger] [SPARK-4964] formatting
0090553 [cody koeninger] [SPARK-4964] javafication of interfaces
9a838c2 [cody koeninger] [SPARK-4964] code cleanup, add more tests
2b340d8 [cody koeninger] [SPARK-4964] refactor per TD feedback
80fd6ae [cody koeninger] [SPARK-4964] Rename createExactlyOnceStream so it isnt over-promising, change doc
99d2eba [cody koeninger] [SPARK-4964] Reduce level of nesting. If beginning is past end, its actually an error (may happen if Kafka topic was deleted and recreated)
19406cc [cody koeninger] Merge branch 'master' of https://github.com/apache/spark into kafkaRdd
2e67117 [cody koeninger] [SPARK-4964] one potential way of hiding most of the implementation, while still allowing access to offsets (but not subclassing)
bb80bbe [cody koeninger] [SPARK-4964] scalastyle line length
d4a7cf7 [cody koeninger] [SPARK-4964] allow for use cases that need to override compute for custom kafka dstreams
c1bd6d9 [cody koeninger] [SPARK-4964] use newly available attemptNumber for correct retry behavior
548d529 [cody koeninger] Merge branch 'master' of https://github.com/apache/spark into kafkaRdd
0458e4e [cody koeninger] [SPARK-4964] recovery of generated rdds from checkpoint
e86317b [cody koeninger] [SPARK-4964] try seed brokers in random order to spread metadata requests
e93eb72 [cody koeninger] [SPARK-4964] refactor to add preferredLocations. depends on SPARK-4014
356c7cc [cody koeninger] [SPARK-4964] code cleanup per helena
adf99a6 [cody koeninger] [SPARK-4964] fix serialization issues for checkpointing
1d50749 [cody koeninger] [SPARK-4964] code cleanup per tdas
8bfd6c0 [cody koeninger] [SPARK-4964] configure rate limiting via spark.streaming.receiver.maxRate
e09045b [cody koeninger] [SPARK-4964] add foreachPartitionWithIndex, to avoid doing equivalent map + empty foreach boilerplate
cac63ee [cody koeninger] additional testing, fix fencepost error
37d3053 [cody koeninger] make KafkaRDDPartition available to users so offsets can be committed per partition
bcca8a4 [cody koeninger] Merge branch 'master' of https://github.com/apache/spark into kafkaRdd
6bf14f2 [cody koeninger] first attempt at a Kafka dstream that allows for exactly-once semantics
326ff3c [cody koeninger] add some tests
38bb727 [cody koeninger] give easy access to the parameters of a KafkaRDD
979da25 [cody koeninger] dont allow empty leader offsets to be returned
8d7de4a [cody koeninger] make sure leader offsets can be found even for leaders that arent in the seed brokers
4b078bf [cody koeninger] differentiate between leader and consumer offsets in error message
3c2a96a [cody koeninger] fix scalastyle errors
29c6b43 [cody koeninger] cleanup logging
783b477 [cody koeninger] update tests for kafka 8.1.1
7d050bc [cody koeninger] methods to set consumer offsets and get topic metadata, switch back to inclusive start / exclusive end to match typical kafka consumer behavior
ce91c59 [cody koeninger] method to get consumer offsets, explicit error handling
4dafd1b [cody koeninger] method to get leader offsets, switch rdd bound to being exclusive start, inclusive end to match offsets typically returned from cluster
0b94b33 [cody koeninger] use dropWhile rather than filter to trim beginning of fetch response
1d70625 [cody koeninger] WIP on kafka cluster
76913e2 [cody koeninger] Batch oriented kafka rdd, WIP. todo: cluster metadata / finding leader
Add a seed for tests.
Author: Davies Liu <davies@databricks.com>
Closes#4358 from davies/flaky_test and squashes the following commits:
02371c3 [Davies Liu] Merge branch 'master' of github.com:apache/spark into flaky_test
ced499b [Davies Liu] add seed for test
https://issues.apache.org/jira/browse/SPARK-5574
very minor, doesn't effect external behavior at all.
Note that after this change, some of these dirs no longer will have "spark" in the name at all. I could change those locations that do pass in a name prefix to also include "spark", eg. "blockmgr" -> "spark-blockmgr"
Author: Imran Rashid <irashid@cloudera.com>
Closes#4344 from squito/SPARK-5574 and squashes the following commits:
33a84fe [Imran Rashid] use given name prefix in dir
The warning log looks incorrect. Just fix it.
Author: Liang-Chi Hsieh <viirya@gmail.com>
Closes#4360 from viirya/fixing_typo and squashes the following commits:
48fbe4f [Liang-Chi Hsieh] Fix incorrect warning log.
Added `awaitTerminationOrTimeout` to return if the waiting time elapsed:
* `true` if it's stopped.
* `false` if the waiting time elapsed before returning from the method.
* throw the reported error if it's thrown during the execution.
Also deprecated `awaitTermination(timeout: Long)`.
Author: zsxwing <zsxwing@gmail.com>
Closes#4171 from zsxwing/SPARK-5379 and squashes the following commits:
c9e660b [zsxwing] Add a unit test for awaitTerminationOrTimeout
8a89f92 [zsxwing] Add awaitTerminationOrTimeout to python
cdc820b [zsxwing] Add awaitTerminationOrTimeout
This PR adds support for using maven coordinates as dependencies to spark-shell.
Coordinates can be provided as a comma-delimited string after the flag `--packages`.
Additional remote repositories (like SonaType) can be supplied as a comma-delimited string after the flag
`--repositories`.
Uses the Ivy library to resolve dependencies. Unfortunately the library has no decent documentation, therefore solving more complex dependency issues can be a problem.
pwendell, mateiz, mengxr
**Note: This is still a WIP. The following need to be handled:**
- [x] add docs for the methods
- [x] take local ivy cache path as an argument
- [x] add tests
- [x] add Windows compatibility
- [x] exclude unused Ivy dependencies
Author: Burak Yavuz <brkyvz@gmail.com>
Closes#4215 from brkyvz/SPARK-5341ivy and squashes the following commits:
9215851 [Burak Yavuz] ready to merge
db2a5cc [Burak Yavuz] changed logging to printStream
9dae87f [Burak Yavuz] file separators changed
71c374d [Burak Yavuz] merge conflicts fixed
c08dc9f [Burak Yavuz] fixed merge conflicts
3ada19a [Burak Yavuz] fixed Jenkins error (hopefully) and added comment on oro
43c2290 [Burak Yavuz] fixed that ONE line
231f72f [Burak Yavuz] addressed code review
2cd6562 [Burak Yavuz] Merge branch 'master' of github.com:apache/spark into SPARK-5341ivy
85ec5a3 [Burak Yavuz] added oro as a dependency explicitly
ea44ca4 [Burak Yavuz] add oro back to dependencies
cef0e24 [Burak Yavuz] IntelliJ is just messing things up
97c4a92 [Burak Yavuz] fix more weird IntelliJ formatting
9cf077d [Burak Yavuz] fix weird IntelliJ formatting
dcf5e13 [Burak Yavuz] fix windows command line flags
3a23f21 [Burak Yavuz] excluded ivy dependencies
53423e0 [Burak Yavuz] tests added
3705907 [Burak Yavuz] remove ivy-repo as a command line argument. Use global ivy cache as default
c04d885 [Burak Yavuz] take path to ivy cache as a conf
2edc9b5 [Burak Yavuz] managed to exclude Spark and it's dependencies
a0870af [Burak Yavuz] add docs. remove unnecesary new lines
6645af4 [Burak Yavuz] [SPARK-5341] added base implementation
882c4c8 [Burak Yavuz] added maven dependency download
