Example exception (new part at bottom, clearly demarcated):
```
org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 in stage 0.0 failed 1 times, most recent failure: Lost task 0.0 in stage 0.0 (TID 0, localhost): java.lang.RuntimeException: uh-oh!
at org.apache.spark.scheduler.DAGSchedulerSuite$$anonfun$37$$anonfun$38$$anonfun$apply$mcJ$sp$2.apply(DAGSchedulerSuite.scala:880)
at org.apache.spark.scheduler.DAGSchedulerSuite$$anonfun$37$$anonfun$38$$anonfun$apply$mcJ$sp$2.apply(DAGSchedulerSuite.scala:880)
at scala.collection.Iterator$$anon$11.next(Iterator.scala:328)
at org.apache.spark.util.Utils$.getIteratorSize(Utils.scala:1640)
at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1099)
at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1099)
at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1777)
at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1777)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:63)
at org.apache.spark.scheduler.Task.run(Task.scala:70)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:213)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
at java.lang.Thread.run(Thread.java:744)
Driver stacktrace:
at org.apache.spark.scheduler.DAGScheduler.org$apache$spark$scheduler$DAGScheduler$$failJobAndIndependentStages(DAGScheduler.scala:1298)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1289)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1288)
at scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59)
at scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:47)
at org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:1288)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:755)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:755)
at scala.Option.foreach(Option.scala:236)
at org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:755)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:1509)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1470)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1459)
at org.apache.spark.util.EventLoop$$anon$1.run(EventLoop.scala:48)
at org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:560)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1744)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1762)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1777)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1791)
at org.apache.spark.rdd.RDD.count(RDD.scala:1099)
at org.apache.spark.scheduler.DAGSchedulerSuite$$anonfun$37$$anonfun$38.apply$mcJ$sp(DAGSchedulerSuite.scala:880)
at org.apache.spark.scheduler.DAGSchedulerSuite$$anonfun$37$$anonfun$38.apply(DAGSchedulerSuite.scala:880)
at org.apache.spark.scheduler.DAGSchedulerSuite$$anonfun$37$$anonfun$38.apply(DAGSchedulerSuite.scala:880)
at org.scalatest.Assertions$class.intercept(Assertions.scala:997)
at org.scalatest.FunSuite.intercept(FunSuite.scala:1555)
at org.apache.spark.scheduler.DAGSchedulerSuite$$anonfun$37.apply$mcV$sp(DAGSchedulerSuite.scala:879)
at org.apache.spark.scheduler.DAGSchedulerSuite$$anonfun$37.apply(DAGSchedulerSuite.scala:878)
at org.apache.spark.scheduler.DAGSchedulerSuite$$anonfun$37.apply(DAGSchedulerSuite.scala:878)
at org.scalatest.Transformer$$anonfun$apply$1.apply$mcV$sp(Transformer.scala:22)
at org.scalatest.OutcomeOf$class.outcomeOf(OutcomeOf.scala:85)
at org.scalatest.OutcomeOf$.outcomeOf(OutcomeOf.scala:104)
at org.scalatest.Transformer.apply(Transformer.scala:22)
at org.scalatest.Transformer.apply(Transformer.scala:20)
at org.scalatest.FunSuiteLike$$anon$1.apply(FunSuiteLike.scala:166)
at org.apache.spark.SparkFunSuite.withFixture(SparkFunSuite.scala:42)
at org.scalatest.FunSuiteLike$class.invokeWithFixture$1(FunSuiteLike.scala:163)
at org.scalatest.FunSuiteLike$$anonfun$runTest$1.apply(FunSuiteLike.scala:175)
at org.scalatest.FunSuiteLike$$anonfun$runTest$1.apply(FunSuiteLike.scala:175)
at org.scalatest.SuperEngine.runTestImpl(Engine.scala:306)
at org.scalatest.FunSuiteLike$class.runTest(FunSuiteLike.scala:175)
at org.apache.spark.scheduler.DAGSchedulerSuite.org$scalatest$BeforeAndAfter$$super$runTest(DAGSchedulerSuite.scala:70)
at org.scalatest.BeforeAndAfter$class.runTest(BeforeAndAfter.scala:200)
at org.apache.spark.scheduler.DAGSchedulerSuite.org$scalatest$BeforeAndAfterEach$$super$runTest(DAGSchedulerSuite.scala:70)
at org.scalatest.BeforeAndAfterEach$class.runTest(BeforeAndAfterEach.scala:255)
at org.apache.spark.scheduler.DAGSchedulerSuite.runTest(DAGSchedulerSuite.scala:70)
at org.scalatest.FunSuiteLike$$anonfun$runTests$1.apply(FunSuiteLike.scala:208)
at org.scalatest.FunSuiteLike$$anonfun$runTests$1.apply(FunSuiteLike.scala:208)
at org.scalatest.SuperEngine$$anonfun$traverseSubNodes$1$1.apply(Engine.scala:413)
at org.scalatest.SuperEngine$$anonfun$traverseSubNodes$1$1.apply(Engine.scala:401)
at scala.collection.immutable.List.foreach(List.scala:318)
at org.scalatest.SuperEngine.traverseSubNodes$1(Engine.scala:401)
at org.scalatest.SuperEngine.org$scalatest$SuperEngine$$runTestsInBranch(Engine.scala:396)
at org.scalatest.SuperEngine.runTestsImpl(Engine.scala:483)
at org.scalatest.FunSuiteLike$class.runTests(FunSuiteLike.scala:208)
at org.scalatest.FunSuite.runTests(FunSuite.scala:1555)
at org.scalatest.Suite$class.run(Suite.scala:1424)
at org.scalatest.FunSuite.org$scalatest$FunSuiteLike$$super$run(FunSuite.scala:1555)
at org.scalatest.FunSuiteLike$$anonfun$run$1.apply(FunSuiteLike.scala:212)
at org.scalatest.FunSuiteLike$$anonfun$run$1.apply(FunSuiteLike.scala:212)
at org.scalatest.SuperEngine.runImpl(Engine.scala:545)
at org.scalatest.FunSuiteLike$class.run(FunSuiteLike.scala:212)
at org.apache.spark.scheduler.DAGSchedulerSuite.org$scalatest$BeforeAndAfter$$super$run(DAGSchedulerSuite.scala:70)
at org.scalatest.BeforeAndAfter$class.run(BeforeAndAfter.scala:241)
at org.apache.spark.scheduler.DAGSchedulerSuite.org$scalatest$BeforeAndAfterAll$$super$run(DAGSchedulerSuite.scala:70)
at org.scalatest.BeforeAndAfterAll$class.liftedTree1$1(BeforeAndAfterAll.scala:257)
at org.scalatest.BeforeAndAfterAll$class.run(BeforeAndAfterAll.scala:256)
at org.apache.spark.scheduler.DAGSchedulerSuite.run(DAGSchedulerSuite.scala:70)
at org.scalatest.tools.Framework.org$scalatest$tools$Framework$$runSuite(Framework.scala:462)
at org.scalatest.tools.Framework$ScalaTestTask.execute(Framework.scala:671)
at sbt.ForkMain$Run$2.call(ForkMain.java:294)
at sbt.ForkMain$Run$2.call(ForkMain.java:284)
at java.util.concurrent.FutureTask.run(FutureTask.java:262)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
at java.lang.Thread.run(Thread.java:744)
```
Author: Aaron Davidson <aaron@databricks.com>
Closes#7028 from aarondav/stack-trace and squashes the following commits:
4714664 [Aaron Davidson] [SPARK-8644] Include call site in SparkException stack traces thrown by job failures
Author: jerryshao <saisai.shao@intel.com>
Author: Saisai Shao <saisai.shao@intel.com>
Closes#5060 from jerryshao/SPARK-6304 and squashes the following commits:
89b01f5 [jerryshao] Update the unit test to add more cases
275d252 [jerryshao] Address the comments
7cc146d [jerryshao] Address the comments
2624723 [jerryshao] Fix rebase conflict
45befaa [Saisai Shao] Update the unit test
bbc1c9c [Saisai Shao] Fix checkpointing doesn't retain driver port issue
This builds on #7433 but also removes LeafNode/UnaryNode. These are slightly more complicated to remove. I had to change some abstract classes to traits in order for it to work.
The problem with LeafNode/UnaryNode is that they are often mixed in at the end of an Expression, and then the toString function actually gets resolved to the ones defined in TreeNode, rather than in Expression.
Author: Reynold Xin <rxin@databricks.com>
Closes#7434 from rxin/remove-binary-unary-leaf-node and squashes the following commits:
9e8a4de [Reynold Xin] Generator should not be foldable.
3135a8b [Reynold Xin] SortOrder should not be foldable.
9c589cf [Reynold Xin] Fixed one more test case...
2225331 [Reynold Xin] Aggregate expressions should not be foldable.
16b5c90 [Reynold Xin] [SPARK-9085][SQL] Remove LeafNode, UnaryNode, BinaryNode from TreeNode.
JIRA: https://issues.apache.org/jira/browse/SPARK-6941
Author: Yijie Shen <henry.yijieshen@gmail.com>
Closes#7342 from yijieshen/SPARK-6941 and squashes the following commits:
f82cbe7 [Yijie Shen] reorder import
dd67e40 [Yijie Shen] resolve comments
09518af [Yijie Shen] fix import order in DataframeSuite
0c635d4 [Yijie Shen] make match more specific
9df388d [Yijie Shen] move check into PreWriteCheck
847ab20 [Yijie Shen] Detect insertion error in DataSourceStrategy
Cleanup maven for a clean import in scala-ide / eclipse.
* remove groovy plugin which is really not needed at all
* add-source from build-helper-maven-plugin is not needed as recent version of scala-maven-plugin do it automatically
* add lifecycle-mapping plugin to hide a few useless warnings from ide
Author: Jan Prach <jendap@gmail.com>
Closes#7375 from jendap/clean-project-import-in-scala-ide and squashes the following commits:
c4b4c0f [Jan Prach] fix whitespaces
5a83e07 [Jan Prach] Revert "remove java compiler warnings from java tests"
312007e [Jan Prach] scala-maven-plugin itself add scala sources by default
f47d856 [Jan Prach] remove spark-1.4-staging repository
c8a54db [Jan Prach] remove java compiler warnings from java tests
999a068 [Jan Prach] remove some maven warnings in scala ide
80fbdc5 [Jan Prach] remove groovy and gmavenplus plugin
Jira https://issues.apache.org/jira/browse/SPARK-8995
In PR #6981we noticed that we cannot cast date strings that contains a time, like '2015-03-18 12:39:40' to date. Besides it's not possible to cast a string like '18:03:20' to a timestamp.
If a time is passed without a date, today is inferred as date.
Author: Tarek Auel <tarek.auel@googlemail.com>
Author: Tarek Auel <tarek.auel@gmail.com>
Closes#7353 from tarekauel/SPARK-8995 and squashes the following commits:
14f333b [Tarek Auel] [SPARK-8995] added tests for daylight saving time
ca1ae69 [Tarek Auel] [SPARK-8995] style fix
d20b8b4 [Tarek Auel] [SPARK-8995] bug fix: distinguish between 0 and null
ef05753 [Tarek Auel] [SPARK-8995] added check for year >= 1000
01c9ff3 [Tarek Auel] [SPARK-8995] support for time strings
34ec573 [Tarek Auel] fixed style
71622c0 [Tarek Auel] improved timestamp and date parsing
0e30c0a [Tarek Auel] Hive compatibility
cfbaed7 [Tarek Auel] fixed wrong checks
71f89c1 [Tarek Auel] [SPARK-8995] minor style fix
f7452fa [Tarek Auel] [SPARK-8995] removed old timestamp parsing
30e5aec [Tarek Auel] [SPARK-8995] date and timestamp cast
c1083fb [Tarek Auel] [SPARK-8995] cast date strings like '2015-01-01 12:15:31' to date or timestamp
https://issues.apache.org/jira/browse/SPARK-8893
> What does `sc.parallelize(1 to 3).repartition(p).collect` return? I would expect `Array(1, 2, 3)` regardless of `p`. But if `p` < 1, it returns `Array()`. I think instead it should throw an `IllegalArgumentException`.
> I think the case is pretty clear for `p` < 0. But the behavior for `p` = 0 is also error prone. In fact that's how I found this strange behavior. I used `rdd.repartition(a/b)` with positive `a` and `b`, but `a/b` was rounded down to zero and the results surprised me. I'd prefer an exception instead of unexpected (corrupt) results.
Author: Daniel Darabos <darabos.daniel@gmail.com>
Closes#7285 from darabos/patch-1 and squashes the following commits:
decba82 [Daniel Darabos] Allow repartitioning empty RDDs to zero partitions.
97de852 [Daniel Darabos] Allow zero partition count in HashPartitioner
f6ba5fb [Daniel Darabos] Use require() for simpler syntax.
d5e3df8 [Daniel Darabos] Require positive number of partitions in HashPartitioner
897c628 [Daniel Darabos] Require positive maxPartitions in CoalescedRDD
JIRA: https://issues.apache.org/jira/browse/SPARK-8807
Add between operator in SparkR.
Author: Liang-Chi Hsieh <viirya@appier.com>
Closes#7356 from viirya/add_r_between and squashes the following commits:
7f51b44 [Liang-Chi Hsieh] Add test for non-numeric column.
c6a25c5 [Liang-Chi Hsieh] Add between function.
We don't support the complex expression keys in the rollup/cube, and we even will not report it if we have the complex group by keys, that will cause very confusing/incorrect result.
e.g. `SELECT key%100 FROM src GROUP BY key %100 with ROLLUP`
This PR adds an additional project during the analyzing for the complex GROUP BY keys, and that projection will be the child of `Expand`, so to `Expand`, the GROUP BY KEY are always the simple key(attribute names).
Author: Cheng Hao <hao.cheng@intel.com>
Closes#7343 from chenghao-intel/expand and squashes the following commits:
1ebbb59 [Cheng Hao] update the comment
827873f [Cheng Hao] update as feedback
34def69 [Cheng Hao] Add more unit test and comments
c695760 [Cheng Hao] fix bug of incorrect result for rollup
based on https://github.com/apache/spark/pull/7348
Author: Wenchen Fan <cloud0fan@outlook.com>
Closes#7420 from cloud-fan/type-check and squashes the following commits:
7633fa9 [Wenchen Fan] revert
fe169b0 [Wenchen Fan] improve test
03b70da [Wenchen Fan] enhance implicit type cast
- `BinaryType` for `Length`
- `FormatNumber`
Author: Cheng Hao <hao.cheng@intel.com>
Closes#7034 from chenghao-intel/expression and squashes the following commits:
e534b87 [Cheng Hao] python api style issue
601bbf5 [Cheng Hao] add python API support
3ebe288 [Cheng Hao] update as feedback
52274f7 [Cheng Hao] add support for udf_format_number and length for binary
Add stopwatches for easy instrumentation of MLlib algorithms. This is based on the `TimeTracker` used in decision trees. The distributed version uses Spark accumulator. jkbradley
Author: Xiangrui Meng <meng@databricks.com>
Closes#7415 from mengxr/SPARK-9018 and squashes the following commits:
40b4347 [Xiangrui Meng] == -> ===
c477745 [Xiangrui Meng] address Joseph's comments
f981a49 [Xiangrui Meng] add stopwatches
This implements minimal R formula support as a feature transformer. Both numeric and string labels are supported, but features must be numeric for now.
cc mengxr
Author: Eric Liang <ekl@databricks.com>
Closes#7381 from ericl/spark-8774-1 and squashes the following commits:
d1959d2 [Eric Liang] clarify comment
2db68aa [Eric Liang] second round of comments
dc3c943 [Eric Liang] address comments
5765ec6 [Eric Liang] fix style checks
1f361b0 [Eric Liang] doc
fb0826b [Eric Liang] [SPARK-8774] Add R model formula with basic support as a transformer
These traits are not super useful, and yet cause problems with toString in expressions due to the orders they are mixed in.
Author: Reynold Xin <rxin@databricks.com>
Closes#7433 from rxin/remove-binary-node and squashes the following commits:
1881f78 [Reynold Xin] [SPARK-9086][SQL] Remove BinaryNode from TreeNode.
I also took the chance to more explicitly define the semantics of deterministic.
Author: Reynold Xin <rxin@databricks.com>
Closes#7428 from rxin/non-deterministic and squashes the following commits:
a760827 [Reynold Xin] [SPARK-9071][SQL] MonotonicallyIncreasingID and SparkPartitionID should be marked as nondeterministic.
I meet a problem. When I submit some tasks, the thread spark-dynamic-executor-allocation should seed the message about "requestTotalExecutors", and the new executor should start. But I meet a problem about this thread, like:
2015-07-14 19:02:17,461 | WARN | [spark-dynamic-executor-allocation] | Error sending message [message = RequestExecutors(1)] in 1 attempts
java.util.concurrent.TimeoutException: Futures timed out after [120 seconds]
at scala.concurrent.impl.Promise$DefaultPromise.ready(Promise.scala:219)
at scala.concurrent.impl.Promise$DefaultPromise.result(Promise.scala:223)
at scala.concurrent.Await$$anonfun$result$1.apply(package.scala:107)
at scala.concurrent.BlockContext$DefaultBlockContext$.blockOn(BlockContext.scala:53)
at scala.concurrent.Await$.result(package.scala:107)
at org.apache.spark.rpc.RpcEndpointRef.askWithRetry(RpcEndpointRef.scala:102)
at org.apache.spark.rpc.RpcEndpointRef.askWithRetry(RpcEndpointRef.scala:78)
at org.apache.spark.scheduler.cluster.YarnSchedulerBackend.doRequestTotalExecutors(YarnSchedulerBackend.scala:57)
at org.apache.spark.scheduler.cluster.CoarseGrainedSchedulerBackend.requestTotalExecutors(CoarseGrainedSchedulerBackend.scala:351)
at org.apache.spark.SparkContext.requestTotalExecutors(SparkContext.scala:1382)
at org.apache.spark.ExecutorAllocationManager.addExecutors(ExecutorAllocationManager.scala:343)
at org.apache.spark.ExecutorAllocationManager.updateAndSyncNumExecutorsTarget(ExecutorAllocationManager.scala:295)
at org.apache.spark.ExecutorAllocationManager.org$apache$spark$ExecutorAllocationManager$$schedule(ExecutorAllocationManager.scala:248)
when after some minutes, I find a new ApplicationMaster start, and tasks submitted start to run. The tasks Completed. And after long time (eg, ten minutes), the number of executor does not reduce to zero. I use the default value of "spark.dynamicAllocation.minExecutors".
Author: KaiXinXiaoLei <huleilei1@huawei.com>
Closes#7352 from KaiXinXiaoLei/dym and squashes the following commits:
3603631 [KaiXinXiaoLei] change logError to logWarning
efc4f24 [KaiXinXiaoLei] change file
Replace Akka Serialization with Spark Serializer and add unit tests.
Author: zsxwing <zsxwing@gmail.com>
Closes#7159 from zsxwing/remove-akka-serialization and squashes the following commits:
fc0fca3 [zsxwing] Merge branch 'master' into remove-akka-serialization
cf81a58 [zsxwing] Fix the code style
73251c6 [zsxwing] Add test scope
9ef4af9 [zsxwing] Add AkkaRpcEndpointRef.hashCode
433115c [zsxwing] Remove final
be3edb0 [zsxwing] Support deserializing RpcEndpointRef
ecec410 [zsxwing] Replace Akka Serialization with Spark Serializer
Fixes implementation of `explainedVariance` and `r2` to be consistent with their definitions as described in [SPARK-9005](https://issues.apache.org/jira/browse/SPARK-9005).
Author: Feynman Liang <fliang@databricks.com>
Closes#7361 from feynmanliang/SPARK-9005-RegressionMetrics-bugs and squashes the following commits:
f1112fc [Feynman Liang] Add explainedVariance formula
1a3d098 [Feynman Liang] SROwen code review comments
08a0e1b [Feynman Liang] Fix pyspark tests
db8605a [Feynman Liang] Style fix
bde9761 [Feynman Liang] Fix RegressionMetrics tests, relax assumption predictor is unbiased
c235de0 [Feynman Liang] Fix RegressionMetrics tests
4c4e56f [Feynman Liang] Fix RegressionMetrics computation of explainedVariance and r2
fix teardown to skip table delete if hive context is null
Author: Steve Loughran <stevel@hortonworks.com>
Closes#7425 from steveloughran/stevel/patches/SPARK-9070-JavaDataFrameSuite-NPE and squashes the following commits:
1982d38 [Steve Loughran] SPARK-9070 JavaDataFrameSuite teardown NPEs if setup failed
jkbradley I put the elastic net under the **Algorithm guide** section. Also add the formula of elastic net in mllib-linear `mllib-linear-methods#regularizers`.
dbtsai I left the code tab for you to add example code. Do you think it is the right place?
Author: Shuo Xiang <shuoxiangpub@gmail.com>
Closes#6504 from coderxiang/elasticnet and squashes the following commits:
f6061ee [Shuo Xiang] typo
90a7c88 [Shuo Xiang] Merge remote-tracking branch 'upstream/master' into elasticnet
0610a36 [Shuo Xiang] move out the elastic net to ml-linear-methods
8747190 [Shuo Xiang] merge master
706d3f7 [Shuo Xiang] add python code
9bc2b4c [Shuo Xiang] typo
db32a60 [Shuo Xiang] java code sample
aab3b3a [Shuo Xiang] Merge remote-tracking branch 'upstream/master' into elasticnet
a0dae07 [Shuo Xiang] simplify code
d8616fd [Shuo Xiang] Update the definition of elastic net. Add scala code; Mention Lasso and Ridge
df5bd14 [Shuo Xiang] use wikipeida page in ml-linear-methods.md
78d9366 [Shuo Xiang] address comments
8ce37c2 [Shuo Xiang] Merge branch 'elasticnet' of github.com:coderxiang/spark into elasticnet
8f24848 [Shuo Xiang] Merge branch 'elastic-net-doc' of github.com:coderxiang/spark into elastic-net-doc
998d766 [Shuo Xiang] Merge branch 'elastic-net-doc' of github.com:coderxiang/spark into elastic-net-doc
89f10e4 [Shuo Xiang] Merge remote-tracking branch 'upstream/master' into elastic-net-doc
9262a72 [Shuo Xiang] update
7e07d12 [Shuo Xiang] update
b32f21a [Shuo Xiang] add doc for elastic net in sparkml
937eef1 [Shuo Xiang] Merge remote-tracking branch 'upstream/master' into elastic-net-doc
180b496 [Shuo Xiang] Merge remote-tracking branch 'upstream/master'
aa0717d [Shuo Xiang] Merge remote-tracking branch 'upstream/master'
5f109b4 [Shuo Xiang] Merge remote-tracking branch 'upstream/master'
c5c5bfe [Shuo Xiang] Merge remote-tracking branch 'upstream/master'
98804c9 [Shuo Xiang] fix bug in topBykey and update test
This is a minor fixing for #7355 to allow spaces in the beginning and ending of string parsed to `Interval`.
Author: Liang-Chi Hsieh <viirya@appier.com>
Closes#7390 from viirya/fix_interval_string and squashes the following commits:
9eb6831 [Liang-Chi Hsieh] Use trim instead of modifying regex.
57861f7 [Liang-Chi Hsieh] Fix scala style.
815a9cb [Liang-Chi Hsieh] Slightly modify regex to allow spaces in the beginning and ending of string.
https://issues.apache.org/jira/browse/SPARK-8221
One concern is the result would be negative if the divisor is not positive( i.e pmod(7, -3) ), but the behavior is the same as hive.
Author: zhichao.li <zhichao.li@intel.com>
Closes#6783 from zhichao-li/pmod2 and squashes the following commits:
7083eb9 [zhichao.li] update to the latest type checking
d26dba7 [zhichao.li] add pmod
We can keep expressions' mutable states in generated class(like `SpecificProjection`) as member variables, so that we can read and modify them inside codegened expressions.
Author: Wenchen Fan <cloud0fan@outlook.com>
Closes#7392 from cloud-fan/mutable-state and squashes the following commits:
eb3a221 [Wenchen Fan] fix order
73144d8 [Wenchen Fan] naming improvement
318f41d [Wenchen Fan] address more comments
d43b65d [Wenchen Fan] address comments
fd45c7a [Wenchen Fan] Support mutable state in code gen expressions
JIRA: https://issues.apache.org/jira/browse/SPARK-8840
Currently the type coercion rules don't include float type. This PR simply adds it.
Author: Liang-Chi Hsieh <viirya@appier.com>
Closes#7280 from viirya/add_r_float_coercion and squashes the following commits:
c86dc0e [Liang-Chi Hsieh] For comments.
dbf0c1b [Liang-Chi Hsieh] Implicitly convert Double to Float based on provided schema.
733015a [Liang-Chi Hsieh] Add test case for DataFrame with float type.
30c2a40 [Liang-Chi Hsieh] Update test case.
52b5294 [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into add_r_float_coercion
6f9159d [Liang-Chi Hsieh] Add another test case.
8db3244 [Liang-Chi Hsieh] schema also needs to support float. add test case.
0dcc992 [Liang-Chi Hsieh] Add float coercion on SparkR.
This adds Pylint checks to PySpark.
For now this lazy installs using easy_install to /dev/pylint (similar to the pep8 script).
We still need to figure out what rules to be allowed.
Author: MechCoder <manojkumarsivaraj334@gmail.com>
Closes#7241 from MechCoder/pylint and squashes the following commits:
2fc7291 [MechCoder] Remove pylint test fail
6d883a2 [MechCoder] Silence warnings and make pylint tests fail to check if it works in jenkins
f3a5e17 [MechCoder] undefined-variable
ca8b749 [MechCoder] Minor changes
71629f8 [MechCoder] remove trailing whitespace
8498ff9 [MechCoder] Remove blacklisted arguments and pointless statements check
1dbd094 [MechCoder] Disable all checks for now
8b8aa8a [MechCoder] Add pylint configuration file
7871bb1 [MechCoder] [SPARK-8706] [PySpark] [Project infra] Add pylint checks to PySpark
This allows Kmeans to be initialized using an existing set of cluster centers provided as a KMeansModel object. This mode of initialization performs a single run.
Author: FlytxtRnD <meethu.mathew@flytxt.com>
Closes#6737 from FlytxtRnD/Kmeans-8018 and squashes the following commits:
94b56df [FlytxtRnD] style correction
ef95ee2 [FlytxtRnD] style correction
c446c58 [FlytxtRnD] documentation and numRuns warning change
06d13ef [FlytxtRnD] numRuns corrected
d12336e [FlytxtRnD] numRuns variable modifications
07f8554 [FlytxtRnD] remove setRuns from setIntialModel
e721dfe [FlytxtRnD] Merge remote-tracking branch 'upstream/master' into Kmeans-8018
242ead1 [FlytxtRnD] corrected == to === in assert
714acb5 [FlytxtRnD] added numRuns
60c8ce2 [FlytxtRnD] ignore runs parameter and initialModel test suite changed
582e6d9 [FlytxtRnD] Merge remote-tracking branch 'upstream/master' into Kmeans-8018
3f5fc8e [FlytxtRnD] test case modified and one runs condition added
cd5dc5c [FlytxtRnD] Merge remote-tracking branch 'upstream/master' into Kmeans-8018
16f1b53 [FlytxtRnD] Merge branch 'Kmeans-8018', remote-tracking branch 'upstream/master' into Kmeans-8018
e9c35d7 [FlytxtRnD] Remove getInitialModel and match cluster count criteria
6959861 [FlytxtRnD] Accept initial cluster centers in KMeans
I implemented the Python API for LDA. But I didn't implemented a method for `LDAModel.describeTopics()`, beause it's a little hard to implement it now. And adding document about that and an example code would fit for another issue.
TODO: LDAModel.describeTopics() in Python must be also implemented. But it would be nice to fit for another issue. Implementing it is a little hard, since the return value of `describeTopics` in Scala consists of Tuple classes.
Author: Yu ISHIKAWA <yuu.ishikawa@gmail.com>
Closes#6791 from yu-iskw/SPARK-6259 and squashes the following commits:
6855f59 [Yu ISHIKAWA] LDA inherits object
28bd165 [Yu ISHIKAWA] Change the place of testing code
d7a332a [Yu ISHIKAWA] Remove the doc comment about the optimizer's default value
083e226 [Yu ISHIKAWA] Add the comment about the supported values and the default value of `optimizer`
9f8bed8 [Yu ISHIKAWA] Simplify casting
faa9764 [Yu ISHIKAWA] Add some comments for the LDA paramters
98f645a [Yu ISHIKAWA] Remove the interface for `describeTopics`. Because it is not implemented.
57ac03d [Yu ISHIKAWA] Remove the unnecessary import in Python unit testing
73412c3 [Yu ISHIKAWA] Fix the typo
2278829 [Yu ISHIKAWA] Fix the indentation
39514ec [Yu ISHIKAWA] Modify how to cast the input data
8117e18 [Yu ISHIKAWA] Fix the validation problems by `lint-scala`
77fd1b7 [Yu ISHIKAWA] Not use LabeledPoint
68f0653 [Yu ISHIKAWA] Support some parameters for `ALS.train()` in Python
25ef2ac [Yu ISHIKAWA] Resolve conflicts with rebasing
Revert #7216 and #7386. These patch seems to be causing quite a few test failures:
```
Caused by: java.lang.reflect.InvocationTargetException
at sun.reflect.GeneratedMethodAccessor322.invoke(Unknown Source)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at org.apache.spark.sql.hive.client.Shim_v0_13.getPartitionsByFilter(HiveShim.scala:351)
at org.apache.spark.sql.hive.client.ClientWrapper$$anonfun$getPartitionsByFilter$1.apply(ClientWrapper.scala:320)
at org.apache.spark.sql.hive.client.ClientWrapper$$anonfun$getPartitionsByFilter$1.apply(ClientWrapper.scala:318)
at org.apache.spark.sql.hive.client.ClientWrapper$$anonfun$withHiveState$1.apply(ClientWrapper.scala:180)
at org.apache.spark.sql.hive.client.ClientWrapper.retryLocked(ClientWrapper.scala:135)
at org.apache.spark.sql.hive.client.ClientWrapper.withHiveState(ClientWrapper.scala:172)
at org.apache.spark.sql.hive.client.ClientWrapper.getPartitionsByFilter(ClientWrapper.scala:318)
at org.apache.spark.sql.hive.client.HiveTable.getPartitions(ClientInterface.scala:78)
at org.apache.spark.sql.hive.MetastoreRelation.getHiveQlPartitions(HiveMetastoreCatalog.scala:670)
at org.apache.spark.sql.hive.execution.HiveTableScan.doExecute(HiveTableScan.scala:137)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$execute$1.apply(SparkPlan.scala:90)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$execute$1.apply(SparkPlan.scala:90)
at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:147)
at org.apache.spark.sql.execution.SparkPlan.execute(SparkPlan.scala:89)
at org.apache.spark.sql.execution.Exchange$$anonfun$doExecute$1.apply(Exchange.scala:164)
at org.apache.spark.sql.execution.Exchange$$anonfun$doExecute$1.apply(Exchange.scala:151)
at org.apache.spark.sql.catalyst.errors.package$.attachTree(package.scala:48)
... 85 more
Caused by: MetaException(message:Filtering is supported only on partition keys of type string)
at org.apache.hadoop.hive.metastore.parser.ExpressionTree$FilterBuilder.setError(ExpressionTree.java:185)
at org.apache.hadoop.hive.metastore.parser.ExpressionTree$LeafNode.getJdoFilterPushdownParam(ExpressionTree.java:452)
at org.apache.hadoop.hive.metastore.parser.ExpressionTree$LeafNode.generateJDOFilterOverPartitions(ExpressionTree.java:357)
at org.apache.hadoop.hive.metastore.parser.ExpressionTree$LeafNode.generateJDOFilter(ExpressionTree.java:279)
at org.apache.hadoop.hive.metastore.parser.ExpressionTree$TreeNode.generateJDOFilter(ExpressionTree.java:243)
at org.apache.hadoop.hive.metastore.parser.ExpressionTree.generateJDOFilterFragment(ExpressionTree.java:590)
at org.apache.hadoop.hive.metastore.ObjectStore.makeQueryFilterString(ObjectStore.java:2417)
at org.apache.hadoop.hive.metastore.ObjectStore.getPartitionsViaOrmFilter(ObjectStore.java:2029)
at org.apache.hadoop.hive.metastore.ObjectStore.access$500(ObjectStore.java:146)
at org.apache.hadoop.hive.metastore.ObjectStore$4.getJdoResult(ObjectStore.java:2332)
```
https://amplab.cs.berkeley.edu/jenkins/view/Spark-QA-Test/job/Spark-Master-Maven-with-YARN/2945/HADOOP_PROFILE=hadoop-2.4,label=centos/testReport/junit/org.apache.spark.sql.hive.execution/SortMergeCompatibilitySuite/auto_sortmerge_join_16/
Author: Michael Armbrust <michael@databricks.com>
Closes#7409 from marmbrus/revertMetastorePushdown and squashes the following commits:
92fabd3 [Michael Armbrust] Revert SPARK-6910 and SPARK-9027
5d3bdf2 [Michael Armbrust] Revert "[SPARK-9027] [SQL] Generalize metastore predicate pushdown"
This patch makes the following changes:
1. ExpectsInputTypes only defines expected input types, but does not perform any implicit type casting.
2. ImplicitCastInputTypes is a new trait that defines both expected input types, as well as performs implicit type casting.
3. BinaryOperator has a new abstract function "inputType", which defines the expected input type for both left/right. Concrete BinaryOperator expressions no longer perform any implicit type casting.
4. For BinaryOperators, convert NullType (i.e. null literals) into some accepted type so BinaryOperators don't need to handle NullTypes.
TODOs needed: fix unit tests for error reporting.
I'm intentionally not changing anything in aggregate expressions because yhuai is doing a big refactoring on that right now.
Author: Reynold Xin <rxin@databricks.com>
Closes#7348 from rxin/typecheck and squashes the following commits:
8fcf814 [Reynold Xin] Fixed ordering of cases.
3bb63e7 [Reynold Xin] Style fix.
f45408f [Reynold Xin] Comment update.
aa7790e [Reynold Xin] Moved RemoveNullTypes into ImplicitTypeCasts.
438ea07 [Reynold Xin] space
d55c9e5 [Reynold Xin] Removes NullTypes.
360d124 [Reynold Xin] Fixed the rule.
fb66657 [Reynold Xin] Convert NullType into some accepted type for BinaryOperators.
2e22330 [Reynold Xin] Fixed unit tests.
4932d57 [Reynold Xin] Style fix.
d061691 [Reynold Xin] Rename existing ExpectsInputTypes -> ImplicitCastInputTypes.
e4727cc [Reynold Xin] BinaryOperator should not be doing implicit cast.
d017861 [Reynold Xin] Improve expression type checking.
Author: Sun Rui <rui.sun@intel.com>
Closes#7395 from sun-rui/SPARK-8808 and squashes the following commits:
ce603bc [Sun Rui] Use '<-' instead of '='.
88590b1 [Sun Rui] Use '<-' instead of '='.
Hostname in TaskMetrics will be created through deserialization, mostly the number of hostname is only the order of number of cluster node, so adding a cache layer to dedup the object could reduce the memory usage and alleviate GC overhead, especially for long-running and fast job generation applications like Spark Streaming.
Author: jerryshao <saisai.shao@intel.com>
Author: Saisai Shao <saisai.shao@intel.com>
Closes#5064 from jerryshao/SPARK-5523 and squashes the following commits:
3e2412a [jerryshao] Address the comments
b092a81 [Saisai Shao] Add a pool to cache the hostname
Add a configuration to set checkpoint directory for convenience to user.
[Jira Address](https://issues.apache.org/jira/browse/SPARK-8820)
Author: huangzhaowei <carlmartinmax@gmail.com>
Closes#7218 from SaintBacchus/SPARK-8820 and squashes the following commits:
d49fe4b [huangzhaowei] Rename the configuration name
66ea47c [huangzhaowei] Add the unit test.
dd0acc1 [huangzhaowei] [SPARK-8820][Streaming] Add a configuration to set checkpoint dir.
SPARK-8317 changed the SQL Exchange operator so that it no longer pushed sorting into Spark's shuffle layer, a change which allowed more efficient SQL-specific sorters to be used.
This patch performs some leftover cleanup based on those changes:
- Exchange's constructor should no longer accept a `newOrdering` since it's no longer used and no longer works as expected.
- `addOperatorsIfNecessary` looked at shuffle input's output ordering to decide whether to sort, but this is the wrong node to be examining: it needs to look at whether the post-shuffle node has the right ordering, since shuffling will not preserve row orderings. Thanks to davies for spotting this.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7407 from JoshRosen/SPARK-9050 and squashes the following commits:
e70be50 [Josh Rosen] No need to wrap line
e866494 [Josh Rosen] Refactor addOperatorsIfNecessary to make code clearer
2e467da [Josh Rosen] Remove `newOrdering` from Exchange.
This fixes a compilation break in under Scala 2.11:
```
[error] /home/jenkins/workspace/Spark-Master-Scala211-Compile/sql/catalyst/src/main/java/org/apache/spark/sql/execution/UnsafeExternalRowSorter.java:135: error: <anonymous org.apache.spark.sql.execution.UnsafeExternalRowSorter$1> is not abstract and does not override abstract method <B>minBy(Function1<InternalRow,B>,Ordering<B>) in TraversableOnce
[error] return new AbstractScalaRowIterator() {
[error] ^
[error] where B,A are type-variables:
[error] B extends Object declared in method <B>minBy(Function1<A,B>,Ordering<B>)
[error] A extends Object declared in interface TraversableOnce
[error] 1 error
```
The workaround for this is to make `AbstractScalaRowIterator` into a concrete class.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7405 from JoshRosen/SPARK-9045 and squashes the following commits:
cbcbb4c [Josh Rosen] Forgot that we can't use the ??? operator anymore
577ba60 [Josh Rosen] [SPARK-9045] Fix Scala 2.11 build break in UnsafeExternalRowSorter.
This pull request adds a Scalastyle regex rule which fails the style check if `Class.forName` is used directly. `Class.forName` always loads classes from the default / system classloader, but in a majority of cases, we should be using Spark's own `Utils.classForName` instead, which tries to load classes from the current thread's context classloader and falls back to the classloader which loaded Spark when the context classloader is not defined.
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Author: Josh Rosen <joshrosen@databricks.com>
Closes#7350 from JoshRosen/ban-Class.forName and squashes the following commits:
e3e96f7 [Josh Rosen] Merge remote-tracking branch 'origin/master' into ban-Class.forName
c0b7885 [Josh Rosen] Hopefully fix the last two cases
d707ba7 [Josh Rosen] Fix uses of Class.forName that I missed in my first cleanup pass
046470d [Josh Rosen] Merge remote-tracking branch 'origin/master' into ban-Class.forName
62882ee [Josh Rosen] Fix uses of Class.forName or add exclusion.
d9abade [Josh Rosen] Add stylechecker rule to ban uses of Class.forName
Add predictProbabilities to Naive Bayes, return class probabilities.
Continues https://github.com/apache/spark/pull/6761
Author: Sean Owen <sowen@cloudera.com>
Closes#7376 from srowen/SPARK-4362 and squashes the following commits:
23d5a76 [Sean Owen] Fix model.labels -> model.theta
95d91fb [Sean Owen] Check that predicted probabilities sum to 1
b32d1c8 [Sean Owen] Add predictProbabilities to Naive Bayes, return class probabilities
JIRA: https://issues.apache.org/jira/browse/SPARK-8800
Previously, we turn to Java BigDecimal's divide with specified ROUNDING_MODE to avoid non-terminating decimal expansion problem. However, as JihongMA reported, for the division operation on some specific values, we get inaccurate results.
Author: Liang-Chi Hsieh <viirya@gmail.com>
Closes#7212 from viirya/fix_decimal4 and squashes the following commits:
4205a0a [Liang-Chi Hsieh] Fix inaccuracy precision/scale of Decimal division operation.
Replace #6634
This PR adds `SparkListenerBlockUpdated` to SparkListener so that it can monitor all block update infos that are sent to `BlockManagerMasaterEndpoint`, and also add new tables in the Storage tab to display the stream block infos.
Author: zsxwing <zsxwing@gmail.com>
Closes#6672 from zsxwing/SPARK-4072-2 and squashes the following commits:
df2c1d8 [zsxwing] Use xml query to check the xml elements
54d54af [zsxwing] Add unit tests for StoragePage
e29fb53 [zsxwing] Update as per TD's comments
ccbee07 [zsxwing] Fix the code style
6dc42b4 [zsxwing] Fix the replication level of blocks
450fad1 [zsxwing] Merge branch 'master' into SPARK-4072-2
1e9ef52 [zsxwing] Don't categorize by Executor ID
ca0ab69 [zsxwing] Fix the code style
3de2762 [zsxwing] Make object BlockUpdatedInfo private
e95b594 [zsxwing] Add 'Aggregated Stream Block Metrics by Executor' table
ba5d0d1 [zsxwing] Refactor the unit test to improve the readability
4bbe341 [zsxwing] Revert JsonProtocol and don't log SparkListenerBlockUpdated
b464dd1 [zsxwing] Add onBlockUpdated to EventLoggingListener
5ba014c [zsxwing] Fix the code style
0b1e47b [zsxwing] Add a developer api BlockUpdatedInfo
04838a9 [zsxwing] Fix the code style
2baa161 [zsxwing] Add unit tests
80f6c6d [zsxwing] Address comments
797ee4b [zsxwing] Display Streaming blocks in Streaming UI
See https://github.com/aray/e2d/blob/master/EdgePartition2D.ipynb
Author: Andrew Ray <ray.andrew@gmail.com>
Closes#7104 from aray/edge-partition-2d-improvement and squashes the following commits:
3729f84 [Andrew Ray] correct bounds and remove unneeded comments
97f8464 [Andrew Ray] change less
5141ab4 [Andrew Ray] Merge branch 'master' into edge-partition-2d-improvement
925fd2c [Andrew Ray] use new interface for partitioning
001bfd0 [Andrew Ray] Refactor PartitionStrategy so that we can return a prtition function for a given number of parts. To keep compatibility we define default methods that translate between the two implementation options. Made EdgePartition2D use old strategy when we have a perfect square and implement new interface.
5d42105 [Andrew Ray] % -> /
3560084 [Andrew Ray] Merge branch 'master' into edge-partition-2d-improvement
f006364 [Andrew Ray] remove unneeded comments
cfa2c5e [Andrew Ray] Modifications to EdgePartition2D so that it works for non perfect squares.
BlockObjectWriter has only one concrete non-test class, DiskBlockObjectWriter. In order to simplify the code in preparation for other refactorings, I think that we should remove this base class and have only DiskBlockObjectWriter.
While at one time we may have planned to have multiple BlockObjectWriter implementations, that doesn't seem to have happened, so the extra abstraction seems unnecessary.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7391 from JoshRosen/shuffle-write-interface-refactoring and squashes the following commits:
c418e33 [Josh Rosen] Fix compilation
5047995 [Josh Rosen] Fix comments
d5dc548 [Josh Rosen] Update references in comments
89dc797 [Josh Rosen] Rename test suite.
5755918 [Josh Rosen] Remove unnecessary val in case class
1607c91 [Josh Rosen] Merge BlockObjectWriter and DiskBlockObjectWriter
As of #7173 we expect executors to properly register with the driver before responding to their heartbeats. This behavior is not matched in local mode. This patch adds the missing event that needs to be posted.
Author: Andrew Or <andrew@databricks.com>
Closes#7382 from andrewor14/fix-local-heartbeat and squashes the following commits:
1258bdf [Andrew Or] Post ExecutorAdded event to local executor
added --force flag to manually download, if necessary, and use a built-in version of maven best for spark
Author: Brennon York <brennon.york@capitalone.com>
Closes#7374 from brennonyork/SPARK-8933 and squashes the following commits:
d673127 [Brennon York] added --force flag to manually download, if necessary, and use a built-in version of maven best for spark
Add support for pushing down metastore filters that are in different orders and add some unit tests.
Author: Michael Armbrust <michael@databricks.com>
Closes#7386 from marmbrus/metastoreFilters and squashes the following commits:
05a4524 [Michael Armbrust] [SPARK-9027][SQL] Generalize metastore predicate pushdown
Author: Wenchen Fan <cloud0fan@outlook.com>
Closes#7389 from cloud-fan/case-when and squashes the following commits:
ea4b6ba [Wenchen Fan] shortcut for case key when
