`InternalAccumulator.create` doesn't call `registerAccumulatorForCleanup` to register itself with ContextCleaner, so `WeakReference`s for these accumulators in `Accumulators.originals` won't be removed.
This PR added `registerAccumulatorForCleanup` for internal accumulators to avoid the memory leak.
Author: zsxwing <zsxwing@gmail.com>
Closes#8108 from zsxwing/internal-accumulators-leak.
PlatformDependent.UNSAFE is way too verbose.
Author: Reynold Xin <rxin@databricks.com>
Closes#8094 from rxin/SPARK-9815 and squashes the following commits:
229b603 [Reynold Xin] [SPARK-9815] Rename PlatformDependent.UNSAFE -> Platform.
RUtils.isRInstalled throws an exception if R is not installed,
instead of returning false. Fix that.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#8008 from vanzin/SPARK-9710 and squashes the following commits:
df72d8c [Marcelo Vanzin] [SPARK-9710] [test] Fix RPackageUtilsSuite when R is not available.
This was introduced in #7599
cc rxin brkyvz
Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu>
Closes#8055 from shivaram/spark-packages-repo-fix and squashes the following commits:
890f306 [Shivaram Venkataraman] Remove test case
51d69ee [Shivaram Venkataraman] Add test case for --packages without --repository
c02e0b4 [Shivaram Venkataraman] Use Option instead of Some for Ivy repos
In order for this to work, I had to disable gap sampling.
Author: Reynold Xin <rxin@databricks.com>
Closes#8040 from rxin/SPARK-9752 and squashes the following commits:
f9e248c [Reynold Xin] Fix the test case for real this time.
adbccb3 [Reynold Xin] Fixed test case.
589fb23 [Reynold Xin] Merge branch 'SPARK-9752' of github.com:rxin/spark into SPARK-9752
55ccddc [Reynold Xin] Fixed core test.
78fa895 [Reynold Xin] [SPARK-9752][SQL] Support UnsafeRow in Sample operator.
c9e7112 [Reynold Xin] [SPARK-9752][SQL] Support UnsafeRow in Sample operator.
The issue only happens if `spark.executor.cores` is not set and executor memory is set to a high value.
For example, if we have a worker with 4G and 10 cores and we set `spark.executor.memory` to 3G, then only 1 core is assigned to the executor. The correct number should be 10 cores.
I've added a unit test to illustrate the issue.
Author: Carson Wang <carson.wang@intel.com>
Closes#8017 from carsonwang/SPARK-9731 and squashes the following commits:
d09ec48 [Carson Wang] Fix code style
86b651f [Carson Wang] Simplify the code
943cc4c [Carson Wang] fix scheduling correct cores to executors
The original code that this test tests is removed in 9270bd06fd. It was ignored shortly before that so we never caught it. This patch re-enables the test and adds the code necessary to make it pass.
JoshRosen yhuai
Author: Andrew Or <andrew@databricks.com>
Closes#8015 from andrewor14/SPARK-9674 and squashes the following commits:
225eac2 [Andrew Or] Merge branch 'master' of github.com:apache/spark into SPARK-9674
8c24209 [Andrew Or] Fix NPE
e541d64 [Andrew Or] Track aggregation memory for both sort and hash
0be3a42 [Andrew Or] Fix test
This PR adds SQLMetric/SQLMetricParam/SQLMetricValue to specialize accumulators to avoid boxing. All SQL metrics should use these classes rather than `Accumulator`.
Author: zsxwing <zsxwing@gmail.com>
Closes#7996 from zsxwing/sql-accu and squashes the following commits:
14a5f0a [zsxwing] Address comments
367ca23 [zsxwing] Use localValue directly to avoid changing Accumulable
42f50c3 [zsxwing] Add SQLMetric to specialize accumulators to avoid boxing
This patch follows exactly #7891 (except testing)
Author: Davies Liu <davies@databricks.com>
Closes#8005 from davies/larger_record and squashes the following commits:
f9c4aff [Davies Liu] address comments
9de5c72 [Davies Liu] support records larger than page size in UnsafeShuffleExternalSorter
Previously, we use 64MB as the default page size, which was way too big for a lot of Spark applications (especially for single node).
This patch changes it so that the default page size, if unset by the user, is determined by the number of cores available and the total execution memory available.
Author: Reynold Xin <rxin@databricks.com>
Closes#8012 from rxin/pagesize and squashes the following commits:
16f4756 [Reynold Xin] Fixed failing test.
5afd570 [Reynold Xin] private...
0d5fb98 [Reynold Xin] Update default value.
674a6cd [Reynold Xin] Address review feedback.
dc00e05 [Reynold Xin] Merge with master.
73ebdb6 [Reynold Xin] [SPARK-9700] Pick default page size more intelligently.
Someone may use the Spark core jar in the maven repo with hadoop 1. SPARK-2075 has already resolved the compatibility issue to support it. But `SparkHadoopMapRedUtil.commitTask` broke it recently.
This PR uses Reflection to call `TaskAttemptContext.getTaskAttemptID` to fix the compatibility issue.
Author: zsxwing <zsxwing@gmail.com>
Closes#6599 from zsxwing/SPARK-8057 and squashes the following commits:
f7a343c [zsxwing] Remove the redundant import
6b7f1af [zsxwing] Call TaskAttemptContext.getTaskAttemptID using Reflection
The issue is that a task may run multiple sorts, and the sorts run by the child operator (i.e. parent RDD) may acquire all available memory such that other sorts in the same task do not have enough to proceed. This manifests itself in an `IOException("Unable to acquire X bytes of memory")` thrown by `UnsafeExternalSorter`.
The solution is to reserve a page in each sorter in the chain before computing the child operator's (parent RDD's) partitions. This requires us to use a new special RDD that does some preparation before computing the parent's partitions.
Author: Andrew Or <andrew@databricks.com>
Closes#8011 from andrewor14/unsafe-starve-memory and squashes the following commits:
35b69a4 [Andrew Or] Simplify test
0b07782 [Andrew Or] Minor: update comments
5d5afdf [Andrew Or] Merge branch 'master' of github.com:apache/spark into unsafe-starve-memory
254032e [Andrew Or] Add tests
234acbd [Andrew Or] Reserve a page in sorter when preparing each partition
b889e08 [Andrew Or] MapPartitionsWithPreparationRDD
A small performance optimization – we don't need to generate a Tuple2 and then immediately discard the key. We also don't need an extra wrapper from InterruptibleIterator.
Author: Reynold Xin <rxin@databricks.com>
Closes#8000 from rxin/SPARK-9692 and squashes the following commits:
1d4d0b3 [Reynold Xin] [SPARK-9692] Remove SqlNewHadoopRDD's generated Tuple2 and InterruptibleIterator.
Spark should not mess with the permissions of directories created
by the cluster manager. Here, by setting the block manager dir
permissions to 700, the shuffle service (running as the YARN user)
wouldn't be able to serve shuffle files created by applications.
Also, the code to protect the local app dir was missing in standalone's
Worker; that has been now added. Since all processes run as the same
user in standalone, `chmod 700` should not cause problems.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#7966 from vanzin/SPARK-9645 and squashes the following commits:
6e07b31 [Marcelo Vanzin] Protect the app dir in standalone mode.
384ba6a [Marcelo Vanzin] [SPARK-9645] [yarn] [core] Allow shuffle service to read shuffle files.
In some receivers, instead of using the default `BlockGenerator` in `ReceiverSupervisorImpl`, custom generator with their custom listeners are used for reliability (see [`ReliableKafkaReceiver`](https://github.com/apache/spark/blob/master/external/kafka/src/main/scala/org/apache/spark/streaming/kafka/ReliableKafkaReceiver.scala#L99) and [updated `KinesisReceiver`](https://github.com/apache/spark/pull/7825/files)). These custom generators do not receive rate updates. This PR modifies the code to allow custom `BlockGenerator`s to be created through the `ReceiverSupervisorImpl` so that they can be kept track and rate updates can be applied.
In the process, I did some simplification, and de-flaki-fication of some rate controller related tests. In particular.
- Renamed `Receiver.executor` to `Receiver.supervisor` (to match `ReceiverSupervisor`)
- Made `RateControllerSuite` faster (by increasing batch interval) and less flaky
- Changed a few internal API to return the current rate of block generators as Long instead of Option\[Long\] (was inconsistent at places).
- Updated existing `ReceiverTrackerSuite` to test that custom block generators get rate updates as well.
Author: Tathagata Das <tathagata.das1565@gmail.com>
Closes#7913 from tdas/SPARK-9556 and squashes the following commits:
41d4461 [Tathagata Das] fix scala style
eb9fd59 [Tathagata Das] Updated kinesis receiver
d24994d [Tathagata Das] Updated BlockGeneratorSuite to use manual clock in BlockGenerator
d70608b [Tathagata Das] Updated BlockGenerator with states and proper synchronization
f6bd47e [Tathagata Das] Merge remote-tracking branch 'apache-github/master' into SPARK-9556
31da173 [Tathagata Das] Fix bug
12116df [Tathagata Das] Add BlockGeneratorSuite
74bd069 [Tathagata Das] Fix style
989bb5c [Tathagata Das] Made BlockGenerator fail is used after stop, and added better unit tests for it
3ff618c [Tathagata Das] Fix test
b40eff8 [Tathagata Das] slight refactoring
f0df0f1 [Tathagata Das] Scala style fixes
51759cb [Tathagata Das] Refactored rate controller tests and added the ability to update rate of any custom block generator
This pull request adds a destructive iterator to BytesToBytesMap. When used, the iterator frees pages as it traverses them. This is part of the effort to avoid starving when we have more than one operators that can exhaust memory.
This is based on #7924, but fixes a bug there (Don't use destructive iterator in UnsafeKVExternalSorter).
Closes#7924.
Author: Liang-Chi Hsieh <viirya@appier.com>
Author: Reynold Xin <rxin@databricks.com>
Closes#8003 from rxin/map-destructive-iterator and squashes the following commits:
6b618c3 [Reynold Xin] Don't use destructive iterator in UnsafeKVExternalSorter.
a7bd8ec [Reynold Xin] Merge remote-tracking branch 'viirya/destructive_iter' into map-destructive-iterator
7652083 [Liang-Chi Hsieh] For comments: add destructiveIterator(), modify unit test, remove code block.
4a3e9de [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into destructive_iter
581e9e3 [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into destructive_iter
f0ff783 [Liang-Chi Hsieh] No need to free last page.
9e9d2a3 [Liang-Chi Hsieh] Add a destructive iterator for BytesToBytesMap.
This PR has the following three small fixes.
1. UnsafeKVExternalSorter does not use 0 as the initialSize to create an UnsafeInMemorySorter if its BytesToBytesMap is empty.
2. We will not not spill a InMemorySorter if it is empty.
3. We will not add a SpillReader to a SpillMerger if this SpillReader is empty.
JIRA: https://issues.apache.org/jira/browse/SPARK-9611
Author: Yin Huai <yhuai@databricks.com>
Closes#7948 from yhuai/unsafeEmptyMap and squashes the following commits:
9727abe [Yin Huai] Address Josh's comments.
34b6f76 [Yin Huai] 1. UnsafeKVExternalSorter does not use 0 as the initialSize to create an UnsafeInMemorySorter if its BytesToBytesMap is empty. 2. Do not spill a InMemorySorter if it is empty. 3. Do not add spill to SpillMerger if this spill is empty.
First, it's probably a bad idea to call generated Scala methods
from Java. In this case, the method being called wasn't actually
"Utils.createTempDir()", but actually the method that returns the
first default argument to the actual createTempDir method, which
is just the location of java.io.tmpdir; meaning that all tests in
the class were using the same temp dir, and thus affecting each
other.
Second, spillingOccursInResponseToMemoryPressure was not writing
enough records to actually cause a spill.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#7970 from vanzin/SPARK-9651 and squashes the following commits:
74d357f [Marcelo Vanzin] Clean up temp dir on test tear down.
a64f36a [Marcelo Vanzin] [SPARK-9651] Fix UnsafeExternalSorterSuite.
```
Error Message
Failed to bind to: /127.0.0.1:7093: Service 'sparkMaster' failed after 16 retries!
Stacktrace
java.net.BindException: Failed to bind to: /127.0.0.1:7093: Service 'sparkMaster' failed after 16 retries!
at org.jboss.netty.bootstrap.ServerBootstrap.bind(ServerBootstrap.java:272)
at akka.remote.transport.netty.NettyTransport$$anonfun$listen$1.apply(NettyTransport.scala:393)
at akka.remote.transport.netty.NettyTransport$$anonfun$listen$1.apply(NettyTransport.scala:389)
at scala.util.Success$$anonfun$map$1.apply(Try.scala:206)
at scala.util.Try$.apply(Try.scala:161)
```
Author: Andrew Or <andrew@databricks.com>
Closes#7968 from andrewor14/fix-master-flaky-test and squashes the following commits:
fcc42ef [Andrew Or] Randomize port
This PR includes the following changes:
### SPARK-8862: Add basic instrumentation to each SparkPlan operator
A SparkPlan can override `def accumulators: Map[String, Accumulator[_]]` to expose its metrics that can be displayed in UI. The UI will use them to track the updates and show them in the web page in real-time.
### SparkSQLExecution and SQLSparkListener
`SparkSQLExecution.withNewExecutionId` will set `spark.sql.execution.id` to the local properties so that we can use it to track all jobs that belong to the same query.
SQLSparkListener is a listener to track all accumulator updates of all tasks for a query. It receives them from heartbeats can the UI can query them in real-time.
When running a query, `SQLSparkListener.onExecutionStart` will be called. When a query is finished, `SQLSparkListener.onExecutionEnd` will be called. And the Spark jobs with the same execution id will be tracked and stored with this query.
`SQLSparkListener` has to store all accumulator updates for tasks separately. When a task fails and starts to retry, we need to drop the old accumulator updates. Because we can not revert our changes to an accumulator, we have to maintain these accumulator updates by ourselves so as to drop accumulator updates for a failed task.
### SPARK-8862: A new SQL tab
Includes two pages:
#### A page for all DataFrame/SQL queries
It will show the running, completed and failed queries in 3 tables. It also displays the jobs and their links for a query in each row.
#### A detail page for a DataFrame/SQL query
In this page, it also shows the SparkPlan metrics in real-time. Run a long-running query, such as
```
val testData = sc.parallelize((1 to 1000000).map(i => (i, i.toString))).toDF()
testData.select($"_1").filter($"_1" < 1000).foreach(_ => Thread.sleep(60))
```
and you will see the metrics keep updating in real-time.
<!-- Reviewable:start -->
[<img src="https://reviewable.io/review_button.png" height=40 alt="Review on Reviewable"/>](https://reviewable.io/reviews/apache/spark/7774)
<!-- Reviewable:end -->
Author: zsxwing <zsxwing@gmail.com>
Closes#7774 from zsxwing/sql-ui and squashes the following commits:
5a2bc99 [zsxwing] Remove UISeleniumSuite and its dependency
57d4cd2 [zsxwing] Use VisibleForTesting annotation
cc1c736 [zsxwing] Add SparkPlan.trackNumOfRowsEnabled to make subclasses easy to track the number of rows; fix the issue that the "save" action cannot collect metrics
3771ab0 [zsxwing] Register SQL metrics accmulators
3a101c0 [zsxwing] Change prepareCalled's type to AtomicBoolean for thread-safety
b8d5605 [zsxwing] Make prepare idempotent; call children's prepare in SparkPlan.prepare; change doPrepare to def
4ed11a1 [zsxwing] var -> val
332639c [zsxwing] Ignore UISeleniumSuite and SQLListenerSuite."no memory leak" because of SPARK-9580
bb52359 [zsxwing] Address other commens in SQLListener
c4d0f5d [zsxwing] Move newPredicate out of the iterator loop
957473c [zsxwing] Move STATIC_RESOURCE_DIR to object SQLTab
7ab4816 [zsxwing] Make SparkPlan accumulator API private[sql]
dae195e [zsxwing] Fix the code style and comments
3a66207 [zsxwing] Ignore irrelevant accumulators
b8484a1 [zsxwing] Merge branch 'master' into sql-ui
9406592 [zsxwing] Implement the SparkPlan viz
4ebce68 [zsxwing] Add SparkPlan.prepare to support BroadcastHashJoin to run background work in parallel
ca1811f [zsxwing] Merge branch 'master' into sql-ui
fef6fc6 [zsxwing] Fix a corner case
25f335c [zsxwing] Fix the code style
6eae828 [zsxwing] SQLSparkListener -> SQLListener; SparkSQLExecutionUIData -> SQLExecutionUIData; SparkSQLExecution -> SQLExecution
822af75 [zsxwing] Add SQLSparkListenerSuite and fix the issue about onExecutionEnd and onJobEnd
6be626f [zsxwing] Add UISeleniumSuite to test UI
d02a24d [zsxwing] Make ExecutionPage private
23abf73 [zsxwing] [SPARK-8862][SPARK-8862][SQL] Add basic instrumentation to each SparkPlan operator and add a new SQL tab
The current implementation of UnsafeExternalSort uses NoOpPrefixComparator for binary-typed data.
So, we need to add BinaryPrefixComparator in PrefixComparators.
Author: Takeshi YAMAMURO <linguin.m.s@gmail.com>
Closes#7676 from maropu/BinaryTypePrefixComparator and squashes the following commits:
fe6f31b [Takeshi YAMAMURO] Apply comments
d943c04 [Takeshi YAMAMURO] Add a codegen'd entry for BinaryType in SortPrefix
ecf3ac5 [Takeshi YAMAMURO] Support BinaryType in PrefixComparator
shivaram cafreeman Could you please help me in testing this out? Exposing and running `rPackageBuilder` from inside the shell works, but for some reason, I can't get it to work during Spark Submit. It just starts relaunching Spark Submit.
For testing, you may use the R branch with [sbt-spark-package](https://github.com/databricks/sbt-spark-package). You can call spPackage, and then pass the jar using `--jars`.
Author: Burak Yavuz <brkyvz@gmail.com>
Closes#7139 from brkyvz/r-submit and squashes the following commits:
0de384f [Burak Yavuz] remove unused imports 2
d253708 [Burak Yavuz] removed unused imports
6603d0d [Burak Yavuz] addressed comments
4258ffe [Burak Yavuz] merged master
ddfcc06 [Burak Yavuz] added zipping test
3a1be7d [Burak Yavuz] don't zip
77995df [Burak Yavuz] fix URI
ac45527 [Burak Yavuz] added zipping of all libs
e6bf7b0 [Burak Yavuz] add println ignores
1bc5554 [Burak Yavuz] add assumes for tests
9778e03 [Burak Yavuz] addressed comments
b42b300 [Burak Yavuz] merged master
ffd134e [Burak Yavuz] Merge branch 'master' of github.com:apache/spark into r-submit
d867756 [Burak Yavuz] add apache header
eff5ba1 [Burak Yavuz] ready for review
8838edb [Burak Yavuz] Merge branch 'master' of github.com:apache/spark into r-submit
e5b5a06 [Burak Yavuz] added doc
bb751ce [Burak Yavuz] fix null bug
0226768 [Burak Yavuz] fixed issues
8810beb [Burak Yavuz] R packages support
https://issues.apache.org/jira/browse/SPARK-9602
Although we have hidden Akka behind RPC interface, I found that the Akka/Actor-related comments are still spreading everywhere. To make it consistent, we shall remove "actor"/"akka" words from the comments...
Author: CodingCat <zhunansjtu@gmail.com>
Closes#7936 from CodingCat/SPARK-9602 and squashes the following commits:
e8296a3 [CodingCat] remove actor words from comments
This patch extends UnsafeExternalSorter to support records larger than the page size. The basic strategy is the same as in #7762: store large records in their own overflow pages.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7891 from JoshRosen/large-records-in-sql-sorter and squashes the following commits:
967580b [Josh Rosen] Merge remote-tracking branch 'origin/master' into large-records-in-sql-sorter
948c344 [Josh Rosen] Add large records tests for KV sorter.
3c17288 [Josh Rosen] Combine memory and disk cleanup into general cleanupResources() method
380f217 [Josh Rosen] Merge remote-tracking branch 'origin/master' into large-records-in-sql-sorter
27eafa0 [Josh Rosen] Fix page size in PackedRecordPointerSuite
a49baef [Josh Rosen] Address initial round of review comments
3edb931 [Josh Rosen] Remove accidentally-committed debug statements.
2b164e2 [Josh Rosen] Support large records in UnsafeExternalSorter.
Enable most javac lint warnings; fix a lot of build warnings. In a few cases, touch up surrounding code in the process.
I'll explain several of the changes inline in comments.
Author: Sean Owen <sowen@cloudera.com>
Closes#7862 from srowen/SPARK-9534 and squashes the following commits:
ea51618 [Sean Owen] Enable most javac lint warnings; fix a lot of build warnings. In a few cases, touch up surrounding code in the process.
We often return abstract iterator types in various sort-related classes (e.g. UnsafeKVExternalSorter). It is actually better to return a more concrete type, so the callsite uses that type and JIT can inline the iterator calls.
Author: Reynold Xin <rxin@databricks.com>
Closes#7911 from rxin/surface-concrete-type and squashes the following commits:
0422add [Reynold Xin] [SPARK-9577][SQL] Surface concrete iterator types in various sort classes.
https://issues.apache.org/jira/browse/SPARK-8416
To facilitate debugging, I made this patch with three changes:
* render the executor-thread and non executor-thread entries with different background colors
* put the executor threads on the top of the list
* sort the threads alphabetically
Author: CodingCat <zhunansjtu@gmail.com>
Closes#7808 from CodingCat/SPARK-8416 and squashes the following commits:
34fc708 [CodingCat] fix className
d7b79dd [CodingCat] lowercase threadName
d032882 [CodingCat] sort alphabetically and change the css class name
f0513b1 [CodingCat] change the color & group threads by name
2da6e06 [CodingCat] small fix
3fc9f36 [CodingCat] define classes in webui.css
8ee125e [CodingCat] highlight and put on top the executor threads in thread dumping page
While the functionality is there to exclude packages, there are no flags that allow users to exclude dependencies, in case of dependency conflicts. We should provide users with a flag to add dependency exclusions in case the packages are not resolved properly (or not available due to licensing).
The flag I added was --packages-exclude, but I'm open on renaming it. I also added property flags in case people would like to use a conf file to provide dependencies, which is possible if there is a long list of dependencies or exclusions.
cc andrewor14 vanzin pwendell
Author: Burak Yavuz <brkyvz@gmail.com>
Closes#7599 from brkyvz/packages-exclusions and squashes the following commits:
636f410 [Burak Yavuz] addressed nits
6e54ede [Burak Yavuz] is this the culprit
b5e508e [Burak Yavuz] Merge branch 'master' of github.com:apache/spark into packages-exclusions
154f5db [Burak Yavuz] addressed initial comments
1536d7a [Burak Yavuz] Added flags to exclude packages using --packages-exclude
Cherry picked the parts of the initial SPARK-8064 WiP branch needed to get sql/hive to compile against hive 1.2.1. That's the ASF release packaged under org.apache.hive, not any fork.
Tests not run yet: that's what the machines are for
Author: Steve Loughran <stevel@hortonworks.com>
Author: Cheng Lian <lian@databricks.com>
Author: Michael Armbrust <michael@databricks.com>
Author: Patrick Wendell <patrick@databricks.com>
Closes#7191 from steveloughran/stevel/feature/SPARK-8064-hive-1.2-002 and squashes the following commits:
7556d85 [Cheng Lian] Updates .q files and corresponding golden files
ef4af62 [Steve Loughran] Merge commit '6a92bb09f46a04d6cd8c41bdba3ecb727ebb9030' into stevel/feature/SPARK-8064-hive-1.2-002
6a92bb0 [Cheng Lian] Overrides HiveConf time vars
dcbb391 [Cheng Lian] Adds com.twitter:parquet-hadoop-bundle:1.6.0 for Hive Parquet SerDe
0bbe475 [Steve Loughran] SPARK-8064 scalastyle rejects the standard Hadoop ASF license header...
fdf759b [Steve Loughran] SPARK-8064 classpath dependency suite to be in sync with shading in final (?) hive-exec spark
7a6c727 [Steve Loughran] SPARK-8064 switch to second staging repo of the spark-hive artifacts. This one has the protobuf-shaded hive-exec jar
376c003 [Steve Loughran] SPARK-8064 purge duplicate protobuf declaration
2c74697 [Steve Loughran] SPARK-8064 switch to the protobuf shaded hive-exec jar with tests to chase it down
cc44020 [Steve Loughran] SPARK-8064 remove hadoop.version from runtest.py, as profile will fix that automatically.
6901fa9 [Steve Loughran] SPARK-8064 explicit protobuf import
da310dc [Michael Armbrust] Fixes for Hive tests.
a775a75 [Steve Loughran] SPARK-8064 cherry-pick-incomplete
7404f34 [Patrick Wendell] Add spark-hive staging repo
832c164 [Steve Loughran] SPARK-8064 try to supress compiler warnings on Complex.java pasted-thrift-code
312c0d4 [Steve Loughran] SPARK-8064 maven/ivy dependency purge; calcite declaration needed
fa5ae7b [Steve Loughran] HIVE-8064 fix up hive-thriftserver dependencies and cut back on evicted references in the hive- packages; this keeps mvn and ivy resolution compatible, as the reconciliation policy is "by hand"
c188048 [Steve Loughran] SPARK-8064 manage the Hive depencencies to that -things that aren't needed are excluded -sql/hive built with ivy is in sync with the maven reconciliation policy, rather than latest-first
4c8be8d [Cheng Lian] WIP: Partial fix for Thrift server and CLI tests
314eb3c [Steve Loughran] SPARK-8064 deprecation warning noise in one of the tests
17b0341 [Steve Loughran] SPARK-8064 IDE-hinted cleanups of Complex.java to reduce compiler warnings. It's all autogenerated code, so still ugly.
d029b92 [Steve Loughran] SPARK-8064 rely on unescaping to have already taken place, so go straight to map of serde options
23eca7e [Steve Loughran] HIVE-8064 handle raw and escaped property tokens
54d9b06 [Steve Loughran] SPARK-8064 fix compilation regression surfacing from rebase
0b12d5f [Steve Loughran] HIVE-8064 use subset of hive complex type whose types deserialize
fce73b6 [Steve Loughran] SPARK-8064 poms rely implicitly on the version of kryo chill provides
fd3aa5d [Steve Loughran] SPARK-8064 version of hive to d/l from ivy is 1.2.1
dc73ece [Steve Loughran] SPARK-8064 revert to master's determinstic pushdown strategy
d3c1e4a [Steve Loughran] SPARK-8064 purge UnionType
051cc21 [Steve Loughran] SPARK-8064 switch to an unshaded version of hive-exec-core, which must have been built with Kryo 2.21. This currently looks for a (locally built) version 1.2.1.spark
6684c60 [Steve Loughran] SPARK-8064 ignore RTE raised in blocking process.exitValue() call
e6121e5 [Steve Loughran] SPARK-8064 address review comments
aa43dc6 [Steve Loughran] SPARK-8064 more robust teardown on JavaMetastoreDatasourcesSuite
f2bff01 [Steve Loughran] SPARK-8064 better takeup of asynchronously caught error text
8b1ef38 [Steve Loughran] SPARK-8064: on failures executing spark-submit in HiveSparkSubmitSuite, print command line and all logged output.
5a9ce6b [Steve Loughran] SPARK-8064 add explicit reason for kv split failure, rather than array OOB. *does not address the issue*
642b63a [Steve Loughran] SPARK-8064 reinstate something cut briefly during rebasing
97194dc [Steve Loughran] SPARK-8064 add extra logging to the YarnClusterSuite classpath test. There should be no reason why this is failing on jenkins, but as it is (and presumably its CP-related), improve the logging including any exception raised.
335357f [Steve Loughran] SPARK-8064 fail fast on thrive process spawning tests on exit codes and/or error string patterns seen in log.
3ed872f [Steve Loughran] SPARK-8064 rename field double to dbl
bca55e5 [Steve Loughran] SPARK-8064 missed one of the `date` escapes
41d6479 [Steve Loughran] SPARK-8064 wrap tests with withTable() calls to avoid table-exists exceptions
2bc29a4 [Steve Loughran] SPARK-8064 ParquetSuites to escape `date` field name
1ab9bc4 [Steve Loughran] SPARK-8064 TestHive to use sered2.thrift.test.Complex
bf3a249 [Steve Loughran] SPARK-8064: more resubmit than fix; tighten startup timeout to 60s. Still no obvious reason why jersey server code in spark-assembly isn't being picked up -it hasn't been shaded
c829b8f [Steve Loughran] SPARK-8064: reinstate yarn-rm-server dependencies to hive-exec to ensure that jersey server is on classpath on hadoop versions < 2.6
0b0f738 [Steve Loughran] SPARK-8064: thrift server startup to fail fast on any exception in the main thread
13abaf1 [Steve Loughran] SPARK-8064 Hive compatibilty tests sin sync with explain/show output from Hive 1.2.1
d14d5ea [Steve Loughran] SPARK-8064: DATE is now a predicate; you can't use it as a field in select ops
26eef1c [Steve Loughran] SPARK-8064: HIVE-9039 renamed TOK_UNION => TOK_UNIONALL while adding TOK_UNIONDISTINCT
3d64523 [Steve Loughran] SPARK-8064 improve diagns on uknown token; fix scalastyle failure
d0360f6 [Steve Loughran] SPARK-8064: delicate merge in of the branch vanzin/hive-1.1
1126e5a [Steve Loughran] SPARK-8064: name of unrecognized file format wasn't appearing in error text
8cb09c4 [Steve Loughran] SPARK-8064: test resilience/assertion improvements. Independent of the rest of the work; can be backported to earlier versions
dec12cb [Steve Loughran] SPARK-8064: when a CLI suite test fails include the full output text in the raised exception; this ensures that the stdout/stderr is included in jenkins reports, so it becomes possible to diagnose the cause.
463a670 [Steve Loughran] SPARK-8064 run-tests.py adds a hadoop-2.6 profile, and changes info messages to say "w/Hive 1.2.1" in console output
2531099 [Steve Loughran] SPARK-8064 successful attempt to get rid of pentaho as a transitive dependency of hive-exec
1d59100 [Steve Loughran] SPARK-8064 (unsuccessful) attempt to get rid of pentaho as a transitive dependency of hive-exec
75733fc [Steve Loughran] SPARK-8064 change thrift binary startup message to "Starting ThriftBinaryCLIService on port"
3ebc279 [Steve Loughran] SPARK-8064 move strings used to check for http/bin thrift services up into constants
c80979d [Steve Loughran] SPARK-8064: SparkSQLCLIDriver drops remote mode support. CLISuite Tests pass instead of timing out: undetected regression?
27e8370 [Steve Loughran] SPARK-8064 fix some style & IDE warnings
00e50d6 [Steve Loughran] SPARK-8064 stop excluding hive shims from dependency (commented out , for now)
cb4f142 [Steve Loughran] SPARK-8054 cut pentaho dependency from calcite
f7aa9cb [Steve Loughran] SPARK-8064 everything compiles with some commenting and moving of classes into a hive package
6c310b4 [Steve Loughran] SPARK-8064 subclass Hive ServerOptionsProcessor to make it public again
f61a675 [Steve Loughran] SPARK-8064 thrift server switched to Hive 1.2.1, though it doesn't compile everywhere
4890b9d [Steve Loughran] SPARK-8064, build against Hive 1.2.1
Certain use cases of Spark involve RDDs with long lineages that must be truncated periodically (e.g. GraphX). The existing way of doing it is through `rdd.checkpoint()`, which is expensive because it writes to HDFS. This patch provides an alternative to truncate lineages cheaply *without providing the same level of fault tolerance*.
**Local checkpointing** writes checkpointed data to the local file system through the block manager. It is much faster than replicating to a reliable storage and provides the same semantics as long as executors do not fail. It is accessible through a new operator `rdd.localCheckpoint()` and leaves the old one unchanged. Users may even decide to combine the two and call the reliable one less frequently.
The bulk of this patch involves refactoring the checkpointing interface to accept custom implementations of checkpointing. [Design doc](https://issues.apache.org/jira/secure/attachment/12741708/SPARK-7292-design.pdf).
Author: Andrew Or <andrew@databricks.com>
Closes#7279 from andrewor14/local-checkpoint and squashes the following commits:
729600f [Andrew Or] Oops, fix tests
34bc059 [Andrew Or] Avoid computing all partitions in local checkpoint
e43bbb6 [Andrew Or] Merge branch 'master' of github.com:apache/spark into local-checkpoint
3be5aea [Andrew Or] Address comments
bf846a6 [Andrew Or] Merge branch 'master' of github.com:apache/spark into local-checkpoint
ab003a3 [Andrew Or] Fix compile
c2e111b [Andrew Or] Address comments
33f167a [Andrew Or] Merge branch 'master' of github.com:apache/spark into local-checkpoint
e908a42 [Andrew Or] Fix tests
f5be0f3 [Andrew Or] Use MEMORY_AND_DISK as the default local checkpoint level
a92657d [Andrew Or] Update a few comments
e58e3e3 [Andrew Or] Merge branch 'master' of github.com:apache/spark into local-checkpoint
4eb6eb1 [Andrew Or] Merge branch 'master' of github.com:apache/spark into local-checkpoint
1bbe154 [Andrew Or] Simplify LocalCheckpointRDD
48a9996 [Andrew Or] Avoid traversing dependency tree + rewrite tests
62aba3f [Andrew Or] Merge branch 'master' of github.com:apache/spark into local-checkpoint
db70dc2 [Andrew Or] Express local checkpointing through caching the original RDD
87d43c6 [Andrew Or] Merge branch 'master' of github.com:apache/spark into local-checkpoint
c449b38 [Andrew Or] Fix style
4a182f3 [Andrew Or] Add fine-grained tests for local checkpointing
53b363b [Andrew Or] Rename a few more awkwardly named methods (minor)
e4cf071 [Andrew Or] Simplify LocalCheckpointRDD + docs + clean ups
4880deb [Andrew Or] Fix style
d096c67 [Andrew Or] Fix mima
172cb66 [Andrew Or] Fix mima?
e53d964 [Andrew Or] Fix style
56831c5 [Andrew Or] Add a few warnings and clear exception messages
2e59646 [Andrew Or] Add local checkpoint clean up tests
4dbbab1 [Andrew Or] Refactor CheckpointSuite to test local checkpointing
4514dc9 [Andrew Or] Clean local checkpoint files through RDD cleanups
0477eec [Andrew Or] Rename a few methods with awkward names (minor)
2e902e5 [Andrew Or] First implementation of local checkpointing
8447454 [Andrew Or] Fix tests
4ac1896 [Andrew Or] Refactor checkpoint interface for modularity
This patch builds directly on #7820, which is largely written by tnachen. The only addition is one commit for cleaning up the code. There should be no functional differences between this and #7820.
Author: Timothy Chen <tnachen@gmail.com>
Author: Andrew Or <andrew@databricks.com>
Closes#7881 from andrewor14/tim-cleanup-mesos-shuffle and squashes the following commits:
8894f7d [Andrew Or] Clean up code
2a5fa10 [Andrew Or] Merge branch 'mesos_shuffle_clean' of github.com:tnachen/spark into tim-cleanup-mesos-shuffle
fadff89 [Timothy Chen] Address comments.
e4d0f1d [Timothy Chen] Clean up external shuffle data on driver exit with Mesos.
This pull request adds a destructAndCreateExternalSorter method to UnsafeFixedWidthAggregationMap. The new method does the following:
1. Creates a new external sorter UnsafeKVExternalSorter
2. Adds all the data into an in-memory sorter, sorts them
3. Spills the sorted in-memory data to disk
This method can be used to fallback to sort-based aggregation when under memory pressure.
The pull request also includes accounting fixes from JoshRosen.
TODOs (that can be done in follow-up PRs)
- [x] Address Josh's feedbacks from #7849
- [x] More documentation and test cases
- [x] Make sure we are doing memory accounting correctly with test cases (e.g. did we release the memory in BytesToBytesMap twice?)
- [ ] Look harder at possible memory leaks and exception handling
- [ ] Randomized tester for the KV sorter as well as the aggregation map
Author: Reynold Xin <rxin@databricks.com>
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7860 from rxin/kvsorter and squashes the following commits:
986a58c [Reynold Xin] Bug fix.
599317c [Reynold Xin] Style fix and slightly more compact code.
fe7bd4e [Reynold Xin] Bug fixes.
fd71bef [Reynold Xin] Merge remote-tracking branch 'josh/large-records-in-sql-sorter' into kvsorter-with-josh-fix
3efae38 [Reynold Xin] More fixes and documentation.
45f1b09 [Josh Rosen] Ensure that spill files are cleaned up
f6a9bd3 [Reynold Xin] Josh feedback.
9be8139 [Reynold Xin] Remove testSpillFrequency.
7cbe759 [Reynold Xin] [SPARK-9531][SQL] UnsafeFixedWidthAggregationMap.destructAndCreateExternalSorter.
ae4a8af [Josh Rosen] Detect leaked unsafe memory in UnsafeExternalSorterSuite.
52f9b06 [Josh Rosen] Detect ShuffleMemoryManager leaks in UnsafeExternalSorter.
This pull request adds a sortedIterator method to UnsafeFixedWidthAggregationMap that sorts its data in-place by the grouping key.
This is needed so we can fallback to external sorting for aggregation.
Author: Reynold Xin <rxin@databricks.com>
Closes#7849 from rxin/bytes2bytes-sorting and squashes the following commits:
75018c6 [Reynold Xin] Updated documentation.
81a8694 [Reynold Xin] [SPARK-9520][SQL] Support in-place sort in UnsafeFixedWidthAggregationMap.
Dynamic allocation is a feature that allows a Spark application to scale the number of executors up and down dynamically based on the workload. Support was first introduced in YARN since 1.2, and then extended to Mesos coarse-grained mode recently. Today, it is finally supported in standalone mode as well!
I tested this locally and it works as expected. This is WIP because unit tests are coming.
Author: Andrew Or <andrew@databricks.com>
Closes#7532 from andrewor14/standalone-da and squashes the following commits:
b3c1736 [Andrew Or] Merge branch 'master' of github.com:apache/spark into standalone-da
879e928 [Andrew Or] Add end-to-end tests for standalone dynamic allocation
accc8f6 [Andrew Or] Address comments
ee686a8 [Andrew Or] Merge branch 'master' of github.com:apache/spark into standalone-da
c0a2c02 [Andrew Or] Fix build after merge conflict
24149eb [Andrew Or] Merge branch 'master' of github.com:apache/spark into standalone-da
2e762d6 [Andrew Or] Merge branch 'master' of github.com:apache/spark into standalone-da
6832bd7 [Andrew Or] Add tests for scheduling with executor limit
a82e907 [Andrew Or] Fix comments
0a8be79 [Andrew Or] Simplify logic by removing the worker blacklist
b7742af [Andrew Or] Merge branch 'master' of github.com:apache/spark into standalone-da
2eb5f3f [Andrew Or] Merge branch 'master' of github.com:apache/spark into standalone-da
1334e9a [Andrew Or] Fix MiMa
32abe44 [Andrew Or] Fix style
58cb06f [Andrew Or] Privatize worker blacklist for cleanliness
42ac215 [Andrew Or] Clean up comments and rewrite code for readability
49702d1 [Andrew Or] Clean up shuffle files after application exits
80047aa [Andrew Or] First working implementation
BytesToBytesMap current encodes key/value data in the following format:
```
8B key length, key data, 8B value length, value data
```
UnsafeExternalSorter, on the other hand, encodes data this way:
```
4B record length, data
```
As a result, we cannot pass records encoded by BytesToBytesMap directly into UnsafeExternalSorter for sorting. However, if we rearrange data slightly, we can then pass the key/value records directly into UnsafeExternalSorter:
```
4B key+value length, 4B key length, key data, value data
```
Author: Reynold Xin <rxin@databricks.com>
Closes#7845 from rxin/kvsort-rebase and squashes the following commits:
5716b59 [Reynold Xin] Fixed test.
2e62ccb [Reynold Xin] Updated BytesToBytesMap's data encoding to put the key first.
a51b641 [Reynold Xin] Added a KV sorter interface.
This patch adds support for entries larger than the default page size in BytesToBytesMap. These large rows are handled by allocating special overflow pages to hold individual entries.
In addition, this patch integrates BytesToBytesMap with the ShuffleMemoryManager:
- Move BytesToBytesMap from `unsafe` to `core` so that it can import `ShuffleMemoryManager`.
- Before allocating new data pages, ask the ShuffleMemoryManager to reserve the memory:
- `putNewKey()` now returns a boolean to indicate whether the insert succeeded or failed due to a lack of memory. The caller can use this value to respond to the memory pressure (e.g. by spilling).
- `UnsafeFixedWidthAggregationMap. getAggregationBuffer()` now returns `null` to signal failure due to a lack of memory.
- Updated all uses of these classes to handle these error conditions.
- Added new tests for allocating large records and for allocations which fail due to memory pressure.
- Extended the `afterAll()` test teardown methods to detect ShuffleMemoryManager leaks.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7762 from JoshRosen/large-rows and squashes the following commits:
ae7bc56 [Josh Rosen] Fix compilation
82fc657 [Josh Rosen] Merge remote-tracking branch 'origin/master' into large-rows
34ab943 [Josh Rosen] Remove semi
31a525a [Josh Rosen] Integrate BytesToBytesMap with ShuffleMemoryManager.
626b33c [Josh Rosen] Move code to sql/core and spark/core packages so that ShuffleMemoryManager can be integrated
ec4484c [Josh Rosen] Move BytesToBytesMap from unsafe package to core.
642ed69 [Josh Rosen] Rename size to numElements
bea1152 [Josh Rosen] Add basic test.
2cd3570 [Josh Rosen] Remove accidental duplicated code
07ff9ef [Josh Rosen] Basic support for large rows in BytesToBytesMap.
Rename configuration `spark.streaming.minRememberDuration` to `spark.streaming.fileStream.minRememberDuration`
Author: Sameer Abhyankar <sabhyankar@sabhyankar-MBP.local>
Author: Sameer Abhyankar <sabhyankar@sabhyankar-MBP.Samavihome>
Closes#7740 from sabhyankar/spark_branch_9056 and squashes the following commits:
d5b2f1f [Sameer Abhyankar] Correct deprecated version to 1.5
1268133 [Sameer Abhyankar] Add {} and indentation
ddf9844 [Sameer Abhyankar] Change 4 space indentation to 2 space indentation
1819b5f [Sameer Abhyankar] Use spark.streaming.fileStream.minRememberDuration property in lieu of spark.streaming.minRememberDuration
In thread 'stopped SparkContext remaining active' on mailing list, Andres observed the following in driver log:
```
15/07/29 15:17:09 WARN YarnSchedulerBackend$YarnSchedulerEndpoint: ApplicationMaster has disassociated: <address removed>
15/07/29 15:17:09 INFO YarnClientSchedulerBackend: Shutting down all executors
Exception in thread "Yarn application state monitor" org.apache.spark.SparkException: Error asking standalone scheduler to shut down executors
at org.apache.spark.scheduler.cluster.CoarseGrainedSchedulerBackend.stopExecutors(CoarseGrainedSchedulerBackend.scala:261)
at org.apache.spark.scheduler.cluster.CoarseGrainedSchedulerBackend.stop(CoarseGrainedSchedulerBackend.scala:266)
at org.apache.spark.scheduler.cluster.YarnClientSchedulerBackend.stop(YarnClientSchedulerBackend.scala:158)
at org.apache.spark.scheduler.TaskSchedulerImpl.stop(TaskSchedulerImpl.scala:416)
at org.apache.spark.scheduler.DAGScheduler.stop(DAGScheduler.scala:1411)
at org.apache.spark.SparkContext.stop(SparkContext.scala:1644)
at org.apache.spark.scheduler.cluster.YarnClientSchedulerBackend$$anon$1.run(YarnClientSchedulerBackend.scala:139)
Caused by: java.lang.InterruptedException
at java.util.concurrent.locks.AbstractQueuedSynchronizer.tryAcquireSharedNanos(AbstractQueuedSynchronizer.java:1325)
at scala.concurrent.impl.Promise$DefaultPromise.tryAwait(Promise.scala:208)
at scala.concurrent.impl.Promise$DefaultPromise.ready(Promise.scala:218)
at scala.concurrent.impl.Promise$DefaultPromise.result(Promise.scala:223)
at scala.concurrent.Await$$anonfun$result$1.apply(package.scala:190)
at scala.concurrent.BlockContext$DefaultBlockContext$.blockOn(BlockContext.scala:53)
at scala.concurrent.Await$.result(package.scala:190)15/07/29 15:17:09 INFO YarnClientSchedulerBackend: Asking each executor to shut down
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.CoarseGrainedSchedulerBackend.stopExecutors(CoarseGrainedSchedulerBackend.scala:257)
... 6 more
```
Effect of the above exception is that a stopped SparkContext is returned to user since SparkContext.clearActiveContext() is not called.
Author: tedyu <yuzhihong@gmail.com>
Closes#7756 from tedyu/master and squashes the following commits:
7339ff2 [tedyu] Move null assignment out of tryLogNonFatalError block
6e02cd9 [tedyu] Use Utils.tryLogNonFatalError to guard resource release
f5fb519 [tedyu] Clear Active SparkContext in stop() method using finally
`RpcEndpointRef.askWithRetry` throws `SparkException` rather than `TimeoutException`. Use ask to replace it because we don't need to retry here.
Author: zsxwing <zsxwing@gmail.com>
Closes#7824 from zsxwing/SPARK-9497 and squashes the following commits:
7bfc2b4 [zsxwing] Use ask instead of askWithRetry
Author: Reynold Xin <rxin@databricks.com>
Closes#7803 from rxin/SPARK-9458 and squashes the following commits:
5b032dc [Reynold Xin] Fix string.
b670dbb [Reynold Xin] [SPARK-9458][SPARK-9469][SQL] Code generate prefix computation in sorting & moves unsafe conversion out of TungstenSort.
No new dependencies are added. The exclusion changes are due to the change in tachyon-client 0.7.0's project structure.
There is no client side API change in Tachyon 0.7.0 so no code changes are required.
Author: Calvin Jia <jia.calvin@gmail.com>
Closes#7577 from calvinjia/SPARK-9199 and squashes the following commits:
4e81e40 [Calvin Jia] Update Tachyon dependency from 0.6.4 -> 0.7.0
This patch improves SparkR error message reporting, especially with DataFrame API. When there is a user error (e.g., malformed SQL query), the message of the cause is sent back through the RPC and the R client reads it and returns it back to user.
cc shivaram
Author: Hossein <hossein@databricks.com>
Closes#7742 from falaki/SPARK-8742 and squashes the following commits:
4f643c9 [Hossein] Not logging exceptions in RBackendHandler
4a8005c [Hossein] Returning stack track of causing exception from RBackendHandler
5cf17f0 [Hossein] Adding unit test for error messages from SQLContext
2af75d5 [Hossein] Reading error message in case of failure and stoping with that message
f479c99 [Hossein] Wrting exception cause message in JVM
https://issues.apache.org/jira/browse/SPARK-9437
Author: Imran Rashid <irashid@cloudera.com>
Closes#7750 from squito/SPARK-9437_size_estimator_overflow and squashes the following commits:
29493f1 [Imran Rashid] prevent another potential overflow
bc1cb82 [Imran Rashid] avoid overflow
This pull request enables Unsafe mode by default in Spark SQL. In order to do this, we had to fix a number of small issues:
**List of fixed blockers**:
- [x] Make some default buffer sizes configurable so that HiveCompatibilitySuite can run properly (#7741).
- [x] Memory leak on grouped aggregation of empty input (fixed by #7560 to fix this)
- [x] Update planner to also check whether codegen is enabled before planning unsafe operators.
- [x] Investigate failing HiveThriftBinaryServerSuite test. This turns out to be caused by a ClassCastException that occurs when Exchange tries to apply an interpreted RowOrdering to an UnsafeRow when range partitioning an RDD. This could be fixed by #7408, but a shorter-term fix is to just skip the Unsafe exchange path when RangePartitioner is used.
- [x] Memory leak exceptions masking exceptions that actually caused tasks to fail (will be fixed by #7603).
- [x] ~~https://issues.apache.org/jira/browse/SPARK-9162, to implement code generation for ScalaUDF. This is necessary for `UDFSuite` to pass. For now, I've just ignored this test in order to try to find other problems while we wait for a fix.~~ This is no longer necessary as of #7682.
- [x] Memory leaks from Limit after UnsafeExternalSort cause the memory leak detector to fail tests. This is a huge problem in the HiveCompatibilitySuite (fixed by f4ac642a4e5b2a7931c5e04e086bb10e263b1db6).
- [x] Tests in `AggregationQuerySuite` are failing due to NaN-handling issues in UnsafeRow, which were fixed in #7736.
- [x] `org.apache.spark.sql.ColumnExpressionSuite.rand` needs to be updated so that the planner check also matches `TungstenProject`.
- [x] After having lowered the buffer sizes to 4MB so that most of HiveCompatibilitySuite runs:
- [x] Wrong answer in `join_1to1` (fixed by #7680)
- [x] Wrong answer in `join_nulls` (fixed by #7680)
- [x] Managed memory OOM / leak in `lateral_view`
- [x] Seems to hang indefinitely in `partcols1`. This might be a deadlock in script transformation or a bug in error-handling code? The hang was fixed by #7710.
- [x] Error while freeing memory in `partcols1`: will be fixed by #7734.
- [x] After fixing the `partcols1` hang, it appears that a number of later tests have issues as well.
- [x] Fix thread-safety bug in codegen fallback expression evaluation (#7759).
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7564 from JoshRosen/unsafe-by-default and squashes the following commits:
83c0c56 [Josh Rosen] Merge remote-tracking branch 'origin/master' into unsafe-by-default
f4cc859 [Josh Rosen] Merge remote-tracking branch 'origin/master' into unsafe-by-default
963f567 [Josh Rosen] Reduce buffer size for R tests
d6986de [Josh Rosen] Lower page size in PySpark tests
013b9da [Josh Rosen] Also match TungstenProject in checkNumProjects
5d0b2d3 [Josh Rosen] Add task completion callback to avoid leak in limit after sort
ea250da [Josh Rosen] Disable unsafe Exchange path when RangePartitioning is used
715517b [Josh Rosen] Enable Unsafe by default
This change adds code to notify the scheduler backend when a container dies in YARN.
Author: Mridul Muralidharan <mridulm@yahoo-inc.com>
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#7431 from vanzin/SPARK-8297 and squashes the following commits:
471e4a0 [Marcelo Vanzin] Fix unit test after merge.
d4adf4e [Marcelo Vanzin] Merge branch 'master' into SPARK-8297
3b262e8 [Marcelo Vanzin] Merge branch 'master' into SPARK-8297
537da6f [Marcelo Vanzin] Make an expected log less scary.
04dc112 [Marcelo Vanzin] Use driver <-> AM communication to send "remove executor" request.
8855b97 [Marcelo Vanzin] Merge remote-tracking branch 'mridul/fix_yarn_scheduler_bug' into SPARK-8297
687790f [Mridul Muralidharan] Merge branch 'fix_yarn_scheduler_bug' of github.com:mridulm/spark into fix_yarn_scheduler_bug
e1b0067 [Mridul Muralidharan] Fix failing testcase, fix merge issue from our 1.3 -> master
9218fcc [Mridul Muralidharan] Fix failing testcase
362d64a [Mridul Muralidharan] Merge branch 'fix_yarn_scheduler_bug' of github.com:mridulm/spark into fix_yarn_scheduler_bug
62ad0cc [Mridul Muralidharan] Merge branch 'fix_yarn_scheduler_bug' of github.com:mridulm/spark into fix_yarn_scheduler_bug
bbf8811 [Mridul Muralidharan] Merge branch 'fix_yarn_scheduler_bug' of github.com:mridulm/spark into fix_yarn_scheduler_bug
9ee1307 [Mridul Muralidharan] Fix SPARK-8297
a3a0f01 [Mridul Muralidharan] Fix SPARK-8297
cc srowen
Author: François Garillot <francois@garillot.net>
Closes#7678 from huitseeker/master and squashes the following commits:
5e99f57 [François Garillot] [SPARK-9267][Core] Retire stringify(Partial)?Value from Accumulators
Users can now get the file name of the partition being read in. A thread local variable is in `SQLNewHadoopRDD` and is set when the partition is computed. `SQLNewHadoopRDD` is moved to core so that the catalyst package can reach it.
This supports:
`df.select(inputFileName())`
and
`sqlContext.sql("select input_file_name() from table")`
Author: Joseph Batchik <josephbatchik@gmail.com>
Closes#7743 from JDrit/input_file_name and squashes the following commits:
abb8609 [Joseph Batchik] fixed failing test and changed the default value to be an empty string
d2f323d [Joseph Batchik] updates per review
102061f [Joseph Batchik] updates per review
75313f5 [Joseph Batchik] small fixes
c7f7b5a [Joseph Batchik] addeding input file name to Spark SQL
As of today, StringPrefixComparator converts the long values back to byte arrays in order to compare them. This patch optimizes this to compare the longs directly, rather than turning the longs into byte arrays and comparing them byte by byte (unsigned).
This only works on little-endian architecture right now.
Author: Reynold Xin <rxin@databricks.com>
Closes#7765 from rxin/SPARK-9460 and squashes the following commits:
e4908cc [Reynold Xin] Stricter randomized tests.
4c8d094 [Reynold Xin] [SPARK-9460] Avoid byte array allocation in StringPrefixComparator.
In our existing sort prefix generation code, we use expression's eval method to generate the prefix, which results in object allocation for every prefix. We can use the specialized getters available on InternalRow directly to avoid the object allocation.
I also removed the FLOAT prefix, opting for converting float directly to double.
Author: Reynold Xin <rxin@databricks.com>
Closes#7763 from rxin/sort-prefix and squashes the following commits:
5dc2f06 [Reynold Xin] [SPARK-9458] Avoid object allocation in prefix generation.
We need to make page sizes configurable so we can reduce them in unit tests and increase them in real production workloads. These sizes are now controlled by a new configuration, `spark.buffer.pageSize`. The new default is 64 megabytes.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7741 from JoshRosen/SPARK-9411 and squashes the following commits:
a43c4db [Josh Rosen] Fix pow
2c0eefc [Josh Rosen] Fix MAXIMUM_PAGE_SIZE_BYTES comment + value
bccfb51 [Josh Rosen] Lower page size to 4MB in TestHive
ba54d4b [Josh Rosen] Make UnsafeExternalSorter's page size configurable
0045aa2 [Josh Rosen] Make UnsafeShuffle's page size configurable
bc734f0 [Josh Rosen] Rename configuration
e614858 [Josh Rosen] Makes BytesToBytesMap page size configurable
Added a custom Kryo serializer for generic Avro records to reduce the network IO
involved during a shuffle. This compresses the schema and allows for users to
register their schemas ahead of time to further reduce traffic.
Currently Kryo tries to use its default serializer for generic Records, which will include
a lot of unneeded data in each record.
Author: Joseph Batchik <joseph.batchik@cloudera.com>
Author: Joseph Batchik <josephbatchik@gmail.com>
Closes#7004 from JDrit/Avro_serialization and squashes the following commits:
8158d51 [Joseph Batchik] updated per feedback
c0cf329 [Joseph Batchik] implemented @squito suggestion for SparkEnv
dd71efe [Joseph Batchik] fixed bug with serializing
1183a48 [Joseph Batchik] updated codec settings
fa9298b [Joseph Batchik] forgot a couple of fixes
c5fe794 [Joseph Batchik] implemented @squito suggestion
0f5471a [Joseph Batchik] implemented @squito suggestion to use a codec that is already in spark
6d1925c [Joseph Batchik] fixed to changes suggested by @squito
d421bf5 [Joseph Batchik] updated pom to removed versions
ab46d10 [Joseph Batchik] Changed Avro dependency to be similar to parent
f4ae251 [Joseph Batchik] fixed serialization error in that SparkConf cannot be serialized
2b545cc [Joseph Batchik] started working on fixes for pr
97fba62 [Joseph Batchik] Added a custom Kryo serializer for generic Avro records to reduce the network IO involved during a shuffle. This compresses the schema and allows for users to register their schemas ahead of time to further reduce traffic.
Spark's ShuffleMemoryManager and MemoryStore track memory on a per-thread basis, which causes problems in the handful of cases where we have tasks that use multiple threads. In PythonRDD, RRDD, ScriptTransformation, and PipedRDD we consume the input iterator in a separate thread in order to write it to an external process. As a result, these RDD's input iterators are consumed in a different thread than the thread that created them, which can cause problems in our memory allocation tracking. For example, if allocations are performed in one thread but deallocations are performed in a separate thread then memory may be leaked or we may get errors complaining that more memory was allocated than was freed.
I think that the right way to fix this is to change our accounting to be performed on a per-task instead of per-thread basis. Note that the current per-thread tracking has caused problems in the past; SPARK-3731 (#2668) fixes a memory leak in PythonRDD that was caused by this issue (that fix is no longer necessary as of this patch).
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7734 from JoshRosen/memory-tracking-fixes and squashes the following commits:
b4b1702 [Josh Rosen] Propagate TaskContext to writer threads.
57c9b4e [Josh Rosen] Merge remote-tracking branch 'origin/master' into memory-tracking-fixes
ed25d3b [Josh Rosen] Address minor PR review comments
44f6497 [Josh Rosen] Fix long line.
7b0f04b [Josh Rosen] Fix ShuffleMemoryManagerSuite
f57f3f2 [Josh Rosen] More thread -> task changes
fa78ee8 [Josh Rosen] Move Executor's cleanup into Task so that TaskContext is defined when cleanup is performed
5e2f01e [Josh Rosen] Fix capitalization
1b0083b [Josh Rosen] Roll back fix in PySpark, which is no longer necessary
2e1e0f8 [Josh Rosen] Use TaskAttemptIds to track shuffle memory
c9e8e54 [Josh Rosen] Use TaskAttemptIds to track unroll memory
Currently there's no locality preference for container request in YARN mode, this will affect the performance if fetching data remotely, so here proposed to add locality in Yarn dynamic allocation mode.
Ping sryza, please help to review, thanks a lot.
Author: jerryshao <saisai.shao@intel.com>
Closes#6394 from jerryshao/SPARK-4352 and squashes the following commits:
d45fecb [jerryshao] Add documents
6c3fe5c [jerryshao] Fix bug
8db6c0e [jerryshao] Further address the comments
2e2b2cb [jerryshao] Fix rebase compiling problem
ce5f096 [jerryshao] Fix style issue
7f7df95 [jerryshao] Fix rebase issue
9ca9e07 [jerryshao] Code refactor according to comments
d3e4236 [jerryshao] Further address the comments
5e7a593 [jerryshao] Fix bug introduced code rebase
9ca7783 [jerryshao] Style changes
08317f9 [jerryshao] code and comment refines
65b2423 [jerryshao] Further address the comments
a27c587 [jerryshao] address the comment
27faabc [jerryshao] redundant code remove
9ce06a1 [jerryshao] refactor the code
f5ba27b [jerryshao] Style fix
2c6cc8a [jerryshao] Fix bug and add unit tests
0757335 [jerryshao] Consider the distribution of existed containers to recalculate the new container requests
0ad66ff [jerryshao] Fix compile bugs
1c20381 [jerryshao] Minor fix
5ef2dc8 [jerryshao] Add docs and improve the code
3359814 [jerryshao] Fix rebase and test bugs
0398539 [jerryshao] reinitialize the new implementation
67596d6 [jerryshao] Still fix the code
654e1d2 [jerryshao] Fix some bugs
45b1c89 [jerryshao] Further polish the algorithm
dea0152 [jerryshao] Enable node locality information in YarnAllocator
74bbcc6 [jerryshao] Support node locality for dynamic allocation initial commit
Author: Ryan Williams <ryan.blake.williams@gmail.com>
Closes#7681 from ryan-williams/task-stage-attempt and squashes the following commits:
d6d5f0f [Ryan Williams] use task's stageAttemptId in TaskEnd event
This patch fixes two bugs in UnsafeExternalSorter and UnsafeExternalRowSorter:
- UnsafeExternalSorter does not properly update freeSpaceInCurrentPage, which can cause it to write past the end of memory pages and trigger segfaults.
- UnsafeExternalRowSorter has a use-after-free bug when returning the last row from an iterator.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7680 from JoshRosen/SPARK-9364 and squashes the following commits:
590f311 [Josh Rosen] null out row
f4cf91d [Josh Rosen] Fix use-after-free bug in UnsafeExternalRowSorter.
8abcf82 [Josh Rosen] Properly decrement freeSpaceInCurrentPage in UnsafeExternalSorter
A lock file is used to ensure multiple executors running on the
same machine don't download the same file concurrently. Spark never
closes these lock files (releasing the lock does not close the
underlying file); this commit fixes that.
cc vanzin (looks like you've been involved in various other fixes surrounding these lock files)
Author: Kay Ousterhout <kayousterhout@gmail.com>
Closes#7650 from kayousterhout/SPARK-9326 and squashes the following commits:
0401bd1 [Kay Ousterhout] Close lock file used for file downloads.
This also fixes a small issue in the standalone Master that was uncovered by the new tests. For more detail, read the description of SPARK-9353.
Author: Andrew Or <andrew@databricks.com>
Closes#7668 from andrewor14/standalone-scheduling-tests and squashes the following commits:
d852faf [Andrew Or] Add tests + fix scheduling with memory limits
Current scheduling algorithm allocates one core at a time and in doing so ends up ignoring spark.executor.cores. As a result, when spark.cores.max/spark.executor.cores (i.e, num_executors) < num_workers, executors are not launched and the app hangs. This PR fixes and refactors the scheduling algorithm.
andrewor14
Author: Nishkam Ravi <nravi@cloudera.com>
Author: nishkamravi2 <nishkamravi@gmail.com>
Closes#7274 from nishkamravi2/master_scheduler and squashes the following commits:
b998097 [nishkamravi2] Update Master.scala
da0f491 [Nishkam Ravi] Update Master.scala
79084e8 [Nishkam Ravi] Update Master.scala
1daf25f [Nishkam Ravi] Update Master.scala
f279cdf [Nishkam Ravi] Update Master.scala
adec84b [Nishkam Ravi] Update Master.scala
a06da76 [nishkamravi2] Update Master.scala
40c8f9f [nishkamravi2] Update Master.scala (to trigger retest)
c11c689 [nishkamravi2] Update EventLoggingListenerSuite.scala
5d6a19c [nishkamravi2] Update Master.scala (for the purpose of issuing a retest)
2d6371c [Nishkam Ravi] Update Master.scala
66362d5 [nishkamravi2] Update Master.scala
ee7cf0e [Nishkam Ravi] Improved scheduling algorithm for executors
JIRA: https://issues.apache.org/jira/browse/SPARK-9067
According to the description of the JIRA ticket, calling `reader.close()` only after the task is finished will cause memory and file open limit problem since these resources are occupied even we don't need that anymore.
This PR simply closes the reader early when we know there is no more data to read.
Author: Liang-Chi Hsieh <viirya@appier.com>
Closes#7424 from viirya/close_reader and squashes the following commits:
3ff64e5 [Liang-Chi Hsieh] For comments.
3d20267 [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into close_reader
e152182 [Liang-Chi Hsieh] For comments.
5116cbe [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into close_reader
3ceb755 [Liang-Chi Hsieh] For comments.
e34d98e [Liang-Chi Hsieh] For comments.
50ed729 [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into close_reader
216912f [Liang-Chi Hsieh] Fix it.
f429016 [Liang-Chi Hsieh] Release reader if we don't need it.
a305621 [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into close_reader
67569da [Liang-Chi Hsieh] Close reader early if there is no more data.
Doing this may cause weird errors when tests are run on maven, depending
on the flags used. Instead, expose the needed functionality through methods
that do not expose shaded classes.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#7601 from vanzin/SPARK-9261 and squashes the following commits:
4f64a16 [Marcelo Vanzin] [SPARK-9261] [streaming] Avoid calling APIs that expose shaded classes.
It's a thing used in test cases, but named Row. Pretty annoying because everytime I search for Row, it shows up before the Spark SQL Row, which is what a developer wants most of the time.
Author: Reynold Xin <rxin@databricks.com>
Closes#7638 from rxin/remove-row and squashes the following commits:
aeda52d [Reynold Xin] [SPARK-9305] Rename org.apache.spark.Row to Item.
See also comments on https://issues.apache.org/jira/browse/SPARK-9236
Author: François Garillot <francois@garillot.net>
Closes#7616 from huitseeker/issue/SPARK-9236 and squashes the following commits:
217f902 [François Garillot] [SPARK-9236] Make defaultPartitioner not reuse a parent RDD's partitioner if it has 0 partitions
JIRA: https://issues.apache.org/jira/browse/SPARK-9183
cc rxin
Author: Yijie Shen <henry.yijieshen@gmail.com>
Closes#7613 from yjshen/npe_udf and squashes the following commits:
44f58f2 [Yijie Shen] add jira ticket number
903c963 [Yijie Shen] add explanation comments
f44dd3c [Yijie Shen] Change two hive class LogLevel to avoid annoying messages
1. When build the latest code with sbt, it throws exception like:
[error] /home/hcheng/git/catalyst/core/src/main/scala/org/apache/spark/ui/jobs/AllJobsPage.scala:78: match may not be exhaustive.
[error] It would fail on the following input: UNKNOWN
[error] val classNameByStatus = status match {
[error]
2. Potential performance issue when implicitly convert an Array[Any] to Seq[Any]
Author: Cheng Hao <hao.cheng@intel.com>
Closes#7611 from chenghao-intel/toseq and squashes the following commits:
cab75c5 [Cheng Hao] remove the toArray
24df682 [Cheng Hao] fix building error & performance
When a task fails with an exception and also fails to properly clean up its managed memory, the `spark.unsafe.exceptionOnMemoryLeak` memory leak detection mechanism's exceptions will mask the original exception that caused the task to fail. We should throw the memory leak exception only if no other exception occurred.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7603 from JoshRosen/SPARK-9266 and squashes the following commits:
c268cb5 [Josh Rosen] Merge remote-tracking branch 'origin/master' into SPARK-9266
c1f0167 [Josh Rosen] Fix the error masking problem
448eae8 [Josh Rosen] Add regression test
Author: Perinkulam I. Ganesh <gip@us.ibm.com>
Closes#7397 from piganesh/SPARK-8695 and squashes the following commits:
041620c [Perinkulam I. Ganesh] [SPARK-8695][CORE][MLlib] TreeAggregation shouldn't be triggered when it doesn't save wall-clock time.
9ad067c [Perinkulam I. Ganesh] [SPARK-8695] [core] [WIP] TreeAggregation shouldn't be triggered for 5 partitions
a6fed07 [Perinkulam I. Ganesh] [SPARK-8695] [core] [WIP] TreeAggregation shouldn't be triggered for 5 partitions
Spark has an option called spark.localExecution.enabled; according to the docs:
> Enables Spark to run certain jobs, such as first() or take() on the driver, without sending tasks to the cluster. This can make certain jobs execute very quickly, but may require shipping a whole partition of data to the driver.
This feature ends up adding quite a bit of complexity to DAGScheduler, especially in the runLocallyWithinThread method, but as far as I know nobody uses this feature (I searched the mailing list and haven't seen any recent mentions of the configuration nor stacktraces including the runLocally method). As a step towards scheduler complexity reduction, I propose that we remove this feature and all code related to it for Spark 1.5.
This pull request simply brings #7484 up to date.
Author: Josh Rosen <joshrosen@databricks.com>
Author: Reynold Xin <rxin@databricks.com>
Closes#7585 from rxin/remove-local-exec and squashes the following commits:
84bd10e [Reynold Xin] Python fix.
1d9739a [Reynold Xin] Merge pull request #7484 from JoshRosen/remove-localexecution
eec39fa [Josh Rosen] Remove allowLocal(); deprecate user-facing uses of it.
b0835dc [Josh Rosen] Remove local execution code in DAGScheduler
8975d96 [Josh Rosen] Remove local execution tests.
ffa8c9b [Josh Rosen] Remove documentation for configuration
I've seen a few cases in the past few weeks that the compiler is throwing warnings that are caused by legitimate bugs. This patch upgrades warnings to errors, except deprecation warnings.
Note that ideally we should be able to mark deprecation warnings as errors as well. However, due to the lack of ability to suppress individual warning messages in the Scala compiler, we cannot do that (since we do need to access deprecated APIs in Hadoop).
Most of the work are done by ericl.
Author: Reynold Xin <rxin@databricks.com>
Author: Eric Liang <ekl@databricks.com>
Closes#7598 from rxin/warnings and squashes the following commits:
beb311b [Reynold Xin] Fixed tests.
542c031 [Reynold Xin] Fixed one more warning.
87c354a [Reynold Xin] Fixed all non-deprecation warnings.
78660ac [Eric Liang] first effort to fix warnings
There are a few memory limits that people hit often and that we could
make higher, especially now that memory sizes have grown.
- spark.akka.frameSize: This defaults at 10 but is often hit for map
output statuses in large shuffles. This memory is not fully allocated
up-front, so we can just make this larger and still not affect jobs
that never sent a status that large. We increase it to 128.
- spark.executor.memory: Defaults at 512m, which is really small. We
increase it to 1g.
Author: Matei Zaharia <matei@databricks.com>
Closes#7586 from mateiz/configs and squashes the following commits:
ce0038a [Matei Zaharia] [SPARK-9244] Increase some memory defaults
Make `DiskMapIterator.cleanup` idempotent and register a TaskCompletionListener to make sure call `cleanup`.
Author: zsxwing <zsxwing@gmail.com>
Closes#7529 from zsxwing/SPARK-5423 and squashes the following commits:
3e3c413 [zsxwing] Remove TODO
9556c78 [zsxwing] Fix NullPointerException for tests
3d574d9 [zsxwing] Register a TaskCompletionListener to make sure release all resources
This PR adds pagination for the task table to solve the scalability issue of the stage page. Here is the initial screenshot:
<img width="1347" alt="pagination" src="https://cloud.githubusercontent.com/assets/1000778/8679669/9e63863c-2a8e-11e5-94e4-994febcd6717.png">
The task table only shows 100 tasks. There is a page navigation above the table. Users can click the page navigation or type the page number to jump to another page. The table can be sorted by clicking the headers. However, unlike previous implementation, the sorting work is done in the server now. So clicking a table column to sort needs to refresh the web page.
Author: zsxwing <zsxwing@gmail.com>
Closes#7399 from zsxwing/task-table-pagination and squashes the following commits:
144f513 [zsxwing] Display the page navigation when the page number is out of range
a3eee22 [zsxwing] Add extra space for the error message
54c5b84 [zsxwing] Reset page to 1 if the user changes the page size
c2f7f39 [zsxwing] Add a text field to let users fill the page size
bad52eb [zsxwing] Display user-friendly error messages
410586b [zsxwing] Scroll down to the tasks table if the url contains any sort column
a0746d1 [zsxwing] Use expand-dag-viz-arrow-job and expand-dag-viz-arrow-stage instead of expand-dag-viz-arrow-true and expand-dag-viz-arrow-false
b123f67 [zsxwing] Use localStorage to remember the user's actions and replay them when loading the page
894a342 [zsxwing] Show the link cursor when hovering for headers and page links and other minor fix
4d4fecf [zsxwing] Address Carson's comments
d9285f0 [zsxwing] Add comments and fix the style
74285fa [zsxwing] Merge branch 'master' into task-table-pagination
db6c859 [zsxwing] Task table pagination for the Stage page
Author: Jacek Lewandowski <lewandowski.jacek@gmail.com>
Closes#5805 from jacek-lewandowski/SPARK-7171 and squashes the following commits:
ed20bda [Jacek Lewandowski] SPARK-7171: Added a method to retrieve metrics sources in TaskContext
JIRA: https://issues.apache.org/jira/browse/SPARK-9128
Currently, in `ClosureCleaner`, the outerclasses and objects are retrieved using two different methods. However, the logic of the two methods is the same, and we can get both the outerclasses and objects with only one method calling.
Author: Liang-Chi Hsieh <viirya@appier.com>
Closes#7459 from viirya/remove_extra_closurecleaner and squashes the following commits:
7c9858d [Liang-Chi Hsieh] For comments.
a096941 [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into remove_extra_closurecleaner
2ec5ce1 [Liang-Chi Hsieh] Remove unnecessary methods.
4df5a51 [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into remove_extra_closurecleaner
dc110d1 [Liang-Chi Hsieh] Add method to get outerclasses and objects at the same time.
This PR implements a JSON serializer and deserializer in the JSONProtocol to handle the (de)serialization of SparkListenerExecutorMetricsUpdate events. It also includes a unit test in the JSONProtocolSuite file. This was implemented to satisfy the improvement request in the JIRA issue SPARK-9036.
Author: Ben <benjaminpiering@gmail.com>
Closes#7555 from NamelessAnalyst/master and squashes the following commits:
fb4e3cc [Ben] Update JSON Protocol and tests
aa69517 [Ben] Update JSON Protocol and tests --Corrected Stage Attempt to Stage Attempt ID
33e5774 [Ben] Update JSON Protocol Tests
3f237e7 [Ben] Update JSON Protocol Tests
84ca798 [Ben] Update JSON Protocol Tests
cde57a0 [Ben] Update JSON Protocol Tests
8049600 [Ben] Update JSON Protocol Tests
c5bc061 [Ben] Update JSON Protocol Tests
6f25785 [Ben] Merge remote-tracking branch 'origin/master'
df2a609 [Ben] Update JSON Protocol
dcda80b [Ben] Update JSON Protocol
Now, when some executors are killed by dynamic-allocation, it leads to some mis-assignment onto lost executors sometimes. Such kind of mis-assignment causes task failure(s) or even job failure if it repeats that errors for 4 times.
The root cause is that ***killExecutors*** doesn't remove those executors under killing ASAP. It depends on the ***OnDisassociated*** event to refresh the active working list later. The delay time really depends on your cluster status (from several milliseconds to sub-minute). When new tasks to be scheduled during that period of time, it will be assigned to those "active" but "under killing" executors. Then the tasks will be failed due to "executor lost". The better way is to exclude those executors under killing in the makeOffers(). Then all those tasks won't be allocated onto those executors "to be lost" any more.
Author: Grace <jie.huang@intel.com>
Closes#7528 from GraceH/AssignToLostExecutor and squashes the following commits:
ecc1da6 [Grace] scala style fix
6e2ed96 [Grace] Re-word makeOffers by more readable lines
b5546ce [Grace] Add comments about the fix
30a9ad0 [Grace] Avoid assigning tasks to lost executors
These commits address a few minor issues in the Scala cross-version support in the build:
1. Correct two missing `${scala.binary.version}` pom file substitutions.
2. Don't update `scala.binary.version` in parent POM. This property is set through profiles.
3. Update the source of the generated scaladocs in `docs/_plugins/copy_api_dirs.rb`.
4. Factor common code out of `dev/change-version-to-*.sh` and add some validation. We also test `sed` to see if it's GNU sed and try `gsed` as an alternative if not. This prevents the script from running with a non-GNU sed.
This is my original work and I license this work to the Spark project under the Apache License.
Author: Michael Allman <michael@videoamp.com>
Closes#6832 from mallman/scala-versions and squashes the following commits:
cde2f17 [Michael Allman] Delete dev/change-version-to-*.sh, replacing them with single dev/change-scala-version.sh script that takes a version as argument
02296f2 [Michael Allman] Make the scala version change scripts cross-platform by restricting ourselves to POSIX sed syntax instead of looking for GNU sed
ad9b40a [Michael Allman] Factor change-scala-version.sh out of change-version-to-*.sh, adding command line argument validation and testing for GNU sed
bdd20bf [Michael Allman] Update source of scaladocs when changing Scala version
475088e [Michael Allman] Replace jackson-module-scala_2.10 with jackson-module-scala_${scala.binary.version}
The shuffle code has gotten increasingly difficult to read as it has evolved, and many classes
have evolved significantly since they were originally created. The BlockStoreShuffleFetcher class
now serves little purpose other than to make the code more difficult to read; this commit moves its
functionality into the ShuffleBlockFetcherIterator class.
cc massie JoshRosen (Josh, this PR also removes the Try you pointed out as being confusing / not necessarily useful in a previous comment). Matt, would be helpful to know whether this will interfere in any negative ways with your new shuffle PR (I took a look and it seems like this should still cleanly integrate with your parquet work, but want to double check).
Author: Kay Ousterhout <kayousterhout@gmail.com>
Closes#7268 from kayousterhout/SPARK-8875 and squashes the following commits:
2b24a97 [Kay Ousterhout] Fixed DAGSchedulerSuite compile error
98a1831 [Kay Ousterhout] Merge remote-tracking branch 'upstream/master' into SPARK-8875
90f0e89 [Kay Ousterhout] Fixed broken test
14bfcbb [Kay Ousterhout] Last style fix
bc69d2b [Kay Ousterhout] Style improvements based on Josh's code review
ad3c8d1 [Kay Ousterhout] Better documentation for MapOutputTracker methods
0bc0e59 [Kay Ousterhout] [SPARK-8875] Remove BlockStoreShuffleFetcher class
This patch addresses an issue where queries that sorted float or double columns containing NaN values could fail with "Comparison method violates its general contract!" errors from TimSort. The root of this problem is that `NaN > anything`, `NaN == anything`, and `NaN < anything` all return `false`.
Per the design specified in SPARK-9079, we have decided that `NaN = NaN` should return true and that NaN should appear last when sorting in ascending order (i.e. it is larger than any other numeric value).
In addition to implementing these semantics, this patch also adds canonicalization of NaN values in UnsafeRow, which is necessary in order to be able to do binary equality comparisons on equal NaNs that might have different bit representations (see SPARK-9147).
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7194 from JoshRosen/nan and squashes the following commits:
983d4fc [Josh Rosen] Merge remote-tracking branch 'origin/master' into nan
88bd73c [Josh Rosen] Fix Row.equals()
a702e2e [Josh Rosen] normalization -> canonicalization
a7267cf [Josh Rosen] Normalize NaNs in UnsafeRow
fe629ae [Josh Rosen] Merge remote-tracking branch 'origin/master' into nan
fbb2a29 [Josh Rosen] Fix NaN comparisons in BinaryComparison expressions
c1fd4fe [Josh Rosen] Fold NaN test into existing test framework
b31eb19 [Josh Rosen] Uncomment failing tests
7fe67af [Josh Rosen] Support NaN == NaN (SPARK-9145)
58bad2c [Josh Rosen] Revert "Compare rows' string representations to work around NaN incomparability."
fc6b4d2 [Josh Rosen] Update CodeGenerator
3998ef2 [Josh Rosen] Remove unused code
a2ba2e7 [Josh Rosen] Fix prefix comparision for NaNs
a30d371 [Josh Rosen] Compare rows' string representations to work around NaN incomparability.
6f03f85 [Josh Rosen] Fix bug in Double / Float ordering
42a1ad5 [Josh Rosen] Stop filtering NaNs in UnsafeExternalSortSuite
bfca524 [Josh Rosen] Change ordering so that NaN is maximum value.
8d7be61 [Josh Rosen] Update randomized test to use ScalaTest's assume()
b20837b [Josh Rosen] Add failing test for new NaN comparision ordering
5b88b2b [Josh Rosen] Fix compilation of CodeGenerationSuite
d907b5b [Josh Rosen] Merge remote-tracking branch 'origin/master' into nan
630ebc5 [Josh Rosen] Specify an ordering for NaN values.
9bf195a [Josh Rosen] Re-enable NaNs in CodeGenerationSuite to produce more regression tests
13fc06a [Josh Rosen] Add regression test for NaN sorting issue
f9efbb5 [Josh Rosen] Fix ORDER BY NULL
e7dc4fb [Josh Rosen] Add very generic test for ordering
7d5c13e [Josh Rosen] Add regression test for SPARK-8782 (ORDER BY NULL)
b55875a [Josh Rosen] Generate doubles and floats over entire possible range.
5acdd5c [Josh Rosen] Infinity and NaN are interesting.
ab76cbd [Josh Rosen] Move code to Catalyst package.
d2b4a4a [Josh Rosen] Add random data generator test utilities to Spark SQL.
For running tasks, the executorRunTime metrics is 0 which causes negative executorComputingTime in the timeline. It also causes an incorrect SchedulerDelay time.
Author: Carson Wang <carson.wang@intel.com>
Closes#7526 from carsonwang/timeline-negValue and squashes the following commits:
7b17db2 [Carson Wang] Fix negative value in timeline view
This PR tries to accelerate Parquet schema discovery and `HadoopFsRelation` partition discovery. The acceleration is done by the following means:
- Turning off schema merging by default
Schema merging is not the most common case, but requires reading footers of all Parquet part-files and can be very slow.
- Avoiding `FileSystem.globStatus()` call when possible
`FileSystem.globStatus()` may issue multiple synchronous RPC calls, and can be very slow (esp. on S3). This PR adds `SparkHadoopUtil.globPathIfNecessary()`, which only issues RPC calls when the path contain glob-pattern specific character(s) (`{}[]*?\`).
This is especially useful when converting a metastore Parquet table with lots of partitions, since Spark SQL adds all partition directories as the input paths, and currently we do a `globStatus` call on each input path sequentially.
- Listing leaf files in parallel when the number of input paths exceeds a threshold
Listing leaf files is required by partition discovery. Currently it is done on driver side, and can be slow when there are lots of (nested) directories, since each `FileSystem.listStatus()` call issues an RPC. In this PR, we list leaf files in a BFS style, and resort to a Spark job once we found that the number of directories need to be listed exceed a threshold.
The threshold is controlled by `SQLConf` option `spark.sql.sources.parallelPartitionDiscovery.threshold`, which defaults to 32.
- Discovering Parquet schema in parallel
Currently, schema merging is also done on driver side, and needs to read footers of all part-files. This PR uses a Spark job to do schema merging. Together with task side metadata reading in Parquet 1.7.0, we never read any footers on driver side now.
Author: Cheng Lian <lian@databricks.com>
Closes#7396 from liancheng/accel-parquet and squashes the following commits:
5598efc [Cheng Lian] Uses ParquetInputFormat[InternalRow] instead of ParquetInputFormat[Row]
ff32cd0 [Cheng Lian] Excludes directories while listing leaf files
3c580f1 [Cheng Lian] Fixes test failure caused by making "mergeSchema" default to "false"
b1646aa [Cheng Lian] Should allow empty input paths
32e5f0d [Cheng Lian] Moves schema merging to executor side
https://issues.apache.org/jira/browse/SPARK-8103
cc kayousterhout (thanks for the extra test case)
Author: Imran Rashid <irashid@cloudera.com>
Author: Kay Ousterhout <kayousterhout@gmail.com>
Author: Imran Rashid <squito@users.noreply.github.com>
Closes#6750 from squito/SPARK-8103 and squashes the following commits:
fb3acfc [Imran Rashid] fix log msg
e01b7aa [Imran Rashid] fix some comments, style
584acd4 [Imran Rashid] simplify going from taskId to taskSetMgr
e43ac25 [Imran Rashid] Merge branch 'master' into SPARK-8103
6bc23af [Imran Rashid] update log msg
4470fa1 [Imran Rashid] rename
c04707e [Imran Rashid] style
88b61cc [Imran Rashid] add tests to make sure that TaskSchedulerImpl schedules correctly with zombie attempts
d7f1ef2 [Imran Rashid] get rid of activeTaskSets
a21c8b5 [Imran Rashid] Merge branch 'master' into SPARK-8103
906d626 [Imran Rashid] fix merge
109900e [Imran Rashid] Merge branch 'master' into SPARK-8103
c0d4d90 [Imran Rashid] Revert "Index active task sets by stage Id rather than by task set id"
f025154 [Imran Rashid] Merge pull request #2 from kayousterhout/imran_SPARK-8103
baf46e1 [Kay Ousterhout] Index active task sets by stage Id rather than by task set id
19685bb [Imran Rashid] switch to using latestInfo.attemptId, and add comments
a5f7c8c [Imran Rashid] remove comment for reviewers
227b40d [Imran Rashid] style
517b6e5 [Imran Rashid] get rid of SparkIllegalStateException
b2faef5 [Imran Rashid] faster check for conflicting task sets
6542b42 [Imran Rashid] remove extra stageAttemptId
ada7726 [Imran Rashid] reviewer feedback
d8eb202 [Imran Rashid] Merge branch 'master' into SPARK-8103
46bc26a [Imran Rashid] more cleanup of debug garbage
cb245da [Imran Rashid] finally found the issue ... clean up debug stuff
8c29707 [Imran Rashid] Merge branch 'master' into SPARK-8103
89a59b6 [Imran Rashid] more printlns ...
9601b47 [Imran Rashid] more debug printlns
ecb4e7d [Imran Rashid] debugging printlns
b6bc248 [Imran Rashid] style
55f4a94 [Imran Rashid] get rid of more random test case since kays tests are clearer
7021d28 [Imran Rashid] update test since listenerBus.waitUntilEmpty now throws an exception instead of returning a boolean
883fe49 [Kay Ousterhout] Unit tests for concurrent stages issue
6e14683 [Imran Rashid] unit test just to make sure we fail fast on concurrent attempts
06a0af6 [Imran Rashid] ignore for jenkins
c443def [Imran Rashid] better fix and simpler test case
28d70aa [Imran Rashid] wip on getting a better test case ...
a9bf31f [Imran Rashid] wip
Author: Wenchen Fan <cloud0fan@outlook.com>
Closes#7496 from cloud-fan/tests and squashes the following commits:
0958f90 [Wenchen Fan] improve test for nondeterministic expressions
This makes sure attempts are listed in the order they were executed, and that the
app's state matches the state of the most current attempt.
Author: Joshi <rekhajoshm@gmail.com>
Author: Rekha Joshi <rekhajoshm@gmail.com>
Closes#7253 from rekhajoshm/SPARK-8593 and squashes the following commits:
874dd80 [Joshi] History Server: updated order for multiple attempts(logcleaner)
716e0b1 [Joshi] History Server: updated order for multiple attempts(descending start time works everytime)
548c753 [Joshi] History Server: updated order for multiple attempts(descending start time works everytime)
83306a8 [Joshi] History Server: updated order for multiple attempts(descending start time)
b0fc922 [Joshi] History Server: updated order for multiple attempts(updated comment)
cc0fda7 [Joshi] History Server: updated order for multiple attempts(updated test)
304cb0b [Joshi] History Server: updated order for multiple attempts(reverted HistoryPage)
85024e8 [Joshi] History Server: updated order for multiple attempts
a41ac4b [Joshi] History Server: updated order for multiple attempts
ab65fa1 [Joshi] History Server: some attempt completed to work with showIncomplete
0be142d [Rekha Joshi] Merge pull request #3 from apache/master
106fd8e [Rekha Joshi] Merge pull request #2 from apache/master
e3677c9 [Rekha Joshi] Merge pull request #1 from apache/master
In client side, the flow is SparkSubmit -> SparkContext -> yarn/Client. Since the yarn client only gets a cloned config and the staging dir is set here, it is not really possible to do re-logins in the SparkContext. So, do the initial logins in Spark Submit and do re-logins as we do now in the AM, but the Client behaves like an executor in this specific context and reads the credentials file to update the tokens. This way, even if the streaming context is started up from checkpoint - it is fine since we have logged in from SparkSubmit itself itself.
Author: Hari Shreedharan <hshreedharan@apache.org>
Closes#7394 from harishreedharan/yarn-client-login and squashes the following commits:
9a2166f [Hari Shreedharan] make it possible to use command line args and config parameters together.
de08f57 [Hari Shreedharan] Fix import order.
5c4fa63 [Hari Shreedharan] Add a comment explaining what is being done in YarnClientSchedulerBackend.
c872caa [Hari Shreedharan] Fix typo in log message.
2c80540 [Hari Shreedharan] Move token renewal to YarnClientSchedulerBackend.
0c48ac2 [Hari Shreedharan] Remove direct use of ExecutorDelegationTokenUpdater in Client.
26f8bfa [Hari Shreedharan] [SPARK-8851][YARN] In Client mode, make sure the client logs in and updates tokens.
58b1969 [Hari Shreedharan] Simple attempt 1.
This PR includes the following changes:
1. Remove the thread local `Accumulators.localAccums`. Instead, all Accumulators in the executors will register with its TaskContext.
2. Add an internal flag to Accumulable. For internal Accumulators, their updates will be sent to the driver via heartbeats.
Author: zsxwing <zsxwing@gmail.com>
Closes#7448 from zsxwing/accumulators and squashes the following commits:
c24bc5b [zsxwing] Add comments
bd7dcf1 [zsxwing] Add an internal flag to Accumulable and send internal accumulator updates to the driver via heartbeats
**Symptom.** If an executor in an application times out, `HeartbeatReceiver` attempts to kill it. After this happens, however, the application never gets an executor back even when there are cluster resources available.
**Cause.** The issue is that `sc.killExecutor` automatically assumes that the application wishes to adjust its resource requirements permanently downwards. This is not the intention in `HeartbeatReceiver`, however, which simply wants a replacement for the expired executor.
**Fix.** Differentiate between the intention to kill and the intention to replace an executor with a fresh one. More details can be found in the commit message.
Author: Andrew Or <andrew@databricks.com>
Closes#7107 from andrewor14/heartbeat-no-kill and squashes the following commits:
1cd2cd7 [Andrew Or] Add regression test for SPARK-8119
25a347d [Andrew Or] Reuse more code in scheduler backend
31ebd40 [Andrew Or] Differentiate between kill and replace
Mesos supports framework authentication and role to be set per framework, which the role is used to identify the framework's role which impacts the sharing weight of resource allocation and optional authentication information to allow the framework to be connected to the master.
Author: Timothy Chen <tnachen@gmail.com>
Closes#4960 from tnachen/mesos_fw_auth and squashes the following commits:
0f9f03e [Timothy Chen] Fix review comments.
8f9488a [Timothy Chen] Fix rebase
f7fc2a9 [Timothy Chen] Add mesos role, auth and secret.
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
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
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
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.
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
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.
<!-- Reviewable:start -->
[<img src="https://reviewable.io/review_button.png" height=40 alt="Review on Reviewable"/>](https://reviewable.io/reviews/apache/spark/7350)
<!-- Reviewable:end -->
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
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
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
In StagePage, the SchedulerDelay is calculated as totalExecutionTime - executorRunTime - executorOverhead - gettingResultTime.
But the totalExecutionTime is calculated in the way that doesn't include the gettingResultTime.
Author: Carson Wang <carson.wang@intel.com>
Closes#7319 from carsonwang/SchedulerDelayTime and squashes the following commits:
f66fb6e [Carson Wang] Update the code style
7d971ae [Carson Wang] Correct the calculation of SchedulerDelay
This PR enables SparkR to dynamically ship the SparkR binary package to the AM node in YARN cluster mode, thus it is no longer required that the SparkR package be installed on each worker node.
This PR uses the JDK jar tool to package the SparkR package, because jar is thought to be available on both Linux/Windows platforms where JDK has been installed.
This PR does not address the R worker involved in RDD API. Will address it in a separate JIRA issue.
This PR does not address SBT build. SparkR installation and packaging by SBT will be addressed in a separate JIRA issue.
R/install-dev.bat is not tested. shivaram , Could you help to test it?
Author: Sun Rui <rui.sun@intel.com>
Closes#6743 from sun-rui/SPARK-6797 and squashes the following commits:
ca63c86 [Sun Rui] Adjust MimaExcludes after rebase.
7313374 [Sun Rui] Fix unit test errors.
72695fb [Sun Rui] Fix unit test failures.
193882f [Sun Rui] Fix Mima test error.
fe25a33 [Sun Rui] Fix Mima test error.
35ecfa3 [Sun Rui] Fix comments.
c38a005 [Sun Rui] Unzipped SparkR binary package is still required for standalone and Mesos modes.
b05340c [Sun Rui] Fix scala style.
2ca5048 [Sun Rui] Fix comments.
1acefd1 [Sun Rui] Fix scala style.
0aa1e97 [Sun Rui] Fix scala style.
41d4f17 [Sun Rui] Add support for locating SparkR package for R workers required by RDD APIs.
49ff948 [Sun Rui] Invoke jar.exe with full path in install-dev.bat.
7b916c5 [Sun Rui] Use 'rem' consistently.
3bed438 [Sun Rui] Add a comment.
681afb0 [Sun Rui] Fix a bug that RRunner does not handle client deployment modes.
cedfbe2 [Sun Rui] [SPARK-6797][SPARKR] Add support for YARN cluster mode.
Author: Kay Ousterhout <kayousterhout@gmail.com>
Closes#7275 from kayousterhout/SPARK-8880 and squashes the following commits:
3e9ce7c [Kay Ousterhout] Added missing return type
e150278 [Kay Ousterhout] [SPARK-8880] Fix confusing Stage.attemptId member variable
This patch adds a cache-friendly external sorter which operates on serialized bytes and uses this sorter to implement a new sort operator for Spark SQL and DataFrames.
### Overview of the new sorter
The new sorter design is inspired by [Alphasort](http://research.microsoft.com/pubs/68249/alphasort.doc) and implements a key-prefix optimization in order to improve the cache friendliness of the sort. In naive sort implementations, the sorting algorithm operates on an array of record pointers. To compare two records for ordering, the sorter must dereference these pointers, which likely involves random memory access, then compare the objects themselves.
In a key-prefix sort, the sort operates on an array which stores the record pointer alongside a prefix of the record's key. When comparing two records for ordering, the sorter first compares the the stored key prefixes. If the ordering can be determined from the key prefixes (i.e. the prefixes are unequal), then the sort can avoid directly comparing the records, avoiding random memory accesses and full record comparisons. For example, if we're sorting a list of strings then we can store the first 8 bytes of the UTF-8 encoded string as the key-prefix and can perform unsigned byte-at-a-time comparisons to determine the ordering of strings based on their prefixes, only resorting to full comparisons for strings that share a common prefix. In cases where the sort key can fit entirely in the space allotted for the key prefix (e.g. the sorting key is an integer), we completely avoid direct record comparison.
In this patch's implementation of key-prefix sorting, our sorter's internal array stores a 64-bit long and 64-bit pointer for each record being sorted. The key prefixes are generated by the user when inserting records into the sorter, which uses a user-defined comparison function for comparing them. The `PrefixComparators` object implements a set of comparators for many common types, including primitive numeric types and UTF-8 strings.
The actual sorting is implemented by `UnsafeInMemorySorter`. Most consumers will not use this directly, but instead will use `UnsafeExternalSorter`, a class which implements a sort that can spill to disk in response to memory pressure. Internally, `UnsafeExternalSorter` creates `UnsafeInMemorySorters` to perform sorting and uses `UnsafeSortSpillReader/Writer` to spill and read back runs of sorted records and `UnsafeSortSpillMerger` to merge multiple sorted spills into a single sorted iterator. This external sorter integrates with Spark's existing ShuffleMemoryManager for controlling spilling.
Many parts of this sorter's design are based on / copied from the more specialized external sort implementation that I designed for the new UnsafeShuffleManager write path; see #5868 for more details on that patch.
### Sorting rows in Spark SQL
For now, `UnsafeExternalSorter` is only used by Spark SQL, which uses it to implement a new sort operator, `UnsafeExternalSort`. This sort operator uses a SQL-specific class called `UnsafeExternalRowSorter` that configures an `UnsafeExternalSorter` to use prefix generators and comparators that operate on rows encoded in the UnsafeRow format that was designed for Project Tungsten.
I used some interesting unit-testing techniques to test this patch's SQL-specific components. `UnsafeExternalSortSuite` uses the SQL random data generators introduced in #7176 to test the UnsafeSort operator with all atomic types both with and without nullability and in both ascending and descending sort orders. `PrefixComparatorsSuite` contains a cool use of ScalaCheck + ScalaTest's `GeneratorDrivenPropertyChecks` in order to test UTF8String prefix comparison.
### Misc. additional improvements made in this patch
This patch made several miscellaneous improvements to related code in Spark SQL:
- The logic for selecting physical sort operator implementations, which was partially duplicated in both `Exchange` and `SparkStrategies, has now been consolidated into a `getSortOperator()` helper function in `SparkStrategies`.
- The `SparkPlanTest` unit testing helper trait has been extended with new methods for comparing the output produced by two different physical plans. This makes it easy to write tests which assert that two physical operator implementations should produce the same output. I also added a method for disabling the implicit sorting of outputs prior to comparing them, a change which is necessary in order to be able to write proper SparkPlan tests for sort operators.
### Tasks deferred to followup patches
While most of this patch's features are reasonably well-tested and complete, there are a number of tasks that are intentionally being deferred to followup patches:
- Add tests which mock the ShuffleMemoryManager to check that memory pressure properly triggers spilling (there are examples of this type of test in #5868).
- Add tests to ensure that spill files are properly cleaned up after errors. I'd like to do this in the context of a patch which introduces more general metrics for ensuring proper cleanup of tasks' temporary files; see https://issues.apache.org/jira/browse/SPARK-8966 for more details.
- Metrics integration: there are some open questions regarding how to track / report spill metrics for non-shuffle operations, so I've deferred most of the IO / shuffle metrics integration for now.
- Performance profiling.
<!-- Reviewable:start -->
[<img src="https://reviewable.io/review_button.png" height=40 alt="Review on Reviewable"/>](https://reviewable.io/reviews/apache/spark/6444)
<!-- Reviewable:end -->
Author: Josh Rosen <joshrosen@databricks.com>
Closes#6444 from JoshRosen/sql-external-sort and squashes the following commits:
6beb467 [Josh Rosen] Remove a bunch of overloaded methods to avoid default args. issue
2bbac9c [Josh Rosen] Merge remote-tracking branch 'origin/master' into sql-external-sort
35dad9f [Josh Rosen] Make sortAnswers = false the default in SparkPlanTest
5135200 [Josh Rosen] Fix spill reading for large rows; add test
2f48777 [Josh Rosen] Add test and fix bug for sorting empty arrays
d1e28bc [Josh Rosen] Merge remote-tracking branch 'origin/master' into sql-external-sort
cd05866 [Josh Rosen] Fix scalastyle
3947fc1 [Josh Rosen] Merge remote-tracking branch 'origin/master' into sql-external-sort
d13ac55 [Josh Rosen] Hacky approach to copying of UnsafeRows for sort followed by limit.
845bea3 [Josh Rosen] Remove unnecessary zeroing of row conversion buffer
c56ec18 [Josh Rosen] Clean up final row copying code.
d31f180 [Josh Rosen] Re-enable NullType sorting test now that SPARK-8868 is fixed
844f4ca [Josh Rosen] Merge remote-tracking branch 'origin/master' into sql-external-sort
293f109 [Josh Rosen] Add missing license header.
f99a612 [Josh Rosen] Fix bugs in string prefix comparison.
9d00afc [Josh Rosen] Clean up prefix comparators for integral types
88aff18 [Josh Rosen] NULL_PREFIX has to be negative infinity for floating point types
613e16f [Josh Rosen] Test with larger data.
1d7ffaa [Josh Rosen] Somewhat hacky fix for descending sorts
08701e7 [Josh Rosen] Fix prefix comparison of null primitives.
b86e684 [Josh Rosen] Set global = true in UnsafeExternalSortSuite.
1c7bad8 [Josh Rosen] Make sorting of answers explicit in SparkPlanTest.checkAnswer().
b81a920 [Josh Rosen] Temporarily enable only the passing sort tests
5d6109d [Josh Rosen] Fix inconsistent handling / encoding of record lengths.
87b6ed9 [Josh Rosen] Fix critical issues in test which led to false negatives.
8d7fbe7 [Josh Rosen] Fixes to multiple spilling-related bugs.
82e21c1 [Josh Rosen] Force spilling in UnsafeExternalSortSuite.
88b72db [Josh Rosen] Test ascending and descending sort orders.
f27be09 [Josh Rosen] Fix tests by binding attributes.
0a79d39 [Josh Rosen] Revert "Undo part of a SparkPlanTest change in #7162 that broke my test."
7c3c864 [Josh Rosen] Undo part of a SparkPlanTest change in #7162 that broke my test.
9969c14 [Josh Rosen] Merge remote-tracking branch 'origin/master' into sql-external-sort
5822e6f [Josh Rosen] Fix test compilation issue
939f824 [Josh Rosen] Remove code gen experiment.
0dfe919 [Josh Rosen] Implement prefix sort for strings (albeit inefficiently).
66a813e [Josh Rosen] Prefix comparators for float and double
b310c88 [Josh Rosen] Integrate prefix comparators for Int and Long (others coming soon)
95058d9 [Josh Rosen] Add missing SortPrefixUtils file
4c37ba6 [Josh Rosen] Add tests for sorting on all primitive types.
6890863 [Josh Rosen] Fix memory leak on empty inputs.
d246e29 [Josh Rosen] Fix consideration of column types when choosing sort implementation.
6b156fb [Josh Rosen] Some WIP work on prefix comparison.
7f875f9 [Josh Rosen] Commit failing test demonstrating bug in handling objects in spills
41b8881 [Josh Rosen] Get UnsafeInMemorySorterSuite to pass (WIP)
90c2b6a [Josh Rosen] Update test name
6d6a1e6 [Josh Rosen] Centralize logic for picking sort operator implementations
9869ec2 [Josh Rosen] Clean up Exchange code a bit
82bb0ec [Josh Rosen] Fix IntelliJ complaint due to negated if condition
1db845a [Josh Rosen] Many more changes to harmonize with shuffle sorter
ebf9eea [Josh Rosen] Harmonization with shuffle's unsafe sorter
206bfa2 [Josh Rosen] Add some missing newlines at the ends of files
26c8931 [Josh Rosen] Back out some Hive changes that aren't needed anymore
62f0bb8 [Josh Rosen] Update to reflect SparkPlanTest changes
21d7d93 [Josh Rosen] Back out of BlockObjectWriter change
7eafecf [Josh Rosen] Port test to SparkPlanTest
d468a88 [Josh Rosen] Update for InternalRow refactoring
269cf86 [Josh Rosen] Back out SMJ operator change; isolate changes to selection of sort op.
1b841ca [Josh Rosen] WIP towards copying
b420a71 [Josh Rosen] Move most of the existing SMJ code into Java.
dfdb93f [Josh Rosen] SparkFunSuite change
73cc761 [Josh Rosen] Fix whitespace
9cc98f5 [Josh Rosen] Move more code to Java; fix bugs in UnsafeRowConverter length type.
c8792de [Josh Rosen] Remove some debug logging
dda6752 [Josh Rosen] Commit some missing code from an old git stash.
58f36d0 [Josh Rosen] Merge in a sketch of a unit test for the new sorter (now failing).
2bd8c9a [Josh Rosen] Import my original tests and get them to pass.
d5d3106 [Josh Rosen] WIP towards external sorter for Spark SQL.
AFAIK, some spark application always use LocalBackend to do some local initiatives, spark sql is an example. Starting a LocalPoint won't add user classpath into executor.
```java
override def start() {
localEndpoint = SparkEnv.get.rpcEnv.setupEndpoint(
"LocalBackendEndpoint", new LocalEndpoint(SparkEnv.get.rpcEnv, scheduler, this, totalCores))
}
```
Thus will cause local executor fail with these scenarios, loading hadoop built-in native libraries, loading other user defined native libraries, loading user jars, reading s3 config from a site.xml file, etc
Author: Min Zhou <coderplay@gmail.com>
Closes#7091 from coderplay/master and squashes the following commits:
365838f [Min Zhou] Fixed java.net.MalformedURLException, add default scheme, support relative path
d215b7f [Min Zhou] Follows spark standard scala style, make the auto testing happy
84ad2cd [Min Zhou] Use system specific path separator instead of ','
01f5d1a [Min Zhou] Merge branch 'master' of https://github.com/apache/spark
e528be7 [Min Zhou] Merge branch 'master' of https://github.com/apache/spark
45bf62c [Min Zhou] SPARK-8675 Executors created by LocalBackend won't get the same classpath as other executor backends
Too many logs even when set the log level to warning.
Author: Cheng Hao <hao.cheng@intel.com>
Closes#7340 from chenghao-intel/log and squashes the following commits:
59658cf [Cheng Hao] change the log level to info
pwendell and I discussed this a little more offline and concluded that it would be good to keep it more conservative. Losing cached blocks may be very expensive and we should only allow it if the user knows what he/she is doing.
FYI harishreedharan sryza.
Author: Andrew Or <andrew@databricks.com>
Closes#7329 from andrewor14/da-cached-timeout and squashes the following commits:
cef0b4e [Andrew Or] Change timeout to infinity
Author: Jonathan Alter <jonalter@users.noreply.github.com>
Closes#7093 from jonalter/SPARK-7977 and squashes the following commits:
ccd44cc [Jonathan Alter] Changed println to log in ThreadingSuite
7fcac3e [Jonathan Alter] Reverting to println in ThreadingSuite
10724b6 [Jonathan Alter] Changing some printlns to logs in tests
eeec1e7 [Jonathan Alter] Merge branch 'master' of github.com:apache/spark into SPARK-7977
0b1dcb4 [Jonathan Alter] More println cleanup
aedaf80 [Jonathan Alter] Merge branch 'master' of github.com:apache/spark into SPARK-7977
925fd98 [Jonathan Alter] Merge branch 'master' of github.com:apache/spark into SPARK-7977
0c16fa3 [Jonathan Alter] Replacing some printlns with logs
45c7e05 [Jonathan Alter] Merge branch 'master' of github.com:apache/spark into SPARK-7977
5c8e283 [Jonathan Alter] Allowing println in audit-release examples
5b50da1 [Jonathan Alter] Allowing printlns in example files
ca4b477 [Jonathan Alter] Merge branch 'master' of github.com:apache/spark into SPARK-7977
83ab635 [Jonathan Alter] Fixing new printlns
54b131f [Jonathan Alter] Merge branch 'master' of github.com:apache/spark into SPARK-7977
1cd8a81 [Jonathan Alter] Removing some unnecessary comments and printlns
b837c3a [Jonathan Alter] Disallowing println
This is largely based on extracting the dynamic allocation parts from tnachen's #3861.
Author: Iulian Dragos <jaguarul@gmail.com>
Closes#4984 from dragos/issue/mesos-coarse-dynamicAllocation and squashes the following commits:
39df8cd [Iulian Dragos] Update tests to latest changes in core.
9d2c9fa [Iulian Dragos] Remove adjustment of executorLimitOption in doKillExecutors.
8b00f52 [Iulian Dragos] Latest round of reviews.
0cd00e0 [Iulian Dragos] Add persistent shuffle directory
15c45c1 [Iulian Dragos] Add dynamic allocation to the Spark coarse-grained scheduler.
(This reopens a patch that was closed in the past: #6248)
When you view the stage page while running the following:
```
sc.parallelize(1 to X, 10000).count()
```
The page never loads, the job is stalled, and you end up running into an OOM:
```
HTTP ERROR 500
Problem accessing /stages/stage/. Reason:
Server Error
Caused by:
java.lang.OutOfMemoryError: Java heap space
at java.util.Arrays.copyOf(Arrays.java:2367)
at java.lang.AbstractStringBuilder.expandCapacity(AbstractStringBuilder.java:130)
```
This patch compresses Jetty responses in gzip. The correct long-term fix is to add pagination.
Author: Andrew Or <andrew@databricks.com>
Closes#7296 from andrewor14/gzip-jetty and squashes the following commits:
a051c64 [Andrew Or] Use GZIP to compress Jetty responses
The configuration ```SPARK_EXECUTOR_CORES``` won't put into ```SparkConf```, so it has no effect to the dynamic executor allocation.
Author: xutingjun <xutingjun@huawei.com>
Closes#7322 from XuTingjun/SPARK_EXECUTOR_CORES and squashes the following commits:
2cafa89 [xutingjun] make SPARK_EXECUTOR_CORES has effect to dynamicAllocation
Currently, the mesos scheduler only looks at the 'cpu' and 'mem' resources when trying to determine the usablility of a resource offer from a mesos slave node. It may be preferable for the user to be able to ensure that the spark jobs are only started on a certain set of nodes (based on attributes).
For example, If the user sets a property, let's say `spark.mesos.constraints` is set to `tachyon=true;us-east-1=false`, then the resource offers will be checked to see if they meet both these constraints and only then will be accepted to start new executors.
Author: Ankur Chauhan <achauhan@brightcove.com>
Closes#5563 from ankurcha/mesos_attribs and squashes the following commits:
902535b [Ankur Chauhan] Fix line length
d83801c [Ankur Chauhan] Update code as per code review comments
8b73f2d [Ankur Chauhan] Fix imports
c3523e7 [Ankur Chauhan] Added docs
1a24d0b [Ankur Chauhan] Expand scope of attributes matching to include all data types
482fd71 [Ankur Chauhan] Update access modifier to private[this] for offer constraints
5ccc32d [Ankur Chauhan] Fix nit pick whitespace
1bce782 [Ankur Chauhan] Fix nit pick whitespace
c0cbc75 [Ankur Chauhan] Use offer id value for debug message
7fee0ea [Ankur Chauhan] Add debug statements
fc7eb5b [Ankur Chauhan] Fix import codestyle
00be252 [Ankur Chauhan] Style changes as per code review comments
662535f [Ankur Chauhan] Incorporate code review comments + use SparkFunSuite
fdc0937 [Ankur Chauhan] Decline offers that did not meet criteria
67b58a0 [Ankur Chauhan] Add documentation for spark.mesos.constraints
63f53f4 [Ankur Chauhan] Update codestyle - uniform style for config values
02031e4 [Ankur Chauhan] Fix scalastyle warnings in tests
c09ed84 [Ankur Chauhan] Fixed the access modifier on offerConstraints val to private[mesos]
0c64df6 [Ankur Chauhan] Rename overhead fractions to memory_*, fix spacing
8cc1e8f [Ankur Chauhan] Make exception message more explicit about the source of the error
addedba [Ankur Chauhan] Added test case for malformed constraint string
ec9d9a6 [Ankur Chauhan] Add tests for parse constraint string
72fe88a [Ankur Chauhan] Fix up tests + remove redundant method override, combine utility class into new mesos scheduler util trait
92b47fd [Ankur Chauhan] Add attributes based constraints support to MesosScheduler
Spark standalone master web UI show "Alive Workers" total core, total used cores and "Alive workers" total memory, memory used.
But the JSON API page "http://MASTERURL:8088/json" shows "ALL workers" core, memory number.
This webUI data is not sync with the JSON API.
The proper way is to sync the number with webUI and JSON API.
Author: Wisely Chen <wiselychen@appier.com>
Closes#7038 from thegiive/SPARK-8656 and squashes the following commits:
9e54bf0 [Wisely Chen] Change variable name to camel case
2c8ea89 [Wisely Chen] Change some styling and add local variable
431d2b0 [Wisely Chen] Worker List should contain DEAD node also
8b3b8e8 [Wisely Chen] [SPARK-8656] Fix the webUI and JSON API number is not synced
Latest changes after refactoring to the RPC layer. I rebased against trunk to make sure to get any recent changes since it had been a while. I wasn't crazy about the name `ConfigureTimeout` and `RpcTimeout` seemed to fit better, but I'm open to suggestions!
I ran most of the tests and they pass, but others would get stuck with "WARN TaskSchedulerImpl: Initial job has not accepted any resources". I think its just my machine, so I'd though I would push what I have anyway.
Still left to do:
* I only added a couple unit tests so far, there are probably some more cases to test
* Make sure all uses require a `RpcTimeout`
* Right now, both the `ask` and `Await.result` use the same timeout, should we differentiate between these in the TimeoutException message?
* I wrapped `Await.result` in `RpcTimeout`, should we also wrap `Await.ready`?
* Proper scoping of classes and methods
hardmettle, feel free to help out with any of these!
Author: Bryan Cutler <bjcutler@us.ibm.com>
Author: Harsh Gupta <harsh@Harshs-MacBook-Pro.local>
Author: BryanCutler <cutlerb@gmail.com>
Closes#6205 from BryanCutler/configTimeout-6980 and squashes the following commits:
46c8d48 [Bryan Cutler] [SPARK-6980] Changed RpcEnvSuite test to never reply instead of just sleeping, to avoid possible sync issues
06afa53 [Bryan Cutler] [SPARK-6980] RpcTimeout class extends Serializable, was causing error in MasterSuite
7bb70f1 [Bryan Cutler] Merge branch 'master' into configTimeout-6980
dbd5f73 [Bryan Cutler] [SPARK-6980] Changed RpcUtils askRpcTimeout and lookupRpcTimeout scope to private[spark] and improved deprecation warning msg
4e89c75 [Bryan Cutler] [SPARK-6980] Missed one usage of deprecated RpcUtils.askTimeout in YarnSchedulerBackend although it is not being used, and fixed SparkConfSuite UT to not use deprecated RpcUtils functions
6a1c50d [Bryan Cutler] [SPARK-6980] Minor cleanup of test case
7f4d78e [Bryan Cutler] [SPARK-6980] Fixed scala style checks
287059a [Bryan Cutler] [SPARK-6980] Removed extra import in AkkaRpcEnvSuite
3d8b1ff [Bryan Cutler] [SPARK-6980] Cleaned up imports in AkkaRpcEnvSuite
3a168c7 [Bryan Cutler] [SPARK-6980] Rewrote Akka RpcTimeout UTs in RpcEnvSuite
7636189 [Bryan Cutler] [SPARK-6980] Fixed call to askWithReply in DAGScheduler to use RpcTimeout - this was being compiled by auto-tupling and changing the message type of BlockManagerHeartbeat
be11c4e [Bryan Cutler] Merge branch 'master' into configTimeout-6980
039afed [Bryan Cutler] [SPARK-6980] Corrected import organization
218aa50 [Bryan Cutler] [SPARK-6980] Corrected issues from feedback
fadaf6f [Bryan Cutler] [SPARK-6980] Put back in deprecated RpcUtils askTimeout and lookupTimout to fix MiMa errors
fa6ed82 [Bryan Cutler] [SPARK-6980] Had to increase timeout on positive test case because a processor slowdown could trigger an Future TimeoutException
b05d449 [Bryan Cutler] [SPARK-6980] Changed constructor to use val duration instead of getter function, changed name of string property from conf to timeoutProp for consistency
c6cfd33 [Bryan Cutler] [SPARK-6980] Changed UT ask message timeout to explicitly intercept a SparkException
1394de6 [Bryan Cutler] [SPARK-6980] Moved MessagePrefix to createRpcTimeoutException directly
1517721 [Bryan Cutler] [SPARK-6980] RpcTimeout object scope should be private[spark]
2206b4d [Bryan Cutler] [SPARK-6980] Added unit test for ask then immediat awaitReply
1b9beab [Bryan Cutler] [SPARK-6980] Cleaned up import ordering
08f5afc [Bryan Cutler] [SPARK-6980] Added UT for constructing RpcTimeout with default value
d3754d1 [Bryan Cutler] [SPARK-6980] Added akkaConf to prevent dead letter logging
995d196 [Bryan Cutler] [SPARK-6980] Cleaned up import ordering, comments, spacing from PR feedback
7774d56 [Bryan Cutler] [SPARK-6980] Cleaned up UT imports
4351c48 [Bryan Cutler] [SPARK-6980] Added UT for addMessageIfTimeout, cleaned up UTs
1607a5f [Bryan Cutler] [SPARK-6980] Changed addMessageIfTimeout to PartialFunction, cleanup from PR comments
2f94095 [Bryan Cutler] [SPARK-6980] Added addMessageIfTimeout for when a Future is completed with TimeoutException
235919b [Bryan Cutler] [SPARK-6980] Resolved conflicts after master merge
c07d05c [Bryan Cutler] Merge branch 'master' into configTimeout-6980-tmp
b7fb99f [BryanCutler] Merge pull request #2 from hardmettle/configTimeoutUpdates_6980
4be3a8d [Harsh Gupta] Modifying loop condition to find property match
0ee5642 [Harsh Gupta] Changing the loop condition to halt at the first match in the property list for RpcEnv exception catch
f74064d [Harsh Gupta] Retrieving properties from property list using iterator and while loop instead of chained functions
a294569 [Bryan Cutler] [SPARK-6980] Added creation of RpcTimeout with Seq of property keys
23d2f26 [Bryan Cutler] [SPARK-6980] Fixed await result not being handled by RpcTimeout
49f9f04 [Bryan Cutler] [SPARK-6980] Minor cleanup and scala style fix
5b59a44 [Bryan Cutler] [SPARK-6980] Added some RpcTimeout unit tests
78a2c0a [Bryan Cutler] [SPARK-6980] Using RpcTimeout.awaitResult for future in AppClient now
97523e0 [Bryan Cutler] [SPARK-6980] Akka ask timeout description refactored to RPC layer
The existing test suite has a lot of duplicate code and doesn't even cover the most fundamental feature of the HeartbeatReceiver, which is expiring hosts that have not responded in a while.
This introduces manual clocks in `HeartbeatReceiver` and makes it respond to heartbeats only for registered executors. A few internal messages are moved to `receiveAndReply` to increase determinism of the tests so we don't have to rely on flaky constructs like `eventually`.
Author: Andrew Or <andrew@databricks.com>
Closes#7173 from andrewor14/heartbeat-receiver-tests and squashes the following commits:
4a903d6 [Andrew Or] Increase HeartReceiverSuite coverage and clean up
This patch rewrites the old checkpointing code in a way that is easier to understand. It also adds a guard against an invalid specification of checkpoint directory to provide a clearer error message. Most of the changes here are relatively minor.
Author: Andrew Or <andrew@databricks.com>
Closes#6968 from andrewor14/checkpoint-cleanup and squashes the following commits:
4ef8263 [Andrew Or] Use global synchronized instead
6f6fd84 [Andrew Or] Merge branch 'master' of github.com:apache/spark into checkpoint-cleanup
b1437ad [Andrew Or] Warn instead of throw
5484293 [Andrew Or] Merge branch 'master' of github.com:apache/spark into checkpoint-cleanup
7fb4af5 [Andrew Or] Guard against bad settings of checkpoint directory
691da98 [Andrew Or] Simplify checkpoint code / code style / comments
I've updated default values in comments, documentation, and in the command line builder to be 1g based on comments in the JIRA. I've also updated most usages to point at a single variable defined in the Utils.scala and JavaUtils.java files. This wasn't possible in all cases (R, shell scripts etc.) but usage in most code is now pointing at the same place.
Please let me know if I've missed anything.
Will the spark-shell use the value within the command line builder during instantiation?
Author: Ilya Ganelin <ilya.ganelin@capitalone.com>
Closes#7132 from ilganeli/SPARK-3071 and squashes the following commits:
4074164 [Ilya Ganelin] String fix
271610b [Ilya Ganelin] Merge branch 'SPARK-3071' of github.com:ilganeli/spark into SPARK-3071
273b6e9 [Ilya Ganelin] Test fix
fd67721 [Ilya Ganelin] Update JavaUtils.java
26cc177 [Ilya Ganelin] test fix
e5db35d [Ilya Ganelin] Fixed test failure
39732a1 [Ilya Ganelin] merge fix
a6f7deb [Ilya Ganelin] Created default value for DRIVER MEM in Utils that's now used in almost all locations instead of setting manually in each
09ad698 [Ilya Ganelin] Update SubmitRestProtocolSuite.scala
19b6f25 [Ilya Ganelin] Missed one doc update
2698a3d [Ilya Ganelin] Updated default value for driver memory
Author: Holden Karau <holden@pigscanfly.ca>
Closes#7171 from holdenk/SPARK-8769-toLocalIterator-documentation-improvement and squashes the following commits:
97ddd99 [Holden Karau] Add note
Author: Holden Karau <holden@pigscanfly.ca>
Closes#7172 from holdenk/SPARK-8771-actor-system-deprecation-tag-uses-deprecated-deprecation-tag and squashes the following commits:
7f1455b [Holden Karau] Add .0s to the versions for the derpecated anotations in SparkEnv.scala
ca13c9d [Holden Karau] Add a version to the deprecated annotation for the actorSystem in SparkEnv
If `fs.hdfs.impl.disable.cache` was `false`(default), `FileSystem` will use the cached `DFSClient` which use old token.
[AMDelegationTokenRenewer](https://github.com/apache/spark/blob/master/yarn/src/main/scala/org/apache/spark/deploy/yarn/AMDelegationTokenRenewer.scala#L196)
```scala
val credentials = UserGroupInformation.getCurrentUser.getCredentials
credentials.writeTokenStorageFile(tempTokenPath, discachedConfiguration)
```
Although the `credentials` had the new Token, but it still use the cached client and old token.
So It's better to set the `fs.hdfs.impl.disable.cache` as `true` to avoid token expired.
[Jira](https://issues.apache.org/jira/browse/SPARK-8688)
Author: huangzhaowei <carlmartinmax@gmail.com>
Closes#7069 from SaintBacchus/SPARK-8688 and squashes the following commits:
f94cd0b [huangzhaowei] modify function parameter
8fb9eb9 [huangzhaowei] explicit the comment
0cd55c9 [huangzhaowei] Rename function name to be an accurate one
cf776a1 [huangzhaowei] [SPARK-8688][YARN]Bug fix: disable the cache fs to gain the HDFS connection.
Otherwise other tests don't log anything useful...
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#7140 from vanzin/SPARK-3444 and squashes the following commits:
de14836 [Marcelo Vanzin] Better fix.
6cff13a [Marcelo Vanzin] [SPARK-3444] [core] Restore INFO level after log4j test.
This PR updates the rest Actors in core to RpcEndpoint.
Because there is no `ActorSelection` in RpcEnv, I changes the logic of `registerWithMaster` in Worker and AppClient to avoid blocking the message loop. These changes need to be reviewed carefully.
Author: zsxwing <zsxwing@gmail.com>
Closes#5392 from zsxwing/rpc-rewrite-part3 and squashes the following commits:
2de7bed [zsxwing] Merge branch 'master' into rpc-rewrite-part3
f12d943 [zsxwing] Address comments
9137b82 [zsxwing] Fix the code style
e734c71 [zsxwing] Merge branch 'master' into rpc-rewrite-part3
2d24fb5 [zsxwing] Fix the code style
5a82374 [zsxwing] Merge branch 'master' into rpc-rewrite-part3
fa47110 [zsxwing] Merge branch 'master' into rpc-rewrite-part3
72304f0 [zsxwing] Update the error strategy for AkkaRpcEnv
e56cb16 [zsxwing] Always send failure back to the sender
a7b86e6 [zsxwing] Use JFuture for java.util.concurrent.Future
aa34b9b [zsxwing] Fix the code style
bd541e7 [zsxwing] Merge branch 'master' into rpc-rewrite-part3
25a84d8 [zsxwing] Use ThreadUtils
060ff31 [zsxwing] Merge branch 'master' into rpc-rewrite-part3
dbfc916 [zsxwing] Improve the docs and comments
837927e [zsxwing] Merge branch 'master' into rpc-rewrite-part3
5c27f97 [zsxwing] Merge branch 'master' into rpc-rewrite-part3
fadbb9e [zsxwing] Fix the code style
6637e3c [zsxwing] Merge remote-tracking branch 'origin/master' into rpc-rewrite-part3
7fdee0e [zsxwing] Fix the return type to ExecutorService and ScheduledExecutorService
e8ad0a5 [zsxwing] Fix the code style
6b2a104 [zsxwing] Log error and use SparkExitCode.UNCAUGHT_EXCEPTION exit code
fbf3194 [zsxwing] Add Utils.newDaemonSingleThreadExecutor and newDaemonSingleThreadScheduledExecutor
b776817 [zsxwing] Update Master, Worker, Client, AppClient and related classes to use RpcEndpoint
This issue was reported by saurfang. Thanks!
There is a following code in StagePage.scala.
```
|width="$serializationTimeProportion%"></rect>
|<rect class="getting-result-time-proportion"
|x="$gettingResultTimeProportionPos%" y="0px" height="26px"
|width="$gettingResultTimeProportion%"></rect></svg>',
|'start': new Date($launchTime),
|'end': new Date($finishTime)
|}
|""".stripMargin.replaceAll("\n", " ")
```
The last `replaceAll("\n", "")` doesn't work when we checkout and build source code on Windows and deploy on Linux.
It's because when we checkout the source code on Windows, new-line-code is replaced with `"\r\n"` and `replaceAll("\n", "")` replaces only `"\n"`.
Author: Kousuke Saruta <sarutak@oss.nttdata.co.jp>
Closes#7133 from sarutak/SPARK-8739 and squashes the following commits:
17fb044 [Kousuke Saruta] Fixed a new-line-code issue
Because `System.currentTimeMillis()` is not accurate for tasks that only need several milliseconds, sometimes `totalExecutionTime` in `makeTimeline` will be 0. If `totalExecutionTime` is 0, there will the following error in the console.
This PR fixes it by using an empty svg tag when `totalExecutionTime` is 0. This is a screenshot for a task that its totalExecutionTime is 0 after fixing it.
Author: zsxwing <zsxwing@gmail.com>
Closes#7088 from zsxwing/SPARK-8705 and squashes the following commits:
9ee4ef5 [zsxwing] Address comments
ef2ecfa [zsxwing] Don't display rects when totalExecutionTime is 0
Showing these applications may lead to weird behavior in the History Server. For old logs, if
the app ID is recorded later, you may end up with a duplicate entry. For new logs, the app might
be listed with a ".inprogress" suffix.
So ignore those, but still allow old applications that don't record app IDs at all (1.0 and 1.1) to be shown.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Author: Carson Wang <carson.wang@intel.com>
Closes#7097 from vanzin/SPARK-8372 and squashes the following commits:
a24eab2 [Marcelo Vanzin] Feedback.
112ae8f [Marcelo Vanzin] Merge branch 'master' into SPARK-8372
7b91b74 [Marcelo Vanzin] Handle logs generated by 1.0 and 1.1.
1eca3fe [Carson Wang] [SPARK-8372] History server shows incorrect information for application not started
when the ```taskEnd.reason``` is ```Resubmitted```, it shouldn't do statistics. Because this tasks has a ```SUCCESS``` taskEnd before.
Author: xutingjun <xutingjun@huawei.com>
Closes#6950 from XuTingjun/pageError and squashes the following commits:
af35dc3 [xutingjun] When taskEnd is Resubmitted, don't do statistics
Note that 'dir/*' can be more efficient in some Hadoop FS implementations that 'dir/' (now fixed scaladoc by using HTML entity for *)
Author: Sean Owen <sowen@cloudera.com>
Closes#7126 from srowen/SPARK-8437.2 and squashes the following commits:
7bb45da [Sean Owen] Note that 'dir/*' can be more efficient in some Hadoop FS implementations that 'dir/' (now fixed scaladoc by using HTML entity for *)
Look detail of this issue at [SPARK-8592](https://issues.apache.org/jira/browse/SPARK-8592)
**CoarseGrainedExecutorBackend** should exit when **RegisterExecutor** failed
Author: xuchenCN <chenxu198511@gmail.com>
Closes#7110 from xuchenCN/SPARK-8592 and squashes the following commits:
71e0077 [xuchenCN] [SPARK-8592] [CORE] CoarseGrainedExecutorBackend: Cannot register with driver => NPE
Subset the enabled algorithms in an SSLOptions to the elements that are supported by the protocol provider.
Update the list of ciphers in the sample config to include modern algorithms, and specify both Oracle and IBM names. In practice the user would either specify their own chosen cipher suites, or specify none, and delegate the decision to the provider.
Author: Tim Ellison <t.p.ellison@gmail.com>
Closes#7043 from tellison/SSLEnhancements and squashes the following commits:
034efa5 [Tim Ellison] Ensure Java imports are grouped and ordered by package.
3797f8b [Tim Ellison] Remove unnecessary use of Option to improve clarity, and fix import style ordering.
4b5c89f [Tim Ellison] More robust SSL options processing.
This is a simple change to add a new environment variable
"spark.sparkr.r.command" that specifies the command that SparkR will
use when creating an R engine process. If this is not specified,
"Rscript" will be used by default.
I did not add any documentation, since I couldn't find any place where
environment variables (such as "spark.sparkr.use.daemon") are
documented.
I also did not add a unit test. The only test that would work
generally would be one starting SparkR with
sparkR.init(sparkEnvir=list(spark.sparkr.r.command="Rscript")), just
using the default value. I think that this is a low-risk change.
Likely committers: shivaram
Author: Michael Sannella x268 <msannell@tibco.com>
Closes#6557 from msannell/altR and squashes the following commits:
7eac142 [Michael Sannella x268] add spark.sparkr.r.command config parameter
This PR also includes re-ordering the order that repositories are used when resolving packages. User provided repositories will be prioritized.
cc andrewor14
Author: Burak Yavuz <brkyvz@gmail.com>
Closes#7089 from brkyvz/delete-prev-ivy-resolution and squashes the following commits:
a21f95a [Burak Yavuz] remove previous ivy resolution when using spark-submit
Note that 'dir/*' can be more efficient in some Hadoop FS implementations that 'dir/'
Author: Sean Owen <sowen@cloudera.com>
Closes#7036 from srowen/SPARK-8437 and squashes the following commits:
0e813ae [Sean Owen] Note that 'dir/*' can be more efficient in some Hadoop FS implementations that 'dir/'
Hopefully, this suite will not be flaky anymore.
Author: Yin Huai <yhuai@databricks.com>
Closes#7027 from yhuai/SPARK-8567 and squashes the following commits:
c0167e2 [Yin Huai] Add sc.stop().
This patch excludes `hadoop-client`'s dependency on `mockito-all`. As of #7061, Spark depends on `mockito-core` instead of `mockito-all`, so the dependency from Hadoop was leading to test compilation failures for some of the Hadoop 2 SBT builds.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7090 from JoshRosen/SPARK-8709 and squashes the following commits:
e190122 [Josh Rosen] [SPARK-8709] Exclude hadoop-client's mockito-all dependency.
This is a follow up of #6404, the ScriptTransformation prints the error msg into stderr directly, probably be a disaster for application log.
Author: Cheng Hao <hao.cheng@intel.com>
Closes#6882 from chenghao-intel/verbose and squashes the following commits:
bfedd77 [Cheng Hao] revert the write
76ff46b [Cheng Hao] update the CircularBuffer
692b19e [Cheng Hao] check the process exitValue for ScriptTransform
47e0970 [Cheng Hao] Use the RedirectThread instead
1de771d [Cheng Hao] naming the threads in ScriptTransformation
8536e81 [Cheng Hao] disable the error message redirection for stderr
Use case - we want to log applicationId (YARN in hour case) to request help with troubleshooting from the DevOps
Author: Vladimir Vladimirov <vladimir.vladimirov@magnetic.com>
Closes#6936 from smartkiwi/master and squashes the following commits:
870338b [Vladimir Vladimirov] this would make doctest to run in python3
0eae619 [Vladimir Vladimirov] Scala doesn't use u'...' for unicode literals
14d77a8 [Vladimir Vladimirov] stop using ELLIPSIS
b4ebfc5 [Vladimir Vladimirov] addressed PR feedback - updated docstring
223a32f [Vladimir Vladimirov] fixed test - applicationId is property that returns the string
3221f5a [Vladimir Vladimirov] [SPARK-8528] added documentation for Scala
2cff090 [Vladimir Vladimirov] [SPARK-8528] add applicationId property for SparkContext object in pyspark
When there are massive tasks, such as `sc.parallelize(1 to 100000, 10000).count()`, the generated JS codes have a lot of string concatenations in the stage page, nearly 40 string concatenations for one task.
We can generate the whole string for a task instead of execution string concatenations in the browser.
Before this patch, the load time of the page is about 21 seconds.
After this patch, it reduces to about 17 seconds.
One disadvantage is that the generated JS codes become hard to read.
Author: zsxwing <zsxwing@gmail.com>
Closes#7082 from zsxwing/js-string and squashes the following commits:
b29231d [zsxwing] Avoid massive concating strings in Javascript
Spark's tests currently depend on `mockito-all`, which bundles Hamcrest and Objenesis classes. Instead, it should depend on `mockito-core`, which declares those libraries as Maven dependencies. This is necessary in order to fix a dependency conflict that leads to a NoSuchMethodError when using certain Hamcrest matchers.
See https://github.com/mockito/mockito/wiki/Declaring-mockito-dependency for more details.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7061 from JoshRosen/mockito-core-instead-of-all and squashes the following commits:
70eccbe [Josh Rosen] Depend on mockito-core instead of mockito-all.
If `RDD.getPreferredLocations()` throws an exception it may crash the DAGScheduler and SparkContext. This patch addresses this by adding a try-catch block.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7023 from JoshRosen/SPARK-8606 and squashes the following commits:
770b169 [Josh Rosen] Fix getPreferredLocations() DAGScheduler crash with try block.
44a9b55 [Josh Rosen] Add test of a buggy getPartitions() method
19aa9f7 [Josh Rosen] Add (failing) regression test for getPreferredLocations() DAGScheduler crash
Author: Sandy Ryza <sandy@cloudera.com>
Closes#7050 from sryza/sandy-spark-8623 and squashes the following commits:
58a8079 [Sandy Ryza] SPARK-8623. Hadoop RDDs fail to properly serialize configuration
Add `getStaticClass` method in SparkR's `RBackendHandler`
This is a fix for the problem referenced in [SPARK-5185](https://issues.apache.org/jira/browse/SPARK-5185).
cc shivaram
Author: cafreeman <cfreeman@alteryx.com>
Closes#7001 from cafreeman/branch-1.4 and squashes the following commits:
8f81194 [cafreeman] Add missing license
31aedcf [cafreeman] Refactor test to call an external R script
2c22073 [cafreeman] Merge branch 'branch-1.4' of github.com:apache/spark into branch-1.4
0bea809 [cafreeman] Fixed relative path issue and added smaller JAR
ee25e60 [cafreeman] Merge branch 'branch-1.4' of github.com:apache/spark into branch-1.4
9a5c362 [cafreeman] test for including JAR when launching sparkContext
9101223 [cafreeman] Merge branch 'branch-1.4' of github.com:apache/spark into branch-1.4
5a80844 [cafreeman] Fix style nits
7c6bd0c [cafreeman] [SPARK-8607] SparkR
(cherry picked from commit 2579948bf5)
Signed-off-by: Shivaram Venkataraman <shivaram@cs.berkeley.edu>
This commit adds a new metric, `messageProcessingTime`, to the DAGScheduler metrics source. This metrics tracks the time taken to process messages in the scheduler's event processing loop, which is a helpful debugging aid for diagnosing performance issues in the scheduler (such as SPARK-4961).
In order to do this, I moved the creation of the DAGSchedulerSource metrics source into DAGScheduler itself, similar to how MasterSource is created and registered in Master.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#7002 from JoshRosen/SPARK-8344 and squashes the following commits:
57f914b [Josh Rosen] Fix import ordering
7d6bb83 [Josh Rosen] Add message processing time metrics to DAGScheduler
Fix for incorrect memory in Spark UI as per SPARK-5768
Author: Joshi <rekhajoshm@gmail.com>
Author: Rekha Joshi <rekhajoshm@gmail.com>
Closes#6972 from rekhajoshm/SPARK-5768 and squashes the following commits:
b678a91 [Joshi] Fix for incorrect memory in Spark UI
2fe53d9 [Joshi] Fix for incorrect memory in Spark UI
eb823b8 [Joshi] SPARK-5768: Fix for incorrect memory in Spark UI
0be142d [Rekha Joshi] Merge pull request #3 from apache/master
106fd8e [Rekha Joshi] Merge pull request #2 from apache/master
e3677c9 [Rekha Joshi] Merge pull request #1 from apache/master
This commit updates the shuffle read path to enable ShuffleReader implementations more control over the deserialization process.
The BlockStoreShuffleFetcher.fetch() method has been renamed to BlockStoreShuffleFetcher.fetchBlockStreams(). Previously, this method returned a record iterator; now, it returns an iterator of (BlockId, InputStream). Deserialization of records is now handled in the ShuffleReader.read() method.
This change creates a cleaner separation of concerns and allows implementations of ShuffleReader more flexibility in how records are retrieved.
Author: Matt Massie <massie@cs.berkeley.edu>
Author: Kay Ousterhout <kayousterhout@gmail.com>
Closes#6423 from massie/shuffle-api-cleanup and squashes the following commits:
8b0632c [Matt Massie] Minor Scala style fixes
d0a1b39 [Matt Massie] Merge pull request #1 from kayousterhout/massie_shuffle-api-cleanup
290f1eb [Kay Ousterhout] Added test for HashShuffleReader.read()
5186da0 [Kay Ousterhout] Revert "Add test to ensure HashShuffleReader is freeing resources"
f98a1b9 [Matt Massie] Add test to ensure HashShuffleReader is freeing resources
a011bfa [Matt Massie] Use PrivateMethodTester on check that delegate stream is closed
4ea1712 [Matt Massie] Small code cleanup for readability
7429a98 [Matt Massie] Update tests to check that BufferReleasingStream is closing delegate InputStream
f458489 [Matt Massie] Remove unnecessary map() on return Iterator
4abb855 [Matt Massie] Consolidate metric code. Make it clear why InterrubtibleIterator is needed.
5c30405 [Matt Massie] Return visibility of BlockStoreShuffleFetcher to private[hash]
7eedd1d [Matt Massie] Small Scala import cleanup
28f8085 [Matt Massie] Small import nit
f93841e [Matt Massie] Update shuffle read metrics in ShuffleReader instead of BlockStoreShuffleFetcher.
7e8e0fe [Matt Massie] Minor Scala style fixes
01e8721 [Matt Massie] Explicitly cast iterator in branches for type clarity
7c8f73e [Matt Massie] Close Block InputStream immediately after all records are read
208b7a5 [Matt Massie] Small code style changes
b70c945 [Matt Massie] Make BlockStoreShuffleFetcher visible to shuffle package
19135f2 [Matt Massie] [SPARK-7884] Allow Spark shuffle APIs to be more customizable
Author: Holden Karau <holden@pigscanfly.ca>
Closes#6918 from holdenk/SPARK-8498-fix-npe-in-errorhandling-path-in-unsafeshuffle-writer and squashes the following commits:
f807832 [Holden Karau] Log error if we can't throw it
855f9aa [Holden Karau] Spelling - not my strongest suite. Fix Propegates to Propagates.
039d620 [Holden Karau] Add missing closeandwriteoutput
30e558d [Holden Karau] go back to try/finally
e503b8c [Holden Karau] Improve the test to ensure we aren't masking the underlying exception
ae0b7a7 [Holden Karau] Fix the test
2e6abf7 [Holden Karau] Be more cautious when cleaning up during failed write and re-throw user exceptions
This patch also reenables the tests. Now that we have access to the log4j logs it should be easier to debug the flakiness.
yhuai brkyvz
Author: Andrew Or <andrew@databricks.com>
Closes#6886 from andrewor14/spark-submit-suite-fix and squashes the following commits:
3f99ff1 [Andrew Or] Move destroy to finally block
9a62188 [Andrew Or] Re-enable ignored tests
2382672 [Andrew Or] Check for exit code
This PR solves three SerializationDebugger issues.
* SPARK-7180 - SerializationDebugger fails with ArrayOutOfBoundsException
* SPARK-8090 - SerializationDebugger does not handle classes with writeReplace correctly
* SPARK-8091 - SerializationDebugger does not handle classes with writeObject method
The solutions for each are explained as follows
* SPARK-7180 - The wrong slot desc was used for getting the value of the fields in the object being tested.
* SPARK-8090 - Test the type of the replaced object.
* SPARK-8091 - Use a dummy ObjectOutputStream to collect all the objects written by the writeObject() method, and then test those objects as usual.
I also added more tests in the testsuite to increase code coverage. For example, added tests for cases where there are not serializability issues.
Author: Tathagata Das <tathagata.das1565@gmail.com>
Closes#6625 from tdas/SPARK-7180 and squashes the following commits:
c7cb046 [Tathagata Das] Addressed comments on docs
ae212c8 [Tathagata Das] Improved docs
304c97b [Tathagata Das] Fixed build error
26b5179 [Tathagata Das] more tests.....92% line coverage
7e2fdcf [Tathagata Das] Added more tests
d1967fb [Tathagata Das] Added comments.
da75d34 [Tathagata Das] Removed unnecessary lines.
50a608d [Tathagata Das] Fixed bugs and added support for writeObject
This is a follow-up of [SPARK-3288](https://issues.apache.org/jira/browse/SPARK-3288).
Author: Takuya UESHIN <ueshin@happy-camper.st>
Closes#6896 from ueshin/issues/SPARK-8476 and squashes the following commits:
89251d8 [Takuya UESHIN] Make inc/decDiskBytesSpilled in TaskMetrics private[spark].
This is a follow up PR for #6456 to make AppendOnlyMap consistent with OpenHashSet.
/cc srowen andrewor14
Author: zsxwing <zsxwing@gmail.com>
Closes#6879 from zsxwing/append-only-map and squashes the following commits:
912c0ad [zsxwing] Fix the doc
dd4385b [zsxwing] Make AppendOnlyMap use the same growth strategy of OpenHashSet and consistent exception message
Author: Sandy Ryza <sandy@cloudera.com>
Closes#6679 from sryza/sandy-spark-8135 and squashes the following commits:
c5554ff [Sandy Ryza] SPARK-8135. In SerializableWritable, don't load defaults when instantiating Configuration
Dependencies of artifacts in the local ivy cache were not being resolved properly. The dependencies were not being picked up. Now they should be.
cc andrewor14
Author: Burak Yavuz <brkyvz@gmail.com>
Closes#6788 from brkyvz/local-ivy-fix and squashes the following commits:
2875bf4 [Burak Yavuz] fix temp dir bug
48cc648 [Burak Yavuz] improve deletion
a69e3e6 [Burak Yavuz] delete cache before test as well
0037197 [Burak Yavuz] fix merge conflicts
f60772c [Burak Yavuz] use different folder for m2 cache during testing
b6ef038 [Burak Yavuz] [SPARK-8095] Resolve dependencies of Spark Packages in local ivy cache
```def getAllNodes: Seq[RDDOperationNode] =
{ _childNodes ++ _childClusters.flatMap(_.childNodes) }```
when the ```_childClusters``` has so many nodes, the process will hang on. I think we can improve the efficiency here.
Author: xutingjun <xutingjun@huawei.com>
Closes#6839 from XuTingjun/DAGImprove and squashes the following commits:
53b03ea [xutingjun] change code to more concise and easier to read
f98728b [xutingjun] fix words: node -> nodes
f87c663 [xutingjun] put the filter inside
81f9fd2 [xutingjun] put the filter inside
This is a follow-up PR to remove unused `PythonRDD.emptyRDD` added by #6826
Author: zsxwing <zsxwing@gmail.com>
Closes#6867 from zsxwing/remove-PythonRDD-emptyRDD and squashes the following commits:
b66d363 [zsxwing] Remove PythonRDD.emptyRDD
The previous growing strategy is alway doubling the capacity.
This PR adjusts the growing strategy: doubling the capacity but if overflow, use the maximum capacity as the new capacity. It increases the maximum capacity of PartitionedPairBuffer from `2 ^ 29` to `2 ^ 30 - 1`, the maximum capacity of PartitionedSerializedPairBuffer from `2 ^ 28` to `(2 ^ 29) - 1`, and the maximum capacity of AppendOnlyMap from `0.7 * (2 ^ 29)` to `(2 ^ 29)`.
Author: zsxwing <zsxwing@gmail.com>
Closes#6456 from zsxwing/SPARK-7913 and squashes the following commits:
abcb932 [zsxwing] Address comments
e30b61b [zsxwing] Increase the maximum capacity of AppendOnlyMap
05b6420 [zsxwing] Update the exception message
64fe227 [zsxwing] Increase the maximum capacity of PartitionedPairBuffer and PartitionedSerializedPairBuffer
This PR fixes the sum issue and also adds `emptyRDD` so that it's easy to create a test case.
Author: zsxwing <zsxwing@gmail.com>
Closes#6826 from zsxwing/python-emptyRDD and squashes the following commits:
b36993f [zsxwing] Update the return type to JavaRDD[T]
71df047 [zsxwing] Add emptyRDD to pyspark and fix the issue when calling sum on an empty RDD
The history server may show an incorrect App ID for an incomplete application like <App ID>.inprogress. This app info will never disappear even after the app is completed.
The cause of the issue is that a log path name is used as the app id when app id cannot be got during replay.
Author: Carson Wang <carson.wang@intel.com>
Closes#6827 from carsonwang/SPARK-8372 and squashes the following commits:
cdbb089 [Carson Wang] Fix code style
3e46b35 [Carson Wang] Update code style
90f5dde [Carson Wang] Add a unit test
d8c9cd0 [Carson Wang] Replaying events only return information when app is started
externalBlockStoreInitialized is never set to be true, which causes the blocks stored in ExternalBlockStore can not be removed.
Author: Mingfei <mingfei.shi@intel.com>
Closes#6702 from shimingfei/SetTrue and squashes the following commits:
add61d8 [Mingfei] Set externalBlockStoreInitialized to be true, after ExternalBlockStore is initialized
The problem occurs because the position mask `0xEFFFFFF` is incorrect. It has zero 25th bit, so when capacity grows beyond 2^24, `OpenHashMap` calculates incorrect index of value in `_values` array.
I've also added a size check in `rehash()`, so that it fails instead of reporting invalid item indices.
Author: Vyacheslav Baranov <slavik.baranov@gmail.com>
Closes#6763 from SlavikBaranov/SPARK-8309 and squashes the following commits:
8557445 [Vyacheslav Baranov] Resolved review comments
4d5b954 [Vyacheslav Baranov] Resolved review comments
eaf1e68 [Vyacheslav Baranov] Fixed failing test
f9284fd [Vyacheslav Baranov] Resolved review comments
3920656 [Vyacheslav Baranov] SPARK-8309: Support for more than 12M items in OpenHashMap
Env variables are not visible to non-Spark users, based on suggestion from vanzin.
Author: Kan Zhang <kzhang@apache.org>
Closes#6774 from kanzhang/env and squashes the following commits:
5dd84c6 [Kan Zhang] remove auth secret conf from initial set up for executors
90cb7d2 [Kan Zhang] always filter out auth secret
af4d89d [Kan Zhang] minor refactering
e88993e [Kan Zhang] pass auth secret to executors via env variable
This change has two parts.
The first one gets rid of "ReflectionMagic". That worked well for the differences between 0.12 and
0.13, but breaks in 0.14, since some of the APIs that need to be used have primitive types. I could
not figure out a way to make that class work with primitive types. So instead I wrote some shims
(I can already hear the collective sigh) that find the appropriate methods via reflection. This should
be faster since the method instances are cached, and the code is not much uglier than before,
with the advantage that all the ugliness is local to one file (instead of multiple switch statements on
the version being used scattered in ClientWrapper).
The second part is simple: add code to handle Hive 0.14. A few new methods had to be added
to the new shims.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#6627 from vanzin/SPARK-8065 and squashes the following commits:
3fa4270 [Marcelo Vanzin] Indentation style.
4b8a3d4 [Marcelo Vanzin] Fix dep exclusion.
be3d0cc [Marcelo Vanzin] Merge branch 'master' into SPARK-8065
ca3fb1e [Marcelo Vanzin] Merge branch 'master' into SPARK-8065
b43f13e [Marcelo Vanzin] Since exclusions seem to work, clean up some of the code.
73bd161 [Marcelo Vanzin] Botched merge.
d2ddf01 [Marcelo Vanzin] Comment about excluded dep.
0c929d1 [Marcelo Vanzin] Merge branch 'master' into SPARK-8065
2c3c02e [Marcelo Vanzin] Try to fix tests by adding support for exclusions.
0a03470 [Marcelo Vanzin] Try to fix tests by upgrading calcite dependency.
13b2dfa [Marcelo Vanzin] Fix NPE.
6439d88 [Marcelo Vanzin] Minor style thing.
69b017b [Marcelo Vanzin] Style.
a21cad8 [Marcelo Vanzin] Part II: Add shims / version for Hive 0.14.
ae98c87 [Marcelo Vanzin] PART I: Get rid of reflection magic.
This patch updates two pieces of logic that are related to handling of keyOrderings in ShuffleDependencies:
- The Tungsten ShuffleManager falls back to regular SortShuffleManager whenever the shuffle dependency specifies a key ordering, but technically we only need to fall back when an aggregator is also specified. This patch updates the fallback logic to reflect this so that the Tungsten optimizations can apply to more workloads.
- The SQL Exchange operator performs defensive copying of shuffle inputs when a key ordering is specified, but this is unnecessary. The copying was added to guard against cases where ExternalSorter would buffer non-serialized records in memory. When ExternalSorter is configured without an aggregator, it uses the following logic to determine whether to buffer records in a serialized or deserialized format:
```scala
private val useSerializedPairBuffer =
ordering.isEmpty &&
conf.getBoolean("spark.shuffle.sort.serializeMapOutputs", true) &&
ser.supportsRelocationOfSerializedObjects
```
The `newOrdering.isDefined` branch in `ExternalSorter.needToCopyObjectsBeforeShuffle`, removed by this patch, is not necessary:
- It was checked even if we weren't using sort-based shuffle, but this was unnecessary because only SortShuffleManager performs map-side sorting.
- Map-side sorting during shuffle writing is only performed for shuffles that perform map-side aggregation as part of the shuffle (to see this, look at how SortShuffleWriter constructs ExternalSorter). Since SQL never pushes aggregation into Spark's shuffle, we can guarantee that both the aggregator and ordering will be empty and Spark SQL always uses serializers that support relocation, so sort-shuffle will use the serialized pair buffer unless the user has explicitly disabled it via the SparkConf feature-flag. Therefore, I think my optimization in Exchange should be safe.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#6773 from JoshRosen/SPARK-8319 and squashes the following commits:
7a14129 [Josh Rosen] Revise comments; add handler to guard against future ShuffleManager implementations
07bb2c9 [Josh Rosen] Update comment to clarify circumstances under which shuffle operates on serialized records
269089a [Josh Rosen] Avoid unnecessary copy in SQL Exchange
34e526e [Josh Rosen] Enable Tungsten shuffle for non-agg shuffles w/ key orderings
Safeguard against DOM rewriting.
Author: Andrew Or <andrew@databricks.com>
Closes#6787 from andrewor14/dag-viz-trim and squashes the following commits:
0fb4afe [Andrew Or] Trim input metadata from DOM
This PR change to use Long as internal type for TimestampType for efficiency, which means it will the precision below 100ns.
Author: Davies Liu <davies@databricks.com>
Closes#6733 from davies/timestamp and squashes the following commits:
d9565fa [Davies Liu] remove print
65cf2f1 [Davies Liu] fix Timestamp in SparkR
86fecfb [Davies Liu] disable two timestamp tests
8f77ee0 [Davies Liu] fix scala style
246ee74 [Davies Liu] address comments
309d2e1 [Davies Liu] use Long for TimestampType in SQL
Set preferred locations for reduce tasks.
The basic design is that we maintain a map from reducerId to a list of (sizes, locations) for each
shuffle. We then set the preferred locations to be any machines that have 20% of more of the output
that needs to be read by the reduce task. This will result in at most 5 preferred locations for
each reduce task.
Selecting the preferred locations involves O(# map tasks * # reduce tasks) computation, so we
restrict this feature to cases where we have fewer than 1000 map tasks and 1000 reduce tasks.
Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu>
Closes#6652 from shivaram/reduce-locations and squashes the following commits:
492e25e [Shivaram Venkataraman] Remove unused import
2ef2d39 [Shivaram Venkataraman] Address code review comments
897a914 [Shivaram Venkataraman] Remove unused hash map
f5be578 [Shivaram Venkataraman] Use fraction of map outputs to determine locations Also removes caching of preferred locations to make the API cleaner
68bc29e [Shivaram Venkataraman] Fix line length
1090b58 [Shivaram Venkataraman] Change flag name
77ce7d8 [Shivaram Venkataraman] Merge branch 'master' of https://github.com/apache/spark into reduce-locations
e5d56bd [Shivaram Venkataraman] Add flag to turn off locality for shuffle deps
6cfae98 [Shivaram Venkataraman] Filter out zero blocks, rename variables
9d5831a [Shivaram Venkataraman] Address some more comments
8e31266 [Shivaram Venkataraman] Fix style
0df3180 [Shivaram Venkataraman] Address code review comments
e7d5449 [Shivaram Venkataraman] Fix merge issues
ad7cb53 [Shivaram Venkataraman] Merge branch 'master' of https://github.com/apache/spark into reduce-locations
df14cee [Shivaram Venkataraman] Merge branch 'master' of https://github.com/apache/spark into reduce-locations
5093aea [Shivaram Venkataraman] Merge branch 'master' of https://github.com/apache/spark into reduce-locations
0171d3c [Shivaram Venkataraman] Merge branch 'master' of https://github.com/apache/spark into reduce-locations
bc4dfd6 [Shivaram Venkataraman] Merge branch 'master' of https://github.com/apache/spark into reduce-locations
774751b [Shivaram Venkataraman] Fix bug introduced by line length adjustment
34d0283 [Shivaram Venkataraman] Fix style issues
3b464b7 [Shivaram Venkataraman] Set preferred locations for reduce tasks This is another attempt at #1697 addressing some of the earlier concerns. This adds a couple of thresholds based on number map and reduce tasks beyond which we don't use preferred locations for reduce tasks.
1. Add `log4j-defaults-repl.properties` that has log level WARN.
2. When logging is initialized, check whether inside the REPL. If so, use `log4j-defaults-repl.properties`.
3. Print the following information if using `log4j-defaults-repl.properties`:
```
Using Spark's repl log4j profile: org/apache/spark/log4j-defaults-repl.properties
To adjust logging level use sc.setLogLevel("INFO")
```
Author: zsxwing <zsxwing@gmail.com>
Closes#6734 from zsxwing/log4j-repl and squashes the following commits:
3835eff [zsxwing] Change default log level to WARN in the REPL
The root cause of SPARK-7527 is `createNullValue` returns an incompatible value `Byte(0)` for `char` and `boolean`.
This PR fixes it and corrects the class name of the main class, and also adds an unit test to demonstrate it.
Author: zsxwing <zsxwing@gmail.com>
Closes#6735 from zsxwing/SPARK-7527 and squashes the following commits:
bbdb271 [zsxwing] Use pattern match in createNullValue
b0a0e7e [zsxwing] Remove the noisy in the test output
903e269 [zsxwing] Remove the code for Utils.isInInterpreter == false
5f92dc1 [zsxwing] Fix createNullValue to return the correct null values and REPL mode detection
IBM Java has an extra method when we do getStackTrace(): this is "getStackTraceImpl", a native method. This causes two tests to fail within "DStreamScopeSuite" when running with IBM Java. Instead of "map" or "filter" being the method names found, "getStackTrace" is returned. This commit addresses such an issue by using dropWhile. Given that our current method is withScope, we look for the next method that isn't ours: we don't care about methods that come before us in the stack trace: e.g. getStackTrace (regardless of how many levels this might go).
IBM:
java.lang.Thread.getStackTraceImpl(Native Method)
java.lang.Thread.getStackTrace(Thread.java:1117)
org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:104)
Oracle:
PRINTING STACKTRACE!!!
java.lang.Thread.getStackTrace(Thread.java:1552)
org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:106)
I've tested this with Oracle and IBM Java, no side effects for other tests introduced.
Author: Adam Roberts <aroberts@uk.ibm.com>
Author: a-roberts <aroberts@uk.ibm.com>
Closes#6740 from a-roberts/RDDScopeStackCrawlFix and squashes the following commits:
13ce390 [Adam Roberts] Ensure consistency with String equality checking
a4fc0e0 [a-roberts] Update RDDOperationScope.scala
Read number of threads for RBackend from configuration.
[SPARK-8282] #comment Linking with JIRA
Author: Hossein <hossein@databricks.com>
Closes#6730 from falaki/SPARK-8282 and squashes the following commits:
33b3d98 [Hossein] Documented new config parameter
70f2a9c [Hossein] Fixing import
ec44225 [Hossein] Read number of threads for RBackend from configuration
The bug description is a little misleading: the actual issue is that
.py files are not handled correctly when distributed by YARN. They're
added to "spark.submit.pyFiles", which, when processed by context.py,
explicitly whitelists certain extensions (see PACKAGE_EXTENSIONS),
and that does not include .py files.
On top of that, archives were not handled at all! They made it to the
driver's python path, but never made it to executors, since the mechanism
used to propagate their location (spark.submit.pyFiles) only works on
the driver side.
So, instead, ignore "spark.submit.pyFiles" and just build PYTHONPATH
correctly for both driver and executors. Individual .py files are
placed in a subdirectory of the container's local dir in the cluster,
which is then added to the python path. Archives are added directly.
The change, as a side effect, ends up solving the symptom described
in the bug. The issue was not that the files were not being distributed,
but that they were never made visible to the python application
running under Spark.
Also included is a proper unit test for running python on YARN, which
broke in several different ways with the previous code.
A short walk around of the changes:
- SparkSubmit does not try to be smart about how YARN handles python
files anymore. It just passes down the configs to the YARN client
code.
- The YARN client distributes python files and archives differently,
placing the files in a subdirectory.
- The YARN client now sets PYTHONPATH for the processes it launches;
to properly handle different locations, it uses YARN's support for
embedding env variables, so to avoid YARN expanding those at the
wrong time, SparkConf is now propagated to the AM using a conf file
instead of command line options.
- Because the Client initialization code is a maze of implicit
dependencies, some code needed to be moved around to make sure
all needed state was available when the code ran.
- The pyspark tests in YarnClusterSuite now actually distribute and try
to use both a python file and an archive containing a different python
module. Also added a yarn-client tests for completeness.
- I cleaned up some of the code around distributing files to YARN, to
avoid adding more copied & pasted code to handle the new files being
distributed.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#6360 from vanzin/SPARK-5479 and squashes the following commits:
bcaf7e6 [Marcelo Vanzin] Feedback.
c47501f [Marcelo Vanzin] Fix yarn-client mode.
46b1d0c [Marcelo Vanzin] Merge branch 'master' into SPARK-5479
c743778 [Marcelo Vanzin] Only pyspark cares about python archives.
c8e5a82 [Marcelo Vanzin] Actually run pyspark in client mode.
705571d [Marcelo Vanzin] Move some code to the YARN module.
1dd4d0c [Marcelo Vanzin] Review feedback.
71ee736 [Marcelo Vanzin] Merge branch 'master' into SPARK-5479
220358b [Marcelo Vanzin] Scalastyle.
cdbb990 [Marcelo Vanzin] Merge branch 'master' into SPARK-5479
7fe3cd4 [Marcelo Vanzin] No need to distribute primary file to executors.
09045f1 [Marcelo Vanzin] Style.
943cbf4 [Marcelo Vanzin] [SPARK-5479] [yarn] Handle --py-files correctly in YARN.
Changed ```SparkEnv.actorSystem``` to be a function such that we can use the deprecated flag with it and added a deprecated message.
Author: Ilya Ganelin <ilya.ganelin@capitalone.com>
Closes#6731 from ilganeli/SPARK-7996 and squashes the following commits:
be43817 [Ilya Ganelin] Restored to val
9ed89e7 [Ilya Ganelin] Added a version info for deprecation
9610b08 [Ilya Ganelin] Converted actorSystem to function and added deprecated flag
Just as a safeguard against DOM rewriting.
Author: Andrew Or <andrew@databricks.com>
Closes#6732 from andrewor14/dag-viz-trim and squashes the following commits:
7e9bacb [Andrew Or] [MINOR] [UI] DAG visualization: trim whitespace from input
This was caused by this commit: f271347
This patch does not attempt to fix the root cause of why the `VisibleForTesting` annotation causes a NPE in the shell. We should find a way to fix that separately.
Author: Andrew Or <andrew@databricks.com>
Closes#6711 from andrewor14/fix-spark-shell and squashes the following commits:
bf62ecc [Andrew Or] Prevent NPE in spark-shell
Return null if catch EOFException, just like function "asKeyValueIterator" in this class
Author: Mingfei <mingfei.shi@intel.com>
Closes#6703 from shimingfei/returnNull and squashes the following commits:
205deec [Mingfei] return null if catch EOFException
Even with all the efforts to cleanup the temp directories created by
unit tests, Spark leaves a lot of garbage in /tmp after a test run.
This change overrides java.io.tmpdir to place those files under the
build directory instead.
After an sbt full unit test run, I was left with > 400 MB of temp
files. Since they're now under the build dir, it's much easier to
clean them up.
Also make a slight change to a unit test to make it not pollute the
source directory with test data.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#6674 from vanzin/SPARK-8126 and squashes the following commits:
0f8ad41 [Marcelo Vanzin] Make sure tmp dir exists when tests run.
643e916 [Marcelo Vanzin] [MINOR] [BUILD] Use custom temp directory during build.
Update build to use Java 7, and remove some comments and special-case support for Java 6.
Author: Sean Owen <sowen@cloudera.com>
Closes#6265 from srowen/SPARK-7733 and squashes the following commits:
59bda4e [Sean Owen] Update build to use Java 7, and remove some comments and special-case support for Java 6
…moved if dynamic allocation is enabled.
This is a work in progress. This patch ensures that an executor that has cached RDD blocks are not removed,
but makes no attempt to find another executor to remove. This is meant to get some feedback on the current
approach, and if it makes sense then I will look at choosing another executor to remove. No testing has been done either.
Author: Hari Shreedharan <hshreedharan@apache.org>
Closes#6508 from harishreedharan/dymanic-caching and squashes the following commits:
dddf1eb [Hari Shreedharan] Minor configuration description update.
10130e2 [Hari Shreedharan] Fix compile issue.
5417b53 [Hari Shreedharan] Add documentation for new config. Remove block from cachedBlocks when it is dropped.
875916a [Hari Shreedharan] Make some code more readable.
39940ca [Hari Shreedharan] Handle the case where the executor has not yet registered.
90ad711 [Hari Shreedharan] Remove unused imports and unused methods.
063985c [Hari Shreedharan] Send correct message instead of recursively calling same method.
ec2fd7e [Hari Shreedharan] Add file missed in last commit
5d10fad [Hari Shreedharan] Update cached blocks status using local info, rather than doing an RPC.
193af4c [Hari Shreedharan] WIP. Use local state rather than via RPC.
ae932ff [Hari Shreedharan] Fix config param name.
272969d [Hari Shreedharan] Fix seconds to millis bug.
5a1993f [Hari Shreedharan] Add timeout for cache executors. Ignore broadcast blocks while checking if there are cached blocks.
57fefc2 [Hari Shreedharan] [SPARK-7955][Core] Ensure executors with cached RDD blocks are not removed if dynamic allocation is enabled.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Author: Jacek Lewandowski <lewandowski.jacek@gmail.com>
Closes#6560 from vanzin/SPARK-7169 and squashes the following commits:
737266f [Marcelo Vanzin] Feedback.
702d5a3 [Marcelo Vanzin] Scalastyle.
ce66e7e [Marcelo Vanzin] Remove metrics config handling from SparkConf.
439938a [Jacek Lewandowski] SPARK-7169: Metrics can be additionally configured from Spark configuration
Though totalStages = allStages - skippedStages is understandable. But consider the problem [SPARK-6973], I think totalStages = allStages is more reasonable. Like "2/1 (2 failed) (1 skipped)", this item also shows the skipped num, it also will be understandable.
Author: Xu Tingjun <xutingjun@huawei.com>
Author: Xutingjun <xutingjun@huawei.com>
Author: meiyoula <1039320815@qq.com>
Closes#5550 from XuTingjun/allJobsPage and squashes the following commits:
a742541 [Xu Tingjun] delete the loop
40ce94b [Xutingjun] remove stage id from completed set if it retries again
6459238 [meiyoula] delete space
9e23c71 [Xu Tingjun] recover numSkippedStages
b987ea7 [Xutingjun] delete skkiped stages from completed set
47525c6 [Xu Tingjun] modify total stages/tasks on the allJobsPage
This patch propose to lazy start the scheduler for dynamic allocation to avoid fast ramp down executor numbers is load is less.
This implementation will:
1. immediately start the scheduler is `numExecutorsTarget` is 0, this is the expected behavior.
2. if `numExecutorsTarget` is not zero, start the scheduler until the number is satisfied, if the load is less, this initial started executors will last for at least 60 seconds, user will have a window to submit a job, no need to revamp the executors.
3. if `numExecutorsTarget` is not satisfied until the timeout, this means resource is not enough, the scheduler will start until this timeout, will not wait infinitely.
Please help to review, thanks a lot.
Author: jerryshao <saisai.shao@intel.com>
Closes#6430 from jerryshao/SPARK-7699 and squashes the following commits:
02cac8e [jerryshao] Address the comments
7242450 [jerryshao] Remove the useless import
ecc0b00 [jerryshao] Address the comments
6f75f00 [jerryshao] Style changes
8b8decc [jerryshao] change the test name
fb822ca [jerryshao] Change the solution according to comments
1cc74e5 [jerryshao] Lazy start the scheduler for dynamic allocation
Author: Xutingjun <xutingjun@huawei.com>
Author: xutingjun <xutingjun@huawei.com>
Closes#6643 from XuTingjun/SPARK-8099 and squashes the following commits:
80b18cd [Xutingjun] change to STANDALONE | YARN
ce33148 [Xutingjun] set executor cores into system
e51cc9e [Xutingjun] set executor cores into system
0600861 [xutingjun] set executor cores into system
Reorganize code so that the launcher library handles most of the work
of printing usage messages, instead of having an awkward protocol between
the library and the scripts for that.
This mostly applies to SparkSubmit, since the launcher lib does not do
command line parsing for classes invoked in other ways, and thus cannot
handle failures for those. Most scripts end up going through SparkSubmit,
though, so it all works.
The change adds a new, internal command line switch, "--usage-error",
which prints the usage message and exits with a non-zero status. Scripts
can override the command printed in the usage message by setting an
environment variable - this avoids having to grep the output of
SparkSubmit to remove references to the "spark-submit" script.
The only sub-optimal part of the change is the special handling for the
spark-sql usage, which is now done in SparkSubmitArguments.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#5841 from vanzin/SPARK-6324 and squashes the following commits:
2821481 [Marcelo Vanzin] Merge branch 'master' into SPARK-6324
bf139b5 [Marcelo Vanzin] Filter output of Spark SQL CLI help.
c6609bf [Marcelo Vanzin] Fix exit code never being used when printing usage messages.
6bc1b41 [Marcelo Vanzin] [SPARK-6324] [core] Centralize handling of script usage messages.
Even with all the efforts to cleanup the temp directories created by
unit tests, Spark leaves a lot of garbage in /tmp after a test run.
This change overrides java.io.tmpdir to place those files under the
build directory instead.
After an sbt full unit test run, I was left with > 400 MB of temp
files. Since they're now under the build dir, it's much easier to
clean them up.
Also make a slight change to a unit test to make it not pollute the
source directory with test data.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#6653 from vanzin/unit-test-tmp and squashes the following commits:
31e2dd5 [Marcelo Vanzin] Fix tests that depend on each other.
aa92944 [Marcelo Vanzin] [minor] [build] Use custom temp directory during build.
Completely trivial but I noticed this wrinkle in a log message today; `$sender` doesn't refer to anything and isn't interpolated here.
Author: Sean Owen <sowen@cloudera.com>
Closes#6650 from srowen/Interpolation and squashes the following commits:
518687a [Sean Owen] Actually interpolate log string
7edb866 [Sean Owen] Trivial: remove unused interpolation var in log message
The log page should only show desired length of bytes. Currently it shows bytes from the startIndex to the end of the file. The "Next" button on the page is always disabled.
Author: Carson Wang <carson.wang@intel.com>
Closes#6640 from carsonwang/logpage and squashes the following commits:
58cb3fd [Carson Wang] Show correct length of bytes on log page
This also helps us get rid of the sparkr-docs maven profile as docs are now built by just using -Psparkr when the roxygen2 package is available
Related to discussion in #6567
cc pwendell srowen -- Let me know if this looks better
Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu>
Closes#6593 from shivaram/sparkr-pom-cleanup and squashes the following commits:
b282241 [Shivaram Venkataraman] Remove sparkr-docs from release script as well
8f100a5 [Shivaram Venkataraman] Move man pages creation to install-dev.sh This also helps us get rid of the sparkr-docs maven profile as docs are now built by just using -Psparkr when the roxygen2 package is available
In order to reduce the overhead of codegen, this PR switch to use Janino to compile SQL expressions into bytecode.
After this, the time used to compile a SQL expression is decreased from 100ms to 5ms, which is necessary to turn on codegen for general workload, also tests.
cc rxin
Author: Davies Liu <davies@databricks.com>
Closes#6479 from davies/janino and squashes the following commits:
cc689f5 [Davies Liu] remove globalLock
262d848 [Davies Liu] Merge branch 'master' of github.com:apache/spark into janino
eec3a33 [Davies Liu] address comments from Josh
f37c8c3 [Davies Liu] fix DecimalType and cast to String
202298b [Davies Liu] Merge branch 'master' of github.com:apache/spark into janino
a21e968 [Davies Liu] fix style
0ed3dc6 [Davies Liu] Merge branch 'master' of github.com:apache/spark into janino
551a851 [Davies Liu] fix tests
c3bdffa [Davies Liu] remove print
6089ce5 [Davies Liu] change logging level
7e46ac3 [Davies Liu] fix style
d8f0f6c [Davies Liu] Merge branch 'master' of github.com:apache/spark into janino
da4926a [Davies Liu] fix tests
03660f3 [Davies Liu] WIP: use Janino to compile Java source
f2629cd [Davies Liu] Merge branch 'master' of github.com:apache/spark into janino
f7d66cf [Davies Liu] use template based string for codegen
If maxTaskFailures is 1, the task set is aborted after 1 task failure. Other documentation and the code supports this reading, I think it's just this comment that was off. It's easy to make this mistake — can you please double-check if I'm correct? Thanks!
Author: Daniel Darabos <darabos.daniel@gmail.com>
Closes#6621 from darabos/patch-2 and squashes the following commits:
dfebdec [Daniel Darabos] Fix comment.
