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* [SPARK-4121] Set commons-math3 version based on hadoop profiles, instead of ↵Xiangrui Meng2014-11-011-1/+8
| | | | | | | | | | | | | | | | | | | shading In #2928 , we shade commons-math3 to prevent future conflicts with hadoop. It caused problems with our Jenkins master build with maven. Some tests used local-cluster mode, where the assembly jar contains relocated math3 classes, while mllib test code still compiles with core and the untouched math3 classes. This PR sets commons-math3 version based on hadoop profiles. pwendell JoshRosen srowen Author: Xiangrui Meng <meng@databricks.com> Closes #3023 from mengxr/SPARK-4121-alt and squashes the following commits: 580f6d9 [Xiangrui Meng] replace tab by spaces 7f71f08 [Xiangrui Meng] revert changes to PoissonSampler to avoid conflicts d3353d9 [Xiangrui Meng] do not shade commons-math3 b4180dc [Xiangrui Meng] temp work
* [SPARK-3796] Create external service which can serve shuffle filesAaron Davidson2014-11-011-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This patch introduces the tooling necessary to construct an external shuffle service which is independent of Spark executors, and then use this service inside Spark. An example (just for the sake of this PR) of the service creation can be found in Worker, and the service itself is used by plugging in the StandaloneShuffleClient as Spark's ShuffleClient (setup in BlockManager). This PR continues the work from #2753, which extracted out the transport layer of Spark's block transfer into an independent package within Spark. A new package was created which contains the Spark business logic necessary to retrieve the actual shuffle data, which is completely independent of the transport layer introduced in the previous patch. Similar to the transport layer, this package must not depend on Spark as we anticipate plugging this service as a lightweight process within, say, the YARN NodeManager, and do not wish to include Spark's dependencies (including Scala itself). There are several outstanding tasks which must be complete before this PR can be merged: - [x] Complete unit testing of network/shuffle package. - [x] Performance and correctness testing on a real cluster. - [x] Remove example service instantiation from Worker.scala. There are even more shortcomings of this PR which should be addressed in followup patches: - Don't use Java serializer for RPC layer! It is not cross-version compatible. - Handle shuffle file cleanup for dead executors once the application terminates or the ContextCleaner triggers. - Documentation of the feature in the Spark docs. - Improve behavior if the shuffle service itself goes down (right now we don't blacklist it, and new executors cannot spawn on that machine). - SSL and SASL integration - Nice to have: Handle shuffle file consolidation (this would requires changes to Spark's implementation). Author: Aaron Davidson <aaron@databricks.com> Closes #3001 from aarondav/shuffle-service and squashes the following commits: 4d1f8c1 [Aaron Davidson] Remove changes to Worker 705748f [Aaron Davidson] Rename Standalone* to External* fd3928b [Aaron Davidson] Do not unregister executor outputs unduly 9883918 [Aaron Davidson] Make suggested build changes 3d62679 [Aaron Davidson] Add Spark integration test 7fe51d5 [Aaron Davidson] Fix SBT integration 56caa50 [Aaron Davidson] Address comments c8d1ac3 [Aaron Davidson] Add unit tests 2f70c0c [Aaron Davidson] Fix unit tests 5483e96 [Aaron Davidson] Fix unit tests 46a70bf [Aaron Davidson] Whoops, bracket 5ea4df6 [Aaron Davidson] [SPARK-3796] Create external service which can serve shuffle files
* Upgrading to roaring 0.4.5 (bug fix release)Daniel Lemire2014-11-011-1/+1
| | | | | | | | | | | | I recommend upgrading roaring to 0.4.5 as it fixes a rarely occurring bug in iterators (that would otherwise throw an unwarranted exception). The upgrade should have no other consequence. Author: Daniel Lemire <lemire@gmail.com> Closes #3044 from lemire/master and squashes the following commits: 54018c5 [Daniel Lemire] Recommended update to roaring 0.4.5 (bug fix release) 048933e [Daniel Lemire] Merge remote-tracking branch 'upstream/master' 431f3a0 [Daniel Lemire] Recommended bug fix release
* [SPARK-3826][SQL]enable hive-thriftserver to support hive-0.13.1wangfei2014-10-311-6/+23
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | In #2241 hive-thriftserver is not enabled. This patch enable hive-thriftserver to support hive-0.13.1 by using a shim layer refer to #2241. 1 A light shim layer(code in sql/hive-thriftserver/hive-version) for each different hive version to handle api compatibility 2 New pom profiles "hive-default" and "hive-versions"(copy from #2241) to activate different hive version 3 SBT cmd for different version as follows: hive-0.12.0 --- sbt/sbt -Phive,hadoop-2.3 -Phive-0.12.0 assembly hive-0.13.1 --- sbt/sbt -Phive,hadoop-2.3 -Phive-0.13.1 assembly 4 Since hive-thriftserver depend on hive subproject, this patch should be merged with #2241 to enable hive-0.13.1 for hive-thriftserver Author: wangfei <wangfei1@huawei.com> Author: scwf <wangfei1@huawei.com> Closes #2685 from scwf/shim-thriftserver1 and squashes the following commits: f26f3be [wangfei] remove clean to save time f5cac74 [wangfei] remove local hivecontext test 578234d [wangfei] use new shaded hive 18fb1ff [wangfei] exclude kryo in hive pom fa21d09 [wangfei] clean package assembly/assembly 8a4daf2 [wangfei] minor fix 0d7f6cf [wangfei] address comments f7c93ae [wangfei] adding build with hive 0.13 before running tests bcf943f [wangfei] Merge branch 'master' of https://github.com/apache/spark into shim-thriftserver1 c359822 [wangfei] reuse getCommandProcessor in hiveshim 52674a4 [scwf] sql/hive included since examples depend on it 3529e98 [scwf] move hive module to hive profile f51ff4e [wangfei] update and fix conflicts f48d3a5 [scwf] Merge branch 'master' of https://github.com/apache/spark into shim-thriftserver1 41f727b [scwf] revert pom changes 13afde0 [scwf] fix small bug 4b681f4 [scwf] enable thriftserver in profile hive-0.13.1 0bc53aa [scwf] fixed when result filed is null dfd1c63 [scwf] update run-tests to run hive-0.12.0 default now c6da3ce [scwf] Merge branch 'master' of https://github.com/apache/spark into shim-thriftserver 7c66b8e [scwf] update pom according spark-2706 ae47489 [scwf] update and fix conflicts
* [SPARK-3968][SQL] Use parquet-mr filter2 apiYash Datta2014-10-301-1/+1
| | | | | | | | | | | | | | | | | | | | | The parquet-mr project has introduced a new filter api (https://github.com/apache/incubator-parquet-mr/pull/4), along with several fixes . It can also eliminate entire RowGroups depending on certain statistics like min/max We can leverage that to further improve performance of queries with filters. Also filter2 api introduces ability to create custom filters. We can create a custom filter for the optimized In clause (InSet) , so that elimination happens in the ParquetRecordReader itself Author: Yash Datta <Yash.Datta@guavus.com> Closes #2841 from saucam/master and squashes the following commits: 8282ba0 [Yash Datta] SPARK-3968: fix scala code style and add some more tests for filtering on optional columns 515df1c [Yash Datta] SPARK-3968: Add a test case for filter pushdown on optional column 5f4530e [Yash Datta] SPARK-3968: Fix scala code style f304667 [Yash Datta] SPARK-3968: Using task metadata strategy for row group filtering ec53e92 [Yash Datta] SPARK-3968: No push down should result in case we are unable to create a record filter 48163c3 [Yash Datta] SPARK-3968: Code cleanup cc7b596 [Yash Datta] SPARK-3968: 1. Fix RowGroupFiltering not working 2. Use the serialization/deserialization from Parquet library for filter pushdown caed851 [Yash Datta] Revert "SPARK-3968: Not pushing the filters in case of OPTIONAL columns" since filtering on optional columns is now supported in filter2 api 49703c9 [Yash Datta] SPARK-3968: Not pushing the filters in case of OPTIONAL columns 9d09741 [Yash Datta] SPARK-3968: Change parquet filter pushdown to use filter2 api of parquet-mr
* [SPARK-3453] Netty-based BlockTransferService, extracted from Spark coreReynold Xin2014-10-291-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This PR encapsulates #2330, which is itself a continuation of #2240. The first goal of this PR is to provide an alternate, simpler implementation of the ConnectionManager which is based on Netty. In addition to this goal, however, we want to resolve [SPARK-3796](https://issues.apache.org/jira/browse/SPARK-3796), which calls for a standalone shuffle service which can be integrated into the YARN NodeManager, Standalone Worker, or on its own. This PR makes the first step in this direction by ensuring that the actual Netty service is as small as possible and extracted from Spark core. Given this, we should be able to construct this standalone jar which can be included in other JVMs without incurring significant dependency or runtime issues. The actual work to ensure that such a standalone shuffle service would work in Spark will be left for a future PR, however. In order to minimize dependencies and allow for the service to be long-running (possibly much longer-running than Spark, and possibly having to support multiple version of Spark simultaneously), the entire service has been ported to Java, where we have full control over the binary compatibility of the components and do not depend on the Scala runtime or version. These issues: have been addressed by folding in #2330: SPARK-3453: Refactor Netty module to use BlockTransferService interface SPARK-3018: Release all buffers upon task completion/failure SPARK-3002: Create a connection pool and reuse clients across different threads SPARK-3017: Integration tests and unit tests for connection failures SPARK-3049: Make sure client doesn't block when server/connection has error(s) SPARK-3502: SO_RCVBUF and SO_SNDBUF should be bootstrap childOption, not option SPARK-3503: Disable thread local cache in PooledByteBufAllocator TODO before mergeable: - [x] Implement uploadBlock() - [x] Unit tests for RPC side of code - [x] Performance testing (see comments [here](https://github.com/apache/spark/pull/2753#issuecomment-59475022)) - [x] Turn OFF by default (currently on for unit testing) Author: Reynold Xin <rxin@apache.org> Author: Aaron Davidson <aaron@databricks.com> Author: cocoatomo <cocoatomo77@gmail.com> Author: Patrick Wendell <pwendell@gmail.com> Author: Prashant Sharma <prashant.s@imaginea.com> Author: Davies Liu <davies.liu@gmail.com> Author: Anand Avati <avati@redhat.com> Closes #2753 from aarondav/netty and squashes the following commits: cadfd28 [Aaron Davidson] Turn netty off by default d7be11b [Aaron Davidson] Turn netty on by default 4a204b8 [Aaron Davidson] Fail block fetches if client connection fails 2b0d1c0 [Aaron Davidson] 100ch 0c5bca2 [Aaron Davidson] Merge branch 'master' of https://github.com/apache/spark into netty 14e37f7 [Aaron Davidson] Address Reynold's comments 8dfcceb [Aaron Davidson] Merge branch 'master' of https://github.com/apache/spark into netty 322dfc1 [Aaron Davidson] Address Reynold's comments, including major rename e5675a4 [Aaron Davidson] Fail outstanding RPCs as well ccd4959 [Aaron Davidson] Don't throw exception if client immediately fails 9da0bc1 [Aaron Davidson] Add RPC unit tests d236dfd [Aaron Davidson] Remove no-op serializer :) 7b7a26c [Aaron Davidson] Fix Nio compile issue dd420fd [Aaron Davidson] Merge branch 'master' of https://github.com/apache/spark into netty-test 939f276 [Aaron Davidson] Attempt to make comm. bidirectional aa58f67 [cocoatomo] [SPARK-3909][PySpark][Doc] A corrupted format in Sphinx documents and building warnings 8dc1ded [cocoatomo] [SPARK-3867][PySpark] ./python/run-tests failed when it run with Python 2.6 and unittest2 is not installed 5b5dbe6 [Prashant Sharma] [SPARK-2924] Required by scala 2.11, only one fun/ctor amongst overriden alternatives, can have default argument(s). 2c5d9dc [Patrick Wendell] HOTFIX: Fix build issue with Akka 2.3.4 upgrade. 020691e [Davies Liu] [SPARK-3886] [PySpark] use AutoBatchedSerializer by default ae4083a [Anand Avati] [SPARK-2805] Upgrade Akka to 2.3.4 29c6dcf [Aaron Davidson] [SPARK-3453] Netty-based BlockTransferService, extracted from Spark core f7e7568 [Reynold Xin] Fixed spark.shuffle.io.receiveBuffer setting. 5d98ce3 [Reynold Xin] Flip buffer. f6c220d [Reynold Xin] Merge with latest master. 407e59a [Reynold Xin] Fix style violation. a0518c7 [Reynold Xin] Implemented block uploads. 4b18db2 [Reynold Xin] Copy the buffer in fetchBlockSync. bec4ea2 [Reynold Xin] Removed OIO and added num threads settings. 1bdd7ee [Reynold Xin] Fixed tests. d68f328 [Reynold Xin] Logging close() in case close() fails. f63fb4c [Reynold Xin] Add more debug message. 6afc435 [Reynold Xin] Added logging. c066309 [Reynold Xin] Implement java.io.Closeable interface. 519d64d [Reynold Xin] Mark private package visibility and MimaExcludes. f0a16e9 [Reynold Xin] Fixed test hanging. 14323a5 [Reynold Xin] Removed BlockManager.getLocalShuffleFromDisk. b2f3281 [Reynold Xin] Added connection pooling. d23ed7b [Reynold Xin] Incorporated feedback from Norman: - use same pool for boss and worker - remove ioratio - disable caching of byte buf allocator - childoption sendbuf/receivebuf - fire exception through pipeline 9e0cb87 [Reynold Xin] Fixed BlockClientHandlerSuite 5cd33d7 [Reynold Xin] Fixed style violation. cb589ec [Reynold Xin] Added more test cases covering cleanup when fault happens in ShuffleBlockFetcherIteratorSuite 1be4e8e [Reynold Xin] Shorten NioManagedBuffer and NettyManagedBuffer class names. 108c9ed [Reynold Xin] Forgot to add TestSerializer to the commit list. b5c8d1f [Reynold Xin] Fixed ShuffleBlockFetcherIteratorSuite. 064747b [Reynold Xin] Reference count buffers and clean them up properly. 2b44cf1 [Reynold Xin] Added more documentation. 1760d32 [Reynold Xin] Use Epoll.isAvailable in BlockServer as well. 165eab1 [Reynold Xin] [SPARK-3453] Refactor Netty module to use BlockTransferService.
* SPARK-4022 [CORE] [MLLIB] Replace colt dependency (LGPL) with commons-mathSean Owen2014-10-271-6/+0
| | | | | | | | | | | | | | | This change replaces usages of colt with commons-math3 equivalents, and makes some minor necessary adjustments to related code and tests to match. Author: Sean Owen <sowen@cloudera.com> Closes #2928 from srowen/SPARK-4022 and squashes the following commits: 61a232f [Sean Owen] Fix failure due to different sampling in JavaAPISuite.sample() 16d66b8 [Sean Owen] Simplify seeding with call to reseedRandomGenerator a1a78e0 [Sean Owen] Use Well19937c 31c7641 [Sean Owen] Fix Python Poisson test by choosing a different seed; about 88% of seeds should work but 1 didn't, it seems 5c9c67f [Sean Owen] Additional test fixes from review d8f88e0 [Sean Owen] Replace colt with commons-math3. Some tests do not pass yet.
* [SPARK-3616] Add basic Selenium tests to WebUISuiteJosh Rosen2014-10-261-1/+7
| | | | | | | | | | | | | | | | | | | | | | | | This patch adds Selenium tests for Spark's web UI. To avoid adding extra dependencies to the test environment, the tests use Selenium's HtmlUnitDriver, which is pure-Java, instead of, say, ChromeDriver. I added new tests to try to reproduce a few UI bugs reported on JIRA, namely SPARK-3021, SPARK-2105, and SPARK-2527. I wasn't able to reproduce these bugs; I suspect that the older ones might have been fixed by other patches. In order to use HtmlUnitDriver, I added an explicit dependency on the org.apache.httpcomponents version of httpclient in order to prevent jets3t's older version from taking precedence on the classpath. I also upgraded ScalaTest to 2.2.1. Author: Josh Rosen <joshrosen@apache.org> Author: Josh Rosen <joshrosen@databricks.com> Closes #2474 from JoshRosen/webui-selenium-tests and squashes the following commits: fcc9e83 [Josh Rosen] scalautils -> scalactic package rename 510e54a [Josh Rosen] [SPARK-3616] Add basic Selenium tests to WebUISuite.
* Update RoaringBitmap to 0.4.3Daniel Lemire2014-10-261-1/+1
| | | | | | | | | | Roaring has been updated to version 0.4.3. We fixed a rarely occurring bug with serialization. No API or format changes were made. Author: Daniel Lemire <lemire@gmail.com> Closes #2938 from lemire/master and squashes the following commits: 431f3a0 [Daniel Lemire] Recommended bug fix release
* Revert "[SPARK-4056] Upgrade snappy-java to 1.1.1.5"Josh Rosen2014-10-251-1/+1
| | | | | | This reverts commit 898b22ab1fe90e8a3935b19566465046f2256fa6. Reverting because this may be causing OOMs.
* [SPARK-4056] Upgrade snappy-java to 1.1.1.5Josh Rosen2014-10-241-1/+1
| | | | | | | | | | | | This upgrades snappy-java to 1.1.1.5, which improves error messages when attempting to deserialize empty inputs using SnappyInputStream (see https://github.com/xerial/snappy-java/issues/89). Author: Josh Rosen <rosenville@gmail.com> Author: Josh Rosen <joshrosen@databricks.com> Closes #2911 from JoshRosen/upgrade-snappy-java and squashes the following commits: adec96c [Josh Rosen] Use snappy-java 1.1.1.5 cc953d6 [Josh Rosen] [SPARK-4056] Upgrade snappy-java to 1.1.1.4
* [SPARK-2706][SQL] Enable Spark to support Hive 0.13Zhan Zhang2014-10-241-5/+24
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Given that a lot of users are trying to use hive 0.13 in spark, and the incompatibility between hive-0.12 and hive-0.13 on the API level I want to propose following approach, which has no or minimum impact on existing hive-0.12 support, but be able to jumpstart the development of hive-0.13 and future version support. Approach: Introduce “hive-version” property, and manipulate pom.xml files to support different hive version at compiling time through shim layer, e.g., hive-0.12.0 and hive-0.13.1. More specifically, 1. For each different hive version, there is a very light layer of shim code to handle API differences, sitting in sql/hive/hive-version, e.g., sql/hive/v0.12.0 or sql/hive/v0.13.1 2. Add a new profile hive-default active by default, which picks up all existing configuration and hive-0.12.0 shim (v0.12.0) if no hive.version is specified. 3. If user specifies different version (currently only 0.13.1 by -Dhive.version = 0.13.1), hive-versions profile will be activated, which pick up hive-version specific shim layer and configuration, mainly the hive jars and hive-version shim, e.g., v0.13.1. 4. With this approach, nothing is changed with current hive-0.12 support. No change by default: sbt/sbt -Phive For example: sbt/sbt -Phive -Pyarn -Phadoop-2.4 -Dhadoop.version=2.4.0 assembly To enable hive-0.13: sbt/sbt -Dhive.version=0.13.1 For example: sbt/sbt -Dhive.version=0.13.1 -Pyarn -Phadoop-2.4 -Dhadoop.version=2.4.0 assembly Note that in hive-0.13, hive-thriftserver is not enabled, which should be fixed by other Jira, and we don’t need -Phive with -Dhive.version in building (probably we should use -Phive -Dhive.version=xxx instead after thrift server is also supported in hive-0.13.1). Author: Zhan Zhang <zhazhan@gmail.com> Author: zhzhan <zhazhan@gmail.com> Author: Patrick Wendell <pwendell@gmail.com> Closes #2241 from zhzhan/spark-2706 and squashes the following commits: 3ece905 [Zhan Zhang] minor fix 410b668 [Zhan Zhang] solve review comments cbb4691 [Zhan Zhang] change run-test for new options 0d4d2ed [Zhan Zhang] rebase 497b0f4 [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark 8fad1cf [Zhan Zhang] change the pom file and make hive-0.13.1 as the default ab028d1 [Zhan Zhang] rebase 4a2e36d [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark 4cb1b93 [zhzhan] Merge pull request #1 from pwendell/pr-2241 b0478c0 [Patrick Wendell] Changes to simplify the build of SPARK-2706 2b50502 [Zhan Zhang] rebase a72c0d4 [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark cb22863 [Zhan Zhang] correct the typo 20f6cf7 [Zhan Zhang] solve compatability issue f7912a9 [Zhan Zhang] rebase and solve review feedback 301eb4a [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark 10c3565 [Zhan Zhang] address review comments 6bc9204 [Zhan Zhang] rebase and remove temparory repo d3aa3f2 [Zhan Zhang] Merge branch 'master' into spark-2706 cedcc6f [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark 3ced0d7 [Zhan Zhang] rebase d9b981d [Zhan Zhang] rebase and fix error due to rollback adf4924 [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark 3dd50e8 [Zhan Zhang] solve conflicts and remove unnecessary implicts d10bf00 [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark dc7bdb3 [Zhan Zhang] solve conflicts 7e0cc36 [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark d7c3e1e [Zhan Zhang] Merge branch 'master' into spark-2706 68deb11 [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark d48bd18 [Zhan Zhang] address review comments 3ee3b2b [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark 57ea52e [Zhan Zhang] Merge branch 'master' into spark-2706 2b0d513 [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark 9412d24 [Zhan Zhang] address review comments f4af934 [Zhan Zhang] rebase 1ccd7cc [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark 128b60b [Zhan Zhang] ignore 0.12.0 test cases for the time being af9feb9 [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark 5f5619f [Zhan Zhang] restructure the directory and different hive version support 05d3683 [Zhan Zhang] solve conflicts e4c1982 [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark 94b4fdc [Zhan Zhang] Spark-2706: hive-0.13.1 support on spark 87ebf3b [Zhan Zhang] Merge branch 'master' into spark-2706 921e914 [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark f896b2a [Zhan Zhang] Merge branch 'master' into spark-2706 789ea21 [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark cb53a2c [Zhan Zhang] Merge branch 'master' of https://github.com/apache/spark f6a8a40 [Zhan Zhang] revert ba14f28 [Zhan Zhang] test dbedff3 [Zhan Zhang] Merge remote-tracking branch 'upstream/master' 70964fe [Zhan Zhang] revert fe0f379 [Zhan Zhang] Merge branch 'master' of https://github.com/zhzhan/spark 70ffd93 [Zhan Zhang] revert 42585ec [Zhan Zhang] test 7d5fce2 [Zhan Zhang] test
* SPARK-3812 Build changes to publish effective pom.Prashant Sharma2014-10-231-1/+32
| | | | | | | | | | | | Author: Prashant Sharma <prashant.s@imaginea.com> Closes #2921 from ScrapCodes/build-changes-effective-pom and squashes the following commits: 8841491 [Prashant Sharma] Fixed broken maven build. aa7b91d [Prashant Sharma] used an unused dep. 0300dac [Prashant Sharma] improved comment messages.. 28f891e [Prashant Sharma] Added a useless dependency, so that we can shade it. And realized fake shading works for us. 553d96b [Prashant Sharma] Shaded some unused class of an unused dep, to generate effective pom(s)
* [SPARK-4019] [SPARK-3740] Fix MapStatus compression bug that could lead to ↵Josh Rosen2014-10-231-0/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | empty results or Snappy errors This commit fixes a bug in MapStatus that could cause jobs to wrongly return empty results if those jobs contained stages with more than 2000 partitions where most of those partitions were empty. For jobs with > 2000 partitions, MapStatus uses HighlyCompressedMapStatus, which only stores the average size of blocks. If the average block size is zero, then this will cause all blocks to be reported as empty, causing BlockFetcherIterator to mistakenly skip them. For example, this would return an empty result: sc.makeRDD(0 until 10, 1000).repartition(2001).collect() This can also lead to deserialization errors (e.g. Snappy decoding errors) for jobs with > 2000 partitions where the average block size is non-zero but there is at least one empty block. In this case, the BlockFetcher attempts to fetch empty blocks and fails when trying to deserialize them. The root problem here is that MapStatus has a (previously undocumented) correctness property that was violated by HighlyCompressedMapStatus: If a block is non-empty, then getSizeForBlock must be non-zero. I fixed this by modifying HighlyCompressedMapStatus to store the average size of _non-empty_ blocks and to use a compressed bitmap to track which blocks are empty. I also removed a test which was broken as originally written: it attempted to check that HighlyCompressedMapStatus's size estimation error was < 10%, but this was broken because HighlyCompressedMapStatus is only used for map statuses with > 2000 partitions, but the test only created 50. Author: Josh Rosen <joshrosen@databricks.com> Closes #2866 from JoshRosen/spark-4019 and squashes the following commits: fc8b490 [Josh Rosen] Roll back hashset change, which didn't improve performance. 5faa0a4 [Josh Rosen] Incorporate review feedback c8b8cae [Josh Rosen] Two performance fixes: 3b892dd [Josh Rosen] Address Reynold's review comments ba2e71c [Josh Rosen] Add missing newline 609407d [Josh Rosen] Use Roaring Bitmap to track non-empty blocks. c23897a [Josh Rosen] Use sets when comparing collect() results 91276a3 [Josh Rosen] [SPARK-4019] Fix MapStatus compression bug that could lead to empty results.
* Revert "[SPARK-3812] [BUILD] Adapt maven build to publish effective pom."Patrick Wendell2014-10-231-32/+1
| | | | | | | This reverts commit c5882c663e054adcd3ecd9f11e91a1929dbc14a3. I am reverting this becuase it appears to cause the maven tests to hang.
* [SPARK-3812] [BUILD] Adapt maven build to publish effective pom.Prashant Sharma2014-10-221-1/+32
| | | | | | | | | | | | | | | | | | I have tried maven help plugin first but that published all projects in top level pom. So I was left with no choice but to roll my own trivial plugin. This patch basically installs an effective pom after maven install is finished. The problem it fixes is described as follows: If you install using maven ` mvn install -DskipTests -Dhadoop.version=2.2.0 -Phadoop-2.2 ` Then without this patch the published pom(s) will have hadoop version as 1.0.4. This can be a problem at some point. Author: Prashant Sharma <prashant.s@imaginea.com> Closes #2673 from ScrapCodes/build-changes-effective-pom and squashes the following commits: aa7b91d [Prashant Sharma] used an unused dep. 0300dac [Prashant Sharma] improved comment messages.. 28f891e [Prashant Sharma] Added a useless dependency, so that we can shade it. And realized fake shading works for us. 553d96b [Prashant Sharma] Shaded some unused class of an unused dep, to generate effective pom(s)
* HOTFIX: Fix build issue with Akka 2.3.4 upgrade.Patrick Wendell2014-10-101-1/+13
| | | | | | | | | | | | We had to upgrade our Hive 0.12 version as well to deal with a protobuf conflict (both hive and akka have been using a shaded protobuf version). This is testing a correctly patched version of Hive 0.12. Author: Patrick Wendell <pwendell@gmail.com> Closes #2756 from pwendell/hotfix and squashes the following commits: cc979d0 [Patrick Wendell] HOTFIX: Fix build issue with Akka 2.3.4 upgrade.
* [SPARK-2805] Upgrade Akka to 2.3.4Anand Avati2014-10-101-2/+2
| | | | | | | | | | | | | This is a second rev of the Akka upgrade (earlier merged, but reverted). I made a slight modification which is that I also upgrade Hive to deal with a compatibility issue related to the protocol buffers library. Author: Anand Avati <avati@redhat.com> Author: Patrick Wendell <pwendell@gmail.com> Closes #2752 from pwendell/akka-upgrade and squashes the following commits: 4c7ca3f [Patrick Wendell] Upgrading to new hive->protobuf version 57a2315 [Anand Avati] SPARK-1812: streaming - remove tests which depend on akka.actor.IO 2a551d3 [Anand Avati] SPARK-1812: core - upgrade to akka 2.3.4
* Revert "[SPARK-2805] Upgrade to akka 2.3.4"Patrick Wendell2014-10-091-1/+1
| | | | This reverts commit b9df8af62e8d7b263a668dfb6e9668ab4294ea37.
* [SPARK-2805] Upgrade to akka 2.3.4Anand Avati2014-10-081-1/+1
| | | | | | | | | | | Upgrade to akka 2.3.4 Author: Anand Avati <avati@redhat.com> Closes #1685 from avati/SPARK-1812-akka-2.3 and squashes the following commits: 57a2315 [Anand Avati] SPARK-1812: streaming - remove tests which depend on akka.actor.IO 2a551d3 [Anand Avati] SPARK-1812: core - upgrade to akka 2.3.4
* SPARK-3638 | Forced a compatible version of http client in kinesis-asl profileaniketbhatnagar2014-10-011-0/+1
| | | | | | | | | | | | | | | This patch forces use of commons http client 4.2 in Kinesis-asl profile so that the AWS SDK does not run into dependency conflicts Author: aniketbhatnagar <aniket.bhatnagar@gmail.com> Closes #2535 from aniketbhatnagar/Kinesis-HttpClient-Dep-Fix and squashes the following commits: aa2079f [aniketbhatnagar] Merge branch 'Kinesis-HttpClient-Dep-Fix' of https://github.com/aniketbhatnagar/spark into Kinesis-HttpClient-Dep-Fix 73f55f6 [aniketbhatnagar] SPARK-3638 | Forced a compatible version of http client in kinesis-asl profile 70cc75b [aniketbhatnagar] deleted merge files 725dbc9 [aniketbhatnagar] Merge remote-tracking branch 'origin/Kinesis-HttpClient-Dep-Fix' into Kinesis-HttpClient-Dep-Fix 4ed61d8 [aniketbhatnagar] SPARK-3638 | Forced a compatible version of http client in kinesis-asl profile 9cd6103 [aniketbhatnagar] SPARK-3638 | Forced a compatible version of http client in kinesis-asl profile
* [Build]remove spark-staging-1030wangfei2014-09-261-12/+0
| | | | | | | | | | Since 1.1.0 has published, remove spark-staging-1030. Author: wangfei <wangfei1@huawei.com> Closes #2532 from scwf/patch-2 and squashes the following commits: bc9e00b [wangfei] remove spark-staging-1030
* [SPARK-2778] [yarn] Add yarn integration tests.Marcelo Vanzin2014-09-241-1/+30
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This patch adds a couple of, currently, very simple integration tests to make sure both client and cluster modes are working. The tests don't do much yet other than run a simple job, but the plan is to enhance them after we get the framework in. The cluster tests are noisy, so redirect all log output to a file like other tests do. Copying the conf around sucks but it's less work than messing with maven/sbt and having to clean up other projects. Note the test is only added for yarn-stable. The code compiles against yarn-alpha but there are two issues I ran into that I could not overcome: - an old netty dependency kept creeping into the classpath and causing akka to not work, when using sbt; the old netty was correctly suppressed under maven. - MiniYARNCluster kept failing to execute containers because it did not create the NM's local dir itself; this is apparently a known behavior, but I'm not sure how to work around it. None of those issues are present with the stable Yarn. Also, these tests are a little slow to run. Apparently Spark doesn't yet tag tests (so that these could be isolated in a "slow" batch), so this is something to keep in mind. Author: Marcelo Vanzin <vanzin@cloudera.com> Closes #2257 from vanzin/yarn-tests and squashes the following commits: 6d5b84e [Marcelo Vanzin] Fix wrong system property being set. 8b0933d [Marcelo Vanzin] Merge branch 'master' into yarn-tests 5c2b56f [Marcelo Vanzin] Use custom log4j conf for Yarn containers. ec73f17 [Marcelo Vanzin] More review feedback. 67f5b02 [Marcelo Vanzin] Review feedback. f01517c [Marcelo Vanzin] Review feedback. 68fbbbf [Marcelo Vanzin] Use older constructor available in older Hadoop releases. d07ef9a [Marcelo Vanzin] Merge branch 'master' into yarn-tests add8416 [Marcelo Vanzin] [SPARK-2778] [yarn] Add yarn integration tests.
* SPARK-3039: Allow spark to be built using avro-mapred for hadoop2Bertrand Bossy2014-09-141-0/+5
| | | | | | | | | | | | SPARK-3039: Adds the maven property "avro.mapred.classifier" to build spark-assembly with avro-mapred with support for the new Hadoop API. Sets this property to hadoop2 for Hadoop 2 profiles. I am not very familiar with maven, nor do I know whether this potentially breaks something in the hive part of spark. There might be a more elegant way of doing this. Author: Bertrand Bossy <bertrandbossy@gmail.com> Closes #1945 from bbossy/SPARK-3039 and squashes the following commits: c32ce59 [Bertrand Bossy] SPARK-3039: Allow spark to be built using avro-mapred for hadoop2
* SPARK-2482: Resolve sbt warnings during buildwitgo2014-09-111-1/+0
| | | | | | | | | | At the same time, import the `scala.language.postfixOps` and ` org.scalatest.time.SpanSugar._` cause `scala.language.postfixOps` doesn't work Author: witgo <witgo@qq.com> Closes #1330 from witgo/sbt_warnings3 and squashes the following commits: 179ba61 [witgo] Resolve sbt warnings during build
* [Spark-3490] Disable SparkUI for testsAndrew Or2014-09-111-1/+1
| | | | | | | | | | | | | | | | We currently open many ephemeral ports during the tests, and as a result we occasionally can't bind to new ones. This has caused the `DriverSuite` and the `SparkSubmitSuite` to fail intermittently. By disabling the `SparkUI` when it's not needed, we already cut down on the number of ports opened significantly, on the order of the number of `SparkContexts` ever created. We must keep it enabled for a few tests for the UI itself, however. Author: Andrew Or <andrewor14@gmail.com> Closes #2363 from andrewor14/disable-ui-for-tests and squashes the following commits: 332a7d5 [Andrew Or] No need to set spark.ui.port to 0 anymore 30c93a2 [Andrew Or] Simplify streaming UISuite a431b84 [Andrew Or] Fix streaming test failures 8f5ae53 [Andrew Or] Fix no new line at the end 29c9b5b [Andrew Or] Disable SparkUI for tests
* SPARK-3404 [BUILD] SparkSubmitSuite fails with "spark-submit exits with code 1"Sean Owen2014-09-091-1/+2
| | | | | | | | | | | | This fixes the `SparkSubmitSuite` failure by setting `<spark.ui.port>0</spark.ui.port>` in the Maven build, to match the SBT build. This avoids a port conflict which causes failures. (This also updates the `scalatest` plugin off of a release candidate, to the identical final release.) Author: Sean Owen <sowen@cloudera.com> Closes #2328 from srowen/SPARK-3404 and squashes the following commits: 512d782 [Sean Owen] Set spark.ui.port=0 in Maven scalatest config to match SBT build and avoid SparkSubmitSuite failure due to port conflict
* [HOTFIX] Fix broken Mima tests on the master branchJosh Rosen2014-09-071-0/+12
| | | | | | | | | | | | | | By merging #2268, which bumped the Spark version to 1.2.0-SNAPSHOT, I inadvertently broke the Mima binary compatibility tests. The issue is that we were comparing 1.2.0-SNAPSHOT against Spark 1.0.0 without using any Mima excludes. The right long-term fix for this is probably to publish nightly snapshots on Maven central and change the master branch to test binary compatibility against the current release candidate branch's snapshots until that release is finalized. As a short-term fix until 1.1.0 is published on Maven central, I've configured the build to test the master branch for binary compatibility against the 1.1.0-RC4 jars. I'll loop back and remove the Apache staging repo as soon as 1.1.0 final is available. Author: Josh Rosen <joshrosen@apache.org> Closes #2315 from JoshRosen/mima-fix and squashes the following commits: 776bc2c [Josh Rosen] Add two excludes to workaround Mima annotation issues. ec90e21 [Josh Rosen] Add deploy and graphx to 1.2 MiMa excludes. 57569be [Josh Rosen] Fix MiMa tests in master branch; test against 1.1.0 RC.
* [SPARK-3397] Bump pom.xml version number of master branch to 1.2.0-SNAPSHOTGuoQiang Li2014-09-061-1/+1
| | | | | | | | Author: GuoQiang Li <witgo@qq.com> Closes #2268 from witgo/SPARK-3397 and squashes the following commits: eaf913f [GuoQiang Li] Bump pom.xml version number of master branch to 1.2.0-SNAPSHOT
* [SPARK-3061] Fix Maven build under WindowsJosh Rosen2014-09-021-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | The Maven build was failing on Windows because it tried to call the unix `unzip` utility to extract the Py4J files into core's build directory. I've fixed this issue by using the `maven-antrun-plugin` to perform the unzipping. I also fixed an issue that prevented tests from running under Windows: In the Maven ScalaTest plugin, the filename listed in <filereports> is placed under the <reportsDirectory>; the current code places it in a subdirectory of reportsDirectory, e.g. ``` ${project.build.directory}/surefire-reports/${project.build.directory}/SparkTestSuite.txt ``` This caused problems under Windows because it would try to create a subdirectory named "c:\\". Note that the tests still fail under Windows (for other reasons); this PR just allows them to run and fail rather than crash when trying to create the test reports directory. Author: Josh Rosen <joshrosen@apache.org> Author: Josh Rosen <rosenville@gmail.com> Author: Josh Rosen <joshrosen@databricks.com> Closes #2165 from JoshRosen/windows-support and squashes the following commits: 651d210 [Josh Rosen] Unzip to python/build instead of core/build fbf3e61 [Josh Rosen] 4 spaces -> 2 spaces e347668 [Josh Rosen] Fix Maven scalatest filereports path: 4994af1 [Josh Rosen] [SPARK-3061] Use maven-antrun-plugin to unzip Py4J.
* SPARK-2798 [BUILD] Correct several small errors in Flume module pom.xml filesSean Owen2014-08-251-0/+1
| | | | | | | | | | | | | | | | (EDIT) Since the scalatest issue was since resolved, this is now about a few small problems in the Flume Sink `pom.xml` - `scalatest` is not declared as a test-scope dependency - Its Avro version doesn't match the rest of the build - Its Flume version is not synced with the other Flume module - The other Flume module declares its dependency on Flume Sink slightly incorrectly, hard-coding the Scala 2.10 version - It depends on Scala Lang directly, which it shouldn't Author: Sean Owen <sowen@cloudera.com> Closes #1726 from srowen/SPARK-2798 and squashes the following commits: a46e2c6 [Sean Owen] scalatest to test scope, harmonize Avro and Flume versions, remove direct Scala dependency, fix '2.10' in Flume dependency
* [SPARK-2848] Shade Guava in uber-jars.Marcelo Vanzin2014-08-201-0/+16
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | For further discussion, please check the JIRA entry. This change moves Guava classes to a different package so that they don't conflict with the user-provided Guava (or the Hadoop-provided one). Since one class (Optional) was exposed through Spark's public API, that class was forked from Guava at the current dependency version (14.0.1) so that it can be kept going forward (until the API is cleaned). Note this change has a few implications: - *all* classes in the final jars will reference the relocated classes. If Hadoop classes are included (i.e. "-Phadoop-provided" is not activated), those will also reference the Guava 14 classes (instead of the Guava 11 classes from the Hadoop classpath). - if the Guava version in Spark is ever changed, the new Guava will still reference the forked Optional class; this may or may not be a problem, but in the long term it's better to think about removing Optional from the public API. For the end user, there are two visible implications: - Guava is not provided as a transitive dependency anymore (since it's "provided" in Spark) - At runtime, unless they provide their own, they'll either have no Guava or Hadoop's version of Guava (11), depending on how they set up their classpath. Note that this patch does not change the sbt deliverables; those will still contain guava in its original package, and provide guava as a compile-time dependency. This assumes that maven is the canonical build, and sbt-built artifacts are not (officially) published. Author: Marcelo Vanzin <vanzin@cloudera.com> Closes #1813 from vanzin/SPARK-2848 and squashes the following commits: 9bdffb0 [Marcelo Vanzin] Undo sbt build changes. 819b445 [Marcelo Vanzin] Review feedback. 05e0a3d [Marcelo Vanzin] Merge branch 'master' into SPARK-2848 fef4370 [Marcelo Vanzin] Unfork Optional.java. d3ea8e1 [Marcelo Vanzin] Exclude asm classes from final jar. 637189b [Marcelo Vanzin] Add hacky filter to prefer Spark's copy of Optional. 2fec990 [Marcelo Vanzin] Shade Guava in the sbt build. 616998e [Marcelo Vanzin] Shade Guava in the maven build, fork Guava's Optional.java.
* BUILD: Bump Hadoop versions in the release build.Patrick Wendell2014-08-201-4/+35
| | | | Also, minor modifications to the MapR profile.
* SPARK-3092 [SQL]: Always include the thriftserver when -Phive is enabled.Patrick Wendell2014-08-201-1/+1
| | | | | | | | | | | | | Currently we have a separate profile called hive-thriftserver. I originally suggested this in case users did not want to bundle the thriftserver, but it's ultimately lead to a lot of confusion. Since the thriftserver is only a few classes, I don't see a really good reason to isolate it from the rest of Hive. So let's go ahead and just include it in the same profile to simplify things. This has been suggested in the past by liancheng. Author: Patrick Wendell <pwendell@gmail.com> Closes #2006 from pwendell/hiveserver and squashes the following commits: 742ea40 [Patrick Wendell] Merge remote-tracking branch 'apache/master' into hiveserver 034ad47 [Patrick Wendell] SPARK-3092: Always include the thriftserver when -Phive is enabled.
* [SPARK-2468] Netty based block server / client moduleReynold Xin2014-08-191-1/+1
| | | | | | | | | | | | | | | Previous pull request (#1907) was reverted. This brings it back. Still looking into the hang. Author: Reynold Xin <rxin@apache.org> Closes #1971 from rxin/netty1 and squashes the following commits: b0be96f [Reynold Xin] Added test to make sure outstandingRequests are cleaned after firing the events. 4c6d0ee [Reynold Xin] Pass callbacks cleanly. 603dce7 [Reynold Xin] Upgrade Netty to 4.0.23 to fix the DefaultFileRegion bug. 88be1d4 [Reynold Xin] Downgrade to 4.0.21 to work around a bug in writing DefaultFileRegion. 002626a [Reynold Xin] Remove netty-test-file.txt. db6e6e0 [Reynold Xin] Revert "Revert "[SPARK-2468] Netty based block server / client module""
* SPARK-2881. Upgrade snappy-java to 1.1.1.3.Patrick Wendell2014-08-171-1/+1
| | | | | | | | | | | | This upgrades snappy-java which fixes the issue reported in SPARK-2881. This is the master branch equivalent to #1994 which provides a different work-around for the 1.1 branch. Author: Patrick Wendell <pwendell@gmail.com> Closes #1995 from pwendell/snappy-1.1 and squashes the following commits: 0c7c4c2 [Patrick Wendell] SPARK-2881. Upgrade snappy-java to 1.1.1.3.
* Revert "[SPARK-2468] Netty based block server / client module"Patrick Wendell2014-08-151-1/+1
| | | | This reverts commit 3a8b68b7353fea50245686903b308fa9eb52cb51.
* [SPARK-2468] Netty based block server / client moduleReynold Xin2014-08-141-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This is a rewrite of the original Netty module that was added about 1.5 years ago. The old code was turned off by default and didn't really work because it lacked a frame decoder (only worked with very very small blocks). For this pull request, I tried to make the changes non-instrusive to the rest of Spark. I only added an init and shutdown to BlockManager/DiskBlockManager, and a bunch of comments to help me understand the existing code base. Compared with the old Netty module, this one features: - It appears to work :) - SPARK-2941: option to specicy nio vs oio vs epoll for channel/transport. By default nio is used. (Not using Epoll yet because I have found some bugs with its implementation) - SPARK-2943: options to specify send buf and receive buf for users who want to do hyper tuning - SPARK-2942: io errors are reported from server to client (the protocol uses negative length to indicate error) - SPARK-2940: fetching multiple blocks in a single request to reduce syscalls - SPARK-2959: clients share a single thread pool - SPARK-2990: use PooledByteBufAllocator to reduce GC (basically a Netty managed pool of buffers with jmalloc) - SPARK-2625: added fetchWaitTime metric and fixed thread-safety issue in metrics update. - SPARK-2367: bump Netty version to 4.0.21.Final to address an Epoll bug (https://groups.google.com/forum/#!topic/netty/O7m-HxCJpCA) Compared with the existing communication manager, this one features: - IMO it is substantially easier to understand - zero-copy send for the server for on-disk blocks - one-copy receive (due to a frame decoder) - don't quote me on this, but I think a lot less sys calls - SPARK-2990: use PooledByteBufAllocator to reduce GC (basically a Netty managed pool of buffers with jmalloc) - SPARK-2941: option to specicy nio vs oio vs epoll for channel/transport. By default nio is used. (Not using Epoll yet because I have found some bugs with its implementation) - SPARK-2943: options to specify send buf and receive buf for users who want to do hyper tuning TODOs before it can fully replace the existing ConnectionManager, if that ever happens (most of them should probably be done in separate PRs since this needs to be turned on explicitly) - [x] Basic test cases - [ ] More unit/integration tests for failures - [ ] Performance analysis - [ ] Support client connection reuse so we don't need to keep opening new connections (not sure how useful this would be) - [ ] Support putting blocks in addition to fetching blocks (i.e. two way transfer) - [x] Support serving non-disk blocks - [ ] Support SASL authentication For a more comprehensive list, see https://issues.apache.org/jira/browse/SPARK-2468 Thanks to @coderplay for peer coding with me on a Sunday. Author: Reynold Xin <rxin@apache.org> Closes #1907 from rxin/netty and squashes the following commits: f921421 [Reynold Xin] Upgrade Netty to 4.0.22.Final to fix another Epoll bug. 4b174ca [Reynold Xin] Shivaram's code review comment. 4a3dfe7 [Reynold Xin] Switched to nio for default (instead of epoll on Linux). 56bfb9d [Reynold Xin] Bump Netty version to 4.0.21.Final for some bug fixes. b443a4b [Reynold Xin] Added debug message to help debug Jenkins failures. 57fc4d7 [Reynold Xin] Added test cases for BlockHeaderEncoder and BlockFetchingClientHandlerSuite. 22623e9 [Reynold Xin] Added exception handling and test case for BlockServerHandler and BlockFetchingClientHandler. 6550dd7 [Reynold Xin] Fixed block mgr init bug. 60c2edf [Reynold Xin] Beefed up server/client integration tests. 38d88d5 [Reynold Xin] Added missing test files. 6ce3f3c [Reynold Xin] Added some basic test cases. 47f7ce0 [Reynold Xin] Created server and client packages and moved files there. b16f412 [Reynold Xin] Added commit count. f13022d [Reynold Xin] Remove unused clone() in BlockFetcherIterator. c57d68c [Reynold Xin] Added back missing files. 842dfa7 [Reynold Xin] Made everything work with proper reference counting. 3fae001 [Reynold Xin] Connected the new netty network module with rest of Spark. 1a8f6d4 [Reynold Xin] Completed protocol documentation. 2951478 [Reynold Xin] New Netty implementation. cc7843d [Reynold Xin] Basic skeleton.
* SPARK-2879 part 2 [BUILD] Use HTTPS to access Maven Central and other reposSean Owen2014-08-071-2/+4
| | | | | | | | | | .. and use canonical repo1.maven.org Maven Central repo. (And make sure snapshots are disabled for plugins from Maven Central.) Author: Sean Owen <srowen@gmail.com> Closes #1828 from srowen/SPARK-2879.2 and squashes the following commits: 639f495 [Sean Owen] .. and use canonical repo1.maven.org Maven Central repo. (And make sure snapshots are disabled for plugins from Maven Central.)
* SPARK-2879 [BUILD] Use HTTPS to access Maven Central and other reposSean Owen2014-08-061-3/+12
| | | | | | | | | | | | | | Maven Central has just now enabled HTTPS access for everyone to Maven Central (http://central.sonatype.org/articles/2014/Aug/03/https-support-launching-now/) This is timely, as a reminder of how easily an attacker can slip malicious code into a build that's downloading artifacts over HTTP (http://blog.ontoillogical.com/blog/2014/07/28/how-to-take-over-any-java-developer/). In the meantime, it looks like the Spring repo also now supports HTTPS, so can be used this way too. I propose to use HTTPS to access these repos. Author: Sean Owen <srowen@gmail.com> Closes #1805 from srowen/SPARK-2879 and squashes the following commits: 7043a8e [Sean Owen] Use HTTPS for Maven Central libs and plugins; use id 'central' to override parent properly; use HTTPS for Spring repo
* [SPARK-2810] upgrade to scala-maven-plugin 3.2.0Anand Avati2014-08-031-1/+1
| | | | | | | | | | | | Needed for Scala 2.11 compiler-interface Signed-off-by: Anand Avati <avatiredhat.com> Author: Anand Avati <avati@redhat.com> Closes #1711 from avati/SPARK-1812-scala-maven-plugin and squashes the following commits: 9a22fc8 [Anand Avati] SPARK-1812: upgrade to scala-maven-plugin 3.2.0
* SPARK-2602 [BUILD] Tests steal focus under Java 6Sean Owen2014-08-021-0/+1
| | | | | | | | | | As per https://issues.apache.org/jira/browse/SPARK-2602 , this may be resolved for Java 6 with the java.awt.headless system property, which never hurt anyone running a command line app. I tested it and seemed to get rid of focus stealing. Author: Sean Owen <srowen@gmail.com> Closes #1747 from srowen/SPARK-2602 and squashes the following commits: b141018 [Sean Owen] Set java.awt.headless during tests
* [SPARK-1981] Add AWS Kinesis streaming supportChris Fregly2014-08-021-0/+10
| | | | | | | | | | | | | | | | | | | | | | | | | Author: Chris Fregly <chris@fregly.com> Closes #1434 from cfregly/master and squashes the following commits: 4774581 [Chris Fregly] updated docs, renamed retry to retryRandom to be more clear, removed retries around store() method 0393795 [Chris Fregly] moved Kinesis examples out of examples/ and back into extras/kinesis-asl 691a6be [Chris Fregly] fixed tests and formatting, fixed a bug with JavaKinesisWordCount during union of streams 0e1c67b [Chris Fregly] Merge remote-tracking branch 'upstream/master' 74e5c7c [Chris Fregly] updated per TD's feedback. simplified examples, updated docs e33cbeb [Chris Fregly] Merge remote-tracking branch 'upstream/master' bf614e9 [Chris Fregly] per matei's feedback: moved the kinesis examples into the examples/ dir d17ca6d [Chris Fregly] per TD's feedback: updated docs, simplified the KinesisUtils api 912640c [Chris Fregly] changed the foundKinesis class to be a publically-avail class db3eefd [Chris Fregly] Merge remote-tracking branch 'upstream/master' 21de67f [Chris Fregly] Merge remote-tracking branch 'upstream/master' 6c39561 [Chris Fregly] parameterized the versions of the aws java sdk and kinesis client 338997e [Chris Fregly] improve build docs for kinesis 828f8ae [Chris Fregly] more cleanup e7c8978 [Chris Fregly] Merge remote-tracking branch 'upstream/master' cd68c0d [Chris Fregly] fixed typos and backward compatibility d18e680 [Chris Fregly] Merge remote-tracking branch 'upstream/master' b3b0ff1 [Chris Fregly] [SPARK-1981] Add AWS Kinesis streaming support
* [HOTFIX] Do not throw NPE if spark.test.home is not setAndrew Or2014-08-021-4/+4
| | | | | | | | | | `spark.test.home` was introduced in #1734. This is fine for SBT but is failing maven tests. Either way it shouldn't throw an NPE. Author: Andrew Or <andrewor14@gmail.com> Closes #1739 from andrewor14/fix-spark-test-home and squashes the following commits: ce2624c [Andrew Or] Do not throw NPE if spark.test.home is not set
* Revert "[SPARK-1470][SPARK-1842] Use the scala-logging wrapper instead of ↵Patrick Wendell2014-08-011-5/+0
| | | | | | the directly sfl4j api" This reverts commit adc8303294e26efb4ed15e5f5ba1062f7988625d.
* [SPARK-1470][SPARK-1842] Use the scala-logging wrapper instead of the ↵GuoQiang Li2014-08-011-0/+5
| | | | | | | | | | | directly sfl4j api Author: GuoQiang Li <witgo@qq.com> Closes #1369 from witgo/SPARK-1470_new and squashes the following commits: 66a1641 [GuoQiang Li] IncompatibleResultTypeProblem 73a89ba [GuoQiang Li] Use the scala-logging wrapper instead of the directly sfl4j api.
* [SPARK-2054][SQL] Code Generation for Expression EvaluationMichael Armbrust2014-07-291-0/+10
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Adds a new method for evaluating expressions using code that is generated though Scala reflection. This functionality is configured by the SQLConf option `spark.sql.codegen` and is currently turned off by default. Evaluation can be done in several specialized ways: - *Projection* - Given an input row, produce a new row from a set of expressions that define each column in terms of the input row. This can either produce a new Row object or perform the projection in-place on an existing Row (MutableProjection). - *Ordering* - Compares two rows based on a list of `SortOrder` expressions - *Condition* - Returns `true` or `false` given an input row. For each of the above operations there is both a Generated and Interpreted version. When generation for a given expression type is undefined, the code generator falls back on calling the `eval` function of the expression class. Even without custom code, there is still a potential speed up, as loops are unrolled and code can still be inlined by JIT. This PR also contains a new type of Aggregation operator, `GeneratedAggregate`, that performs aggregation by using generated `Projection` code. Currently the required expression rewriting only works for simple aggregations like `SUM` and `COUNT`. This functionality will be extended in a future PR. This PR also performs several clean ups that simplified the implementation: - The notion of `Binding` all expressions in a tree automatically before query execution has been removed. Instead it is the responsibly of an operator to provide the input schema when creating one of the specialized evaluators defined above. In cases when the standard eval method is going to be called, binding can still be done manually using `BindReferences`. There are a few reasons for this change: First, there were many operators where it just didn't work before. For example, operators with more than one child, and operators like aggregation that do significant rewriting of the expression. Second, the semantics of equality with `BoundReferences` are broken. Specifically, we have had a few bugs where partitioning breaks because of the binding. - A copy of the current `SQLContext` is automatically propagated to all `SparkPlan` nodes by the query planner. Before this was done ad-hoc for the nodes that needed this. However, this required a lot of boilerplate as one had to always remember to make it `transient` and also had to modify the `otherCopyArgs`. Author: Michael Armbrust <michael@databricks.com> Closes #993 from marmbrus/newCodeGen and squashes the following commits: 96ef82c [Michael Armbrust] Merge remote-tracking branch 'apache/master' into newCodeGen f34122d [Michael Armbrust] Merge remote-tracking branch 'apache/master' into newCodeGen 67b1c48 [Michael Armbrust] Use conf variable in SQLConf object 4bdc42c [Michael Armbrust] Merge remote-tracking branch 'origin/master' into newCodeGen 41a40c9 [Michael Armbrust] Merge remote-tracking branch 'origin/master' into newCodeGen de22aac [Michael Armbrust] Merge remote-tracking branch 'origin/master' into newCodeGen fed3634 [Michael Armbrust] Inspectors are not serializable. ef8d42b [Michael Armbrust] comments 533fdfd [Michael Armbrust] More logging of expression rewriting for GeneratedAggregate. 3cd773e [Michael Armbrust] Allow codegen for Generate. 64b2ee1 [Michael Armbrust] Implement copy 3587460 [Michael Armbrust] Drop unused string builder function. 9cce346 [Michael Armbrust] Merge remote-tracking branch 'origin/master' into newCodeGen 1a61293 [Michael Armbrust] Address review comments. 0672e8a [Michael Armbrust] Address comments. 1ec2d6e [Michael Armbrust] Address comments 033abc6 [Michael Armbrust] off by default 4771fab [Michael Armbrust] Docs, more test coverage. d30fee2 [Michael Armbrust] Merge remote-tracking branch 'origin/master' into newCodeGen d2ad5c5 [Michael Armbrust] Refactor putting SQLContext into SparkPlan. Fix ordering, other test cases. be2cd6b [Michael Armbrust] WIP: Remove old method for reference binding, more work on configuration. bc88ecd [Michael Armbrust] Style 6cc97ca [Michael Armbrust] Merge remote-tracking branch 'origin/master' into newCodeGen 4220f1e [Michael Armbrust] Better config, docs, etc. ca6cc6b [Michael Armbrust] WIP 9d67d85 [Michael Armbrust] Fix hive planner fc522d5 [Michael Armbrust] Hook generated aggregation in to the planner. e742640 [Michael Armbrust] Remove unneeded changes and code. 675e679 [Michael Armbrust] Upgrade paradise. 0093376 [Michael Armbrust] Comment / indenting cleanup. d81f998 [Michael Armbrust] include schema for binding. 0e889e8 [Michael Armbrust] Use typeOf instead tq f623ffd [Michael Armbrust] Quiet logging from test suite. efad14f [Michael Armbrust] Remove some half finished functions. 92e74a4 [Michael Armbrust] add overrides a2b5408 [Michael Armbrust] WIP: Code generation with scala reflection.
* [SPARK-2082] stratified sampling in PairRDDFunctions that guarantees exact ↵Doris Xin2014-07-291-0/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | sample size Implemented stratified sampling that guarantees exact sample size using ScaRSR with two passes over the RDD for sampling without replacement and three passes for sampling with replacement. Author: Doris Xin <doris.s.xin@gmail.com> Author: Xiangrui Meng <meng@databricks.com> Closes #1025 from dorx/stratified and squashes the following commits: 245439e [Doris Xin] moved minSamplingRate to getUpperBound eaf5771 [Doris Xin] bug fixes. 17a381b [Doris Xin] fixed a merge issue and a failed unit ea7d27f [Doris Xin] merge master b223529 [Xiangrui Meng] use approx bounds for poisson fix poisson mean for waitlisting add unit tests for Java b3013a4 [Xiangrui Meng] move math3 back to test scope eecee5f [Doris Xin] Merge branch 'master' into stratified f4c21f3 [Doris Xin] Reviewer comments a10e68d [Doris Xin] style fix a2bf756 [Doris Xin] Merge branch 'master' into stratified 680b677 [Doris Xin] use mapPartitionWithIndex instead 9884a9f [Doris Xin] style fix bbfb8c9 [Doris Xin] Merge branch 'master' into stratified ee9d260 [Doris Xin] addressed reviewer comments 6b5b10b [Doris Xin] Merge branch 'master' into stratified 254e03c [Doris Xin] minor fixes and Java API. 4ad516b [Doris Xin] remove unused imports from PairRDDFunctions bd9dc6e [Doris Xin] unit bug and style violation fixed 1fe1cff [Doris Xin] Changed fractionByKey to a map to enable arg check 944a10c [Doris Xin] [SPARK-2145] Add lower bound on sampling rate 0214a76 [Doris Xin] cleanUp 90d94c0 [Doris Xin] merge master 9e74ab5 [Doris Xin] Separated out most of the logic in sampleByKey 7327611 [Doris Xin] merge master 50581fc [Doris Xin] added a TODO for logging in python 46f6c8c [Doris Xin] fixed the NPE caused by closures being cleaned before being passed into the aggregate function 7e1a481 [Doris Xin] changed the permission on SamplingUtil 1d413ce [Doris Xin] fixed checkstyle issues 9ee94ee [Doris Xin] [SPARK-2082] stratified sampling in PairRDDFunctions that guarantees exact sample size e3fd6a6 [Doris Xin] Merge branch 'master' into takeSample 7cab53a [Doris Xin] fixed import bug in rdd.py ffea61a [Doris Xin] SPARK-1939: Refactor takeSample method in RDD 1441977 [Doris Xin] SPARK-1939 Refactor takeSample method in RDD to use ScaSRS
* [STREAMING] SPARK-1729. Make Flume pull data from source, rather than the ↵Hari Shreedharan2014-07-291-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | current pu... ...sh model Currently Spark uses Flume's internal Avro Protocol to ingest data from Flume. If the executor running the receiver fails, it currently has to be restarted on the same node to be able to receive data. This commit adds a new Sink which can be deployed to a Flume agent. This sink can be polled by a new DStream that is also included in this commit. This model ensures that data can be pulled into Spark from Flume even if the receiver is restarted on a new node. This also allows the receiver to receive data on multiple threads for better performance. Author: Hari Shreedharan <harishreedharan@gmail.com> Author: Hari Shreedharan <hshreedharan@apache.org> Author: Tathagata Das <tathagata.das1565@gmail.com> Author: harishreedharan <hshreedharan@cloudera.com> Closes #807 from harishreedharan/master and squashes the following commits: e7f70a3 [Hari Shreedharan] Merge remote-tracking branch 'asf-git/master' 96cfb6f [Hari Shreedharan] Merge remote-tracking branch 'asf/master' e48d785 [Hari Shreedharan] Documenting flume-sink being ignored for Mima checks. 5f212ce [Hari Shreedharan] Ignore Spark Sink from mima. 981bf62 [Hari Shreedharan] Merge remote-tracking branch 'asf/master' 7a1bc6e [Hari Shreedharan] Fix SparkBuild.scala a082eb3 [Hari Shreedharan] Merge remote-tracking branch 'asf/master' 1f47364 [Hari Shreedharan] Minor fixes. 73d6f6d [Hari Shreedharan] Cleaned up tests a bit. Added some docs in multiple places. 65b76b4 [Hari Shreedharan] Fixing the unit test. e59cc20 [Hari Shreedharan] Use SparkFlumeEvent instead of the new type. Also, Flume Polling Receiver now uses the store(ArrayBuffer) method. f3c99d1 [Hari Shreedharan] Merge remote-tracking branch 'asf/master' 3572180 [Hari Shreedharan] Adding a license header, making Jenkins happy. 799509f [Hari Shreedharan] Fix a compile issue. 3c5194c [Hari Shreedharan] Merge remote-tracking branch 'asf/master' d248d22 [harishreedharan] Merge pull request #1 from tdas/flume-polling 10b6214 [Tathagata Das] Changed public API, changed sink package, and added java unit test to make sure Java API is callable from Java. 1edc806 [Hari Shreedharan] SPARK-1729. Update logging in Spark Sink. 8c00289 [Hari Shreedharan] More debug messages 393bd94 [Hari Shreedharan] SPARK-1729. Use LinkedBlockingQueue instead of ArrayBuffer to keep track of connections. 120e2a1 [Hari Shreedharan] SPARK-1729. Some test changes and changes to utils classes. 9fd0da7 [Hari Shreedharan] SPARK-1729. Use foreach instead of map for all Options. 8136aa6 [Hari Shreedharan] Adding TransactionProcessor to map on returning batch of data 86aa274 [Hari Shreedharan] Merge remote-tracking branch 'asf/master' 205034d [Hari Shreedharan] Merging master in 4b0c7fc [Hari Shreedharan] FLUME-1729. New Flume-Spark integration. bda01fc [Hari Shreedharan] FLUME-1729. Flume-Spark integration. 0d69604 [Hari Shreedharan] FLUME-1729. Better Flume-Spark integration. 3c23c18 [Hari Shreedharan] SPARK-1729. New Spark-Flume integration. 70bcc2a [Hari Shreedharan] SPARK-1729. New Flume-Spark integration. d6fa3aa [Hari Shreedharan] SPARK-1729. New Flume-Spark integration. e7da512 [Hari Shreedharan] SPARK-1729. Fixing import order 9741683 [Hari Shreedharan] SPARK-1729. Fixes based on review. c604a3c [Hari Shreedharan] SPARK-1729. Optimize imports. 0f10788 [Hari Shreedharan] SPARK-1729. Make Flume pull data from source, rather than the current push model 87775aa [Hari Shreedharan] SPARK-1729. Make Flume pull data from source, rather than the current push model 8df37e4 [Hari Shreedharan] SPARK-1729. Make Flume pull data from source, rather than the current push model 03d6c1c [Hari Shreedharan] SPARK-1729. Make Flume pull data from source, rather than the current push model 08176ad [Hari Shreedharan] SPARK-1729. Make Flume pull data from source, rather than the current push model d24d9d4 [Hari Shreedharan] SPARK-1729. Make Flume pull data from source, rather than the current push model 6d6776a [Hari Shreedharan] SPARK-1729. Make Flume pull data from source, rather than the current push model
* [SPARK-2410][SQL] Merging Hive Thrift/JDBC server (with Maven profile fix)Cheng Lian2014-07-281-3/+13
| | | | | | | | | | | | | | | JIRA issue: [SPARK-2410](https://issues.apache.org/jira/browse/SPARK-2410) Another try for #1399 & #1600. Those two PR breaks Jenkins builds because we made a separate profile `hive-thriftserver` in sub-project `assembly`, but the `hive-thriftserver` module is defined outside the `hive-thriftserver` profile. Thus every time a pull request that doesn't touch SQL code will also execute test suites defined in `hive-thriftserver`, but tests fail because related .class files are not included in the assembly jar. In the most recent commit, module `hive-thriftserver` is moved into its own profile to fix this problem. All previous commits are squashed for clarity. Author: Cheng Lian <lian.cs.zju@gmail.com> Closes #1620 from liancheng/jdbc-with-maven-fix and squashes the following commits: 629988e [Cheng Lian] Moved hive-thriftserver module definition into its own profile ec3c7a7 [Cheng Lian] Cherry picked the Hive Thrift server
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