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* Change timestamp cast semantics. When cast to numeric types, return the unix ↵Reynold Xin2014-04-073-12/+40
| | | | | | | | | | | | | time in seconds (instead of millis). @marmbrus @chenghao-intel Author: Reynold Xin <rxin@apache.org> Closes #352 from rxin/timestamp-cast and squashes the following commits: 18aacd3 [Reynold Xin] Fixed precision for double. 2adb235 [Reynold Xin] Change timestamp cast semantics. When cast to numeric types, return the unix time in seconds (instead of millis).
* Added eval for Rand (without any support for user-defined seed).Reynold Xin2014-04-071-3/+10
| | | | | | | | Author: Reynold Xin <rxin@apache.org> Closes #349 from rxin/rand and squashes the following commits: fd11322 [Reynold Xin] Added eval for Rand (without any support for user-defined seed).
* Removed the default eval implementation from Expression, and added a bunch ↵Reynold Xin2014-04-078-45/+89
| | | | | | | | | | | | of override's in classes I touched. It is more robust to not provide a default implementation for Expression's. Author: Reynold Xin <rxin@apache.org> Closes #350 from rxin/eval-default and squashes the following commits: 0a83b8f [Reynold Xin] Removed the default eval implementation from Expression, and added a bunch of override's in classes I touched.
* [sql] Rename execution/aggregates.scala Aggregate.scala, and added a bunch ↵Reynold Xin2014-04-071-9/+9
| | | | | | | | | | of private[this] to variables. Author: Reynold Xin <rxin@apache.org> Closes #348 from rxin/aggregate and squashes the following commits: f4bc36f [Reynold Xin] Rename execution/aggregates.scala Aggregate.scala, and added a bunch of private[this] to variables.
* SPARK-1099: Introduce local[*] mode to infer number of coresAaron Davidson2014-04-077-12/+25
| | | | | | | | | | | This is the default mode for running spark-shell and pyspark, intended to allow users running spark for the first time to see the performance benefits of using multiple cores, while not breaking backwards compatibility for users who use "local" mode and expect exactly 1 core. Author: Aaron Davidson <aaron@databricks.com> Closes #182 from aarondav/110 and squashes the following commits: a88294c [Aaron Davidson] Rebased changes for new spark-shell a9f393e [Aaron Davidson] SPARK-1099: Introduce local[*] mode to infer number of cores
* HOTFIX: Disable actor input stream test.Patrick Wendell2014-04-071-2/+2
| | | | | | | | | | This test makes incorrect assumptions about the behavior of Thread.sleep(). Author: Patrick Wendell <pwendell@gmail.com> Closes #347 from pwendell/stream-tests and squashes the following commits: 10e09e0 [Patrick Wendell] HOTFIX: Disable actor input stream.
* SPARK-1252. On YARN, use container-log4j.properties for executorsSandy Ryza2014-04-077-5/+53
| | | | | | | | | | | | | | | | | container-log4j.properties is a file that YARN provides so that containers can have log4j.properties distinct from that of the NodeManagers. Logs now go to syslog, and stderr and stdout just have the process's standard err and standard out. I tested this on pseudo-distributed clusters for both yarn (Hadoop 2.2) and yarn-alpha (Hadoop 0.23.7)/ Author: Sandy Ryza <sandy@cloudera.com> Closes #148 from sryza/sandy-spark-1252 and squashes the following commits: c0043b8 [Sandy Ryza] Put log4j.properties file under common 55823da [Sandy Ryza] Add license headers to new files 10934b8 [Sandy Ryza] Add log4j-spark-container.properties and support SPARK_LOG4J_CONF e74450b [Sandy Ryza] SPARK-1252. On YARN, use container-log4j.properties for executors
* [sql] Rename Expression.apply to eval for better readability.Reynold Xin2014-04-0724-159/+156
| | | | | | | | | | | | | | Also used this opportunity to add a bunch of override's and made some members private. Author: Reynold Xin <rxin@apache.org> Closes #340 from rxin/eval and squashes the following commits: a7c7ca7 [Reynold Xin] Fixed conflicts in merge. 9069de6 [Reynold Xin] Merge branch 'master' into eval 3ccc313 [Reynold Xin] Merge branch 'master' into eval 1a47e10 [Reynold Xin] Renamed apply to eval for generators and added a bunch of override's. ea061de [Reynold Xin] Rename Expression.apply to eval for better readability.
* SPARK-1432: Make sure that all metadata fields are properly cleanedDavis Shepherd2014-04-071-2/+3
| | | | | | | | | | While working on spark-1337 with @pwendell, we noticed that not all of the metadata maps in JobProgessListener were being properly cleaned. This could lead to a (hypothetical) memory leak issue should a job run long enough. This patch aims to address the issue. Author: Davis Shepherd <davis@conviva.com> Closes #338 from dgshep/master and squashes the following commits: a77b65c [Davis Shepherd] In the contex of SPARK-1337: Make sure that all metadata fields are properly cleaned
* [SQL] SPARK-1427 Fix toString for SchemaRDD NativeCommands.Michael Armbrust2014-04-074-2/+13
| | | | | | | | Author: Michael Armbrust <michael@databricks.com> Closes #343 from marmbrus/toStringFix and squashes the following commits: 37198fe [Michael Armbrust] Fix toString for SchemaRDD NativeCommands.
* [SQL] SPARK-1371 Hash Aggregation ImprovementsMichael Armbrust2014-04-078-160/+157
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Given: ```scala case class Data(a: Int, b: Int) val rdd = sparkContext .parallelize(1 to 200) .flatMap(_ => (1 to 50000).map(i => Data(i % 100, i))) rdd.registerAsTable("data") cacheTable("data") ``` Before: ``` SELECT COUNT(*) FROM data:[10000000] 16795.567ms SELECT a, SUM(b) FROM data GROUP BY a 7536.436ms SELECT SUM(b) FROM data 10954.1ms ``` After: ``` SELECT COUNT(*) FROM data:[10000000] 1372.175ms SELECT a, SUM(b) FROM data GROUP BY a 2070.446ms SELECT SUM(b) FROM data 958.969ms ``` Author: Michael Armbrust <michael@databricks.com> Closes #295 from marmbrus/hashAgg and squashes the following commits: ec63575 [Michael Armbrust] Add comment. d0495a9 [Michael Armbrust] Use scaladoc instead. b4a6887 [Michael Armbrust] Address review comments. a2d90ba [Michael Armbrust] Capture child output statically to avoid issues with generators and serialization. 7c13112 [Michael Armbrust] Rewrite Aggregate operator to stream input and use projections. Remove unused local RDD functions implicits. 5096f99 [Michael Armbrust] Make HiveUDAF fields transient since object inspectors are not serializable. 6a4b671 [Michael Armbrust] Add option to avoid binding operators expressions automatically. 92cca08 [Michael Armbrust] Always include serialization debug info when running tests. 1279df2 [Michael Armbrust] Increase default number of partitions.
* SPARK-1431: Allow merging conflicting pull requestsPatrick Wendell2014-04-061-4/+22
| | | | | | | | | | | Sometimes if there is a small conflict it's nice to be able to just manually fix it up rather than have another RTT with the contributor. Author: Patrick Wendell <pwendell@gmail.com> Closes #342 from pwendell/merge-conflicts and squashes the following commits: cdce61a [Patrick Wendell] SPARK-1431: Allow merging conflicting pull requests
* SPARK-1154: Clean up app folders in worker nodesEvan Chan2014-04-065-4/+83
| | | | | | | | | | | | | | | | | | | | | | | | | | | This is a fix for [SPARK-1154](https://issues.apache.org/jira/browse/SPARK-1154). The issue is that worker nodes fill up with a huge number of app-* folders after some time. This change adds a periodic cleanup task which asynchronously deletes app directories older than a configurable TTL. Two new configuration parameters have been introduced: spark.worker.cleanup_interval spark.worker.app_data_ttl This change does not include moving the downloads of application jars to a location outside of the work directory. We will address that if we have time, but that potentially involves caching so it will come either as part of this PR or a separate PR. Author: Evan Chan <ev@ooyala.com> Author: Kelvin Chu <kelvinkwchu@yahoo.com> Closes #288 from velvia/SPARK-1154-cleanup-app-folders and squashes the following commits: 0689995 [Evan Chan] CR from @aarondav - move config, clarify for standalone mode 9f10d96 [Evan Chan] CR from @pwendell - rename configs and add cleanup.enabled f2f6027 [Evan Chan] CR from @andrewor14 553d8c2 [Kelvin Chu] change the variable name to currentTimeMillis since it actually tracks in seconds 8dc9cb5 [Kelvin Chu] Fixed a bug in Utils.findOldFiles() after merge. cb52f2b [Kelvin Chu] Change the name of findOldestFiles() to findOldFiles() 72f7d2d [Kelvin Chu] Fix a bug of Utils.findOldestFiles(). file.lastModified is returned in milliseconds. ad99955 [Kelvin Chu] Add unit test for Utils.findOldestFiles() dc1a311 [Evan Chan] Don't recompute current time with every new file e3c408e [Evan Chan] Document the two new settings b92752b [Evan Chan] SPARK-1154: Add a periodic task to clean up app directories
* SPARK-1314: Use SPARK_HIVE to determine if we include Hive in packagingAaron Davidson2014-04-068-32/+83
| | | | | | | | | | | | | | | | | | | | | | | | Previously, we based our decision regarding including datanucleus jars based on the existence of a spark-hive-assembly jar, which was incidentally built whenever "sbt assembly" is run. This means that a typical and previously supported pathway would start using hive jars. This patch has the following features/bug fixes: - Use of SPARK_HIVE (default false) to determine if we should include Hive in the assembly jar. - Analagous feature in Maven with -Phive (previously, there was no support for adding Hive to any of our jars produced by Maven) - assemble-deps fixed since we no longer use a different ASSEMBLY_DIR - avoid adding log message in compute-classpath.sh to the classpath :) Still TODO before mergeable: - We need to download the datanucleus jars outside of sbt. Perhaps we can have spark-class download them if SPARK_HIVE is set similar to how sbt downloads itself. - Spark SQL documentation updates. Author: Aaron Davidson <aaron@databricks.com> Closes #237 from aarondav/master and squashes the following commits: 5dc4329 [Aaron Davidson] Typo fixes dd4f298 [Aaron Davidson] Doc update dd1a365 [Aaron Davidson] Eliminate need for SPARK_HIVE at runtime by d/ling datanucleus from Maven a9269b5 [Aaron Davidson] [WIP] Use SPARK_HIVE to determine if we include Hive in packaging
* SPARK-1349: spark-shell gets its own command historyAaron Davidson2014-04-061-1/+11
| | | | | | | | | | | | | Currently, spark-shell shares its command history with scala repl. This fix is simply a modification of the default FileBackedHistory file setting: https://github.com/scala/scala/blob/master/src/repl/scala/tools/nsc/interpreter/session/FileBackedHistory.scala#L77 Author: Aaron Davidson <aaron@databricks.com> Closes #267 from aarondav/repl and squashes the following commits: f9c62d2 [Aaron Davidson] SPARK-1349: spark-shell gets its own command history separate from scala repl
* SPARK-1387. Update build plugins, avoid plugin version warning, centralize ↵Sean Owen2014-04-0610-50/+57
| | | | | | | | | | | | | | | | | | | | versions Another handful of small build changes to organize and standardize a bit, and avoid warnings: - Update Maven plugin versions for good measure - Since plugins need maven 3.0.4 already, require it explicitly (<3.0.4 had some bugs anyway) - Use variables to define versions across dependencies where they should move in lock step - ... and make this consistent between Maven/SBT OK, I also updated the JIRA URL while I was at it here. Author: Sean Owen <sowen@cloudera.com> Closes #291 from srowen/SPARK-1387 and squashes the following commits: 461eca1 [Sean Owen] Couldn't resist also updating JIRA location to new one c2d5cc5 [Sean Owen] Update plugins and Maven version; use variables consistently across Maven/SBT to define dependency versions that should stay in step.
* [SPARK-1259] Make RDD locally iterableEgor Pakhomov2014-04-064-1/+35
| | | | | | | | | | | | | Author: Egor Pakhomov <pahomov.egor@gmail.com> Closes #156 from epahomov/SPARK-1259 and squashes the following commits: 8ec8f24 [Egor Pakhomov] Make to local iterator shorter 34aa300 [Egor Pakhomov] Fix toLocalIterator docs 08363ef [Egor Pakhomov] SPARK-1259 from toLocallyIterable to toLocalIterator 6a994eb [Egor Pakhomov] SPARK-1259 Make RDD locally iterable 8be3dcf [Egor Pakhomov] SPARK-1259 Make RDD locally iterable 33ecb17 [Egor Pakhomov] SPARK-1259 Make RDD locally iterable
* Fix SPARK-1420 The maven build error for Spark Catalystwitgo2014-04-061-0/+4
| | | | | | | | Author: witgo <witgo@qq.com> Closes #333 from witgo/SPARK-1420 and squashes the following commits: 902519e [witgo] add dependency scala-reflect to catalyst
* SPARK-1421. Make MLlib work on Python 2.6Matei Zaharia2014-04-054-9/+13
| | | | | | | | | | | The reason it wasn't working was passing a bytearray to stream.write(), which is not supported in Python 2.6 but is in 2.7. (This array came from NumPy when we converted data to send it over to Java). Now we just convert those bytearrays to strings of bytes, which preserves nonprintable characters as well. Author: Matei Zaharia <matei@databricks.com> Closes #335 from mateiz/mllib-python-2.6 and squashes the following commits: f26c59f [Matei Zaharia] Update docs to no longer say we need Python 2.7 a84d6af [Matei Zaharia] SPARK-1421. Make MLlib work on Python 2.6
* Fix for PR #195 for Java 6Sean Owen2014-04-051-1/+1
| | | | | | | | | | Use Java 6's recommended equivalent of Java 7's Logger.getGlobal() to retain Java 6 compatibility. See PR #195 Author: Sean Owen <sowen@cloudera.com> Closes #334 from srowen/FixPR195ForJava6 and squashes the following commits: f92fbd3 [Sean Owen] Use Java 6's recommended equivalent of Java 7's Logger.getGlobal() to retain Java 6 compatibility
* [SPARK-1371] fix computePreferredLocations signature to not depend on ↵Mridul Muralidharan2014-04-051-3/+2
| | | | | | | | | | | | | underlying implementation Change to Map and Set - not mutable HashMap and HashSet Author: Mridul Muralidharan <mridulm80@apache.org> Closes #302 from mridulm/master and squashes the following commits: df747af [Mridul Muralidharan] Address review comments 17e2907 [Mridul Muralidharan] fix computePreferredLocations signature to not depend on underlying implementation
* Remove the getStageInfo() method from SparkContext.Kay Ousterhout2014-04-052-5/+1
| | | | | | | | | | | | | | This method exposes the Stage objects, which are private to Spark and should not be exposed to the user. This method was added in https://github.com/apache/spark/commit/01d77f329f5878b7c8672bbdc1859f3ca95d759d; ccing @squito here in case there's a good reason to keep this! Author: Kay Ousterhout <kayousterhout@gmail.com> Closes #308 from kayousterhout/remove_public_method and squashes the following commits: 2e2f009 [Kay Ousterhout] Remove the getStageInfo() method from SparkContext.
* HOTFIX for broken CI, by SPARK-1336Prashant Sharma2014-04-043-7/+8
| | | | | | | | | | | | | | Learnt about `set -o pipefail` is very useful. Author: Prashant Sharma <prashant.s@imaginea.com> Author: Prashant Sharma <scrapcodes@gmail.com> Closes #321 from ScrapCodes/hf-SPARK-1336 and squashes the following commits: 9d22bc2 [Prashant Sharma] added comment why echo -e q exists. f865951 [Prashant Sharma] made error to match with word boundry so errors does not match. This is there to make sure build fails if provided SparkBuild has compile errors. 7fffdf2 [Prashant Sharma] Removed a stray line. 97379d8 [Prashant Sharma] HOTFIX for broken CI, by SPARK-1336
* small fix ( proogram -> program )Prabeesh K2014-04-041-1/+1
| | | | | | | | Author: Prabeesh K <prabsmails@gmail.com> Closes #331 from prabeesh/patch-3 and squashes the following commits: 9399eb5 [Prabeesh K] small fix(proogram -> program)
* [SQL] SPARK-1366 Consistent sql function across different types of SQLContextsMichael Armbrust2014-04-048-50/+63
| | | | | | | | | | | Now users who want to use HiveQL should explicitly say `hiveql` or `hql`. Author: Michael Armbrust <michael@databricks.com> Closes #319 from marmbrus/standardizeSqlHql and squashes the following commits: de68d0e [Michael Armbrust] Fix sampling test. fbe4a54 [Michael Armbrust] Make `sql` always use spark sql parser, users of hive context can now use hql or hiveql to run queries using HiveQL instead.
* SPARK-1305: Support persisting RDD's directly to TachyonHaoyuan Li2014-04-0429-169/+976
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Move the PR#468 of apache-incubator-spark to the apache-spark "Adding an option to persist Spark RDD blocks into Tachyon." Author: Haoyuan Li <haoyuan@cs.berkeley.edu> Author: RongGu <gurongwalker@gmail.com> Closes #158 from RongGu/master and squashes the following commits: 72b7768 [Haoyuan Li] merge master 9f7fa1b [Haoyuan Li] fix code style ae7834b [Haoyuan Li] minor cleanup a8b3ec6 [Haoyuan Li] merge master branch e0f4891 [Haoyuan Li] better check offheap. 55b5918 [RongGu] address matei's comment on the replication of offHeap storagelevel 7cd4600 [RongGu] remove some logic code for tachyonstore's replication 51149e7 [RongGu] address aaron's comment on returning value of the remove() function in tachyonstore 8adfcfa [RongGu] address arron's comment on inTachyonSize 120e48a [RongGu] changed the root-level dir name in Tachyon 5cc041c [Haoyuan Li] address aaron's comments 9b97935 [Haoyuan Li] address aaron's comments d9a6438 [Haoyuan Li] fix for pspark 77d2703 [Haoyuan Li] change python api.git status 3dcace4 [Haoyuan Li] address matei's comments 91fa09d [Haoyuan Li] address patrick's comments 589eafe [Haoyuan Li] use TRY_CACHE instead of MUST_CACHE 64348b2 [Haoyuan Li] update conf docs. ed73e19 [Haoyuan Li] Merge branch 'master' of github.com:RongGu/spark-1 619a9a8 [RongGu] set number of directories in TachyonStore back to 64; added a TODO tag for duplicated code from the DiskStore be79d77 [RongGu] find a way to clean up some unnecessay metods and classed to make the code simpler 49cc724 [Haoyuan Li] update docs with off_headp option 4572f9f [RongGu] reserving the old apply function API of StorageLevel 04301d3 [RongGu] rename StorageLevel.TACHYON to Storage.OFF_HEAP c9aeabf [RongGu] rename the StorgeLevel.TACHYON as StorageLevel.OFF_HEAP 76805aa [RongGu] unifies the config properties name prefix; add the configs into docs/configuration.md e700d9c [RongGu] add the SparkTachyonHdfsLR example and some comments fd84156 [RongGu] use randomUUID to generate sparkapp directory name on tachyon;minor code style fix 939e467 [Haoyuan Li] 0.4.1-thrift from maven central 86a2eab [Haoyuan Li] tachyon 0.4.1-thrift is in the staging repo. but jenkins failed to download it. temporarily revert it back to 0.4.1 16c5798 [RongGu] make the dependency on tachyon as tachyon-0.4.1-thrift eacb2e8 [RongGu] Merge branch 'master' of https://github.com/RongGu/spark-1 bbeb4de [RongGu] fix the JsonProtocolSuite test failure problem 6adb58f [RongGu] Merge branch 'master' of https://github.com/RongGu/spark-1 d827250 [RongGu] fix JsonProtocolSuie test failure 716e93b [Haoyuan Li] revert the version ca14469 [Haoyuan Li] bump tachyon version to 0.4.1-thrift 2825a13 [RongGu] up-merging to the current master branch of the apache spark 6a22c1a [Haoyuan Li] fix scalastyle 8968b67 [Haoyuan Li] exclude more libraries from tachyon dependency to be the same as referencing tachyon-client. 77be7e8 [RongGu] address mateiz's comment about the temp folder name problem. The implementation followed mateiz's advice. 1dcadf9 [Haoyuan Li] typo bf278fa [Haoyuan Li] fix python tests e82909c [Haoyuan Li] minor cleanup 776a56c [Haoyuan Li] address patrick's and ali's comments from the previous PR 8859371 [Haoyuan Li] various minor fixes and clean up e3ddbba [Haoyuan Li] add doc to use Tachyon cache mode. fcaeab2 [Haoyuan Li] address Aaron's comment e554b1e [Haoyuan Li] add python code 47304b3 [Haoyuan Li] make tachyonStore in BlockMananger lazy val; add more comments StorageLevels. dc8ef24 [Haoyuan Li] add old storelevel constructor e01a271 [Haoyuan Li] update tachyon 0.4.1 8011a96 [RongGu] fix a brought-in mistake in StorageLevel 70ca182 [RongGu] a bit change in comment 556978b [RongGu] fix the scalastyle errors 791189b [RongGu] "Adding an option to persist Spark RDD blocks into Tachyon." move the PR#468 of apache-incubator-spark to the apache-spark
* [SPARK-1419] Bumped parent POM to apache 14Mark Hamstra2014-04-041-1/+1
| | | | | | | | | | Keeping up-to-date with the parent, which includes some bugfixes. Author: Mark Hamstra <markhamstra@gmail.com> Closes #328 from markhamstra/Apache14 and squashes the following commits: 3f19975 [Mark Hamstra] Bumped parent POM to apache 14
* Add test utility for generating Jar files with compiled classes.Patrick Wendell2014-04-041-0/+98
| | | | | | | | | | | | This was requested by a few different people and may be generally useful, so I'd like to contribute this and not block on a different PR for it to get in. Author: Patrick Wendell <pwendell@gmail.com> Closes #326 from pwendell/class-loader-test-utils and squashes the following commits: ff3e88e [Patrick Wendell] Add test utility for generating Jar files with compiled classes.
* SPARK-1414. Python API for SparkContext.wholeTextFilesMatei Zaharia2014-04-045-7/+49
| | | | | | | | | | Also clarified comment on each file having to fit in memory Author: Matei Zaharia <matei@databricks.com> Closes #327 from mateiz/py-whole-files and squashes the following commits: 9ad64a5 [Matei Zaharia] SPARK-1414. Python API for SparkContext.wholeTextFiles
* [SQL] Minor fixes.Michael Armbrust2014-04-0410-34/+53
| | | | | | | | | | | | | | Author: Michael Armbrust <michael@databricks.com> Closes #315 from marmbrus/minorFixes and squashes the following commits: b23a15d [Michael Armbrust] fix scaladoc 11062ac [Michael Armbrust] Fix registering "SELECT *" queries as tables and caching them. As some tests for this and self-joins. 3997dc9 [Michael Armbrust] Move Row extractor to catalyst. 208bf5e [Michael Armbrust] More idiomatic naming of DSL functions. * subquery => as * for join condition => on, i.e., `r.join(s, condition = 'a == 'b)` =>`r.join(s, on = 'a == 'b)` 87211ce [Michael Armbrust] Correctly handle self joins of in-memory cached tables. 69e195e [Michael Armbrust] Change != to !== in the DSL since != will always translate to != on Any. 01f2dd5 [Michael Armbrust] Correctly assign aliases to tables in SqlParser.
* [SPARK-1198] Allow pipes tasks to run in different sub-directoriesThomas Graves2014-04-044-7/+137
| | | | | | | | | | | | | | | | | This works as is on Linux/Mac/etc but doesn't cover working on Windows. In here I use ln -sf for symlinks. Putting this up for comments on that. Do we want to create perhaps some classes for doing shell commands - Linux vs Windows. Is there some other way we want to do this? I assume we are still supporting jdk1.6? Also should I update the Java API for pipes to allow this parameter? Author: Thomas Graves <tgraves@apache.org> Closes #128 from tgravescs/SPARK1198 and squashes the following commits: abc1289 [Thomas Graves] remove extra tag in pom file ba23fc0 [Thomas Graves] Add support for symlink on windows, remove commons-io usage da4b221 [Thomas Graves] Merge branch 'master' of https://github.com/tgravescs/spark into SPARK1198 61be271 [Thomas Graves] Fix file name filter 6b783bd [Thomas Graves] style fixes 1ab49ca [Thomas Graves] Add support for running pipe tasks is separate directories
* Don't create SparkContext in JobProgressListenerSuite.Patrick Wendell2014-04-041-2/+2
| | | | | | | | | | This reduces the time of the test from 11 seconds to 20 milliseconds. Author: Patrick Wendell <pwendell@gmail.com> Closes #324 from pwendell/job-test and squashes the following commits: 868d9eb [Patrick Wendell] Don't create SparkContext in JobProgressListenerSuite.
* SPARK-1375. Additional spark-submit cleanupSandy Ryza2014-04-043-7/+10
| | | | | | | | Author: Sandy Ryza <sandy@cloudera.com> Closes #278 from sryza/sandy-spark-1375 and squashes the following commits: 5fbf1e9 [Sandy Ryza] SPARK-1375. Additional spark-submit cleanup
* [SPARK-1133] Add whole text files reader in MLlibXusen Yin2014-04-046-3/+313
| | | | | | | | | | | | | | | | | | | Here is a pointer to the former [PR164](https://github.com/apache/spark/pull/164). I add the pull request for the JIRA issue [SPARK-1133](https://spark-project.atlassian.net/browse/SPARK-1133), which brings a new files reader API in MLlib. Author: Xusen Yin <yinxusen@gmail.com> Closes #252 from yinxusen/whole-files-input and squashes the following commits: 7191be6 [Xusen Yin] refine comments 0af3faf [Xusen Yin] add JavaAPI test 01745ee [Xusen Yin] fix deletion error cc97dca [Xusen Yin] move whole text file API to Spark core d792cee [Xusen Yin] remove the typo character "+" 6bdf2c2 [Xusen Yin] test for small local file system block size a1f1e7e [Xusen Yin] add two extra spaces 28cb0fe [Xusen Yin] add whole text files reader
* SPARK-1404: Always upgrade spark-env.sh vars to environment varsAaron Davidson2014-04-042-2/+5
| | | | | | | | | | | | | This was broken when spark-env.sh was made idempotent, as the idempotence check is an environment variable, but the spark-env.sh variables may not have been. Tested in zsh, bash, and sh. Author: Aaron Davidson <aaron@databricks.com> Closes #310 from aarondav/SPARK-1404 and squashes the following commits: c3406a5 [Aaron Davidson] Add extra export in spark-shell 6a0e340 [Aaron Davidson] SPARK-1404: Always upgrade spark-env.sh vars to environment vars
* SPARK-1350. Always use JAVA_HOME to run executor container JVMs.Sandy Ryza2014-04-042-14/+3
| | | | | | | | Author: Sandy Ryza <sandy@cloudera.com> Closes #313 from sryza/sandy-spark-1350 and squashes the following commits: bb6d187 [Sandy Ryza] SPARK-1350. Always use JAVA_HOME to run executor container JVMs.
* SPARK-1337: Application web UI garbage collects newest stagesPatrick Wendell2014-04-032-6/+35
| | | | | | | | | | Simple fix... Author: Patrick Wendell <pwendell@gmail.com> Closes #320 from pwendell/stage-clean-up and squashes the following commits: 29be62e [Patrick Wendell] SPARK-1337: Application web UI garbage collects newest stages instead old ones
* Revert "[SPARK-1398] Removed findbugs jsr305 dependency"Patrick Wendell2014-04-033-0/+10
| | | | This reverts commit 92a86b285f8a4af1bdf577dd4c4ea0fd5ca8d682.
* Fix jenkins from giving the green light to builds that don't compile.Michael Armbrust2014-04-031-1/+1
| | | | | | | | | | | | Adding `| grep` swallows the non-zero return code from sbt failures. See [here](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/13735/consoleFull) for a Jenkins run that fails to compile, but still gets a green light. Note the [BUILD FIX] commit isn't actually part of this PR, but github is out of date. Author: Michael Armbrust <michael@databricks.com> Closes #317 from marmbrus/fixJenkins and squashes the following commits: 7c77ff9 [Michael Armbrust] Remove output filter that was swallowing non-zero exit codes for test failures.
* [BUILD FIX] Fix compilation of Spark SQL Java API.Michael Armbrust2014-04-031-1/+1
| | | | | | | | | | The JavaAPI and the Parquet improvements PRs didn't conflict, but broke the build. Author: Michael Armbrust <michael@databricks.com> Closes #316 from marmbrus/hotFixJavaApi and squashes the following commits: 0b84c2d [Michael Armbrust] Fix compilation of Spark SQL Java API.
* [SPARK-1134] Fix and document passing of arguments to IPythonDiana Carroll2014-04-031-1/+2
| | | | | | | | | | | | | | | | | This is based on @dianacarroll's previous pull request https://github.com/apache/spark/pull/227, and @joshrosen's comments on https://github.com/apache/spark/pull/38. Since we do want to allow passing arguments to IPython, this does the following: * It documents that IPython can't be used with standalone jobs for now. (Later versions of IPython will deal with PYTHONSTARTUP properly and enable this, see https://github.com/ipython/ipython/pull/5226, but no released version has that fix.) * If you run `pyspark` with `IPYTHON=1`, it passes your command-line arguments to it. This way you can do stuff like `IPYTHON=1 bin/pyspark notebook`. * The old `IPYTHON_OPTS` remains, but I've removed it from the documentation. This is in case people read an old tutorial that uses it. This is not a perfect solution and I'd also be okay with keeping things as they are today (ignoring `$@` for IPython and using IPYTHON_OPTS), and only doing the doc change. With this change though, when IPython fixes https://github.com/ipython/ipython/pull/5226, people will immediately be able to do `IPYTHON=1 bin/pyspark myscript.py` to run a standalone script and get all the benefits of running scripts in IPython (presumably better debugging and such). Without it, there will be no way to run scripts in IPython. @joshrosen you should probably take the final call on this. Author: Diana Carroll <dcarroll@cloudera.com> Closes #294 from mateiz/spark-1134 and squashes the following commits: 747bb13 [Diana Carroll] SPARK-1134 bug with ipython prevents non-interactive use with spark; only call ipython if no command line arguments were supplied
* [SQL] SPARK-1333 First draft of java APIMichael Armbrust2014-04-0311-50/+750
| | | | | | | | | | | | | | | | | | | | WIP: Some work remains... * [x] Hive support * [x] Tests * [x] Update docs Feedback welcome! Author: Michael Armbrust <michael@databricks.com> Closes #248 from marmbrus/javaSchemaRDD and squashes the following commits: b393913 [Michael Armbrust] @srowen 's java style suggestions. f531eb1 [Michael Armbrust] Address matei's comments. 33a1b1a [Michael Armbrust] Ignore JavaHiveSuite. 822f626 [Michael Armbrust] improve docs. ab91750 [Michael Armbrust] Improve Java SQL API: * Change JavaRow => Row * Add support for querying RDDs of JavaBeans * Docs * Tests * Hive support 0b859c8 [Michael Armbrust] First draft of java API.
* Spark 1162 Implemented takeOrdered in pyspark.Prashant Sharma2014-04-031-5/+102
| | | | | | | | | | | | | | | Since python does not have a library for max heap and usual tricks like inverting values etc.. does not work for all cases. We have our own implementation of max heap. Author: Prashant Sharma <prashant.s@imaginea.com> Closes #97 from ScrapCodes/SPARK-1162/pyspark-top-takeOrdered2 and squashes the following commits: 35f86ba [Prashant Sharma] code review 2b1124d [Prashant Sharma] fixed tests e8a08e2 [Prashant Sharma] Code review comments. 49e6ba7 [Prashant Sharma] SPARK-1162 added takeOrdered to pyspark
* [SPARK-1360] Add Timestamp Support for SQLCheng Hao2014-04-03119-115/+480
| | | | | | | | | | | | | | | | | | | | | | | | This PR includes: 1) Add new data type Timestamp 2) Add more data type casting base on Hive's Rule 3) Fix bug missing data type in both parsers (HiveQl & SQLParser). Author: Cheng Hao <hao.cheng@intel.com> Closes #275 from chenghao-intel/timestamp and squashes the following commits: df709e5 [Cheng Hao] Move orc_ends_with_nulls to blacklist 24b04b0 [Cheng Hao] Put 3 cases into the black lists(describe_pretty,describe_syntax,lateral_view_outer) fc512c2 [Cheng Hao] remove the unnecessary data type equality check in data casting d0d1919 [Cheng Hao] Add more data type for scala reflection 3259808 [Cheng Hao] Add the new Golden files 3823b97 [Cheng Hao] Update the UnitTest cases & add timestamp type for HiveQL 54a0489 [Cheng Hao] fix bug mapping to 0 (which is supposed to be null) when NumberFormatException occurs 9cb505c [Cheng Hao] Fix issues according to PR comments e529168 [Cheng Hao] Fix bug of converting from String 6fc8100 [Cheng Hao] Update Unit Test & CodeStyle 8a1d4d6 [Cheng Hao] Add DataType for SqlParser ce4385e [Cheng Hao] Add TimestampType Support
* Spark parquet improvementsAndre Schumacher2014-04-0315-212/+460
| | | | | | | | | | | | | | | | | A few improvements to the Parquet support for SQL queries: - Instead of files a ParquetRelation is now backed by a directory, which simplifies importing data from other sources - InsertIntoParquetTable operation now supports switching between overwriting or appending (at least in HiveQL) - tests now use the new API - Parquet logging can be set to WARNING level (Default) - Default compression for Parquet files (GZIP, as in parquet-mr) Author: Andre Schumacher <andre.schumacher@iki.fi> Closes #195 from AndreSchumacher/spark_parquet_improvements and squashes the following commits: 54df314 [Andre Schumacher] SPARK-1383 [SQL] Improvements to ParquetRelation
* [SPARK-1398] Removed findbugs jsr305 dependencyMark Hamstra2014-04-033-10/+0
| | | | | | | | | | Should be a painless upgrade, and does offer some significant advantages should we want to leverage FindBugs more during the 1.0 lifecycle. http://findbugs.sourceforge.net/findbugs2.html Author: Mark Hamstra <markhamstra@gmail.com> Closes #307 from markhamstra/findbugs and squashes the following commits: 99f2d09 [Mark Hamstra] Removed unnecessary findbugs jsr305 dependency
* [SQL] SPARK-1364 Improve datatype and test coverage for ScalaReflection ↵Michael Armbrust2014-04-022-0/+66
| | | | | | | | | | schema inference. Author: Michael Armbrust <michael@databricks.com> Closes #293 from marmbrus/reflectTypes and squashes the following commits: f54e8e8 [Michael Armbrust] Improve datatype and test coverage for ScalaReflection schema inference.
* [SPARK-1212, Part II] Support sparse data in MLlibXiangrui Meng2014-04-0240-591/+926
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | In PR https://github.com/apache/spark/pull/117, we added dense/sparse vector data model and updated KMeans to support sparse input. This PR is to replace all other `Array[Double]` usage by `Vector` in generalized linear models (GLMs) and Naive Bayes. Major changes: 1. `LabeledPoint` becomes `LabeledPoint(Double, Vector)`. 2. Methods that accept `RDD[Array[Double]]` now accept `RDD[Vector]`. We cannot support both in an elegant way because of type erasure. 3. Mark 'createModel' and 'predictPoint' protected because they are not for end users. 4. Add libSVMFile to MLContext. 5. NaiveBayes can accept arbitrary labels (introducing a breaking change to Python's `NaiveBayesModel`). 6. Gradient computation no longer creates temp vectors. 7. Column normalization and centering are removed from Lasso and Ridge because the operation will densify the data. Simple feature transformation can be done before training. TODO: 1. ~~Use axpy when possible.~~ 2. ~~Optimize Naive Bayes.~~ Author: Xiangrui Meng <meng@databricks.com> Closes #245 from mengxr/vector and squashes the following commits: eb6e793 [Xiangrui Meng] move libSVMFile to MLUtils and rename to loadLibSVMData c26c4fc [Xiangrui Meng] update DecisionTree to use RDD[Vector] 11999c7 [Xiangrui Meng] Merge branch 'master' into vector f7da54b [Xiangrui Meng] add minSplits to libSVMFile da25e24 [Xiangrui Meng] revert the change to default addIntercept because it might change the behavior of existing code without warning 493f26f [Xiangrui Meng] Merge branch 'master' into vector 7c1bc01 [Xiangrui Meng] add a TODO to NB b9b7ef7 [Xiangrui Meng] change default value of addIntercept to false b01df54 [Xiangrui Meng] allow to change or clear threshold in LR and SVM 4addc50 [Xiangrui Meng] merge master 4ca5b1b [Xiangrui Meng] remove normalization from Lasso and update tests f04fe8a [Xiangrui Meng] remove normalization from RidgeRegression and update tests d088552 [Xiangrui Meng] use static constructor for MLContext 6f59eed [Xiangrui Meng] update libSVMFile to determine number of features automatically 3432e84 [Xiangrui Meng] update NaiveBayes to support sparse data 0f8759b [Xiangrui Meng] minor updates to NB b11659c [Xiangrui Meng] style update 78c4671 [Xiangrui Meng] add libSVMFile to MLContext f0fe616 [Xiangrui Meng] add a test for sparse linear regression 44733e1 [Xiangrui Meng] use in-place gradient computation e981396 [Xiangrui Meng] use axpy in Updater db808a1 [Xiangrui Meng] update JavaLR example befa592 [Xiangrui Meng] passed scala/java tests 75c83a4 [Xiangrui Meng] passed test compile 1859701 [Xiangrui Meng] passed compile 834ada2 [Xiangrui Meng] optimized MLUtils.computeStats update some ml algorithms to use Vector (cont.) 135ab72 [Xiangrui Meng] merge glm 0e57aa4 [Xiangrui Meng] update Lasso and RidgeRegression to parse the weights correctly from GLM mark createModel protected mark predictPoint protected d7f629f [Xiangrui Meng] fix a bug in GLM when intercept is not used 3f346ba [Xiangrui Meng] update some ml algorithms to use Vector
* StopAfter / TopK related changesReynold Xin2014-04-028-35/+64
| | | | | | | | | | | | | | | | | | | | | | 1. Renamed StopAfter to Limit to be more consistent with naming in other relational databases. 2. Renamed TopK to TakeOrdered to be more consistent with Spark RDD API. 3. Avoid breaking lineage in Limit. 4. Added a bunch of override's to execution/basicOperators.scala. @marmbrus @liancheng Author: Reynold Xin <rxin@apache.org> Author: Michael Armbrust <michael@databricks.com> Closes #233 from rxin/limit and squashes the following commits: 13eb12a [Reynold Xin] Merge pull request #1 from marmbrus/limit 92b9727 [Michael Armbrust] More hacks to make Maps serialize with Kryo. 4fc8b4e [Reynold Xin] Merge branch 'master' of github.com:apache/spark into limit 87b7d37 [Reynold Xin] Use the proper serializer in limit. 9b79246 [Reynold Xin] Updated doc for Limit. 47d3327 [Reynold Xin] Copy tuples in Limit before shuffle. 231af3a [Reynold Xin] Limit/TakeOrdered: 1. Renamed StopAfter to Limit to be more consistent with naming in other relational databases. 2. Renamed TopK to TakeOrdered to be more consistent with Spark RDD API. 3. Avoid breaking lineage in Limit. 4. Added a bunch of override's to execution/basicOperators.scala.
* [SPARK-1371][WIP] Compression support for Spark SQL in-memory columnar storageCheng Lian2014-04-0221-408/+1644
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | JIRA issue: [SPARK-1373](https://issues.apache.org/jira/browse/SPARK-1373) (Although tagged as WIP, this PR is structurally complete. The only things left unimplemented are 3 more compression algorithms: `BooleanBitSet`, `IntDelta` and `LongDelta`, which are trivial to add later in this or another separate PR.) This PR contains compression support for Spark SQL in-memory columnar storage. Main interfaces include: * `CompressionScheme` Each `CompressionScheme` represents a concrete compression algorithm, which basically consists of an `Encoder` for compression and a `Decoder` for decompression. Algorithms implemented include: * `RunLengthEncoding` * `DictionaryEncoding` Algorithms to be implemented include: * `BooleanBitSet` * `IntDelta` * `LongDelta` * `CompressibleColumnBuilder` A stackable `ColumnBuilder` trait used to build byte buffers for compressible columns. A best `CompressionScheme` that exhibits lowest compression ratio is chosen for each column according to statistical information gathered while elements are appended into the `ColumnBuilder`. However, if no `CompressionScheme` can achieve a compression ratio better than 80%, no compression will be done for this column to save CPU time. Memory layout of the final byte buffer is showed below: ``` .--------------------------- Column type ID (4 bytes) | .----------------------- Null count N (4 bytes) | | .------------------- Null positions (4 x N bytes, empty if null count is zero) | | | .------------- Compression scheme ID (4 bytes) | | | | .--------- Compressed non-null elements V V V V V +---+---+-----+---+---------+ | | | ... | | ... ... | +---+---+-----+---+---------+ \-----------/ \-----------/ header body ``` * `CompressibleColumnAccessor` A stackable `ColumnAccessor` trait used to iterate (possibly) compressed data column. * `ColumnStats` Used to collect statistical information while loading data into in-memory columnar table. Optimizations like partition pruning rely on this information. Strictly speaking, `ColumnStats` related code is not part of the compression support. It's contained in this PR to ensure and validate the row-based API design (which is used to avoid boxing/unboxing cost whenever possible). A major refactoring change since PR #205 is: * Refactored all getter/setter methods for primitive types in various places into `ColumnType` classes to remove duplicated code. Author: Cheng Lian <lian.cs.zju@gmail.com> Closes #285 from liancheng/memColumnarCompression and squashes the following commits: ed71bbd [Cheng Lian] Addressed all PR comments by @marmbrus d3a4fa9 [Cheng Lian] Removed Ordering[T] in ColumnStats for better performance 5034453 [Cheng Lian] Bug fix, more tests, and more refactoring c298b76 [Cheng Lian] Test suites refactored 2780d6a [Cheng Lian] [WIP] in-memory columnar compression support 211331c [Cheng Lian] WIP: in-memory columnar compression support 85cc59b [Cheng Lian] Refactored ColumnAccessors & ColumnBuilders to remove duplicate code
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