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* [SPARK-3089] Fix meaningless error message in ConnectionManagerKousuke Saruta2014-08-191-1/+1
| | | | | | | | | Author: Kousuke Saruta <sarutak@oss.nttdata.co.jp> Closes #2000 from sarutak/SPARK-3089 and squashes the following commits: 02dfdea [Kousuke Saruta] Merge branch 'master' of git://git.apache.org/spark into SPARK-3089 e759ce7 [Kousuke Saruta] Improved error message when closing SendingConnection
* [SPARK-3072] YARN - Exit when reach max number failed executorsThomas Graves2014-08-194-19/+40
| | | | | | | | | | In some cases on hadoop 2.x the spark application master doesn't properly exit and hangs around for 10 minutes after its really done. We should make sure it exits properly and stops the driver. Author: Thomas Graves <tgraves@apache.org> Closes #2022 from tgravescs/SPARK-3072 and squashes the following commits: 665701d [Thomas Graves] Exit when reach max number failed executors
* Fix typo in decision tree docsMatt Forbes2014-08-181-2/+2
| | | | | | | | | | Candidate splits were inconsistent with the example. Author: Matt Forbes <matt@tellapart.com> Closes #1837 from emef/tree-doc and squashes the following commits: 3be14a1 [Matt Forbes] Fix typo in decision tree docs
* [SPARK-3116] Remove the excessive lockings in TorrentBroadcastReynold Xin2014-08-181-39/+27
| | | | | | | | | Author: Reynold Xin <rxin@apache.org> Closes #2028 from rxin/torrentBroadcast and squashes the following commits: 92c62a5 [Reynold Xin] Revert the MEMORY_AND_DISK_SER changes. 03a5221 [Reynold Xin] [SPARK-3116] Remove the excessive lockings in TorrentBroadcast
* [SPARK-3114] [PySpark] Fix Python UDFs in Spark SQL.Josh Rosen2014-08-184-9/+16
| | | | | | | | | | | | | | | | This fixes SPARK-3114, an issue where we inadvertently broke Python UDFs in Spark SQL. This PR modifiers the test runner script to always run the PySpark SQL tests, irrespective of whether SparkSQL itself has been modified. It also includes Davies' fix for the bug. Closes #2026. Author: Josh Rosen <joshrosen@apache.org> Author: Davies Liu <davies.liu@gmail.com> Closes #2027 from JoshRosen/pyspark-sql-fix and squashes the following commits: 9af2708 [Davies Liu] bugfix: disable compression of command 0d8d3a4 [Josh Rosen] Always run Python Spark SQL tests.
* [SPARK-3108][MLLIB] add predictOnValues to StreamingLR and fix predictOnXiangrui Meng2014-08-182-8/+27
| | | | | | | | | | | | It is useful in streaming to allow users to carry extra data with the prediction, for monitoring the prediction error for example. freeman-lab Author: Xiangrui Meng <meng@databricks.com> Closes #2023 from mengxr/predict-on-values and squashes the following commits: cac47b8 [Xiangrui Meng] add classtag 2821b3b [Xiangrui Meng] use mapValues 0925efa [Xiangrui Meng] add predictOnValues to StreamingLR and fix predictOn
* [SPARK-2850] [SPARK-2626] [mllib] MLlib stats examples + small fixesJoseph K. Bradley2014-08-1829-20/+664
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Added examples for statistical summarization: * Scala: StatisticalSummary.scala ** Tests: correlation, MultivariateOnlineSummarizer * python: statistical_summary.py ** Tests: correlation (since MultivariateOnlineSummarizer has no Python API) Added examples for random and sampled RDDs: * Scala: RandomAndSampledRDDs.scala * python: random_and_sampled_rdds.py * Both test: ** RandomRDDGenerators.normalRDD, normalVectorRDD ** RDD.sample, takeSample, sampleByKey Added sc.stop() to all examples. CorrelationSuite.scala * Added 1 test for RDDs with only 1 value RowMatrix.scala * numCols(): Added check for numRows = 0, with error message. * computeCovariance(): Added check for numRows <= 1, with error message. Python SparseVector (pyspark/mllib/linalg.py) * Added toDense() function python/run-tests script * Added stat.py (doc test) CC: mengxr dorx Main changes were examples to show usage across APIs. Author: Joseph K. Bradley <joseph.kurata.bradley@gmail.com> Closes #1878 from jkbradley/mllib-stats-api-check and squashes the following commits: ea5c047 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check dafebe2 [Joseph K. Bradley] Bug fixes for examples SampledRDDs.scala and sampled_rdds.py: Check for division by 0 and for missing key in maps. 8d1e555 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check 60c72d9 [Joseph K. Bradley] Fixed stat.py doc test to work for Python versions printing nan or NaN. b20d90a [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check 4e5d15e [Joseph K. Bradley] Changed pyspark/mllib/stat.py doc tests to use NaN instead of nan. 32173b7 [Joseph K. Bradley] Stats examples update. c8c20dc [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check cf70b07 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check 0b7cec3 [Joseph K. Bradley] Small updates based on code review. Renamed statistical_summary.py to correlations.py ab48f6e [Joseph K. Bradley] RowMatrix.scala * numCols(): Added check for numRows = 0, with error message. * computeCovariance(): Added check for numRows <= 1, with error message. 65e4ebc [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check 8195c78 [Joseph K. Bradley] Added examples for random and sampled RDDs: * Scala: RandomAndSampledRDDs.scala * python: random_and_sampled_rdds.py * Both test: ** RandomRDDGenerators.normalRDD, normalVectorRDD ** RDD.sample, takeSample, sampleByKey 064985b [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check ee918e9 [Joseph K. Bradley] Added examples for statistical summarization: * Scala: StatisticalSummary.scala ** Tests: correlation, MultivariateOnlineSummarizer * python: statistical_summary.py ** Tests: correlation (since MultivariateOnlineSummarizer has no Python API)
* [mllib] DecisionTree: treeAggregate + Python example bug fixJoseph K. Bradley2014-08-184-8/+14
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Small DecisionTree updates: * Changed main DecisionTree aggregate to treeAggregate. * Fixed bug in python example decision_tree_runner.py with missing argument (since categoricalFeaturesInfo is no longer an optional argument for trainClassifier). * Fixed same bug in python doc tests, and added tree.py to doc tests. CC: mengxr Author: Joseph K. Bradley <joseph.kurata.bradley@gmail.com> Closes #2015 from jkbradley/dt-opt2 and squashes the following commits: b5114fa [Joseph K. Bradley] Fixed python tree.py doc test (extra newline) 8e4665d [Joseph K. Bradley] Added tree.py to python doc tests. Fixed bug from missing categoricalFeaturesInfo argument. b7b2922 [Joseph K. Bradley] Fixed bug in python example decision_tree_runner.py with missing argument. Changed main DecisionTree aggregate to treeAggregate. 85bbc1f [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt2 66d076f [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt2 a0ed0da [Joseph K. Bradley] Renamed DTMetadata to DecisionTreeMetadata. Small doc updates. 3726d20 [Joseph K. Bradley] Small code improvements based on code review. ac0b9f8 [Joseph K. Bradley] Small updates based on code review. Main change: Now using << instead of math.pow. db0d773 [Joseph K. Bradley] scala style fix 6a38f48 [Joseph K. Bradley] Added DTMetadata class for cleaner code 931a3a7 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt2 797f68a [Joseph K. Bradley] Fixed DecisionTreeSuite bug for training second level. Needed to update treePointToNodeIndex with groupShift. f40381c [Joseph K. Bradley] Merge branch 'dt-opt1' into dt-opt2 5f2dec2 [Joseph K. Bradley] Fixed scalastyle issue in TreePoint 6b5651e [Joseph K. Bradley] Updates based on code review. 1 major change: persisting to memory + disk, not just memory. 2d2aaaf [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt1 26d10dd [Joseph K. Bradley] Removed tree/model/Filter.scala since no longer used. Removed debugging println calls in DecisionTree.scala. 356daba [Joseph K. Bradley] Merge branch 'dt-opt1' into dt-opt2 430d782 [Joseph K. Bradley] Added more debug info on binning error. Added some docs. d036089 [Joseph K. Bradley] Print timing info to logDebug. e66f1b1 [Joseph K. Bradley] TreePoint * Updated doc * Made some methods private 8464a6e [Joseph K. Bradley] Moved TimeTracker to tree/impl/ in its own file, and cleaned it up. Removed debugging println calls from DecisionTree. Made TreePoint extend Serialiable a87e08f [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt1 c1565a5 [Joseph K. Bradley] Small DecisionTree updates: * Simplification: Updated calculateGainForSplit to take aggregates for a single (feature, split) pair. * Internal doc: findAggForOrderedFeatureClassification b914f3b [Joseph K. Bradley] DecisionTree optimization: eliminated filters + small changes b2ed1f3 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt 0f676e2 [Joseph K. Bradley] Optimizations + Bug fix for DecisionTree 3211f02 [Joseph K. Bradley] Optimizing DecisionTree * Added TreePoint representation to avoid calling findBin multiple times. * (not working yet, but debugging) f61e9d2 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-timing bcf874a [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-timing 511ec85 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-timing a95bc22 [Joseph K. Bradley] timing for DecisionTree internals
* [SPARK-2718] [yarn] Handle quotes and other characters in user args.Marcelo Vanzin2014-08-186-10/+101
| | | | | | | | | | | | | | | | | | | | Due to the way Yarn runs things through bash, normal quoting doesn't work as expected. This change applies the necessary voodoo to the user args to avoid issues with bash and special characters. The change also uncovered an issue with the event logger app name sanitizing code; it wasn't cleaning up all "bad" characters, so sometimes it would fail to create the log dirs. I just added some more bad character replacements. Author: Marcelo Vanzin <vanzin@cloudera.com> Closes #1724 from vanzin/SPARK-2718 and squashes the following commits: cc84b89 [Marcelo Vanzin] Review feedback. c1a257a [Marcelo Vanzin] Add test for backslashes. 55571d4 [Marcelo Vanzin] Unbreak yarn-client. 515613d [Marcelo Vanzin] [SPARK-2718] [yarn] Handle quotes and other characters in user args.
* [SPARK-3103] [PySpark] fix saveAsTextFile() with utf-8Davies Liu2014-08-182-1/+12
| | | | | | | | | | bugfix: It will raise an exception when it try to encode non-ASCII strings into unicode. It should only encode unicode as "utf-8". Author: Davies Liu <davies.liu@gmail.com> Closes #2018 from davies/fix_utf8 and squashes the following commits: 4db7967 [Davies Liu] fix saveAsTextFile() with utf-8
* Removed .travis.yml file since we are not using Travis.Reynold Xin2014-08-181-32/+0
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* [SPARK-2169] Don't copy appName / basePath everywhere.Marcelo Vanzin2014-08-1819-71/+51
| | | | | | | | | | | | | Instead of keeping copies in all pages, just reference the values kept in the base SparkUI instance (by making them available via getters). Author: Marcelo Vanzin <vanzin@cloudera.com> Closes #1252 from vanzin/SPARK-2169 and squashes the following commits: 4412fc6 [Marcelo Vanzin] Simplify UIUtils.headerSparkPage signature. 4e5d35a [Marcelo Vanzin] [SPARK-2169] Don't copy appName / basePath everywhere.
* [SPARK-2406][SQL] Initial support for using ParquetTableScan to read ↵Michael Armbrust2014-08-188-23/+427
| | | | | | | | | | | | | | | | | | | | | | | | HiveMetaStore tables. This PR adds an experimental flag `spark.sql.hive.convertMetastoreParquet` that when true causes the planner to detects tables that use Hive's Parquet SerDe and instead plans them using Spark SQL's native `ParquetTableScan`. Author: Michael Armbrust <michael@databricks.com> Author: Yin Huai <huai@cse.ohio-state.edu> Closes #1819 from marmbrus/parquetMetastore and squashes the following commits: 1620079 [Michael Armbrust] Revert "remove hive parquet bundle" cc30430 [Michael Armbrust] Merge remote-tracking branch 'origin/master' into parquetMetastore 4f3d54f [Michael Armbrust] fix style 41ebc5f [Michael Armbrust] remove hive parquet bundle a43e0da [Michael Armbrust] Merge remote-tracking branch 'origin/master' into parquetMetastore 4c4dc19 [Michael Armbrust] Fix bug with tree splicing. ebb267e [Michael Armbrust] include parquet hive to tests pass (Remove this later). c0d9b72 [Michael Armbrust] Avoid creating a HadoopRDD per partition. Add dirty hacks to retrieve partition values from the InputSplit. 8cdc93c [Michael Armbrust] Merge pull request #8 from yhuai/parquetMetastore a0baec7 [Yin Huai] Partitioning columns can be resolved. 1161338 [Michael Armbrust] Add a test to make sure conversion is actually happening 212d5cd [Michael Armbrust] Initial support for using ParquetTableScan to read HiveMetaStore tables.
* [SPARK-3091] [SQL] Add support for caching metadata on Parquet filesMatei Zaharia2014-08-182-13/+72
| | | | | | | | | | | | | | | | | For larger Parquet files, reading the file footers (which is done in parallel on up to 5 threads) and HDFS block locations (which is serial) can take multiple seconds. We can add an option to cache this data within FilteringParquetInputFormat. Unfortunately ParquetInputFormat only caches footers within each instance of ParquetInputFormat, not across them. Note: this PR leaves this turned off by default for 1.1, but I believe it's safe to turn it on after. The keys in the hash maps are FileStatus objects that include a modification time, so this will work fine if files are modified. The location cache could become invalid if files have moved within HDFS, but that's rare so I just made it invalidate entries every 15 minutes. Author: Matei Zaharia <matei@databricks.com> Closes #2005 from mateiz/parquet-cache and squashes the following commits: dae8efe [Matei Zaharia] Bug fix c71e9ed [Matei Zaharia] Handle empty statuses directly 22072b0 [Matei Zaharia] Use Guava caches and add a config option for caching metadata 8fb56ce [Matei Zaharia] Cache file block locations too 453bd21 [Matei Zaharia] Bug fix 4094df6 [Matei Zaharia] First attempt at caching Parquet footers
* SPARK-3025 [SQL]: Allow JDBC clients to set a fair scheduler poolPatrick Wendell2014-08-183-7/+28
| | | | | | | | | | | This definitely needs review as I am not familiar with this part of Spark. I tested this locally and it did seem to work. Author: Patrick Wendell <pwendell@gmail.com> Closes #1937 from pwendell/scheduler and squashes the following commits: b858e33 [Patrick Wendell] SPARK-3025: Allow JDBC clients to set a fair scheduler pool
* [SPARK-3085] [SQL] Use compact data structures in SQL joinsMatei Zaharia2014-08-181-34/+33
| | | | | | | | | | | | | | | This reuses the CompactBuffer from Spark Core to save memory and pointer dereferences. I also tried AppendOnlyMap instead of java.util.HashMap but unfortunately that slows things down because it seems to do more equals() calls and the equals on GenericRow, and especially JoinedRow, is pretty expensive. Author: Matei Zaharia <matei@databricks.com> Closes #1993 from mateiz/spark-3085 and squashes the following commits: 188221e [Matei Zaharia] Remove unneeded import 5f903ee [Matei Zaharia] [SPARK-3085] [SQL] Use compact data structures in SQL joins
* [SPARK-3084] [SQL] Collect broadcasted tables in parallel in joinsMatei Zaharia2014-08-181-1/+1
| | | | | | | | | | | | | | | BroadcastHashJoin has a broadcastFuture variable that tries to collect the broadcasted table in a separate thread, but this doesn't help because it's a lazy val that only gets initialized when you attempt to build the RDD. Thus queries that broadcast multiple tables would collect and broadcast them sequentially. I changed this to a val to let it start collecting right when the operator is created. Author: Matei Zaharia <matei@databricks.com> Closes #1990 from mateiz/spark-3084 and squashes the following commits: f468766 [Matei Zaharia] [SPARK-3084] Collect broadcasted tables in parallel in joins
* SPARK-3096: Include parquet hive serde by default in buildPatrick Wendell2014-08-181-0/+5
| | | | | | | | | | A small change - we should just add this dependency. It doesn't have any recursive deps and it's needed for reading have parquet tables. Author: Patrick Wendell <pwendell@gmail.com> Closes #2009 from pwendell/parquet and squashes the following commits: e411f9f [Patrick Wendell] SPARk-309: Include parquet hive serde by default in build
* [SPARK-2862] histogram method fails on some choices of bucketCountChandan Kumar2014-08-182-4/+34
| | | | | | | | | | Author: Chandan Kumar <chandan.kumar@imaginea.com> Closes #1787 from nrchandan/spark-2862 and squashes the following commits: a76bbf6 [Chandan Kumar] [SPARK-2862] Fix for a broken test case and add new test cases 4211eea [Chandan Kumar] [SPARK-2862] Add Scala bug id 13854f1 [Chandan Kumar] [SPARK-2862] Use shorthand range notation to avoid Scala bug
* SPARK-3093 : masterLock in Worker is no longer needCrazyJvm2014-08-181-27/+14
| | | | | | | | | | | there's no need to use masterLock in Worker now since all communications are within Akka actor Author: CrazyJvm <crazyjvm@gmail.com> Closes #2008 from CrazyJvm/no-need-master-lock and squashes the following commits: dd39e20 [CrazyJvm] fix format 58e7fa5 [CrazyJvm] there's no need to use masterLock now since all communications are within Akka actor
* [MLlib] Remove transform(dataset: RDD[String]) from Word2Vec public APILiquan Pei2014-08-181-9/+0
| | | | | | | | | | | mengxr Remove transform(dataset: RDD[String]) from public API. Author: Liquan Pei <liquanpei@gmail.com> Closes #2010 from Ishiihara/Word2Vec-api and squashes the following commits: 17b1031 [Liquan Pei] remove transform(dataset: RDD[String]) from public API
* [SPARK-2842][MLlib]Word2Vec documentationLiquan Pei2014-08-171-1/+62
| | | | | | | | | | | | | mengxr Documentation for Word2Vec Author: Liquan Pei <liquanpei@gmail.com> Closes #2003 from Ishiihara/Word2Vec-doc and squashes the following commits: 4ff11d4 [Liquan Pei] minor fix 8d7458f [Liquan Pei] code reformat 6df0dcb [Liquan Pei] add Word2Vec documentation
* [SPARK-3097][MLlib] Word2Vec performance improvementLiquan Pei2014-08-171-15/+35
| | | | | | | | | | | | | | | | mengxr Please review the code. Adding weights in reduceByKey soon. Only output model entry for words appeared in the partition before merging and use reduceByKey to combine model. In general, this implementation is 30s or so faster than implementation using big array. Author: Liquan Pei <liquanpei@gmail.com> Closes #1932 from Ishiihara/Word2Vec-improve2 and squashes the following commits: d5377a9 [Liquan Pei] use syn0Global and syn1Global to represent model cad2011 [Liquan Pei] bug fix for synModify array out of bound 083aa66 [Liquan Pei] update synGlobal in place and reduce synOut size 9075e1c [Liquan Pei] combine syn0Global and syn1Global to synGlobal aa2ab36 [Liquan Pei] use reduceByKey to combine models
* SPARK-2900. aggregate inputBytes per stageSandy Ryza2014-08-172-1/+14
| | | | | | | | Author: Sandy Ryza <sandy@cloudera.com> Closes #1826 from sryza/sandy-spark-2900 and squashes the following commits: 43f9091 [Sandy Ryza] SPARK-2900
* SPARK-2884: Create binary builds in parallel with release script.Patrick Wendell2014-08-171-4/+5
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* [SPARK-3087][MLLIB] fix col indexing bug in chi-square and add a check for ↵Xiangrui Meng2014-08-173-17/+59
| | | | | | | | | | | | number of distinct values There is a bug determining the column index. dorx Author: Xiangrui Meng <meng@databricks.com> Closes #1997 from mengxr/chisq-index and squashes the following commits: 8fc2ab2 [Xiangrui Meng] fix col indexing bug and add a check for number of distinct values
* [HOTFIX][STREAMING] Allow the JVM/Netty to decide which port to bind to in ↵Hari Shreedharan2014-08-172-29/+34
| | | | | | | | | | | | | | | | | | Flume Polling Tests. Author: Hari Shreedharan <harishreedharan@gmail.com> Closes #1820 from harishreedharan/use-free-ports and squashes the following commits: b939067 [Hari Shreedharan] Remove unused import. 67856a8 [Hari Shreedharan] Remove findFreePort. 0ea51d1 [Hari Shreedharan] Make some changes to getPort to use map on the serverOpt. 1fb0283 [Hari Shreedharan] Merge branch 'master' of https://github.com/apache/spark into use-free-ports b351651 [Hari Shreedharan] Allow Netty to choose port, and query it to decide the port to bind to. Leaving findFreePort as is, if other tests want to use it at some point. e6c9620 [Hari Shreedharan] Making sure the second sink uses the correct port. 11c340d [Hari Shreedharan] Add info about race condition to scaladoc. e89d135 [Hari Shreedharan] Adding Scaladoc. 6013bb0 [Hari Shreedharan] [STREAMING] Find free ports to use before attempting to create Flume Sink in Flume Polling Suite
* [SPARK-1981] updated streaming-kinesis.mdChris Fregly2014-08-171-48/+49
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | fixed markup, separated out sections more-clearly, more thorough explanations Author: Chris Fregly <chris@fregly.com> Closes #1757 from cfregly/master and squashes the following commits: 9b1c71a [Chris Fregly] better explained why spark checkpoints are disabled in the example (due to no stateful operations being used) 0f37061 [Chris Fregly] SPARK-1981: (Kinesis streaming support) updated streaming-kinesis.md 862df67 [Chris Fregly] Merge remote-tracking branch 'upstream/master' 8e1ae2e [Chris Fregly] Merge remote-tracking branch 'upstream/master' 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
* [SQL] Improve debug logging and toStrings.Michael Armbrust2014-08-172-2/+21
| | | | | | | | Author: Michael Armbrust <michael@databricks.com> Closes #2004 from marmbrus/codgenDebugging and squashes the following commits: b7a7e41 [Michael Armbrust] Improve debug logging and toStrings.
* Revert "[SPARK-2970] [SQL] spark-sql script ends with IOException when ↵Michael Armbrust2014-08-171-8/+2
| | | | | | | | | | | | EventLogging is enabled" Revert #1891 due to issues with hadoop 1 compatibility. Author: Michael Armbrust <michael@databricks.com> Closes #2007 from marmbrus/revert1891 and squashes the following commits: 68706c0 [Michael Armbrust] Revert "[SPARK-2970] [SQL] spark-sql script ends with IOException when EventLogging is enabled"
* 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.
* [SPARK-3042] [mllib] DecisionTree Filter top-down instead of bottom-upJoseph K. Bradley2014-08-169-630/+615
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | DecisionTree needs to match each example to a node at each iteration. It currently does this with a set of filters very inefficiently: For each example, it examines each node at the current level and traces up to the root to see if that example should be handled by that node. Fix: Filter top-down using the partly built tree itself. Major changes: * Eliminated Filter class, findBinsForLevel() method. * Set up node parent links in main loop over levels in train(). * Added predictNodeIndex() for filtering top-down. * Added DTMetadata class Other changes: * Pre-compute set of unorderedFeatures. Notes for following expected PR based on [https://issues.apache.org/jira/browse/SPARK-3043]: * The unorderedFeatures set will next be stored in a metadata structure to simplify function calls (to store other items such as the data in strategy). I've done initial tests indicating that this speeds things up, but am only now running large-scale ones. CC: mengxr manishamde chouqin Any comments are welcome---thanks! Author: Joseph K. Bradley <joseph.kurata.bradley@gmail.com> Closes #1975 from jkbradley/dt-opt2 and squashes the following commits: a0ed0da [Joseph K. Bradley] Renamed DTMetadata to DecisionTreeMetadata. Small doc updates. 3726d20 [Joseph K. Bradley] Small code improvements based on code review. ac0b9f8 [Joseph K. Bradley] Small updates based on code review. Main change: Now using << instead of math.pow. db0d773 [Joseph K. Bradley] scala style fix 6a38f48 [Joseph K. Bradley] Added DTMetadata class for cleaner code 931a3a7 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt2 797f68a [Joseph K. Bradley] Fixed DecisionTreeSuite bug for training second level. Needed to update treePointToNodeIndex with groupShift. f40381c [Joseph K. Bradley] Merge branch 'dt-opt1' into dt-opt2 5f2dec2 [Joseph K. Bradley] Fixed scalastyle issue in TreePoint 6b5651e [Joseph K. Bradley] Updates based on code review. 1 major change: persisting to memory + disk, not just memory. 2d2aaaf [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt1 26d10dd [Joseph K. Bradley] Removed tree/model/Filter.scala since no longer used. Removed debugging println calls in DecisionTree.scala. 356daba [Joseph K. Bradley] Merge branch 'dt-opt1' into dt-opt2 430d782 [Joseph K. Bradley] Added more debug info on binning error. Added some docs. d036089 [Joseph K. Bradley] Print timing info to logDebug. e66f1b1 [Joseph K. Bradley] TreePoint * Updated doc * Made some methods private 8464a6e [Joseph K. Bradley] Moved TimeTracker to tree/impl/ in its own file, and cleaned it up. Removed debugging println calls from DecisionTree. Made TreePoint extend Serialiable a87e08f [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt1 c1565a5 [Joseph K. Bradley] Small DecisionTree updates: * Simplification: Updated calculateGainForSplit to take aggregates for a single (feature, split) pair. * Internal doc: findAggForOrderedFeatureClassification b914f3b [Joseph K. Bradley] DecisionTree optimization: eliminated filters + small changes b2ed1f3 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt 0f676e2 [Joseph K. Bradley] Optimizations + Bug fix for DecisionTree 3211f02 [Joseph K. Bradley] Optimizing DecisionTree * Added TreePoint representation to avoid calling findBin multiple times. * (not working yet, but debugging) f61e9d2 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-timing bcf874a [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-timing 511ec85 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-timing a95bc22 [Joseph K. Bradley] timing for DecisionTree internals
* [SPARK-3077][MLLIB] fix some chisq-testXiangrui Meng2014-08-162-13/+17
| | | | | | | | | | | | | - promote nullHypothesis field in ChiSqTestResult to TestResult. Every test should have a null hypothesis - correct null hypothesis statement for independence test - p-value: 0.01 -> 0.1 Author: Xiangrui Meng <meng@databricks.com> Closes #1982 from mengxr/fix-chisq and squashes the following commits: 5f0de02 [Xiangrui Meng] make ChiSqTestResult constructor package private bc74ea1 [Xiangrui Meng] update chisq-test
* In the stop method of ConnectionManager to cancel the ackTimeoutMonitorGuoQiang Li2014-08-161-0/+1
| | | | | | | | | | cc JoshRosen sarutak Author: GuoQiang Li <witgo@qq.com> Closes #1989 from witgo/cancel_ackTimeoutMonitor and squashes the following commits: 4a700fa [GuoQiang Li] In the stop method of ConnectionManager to cancel the ackTimeoutMonitor
* [SPARK-1065] [PySpark] improve supporting for large broadcastDavies Liu2014-08-167-21/+81
| | | | | | | | | | | | | | | | | | Passing large object by py4j is very slow (cost much memory), so pass broadcast objects via files (similar to parallelize()). Add an option to keep object in driver (it's False by default) to save memory in driver. Author: Davies Liu <davies.liu@gmail.com> Closes #1912 from davies/broadcast and squashes the following commits: e06df4a [Davies Liu] load broadcast from disk in driver automatically db3f232 [Davies Liu] fix serialization of accumulator 631a827 [Davies Liu] Merge branch 'master' into broadcast c7baa8c [Davies Liu] compress serrialized broadcast and command 9a7161f [Davies Liu] fix doc tests e93cf4b [Davies Liu] address comments: add test 6226189 [Davies Liu] improve large broadcast
* [SPARK-3035] Wrong example with SparkContext.addFileiAmGhost2014-08-161-1/+1
| | | | | | | | | | | | https://issues.apache.org/jira/browse/SPARK-3035 fix for wrong document. Author: iAmGhost <kdh7807@gmail.com> Closes #1942 from iAmGhost/master and squashes the following commits: 487528a [iAmGhost] [SPARK-3035] Wrong example with SparkContext.addFile fix for wrong document.
* [SPARK-3081][MLLIB] rename RandomRDDGenerators to RandomRDDsXiangrui Meng2014-08-164-25/+24
| | | | | | | | | | | | `RandomRDDGenerators` means factory for `RandomRDDGenerator`. However, its methods return RDDs but not RDDGenerators. So a more proper (and shorter) name would be `RandomRDDs`. dorx brkyvz Author: Xiangrui Meng <meng@databricks.com> Closes #1979 from mengxr/randomrdds and squashes the following commits: b161a2d [Xiangrui Meng] rename RandomRDDGenerators to RandomRDDs
* [SPARK-3048][MLLIB] add LabeledPoint.parse and remove loadStreamingLabeledPointsXiangrui Meng2014-08-167-26/+17
| | | | | | | | | | | | | | | | | Move `parse()` from `LabeledPointParser` to `LabeledPoint` and make it public. This breaks binary compatibility only when a user uses synthesized methods like `tupled` and `curried`, which is rare. `LabeledPoint.parse` is more consistent with `Vectors.parse`, which is why `LabeledPointParser` is not preferred. freeman-lab tdas Author: Xiangrui Meng <meng@databricks.com> Closes #1952 from mengxr/labelparser and squashes the following commits: c818fb2 [Xiangrui Meng] merge master ce20e6f [Xiangrui Meng] update mima excludes b386b8d [Xiangrui Meng] fix tests 2436b3d [Xiangrui Meng] add parse() to LabeledPoint
* [SPARK-2677] BasicBlockFetchIterator#next can wait foreverKousuke Saruta2014-08-163-11/+87
| | | | | | | | | | | | | | | | | | | Author: Kousuke Saruta <sarutak@oss.nttdata.co.jp> Closes #1632 from sarutak/SPARK-2677 and squashes the following commits: cddbc7b [Kousuke Saruta] Removed Exception throwing when ConnectionManager#handleMessage receives ack for non-referenced message d3bd2a8 [Kousuke Saruta] Modified configuration.md for spark.core.connection.ack.timeout e85f88b [Kousuke Saruta] Removed useless synchronized blocks 7ed48be [Kousuke Saruta] Modified ConnectionManager to use ackTimeoutMonitor ConnectionManager-wide 9b620a6 [Kousuke Saruta] Merge branch 'master' of git://git.apache.org/spark into SPARK-2677 0dd9ad3 [Kousuke Saruta] Modified typo in ConnectionManagerSuite.scala 7cbb8ca [Kousuke Saruta] Modified to match with scalastyle 8a73974 [Kousuke Saruta] Merge branch 'master' of git://git.apache.org/spark into SPARK-2677 ade279a [Kousuke Saruta] Merge branch 'master' of git://git.apache.org/spark into SPARK-2677 0174d6a [Kousuke Saruta] Modified ConnectionManager.scala to handle the case remote Executor cannot ack a454239 [Kousuke Saruta] Merge branch 'master' of git://git.apache.org/spark into SPARK-2677 9b7b7c1 [Kousuke Saruta] (WIP) Modifying ConnectionManager.scala
* [SPARK-3076] [Jenkins] catch & report test timeoutsNicholas Chammas2014-08-161-28/+20
| | | | | | | | | | | | | * Remove unused code to get jq * Set timeout on tests and report gracefully on them Author: Nicholas Chammas <nicholas.chammas@gmail.com> Closes #1974 from nchammas/master and squashes the following commits: d1f1b6b [Nicholas Chammas] set timeout to realistic number 8b1ea41 [Nicholas Chammas] fix formatting 279526e [Nicholas Chammas] [SPARK-3076] catch & report test timeouts
* [SQL] Using safe floating-point numbers in doctestCheng Lian2014-08-161-2/+2
| | | | | | | | | | | | | Test code in `sql.py` tries to compare two floating-point numbers directly, and cased [build failure(s)](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/18365/consoleFull). [Doctest documentation](https://docs.python.org/3/library/doctest.html#warnings) recommends using numbers in the form of `I/2**J` to avoid the precision issue. Author: Cheng Lian <lian.cs.zju@gmail.com> Closes #1925 from liancheng/fix-pysql-fp-test and squashes the following commits: 0fbf584 [Cheng Lian] Removed unnecessary `...' from inferSchema doctest e8059d4 [Cheng Lian] Using safe floating-point numbers in doctest
* [SPARK-2977] Ensure ShuffleManager is created before ShuffleBlockManagerJosh Rosen2014-08-166-26/+37
| | | | | | | | | | | | This is intended to fix SPARK-2977. Before, there was an implicit ordering dependency where we needed to know the ShuffleManager implementation before creating the ShuffleBlockManager. This patch makes that dependency explicit by adding ShuffleManager to a bunch of constructors. I think it's a little odd for BlockManager to take a ShuffleManager only to pass it to ShuffleBlockManager without using it itself; there's an opportunity to clean this up later if we sever the circular dependencies between BlockManager and other components and pass those components to BlockManager's constructor. Author: Josh Rosen <joshrosen@apache.org> Closes #1976 from JoshRosen/SPARK-2977 and squashes the following commits: a9cd1e1 [Josh Rosen] [SPARK-2977] Ensure ShuffleManager is created before ShuffleBlockManager.
* [SPARK-3045] Make Serializer interface Java friendlyReynold Xin2014-08-158-73/+193
| | | | | | | | | | | | | | | | Author: Reynold Xin <rxin@apache.org> Closes #1948 from rxin/kryo and squashes the following commits: a3a80d8 [Reynold Xin] [SPARK-3046] use executor's class loader as the default serializer classloader 3d13277 [Reynold Xin] Reverted that in TestJavaSerializerImpl too. 196f3dc [Reynold Xin] Ok one more commit to revert the classloader change. c49b50c [Reynold Xin] Removed JavaSerializer change. afbf37d [Reynold Xin] Moved the test case also. a2e693e [Reynold Xin] Removed the Kryo bug fix from this pull request. c81bd6c [Reynold Xin] Use defaultClassLoader when executing user specified custom registrator. 68f261e [Reynold Xin] Added license check excludes. 0c28179 [Reynold Xin] [SPARK-3045] Make Serializer interface Java friendly [SPARK-3046] Set executor's class loader as the default serializer class loader
* [SPARK-3015] Block on cleaning tasks to prevent Akka timeoutsAndrew Or2014-08-151-5/+7
| | | | | | | | | | | | | | | | | | | | | | More detail on the issue is described in [SPARK-3015](https://issues.apache.org/jira/browse/SPARK-3015), but the TLDR is if we send too many blocking Akka messages that are dependent on each other in quick successions, then we end up causing a few of these messages to time out and ultimately kill the executors. As of #1498, we broadcast each RDD whether or not it is persisted. This means if we create many RDDs (each of which becomes a broadcast) and the driver performs a GC that cleans up all of these broadcast blocks, then we end up sending many `RemoveBroadcast` messages in parallel and trigger the chain of blocking messages at high frequencies. We do not know of the Akka-level root cause yet, so this is intended to be a temporary solution until we identify the real issue. I have done some preliminary testing of enabling blocking and observed that the queue length remains quite low (< 1000) even under very intensive workloads. In the long run, we should do something more sophisticated to allow a limited degree of parallelism through batching clean up tasks or processing them in a sliding window. In the longer run, we should clean up the whole `BlockManager*` message passing interface to avoid unnecessarily awaiting on futures created from Akka asks. tdas pwendell mengxr Author: Andrew Or <andrewor14@gmail.com> Closes #1931 from andrewor14/reference-blocking and squashes the following commits: d0f7195 [Andrew Or] Merge branch 'master' of github.com:apache/spark into reference-blocking ce9daf5 [Andrew Or] Remove logic for logging queue length 111192a [Andrew Or] Add missing space in log message (minor) a183b83 [Andrew Or] Switch order of code blocks (minor) 9fd1fe6 [Andrew Or] Remove outdated log 104b366 [Andrew Or] Use the actual reference queue length 0b7e768 [Andrew Or] Block on cleaning tasks by default + log error on queue full
* [SPARK-3001][MLLIB] Improve Spearman's correlationXiangrui Meng2014-08-151-78/+42
| | | | | | | | | | | | | | | | | | | | | | The current implementation requires sorting individual columns, which could be done with a global sort. result on a 32-node cluster: m | n | prev | this ---|---|-------|----- 1000000 | 50 | 55s | 9s 10000000 | 50 | 97s | 76s 1000000 | 100 | 119s | 15s Author: Xiangrui Meng <meng@databricks.com> Closes #1917 from mengxr/spearman and squashes the following commits: 4d5d262 [Xiangrui Meng] remove unused import 85c48de [Xiangrui Meng] minor updates a048d0c [Xiangrui Meng] remove cache and set a limit to cachedIds b98bb18 [Xiangrui Meng] add comments 0846e07 [Xiangrui Meng] first version
* [SPARK-3078][MLLIB] Make LRWithLBFGS API consistent with othersXiangrui Meng2014-08-155-53/+33
| | | | | | | | | | | | | Should ask users to set parameters through the optimizer. dbtsai Author: Xiangrui Meng <meng@databricks.com> Closes #1973 from mengxr/lr-lbfgs and squashes the following commits: e3efbb1 [Xiangrui Meng] fix tests 21b3579 [Xiangrui Meng] fix method name 641eea4 [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into lr-lbfgs 456ab7c [Xiangrui Meng] update LRWithLBFGS
* [SPARK-3046] use executor's class loader as the default serializer classloaderReynold Xin2014-08-156-4/+128
| | | | | | | | | | | | | | | | The serializer is not always used in an executor thread (e.g. connection manager, broadcast), in which case the classloader might not have the user jar set, leading to corruption in deserialization. https://issues.apache.org/jira/browse/SPARK-3046 https://issues.apache.org/jira/browse/SPARK-2878 Author: Reynold Xin <rxin@apache.org> Closes #1972 from rxin/kryoBug and squashes the following commits: c1c7bf0 [Reynold Xin] Made change to JavaSerializer. 7204c33 [Reynold Xin] Added imports back. d879e67 [Reynold Xin] [SPARK-3046] use executor's class loader as the default serializer class loader.
* [SPARK-3022] [SPARK-3041] [mllib] Call findBins once per level + unordered ↵Joseph K. Bradley2014-08-155-207/+449
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | feature bug fix DecisionTree improvements: (1) TreePoint representation to avoid binning multiple times (2) Bug fix: isSampleValid indexed bins incorrectly for unordered categorical features (3) Timing for DecisionTree internals Details: (1) TreePoint representation to avoid binning multiple times [https://issues.apache.org/jira/browse/SPARK-3022] Added private[tree] TreePoint class for representing binned feature values. The input RDD of LabeledPoint is converted to the TreePoint representation initially and then cached. This avoids the previous problem of re-computing bins multiple times. (2) Bug fix: isSampleValid indexed bins incorrectly for unordered categorical features [https://issues.apache.org/jira/browse/SPARK-3041] isSampleValid used to treat unordered categorical features incorrectly: It treated the bins as if indexed by featured values, rather than by subsets of values/categories. * exhibited for unordered features (multi-class classification with categorical features of low arity) * Fix: Index bins correctly for unordered categorical features. (3) Timing for DecisionTree internals Added tree/impl/TimeTracker.scala class which is private[tree] for now, for timing key parts of DT code. Prints timing info via logDebug. CC: mengxr manishamde chouqin Very similar update, with one bug fix. Many apologies for the conflicting update, but I hope that a few more optimizations I have on the way (which depend on this update) will prove valuable to you: SPARK-3042 and SPARK-3043 Author: Joseph K. Bradley <joseph.kurata.bradley@gmail.com> Closes #1950 from jkbradley/dt-opt1 and squashes the following commits: 5f2dec2 [Joseph K. Bradley] Fixed scalastyle issue in TreePoint 6b5651e [Joseph K. Bradley] Updates based on code review. 1 major change: persisting to memory + disk, not just memory. 2d2aaaf [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt1 430d782 [Joseph K. Bradley] Added more debug info on binning error. Added some docs. d036089 [Joseph K. Bradley] Print timing info to logDebug. e66f1b1 [Joseph K. Bradley] TreePoint * Updated doc * Made some methods private 8464a6e [Joseph K. Bradley] Moved TimeTracker to tree/impl/ in its own file, and cleaned it up. Removed debugging println calls from DecisionTree. Made TreePoint extend Serialiable a87e08f [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt1 0f676e2 [Joseph K. Bradley] Optimizations + Bug fix for DecisionTree 3211f02 [Joseph K. Bradley] Optimizing DecisionTree * Added TreePoint representation to avoid calling findBin multiple times. * (not working yet, but debugging) f61e9d2 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-timing bcf874a [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-timing 511ec85 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-timing a95bc22 [Joseph K. Bradley] timing for DecisionTree internals
* SPARK-3028. sparkEventToJson should support SparkListenerExecutorMetrics...Sandy Ryza2014-08-152-1/+4
| | | | | | | | | | | ...Update Author: Sandy Ryza <sandy@cloudera.com> Closes #1961 from sryza/sandy-spark-3028 and squashes the following commits: dccdff5 [Sandy Ryza] Fix compile error f883ded [Sandy Ryza] SPARK-3028. sparkEventToJson should support SparkListenerExecutorMetricsUpdate
* Revert "[SPARK-2468] Netty based block server / client module"Patrick Wendell2014-08-1529-2770/+667
| | | | This reverts commit 3a8b68b7353fea50245686903b308fa9eb52cb51.
generated by cgit v1.2.3 (git 2.39.1) at 2024-09-20 17:27:42 +0000