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* [SPARK-7375] [SQL] Avoid row copying in exchange when ↵Josh Rosen2015-05-081-56/+100
| | | | | | | | | | | | | | | | | | | | | | sort.serializeMapOutputs takes effect This patch refactors the SQL `Exchange` operator's logic for determining whether map outputs need to be copied before being shuffled. As part of this change, we'll now avoid unnecessary copies in cases where sort-based shuffle operates on serialized map outputs (as in #4450 / SPARK-4550). This patch also includes a change to copy the input to RangePartitioner partition bounds calculation, which is necessary because this calculation buffers mutable Java objects. <!-- Reviewable:start --> [<img src="https://reviewable.io/review_button.png" height=40 alt="Review on Reviewable"/>](https://reviewable.io/reviews/apache/spark/5948) <!-- Reviewable:end --> Author: Josh Rosen <joshrosen@databricks.com> Closes #5948 from JoshRosen/SPARK-7375 and squashes the following commits: f305ff3 [Josh Rosen] Reduce scope of some variables in Exchange 899e1d7 [Josh Rosen] Merge remote-tracking branch 'origin/master' into SPARK-7375 6a6bfce [Josh Rosen] Fix issue related to RangePartitioning: ad006a4 [Josh Rosen] [SPARK-7375] Avoid defensive copying in exchange operator when sort.serializeMapOutputs takes effect.
* [SPARK-7231] [SPARKR] Changes to make SparkR DataFrame dplyr friendly.Shivaram Venkataraman2015-05-088-29/+249
| | | | | | | | | | | | | | | | | | | | | | Changes include 1. Rename sortDF to arrange 2. Add new aliases `group_by` and `sample_frac`, `summarize` 3. Add more user friendly column addition (mutate), rename 4. Support mean as an alias for avg in Scala and also support n_distinct, n as in dplyr Using these changes we can pretty much run the examples as described in http://cran.rstudio.com/web/packages/dplyr/vignettes/introduction.html with the same syntax The only thing missing in SparkR is auto resolving column names when used in an expression i.e. making something like `select(flights, delay)` works in dply but we right now need `select(flights, flights$delay)` or `select(flights, "delay")`. But this is a complicated change and I'll file a new issue for it cc sun-rui rxin Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu> Closes #6005 from shivaram/sparkr-df-api and squashes the following commits: 5e0716a [Shivaram Venkataraman] Fix some roxygen bugs 1254953 [Shivaram Venkataraman] Merge branch 'master' of https://github.com/apache/spark into sparkr-df-api 0521149 [Shivaram Venkataraman] Changes to make SparkR DataFrame dplyr friendly. Changes include 1. Rename sortDF to arrange 2. Add new aliases `group_by` and `sample_frac`, `summarize` 3. Add more user friendly column addition (mutate), rename 4. Support mean as an alias for avg in Scala and also support n_distinct, n as in dplyr
* [SPARK-7451] [YARN] Preemption of executors is counted as failure causing ↵Ashwin Shankar2015-05-081-1/+3
| | | | | | | | | | | | | | Spark job to fail Added a check to handle container exit status for the preemption scenario, log an INFO message in such cases and move on. andrewor14 Author: Ashwin Shankar <ashankar@netflix.com> Closes #5993 from ashwinshankar77/SPARK-7451 and squashes the following commits: 90900cf [Ashwin Shankar] Fix log info message cf8b6cf [Ashwin Shankar] Stop counting preemption of executors as failure
* [SPARK-7488] [ML] Feature Parity in PySpark for ml.recommendationBurak Yavuz2015-05-084-4/+318
| | | | | | | | | | | | | | Adds Python Api for `ALS` under `ml.recommendation` in PySpark. Also adds seed as a settable parameter in the Scala Implementation of ALS. Author: Burak Yavuz <brkyvz@gmail.com> Closes #6015 from brkyvz/ml-rec and squashes the following commits: be6e931 [Burak Yavuz] addressed comments eaed879 [Burak Yavuz] readd numFeatures 0bd66b1 [Burak Yavuz] fixed seed 7f6d964 [Burak Yavuz] merged master 52e2bda [Burak Yavuz] added ALS
* [SPARK-7237] Clean function in several RDD methodstedyu2015-05-082-10/+41
| | | | | | | | | | | | | | | | | | | Author: tedyu <yuzhihong@gmail.com> Closes #5959 from ted-yu/master and squashes the following commits: f83d445 [tedyu] Move cleaning outside of mapPartitionsWithIndex 56d7c92 [tedyu] Consolidate import of Random f6014c0 [tedyu] Remove cleaning in RDD#filterWith 36feb6c [tedyu] Try to get correct syntax 55d01eb [tedyu] Try to get correct syntax c2786df [tedyu] Correct syntax d92bfcf [tedyu] Correct syntax in test 164d3e4 [tedyu] Correct variable name 8b50d93 [tedyu] Address Andrew's review comments 0c8d47e [tedyu] Add test for mapWith() 6846e40 [tedyu] Add test for flatMapWith() 6c124a9 [tedyu] Clean function in several RDD methods
* [SPARK-7469] [SQL] DAG visualization: show SQL query operatorsAndrew Or2015-05-0828-50/+71
| | | | | | | | | | | | | | | | | | | | | | | | The DAG visualization currently displays only low-level Spark primitives (e.g. `map`, `reduceByKey`, `filter` etc.). For SQL, these aren't particularly useful. Instead, we should display higher level physical operators (e.g. `Filter`, `Exchange`, `ShuffleHashJoin`). cc marmbrus ----------------- **Before** <img src="https://issues.apache.org/jira/secure/attachment/12731586/before.png" width="600px"/> ----------------- **After** (Pay attention to the words) <img src="https://issues.apache.org/jira/secure/attachment/12731587/after.png" width="600px"/> ----------------- Author: Andrew Or <andrew@databricks.com> Closes #5999 from andrewor14/dag-viz-sql and squashes the following commits: 0db23a4 [Andrew Or] Merge branch 'master' of github.com:apache/spark into dag-viz-sql 1e211db [Andrew Or] Update comment 0d49fd6 [Andrew Or] Merge branch 'master' of github.com:apache/spark into dag-viz-sql ffd237a [Andrew Or] Fix style 202dac1 [Andrew Or] Make ignoreParent false by default e61b1ab [Andrew Or] Visualize SQL operators, not low-level Spark primitives 569034a [Andrew Or] Add a flag to ignore parent settings and scopes
* [SPARK-6955] Perform port retries at NettyBlockTransferService levelAaron Davidson2015-05-084-39/+102
| | | | | | | | | | | | | Currently we're doing port retries in the TransportServer level, but this is not specified by the TransportContext API and it has other further-reaching impacts like causing undesirable behavior for the Yarn and Standalone shuffle services. Author: Aaron Davidson <aaron@databricks.com> Closes #5575 from aarondav/port-bind and squashes the following commits: 3c2d6ed [Aaron Davidson] Oops, never do it. a5d9432 [Aaron Davidson] Remove shouldHostShuffleServiceIfEnabled e901eb2 [Aaron Davidson] fix local-cluster mode for ExternalShuffleServiceSuite 59e5e38 [Aaron Davidson] [SPARK-6955] Perform port retries at NettyBlockTransferService level
* updated ec2 instance typesBrendan Collins2015-05-081-23/+47
| | | | | | | | | | | | | | | I needed to run some d2 instances, so I updated the spark_ec2.py accordingly Author: Brendan Collins <bcollins@blueraster.com> Closes #6014 from brendancol/ec2-instance-types-update and squashes the following commits: d7b4191 [Brendan Collins] Merge branch 'ec2-instance-types-update' of github.com:brendancol/spark into ec2-instance-types-update 6366c45 [Brendan Collins] added back cc1.4xlarge fc2931f [Brendan Collins] updated ec2 instance types 80c2aa6 [Brendan Collins] vertically aligned whitespace 85c6236 [Brendan Collins] vertically aligned whitespace 1657c26 [Brendan Collins] updated ec2 instance types
* [SPARK-5913] [MLLIB] Python API for ChiSqSelectorYanbo Liang2015-05-082-2/+67
| | | | | | | | | | | Add a Python API for mllib.feature.ChiSqSelector https://issues.apache.org/jira/browse/SPARK-5913 Author: Yanbo Liang <ybliang8@gmail.com> Closes #5939 from yanboliang/spark-5913 and squashes the following commits: cdaac99 [Yanbo Liang] Python API for ChiSqSelector
* [SPARK-4699] [SQL] Make caseSensitive configurable in spark sql analyzerJacky Li2015-05-0815-70/+127
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | based on #3558 Author: Jacky Li <jacky.likun@huawei.com> Author: wangfei <wangfei1@huawei.com> Author: scwf <wangfei1@huawei.com> Closes #5806 from scwf/case and squashes the following commits: cd51712 [wangfei] fix compile d4b724f [wangfei] address michael's comment af512c7 [wangfei] fix conflicts 4ef1be7 [wangfei] fix conflicts 269cf21 [scwf] fix conflicts b73df6c [scwf] style issue 9e11752 [scwf] improve SimpleCatalystConf b35529e [scwf] minor style a3f7659 [scwf] remove unsed imports 2a56515 [scwf] fix conflicts 6db4bf5 [scwf] also fix for HiveContext 7fc4a98 [scwf] fix test case d5a9933 [wangfei] fix style eee75ba [wangfei] fix EmptyConf 6ef31cf [wangfei] revert pom changes 5d7c456 [wangfei] set CASE_SENSITIVE false in TestHive 966e719 [wangfei] set CASE_SENSITIVE false in hivecontext fd30e25 [wangfei] added override 69b3b70 [wangfei] fix AnalysisSuite 5472b08 [wangfei] fix compile issue 56034ca [wangfei] fix conflicts and improve for catalystconf 664d1e9 [Jacky Li] Merge branch 'master' of https://github.com/apache/spark into case 12eca9a [Jacky Li] solve conflict with master 39e369c [Jacky Li] fix confilct after DataFrame PR dee56e9 [Jacky Li] fix test case failure 05b09a3 [Jacky Li] fix conflict base on the latest master branch 73c16b1 [Jacky Li] fix bug in sql/hive 9bf4cc7 [Jacky Li] fix bug in catalyst 005c56d [Jacky Li] make SQLContext caseSensitivity configurable 6332e0f [Jacky Li] fix bug fcbf0d9 [Jacky Li] fix scalastyle check e7bca31 [Jacky Li] make caseSensitive configuration in Analyzer and Catalog 91b1b96 [Jacky Li] make caseSensitive configurable in Analyzer f57f15c [Jacky Li] add testcase 578d167 [Jacky Li] make caseSensitive configurable
* [SPARK-7390] [SQL] Only merge other CovarianceCounter when its count is ↵Liang-Chi Hsieh2015-05-081-10/+12
| | | | | | | | | | | | | | greater than zero JIRA: https://issues.apache.org/jira/browse/SPARK-7390 Also fix a minor typo. Author: Liang-Chi Hsieh <viirya@gmail.com> Closes #5931 from viirya/fix_covariancecounter and squashes the following commits: 352eda6 [Liang-Chi Hsieh] Only merge other CovarianceCounter when its count is greater than zero.
* [SPARK-7378] [CORE] Handle deep links to unloaded apps.Marcelo Vanzin2015-05-081-19/+29
| | | | | | | | | | | | | | | | | | | | | The code was treating deep links as if they were attempt IDs, so for example if you tried to load "/history/app1/jobs" directly, that would fail because the code would treat "jobs" as an attempt id. This change modifies the code to try both cases - first without an attempt id, then with it, so that deep links are handled correctly. This assumes that the links in the Spark UI do not clash with the attempt id namespace, though, which is the case for YARN at least, which is the only backend that currently publishes attempt IDs. Author: Marcelo Vanzin <vanzin@cloudera.com> Closes #5922 from vanzin/SPARK-7378 and squashes the following commits: 96f648b [Marcelo Vanzin] Fix comparison. ed3bcd4 [Marcelo Vanzin] Merge branch 'master' into SPARK-7378 23483e4 [Marcelo Vanzin] Fat fingers. b728f08 [Marcelo Vanzin] [SPARK-7378] [core] Handle deep links to unloaded apps.
* [MINOR] [CORE] Allow History Server to read kerberos opts from config file.Marcelo Vanzin2015-05-081-1/+1
| | | | | | | | | | Order of initialization code was wrong. Author: Marcelo Vanzin <vanzin@cloudera.com> Closes #5998 from vanzin/hs-conf-fix and squashes the following commits: 00b6b6b [Marcelo Vanzin] [minor] [core] Allow History Server to read kerberos opts from config file.
* [SPARK-7466] DAG visualization: fix orphan nodesAndrew Or2015-05-081-1/+1
| | | | | | | | | | | | | | | Simple fix. We were comparing an option with `null`. Before: <img src="https://issues.apache.org/jira/secure/attachment/12731383/before.png" width="250px"/> After: <img src="https://issues.apache.org/jira/secure/attachment/12731384/after.png" width="250px"/> Author: Andrew Or <andrew@databricks.com> Closes #6002 from andrewor14/dag-viz-orphan-nodes and squashes the following commits: a1468dc [Andrew Or] Fix null check
* [MINOR] Defeat early garbage collection of test suite variableTim Ellison2015-05-081-0/+1
| | | | | | | | | | | | The JVM is free to collect references to variables that no longer participate in a computation. This simple patch adds an operation to the variable 'rdd' to ensure it is not collected early in the test suite's explicit calls to GC. ref: http://bugs.java.com/view_bug.do?bug_id=6721588 Author: Tim Ellison <t.p.ellison@gmail.com> Closes #6010 from tellison/master and squashes the following commits: 77d1c8f [Tim Ellison] Defeat early garbage collection of test suite variable by aggressive JVMs
* [SPARK-7489] [SPARK SHELL] Spark shell crashes when compiled with scala 2.11vinodkc2015-05-081-1/+1
| | | | | | | | | | | | Spark shell crashes when compiled with scala 2.11 and SPARK_PREPEND_CLASSES=true There is a similar Resolved JIRA issue -SPARK-7470 and a PR https://github.com/apache/spark/pull/5997 , which handled same issue only in scala 2.10 Author: vinodkc <vinod.kc.in@gmail.com> Closes #6013 from vinodkc/fix_sqlcontext_exception_scala_2.11 and squashes the following commits: 119061c [vinodkc] Spark shell crashes when compiled with scala 2.11
* [WEBUI] Remove debug feature for vis.jsKousuke Saruta2015-05-083-3/+0
| | | | | | | | | | | | | | | `vis.min.js` refers `vis.map` and this even refers `vis.js` which is used for debug `vis.js` but this debug feature is not needed for Spark itself. This issue is really minor so I don't file this in JIRA. /CC andrewor14 Author: Kousuke Saruta <sarutak@oss.nttdata.co.jp> Closes #5994 from sarutak/remove-debug-feature-for-vis and squashes the following commits: 8be038f [Kousuke Saruta] Remove vis.map entry from .rat-exclude 7404945 [Kousuke Saruta] Removed debug feature for vis.js
* [MINOR] Ignore python/lib/pyspark.zipzsxwing2015-05-081-0/+1
| | | | | | | | | | Add `python/lib/pyspark.zip` to `.gitignore`. After merging #5580, `python/lib/pyspark.zip` will be generated when building Spark. Author: zsxwing <zsxwing@gmail.com> Closes #6017 from zsxwing/gitignore and squashes the following commits: 39b10c4 [zsxwing] Ignore python/lib/pyspark.zip
* [SPARK-7490] [CORE] [Minor] MapOutputTracker.deserializeMapStatuses: close ↵Evan Jones2015-05-081-1/+5
| | | | | | | | | | | | | | | | | input streams GZIPInputStream allocates native memory that is not freed until close() or when the finalizer runs. It is best to close() these streams explicitly. stephenh made the same change for serializeMapStatuses in commit b0d884f0. This is the same change for deserialize. (I ran the unit test suite! it seems to have passed. I did not make a JIRA since this seems "trivial", and the guidelines suggest it is not required for trivial changes) Author: Evan Jones <ejones@twitter.com> Closes #5982 from evanj/master and squashes the following commits: 0d76e85 [Evan Jones] [CORE] MapOutputTracker.deserializeMapStatuses: close input streams
* [SPARK-6627] Finished rename to ShuffleBlockResolverKay Ousterhout2015-05-0816-95/+94
| | | | | | | | | | | | | | | | | | The previous cleanup-commit for SPARK-6627 renamed ShuffleBlockManager to ShuffleBlockResolver, but didn't rename the associated subclasses and variables; this commit does that. I'm unsure whether it's ok to rename ExternalShuffleBlockManager, since that's technically a public class? cc pwendell Author: Kay Ousterhout <kayousterhout@gmail.com> Closes #5764 from kayousterhout/SPARK-6627 and squashes the following commits: 43add1e [Kay Ousterhout] Spacing fix 96080bf [Kay Ousterhout] Test fixes d8a5d36 [Kay Ousterhout] [SPARK-6627] Finished rename to ShuffleBlockResolver
* [SPARK-7133] [SQL] Implement struct, array, and map field accessorWenchen Fan2015-05-0816-191/+327
| | | | | | | | | | | | | | | | | | | | | | It's the first step: generalize UnresolvedGetField to support all map, struct, and array TODO: add `apply` in Scala and `__getitem__` in Python, and unify the `getItem` and `getField` methods to one single API(or should we keep them for compatibility?). Author: Wenchen Fan <cloud0fan@outlook.com> Closes #5744 from cloud-fan/generalize and squashes the following commits: 715c589 [Wenchen Fan] address comments 7ea5b31 [Wenchen Fan] fix python test 4f0833a [Wenchen Fan] add python test f515d69 [Wenchen Fan] add apply method and test cases 8df6199 [Wenchen Fan] fix python test 239730c [Wenchen Fan] fix test compile 2a70526 [Wenchen Fan] use _bin_op in dataframe.py 6bf72bc [Wenchen Fan] address comments 3f880c3 [Wenchen Fan] add java doc ab35ab5 [Wenchen Fan] fix python test b5961a9 [Wenchen Fan] fix style c9d85f5 [Wenchen Fan] generalize UnresolvedGetField to support all map, struct, and array
* [SPARK-7298] Harmonize style of new visualizationsMatei Zaharia2015-05-0812-151/+255
| | | | | | | | | | | | | | | | | | | | - Colors on the timeline now match the rest of the UI - The expandable buttons to show timeline view, DAG, etc are now more visible - Timeline text is smaller - DAG visualization text and colors are more consistent throughout - Fix some JavaScript style issues - Various small fixes throughout (e.g. inconsistent capitalization, some confusing names, HTML escaping, etc) Author: Matei Zaharia <matei@databricks.com> Closes #5942 from mateiz/ui and squashes the following commits: def38d0 [Matei Zaharia] Add some tooltips 4c5a364 [Matei Zaharia] Reduce stage and rank separation slightly 43dcbe3 [Matei Zaharia] Some updates to DAG fac734a [Matei Zaharia] tweaks 6a6705d [Matei Zaharia] More fixes 67629f5 [Matei Zaharia] Various small tweaks
* [SPARK-7436] Fixed instantiation of custom recovery mode factory and added testsJacek Lewandowski2015-05-083-4/+208
| | | | | | | | Author: Jacek Lewandowski <lewandowski.jacek@gmail.com> Closes #5977 from jacek-lewandowski/SPARK-7436 and squashes the following commits: ff0a3c2 [Jacek Lewandowski] SPARK-7436: Fixed instantiation of custom recovery mode factory and added tests
* [SPARK-6824] Fill the docs for DataFrame API in SparkRhqzizania2015-05-089-1609/+1610
| | | | | | | | | | | | | | | | | This patch also removes the RDD docs from being built as a part of roxygen just by the method to delete " ' '" of " \#' ". Author: hqzizania <qian.huang@intel.com> Author: qhuang <qian.huang@intel.com> Closes #5969 from hqzizania/R1 and squashes the following commits: 6d27696 [qhuang] fixes in NAMESPACE eb4b095 [qhuang] remove more docs 6394579 [qhuang] remove RDD docs in generics.R 6813860 [hqzizania] Fill the docs for DataFrame API in SparkR 857220f [hqzizania] remove the pairRDD docs from being built as a part of roxygen c045d64 [hqzizania] remove the RDD docs from being built as a part of roxygen
* [SPARK-7474] [MLLIB] update ParamGridBuilder doctestXiangrui Meng2015-05-081-15/+13
| | | | | | | | | | | | Multiline commands are properly handled in this PR. oefirouz ![screen shot 2015-05-07 at 10 53 25 pm](https://cloud.githubusercontent.com/assets/829644/7531290/02ad2fd4-f50c-11e4-8c04-e58d1a61ad69.png) Author: Xiangrui Meng <meng@databricks.com> Closes #6001 from mengxr/SPARK-7474 and squashes the following commits: b94b11d [Xiangrui Meng] update ParamGridBuilder doctest
* [SPARK-7383] [ML] Feature Parity in PySpark for ml.featuresBurak Yavuz2015-05-085-43/+851
| | | | | | | | | | | | | Implemented python wrappers for Scala functions that don't exist in `ml.features` Author: Burak Yavuz <brkyvz@gmail.com> Closes #5991 from brkyvz/ml-feat-PR and squashes the following commits: adcca55 [Burak Yavuz] add regex tokenizer to __all__ b91cb44 [Burak Yavuz] addressed comments bd39fd2 [Burak Yavuz] remove addition b82bd7c [Burak Yavuz] Parity in PySpark for ml.features
* [SPARK-3454] separate json endpoints for data in the UIImran Rashid2015-05-08100-172/+8608
| | | | | | | | | | | | | | | | | | | | Exposes data available in the UI as json over http. Key points: * new endpoints, handled independently of existing XyzPage classes. Root entrypoint is `JsonRootResource` * Uses jersey + jackson for routing & converting POJOs into json * tests against known results in `HistoryServerSuite` * also fixes some minor issues w/ the UI -- synchronizing on access to `StorageListener` & `StorageStatusListener`, and fixing some inconsistencies w/ the way we handle retained jobs & stages. Author: Imran Rashid <irashid@cloudera.com> Closes #5940 from squito/SPARK-3454_better_test_files and squashes the following commits: 1a72ed6 [Imran Rashid] rats 85fdb3e [Imran Rashid] Merge branch 'no_php' into SPARK-3454 1fc65b0 [Imran Rashid] Revert "Revert "[SPARK-3454] separate json endpoints for data in the UI"" 1276900 [Imran Rashid] get rid of giant event file, replace w/ smaller one; check both shuffle read & shuffle write 4e12013 [Imran Rashid] just use test case name for expectation file name 863ef64 [Imran Rashid] rename json files to avoid strange file names and not look like php
* [SPARK-6869] [PYSPARK] Add pyspark archives path to PYTHONPATHLianhui Wang2015-05-084-8/+114
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Based on https://github.com/apache/spark/pull/5478 that provide a PYSPARK_ARCHIVES_PATH env. within this PR, we just should export PYSPARK_ARCHIVES_PATH=/user/spark/pyspark.zip,/user/spark/python/lib/py4j-0.8.2.1-src.zip in conf/spark-env.sh when we don't install PySpark on each node of Yarn. i run python application successfully on yarn-client and yarn-cluster with this PR. andrewor14 sryza Sephiroth-Lin Can you take a look at this?thanks. Author: Lianhui Wang <lianhuiwang09@gmail.com> Closes #5580 from lianhuiwang/SPARK-6869 and squashes the following commits: 66ffa43 [Lianhui Wang] Update Client.scala c2ad0f9 [Lianhui Wang] Update Client.scala 1c8f664 [Lianhui Wang] Merge remote-tracking branch 'remotes/apache/master' into SPARK-6869 008850a [Lianhui Wang] Merge remote-tracking branch 'remotes/apache/master' into SPARK-6869 f0b4ed8 [Lianhui Wang] Merge remote-tracking branch 'remotes/apache/master' into SPARK-6869 150907b [Lianhui Wang] Merge remote-tracking branch 'remotes/apache/master' into SPARK-6869 20402cd [Lianhui Wang] use ZipEntry 9d87c3f [Lianhui Wang] update scala style e7bd971 [Lianhui Wang] address vanzin's comments 4b8a3ed [Lianhui Wang] use pyArchivesEnvOpt e6b573b [Lianhui Wang] address vanzin's comments f11f84a [Lianhui Wang] zip pyspark archives 5192cca [Lianhui Wang] update import path 3b1e4c8 [Lianhui Wang] address tgravescs's comments 9396346 [Lianhui Wang] put zip to make-distribution.sh 0d2baf7 [Lianhui Wang] update import paths e0179be [Lianhui Wang] add zip pyspark archives in build or sparksubmit 31e8e06 [Lianhui Wang] update code style 9f31dac [Lianhui Wang] update code and add comments f72987c [Lianhui Wang] add archives path to PYTHONPATH
* [SPARK-7392] [CORE] bugfix: Kryo buffer size cannot be larger than 2MZhang, Liye2015-05-082-5/+36
| | | | | | | | | | | Author: Zhang, Liye <liye.zhang@intel.com> Closes #5934 from liyezhang556520/kryoBufSize and squashes the following commits: 5707e04 [Zhang, Liye] fix import order 8693288 [Zhang, Liye] replace multiplier with ByteUnit methods 9bf93e9 [Zhang, Liye] add tests d91e5ed [Zhang, Liye] change kb to mb
* [SPARK-7232] [SQL] Add a Substitution batch for spark sql analyzerwangfei2015-05-071-38/+60
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Added a new batch named `Substitution` before `Resolution` batch. The motivation for this is there are kind of cases we want to do some substitution on the parsed logical plan before resolve it. Consider this two cases: 1 CTE, for cte we first build a row logical plan ``` 'With Map(q1 -> 'Subquery q1 'Project ['key] 'UnresolvedRelation [src], None) 'Project [*] 'Filter ('key = 5) 'UnresolvedRelation [q1], None ``` In `With` logicalplan here is a map stored the (`q1-> subquery`), we want first take off the with command and substitute the `q1` of `UnresolvedRelation` by the `subquery` 2 Another example is Window function, in window function user may define some windows, we also need substitute the window name of child by the concrete window. this should also done in the Substitution batch. Author: wangfei <wangfei1@huawei.com> Closes #5776 from scwf/addbatch and squashes the following commits: d4b962f [wangfei] added WindowsSubstitution 70f6932 [wangfei] Merge branch 'master' of https://github.com/apache/spark into addbatch ecaeafb [wangfei] address yhuai's comments 553005a [wangfei] fix test case 0c54798 [wangfei] address comments 29aaaaf [wangfei] fix compile 1c9a092 [wangfei] added Substitution bastch
* [SPARK-7470] [SQL] Spark shell SQLContext crashes without hiveAndrew Or2015-05-071-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This only happens if you have `SPARK_PREPEND_CLASSES` set. Then I built it with `build/sbt clean assembly compile` and just ran it with `bin/spark-shell`. ``` ... 15/05/07 17:07:30 INFO EventLoggingListener: Logging events to file:/tmp/spark-events/local-1431043649919 15/05/07 17:07:30 INFO SparkILoop: Created spark context.. Spark context available as sc. java.lang.NoClassDefFoundError: org/apache/hadoop/hive/conf/HiveConf at java.lang.Class.getDeclaredConstructors0(Native Method) at java.lang.Class.privateGetDeclaredConstructors(Class.java:2493) at java.lang.Class.getConstructor0(Class.java:2803) ... Caused by: java.lang.ClassNotFoundException: org.apache.hadoop.hive.conf.HiveConf at java.net.URLClassLoader$1.run(URLClassLoader.java:366) at java.net.URLClassLoader$1.run(URLClassLoader.java:355) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:354) at java.lang.ClassLoader.loadClass(ClassLoader.java:425) at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:308) at java.lang.ClassLoader.loadClass(ClassLoader.java:358) ... 52 more <console>:10: error: not found: value sqlContext import sqlContext.implicits._ ^ <console>:10: error: not found: value sqlContext import sqlContext.sql ^ ``` yhuai marmbrus Author: Andrew Or <andrew@databricks.com> Closes #5997 from andrewor14/sql-shell-crash and squashes the following commits: 61147e6 [Andrew Or] Also expect NoClassDefFoundError
* [SPARK-6986] [SQL] Use Serializer2 in more cases.Yin Huai2015-05-073-58/+69
| | | | | | | | | | | | | | With https://github.com/apache/spark/commit/0a2b15ce43cf6096e1a7ae060b7c8a4010ce3b92, the serialization stream and deserialization stream has enough information to determine it is handling a key-value pari, a key, or a value. It is safe to use `SparkSqlSerializer2` in more cases. Author: Yin Huai <yhuai@databricks.com> Closes #5849 from yhuai/serializer2MoreCases and squashes the following commits: 53a5eaa [Yin Huai] Josh's comments. 487f540 [Yin Huai] Use BufferedOutputStream. 8385f95 [Yin Huai] Always create a new row at the deserialization side to work with sort merge join. c7e2129 [Yin Huai] Update tests. 4513d13 [Yin Huai] Use Serializer2 in more places.
* [SPARK-7452] [MLLIB] fix bug in topBykey and update testShuo Xiang2015-05-072-5/+6
| | | | | | | | | | the toArray function of the BoundedPriorityQueue does not necessarily preserve order. Add a counter-example as the test, which would fail the original impl. Author: Shuo Xiang <shuoxiangpub@gmail.com> Closes #5990 from coderxiang/topbykey-test and squashes the following commits: 98804c9 [Shuo Xiang] fix bug in topBykey and update test
* [SPARK-6908] [SQL] Use isolated Hive clientMichael Armbrust2015-05-0733-671/+782
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This PR switches Spark SQL's Hive support to use the isolated hive client interface introduced by #5851, instead of directly interacting with the client. By using this isolated client we can now allow users to dynamically configure the version of Hive that they are connecting to by setting `spark.sql.hive.metastore.version` without the need recompile. This also greatly reduces the surface area for our interaction with the hive libraries, hopefully making it easier to support other versions in the future. Jars for the desired hive version can be configured using `spark.sql.hive.metastore.jars`, which accepts the following options: - a colon-separated list of jar files or directories for hive and hadoop. - `builtin` - attempt to discover the jars that were used to load Spark SQL and use those. This option is only valid when using the execution version of Hive. - `maven` - download the correct version of hive on demand from maven. By default, `builtin` is used for Hive 13. This PR also removes the test step for building against Hive 12, as this will no longer be required to talk to Hive 12 metastores. However, the full removal of the Shim is deferred until a later PR. Remaining TODOs: - Remove the Hive Shims and inline code for Hive 13. - Several HiveCompatibility tests are not yet passing. - `nullformatCTAS` - As detailed below, we now are handling CTAS parsing ourselves instead of hacking into the Hive semantic analyzer. However, we currently only handle the common cases and not things like CTAS where the null format is specified. - `combine1` now leaks state about compression somehow, breaking all subsequent tests. As such we currently add it to the blacklist - `part_inherit_tbl_props` and `part_inherit_tbl_props_with_star` do not work anymore. We are correctly propagating the information - "load_dyn_part14.*" - These tests pass when run on their own, but fail when run with all other tests. It seems our `RESET` mechanism may not be as robust as it used to be? Other required changes: - `CreateTableAsSelect` no longer carries parts of the HiveQL AST with it through the query execution pipeline. Instead, we parse CTAS during the HiveQL conversion and construct a `HiveTable`. The full parsing here is not yet complete as detailed above in the remaining TODOs. Since the operator is Hive specific, it is moved to the hive package. - `Command` is simplified to be a trait that simply acts as a marker for a LogicalPlan that should be eagerly evaluated. Author: Michael Armbrust <michael@databricks.com> Closes #5876 from marmbrus/useIsolatedClient and squashes the following commits: 258d000 [Michael Armbrust] really really correct path handling e56fd4a [Michael Armbrust] getAbsolutePath 5a259f5 [Michael Armbrust] fix typos 81bb366 [Michael Armbrust] comments from vanzin 5f3945e [Michael Armbrust] Merge remote-tracking branch 'origin/master' into useIsolatedClient 4b5cd41 [Michael Armbrust] yin's comments f5de7de [Michael Armbrust] cleanup 11e9c72 [Michael Armbrust] better coverage in versions suite 7e8f010 [Michael Armbrust] better error messages and jar handling e7b3941 [Michael Armbrust] more permisive checking for function registration da91ba7 [Michael Armbrust] Merge remote-tracking branch 'origin/master' into useIsolatedClient 5fe5894 [Michael Armbrust] fix serialization suite 81711c4 [Michael Armbrust] Initial support for running without maven 1d8ae44 [Michael Armbrust] fix final tests? 1c50813 [Michael Armbrust] more comments a3bee70 [Michael Armbrust] Merge remote-tracking branch 'origin/master' into useIsolatedClient a6f5df1 [Michael Armbrust] style ab07f7e [Michael Armbrust] WIP 4d8bf02 [Michael Armbrust] Remove hive 12 compilation 8843a25 [Michael Armbrust] [SPARK-6908] [SQL] Use isolated Hive client
* [SPARK-7305] [STREAMING] [WEBUI] Make BatchPage show friendly information ↵zsxwing2015-05-071-30/+106
| | | | | | | | | | | | | | | | | when jobs are dropped by SparkListener If jobs are dropped by SparkListener, at least we can show the job ids in BatchPage. Screenshot: ![b1](https://cloud.githubusercontent.com/assets/1000778/7434968/f19aa784-eff3-11e4-8f86-36a073873574.png) Author: zsxwing <zsxwing@gmail.com> Closes #5840 from zsxwing/SPARK-7305 and squashes the following commits: aca0ba6 [zsxwing] Fix the code style 718765e [zsxwing] Make generateNormalJobRow private 8073b03 [zsxwing] Merge branch 'master' into SPARK-7305 83dec11 [zsxwing] Make BatchPage show friendly information when jobs are dropped by SparkListener
* [SPARK-7450] Use UNSAFE.getLong() to speed up BitSetMethods#anySet()tedyu2015-05-073-3/+19
| | | | | | | | | | | | | | | | | | Author: tedyu <yuzhihong@gmail.com> Closes #5897 from tedyu/master and squashes the following commits: 473bf9d [tedyu] Address Josh's review comments 1719c5b [tedyu] Correct upper bound in for loop b51dcaf [tedyu] Add unit test in BitSetSuite for BitSet#anySet() 83f9f87 [tedyu] Merge branch 'master' of github.com:apache/spark 817e3f9 [tedyu] Replace constant 8 with SIZE_OF_LONG 75a467b [tedyu] Correct offset for UNSAFE.getLong() 855374b [tedyu] Remove second loop since bitSetWidthInBytes is WORD aligned 093b7a4 [tedyu] Use UNSAFE.getLong() to speed up BitSetMethods#anySet() 63ee050 [tedyu] Use UNSAFE.getLong() to speed up BitSetMethods#anySet() 4ca0ef6 [tedyu] Use UNSAFE.getLong() to speed up BitSetMethods#anySet() 3e9b6919 [tedyu] Use UNSAFE.getLong() to speed up BitSetMethods#anySet()
* [SPARK-2155] [SQL] [WHEN D THEN E] [ELSE F] add CaseKeyWhen for "CASE a WHEN ↵Wenchen Fan2015-05-078-85/+159
| | | | | | | | | | | | b THEN c * END" Avoid translating to CaseWhen and evaluate the key expression many times. Author: Wenchen Fan <cloud0fan@outlook.com> Closes #5979 from cloud-fan/condition and squashes the following commits: 3ce54e1 [Wenchen Fan] add CaseKeyWhen
* [SPARK-5281] [SQL] Registering table on RDD is giving MissingRequirementErrorIulian Dragos2015-05-071-20/+37
| | | | | | | | | | | | | | | | Go through the context classloader when reflecting on user types in ScalaReflection. Replaced calls to `typeOf` with `typeTag[T].in(mirror)`. The convenience method assumes all types can be found in the classloader that loaded scala-reflect (the primordial classloader). This assumption is not valid in all contexts (sbt console, Eclipse launchers). Fixed SPARK-5281 Author: Iulian Dragos <jaguarul@gmail.com> Closes #5981 from dragos/issue/mirrors-missing-requirement-error and squashes the following commits: d103e70 [Iulian Dragos] Go through the context classloader when reflecting on user types in ScalaReflection
* [SPARK-7277] [SQL] Throw exception if the property mapred.reduce.tasks is ↵Liang-Chi Hsieh2015-05-072-2/+18
| | | | | | | | | | | | | | | | | set to -1 JIRA: https://issues.apache.org/jira/browse/SPARK-7277 As automatically determining the number of reducers is not supported (`mapred.reduce.tasks` is set to `-1`), we should throw exception to users. Author: Liang-Chi Hsieh <viirya@gmail.com> Closes #5811 from viirya/no_neg_reduce_tasks and squashes the following commits: e518f96 [Liang-Chi Hsieh] Consider other wrong setting values. fd9c817 [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into no_neg_reduce_tasks 4ede705 [Liang-Chi Hsieh] Throw exception instead of warning message. 68a1c70 [Liang-Chi Hsieh] Show warning message if mapred.reduce.tasks is set to -1.
* [SQL] [MINOR] make star and multialias extend NamedExpressionscwf2015-05-072-16/+6
| | | | | | | | | | `Star` and `MultiAlias` just used in `analyzer` and them will be substituted after analyze, So just like `Alias` they do not need extend `Attribute` Author: scwf <wangfei1@huawei.com> Closes #5928 from scwf/attribute and squashes the following commits: 73a0560 [scwf] star and multialias do not need extend attribute
* [SPARK-6948] [MLLIB] compress vectors in VectorAssemblerXiangrui Meng2015-05-073-5/+13
| | | | | | | | | | | The compression is based on storage. brkyvz Author: Xiangrui Meng <meng@databricks.com> Closes #5985 from mengxr/SPARK-6948 and squashes the following commits: df56a00 [Xiangrui Meng] update python tests 6d90d45 [Xiangrui Meng] compress vectors in VectorAssembler
* [SPARK-5726] [MLLIB] Elementwise (Hadamard) Vector Product TransformerOctavian Geagla2015-05-074-0/+234
| | | | | | | | | | | | | | | | | | | See https://issues.apache.org/jira/browse/SPARK-5726 Author: Octavian Geagla <ogeagla@gmail.com> Author: Joseph K. Bradley <joseph@databricks.com> Closes #4580 from ogeagla/spark-mllib-weighting and squashes the following commits: fac12ad [Octavian Geagla] [SPARK-5726] [MLLIB] Use new createTransformFunc. 90f7e39 [Joseph K. Bradley] small cleanups 4595165 [Octavian Geagla] [SPARK-5726] [MLLIB] Remove erroneous test case. ded3ac6 [Octavian Geagla] [SPARK-5726] [MLLIB] Pass style checks. 37d4705 [Octavian Geagla] [SPARK-5726] [MLLIB] Incorporated feedback. 1dffeee [Octavian Geagla] [SPARK-5726] [MLLIB] Pass style checks. e436896 [Octavian Geagla] [SPARK-5726] [MLLIB] Remove 'TF' from 'ElementwiseProductTF' cb520e6 [Octavian Geagla] [SPARK-5726] [MLLIB] Rename HadamardProduct to ElementwiseProduct 4922722 [Octavian Geagla] [SPARK-5726] [MLLIB] Hadamard Vector Product Transformer
* [SPARK-7328] [MLLIB] [PYSPARK] Pyspark.mllib.linalg.Vectors: Missing itemsMechCoder2015-05-072-2/+171
| | | | | | | | | | | | | | | | | | | | Add 1. Class methods squared_dist 3. parse 4. norm 5. numNonzeros 6. copy I made a few vectorizations wrt squared_dist and dot as well. I have added support for SparseMatrix serialization in a separate PR (https://github.com/apache/spark/pull/5775) and plan to complete support for Matrices in another PR. Author: MechCoder <manojkumarsivaraj334@gmail.com> Closes #5872 from MechCoder/local_linalg_api and squashes the following commits: a8ff1e0 [MechCoder] minor ce3e53e [MechCoder] Add error message for parser 1bd3c04 [MechCoder] Robust parser and removed unnecessary methods f779561 [MechCoder] [SPARK-7328] Pyspark.mllib.linalg.Vectors: Missing items
* [SPARK-7347] DAG visualization: add tooltips to RDDsAndrew Or2015-05-072-2/+19
| | | | | | | | | | | | | This is an addition to #5729. Here's an example with ALS. <img src="https://issues.apache.org/jira/secure/attachment/12731039/tooltip.png" width="400px"></img> Author: Andrew Or <andrew@databricks.com> Closes #5957 from andrewor14/viz-hover2 and squashes the following commits: 60e3758 [Andrew Or] Add tooltips for RDDs on job page
* [SPARK-7391] DAG visualization: auto expand if linked from another vizAndrew Or2015-05-073-3/+23
| | | | | | | | | | | | | | This is an addition to #5729. If you click into a stage from the DAG viz on the job page, you might expect to expand on the stage. However, once you get to the stage page, you actually have to expand the DAG viz there yourself. This patch makes this happen automatically. It's a small UX improvement. Author: Andrew Or <andrew@databricks.com> Closes #5958 from andrewor14/viz-auto-expand and squashes the following commits: 03cd157 [Andrew Or] Automatically expand DAG viz if from job page
* [SPARK-7373] [MESOS] Add docker support for launching drivers in mesos ↵Timothy Chen2015-05-071-7/+23
| | | | | | | | | | | | | | cluster mode. Using the existing docker support for mesos, also enabling the mesos cluster mode scheduler to launch Spark drivers in docker images as well. This also allows the executors launched by the drivers to be also in the same Docker image by passing the docker settings. Author: Timothy Chen <tnachen@gmail.com> Closes #5917 from tnachen/spark_cluster_docker and squashes the following commits: 1e842f5 [Timothy Chen] Add docker support for launching drivers in mesos cluster mode.
* [SPARK-7399] [SPARK CORE] Fixed compilation error in scala 2.11Tijo Thomas2015-05-071-1/+1
| | | | | | | | | | scala has deterministic naming-scheme for the generated methods which return default arguments . here one of the default argument of overloaded method has to be removed Author: Tijo Thomas <tijoparacka@gmail.com> Closes #5966 from tijoparacka/fix_compilation_error_in_scala2.11 and squashes the following commits: c90bba8 [Tijo Thomas] Fixed compilation error in scala 2.11
* [SPARK-5213] [SQL] Remove the duplicated SparkSQLParserCheng Hao2015-05-074-23/+11
| | | | | | | | | | | This is a follow up of #5827 to remove the additional `SparkSQLParser` Author: Cheng Hao <hao.cheng@intel.com> Closes #5965 from chenghao-intel/remove_sparksqlparser and squashes the following commits: 509a233 [Cheng Hao] Remove the HiveQlQueryExecution a5f9e3b [Cheng Hao] Remove the duplicated SparkSQLParser
* [SPARK-7116] [SQL] [PYSPARK] Remove cache() causing memory leakksonj2015-05-071-4/+3
| | | | | | | | | | | This patch simply removes a `cache()` on an intermediate RDD when evaluating Python UDFs. Author: ksonj <kson@siberie.de> Closes #5973 from ksonj/udf and squashes the following commits: db5b564 [ksonj] removed TODO about cleaning up fe70c54 [ksonj] Remove cache() causing memory leak
* [SPARK-1442] [SQL] [FOLLOW-UP] Address minor comments in Window Function PR ↵Yin Huai2015-05-073-8/+68
| | | | | | | | | | | | | | (#5604). Address marmbrus and scwf's comments in #5604. Author: Yin Huai <yhuai@databricks.com> Closes #5945 from yhuai/windowFollowup and squashes the following commits: 0ef879d [Yin Huai] Add collectFirst to TreeNode. 2373968 [Yin Huai] wip 4a16df9 [Yin Huai] Address minor comments for [SPARK-1442].
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