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* [SPARK-5814][MLLIB][GRAPHX] Remove JBLAS from runtimeXiangrui Meng2015-03-1216-144/+183
| | | | | | | | | | | | | | | | | The issue is discussed in https://issues.apache.org/jira/browse/SPARK-5669. Replacing all JBLAS usage by netlib-java gives us a simpler dependency tree and less license issues to worry about. I didn't touch the test scope in this PR. The user guide is not modified to avoid merge conflicts with branch-1.3. srowen ankurdave pwendell Author: Xiangrui Meng <meng@databricks.com> Closes #4699 from mengxr/SPARK-5814 and squashes the following commits: 48635c6 [Xiangrui Meng] move netlib-java version to parent pom ca21c74 [Xiangrui Meng] remove jblas from ml-guide 5f7767a [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-5814 c5c4183 [Xiangrui Meng] merge master 0f20cad [Xiangrui Meng] add mima excludes e53e9f4 [Xiangrui Meng] remove jblas from mllib runtime ceaa14d [Xiangrui Meng] replace jblas by netlib-java in graphx fa7c2ca [Xiangrui Meng] move jblas to test scope
* [SPARK-6294] fix hang when call take() in JVM on PythonRDDDavies Liu2015-03-123-4/+15
| | | | | | | | | | | | | | The Thread.interrupt() can not terminate the thread in some cases, so we should not wait for the writerThread of PythonRDD. This PR also ignore some exception during clean up. cc JoshRosen mengxr Author: Davies Liu <davies@databricks.com> Closes #4987 from davies/fix_take and squashes the following commits: 4488f1a [Davies Liu] fix hang when call take() in JVM on PythonRDD
* [SPARK-6296] [SQL] Added equals to ColumnVolodymyr Lyubinets2015-03-122-0/+12
| | | | | | | | Author: Volodymyr Lyubinets <vlyubin@gmail.com> Closes #4988 from vlyubin/columncomp and squashes the following commits: 92d7c8f [Volodymyr Lyubinets] Added equals to Column
* BUILD: Adding more known contributor namesPatrick Wendell2015-03-111-0/+34
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* [SPARK-6128][Streaming][Documentation] Updates to Spark Streaming ↵Tathagata Das2015-03-114-109/+528
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Programming Guide Updates to the documentation are as follows: - Added information on Kafka Direct API and Kafka Python API - Added joins to the main streaming guide - Improved details on the fault-tolerance semantics Generated docs located here http://people.apache.org/~tdas/spark-1.3.0-temp-docs/streaming-programming-guide.html#fault-tolerance-semantics More things to add: - Configuration for Kafka receive rate - May be add concurrentJobs Author: Tathagata Das <tathagata.das1565@gmail.com> Closes #4956 from tdas/streaming-guide-update-1.3 and squashes the following commits: 819408c [Tathagata Das] Minor fixes. debe484 [Tathagata Das] Added DataFrames and MLlib 380cf8d [Tathagata Das] Fix link 04167a6 [Tathagata Das] Merge remote-tracking branch 'apache-github/master' into streaming-guide-update-1.3 0b77486 [Tathagata Das] Updates based on Josh's comments. 86c4c2a [Tathagata Das] Updated streaming guides 82de92a [Tathagata Das] Add Kafka to Python api docs
* [SPARK-6274][Streaming][Examples] Added examples streaming + sql examples.Tathagata Das2015-03-114-0/+336
| | | | | | | | | | | | | Added Scala, Java and Python streaming examples showing DataFrame and SQL operations within streaming. Author: Tathagata Das <tathagata.das1565@gmail.com> Closes #4975 from tdas/streaming-sql-examples and squashes the following commits: 705cba1 [Tathagata Das] Fixed python lint error 75a3fad [Tathagata Das] Fixed python lint error 5fbf789 [Tathagata Das] Removed empty lines at the end 874b943 [Tathagata Das] Added examples streaming + sql examples.
* SPARK-6245 [SQL] jsonRDD() of empty RDD results in exceptionSean Owen2015-03-113-1/+15
| | | | | | | | | | | | | | | | | | | | | | Avoid `UnsupportedOperationException` from JsonRDD.inferSchema on empty RDD. Not sure if this is supposed to be an error (but a better one), but it seems like this case can come up if the input is down-sampled so much that nothing is sampled. Now stuff like this: ``` sqlContext.jsonRDD(sc.parallelize(List[String]())) ``` just results in ``` org.apache.spark.sql.DataFrame = [] ``` Author: Sean Owen <sowen@cloudera.com> Closes #4971 from srowen/SPARK-6245 and squashes the following commits: 3699964 [Sean Owen] Set() -> Set.empty 3c619e1 [Sean Owen] Avoid UnsupportedOperationException from JsonRDD.inferSchema on empty RDD
* SPARK-3642. Document the nuances of shared variables.Sandy Ryza2015-03-111-0/+6
| | | | | | | | Author: Sandy Ryza <sandy@cloudera.com> Closes #2490 from sryza/sandy-spark-3642 and squashes the following commits: aae3340 [Sandy Ryza] SPARK-3642. Document the nuances of broadcast variables
* [SPARK-4423] Improve foreach() documentation to avoid confusion between ↵Ilya Ganelin2015-03-111-4/+68
| | | | | | | | | | | | | | | | | | | | | local- and cluster-mode behavior Hi all - I've added a writeup on how closures work within Spark to help clarify the general case for this problem and similar problems. I hope this addresses the issue and would love any feedback. Author: Ilya Ganelin <ilya.ganelin@capitalone.com> Closes #4696 from ilganeli/SPARK-4423 and squashes the following commits: c5dc498 [Ilya Ganelin] Fixed typo 07b78e8 [Ilya Ganelin] Updated to fix capitalization 48c1983 [Ilya Ganelin] Updated to fix capitalization and clarify wording 2fd2a07 [Ilya Ganelin] Incoporated a few more minor fixes. Fixed a bug in python code. Added semicolons for java 4772f99 [Ilya Ganelin] Incorporated latest feedback 448bd79 [Ilya Ganelin] Updated some verbage and added section links 5dbbda5 [Ilya Ganelin] Improved some wording d374d3a [Ilya Ganelin] Merge remote-tracking branch 'upstream/master' into SPARK-4423 2600668 [Ilya Ganelin] Minor edits c768ab2 [Ilya Ganelin] Updated documentation to add a section on closures. This helps understand confusing behavior of foreach and map functions when attempting to modify variables outside of the scope of an RDD action or transformation
* [SPARK-6228] [network] Move SASL classes from network/shuffle to network...Marcelo Vanzin2015-03-117-0/+0
| | | | | | | | | | | | .../common. No code changes. Left the shuffle-related files in the shuffle module. Author: Marcelo Vanzin <vanzin@cloudera.com> Closes #4953 from vanzin/SPARK-6228 and squashes the following commits: 664ef30 [Marcelo Vanzin] [SPARK-6228] [network] Move SASL classes from network/shuffle to network/common.
* SPARK-6225 [CORE] [SQL] [STREAMING] Resolve most build warnings, 1.3.0 editionSean Owen2015-03-1115-49/+40
| | | | | | | | | | | Resolve javac, scalac warnings of various types -- deprecations, Scala lang, unchecked cast, etc. Author: Sean Owen <sowen@cloudera.com> Closes #4950 from srowen/SPARK-6225 and squashes the following commits: 3080972 [Sean Owen] Ordered imports: Java, Scala, 3rd party, Spark c67985b [Sean Owen] Resolve javac, scalac warnings of various types -- deprecations, Scala lang, unchecked cast, etc.
* [SPARK-6279][Streaming]In KafkaRDD.scala, Miss expressions flag "s" at ↵zzcclp2015-03-111-1/+1
| | | | | | | | | | | | | | | logging string In KafkaRDD.scala, Miss expressions flag "s" at logging string In logging file, it print `Beginning offset $ {part.fromOffset} is the same as ending offset ` but not `Beginning offset 111 is the same as ending offset `. Author: zzcclp <xm_zzc@sina.com> Closes #4979 from zzcclp/SPARK-6279 and squashes the following commits: 768f88e [zzcclp] Miss expressions flag "s"
* [SQL][Minor] fix typo in commentsHongbo Liu2015-03-111-1/+1
| | | | | | | | | | Removed an repeated "from" in the comments. Author: Hongbo Liu <liuhb86@gmail.com> Closes #4976 from liuhb86/mine and squashes the following commits: e280e7c [Hongbo Liu] [SQL][Minor] fix typo in comments
* [MINOR] [DOCS] Fix map -> mapToPair in Streaming Java exampleSean Owen2015-03-111-4/+4
| | | | | | | | | | Fix map -> mapToPair in Java example. (And zap some unneeded "throws Exception" while here) Author: Sean Owen <sowen@cloudera.com> Closes #4967 from srowen/MapToPairFix and squashes the following commits: ded2bc0 [Sean Owen] Fix map -> mapToPair in Java example. (And zap some unneeded "throws Exception" while here)
* [SPARK-4924] Add a library for launching Spark jobs programmatically.Marcelo Vanzin2015-03-1144-1238/+2891
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This change encapsulates all the logic involved in launching a Spark job into a small Java library that can be easily embedded into other applications. The overall goal of this change is twofold, as described in the bug: - Provide a public API for launching Spark processes. This is a common request from users and currently there's no good answer for it. - Remove a lot of the duplicated code and other coupling that exists in the different parts of Spark that deal with launching processes. A lot of the duplication was due to different code needed to build an application's classpath (and the bootstrapper needed to run the driver in certain situations), and also different code needed to parse spark-submit command line options in different contexts. The change centralizes those as much as possible so that all code paths can rely on the library for handling those appropriately. Author: Marcelo Vanzin <vanzin@cloudera.com> Closes #3916 from vanzin/SPARK-4924 and squashes the following commits: 18c7e4d [Marcelo Vanzin] Fix make-distribution.sh. 2ce741f [Marcelo Vanzin] Add lots of quotes. 3b28a75 [Marcelo Vanzin] Update new pom. a1b8af1 [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 897141f [Marcelo Vanzin] Review feedback. e2367d2 [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 28cd35e [Marcelo Vanzin] Remove stale comment. b1d86b0 [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 00505f9 [Marcelo Vanzin] Add blurb about new API in the programming guide. 5f4ddcc [Marcelo Vanzin] Better usage messages. 92a9cfb [Marcelo Vanzin] Fix Win32 launcher, usage. 6184c07 [Marcelo Vanzin] Rename field. 4c19196 [Marcelo Vanzin] Update comment. 7e66c18 [Marcelo Vanzin] Fix pyspark tests. 0031a8e [Marcelo Vanzin] Review feedback. c12d84b [Marcelo Vanzin] Review feedback. And fix spark-submit on Windows. e2d4d71 [Marcelo Vanzin] Simplify some code used to launch pyspark. 43008a7 [Marcelo Vanzin] Don't make builder extend SparkLauncher. b4d6912 [Marcelo Vanzin] Use spark-submit script in SparkLauncher. 28b1434 [Marcelo Vanzin] Add a comment. 304333a [Marcelo Vanzin] Fix propagation of properties file arg. bb67b93 [Marcelo Vanzin] Remove unrelated Yarn change (that is also wrong). 8ec0243 [Marcelo Vanzin] Add missing newline. 95ddfa8 [Marcelo Vanzin] Fix handling of --help for spark-class command builder. 72da7ec [Marcelo Vanzin] Rename SparkClassLauncher. 62978e4 [Marcelo Vanzin] Minor cleanup of Windows code path. 9cd5b44 [Marcelo Vanzin] Make all non-public APIs package-private. e4c80b6 [Marcelo Vanzin] Reorganize the code so that only SparkLauncher is public. e50dc5e [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 de81da2 [Marcelo Vanzin] Fix CommandUtils. 86a87bf [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 2061967 [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 46d46da [Marcelo Vanzin] Clean up a test and make it more future-proof. b93692a [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 ad03c48 [Marcelo Vanzin] Revert "Fix a thread-safety issue in "local" mode." 0b509d0 [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 23aa2a9 [Marcelo Vanzin] Read java-opts from conf dir, not spark home. 7cff919 [Marcelo Vanzin] Javadoc updates. eae4d8e [Marcelo Vanzin] Fix new unit tests on Windows. e570fb5 [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 44cd5f7 [Marcelo Vanzin] Add package-info.java, clean up javadocs. f7cacff [Marcelo Vanzin] Remove "launch Spark in new thread" feature. 7ed8859 [Marcelo Vanzin] Some more feedback. 54cd4fd [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 61919df [Marcelo Vanzin] Clean leftover debug statement. aae5897 [Marcelo Vanzin] Use launcher classes instead of jars in non-release mode. e584fc3 [Marcelo Vanzin] Rework command building a little bit. 525ef5b [Marcelo Vanzin] Rework Unix spark-class to handle argument with newlines. 8ac4e92 [Marcelo Vanzin] Minor test cleanup. e946a99 [Marcelo Vanzin] Merge PySparkLauncher into SparkSubmitCliLauncher. c617539 [Marcelo Vanzin] Review feedback round 1. fc6a3e2 [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 f26556b [Marcelo Vanzin] Fix a thread-safety issue in "local" mode. 2f4e8b4 [Marcelo Vanzin] Changes needed to make this work with SPARK-4048. 799fc20 [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 bb5d324 [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 53faef1 [Marcelo Vanzin] Merge branch 'master' into SPARK-4924 a7936ef [Marcelo Vanzin] Fix pyspark tests. 656374e [Marcelo Vanzin] Mima fixes. 4d511e7 [Marcelo Vanzin] Fix tools search code. 7a01e4a [Marcelo Vanzin] Fix pyspark on Yarn. 1b3f6e9 [Marcelo Vanzin] Call SparkSubmit from spark-class launcher for unknown classes. 25c5ae6 [Marcelo Vanzin] Centralize SparkSubmit command line parsing. 27be98a [Marcelo Vanzin] Modify Spark to use launcher lib. 6f70eea [Marcelo Vanzin] [SPARK-4924] Add a library for launching Spark jobs programatically.
* [SPARK-5986][MLLib] Add save/load for k-meansXusen Yin2015-03-112-4/+108
| | | | | | | | | | | | | This PR adds save/load for K-means as described in SPARK-5986. Python version will be added in another PR. Author: Xusen Yin <yinxusen@gmail.com> Closes #4951 from yinxusen/SPARK-5986 and squashes the following commits: 6dd74a0 [Xusen Yin] rewrite some functions and classes cd390fd [Xusen Yin] add indexed point b144216 [Xusen Yin] remove invalid comments dce7055 [Xusen Yin] add save/load for k-means for SPARK-5986
* [SPARK-5183][SQL] Update SQL Docs with JDBC and Migration GuideMichael Armbrust2015-03-101-12/+370
| | | | | | | | | | | | | Author: Michael Armbrust <michael@databricks.com> Closes #4958 from marmbrus/sqlDocs and squashes the following commits: 9351dbc [Michael Armbrust] fix parquet example 6877e13 [Michael Armbrust] add sql examples d81b7e7 [Michael Armbrust] rxins comments e393528 [Michael Armbrust] fix order 19c2735 [Michael Armbrust] more on data source load/store 00d5914 [Michael Armbrust] Update SQL Docs with JDBC and Migration Guide
* Minor doc: Remove the extra blank line in data types javadoc.Reynold Xin2015-03-101-18/+6
| | | | | | | | | | The extra blank line is preventing the first lines from showing up in the package summary page. Author: Reynold Xin <rxin@databricks.com> Closes #4955 from rxin/datatype-docs and squashes the following commits: 1621114 [Reynold Xin] Minor doc: Remove the extra blank line in data types javadoc.
* [SPARK-6186] [EC2] Make Tachyon version configurable in EC2 deployment scriptcheng chang2015-03-102-1/+21
| | | | | | | | | | | | | | | | | This PR comes from Tachyon community to solve the issue: https://tachyon.atlassian.net/browse/TACHYON-11 An accompanying PR is in mesos/spark-ec2: https://github.com/mesos/spark-ec2/pull/101 Author: cheng chang <myairia@gmail.com> Closes #4901 from uronce-cc/master and squashes the following commits: 313aa36 [cheng chang] minor re-wording fd2a48e [cheng chang] Remove Tachyon when deploying through git hash 1d53c5c [cheng chang] add default value to --tachyon-version 6f8887e [cheng chang] make tachyon version configurable
* [SPARK-6191] [EC2] Generalize ability to download libsNicholas Chammas2015-03-101-28/+54
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Right now we have a method to specifically download boto. This PR generalizes it so it's easy to download additional libraries if we want. For example, adding new external libraries for spark-ec2 is now as simple as: ```python external_libs = [ { "name": "boto", "version": "2.34.0", "md5": "5556223d2d0cc4d06dd4829e671dcecd" }, { "name": "PyYAML", "version": "3.11", "md5": "f50e08ef0fe55178479d3a618efe21db" }, { "name": "argparse", "version": "1.3.0", "md5": "9bcf7f612190885c8c85e30ba41db3c7" } ] ``` Likely use cases: * Downloading PyYAML to allow spark-ec2 configs to be persisted as a YAML file. ([SPARK-925](https://issues.apache.org/jira/browse/SPARK-925)) * Downloading argparse to clean up / modernize our option parsing. First run output, with PyYAML and argparse added just for demonstration purposes: ```shell $ ./spark-ec2 --version Downloading external libraries that spark-ec2 needs from PyPI to /path/to/spark/ec2/lib... This should be a one-time operation. - Downloading boto... - Finished downloading boto. - Downloading PyYAML... - Finished downloading PyYAML. - Downloading argparse... - Finished downloading argparse. spark-ec2 1.2.1 ``` Output thereafter: ```shell $ ./spark-ec2 --version spark-ec2 1.2.1 ``` Author: Nicholas Chammas <nicholas.chammas@gmail.com> Closes #4919 from nchammas/setup-ec2-libs and squashes the following commits: a077955 [Nicholas Chammas] print default region c95fb7d [Nicholas Chammas] to docstring 5448845 [Nicholas Chammas] remove libs added for demo purposes 60d8c23 [Nicholas Chammas] generalize ability to download libs
* [SPARK-6087][CORE] Provide actionable exception if Kryo buffer is not large ↵Lev Khomich2015-03-102-1/+21
| | | | | | | | | | | | enough A simple try-catch wrapping KryoException to be more informative. Author: Lev Khomich <levkhomich@gmail.com> Closes #4947 from levkhomich/master and squashes the following commits: 0f7a947 [Lev Khomich] [SPARK-6087][CORE] Provide actionable exception if Kryo buffer is not large enough
* [SPARK-6177][MLlib]Add note in LDA example to remind possible coalesceYuhao Yang2015-03-101-1/+3
| | | | | | | | | | | | | | | | JIRA: https://issues.apache.org/jira/browse/SPARK-6177 Add comment to introduce coalesce to LDA example to avoid the possible massive partitions from `sc.textFile`. sc.textFile will create RDD with one partition for each file, and the possible massive partitions downgrades LDA performance. Author: Yuhao Yang <hhbyyh@gmail.com> Closes #4899 from hhbyyh/adjustPartition and squashes the following commits: a499630 [Yuhao Yang] update comment 9a2d7b6 [Yuhao Yang] move to comment f7fd5d4 [Yuhao Yang] Merge remote-tracking branch 'upstream/master' into adjustPartition 26a564a [Yuhao Yang] add coalesce to LDAExample
* [SPARK-6194] [SPARK-677] [PySpark] fix memory leak in collect()Davies Liu2015-03-094-51/+82
| | | | | | | | | | | | | | | | | Because circular reference between JavaObject and JavaMember, an Java object can not be released until Python GC kick in, then it will cause memory leak in collect(), which may consume lots of memory in JVM. This PR change the way we sending collected data back into Python from local file to socket, which could avoid any disk IO during collect, also avoid any referrers of Java object in Python. cc JoshRosen Author: Davies Liu <davies@databricks.com> Closes #4923 from davies/fix_collect and squashes the following commits: d730286 [Davies Liu] address comments 24c92a4 [Davies Liu] fix style ba54614 [Davies Liu] use socket to transfer data from JVM 9517c8f [Davies Liu] fix memory leak in collect()
* [SPARK-5310][Doc] Update SQL Programming Guide to include DataFrames.Reynold Xin2015-03-093-122/+286
| | | | | | | | Author: Reynold Xin <rxin@databricks.com> Closes #4954 from rxin/df-docs and squashes the following commits: c592c70 [Reynold Xin] [SPARK-5310][Doc] Update SQL Programming Guide to include DataFrames.
* [Docs] Replace references to SchemaRDD with DataFrameReynold Xin2015-03-093-6/+6
| | | | | | | | Author: Reynold Xin <rxin@databricks.com> Closes #4952 from rxin/schemardd-df-reference and squashes the following commits: b2b1dbe [Reynold Xin] [Docs] Replace references to SchemaRDD with DataFrame
* [EC2] [SPARK-6188] Instance types can be mislabeled when re-starting cluster ↵Theodore Vasiloudis2015-03-091-0/+11
| | | | | | | | | | | | | | | | | | | | | | | | | | | | with default arguments As described in https://issues.apache.org/jira/browse/SPARK-6188 and discovered in https://issues.apache.org/jira/browse/SPARK-5838. When re-starting a cluster, if the user does not provide the instance types, which is the recommended behavior in the docs currently, the instance will be assigned the default type m1.large. This then affects the setup of the machines. This solves this by getting the instance types from the existing instances, and overwriting the default options. EDIT: Further clarification of the issue: In short, while the instances themselves are the same as launched, their setup is done assuming the default instance type, m1.large. This means that the machines are assumed to have 2 disks, and that leads to problems that are described in in issue [5838](https://issues.apache.org/jira/browse/SPARK-5838), where machines that have one disk end up having shuffle spills in the in the small (8GB) snapshot partitions that quickly fills up and results in failing jobs due to "No space left on device" errors. Other instance specific settings that are set in the spark_ec2.py script are likely to be wrong as well. Author: Theodore Vasiloudis <thvasilo@users.noreply.github.com> Author: Theodore Vasiloudis <tvas@sics.se> Closes #4916 from thvasilo/SPARK-6188]-Instance-types-can-be-mislabeled-when-re-starting-cluster-with-default-arguments and squashes the following commits: 6705b98 [Theodore Vasiloudis] Added comment to clarify setting master instance type to the empty string. a3d29fe [Theodore Vasiloudis] More trailing whitespace 7b32429 [Theodore Vasiloudis] Removed trailing whitespace 3ebd52a [Theodore Vasiloudis] Make sure that the instance type is correct when relaunching a cluster.
* [GraphX] Improve LiveJournalPageRank exampleJacky Li2015-03-081-7/+2
| | | | | | | | | | | | | | | 1. Removed unnecessary import 2. Modified usage print since user must specify the --numEPart parameter as it is required in Analytics.main Author: Jacky Li <jacky.likun@huawei.com> Closes #4917 from jackylk/import and squashes the following commits: 6c07682 [Jacky Li] fix comment c0df8f2 [Jacky Li] fix scalastyle b6235e6 [Jacky Li] fix for comment 87be83b [Jacky Li] remove default value description 5caae76 [Jacky Li] remove import and modify usage
* SPARK-6205 [CORE] UISeleniumSuite fails for Hadoop 2.x test with ↵Sean Owen2015-03-082-0/+13
| | | | | | | | | | | | NoClassDefFoundError Add xml-apis to core test deps to work aroudn UISeleniumSuite classpath issue Author: Sean Owen <sowen@cloudera.com> Closes #4933 from srowen/SPARK-6205 and squashes the following commits: ddd4d32 [Sean Owen] Add xml-apis to core test deps to work aroudn UISeleniumSuite classpath issue
* [SPARK-6193] [EC2] Push group filter up to EC2Nicholas Chammas2015-03-081-37/+41
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | When looking for a cluster, spark-ec2 currently pulls down [info for all instances](https://github.com/apache/spark/blob/eb48fd6e9d55fb034c00e61374bb9c2a86a82fb8/ec2/spark_ec2.py#L620) and filters locally. When working on an AWS account with hundreds of active instances, this step alone can take over 10 seconds. This PR improves how spark-ec2 searches for clusters by pushing the filter up to EC2. Basically, the problem (and solution) look like this: ```python >>> timeit.timeit('blah = conn.get_all_reservations()', setup='from __main__ import conn', number=10) 116.96390509605408 >>> timeit.timeit('blah = conn.get_all_reservations(filters={"instance.group-name": ["my-cluster-master"]})', setup='from __main__ import conn', number=10) 4.629754066467285 ``` Translated to a user-visible action, this looks like (against an AWS account with ~200 active instances): ```shell # master $ python -m timeit -n 3 --setup 'import subprocess' 'subprocess.call("./spark-ec2 get-master my-cluster --region us-west-2", shell=True)' ... 3 loops, best of 3: 9.83 sec per loop # this PR $ python -m timeit -n 3 --setup 'import subprocess' 'subprocess.call("./spark-ec2 get-master my-cluster --region us-west-2", shell=True)' ... 3 loops, best of 3: 1.47 sec per loop ``` This PR also refactors `get_existing_cluster()` to make it, I hope, simpler. Finally, this PR fixes some minor grammar issues related to printing status to the user. :tophat: :clap: Author: Nicholas Chammas <nicholas.chammas@gmail.com> Closes #4922 from nchammas/get-existing-cluster-faster and squashes the following commits: 18802f1 [Nicholas Chammas] ignore shutting-down f2a5b9f [Nicholas Chammas] fix grammar d96a489 [Nicholas Chammas] push group filter up to EC2
* [SPARK-5641] [EC2] Allow spark_ec2.py to copy arbitrary files to clusterFlorian Verhein2015-03-071-0/+42
| | | | | | | | | | | | | | Give users an easy way to rcp a directory structure to the master's / as part of the cluster launch, at a useful point in the workflow (before setup.sh is called on the master). This is an alternative approach to meeting requirements discussed in https://github.com/apache/spark/pull/4487 Author: Florian Verhein <florian.verhein@gmail.com> Closes #4583 from florianverhein/master and squashes the following commits: 49dee88 [Florian Verhein] removed addition of trailing / in rsync to give user this option, added documentation in help 7b8e3d8 [Florian Verhein] remove unused args 87d922c [Florian Verhein] [SPARK-5641] [EC2] implement --deploy-root-dir
* [Minor]fix the wrong descriptionWangTaoTheTonic2015-03-072-3/+3
| | | | | | | | | | | Found it by accident. I'm not gonna file jira for this as it is a very tiny fix. Author: WangTaoTheTonic <wangtao111@huawei.com> Closes #4936 from WangTaoTheTonic/wrongdesc and squashes the following commits: fb8a8ec [WangTaoTheTonic] fix the wrong description aca5596 [WangTaoTheTonic] fix the wrong description
* [EC2] Reorder print statements on terminationNicholas Chammas2015-03-071-6/+8
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | The PR reorders some print statements slightly on cluster termination so that they read better. For example, from this: ``` Are you sure you want to destroy the cluster spark-cluster-test? The following instances will be terminated: Searching for existing cluster spark-cluster-test in region us-west-2... Found 1 master(s), 2 slaves > ... ALL DATA ON ALL NODES WILL BE LOST!! Destroy cluster spark-cluster-test (y/N): ``` To this: ``` Searching for existing cluster spark-cluster-test in region us-west-2... Found 1 master(s), 2 slaves The following instances will be terminated: > ... ALL DATA ON ALL NODES WILL BE LOST!! Are you sure you want to destroy the cluster spark-cluster-test? (y/N) ``` Author: Nicholas Chammas <nicholas.chammas@gmail.com> Closes #4932 from nchammas/termination-print-order and squashes the following commits: c23711d [Nicholas Chammas] reorder prints on termination
* Fix python typo (+ Scala, Java typos)RobertZK2015-03-071-7/+10
| | | | | | | | | | Author: RobertZK <technoguyrob@gmail.com> Author: Robert Krzyzanowski <technoguyrob@gmail.com> Closes #4840 from robertzk/patch-1 and squashes the following commits: d286215 [RobertZK] lambda fix per @laserson 5937989 [Robert Krzyzanowski] Fix python typo
* [SPARK-6178][Shuffle] Removed unused importsVinod K C2015-03-0615-28/+12
| | | | | | | | | | | | Author: Vinod K C <vinod.kchuawei.com> Author: Vinod K C <vinod.kc@huawei.com> Closes #4900 from vinodkc/unused_imports and squashes the following commits: 5373456 [Vinod K C] Removed empty lines 9da7438 [Vinod K C] Changed order of import 594d471 [Vinod K C] Removed unused imports
* [Minor] Resolve sbt warnings: postfix operator second should be enabledGuoQiang Li2015-03-062-0/+2
| | | | | | | | | | | | | | | | | | | | | Resolve sbt warnings: ``` [warn] spark/streaming/src/main/scala/org/apache/spark/streaming/util/WriteAheadLogManager.scala:155: postfix operator second should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] This can be achieved by adding the import clause 'import scala.language.postfixOps' [warn] or by setting the compiler option -language:postfixOps. [warn] See the Scala docs for value scala.language.postfixOps for a discussion [warn] why the feature should be explicitly enabled. [warn] Await.ready(f, 1 second) [warn] ^ ``` Author: GuoQiang Li <witgo@qq.com> Closes #4908 from witgo/sbt_warnings and squashes the following commits: 0629af4 [GuoQiang Li] Resolve sbt warnings: postfix operator second should be enabled
* [core] [minor] Don't pollute source directory when running UtilsSuite.Marcelo Vanzin2015-03-061-3/+4
| | | | | | | | Author: Marcelo Vanzin <vanzin@cloudera.com> Closes #4921 from vanzin/utils-suite and squashes the following commits: 7795dd4 [Marcelo Vanzin] [core] [minor] Don't pollute source directory when running UtilsSuite.
* [CORE, DEPLOY][minor] align arguments order with docs of workerZhang, Liye2015-03-061-1/+1
| | | | | | | | | | The help message for starting `worker` is `Usage: Worker [options] <master>`. While in `start-slaves.sh`, the format is not align with that, it is confusing for the fist glance. Author: Zhang, Liye <liye.zhang@intel.com> Closes #4924 from liyezhang556520/startSlaves and squashes the following commits: 7fd5deb [Zhang, Liye] align arguments order with docs of worker
* [SQL] Make Strategies a public developer APIMichael Armbrust2015-03-051-2/+5
| | | | | | | | Author: Michael Armbrust <michael@databricks.com> Closes #4920 from marmbrus/openStrategies and squashes the following commits: cbc35c0 [Michael Armbrust] [SQL] Make Strategies a public developer API
* [SPARK-6163][SQL] jsonFile should be backed by the data source APIYin Huai2015-03-052-8/+32
| | | | | | | | | | | | jira: https://issues.apache.org/jira/browse/SPARK-6163 Author: Yin Huai <yhuai@databricks.com> Closes #4896 from yhuai/SPARK-6163 and squashes the following commits: 45e023e [Yin Huai] Address @chenghao-intel's comment. 2e8734e [Yin Huai] Use JSON data source for jsonFile. 92a4a33 [Yin Huai] Test.
* [SPARK-6145][SQL] fix ORDER BY on nested fieldsWenchen Fan2015-03-053-3/+14
| | | | | | | | | | | | | | | Based on #4904 with style errors fixed. `LogicalPlan#resolve` will not only produce `Attribute`, but also "`GetField` chain". So in `ResolveSortReferences`, after resolve the ordering expressions, we should not just collect the `Attribute` results, but also `Attribute` at the bottom of "`GetField` chain". Author: Wenchen Fan <cloud0fan@outlook.com> Author: Michael Armbrust <michael@databricks.com> Closes #4918 from marmbrus/pr/4904 and squashes the following commits: 997f84e [Michael Armbrust] fix style 3eedbfc [Wenchen Fan] fix 6145
* [SPARK-6175] Fix standalone executor log links when ephemeral ports or ↵Josh Rosen2015-03-058-20/+57
| | | | | | | | | | | | | | | | | | | | | SPARK_PUBLIC_DNS are used This patch fixes two issues with the executor log viewing links added in Spark 1.3. In standalone mode, the log URLs might include a port value of 0 rather than the actual bound port of the UI, which broke the ability to view logs from workers whose web UIs had been configured to bind to ephemeral ports. In addition, the URLs used workers' local hostnames instead of respecting SPARK_PUBLIC_DNS, which prevented this feature from working properly on Spark EC2 clusters because the links would point to internal DNS names instead of external ones. I included tests for both of these bugs: - We now browse to the URLs and verify that they point to the expected pages. - To test SPARK_PUBLIC_DNS, I changed the code that reads the environment variable to do so via `SparkConf.getenv`, then used a custom SparkConf subclass to mock the environment variable (this pattern is used elsewhere in Spark's tests). Author: Josh Rosen <joshrosen@databricks.com> Closes #4903 from JoshRosen/SPARK-6175 and squashes the following commits: 5577f41 [Josh Rosen] Remove println cfec135 [Josh Rosen] Use webUi.boundPort and publicAddress in log links 27918c7 [Josh Rosen] Add failing unit tests for standalone log URL viewing c250fbe [Josh Rosen] Respect SparkConf in local-cluster Workers. 422a2ef [Josh Rosen] Use conf.getenv to read SPARK_PUBLIC_DNS
* [SPARK-6090][MLLIB] add a basic BinaryClassificationMetrics to PySpark/MLlibXiangrui Meng2015-03-054-0/+99
| | | | | | | | | | | | | A simple wrapper around the Scala implementation. `DataFrame` is used for serialization/deserialization. Methods that return `RDD`s are not supported in this PR. davies If we recognize Scala's `Product`s in Py4J, we can easily add wrappers for Scala methods that returns `RDD[(Double, Double)]`. Is it easy to register serializer for `Product` in PySpark? Author: Xiangrui Meng <meng@databricks.com> Closes #4863 from mengxr/SPARK-6090 and squashes the following commits: 009a3a3 [Xiangrui Meng] provide schema dcddab5 [Xiangrui Meng] add a basic BinaryClassificationMetrics to PySpark/MLlib
* SPARK-6182 [BUILD] spark-parent pom needs to be published for both 2.10 and 2.11Sean Owen2015-03-0528-28/+28
| | | | | | | | | | Option 1 of 2: Convert spark-parent module name to spark-parent_2.10 / spark-parent_2.11 Author: Sean Owen <sowen@cloudera.com> Closes #4912 from srowen/SPARK-6182.1 and squashes the following commits: eff60de [Sean Owen] Convert spark-parent module name to spark-parent_2.10 / spark-parent_2.11
* [SPARK-6153] [SQL] promote guava dep for hive-thriftserverDaoyuan Wang2015-03-051-0/+5
| | | | | | | | | | | | | For package thriftserver, guava is used at runtime. /cc pwendell Author: Daoyuan Wang <daoyuan.wang@intel.com> Closes #4884 from adrian-wang/test and squashes the following commits: 4600ae7 [Daoyuan Wang] only promote for thriftserver 44dda18 [Daoyuan Wang] promote guava dep for hive
* SPARK-5143 [BUILD] [WIP] spark-network-yarn 2.11 depends on ↵Sean Owen2015-03-042-2/+13
| | | | | | | | | | | | | | | | | | spark-network-shuffle 2.10 Update `<scala.binary.version>` prop in POM when switching between Scala 2.10/2.11 ScrapCodes for review. This `sed` command is supposed to just replace the first occurrence, but it replaces them all. Are you more of a `sed` wizard than I? It may be a GNU/BSD thing that is throwing me off. Really, just the first instance should be replaced, hence the `[WIP]`. NB on OS X the original `sed` command here will create files like `pom.xml-e` through the source tree though it otherwise works. It's like `-e` is also the arg to `-i`. I couldn't get rid of that even with `-i""`. No biggie. Author: Sean Owen <sowen@cloudera.com> Closes #4876 from srowen/SPARK-5143 and squashes the following commits: b060c44 [Sean Owen] Oops, fixed reversed version numbers! e875d4a [Sean Owen] Add note about non-GNU sed; fix new pom.xml update to work as intended on GNU sed 703e1eb [Sean Owen] Update scala.binary.version prop in POM when switching between Scala 2.10/2.11
* [SPARK-6149] [SQL] [Build] Excludes Guava 15 referenced by ↵Cheng Lian2015-03-041-0/+8
| | | | | | | | | | | | | | | | | jackson-module-scala_2.10 This PR excludes Guava 15.0 from the SBT build, to make Spark SQL CLI (`bin/spark-sql`) work when compiled against Hive 0.12.0. <!-- Reviewable:start --> [<img src="https://reviewable.io/review_button.png" height=40 alt="Review on Reviewable"/>](https://reviewable.io/reviews/apache/spark/4890) <!-- Reviewable:end --> Author: Cheng Lian <lian@databricks.com> Closes #4890 from liancheng/exclude-guava-15 and squashes the following commits: 91ae9fa [Cheng Lian] Moves Guava 15 exclusion from SBT build to POM 282bd2a [Cheng Lian] Excludes Guava 15 referenced by jackson-module-scala_2.10
* [SPARK-6144] [core] Fix addFile when source files are on "hdfs:"Marcelo Vanzin2015-03-042-50/+63
| | | | | | | | | | | | | The code failed in two modes: it complained when it tried to re-create a directory that already existed, and it was placing some files in the wrong parent directory. The patch fixes both issues. Author: Marcelo Vanzin <vanzin@cloudera.com> Author: trystanleftwich <trystan@atscale.com> Closes #4894 from vanzin/SPARK-6144 and squashes the following commits: 100b3a1 [Marcelo Vanzin] Style fix. 58266aa [Marcelo Vanzin] Fix fetchHcfs file for directories. 91733b7 [trystanleftwich] [SPARK-6144]When in cluster mode using ADD JAR with a hdfs:// sourced jar will fail
* [SPARK-6107][CORE] Display inprogress application information for event log ↵Zhang, Liye2015-03-041-15/+19
| | | | | | | | | | | | | | | | | | | | | | | | | history for standalone mode when application is finished running abnormally (Ctrl + c for example), the history event log file is still ends with `.inprogress` suffix. And the application state can not be showed on webUI, User can only see "*Application history not foud xxxx, Application xxx is still in progress*". For application that not finished normally, the history will show: ![image](https://cloud.githubusercontent.com/assets/4716022/6437137/184f9fc0-c0f5-11e4-88cc-a2eb087e4561.png) Author: Zhang, Liye <liye.zhang@intel.com> Closes #4848 from liyezhang556520/showLogInprogress and squashes the following commits: 03589ac [Zhang, Liye] change inprogress to in progress b55f19f [Zhang, Liye] scala modify after rebase 8aa66a2 [Zhang, Liye] use softer wording b030bd4 [Zhang, Liye] clean code 79c8cb1 [Zhang, Liye] fix some mistakes 11cdb68 [Zhang, Liye] add a missing space c29205b [Zhang, Liye] refine code according to sean owen's comments e9952a7 [Zhang, Liye] scala style fix again 150502d [Zhang, Liye] scala style fix f11a5da [Zhang, Liye] small fix for file path 22e878b [Zhang, Liye] enable in progress eventlog file
* [SPARK-6134][SQL] Fix wrong datatype for casting FloatType and default ↵Liang-Chi Hsieh2015-03-041-2/+2
| | | | | | | | | | | | | | LongType value in defaultPrimitive In `CodeGenerator`, the casting on `FloatType` should use `FloatType` instead of `IntegerType`. Besides, `defaultPrimitive` for `LongType` should be `-1L` instead of `1L`. Author: Liang-Chi Hsieh <viirya@gmail.com> Closes #4870 from viirya/codegen_type and squashes the following commits: 76311dd [Liang-Chi Hsieh] Fix wrong datatype for casting on FloatType. Fix the wrong value for LongType in defaultPrimitive.
* [SPARK-6136] [SQL] Removed JDBC integration tests which depends on docker-clientCheng Lian2015-03-044-432/+0
| | | | | | | | | | | | | | | | | | | Integration test suites in the JDBC data source (`MySQLIntegration` and `PostgresIntegration`) depend on docker-client 2.7.5, which transitively depends on Guava 17.0. Unfortunately, Guava 17.0 is causing test runtime binary compatibility issues when Spark is compiled against Hive 0.12.0, or Hadoop 2.4. Considering `MySQLIntegration` and `PostgresIntegration` are ignored right now, I'd suggest moving them from the Spark project to the [Spark integration tests] [1] project. This PR removes both the JDBC data source integration tests and the docker-client test dependency. [1]: |https://github.com/databricks/spark-integration-tests <!-- Reviewable:start --> [<img src="https://reviewable.io/review_button.png" height=40 alt="Review on Reviewable"/>](https://reviewable.io/reviews/apache/spark/4872) <!-- Reviewable:end --> Author: Cheng Lian <lian@databricks.com> Closes #4872 from liancheng/remove-docker-client and squashes the following commits: 1f4169e [Cheng Lian] Removes DockerHacks 159b24a [Cheng Lian] Removed JDBC integration tests which depends on docker-client
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