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* [SPARK-20123][BUILD] SPARK_HOME variable might have spaces in it(e.g. $SPARK…zuotingbing2017-04-021-16/+16
| | | | | | | | | | | | | | | | JIRA Issue: https://issues.apache.org/jira/browse/SPARK-20123 ## What changes were proposed in this pull request? If $SPARK_HOME or $FWDIR variable contains spaces, then use "./dev/make-distribution.sh --name custom-spark --tgz -Psparkr -Phadoop-2.7 -Phive -Phive-thriftserver -Pmesos -Pyarn" build spark will failed. ## How was this patch tested? manual tests Author: zuotingbing <zuo.tingbing9@zte.com.cn> Closes #17452 from zuotingbing/spark-bulid.
* [SPARK-19955][PYSPARK] Jenkins Python Conda based test.Holden Karau2017-03-292-25/+44
| | | | | | | | | | | | | | ## What changes were proposed in this pull request? Allow Jenkins Python tests to use the installed conda to test Python 2.7 support & test pip installability. ## How was this patch tested? Updated shell scripts, ran tests locally with installed conda, ran tests in Jenkins. Author: Holden Karau <holden@us.ibm.com> Closes #17355 from holdenk/SPARK-19955-support-python-tests-with-conda.
* [SPARK-20040][ML][PYTHON] pyspark wrapper for ChiSquareTestBago Amirbekian2017-03-281-0/+1
| | | | | | | | | | | | | | | ## What changes were proposed in this pull request? A pyspark wrapper for spark.ml.stat.ChiSquareTest ## How was this patch tested? unit tests doctests Author: Bago Amirbekian <bago@databricks.com> Closes #17421 from MrBago/chiSquareTestWrapper.
* [SPARK-20102] Fix nightly packaging and RC packaging scripts w/ two minor ↵Josh Rosen2017-03-271-4/+4
| | | | | | | | | | | | | | | | | | | build fixes ## What changes were proposed in this pull request? The master snapshot publisher builds are currently broken due to two minor build issues: 1. For unknown reasons, the LFTP `mkdir -p` command began throwing errors when the remote directory already exists. This change of behavior might have been caused by configuration changes in the ASF's SFTP server, but I'm not entirely sure of that. To work around this problem, this patch updates the script to ignore errors from the `lftp mkdir -p` commands. 2. The PySpark `setup.py` file references a non-existent `pyspark.ml.stat` module, causing Python packaging to fail by complaining about a missing directory. The fix is to simply drop that line from the setup script. ## How was this patch tested? The LFTP fix was tested by manually running the failing commands on AMPLab Jenkins against the ASF SFTP server. The PySpark fix was tested locally. Author: Josh Rosen <joshrosen@databricks.com> Closes #17437 from JoshRosen/spark-20102.
* [SPARK-19281][PYTHON][ML] spark.ml Python API for FPGrowthzero3232017-03-261-2/+3
| | | | | | | | | | | | | | | | | ## What changes were proposed in this pull request? - Add `HasSupport` and `HasConfidence` `Params`. - Add new module `pyspark.ml.fpm`. - Add `FPGrowth` / `FPGrowthModel` wrappers. - Provide tests for new features. ## How was this patch tested? Unit tests. Author: zero323 <zero323@users.noreply.github.com> Closes #17218 from zero323/SPARK-19281.
* [SPARK-19550] Follow-up: fixed a typo that fails the ↵Shuai Lin2017-02-181-1/+1
| | | | | | | | | | | | | | | | dev/make-distribution.sh script. ## What changes were proposed in this pull request? Fixed a typo in `dev/make-distribution.sh` script that sets the MAVEN_OPTS variable, introduced [here](https://github.com/apache/spark/commit/0e24054#diff-ba2c046d92a1d2b5b417788bfb5cb5f8R149). ## How was this patch tested? Run `dev/make-distribution.sh` manually. Author: Shuai Lin <linshuai2012@gmail.com> Closes #16984 from lins05/fix-spark-make-distribution-after-removing-java7.
* [SPARK-19517][SS] KafkaSource fails to initialize partition offsetsRoberto Agostino Vitillo2017-02-171-0/+1
| | | | | | | | | | | | | | ## What changes were proposed in this pull request? This patch fixes a bug in `KafkaSource` with the (de)serialization of the length of the JSON string that contains the initial partition offsets. ## How was this patch tested? I ran the test suite for spark-sql-kafka-0-10. Author: Roberto Agostino Vitillo <ra.vitillo@gmail.com> Closes #16857 from vitillo/kafka_source_fix.
* [SPARK-19550][HOTFIX][BUILD] Use JAVA_HOME/bin/java if JAVA_HOME is set in ↵Sean Owen2017-02-161-1/+7
| | | | | | | | | | | | | | | | | dev/mima ## What changes were proposed in this pull request? Use JAVA_HOME/bin/java if JAVA_HOME is set in dev/mima script to run MiMa This follows on https://github.com/apache/spark/pull/16871 -- it's a slightly separate issue, but, is currently causing a build failure. ## How was this patch tested? Manually tested. Author: Sean Owen <sowen@cloudera.com> Closes #16957 from srowen/SPARK-19550.2.
* [SPARK-19550][BUILD][CORE][WIP] Remove Java 7 supportSean Owen2017-02-166-8/+3
| | | | | | | | | | | | | | | | | | | | | | | | - Move external/java8-tests tests into core, streaming, sql and remove - Remove MaxPermGen and related options - Fix some reflection / TODOs around Java 8+ methods - Update doc references to 1.7/1.8 differences - Remove Java 7/8 related build profiles - Update some plugins for better Java 8 compatibility - Fix a few Java-related warnings For the future: - Update Java 8 examples to fully use Java 8 - Update Java tests to use lambdas for simplicity - Update Java internal implementations to use lambdas ## How was this patch tested? Existing tests Author: Sean Owen <sowen@cloudera.com> Closes #16871 from srowen/SPARK-19493.
* [SPARK-19571][R] Fix SparkR test break on Windows via AppVeyorhyukjinkwon2017-02-141-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | ## What changes were proposed in this pull request? It seems wintuils for Hadoop 2.6.5 not exiting for now in https://github.com/steveloughran/winutils This breaks the tests in SparkR on Windows so this PR proposes to use winutils built by Hadoop 2.6.4 for now. ## How was this patch tested? Manually via AppVeyor **Before** https://ci.appveyor.com/project/spark-test/spark/build/627-r-test-break **After** https://ci.appveyor.com/project/spark-test/spark/build/629-r-test-break Author: hyukjinkwon <gurwls223@gmail.com> Closes #16927 from HyukjinKwon/spark-r-windows-break.
* [SPARK-19464][BUILD][HOTFIX] run-tests should use hadoop2.6Dongjoon Hyun2017-02-082-8/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ## What changes were proposed in this pull request? After SPARK-19464, **SparkPullRequestBuilder** fails because it still tries to use hadoop2.3. **BEFORE** https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/72595/console ``` ======================================================================== Building Spark ======================================================================== [error] Could not find hadoop2.3 in the list. Valid options are ['hadoop2.6', 'hadoop2.7'] Attempting to post to Github... > Post successful. ``` **AFTER** https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/72595/console ``` ======================================================================== Building Spark ======================================================================== [info] Building Spark (w/Hive 1.2.1) using SBT with these arguments: -Phadoop-2.6 -Pmesos -Pkinesis-asl -Pyarn -Phive-thriftserver -Phive test:package streaming-kafka-0-8-assembly/assembly streaming-flume-assembly/assembly streaming-kinesis-asl-assembly/assembly Using /usr/java/jdk1.8.0_60 as default JAVA_HOME. Note, this will be overridden by -java-home if it is set. ``` ## How was this patch tested? Pass the existing test. Author: Dongjoon Hyun <dongjoon@apache.org> Closes #16858 from dongjoon-hyun/hotfix_run-tests.
* [SPARK-19464][CORE][YARN][TEST-HADOOP2.6] Remove support for Hadoop 2.5 and ↵Sean Owen2017-02-088-539/+2
| | | | | | | | | | | | | | | | | | | earlier ## What changes were proposed in this pull request? - Remove support for Hadoop 2.5 and earlier - Remove reflection and code constructs only needed to support multiple versions at once - Update docs to reflect newer versions - Remove older versions' builds and profiles. ## How was this patch tested? Existing tests Author: Sean Owen <sowen@cloudera.com> Closes #16810 from srowen/SPARK-19464.
* [SPARK-19409][BUILD] Bump parquet version to 1.8.2Dongjoon Hyun2017-01-315-30/+30
| | | | | | | | | | | | | | | | | | ## What changes were proposed in this pull request? According to the discussion on #16281 which tried to upgrade toward Apache Parquet 1.9.0, Apache Spark community prefer to upgrade to 1.8.2 instead of 1.9.0. Now, Apache Parquet 1.8.2 is released officially last week on 26 Jan. We can use 1.8.2 now. https://lists.apache.org/thread.html/af0c813f1419899289a336d96ec02b3bbeecaea23aa6ef69f435c142%3Cdev.parquet.apache.org%3E This PR only aims to bump Parquet version to 1.8.2. It didn't touch any other codes. ## How was this patch tested? Pass the existing tests and also manually by doing `./dev/test-dependencies.sh`. Author: Dongjoon Hyun <dongjoon@apache.org> Closes #16751 from dongjoon-hyun/SPARK-19409.
* [SPARK-19064][PYSPARK] Fix pip installing of sub componentsHolden Karau2017-01-254-2/+10
| | | | | | | | | | | | | | ## What changes were proposed in this pull request? Fix instalation of mllib and ml sub components, and more eagerly cleanup cache files during test script & make-distribution. ## How was this patch tested? Updated sanity test script to import mllib and ml sub-components. Author: Holden Karau <holden@us.ibm.com> Closes #16465 from holdenk/SPARK-19064-fix-pip-install-sub-components.
* [SPARK-16654][CORE] Add UI coverage for Application Level BlacklistingJosé Hiram Soltren2017-01-191-0/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Builds on top of work in SPARK-8425 to update Application Level Blacklisting in the scheduler. ## What changes were proposed in this pull request? Adds a UI to these patches by: - defining new listener events for blacklisting and unblacklisting, nodes and executors; - sending said events at the relevant points in BlacklistTracker; - adding JSON (de)serialization code for these events; - augmenting the Executors UI page to show which, and how many, executors are blacklisted; - adding a unit test to make sure events are being fired; - adding HistoryServerSuite coverage to verify that the SHS reads these events correctly. - updates the Executor UI to show Blacklisted/Active/Dead as a tri-state in Executors Status Updates .rat-excludes to pass tests. username squito ## How was this patch tested? ./dev/run-tests testOnly org.apache.spark.util.JsonProtocolSuite testOnly org.apache.spark.scheduler.BlacklistTrackerSuite testOnly org.apache.spark.deploy.history.HistoryServerSuite https://github.com/jsoltren/jose-utils/blob/master/blacklist/test-blacklist.sh ![blacklist-20161219](https://cloud.githubusercontent.com/assets/1208477/21335321/9eda320a-c623-11e6-8b8c-9c912a73c276.jpg) Author: José Hiram Soltren <jose@cloudera.com> Closes #16346 from jsoltren/SPARK-16654-submit.
* Update known_translations for contributor namesYin Huai2017-01-181-2/+3
| | | | | | | | | ## What changes were proposed in this pull request? Update known_translations per https://github.com/apache/spark/pull/16423#issuecomment-269739634 Author: Yin Huai <yhuai@databricks.com> Closes #16628 from yhuai/known_translations.
* [SPARK-18782][BUILD] Bump Hadoop 2.6 version to use Hadoop 2.6.5Adam Roberts2017-01-181-15/+15
| | | | | | | | | | | | | | **What changes were proposed in this pull request?** Use Hadoop 2.6.5 for the Hadoop 2.6 profile, I see a bunch of fixes including security ones in the release notes that we should pick up **How was this patch tested?** Running the unit tests now with IBM's SDK for Java and let's see what happens with OpenJDK in the community builder - expecting no trouble as it is only a minor release. Author: Adam Roberts <aroberts@uk.ibm.com> Closes #16616 from a-roberts/Hadoop265Bumper.
* [SPARK-18828][SPARKR] Refactor scripts for RFelix Cheung2017-01-161-2/+5
| | | | | | | | | | | | | | ## What changes were proposed in this pull request? Refactored script to remove duplications and clearer purpose for each script ## How was this patch tested? manually Author: Felix Cheung <felixcheung_m@hotmail.com> Closes #16249 from felixcheung/rscripts.
* [SPARK-18971][CORE] Upgrade Netty to 4.0.43.FinalShixiong Zhu2017-01-155-5/+5
| | | | | | | | | | | | | | ## What changes were proposed in this pull request? Upgrade Netty to `4.0.43.Final` to add the fix for https://github.com/netty/netty/issues/6153 ## How was this patch tested? Jenkins Author: Shixiong Zhu <shixiong@databricks.com> Closes #16568 from zsxwing/SPARK-18971.
* [SPARK-19221][PROJECT INFRA][R] Add winutils binaries to the path in ↵hyukjinkwon2017-01-141-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | AppVeyor tests for Hadoop libraries to call native codes properly ## What changes were proposed in this pull request? It seems Hadoop libraries need winutils binaries for native libraries in the path. It is not a problem in tests for now because we are only testing SparkR on Windows via AppVeyor but it can be a problem if we run Scala tests via AppVeyor as below: ``` - SPARK-18220: read Hive orc table with varchar column *** FAILED *** (3 seconds, 937 milliseconds) org.apache.spark.sql.execution.QueryExecutionException: FAILED: Execution Error, return code -101 from org.apache.hadoop.hive.ql.exec.mr.MapRedTask. org.apache.hadoop.io.nativeio.NativeIO$Windows.access0(Ljava/lang/String;I)Z at org.apache.spark.sql.hive.client.HiveClientImpl$$anonfun$runHive$1.apply(HiveClientImpl.scala:625) at org.apache.spark.sql.hive.client.HiveClientImpl$$anonfun$runHive$1.apply(HiveClientImpl.scala:609) at org.apache.spark.sql.hive.client.HiveClientImpl$$anonfun$withHiveState$1.apply(HiveClientImpl.scala:283) ... ``` This PR proposes to add it to the `Path` for AppVeyor tests. ## How was this patch tested? Manually via AppVeyor. **Before** https://ci.appveyor.com/project/spark-test/spark/build/549-windows-complete/job/gc8a1pjua2bc4i8m **After** https://ci.appveyor.com/project/spark-test/spark/build/572-windows-complete/job/c4vrysr5uvj2hgu7 Author: hyukjinkwon <gurwls223@gmail.com> Closes #16584 from HyukjinKwon/set-path-appveyor.
* [SPARK-18997][CORE] Recommended upgrade libthrift to 0.9.3Sean Owen2017-01-105-10/+10
| | | | | | | | | | | | | | ## What changes were proposed in this pull request? Updates to libthrift 0.9.3 to address a CVE. ## How was this patch tested? Existing tests. Author: Sean Owen <sowen@cloudera.com> Closes #16530 from srowen/SPARK-18997.
* [SPARK-19002][BUILD][PYTHON] Check pep8 against all Python scriptshyukjinkwon2017-01-026-191/+282
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ## What changes were proposed in this pull request? This PR proposes to check pep8 against all other Python scripts and fix the errors as below: ```bash ./dev/create-release/generate-contributors.py ./dev/create-release/releaseutils.py ./dev/create-release/translate-contributors.py ./dev/lint-python ./python/docs/epytext.py ./examples/src/main/python/mllib/decision_tree_classification_example.py ./examples/src/main/python/mllib/decision_tree_regression_example.py ./examples/src/main/python/mllib/gradient_boosting_classification_example.py ./examples/src/main/python/mllib/gradient_boosting_regression_example.py ./examples/src/main/python/mllib/linear_regression_with_sgd_example.py ./examples/src/main/python/mllib/logistic_regression_with_lbfgs_example.py ./examples/src/main/python/mllib/naive_bayes_example.py ./examples/src/main/python/mllib/random_forest_classification_example.py ./examples/src/main/python/mllib/random_forest_regression_example.py ./examples/src/main/python/mllib/svm_with_sgd_example.py ./examples/src/main/python/streaming/network_wordjoinsentiments.py ./sql/hive/src/test/resources/data/scripts/cat.py ./sql/hive/src/test/resources/data/scripts/cat_error.py ./sql/hive/src/test/resources/data/scripts/doubleescapedtab.py ./sql/hive/src/test/resources/data/scripts/dumpdata_script.py ./sql/hive/src/test/resources/data/scripts/escapedcarriagereturn.py ./sql/hive/src/test/resources/data/scripts/escapednewline.py ./sql/hive/src/test/resources/data/scripts/escapedtab.py ./sql/hive/src/test/resources/data/scripts/input20_script.py ./sql/hive/src/test/resources/data/scripts/newline.py ``` ## How was this patch tested? - `./python/docs/epytext.py` ```bash cd ./python/docs $$ make html ``` - pep8 check (Python 2.7 / Python 3.3.6) ``` ./dev/lint-python ``` - `./dev/merge_spark_pr.py` (Python 2.7 only / Python 3.3.6 not working) ```bash python -m doctest -v ./dev/merge_spark_pr.py ``` - `./dev/create-release/releaseutils.py` `./dev/create-release/generate-contributors.py` `./dev/create-release/translate-contributors.py` (Python 2.7 only / Python 3.3.6 not working) ```bash python generate-contributors.py python translate-contributors.py ``` - Examples (Python 2.7 / Python 3.3.6) ```bash ./bin/spark-submit examples/src/main/python/mllib/decision_tree_classification_example.py ./bin/spark-submit examples/src/main/python/mllib/decision_tree_regression_example.py ./bin/spark-submit examples/src/main/python/mllib/gradient_boosting_classification_example.py ./bin/spark-submit examples/src/main/python/mllib/gradient_boosting_regression_example.p ./bin/spark-submit examples/src/main/python/mllib/random_forest_classification_example.py ./bin/spark-submit examples/src/main/python/mllib/random_forest_regression_example.py ``` - Examples (Python 2.7 only / Python 3.3.6 not working) ``` ./bin/spark-submit examples/src/main/python/mllib/linear_regression_with_sgd_example.py ./bin/spark-submit examples/src/main/python/mllib/logistic_regression_with_lbfgs_example.py ./bin/spark-submit examples/src/main/python/mllib/naive_bayes_example.py ./bin/spark-submit examples/src/main/python/mllib/svm_with_sgd_example.py ``` - `sql/hive/src/test/resources/data/scripts/*.py` (Python 2.7 / Python 3.3.6 within suggested changes) Manually tested only changed ones. - `./dev/github_jira_sync.py` (Python 2.7 only / Python 3.3.6 not working) Manually tested this after disabling actually adding comments and links. And also via Jenkins tests. Author: hyukjinkwon <gurwls223@gmail.com> Closes #16405 from HyukjinKwon/minor-pep8.
* Update known_translations for contributor names and also fix a small issue ↵Yin Huai2016-12-292-1/+40
| | | | | | | | | | | | | | in translate-contributors.py ## What changes were proposed in this pull request? This PR updates dev/create-release/known_translations to add more contributor name mapping. It also fixes a small issue in translate-contributors.py ## How was this patch tested? manually tested Author: Yin Huai <yhuai@databricks.com> Closes #16423 from yhuai/contributors.
* [BUILD] make-distribution should find JAVA_HOME for non-RHEL systemsFelix Cheung2016-12-211-0/+7
| | | | | | | | | | | | | | ## What changes were proposed in this pull request? make-distribution.sh should find JAVA_HOME for Ubuntu, Mac and other non-RHEL systems ## How was this patch tested? Manually Author: Felix Cheung <felixcheung_m@hotmail.com> Closes #16363 from felixcheung/buildjava.
* [SPARK-18588][SS][KAFKA] Create a new KafkaConsumer when error happens to ↵Shixiong Zhu2016-12-211-1/+2
| | | | | | | | | | | | | | | | | | fix the flaky test ## What changes were proposed in this pull request? When KafkaSource fails on Kafka errors, we should create a new consumer to retry rather than using the existing broken one because it's possible that the broken one will fail again. This PR also assigns a new group id to the new created consumer for a possible race condition: the broken consumer cannot talk with the Kafka cluster in `close` but the new consumer can talk to Kafka cluster. I'm not sure if this will happen or not. Just for safety to avoid that the Kafka cluster thinks there are two consumers with the same group id in a short time window. (Note: CachedKafkaConsumer doesn't need this fix since `assign` never uses the group id.) ## How was this patch tested? In https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/70370/console , it ran this flaky test 120 times and all passed. Author: Shixiong Zhu <shixiong@databricks.com> Closes #16282 from zsxwing/kafka-fix.
* [SPARK-18951] Upgrade com.thoughtworks.paranamer/paranamer to 2.6Yin Huai2016-12-215-5/+5
| | | | | | | | | ## What changes were proposed in this pull request? I recently hit a bug of com.thoughtworks.paranamer/paranamer, which causes jackson fail to handle byte array defined in a case class. Then I find https://github.com/FasterXML/jackson-module-scala/issues/48, which suggests that it is caused by a bug in paranamer. Let's upgrade paranamer. Since we are using jackson 2.6.5 and jackson-module-paranamer 2.6.5 use com.thoughtworks.paranamer/paranamer 2.6, I suggests that we upgrade paranamer to 2.6. Author: Yin Huai <yhuai@databricks.com> Closes #16359 from yhuai/SPARK-18951.
* [MINOR] Handle fact that mv is different on linux, macShivaram Venkataraman2016-12-151-2/+5
| | | | | | | | Follow up to https://github.com/apache/spark/commit/ae853e8f3bdbd16427e6f1ffade4f63abaf74abb as `mv` throws an error on the Jenkins machines if source and destinations are the same. Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu> Closes #16302 from shivaram/sparkr-no-mv-fix.
* [MINOR] Only rename SparkR tar.gz if names mismatchShivaram Venkataraman2016-12-151-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | ## What changes were proposed in this pull request? For release builds the R_PACKAGE_VERSION and VERSION are the same (e.g., 2.1.0). Thus `cp` throws an error which causes the build to fail. ## How was this patch tested? Manually by executing the following script ``` set -o pipefail set -e set -x touch a R_PACKAGE_VERSION=2.1.0 VERSION=2.1.0 if [ "$R_PACKAGE_VERSION" != "$VERSION" ]; then cp a a fi ``` Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu> Closes #16299 from shivaram/sparkr-cp-fix.
* [SPARK-18730] Post Jenkins test report page instead of the full console ↵Cheng Lian2016-12-141-1/+1
| | | | | | | | | | | | | | | | | | | | output page to GitHub ## What changes were proposed in this pull request? Currently, the full console output page of a Spark Jenkins PR build can be as large as several megabytes. It takes a relatively long time to load and may even freeze the browser for quite a while. This PR makes the build script to post the test report page link to GitHub instead. The test report page is way more concise and is usually the first page I'd like to check when investigating a Jenkins build failure. Note that for builds that a test report is not available (ongoing builds and builds that fail before test execution), the test report link automatically redirects to the build page. ## How was this patch tested? N/A. Author: Cheng Lian <lian@databricks.com> Closes #16163 from liancheng/jenkins-test-report.
* [MINOR][SPARKR] Fix SparkR regex in copy commandShivaram Venkataraman2016-12-091-2/+2
| | | | | | | | | | | | Fix SparkR package copy regex. The existing code leads to ``` Copying release tarballs to /home/****/public_html/spark-nightly/spark-branch-2.1-bin/spark-2.1.1-SNAPSHOT-2016_12_08_22_38-e8f351f-bin mput: SparkR-*: no files found ``` Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu> Closes #16231 from shivaram/typo-sparkr-build.
* Copy pyspark and SparkR packages to latest release dir tooFelix Cheung2016-12-081-0/+2
| | | | | | | | | | ## What changes were proposed in this pull request? Copy pyspark and SparkR packages to latest release dir, as per comment [here](https://github.com/apache/spark/pull/16226#discussion_r91664822) Author: Felix Cheung <felixcheung_m@hotmail.com> Closes #16227 from felixcheung/pyrftp.
* Copy the SparkR source package with LFTPShivaram Venkataraman2016-12-081-0/+1
| | | | | | | | This PR adds a line in release-build.sh to copy the SparkR source archive using LFTP Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu> Closes #16226 from shivaram/fix-sparkr-copy-build.
* [SPARKR][PYSPARK] Fix R source package name to match Spark version. Remove ↵Shivaram Venkataraman2016-12-081-0/+9
| | | | | | | | | | | | | | pip tar.gz from distribution ## What changes were proposed in this pull request? Fixes name of R source package so that the `cp` in release-build.sh works correctly. Issue discussed in https://github.com/apache/spark/pull/16014#issuecomment-265867125 Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu> Closes #16221 from shivaram/fix-sparkr-release-build-name.
* [SPARK-18590][SPARKR] Change the R source build to Hadoop 2.6Shivaram Venkataraman2016-12-081-2/+2
| | | | | | | | This PR changes the SparkR source release tarball to be built using the Hadoop 2.6 profile. Previously it was using the without hadoop profile which leads to an error as discussed in https://github.com/apache/spark/pull/16014#issuecomment-265843991 Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu> Closes #16218 from shivaram/fix-sparkr-release-build.
* [SPARK-18590][SPARKR] build R source package when making distributionFelix Cheung2016-12-082-8/+44
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ## What changes were proposed in this pull request? This PR has 2 key changes. One, we are building source package (aka bundle package) for SparkR which could be released on CRAN. Two, we should include in the official Spark binary distributions SparkR installed from this source package instead (which would have help/vignettes rds needed for those to work when the SparkR package is loaded in R, whereas earlier approach with devtools does not) But, because of various differences in how R performs different tasks, this PR is a fair bit more complicated. More details below. This PR also includes a few minor fixes. ### more details These are the additional steps in make-distribution; please see [here](https://github.com/apache/spark/blob/master/R/CRAN_RELEASE.md) on what's going to a CRAN release, which is now run during make-distribution.sh. 1. package needs to be installed because the first code block in vignettes is `library(SparkR)` without lib path 2. `R CMD build` will build vignettes (this process runs Spark/SparkR code and captures outputs into pdf documentation) 3. `R CMD check` on the source package will install package and build vignettes again (this time from source packaged) - this is a key step required to release R package on CRAN (will skip tests here but tests will need to pass for CRAN release process to success - ideally, during release signoff we should install from the R source package and run tests) 4. `R CMD Install` on the source package (this is the only way to generate doc/vignettes rds files correctly, not in step # 1) (the output of this step is what we package into Spark dist and sparkr.zip) Alternatively, R CMD build should already be installing the package in a temp directory though it might just be finding this location and set it to lib.loc parameter; another approach is perhaps we could try calling `R CMD INSTALL --build pkg` instead. But in any case, despite installing the package multiple times this is relatively fast. Building vignettes takes a while though. ## How was this patch tested? Manually, CI. Author: Felix Cheung <felixcheung_m@hotmail.com> Closes #16014 from felixcheung/rdist.
* [SPARK-18662] Move resource managers to separate directoryAnirudh2016-12-061-2/+2
| | | | | | | | | | | | | | | | | | | ## What changes were proposed in this pull request? * Moves yarn and mesos scheduler backends to resource-managers/ sub-directory (in preparation for https://issues.apache.org/jira/browse/SPARK-18278) * Corresponding change in top-level pom.xml. Ref: https://github.com/apache/spark/pull/16061#issuecomment-263649340 ## How was this patch tested? * Manual tests /cc rxin Author: Anirudh <ramanathana@google.com> Closes #16092 from foxish/fix-scheduler-structure-2.
* [SPARK-18671][SS][TEST] Added tests to ensure stability of that all ↵Tathagata Das2016-12-061-0/+1
| | | | | | | | | | | | | | | Structured Streaming log formats ## What changes were proposed in this pull request? To be able to restart StreamingQueries across Spark version, we have already made the logs (offset log, file source log, file sink log) use json. We should added tests with actual json files in the Spark such that any incompatible changes in reading the logs is immediately caught. This PR add tests for FileStreamSourceLog, FileStreamSinkLog, and OffsetSeqLog. ## How was this patch tested? new unit tests Author: Tathagata Das <tathagata.das1565@gmail.com> Closes #16128 from tdas/SPARK-18671.
* [SPARK-18586][BUILD] netty-3.8.0.Final.jar has vulnerability CVE-2014-3488 ↵Sean Owen2016-12-035-5/+5
| | | | | | | | | | | | | | | | and CVE-2014-0193 ## What changes were proposed in this pull request? Force update to latest Netty 3.9.x, for dependencies like Flume, to resolve two CVEs. 3.9.2 is the first version that resolves both, and, this is the latest in the 3.9.x line. ## How was this patch tested? Existing tests Author: Sean Owen <sowen@cloudera.com> Closes #16102 from srowen/SPARK-18586.
* [SPARK-18639] Build only a single pip packageReynold Xin2016-12-011-18/+27
| | | | | | | | | | | | ## What changes were proposed in this pull request? We current build 5 separate pip binary tar balls, doubling the release script runtime. It'd be better to build one, especially for use cases that are just using Spark locally. In the long run, it would make more sense to have Hadoop support be pluggable. ## How was this patch tested? N/A - this is a release build script that doesn't have any automated test coverage. We will know if it goes wrong when we prepare releases. Author: Reynold Xin <rxin@databricks.com> Closes #16072 from rxin/SPARK-18639.
* [SPARK-18602] Set the version of org.codehaus.janino:commons-compiler to ↵Yin Huai2016-11-285-5/+5
| | | | | | | | | | | | | | | | 3.0.0 to match the version of org.codehaus.janino:janino ## What changes were proposed in this pull request? org.codehaus.janino:janino depends on org.codehaus.janino:commons-compiler and we have been upgraded to org.codehaus.janino:janino 3.0.0. However, seems we are still pulling in org.codehaus.janino:commons-compiler 2.7.6 because of calcite. It looks like an accident because we exclude janino from calcite (see here https://github.com/apache/spark/blob/branch-2.1/pom.xml#L1759). So, this PR upgrades org.codehaus.janino:commons-compiler to 3.0.0. ## How was this patch tested? jenkins Author: Yin Huai <yhuai@databricks.com> Closes #16025 from yhuai/janino-commons-compile.
* [SPARK-18073][DOCS][WIP] Migrate wiki to spark.apache.org web siteSean Owen2016-11-231-1/+1
| | | | | | | | | | | | | | ## What changes were proposed in this pull request? Updates links to the wiki to links to the new location of content on spark.apache.org. ## How was this patch tested? Doc builds Author: Sean Owen <sowen@cloudera.com> Closes #15967 from srowen/SPARK-18073.1.
* [SPARK-1267][SPARK-18129] Allow PySpark to be pip installedHolden Karau2016-11-169-7/+210
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ## What changes were proposed in this pull request? This PR aims to provide a pip installable PySpark package. This does a bunch of work to copy the jars over and package them with the Python code (to prevent challenges from trying to use different versions of the Python code with different versions of the JAR). It does not currently publish to PyPI but that is the natural follow up (SPARK-18129). Done: - pip installable on conda [manual tested] - setup.py installed on a non-pip managed system (RHEL) with YARN [manual tested] - Automated testing of this (virtualenv) - packaging and signing with release-build* Possible follow up work: - release-build update to publish to PyPI (SPARK-18128) - figure out who owns the pyspark package name on prod PyPI (is it someone with in the project or should we ask PyPI or should we choose a different name to publish with like ApachePySpark?) - Windows support and or testing ( SPARK-18136 ) - investigate details of wheel caching and see if we can avoid cleaning the wheel cache during our test - consider how we want to number our dev/snapshot versions Explicitly out of scope: - Using pip installed PySpark to start a standalone cluster - Using pip installed PySpark for non-Python Spark programs *I've done some work to test release-build locally but as a non-committer I've just done local testing. ## How was this patch tested? Automated testing with virtualenv, manual testing with conda, a system wide install, and YARN integration. release-build changes tested locally as a non-committer (no testing of upload artifacts to Apache staging websites) Author: Holden Karau <holden@us.ibm.com> Author: Juliet Hougland <juliet@cloudera.com> Author: Juliet Hougland <not@myemail.com> Closes #15659 from holdenk/SPARK-1267-pip-install-pyspark.
* [SPARK-18420][BUILD] Fix the errors caused by lint check in JavaXianyang Liu2016-11-161-0/+15
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ## What changes were proposed in this pull request? Small fix, fix the errors caused by lint check in Java - Clear unused objects and `UnusedImports`. - Add comments around the method `finalize` of `NioBufferedFileInputStream`to turn off checkstyle. - Cut the line which is longer than 100 characters into two lines. ## How was this patch tested? Travis CI. ``` $ build/mvn -T 4 -q -DskipTests -Pyarn -Phadoop-2.3 -Pkinesis-asl -Phive -Phive-thriftserver install $ dev/lint-java ``` Before: ``` Checkstyle checks failed at following occurrences: [ERROR] src/main/java/org/apache/spark/network/util/TransportConf.java:[21,8] (imports) UnusedImports: Unused import - org.apache.commons.crypto.cipher.CryptoCipherFactory. [ERROR] src/test/java/org/apache/spark/network/sasl/SparkSaslSuite.java:[516,5] (modifier) RedundantModifier: Redundant 'public' modifier. [ERROR] src/main/java/org/apache/spark/io/NioBufferedFileInputStream.java:[133] (coding) NoFinalizer: Avoid using finalizer method. [ERROR] src/main/java/org/apache/spark/sql/catalyst/expressions/UnsafeMapData.java:[71] (sizes) LineLength: Line is longer than 100 characters (found 113). [ERROR] src/main/java/org/apache/spark/sql/catalyst/expressions/UnsafeArrayData.java:[112] (sizes) LineLength: Line is longer than 100 characters (found 110). [ERROR] src/test/java/org/apache/spark/sql/catalyst/expressions/HiveHasherSuite.java:[31,17] (modifier) ModifierOrder: 'static' modifier out of order with the JLS suggestions. [ERROR]src/main/java/org/apache/spark/examples/ml/JavaLogisticRegressionWithElasticNetExample.java:[64] (sizes) LineLength: Line is longer than 100 characters (found 103). [ERROR] src/main/java/org/apache/spark/examples/ml/JavaInteractionExample.java:[22,8] (imports) UnusedImports: Unused import - org.apache.spark.ml.linalg.Vectors. [ERROR] src/main/java/org/apache/spark/examples/ml/JavaInteractionExample.java:[51] (regexp) RegexpSingleline: No trailing whitespace allowed. ``` After: ``` $ build/mvn -T 4 -q -DskipTests -Pyarn -Phadoop-2.3 -Pkinesis-asl -Phive -Phive-thriftserver install $ dev/lint-java Using `mvn` from path: /home/travis/build/ConeyLiu/spark/build/apache-maven-3.3.9/bin/mvn Checkstyle checks passed. ``` Author: Xianyang Liu <xyliu0530@icloud.com> Closes #15865 from ConeyLiu/master.
* [SPARK-18418] Fix flags for make_binary_release for hadoop profileHolden Karau2016-11-121-4/+4
| | | | | | | | | | | | | | | | ## What changes were proposed in this pull request? Fix the flags used to specify the hadoop version ## How was this patch tested? Manually tested as part of https://github.com/apache/spark/pull/15659 by having the build succeed. cc joshrosen Author: Holden Karau <holden@us.ibm.com> Closes #15860 from holdenk/minor-fix-release-build-script.
* [SPARK-18375][SPARK-18383][BUILD][CORE] Upgrade netty to 4.0.42.FinalGuoqiang Li2016-11-125-5/+5
| | | | | | | | | | | | | | | ## What changes were proposed in this pull request? One of the important changes for 4.0.42.Final is "Support any FileRegion implementation when using epoll transport netty/netty#5825". In 4.0.42.Final, `MessageWithHeader` can work properly when `spark.[shuffle|rpc].io.mode` is set to epoll ## How was this patch tested? Existing tests Author: Guoqiang Li <witgo@qq.com> Closes #15830 from witgo/SPARK-18375_netty-4.0.42.
* [SPARK-18262][BUILD][SQL] JSON.org license is now CatXSean Owen2016-11-105-5/+0
| | | | | | | | | | | | | | ## What changes were proposed in this pull request? Try excluding org.json:json from hive-exec dep as it's Cat X now. It may be the case that it's not used by the part of Hive Spark uses anyway. ## How was this patch tested? Existing tests Author: Sean Owen <sowen@cloudera.com> Closes #15798 from srowen/SPARK-18262.
* [SPARK-17960][PYSPARK][UPGRADE TO PY4J 0.10.4]Jagadeesan2016-10-215-5/+5
| | | | | | | | | | | | | | | ## What changes were proposed in this pull request? 1) Upgrade the Py4J version on the Java side 2) Update the py4j src zip file we bundle with Spark ## How was this patch tested? Existing doctests & unit tests pass Author: Jagadeesan <as2@us.ibm.com> Closes #15514 from jagadeesanas2/SPARK-17960.
* [SPARK-17985][CORE] Bump commons-lang3 version to 3.5.Takuya UESHIN2016-10-195-5/+5
| | | | | | | | | | | | | | | ## What changes were proposed in this pull request? `SerializationUtils.clone()` of commons-lang3 (<3.5) has a bug that breaks thread safety, which gets stack sometimes caused by race condition of initializing hash map. See https://issues.apache.org/jira/browse/LANG-1251. ## How was this patch tested? Existing tests. Author: Takuya UESHIN <ueshin@happy-camper.st> Closes #15548 from ueshin/issues/SPARK-17985.
* Revert "[SPARK-17985][CORE] Bump commons-lang3 version to 3.5."Reynold Xin2016-10-185-5/+5
| | | | | | | | | | | | | | | This reverts commit bfe7885aee2f406c1bbde08e30809a0b4bb070d2. The commit caused build failures on Hadoop 2.2 profile: ``` [error] /scratch/rxin/spark/core/src/main/scala/org/apache/spark/util/Utils.scala:1489: value read is not a member of object org.apache.commons.io.IOUtils [error] var numBytes = IOUtils.read(gzInputStream, buf) [error] ^ [error] /scratch/rxin/spark/core/src/main/scala/org/apache/spark/util/Utils.scala:1492: value read is not a member of object org.apache.commons.io.IOUtils [error] numBytes = IOUtils.read(gzInputStream, buf) [error] ^ ```
* [SPARK-17985][CORE] Bump commons-lang3 version to 3.5.Takuya UESHIN2016-10-185-5/+5
| | | | | | | | | | | | | | | ## What changes were proposed in this pull request? `SerializationUtils.clone()` of commons-lang3 (<3.5) has a bug that breaks thread safety, which gets stack sometimes caused by race condition of initializing hash map. See https://issues.apache.org/jira/browse/LANG-1251. ## How was this patch tested? Existing tests. Author: Takuya UESHIN <ueshin@happy-camper.st> Closes #15525 from ueshin/issues/SPARK-17985.
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