| Commit message (Collapse) | Author | Age | Files | Lines |
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Fix sortByKey() with take()
The function `f` used in mapPartitions should always return an iterator.
Author: Davies Liu <davies.liu@gmail.com>
Closes #2045 from davies/fix_sortbykey and squashes the following commits:
1160f59 [Davies Liu] fix sortByKey() with take()
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This PR fixes two bugs related to `spark.local.dirs` and `SPARK_LOCAL_DIRS`, one where `Utils.getLocalDir()` might return an invalid directory (SPARK-2974) and another where the `SPARK_LOCAL_DIRS` override didn't affect the driver, which could cause problems when running tasks in local mode (SPARK-2975).
This patch fixes both issues: the new `Utils.getOrCreateLocalRootDirs(conf: SparkConf)` utility method manages the creation of local directories and handles the precedence among the different configuration options, so we should see the same behavior whether we're running in local mode or on a worker.
It's kind of a pain to mock out environment variables in tests (no easy way to mock System.getenv), so I added a `private[spark]` method to SparkConf for accessing environment variables (by default, it just delegates to System.getenv). By subclassing SparkConf and overriding this method, we can mock out SPARK_LOCAL_DIRS in tests.
I also fixed a typo in PySpark where we used `SPARK_LOCAL_DIR` instead of `SPARK_LOCAL_DIRS` (I think this was technically innocuous, but it seemed worth fixing).
Author: Josh Rosen <joshrosen@apache.org>
Closes #2002 from JoshRosen/local-dirs and squashes the following commits:
efad8c6 [Josh Rosen] Address review comments:
1dec709 [Josh Rosen] Minor updates to Javadocs.
7f36999 [Josh Rosen] Use env vars to detect if running in YARN container.
399ac25 [Josh Rosen] Update getLocalDir() documentation.
bb3ad89 [Josh Rosen] Remove duplicated YARN getLocalDirs() code.
3e92d44 [Josh Rosen] Move local dirs override logic into Utils; fix bugs:
b2c4736 [Josh Rosen] Add failing tests for SPARK-2974 and SPARK-2975.
007298b [Josh Rosen] Allow environment variables to be mocked in tests.
6d9259b [Josh Rosen] Fix typo in PySpark: SPARK_LOCAL_DIR should be SPARK_LOCAL_DIRS
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Though we don't use default argument for methods in RandomRDDs, it is still not easy for Java users to use because the output type is either `RDD[Double]` or `RDD[Vector]`. Java users should expect `JavaDoubleRDD` and `JavaRDD[Vector]`, respectively. We should create dedicated methods for Java users, and allow default arguments in Scala methods in RandomRDDs, to make life easier for both Java and Scala users. This PR also contains documentation for random data generation. brkyvz
Author: Xiangrui Meng <meng@databricks.com>
Closes #2041 from mengxr/stat-doc and squashes the following commits:
fc5eedf [Xiangrui Meng] add missing comma
ffde810 [Xiangrui Meng] address comments
aef6d07 [Xiangrui Meng] add doc for random data generation
b99d94b [Xiangrui Meng] add java-friendly methods to RandomRDDs
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sizes.
If two RDDs have different batch size in serializers, then it will try to re-serialize the one with smaller batch size, then call RDD.zip() in Spark.
Author: Davies Liu <davies.liu@gmail.com>
Closes #1894 from davies/zip and squashes the following commits:
c4652ea [Davies Liu] add more test cases
6d05fc8 [Davies Liu] Merge branch 'master' into zip
813b1e4 [Davies Liu] add more tests for failed cases
a4aafda [Davies Liu] fix zip with serializers which have different batch sizes.
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This fixes SPARK-3114, an issue where we inadvertently broke Python UDFs in Spark SQL.
This PR modifiers the test runner script to always run the PySpark SQL tests, irrespective of whether SparkSQL itself has been modified. It also includes Davies' fix for the bug.
Closes #2026.
Author: Josh Rosen <joshrosen@apache.org>
Author: Davies Liu <davies.liu@gmail.com>
Closes #2027 from JoshRosen/pyspark-sql-fix and squashes the following commits:
9af2708 [Davies Liu] bugfix: disable compression of command
0d8d3a4 [Josh Rosen] Always run Python Spark SQL tests.
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Added examples for statistical summarization:
* Scala: StatisticalSummary.scala
** Tests: correlation, MultivariateOnlineSummarizer
* python: statistical_summary.py
** Tests: correlation (since MultivariateOnlineSummarizer has no Python API)
Added examples for random and sampled RDDs:
* Scala: RandomAndSampledRDDs.scala
* python: random_and_sampled_rdds.py
* Both test:
** RandomRDDGenerators.normalRDD, normalVectorRDD
** RDD.sample, takeSample, sampleByKey
Added sc.stop() to all examples.
CorrelationSuite.scala
* Added 1 test for RDDs with only 1 value
RowMatrix.scala
* numCols(): Added check for numRows = 0, with error message.
* computeCovariance(): Added check for numRows <= 1, with error message.
Python SparseVector (pyspark/mllib/linalg.py)
* Added toDense() function
python/run-tests script
* Added stat.py (doc test)
CC: mengxr dorx Main changes were examples to show usage across APIs.
Author: Joseph K. Bradley <joseph.kurata.bradley@gmail.com>
Closes #1878 from jkbradley/mllib-stats-api-check and squashes the following commits:
ea5c047 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check
dafebe2 [Joseph K. Bradley] Bug fixes for examples SampledRDDs.scala and sampled_rdds.py: Check for division by 0 and for missing key in maps.
8d1e555 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check
60c72d9 [Joseph K. Bradley] Fixed stat.py doc test to work for Python versions printing nan or NaN.
b20d90a [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check
4e5d15e [Joseph K. Bradley] Changed pyspark/mllib/stat.py doc tests to use NaN instead of nan.
32173b7 [Joseph K. Bradley] Stats examples update.
c8c20dc [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check
cf70b07 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check
0b7cec3 [Joseph K. Bradley] Small updates based on code review. Renamed statistical_summary.py to correlations.py
ab48f6e [Joseph K. Bradley] RowMatrix.scala * numCols(): Added check for numRows = 0, with error message. * computeCovariance(): Added check for numRows <= 1, with error message.
65e4ebc [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check
8195c78 [Joseph K. Bradley] Added examples for random and sampled RDDs: * Scala: RandomAndSampledRDDs.scala * python: random_and_sampled_rdds.py * Both test: ** RandomRDDGenerators.normalRDD, normalVectorRDD ** RDD.sample, takeSample, sampleByKey
064985b [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into mllib-stats-api-check
ee918e9 [Joseph K. Bradley] Added examples for statistical summarization: * Scala: StatisticalSummary.scala ** Tests: correlation, MultivariateOnlineSummarizer * python: statistical_summary.py ** Tests: correlation (since MultivariateOnlineSummarizer has no Python API)
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Small DecisionTree updates:
* Changed main DecisionTree aggregate to treeAggregate.
* Fixed bug in python example decision_tree_runner.py with missing argument (since categoricalFeaturesInfo is no longer an optional argument for trainClassifier).
* Fixed same bug in python doc tests, and added tree.py to doc tests.
CC: mengxr
Author: Joseph K. Bradley <joseph.kurata.bradley@gmail.com>
Closes #2015 from jkbradley/dt-opt2 and squashes the following commits:
b5114fa [Joseph K. Bradley] Fixed python tree.py doc test (extra newline)
8e4665d [Joseph K. Bradley] Added tree.py to python doc tests. Fixed bug from missing categoricalFeaturesInfo argument.
b7b2922 [Joseph K. Bradley] Fixed bug in python example decision_tree_runner.py with missing argument. Changed main DecisionTree aggregate to treeAggregate.
85bbc1f [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt2
66d076f [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt2
a0ed0da [Joseph K. Bradley] Renamed DTMetadata to DecisionTreeMetadata. Small doc updates.
3726d20 [Joseph K. Bradley] Small code improvements based on code review.
ac0b9f8 [Joseph K. Bradley] Small updates based on code review. Main change: Now using << instead of math.pow.
db0d773 [Joseph K. Bradley] scala style fix
6a38f48 [Joseph K. Bradley] Added DTMetadata class for cleaner code
931a3a7 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt2
797f68a [Joseph K. Bradley] Fixed DecisionTreeSuite bug for training second level. Needed to update treePointToNodeIndex with groupShift.
f40381c [Joseph K. Bradley] Merge branch 'dt-opt1' into dt-opt2
5f2dec2 [Joseph K. Bradley] Fixed scalastyle issue in TreePoint
6b5651e [Joseph K. Bradley] Updates based on code review. 1 major change: persisting to memory + disk, not just memory.
2d2aaaf [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt1
26d10dd [Joseph K. Bradley] Removed tree/model/Filter.scala since no longer used. Removed debugging println calls in DecisionTree.scala.
356daba [Joseph K. Bradley] Merge branch 'dt-opt1' into dt-opt2
430d782 [Joseph K. Bradley] Added more debug info on binning error. Added some docs.
d036089 [Joseph K. Bradley] Print timing info to logDebug.
e66f1b1 [Joseph K. Bradley] TreePoint * Updated doc * Made some methods private
8464a6e [Joseph K. Bradley] Moved TimeTracker to tree/impl/ in its own file, and cleaned it up. Removed debugging println calls from DecisionTree. Made TreePoint extend Serialiable
a87e08f [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt1
c1565a5 [Joseph K. Bradley] Small DecisionTree updates: * Simplification: Updated calculateGainForSplit to take aggregates for a single (feature, split) pair. * Internal doc: findAggForOrderedFeatureClassification
b914f3b [Joseph K. Bradley] DecisionTree optimization: eliminated filters + small changes
b2ed1f3 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-opt
0f676e2 [Joseph K. Bradley] Optimizations + Bug fix for DecisionTree
3211f02 [Joseph K. Bradley] Optimizing DecisionTree * Added TreePoint representation to avoid calling findBin multiple times. * (not working yet, but debugging)
f61e9d2 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-timing
bcf874a [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-timing
511ec85 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-timing
a95bc22 [Joseph K. Bradley] timing for DecisionTree internals
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bugfix: It will raise an exception when it try to encode non-ASCII strings into unicode. It should only encode unicode as "utf-8".
Author: Davies Liu <davies.liu@gmail.com>
Closes #2018 from davies/fix_utf8 and squashes the following commits:
4db7967 [Davies Liu] fix saveAsTextFile() with utf-8
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Passing large object by py4j is very slow (cost much memory), so pass broadcast objects via files (similar to parallelize()).
Add an option to keep object in driver (it's False by default) to save memory in driver.
Author: Davies Liu <davies.liu@gmail.com>
Closes #1912 from davies/broadcast and squashes the following commits:
e06df4a [Davies Liu] load broadcast from disk in driver automatically
db3f232 [Davies Liu] fix serialization of accumulator
631a827 [Davies Liu] Merge branch 'master' into broadcast
c7baa8c [Davies Liu] compress serrialized broadcast and command
9a7161f [Davies Liu] fix doc tests
e93cf4b [Davies Liu] address comments: add test
6226189 [Davies Liu] improve large broadcast
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https://issues.apache.org/jira/browse/SPARK-3035
fix for wrong document.
Author: iAmGhost <kdh7807@gmail.com>
Closes #1942 from iAmGhost/master and squashes the following commits:
487528a [iAmGhost] [SPARK-3035] Wrong example with SparkContext.addFile fix for wrong document.
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`RandomRDDGenerators` means factory for `RandomRDDGenerator`. However, its methods return RDDs but not RDDGenerators. So a more proper (and shorter) name would be `RandomRDDs`.
dorx brkyvz
Author: Xiangrui Meng <meng@databricks.com>
Closes #1979 from mengxr/randomrdds and squashes the following commits:
b161a2d [Xiangrui Meng] rename RandomRDDGenerators to RandomRDDs
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Test code in `sql.py` tries to compare two floating-point numbers directly, and cased [build failure(s)](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/18365/consoleFull).
[Doctest documentation](https://docs.python.org/3/library/doctest.html#warnings) recommends using numbers in the form of `I/2**J` to avoid the precision issue.
Author: Cheng Lian <lian.cs.zju@gmail.com>
Closes #1925 from liancheng/fix-pysql-fp-test and squashes the following commits:
0fbf584 [Cheng Lian] Removed unnecessary `...' from inferSchema doctest
e8059d4 [Cheng Lian] Using safe floating-point numbers in doctest
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Only encode unicode objects to UTF-8, and not strings
Author: Ahir Reddy <ahirreddy@gmail.com>
Closes #1914 from ahirreddy/json-rdd-unicode-fix1 and squashes the following commits:
ca4e9ba [Ahir Reddy] Encoding Fix
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1. skip partitionBy() when numOfPartition is 1
2. use bisect_left (O(lg(N))) instread of loop (O(N)) in
rangePartitioner
Author: Davies Liu <davies.liu@gmail.com>
Closes #1898 from davies/sort and squashes the following commits:
0a9608b [Davies Liu] Merge branch 'master' into sort
1cf9565 [Davies Liu] improve performance of sortByKey()
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because Pyrolite does not support array from Python 2.6
Author: Davies Liu <davies.liu@gmail.com>
Closes #1928 from davies/fix_array and squashes the following commits:
858e6c5 [Davies Liu] convert array into list
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MultivariateStatisticalSummary) in Statistics
For both Scala and Python.
The ser/de util functions were moved out of `PythonMLLibAPI` and into their own object to avoid creating the `PythonMLLibAPI` object inside of `MultivariateStatisticalSummarySerialized`, which is then referenced inside of a method in `PythonMLLibAPI`.
`MultivariateStatisticalSummarySerialized` was created to serialize the `Vector` fields in `MultivariateStatisticalSummary`.
Author: Doris Xin <doris.s.xin@gmail.com>
Closes #1911 from dorx/colStats and squashes the following commits:
77b9924 [Doris Xin] developerAPI tag
de9cbbe [Doris Xin] reviewer comments and moved more ser/de
459faba [Doris Xin] colStats in Statistics for both Scala and Python
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Python 2.6 does not handle float error well as 2.7+
Author: Davies Liu <davies.liu@gmail.com>
Closes #1910 from davies/fix_test and squashes the following commits:
7e51200 [Davies Liu] fix flaky tests
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HiveContext constructor
https://issues.apache.org/jira/browse/SPARK-2844
Author: Ahir Reddy <ahirreddy@gmail.com>
Closes #1768 from ahirreddy/python-hive-context-fix and squashes the following commits:
7972d3b [Ahir Reddy] Correctly set JVM HiveContext if it is passed into Python HiveContext constructor
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- Modify python/run-tests to test with Python 2.6
- Use unittest2 when running on Python 2.6.
- Fix issue with namedtuple.
- Skip TestOutputFormat.test_newhadoop on Python 2.6 until SPARK-2951 is fixed.
- Fix MLlib _deserialize_double on Python 2.6.
Closes #1868. Closes #1042.
Author: Josh Rosen <joshrosen@apache.org>
Closes #1874 from JoshRosen/python2.6 and squashes the following commits:
983d259 [Josh Rosen] [SPARK-2954] Fix MLlib _deserialize_double on Python 2.6.
5d18fd7 [Josh Rosen] [SPARK-2948] [SPARK-2910] [SPARK-2101] Python 2.6 fixes
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1. do not use signal handler for SIGCHILD, it's easy to cause deadlock
2. handle EINTR during accept()
3. pass errno into JVM
4. handle EAGAIN during fork()
Now, it can pass 50k tasks tests in 180 seconds.
Author: Davies Liu <davies.liu@gmail.com>
Closes #1842 from davies/qa and squashes the following commits:
f0ea451 [Davies Liu] fix lint
03a2e8c [Davies Liu] cleanup dead children every seconds
32cb829 [Davies Liu] fix lint
0cd0817 [Davies Liu] fix bugs in deamon.py
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As sryza reported, spark-shell doesn't accept any flags.
The root cause is wrong usage of spark-submit in spark-shell and it come to the surface by #1801
Author: Kousuke Saruta <sarutak@oss.nttdata.co.jp>
Author: Cheng Lian <lian.cs.zju@gmail.com>
Closes #1715, Closes #1864, and Closes #1861
Closes #1825 from sarutak/SPARK-2894 and squashes the following commits:
47f3510 [Kousuke Saruta] Merge branch 'master' of git://git.apache.org/spark into SPARK-2894
2c899ed [Kousuke Saruta] Removed useless code from java_gateway.py
98287ed [Kousuke Saruta] Removed useless code from java_gateway.py
513ad2e [Kousuke Saruta] Modified util.sh to enable to use option including white spaces
28a374e [Kousuke Saruta] Modified java_gateway.py to recognize arguments
5afc584 [Cheng Lian] Filter out spark-submit options when starting Python gateway
e630d19 [Cheng Lian] Fixing pyspark and spark-shell CLI options
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Added 6 static train methods to match Python API, but without default arguments (but with Python default args noted in docs).
Added factory classes for Algo and Impurity, but made private[mllib].
CC: mengxr dorx Please let me know if there are other changes which would help with API consistency---thanks!
Author: Joseph K. Bradley <joseph.kurata.bradley@gmail.com>
Closes #1798 from jkbradley/dt-python-consistency and squashes the following commits:
6f7edf8 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-python-consistency
a0d7dbe [Joseph K. Bradley] DecisionTree: In Java-friendly train* methods, changed to use JavaRDD instead of RDD.
ee1d236 [Joseph K. Bradley] DecisionTree API updates: * Removed train() function in Python API (tree.py) ** Removed corresponding function in Scala/Java API (the ones taking basic types)
00f820e [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into dt-python-consistency
fe6dbfa [Joseph K. Bradley] removed unnecessary imports
e358661 [Joseph K. Bradley] DecisionTree API change: * Added 6 static train methods to match Python API, but without default arguments (but with Python default args noted in docs).
c699850 [Joseph K. Bradley] a few doc comments
eaf84c0 [Joseph K. Bradley] Added DecisionTree static train() methods API to match Python, but without default parameters
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Author: RJ Nowling <rnowling@gmail.com>
Closes #1808 from rnowling/pyspark_docs and squashes the following commits:
c06d774 [RJ Nowling] Add blanklines to Python docstrings so example code renders correctly
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As described in [SPARK-2627](https://issues.apache.org/jira/browse/SPARK-2627), we'd like Python code to automatically be checked for PEP 8 compliance by Jenkins. This pull request aims to do that.
Notes:
* We may need to install [`pep8`](https://pypi.python.org/pypi/pep8) on the build server.
* I'm expecting tests to fail now that PEP 8 compliance is being checked as part of the build. I'm fine with cleaning up any remaining PEP 8 violations as part of this pull request.
* I did not understand why the RAT and scalastyle reports are saved to text files. I did the same for the PEP 8 check, but only so that the console output style can match those for the RAT and scalastyle checks. The PEP 8 report is removed right after the check is complete.
* Updates to the ["Contributing to Spark"](https://cwiki.apache.org/confluence/display/SPARK/Contributing+to+Spark) guide will be submitted elsewhere, as I don't believe that text is part of the Spark repo.
Author: Nicholas Chammas <nicholas.chammas@gmail.com>
Author: nchammas <nicholas.chammas@gmail.com>
Closes #1744 from nchammas/master and squashes the following commits:
274b238 [Nicholas Chammas] [SPARK-2627] [PySpark] minor indentation changes
983d963 [nchammas] Merge pull request #5 from apache/master
1db5314 [nchammas] Merge pull request #4 from apache/master
0e0245f [Nicholas Chammas] [SPARK-2627] undo erroneous whitespace fixes
bf30942 [Nicholas Chammas] [SPARK-2627] PEP8: comment spacing
6db9a44 [nchammas] Merge pull request #3 from apache/master
7b4750e [Nicholas Chammas] merge upstream changes
91b7584 [Nicholas Chammas] [SPARK-2627] undo unnecessary line breaks
44e3e56 [Nicholas Chammas] [SPARK-2627] use tox.ini to exclude files
b09fae2 [Nicholas Chammas] don't wrap comments unnecessarily
bfb9f9f [Nicholas Chammas] [SPARK-2627] keep up with the PEP 8 fixes
9da347f [nchammas] Merge pull request #2 from apache/master
aa5b4b5 [Nicholas Chammas] [SPARK-2627] follow Spark bash style for if blocks
d0a83b9 [Nicholas Chammas] [SPARK-2627] check that pep8 downloaded fine
dffb5dd [Nicholas Chammas] [SPARK-2627] download pep8 at runtime
a1ce7ae [Nicholas Chammas] [SPARK-2627] space out test report sections
21da538 [Nicholas Chammas] [SPARK-2627] it's PEP 8, not PEP8
6f4900b [Nicholas Chammas] [SPARK-2627] more misc PEP 8 fixes
fe57ed0 [Nicholas Chammas] removing merge conflict backups
9c01d4c [nchammas] Merge pull request #1 from apache/master
9a66cb0 [Nicholas Chammas] resolving merge conflicts
a31ccc4 [Nicholas Chammas] [SPARK-2627] miscellaneous PEP 8 fixes
beaa9ac [Nicholas Chammas] [SPARK-2627] fail check on non-zero status
723ed39 [Nicholas Chammas] always delete the report file
0541ebb [Nicholas Chammas] [SPARK-2627] call Python linter from run-tests
12440fa [Nicholas Chammas] [SPARK-2627] add Scala linter
61c07b9 [Nicholas Chammas] [SPARK-2627] add Python linter
75ad552 [Nicholas Chammas] make check output style consistent
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Handle null in schemaRDD during converting them into Python.
Author: Davies Liu <davies.liu@gmail.com>
Closes #1802 from davies/json and squashes the following commits:
88e6b1f [Davies Liu] handle null in schemaRDD()
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This PR aims to finalize accepted data value types in Python RDDs provided to Python `applySchema`.
JIRA: https://issues.apache.org/jira/browse/SPARK-2854
Author: Yin Huai <huai@cse.ohio-state.edu>
Closes #1793 from yhuai/SPARK-2854 and squashes the following commits:
32f0708 [Yin Huai] LongType only accepts long values.
c2b23dd [Yin Huai] Do data type conversions based on the specified Spark SQL data type.
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pyspark's linear methods
Related to Jira Issue: [SPARK-2550](https://issues.apache.org/jira/browse/SPARK-2550?jql=project%20%3D%20SPARK%20AND%20resolution%20%3D%20Unresolved%20AND%20priority%20%3D%20Major%20ORDER%20BY%20key%20DESC)
Author: Michael Giannakopoulos <miccagiann@gmail.com>
Closes #1775 from miccagiann/linearMethodsReg and squashes the following commits:
cb774c3 [Michael Giannakopoulos] MiniBatchFraction added in related PythonMLLibAPI java stubs.
81fcbc6 [Michael Giannakopoulos] Fixing a typo-error.
8ad263e [Michael Giannakopoulos] Adding regularizer type and intercept parameters to LogisticRegressionWithSGD and SVMWithSGD.
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serializer is imported multiple times during doctests, so it's better to make _hijack_namedtuple() safe to be called multiple times.
Author: Davies Liu <davies.liu@gmail.com>
Closes #1771 from davies/fix and squashes the following commits:
1a9e336 [Davies Liu] fix unit tests
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Add an hook to replace original namedtuple with an pickable one, then namedtuple could be used in RDDs.
PS: pyspark should be import BEFORE "from collections import namedtuple"
Author: Davies Liu <davies.liu@gmail.com>
Closes #1623 from davies/namedtuple and squashes the following commits:
045dad8 [Davies Liu] remove unrelated code changes
4132f32 [Davies Liu] address comment
55b1c1a [Davies Liu] fix tests
61f86eb [Davies Liu] replace all the reference of namedtuple to new hacked one
98df6c6 [Davies Liu] Merge branch 'master' of github.com:apache/spark into namedtuple
f7b1bde [Davies Liu] add hack for CloudPickleSerializer
0c5c849 [Davies Liu] Merge branch 'master' of github.com:apache/spark into namedtuple
21991e6 [Davies Liu] hack namedtuple in __main__ module, make it picklable.
93b03b8 [Davies Liu] pickable namedtuple
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Kill only the python worker related to cancelled tasks.
The daemon will start a background thread to monitor all the opened sockets for all workers. If the socket is closed by JVM, this thread will kill the worker.
When an task is cancelled, the socket to worker will be closed, then the worker will be killed by deamon.
Author: Davies Liu <davies.liu@gmail.com>
Closes #1643 from davies/kill and squashes the following commits:
8ffe9f3 [Davies Liu] kill worker by deamon, because runtime.exec() is too heavy
46ca150 [Davies Liu] address comment
acd751c [Davies Liu] kill the worker when task is canceled
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'spark.sql.dialect'
Many users have reported being confused by the distinction between the `sql` and `hql` methods. Specifically, many users think that `sql(...)` cannot be used to read hive tables. In this PR I introduce a new configuration option `spark.sql.dialect` that picks which dialect with be used for parsing. For SQLContext this must be set to `sql`. In `HiveContext` it defaults to `hiveql` but can also be set to `sql`.
The `hql` and `hiveql` methods continue to act the same but are now marked as deprecated.
**This is a possibly breaking change for some users unless they set the dialect manually, though this is unlikely.**
For example: `hiveContex.sql("SELECT 1")` will now throw a parsing exception by default.
Author: Michael Armbrust <michael@databricks.com>
Closes #1746 from marmbrus/sqlLanguageConf and squashes the following commits:
ad375cc [Michael Armbrust] Merge remote-tracking branch 'apache/master' into sqlLanguageConf
20c43f8 [Michael Armbrust] override function instead of just setting the value
7e4ae93 [Michael Armbrust] Deprecate hql() method in favor of a config option, 'spark.sql.dialect'
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There have been user complaints that the difference between `registerAsTable` and `saveAsTable` is too subtle. This PR addresses this by renaming `registerAsTable` to `registerTempTable`, which more clearly reflects what is happening. `registerAsTable` remains, but will cause a deprecation warning.
Author: Michael Armbrust <michael@databricks.com>
Closes #1743 from marmbrus/registerTempTable and squashes the following commits:
d031348 [Michael Armbrust] Merge remote-tracking branch 'apache/master' into registerTempTable
4dff086 [Michael Armbrust] Fix .java files too
89a2f12 [Michael Armbrust] Merge remote-tracking branch 'apache/master' into registerTempTable
0b7b71e [Michael Armbrust] Rename registerAsTable to registerTempTable
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The cause is explained in https://issues.apache.org/jira/browse/SPARK-2797.
Author: Yin Huai <huai@cse.ohio-state.edu>
Closes #1745 from yhuai/SPARK-2797 and squashes the following commits:
7b1627d [Yin Huai] The unpersist method of the Scala RDD cannot be called without the input parameter (blocking) from PySpark.
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This patch adds the ability to register lambda functions written in Python, Java or Scala as UDFs for use in SQL or HiveQL.
Scala:
```scala
registerFunction("strLenScala", (_: String).length)
sql("SELECT strLenScala('test')")
```
Python:
```python
sqlCtx.registerFunction("strLenPython", lambda x: len(x), IntegerType())
sqlCtx.sql("SELECT strLenPython('test')")
```
Java:
```java
sqlContext.registerFunction("stringLengthJava", new UDF1<String, Integer>() {
Override
public Integer call(String str) throws Exception {
return str.length();
}
}, DataType.IntegerType);
sqlContext.sql("SELECT stringLengthJava('test')");
```
Author: Michael Armbrust <michael@databricks.com>
Closes #1063 from marmbrus/udfs and squashes the following commits:
9eda0fe [Michael Armbrust] newline
747c05e [Michael Armbrust] Add some scala UDF tests.
d92727d [Michael Armbrust] Merge remote-tracking branch 'apache/master' into udfs
005d684 [Michael Armbrust] Fix naming and formatting.
d14dac8 [Michael Armbrust] Fix last line of autogened java files.
8135c48 [Michael Armbrust] Move UDF unit tests to pyspark.
40b0ffd [Michael Armbrust] Merge remote-tracking branch 'apache/master' into udfs
6a36890 [Michael Armbrust] Switch logging so that SQLContext can be serializable.
7a83101 [Michael Armbrust] Drop toString
795fd15 [Michael Armbrust] Try to avoid capturing SQLContext.
e54fb45 [Michael Armbrust] Docs and tests.
437cbe3 [Michael Armbrust] Update use of dataTypes, fix some python tests, address review comments.
01517d6 [Michael Armbrust] Merge remote-tracking branch 'origin/master' into udfs
8e6c932 [Michael Armbrust] WIP
3f96a52 [Michael Armbrust] Merge remote-tracking branch 'origin/master' into udfs
6237c8d [Michael Armbrust] WIP
2766f0b [Michael Armbrust] Move udfs support to SQL from hive. Add support for Java UDFs.
0f7d50c [Michael Armbrust] Draft of native Spark SQL UDFs for Scala and Python.
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Added experimental Python API for Decision Trees.
API:
* class DecisionTreeModel
** predict() for single examples and RDDs, taking both feature vectors and LabeledPoints
** numNodes()
** depth()
** __str__()
* class DecisionTree
** trainClassifier()
** trainRegressor()
** train()
Examples and testing:
* Added example testing classification and regression with batch prediction: examples/src/main/python/mllib/tree.py
* Have also tested example usage in doc of python/pyspark/mllib/tree.py which tests single-example prediction with dense and sparse vectors
Also: Small bug fix in python/pyspark/mllib/_common.py: In _linear_predictor_typecheck, changed check for RDD to use isinstance() instead of type() in order to catch RDD subclasses.
CC mengxr manishamde
Author: Joseph K. Bradley <joseph.kurata.bradley@gmail.com>
Closes #1727 from jkbradley/decisiontree-python-new and squashes the following commits:
3744488 [Joseph K. Bradley] Renamed test tree.py to decision_tree_runner.py Small updates based on github review.
6b86a9d [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-python-new
affceb9 [Joseph K. Bradley] * Fixed bug in doc tests in pyspark/mllib/util.py caused by change in loadLibSVMFile behavior. (It used to threshold labels at 0 to make them 0/1, but it now leaves them as they are.) * Fixed small bug in loadLibSVMFile: If a data file had no features, then loadLibSVMFile would create a single all-zero feature.
67a29bc [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-python-new
cf46ad7 [Joseph K. Bradley] Python DecisionTreeModel * predict(empty RDD) returns an empty RDD instead of an error. * Removed support for calling predict() on LabeledPoint and RDD[LabeledPoint] * predict() does not cache serialized RDD any more.
aa29873 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-python-new
bf21be4 [Joseph K. Bradley] removed old run() func from DecisionTree
fa10ea7 [Joseph K. Bradley] Small style update
7968692 [Joseph K. Bradley] small braces typo fix
e34c263 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-python-new
4801b40 [Joseph K. Bradley] Small style update to DecisionTreeSuite
db0eab2 [Joseph K. Bradley] Merge branch 'decisiontree-bugfix2' into decisiontree-python-new
6873fa9 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-python-new
225822f [Joseph K. Bradley] Bug: In DecisionTree, the method sequentialBinSearchForOrderedCategoricalFeatureInClassification() indexed bins from 0 to (math.pow(2, featureCategories.toInt - 1) - 1). This upper bound is the bound for unordered categorical features, not ordered ones. The upper bound should be the arity (i.e., max value) of the feature.
93953f1 [Joseph K. Bradley] Likely done with Python API.
6df89a9 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-python-new
4562c08 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-python-new
665ba78 [Joseph K. Bradley] Small updates towards Python DecisionTree API
188cb0d [Joseph K. Bradley] Merge branch 'decisiontree-bugfix' into decisiontree-python-new
6622247 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-python-new
b8fac57 [Joseph K. Bradley] Finished Python DecisionTree API and example but need to test a bit more.
2b20c61 [Joseph K. Bradley] Small doc and style updates
1b29c13 [Joseph K. Bradley] Merge branch 'decisiontree-bugfix' into decisiontree-python-new
584449a [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-python-new
dab0b67 [Joseph K. Bradley] Added documentation for DecisionTree internals
8bb8aa0 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-bugfix
978cfcf [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-bugfix
6eed482 [Joseph K. Bradley] In DecisionTree: Changed from using procedural syntax for functions returning Unit to explicitly writing Unit return type.
376dca2 [Joseph K. Bradley] Updated meaning of maxDepth by 1 to fit scikit-learn and rpart. * In code, replaced usages of maxDepth <-- maxDepth + 1 * In params, replace settings of maxDepth <-- maxDepth - 1
e06e423 [Joseph K. Bradley] Merge branch 'decisiontree-bugfix' into decisiontree-python-new
bab3f19 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-python-new
59750f8 [Joseph K. Bradley] * Updated Strategy to check numClassesForClassification only if algo=Classification. * Updates based on comments: ** DecisionTreeRunner *** Made dataFormat arg default to libsvm ** Small cleanups ** tree.Node: Made recursive helper methods private, and renamed them.
52e17c5 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-bugfix
f5a036c [Joseph K. Bradley] Merge branch 'decisiontree-bugfix' into decisiontree-python-new
da50db7 [Joseph K. Bradley] Added one more test to DecisionTreeSuite: stump with 2 continuous variables for binary classification. Caused problems in past, but fixed now.
8e227ea [Joseph K. Bradley] Changed Strategy so it only requires numClassesForClassification >= 2 for classification
cd1d933 [Joseph K. Bradley] Merge branch 'decisiontree-bugfix' into decisiontree-python-new
8ea8750 [Joseph K. Bradley] Bug fix: Off-by-1 when finding thresholds for splits for continuous features.
8a758db [Joseph K. Bradley] Merge branch 'decisiontree-bugfix' into decisiontree-python-new
5fe44ed [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-python-new
2283df8 [Joseph K. Bradley] 2 bug fixes.
73fbea2 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into decisiontree-bugfix
5f920a1 [Joseph K. Bradley] Demonstration of bug before submitting fix: Updated DecisionTreeSuite so that 3 tests fail. Will describe bug in next commit.
f825352 [Joseph K. Bradley] Wrote Python API and example for DecisionTree. Also added toString, depth, and numNodes methods to DecisionTreeModel.
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When standalone Workers launch executors, they inherit the Spark home set by the driver. This means if the worker machines do not share the same directory structure as the driver node, the Workers will attempt to run scripts (e.g. bin/compute-classpath.sh) that do not exist locally and fail. This is a common scenario if the driver is launched from outside of the cluster.
The solution is to simply not pass the driver's Spark home to the Workers. This PR further makes an attempt to avoid overloading the usages of `spark.home`, which is now only used for setting executor Spark home on Mesos and in python.
This is based on top of #1392 and originally reported by YanTangZhai. Tested on standalone cluster.
Author: Andrew Or <andrewor14@gmail.com>
Closes #1734 from andrewor14/spark-home-reprise and squashes the following commits:
f71f391 [Andrew Or] Revert changes in python
1c2532c [Andrew Or] Merge branch 'master' of github.com:apache/spark into spark-home-reprise
188fc5d [Andrew Or] Avoid using spark.home where possible
09272b7 [Andrew Or] Always use Worker's working directory as spark home
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These changes allow StatCounters to work properly on NumPy arrays, to fix the issue reported here (https://issues.apache.org/jira/browse/SPARK-2012).
If NumPy is installed, the NumPy functions ``maximum``, ``minimum``, and ``sqrt``, which work on arrays, are used to merge statistics. If not, we fall back on scalar operators, so it will work on arrays with NumPy, but will also work without NumPy.
New unit tests added, along with a check for NumPy in the tests.
Author: Jeremy Freeman <the.freeman.lab@gmail.com>
Closes #1725 from freeman-lab/numpy-max-statcounter and squashes the following commits:
fe973b1 [Jeremy Freeman] Avoid duplicate array import in tests
7f0e397 [Jeremy Freeman] Refactored check for numpy
8e764dd [Jeremy Freeman] Explicit numpy imports
875414c [Jeremy Freeman] Fixed indents
1c8a832 [Jeremy Freeman] Unit tests for StatCounter with NumPy arrays
176a127 [Jeremy Freeman] Use numpy arrays in StatCounter
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pyspark's linear methods.
Related to issue: [SPARK-2550](https://issues.apache.org/jira/browse/SPARK-2550?jql=project%20%3D%20SPARK%20AND%20resolution%20%3D%20Unresolved%20AND%20priority%20%3D%20Major%20ORDER%20BY%20key%20DESC).
Author: Michael Giannakopoulos <miccagiann@gmail.com>
Closes #1624 from miccagiann/new-branch and squashes the following commits:
c02e5f5 [Michael Giannakopoulos] Merge cleanly with upstream/master.
8dcb888 [Michael Giannakopoulos] Putting the if/else if statements in brackets.
fed8eaa [Michael Giannakopoulos] Adding a space in the message related to the IllegalArgumentException.
44e6ff0 [Michael Giannakopoulos] Adding a blank line before python class LinearRegressionWithSGD.
8eba9c5 [Michael Giannakopoulos] Change function signatures. Exception is thrown from the scala component and not from the python one.
638be47 [Michael Giannakopoulos] Modified code to comply with code standards.
ec50ee9 [Michael Giannakopoulos] Shorten the if-elif-else statement in regression.py file
b962744 [Michael Giannakopoulos] Replaced the enum classes, with strings-keywords for defining the values of 'regType' parameter.
78853ec [Michael Giannakopoulos] Providing intercept and regualizer functionallity for linear methods in only one function.
3ac8874 [Michael Giannakopoulos] Added support for regularizer and intercection parameters for linear regression method.
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Curently, daemon.py forks a pool of numProcessors subprocesses, and those processes fork themselves again to create the actual Python worker processes that handle data.
I think that this extra layer of indirection is unnecessary and adds a lot of complexity. This commit attempts to remove this middle layer of subprocesses by launching the workers directly from daemon.py.
See https://github.com/mesos/spark/pull/563 for the original PR that added daemon.py, where I raise some issues with the current design.
Author: Josh Rosen <joshrosen@apache.org>
Closes #1680 from JoshRosen/pyspark-daemon and squashes the following commits:
5abbcb9 [Josh Rosen] Replace magic number: 4 -> EINTR
5495dff [Josh Rosen] Throw IllegalStateException if worker launch fails.
b79254d [Josh Rosen] Detect failed fork() calls; improve error logging.
282c2c4 [Josh Rosen] Remove daemon.py exit logging, since it caused problems:
8554536 [Josh Rosen] Fix daemon’s shutdown(); log shutdown reason.
4e0fab8 [Josh Rosen] Remove shared-memory exit_flag; don't die on worker death.
e9892b4 [Josh Rosen] [WIP] [SPARK-2764] Simplify daemon.py process structure.
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Convert Row in JavaSchemaRDD into Array[Any] and unpickle them as tuple in Python, then convert them into namedtuple, so use can access fields just like attributes.
This will let nested structure can be accessed as object, also it will reduce the size of serialized data and better performance.
root
|-- field1: integer (nullable = true)
|-- field2: string (nullable = true)
|-- field3: struct (nullable = true)
| |-- field4: integer (nullable = true)
| |-- field5: array (nullable = true)
| | |-- element: integer (containsNull = false)
|-- field6: array (nullable = true)
| |-- element: struct (containsNull = false)
| | |-- field7: string (nullable = true)
Then we can access them by row.field3.field5[0] or row.field6[5].field7
It also will infer the schema in Python, convert Row/dict/namedtuple/objects into tuple before serialization, then call applySchema in JVM. During inferSchema(), the top level of dict in row will be StructType, but any nested dictionary will be MapType.
You can use pyspark.sql.Row to convert unnamed structure into Row object, make the RDD can be inferable. Such as:
ctx.inferSchema(rdd.map(lambda x: Row(a=x[0], b=x[1]))
Or you could use Row to create a class just like namedtuple, for example:
Person = Row("name", "age")
ctx.inferSchema(rdd.map(lambda x: Person(*x)))
Also, you can call applySchema to apply an schema to a RDD of tuple/list and turn it into a SchemaRDD. The `schema` should be StructType, see the API docs for details.
schema = StructType([StructField("name, StringType, True),
StructType("age", IntegerType, True)])
ctx.applySchema(rdd, schema)
PS: In order to use namedtuple to inferSchema, you should make namedtuple picklable.
Author: Davies Liu <davies.liu@gmail.com>
Closes #1598 from davies/nested and squashes the following commits:
f1d15b6 [Davies Liu] verify schema with the first few rows
8852aaf [Davies Liu] check type of schema
abe9e6e [Davies Liu] address comments
61b2292 [Davies Liu] add @deprecated to pythonToJavaMap
1e5b801 [Davies Liu] improve cache of classes
51aa135 [Davies Liu] use Row to infer schema
e9c0d5c [Davies Liu] remove string typed schema
353a3f2 [Davies Liu] fix code style
63de8f8 [Davies Liu] fix typo
c79ca67 [Davies Liu] fix serialization of nested data
6b258b5 [Davies Liu] fix pep8
9d8447c [Davies Liu] apply schema provided by string of names
f5df97f [Davies Liu] refactor, address comments
9d9af55 [Davies Liu] use arrry to applySchema and infer schema in Python
84679b3 [Davies Liu] Merge branch 'master' of github.com:apache/spark into nested
0eaaf56 [Davies Liu] fix doc tests
b3559b4 [Davies Liu] use generated Row instead of namedtuple
c4ddc30 [Davies Liu] fix conflict between name of fields and variables
7f6f251 [Davies Liu] address all comments
d69d397 [Davies Liu] refactor
2cc2d45 [Davies Liu] refactor
182fb46 [Davies Liu] refactor
bc6e9e1 [Davies Liu] switch to new Schema API
547bf3e [Davies Liu] Merge branch 'master' into nested
a435b5a [Davies Liu] add docs and code refactor
2c8debc [Davies Liu] Merge branch 'master' into nested
644665a [Davies Liu] use tuple and namedtuple for schemardd
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Author: Doris Xin <doris.s.xin@gmail.com>
Closes #1713 from dorx/pythonCorrelation and squashes the following commits:
5f1e60c [Doris Xin] reviewer comments.
46ff6eb [Doris Xin] reviewer comments.
ad44085 [Doris Xin] style fix
e69d446 [Doris Xin] fixed missed conflicts.
eb5bf56 [Doris Xin] merge master
cc9f725 [Doris Xin] units passed.
9141a63 [Doris Xin] WIP2
d199f1f [Doris Xin] Moved correlation names into a public object
cd163d6 [Doris Xin] WIP
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RandomRDDGenerators but without support for randomRDD and randomVectorRDD, which take in arbitrary DistributionGenerator.
`randomRDD.py` is named to avoid collision with the built-in Python `random` package.
Author: Doris Xin <doris.s.xin@gmail.com>
Closes #1628 from dorx/pythonRDD and squashes the following commits:
55c6de8 [Doris Xin] review comments. all python units passed.
f831d9b [Doris Xin] moved default args logic into PythonMLLibAPI
2d73917 [Doris Xin] fix for linalg.py
8663e6a [Doris Xin] reverting back to a single python file for random
f47c481 [Doris Xin] docs update
687aac0 [Doris Xin] add RandomRDDGenerators.py to run-tests
4338f40 [Doris Xin] renamed randomRDD to rand and import as random
29d205e [Doris Xin] created mllib.random package
bd2df13 [Doris Xin] typos
07ddff2 [Doris Xin] units passed.
23b2ecd [Doris Xin] WIP
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Prior to this change, every PySpark task completion opened a new socket to the accumulator server, passed its updates through, and then quit. I'm not entirely sure why PySpark always sends accumulator updates, but regardless this causes a very rapid buildup of ephemeral TCP connections that remain in the TCP_WAIT state for around a minute before being cleaned up.
Rather than trying to allow these sockets to be cleaned up faster, this patch simply reuses the connection between tasks completions (since they're fed updates in a single-threaded manner by the DAGScheduler anyway).
The only tricky part here was making sure that the AccumulatorServer was able to shutdown in a timely manner (i.e., stop polling for new data), and this was accomplished via minor feats of magic.
I have confirmed that this patch eliminates the buildup of ephemeral sockets due to the accumulator updates. However, I did note that there were still significant sockets being created against the PySpark daemon port, but my machine was not able to create enough sockets fast enough to fail. This may not be the last time we've seen this issue, though.
Author: Aaron Davidson <aaron@databricks.com>
Closes #1503 from aarondav/accum and squashes the following commits:
b3e12f7 [Aaron Davidson] SPARK-2282: Reuse Socket for sending accumulator updates to Pyspark
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LocalHiveContext is redundant with HiveContext. The only difference is it creates `./metastore` instead of `./metastore_db`.
Author: Michael Armbrust <michael@databricks.com>
Closes #1641 from marmbrus/localHiveContext and squashes the following commits:
e5ec497 [Michael Armbrust] Add deprecation version
626e056 [Michael Armbrust] Don't remove from imports yet
905cc5f [Michael Armbrust] Merge remote-tracking branch 'apache/master' into localHiveContext
1c2727e [Michael Armbrust] Deprecate LocalHiveContext
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Per discussion at https://issues.apache.org/jira/browse/SPARK-2341 , this is a look at deprecating the multiclass parameter. Thoughts welcome of course.
Author: Sean Owen <srowen@gmail.com>
Closes #1663 from srowen/SPARK-2341 and squashes the following commits:
8a3abd7 [Sean Owen] Suppress MIMA error for removed package private classes
18a8c8e [Sean Owen] Updates from review
83d0092 [Sean Owen] Deprecated methods with multiclass, and instead always parse target as a double (ie. multiclass = true)
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JIRA issue: https://issues.apache.org/jira/browse/SPARK-2024
This PR is a followup to #455 and adds capabilities for saving PySpark RDDs using SequenceFile or any Hadoop OutputFormats.
* Added RDD methods ```saveAsSequenceFile```, ```saveAsHadoopFile``` and ```saveAsHadoopDataset```, for both old and new MapReduce APIs.
* Default converter for converting common data types to Writables. Users may specify custom converters to convert to desired data types.
* No out-of-box support for reading/writing arrays, since ArrayWritable itself doesn't have a no-arg constructor for creating an empty instance upon reading. Users need to provide ArrayWritable subtypes. Custom converters for converting arrays to suitable ArrayWritable subtypes are also needed when writing. When reading, the default converter will convert any custom ArrayWritable subtypes to ```Object[]``` and they get pickled to Python tuples.
* Added HBase and Cassandra output examples to show how custom output formats and converters can be used.
cc MLnick mateiz ahirreddy pwendell
Author: Kan Zhang <kzhang@apache.org>
Closes #1338 from kanzhang/SPARK-2024 and squashes the following commits:
c01e3ef [Kan Zhang] [SPARK-2024] code formatting
6591e37 [Kan Zhang] [SPARK-2024] renaming pickled -> pickledRDD
d998ad6 [Kan Zhang] [SPARK-2024] refectoring to get method params below 10
57a7a5e [Kan Zhang] [SPARK-2024] correcting typo
75ca5bd [Kan Zhang] [SPARK-2024] Better type checking for batch serialized RDD
0bdec55 [Kan Zhang] [SPARK-2024] Refactoring newly added tests
9f39ff4 [Kan Zhang] [SPARK-2024] Adding 2 saveAsHadoopDataset tests
0c134f3 [Kan Zhang] [SPARK-2024] Test refactoring and adding couple unbatched cases
7a176df [Kan Zhang] [SPARK-2024] Add saveAsSequenceFile to PySpark
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This avoids basically doing 1 - 1, for example:
```python
>>> from math import exp
>>> margin = -40
>>> 1 - 1 / (1 + exp(margin))
0.0
>>> exp(margin) / (1 + exp(margin))
4.248354255291589e-18
>>>
```
Author: Naftali Harris <naftaliharris@gmail.com>
Closes #1652 from naftaliharris/patch-2 and squashes the following commits:
0d55a9f [Naftali Harris] Avoid numerical instability
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The current PR contains the following changes:
* Expose `DataType`s in the sql package (internal details are private to sql).
* Users can create Rows.
* Introduce `applySchema` to create a `SchemaRDD` by applying a `schema: StructType` to an `RDD[Row]`.
* Add a function `simpleString` to every `DataType`. Also, the schema represented by a `StructType` can be visualized by `printSchema`.
* `ScalaReflection.typeOfObject` provides a way to infer the Catalyst data type based on an object. Also, we can compose `typeOfObject` with some custom logics to form a new function to infer the data type (for different use cases).
* `JsonRDD` has been refactored to use changes introduced by this PR.
* Add a field `containsNull` to `ArrayType`. So, we can explicitly mark if an `ArrayType` can contain null values. The default value of `containsNull` is `false`.
New APIs are introduced in the sql package object and SQLContext. You can find the scaladoc at
[sql package object](http://yhuai.github.io/site/api/scala/index.html#org.apache.spark.sql.package) and [SQLContext](http://yhuai.github.io/site/api/scala/index.html#org.apache.spark.sql.SQLContext).
An example of using `applySchema` is shown below.
```scala
import org.apache.spark.sql._
val sqlContext = new org.apache.spark.sql.SQLContext(sc)
val schema =
StructType(
StructField("name", StringType, false) ::
StructField("age", IntegerType, true) :: Nil)
val people = sc.textFile("examples/src/main/resources/people.txt").map(_.split(",")).map(p => Row(p(0), p(1).trim.toInt))
val peopleSchemaRDD = sqlContext. applySchema(people, schema)
peopleSchemaRDD.printSchema
// root
// |-- name: string (nullable = false)
// |-- age: integer (nullable = true)
peopleSchemaRDD.registerAsTable("people")
sqlContext.sql("select name from people").collect.foreach(println)
```
I will add new contents to the SQL programming guide later.
JIRA: https://issues.apache.org/jira/browse/SPARK-2179
Author: Yin Huai <huai@cse.ohio-state.edu>
Closes #1346 from yhuai/dataTypeAndSchema and squashes the following commits:
1d45977 [Yin Huai] Clean up.
a6e08b4 [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
c712fbf [Yin Huai] Converts types of values based on defined schema.
4ceeb66 [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
e5f8df5 [Yin Huai] Scaladoc.
122d1e7 [Yin Huai] Address comments.
03bfd95 [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
2476ed0 [Yin Huai] Minor updates.
ab71f21 [Yin Huai] Format.
fc2bed1 [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
bd40a33 [Yin Huai] Address comments.
991f860 [Yin Huai] Move "asJavaDataType" and "asScalaDataType" to DataTypeConversions.scala.
1cb35fe [Yin Huai] Add "valueContainsNull" to MapType.
3edb3ae [Yin Huai] Python doc.
692c0b9 [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
1d93395 [Yin Huai] Python APIs.
246da96 [Yin Huai] Add java data type APIs to javadoc index.
1db9531 [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
d48fc7b [Yin Huai] Minor updates.
33c4fec [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
b9f3071 [Yin Huai] Java API for applySchema.
1c9f33c [Yin Huai] Java APIs for DataTypes and Row.
624765c [Yin Huai] Tests for applySchema.
aa92e84 [Yin Huai] Update data type tests.
8da1a17 [Yin Huai] Add Row.fromSeq.
9c99bc0 [Yin Huai] Several minor updates.
1d9c13a [Yin Huai] Update applySchema API.
85e9b51 [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
e495e4e [Yin Huai] More comments.
42d47a3 [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
c3f4a02 [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
2e58dbd [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
b8b7db4 [Yin Huai] 1. Move sql package object and package-info to sql-core. 2. Minor updates on APIs. 3. Update scala doc.
68525a2 [Yin Huai] Update JSON unit test.
3209108 [Yin Huai] Add unit tests.
dcaf22f [Yin Huai] Add a field containsNull to ArrayType to indicate if an array can contain null values or not. If an ArrayType is constructed by "ArrayType(elementType)" (the existing constructor), the value of containsNull is false.
9168b83 [Yin Huai] Update comments.
fc649d7 [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
eca7d04 [Yin Huai] Add two apply methods which will be used to extract StructField(s) from a StructType.
949d6bb [Yin Huai] When creating a SchemaRDD for a JSON dataset, users can apply an existing schema.
7a6a7e5 [Yin Huai] Fix bug introduced by the change made on SQLContext.inferSchema.
43a45e1 [Yin Huai] Remove sql.util.package introduced in a previous commit.
0266761 [Yin Huai] Format
03eec4c [Yin Huai] Merge remote-tracking branch 'upstream/master' into dataTypeAndSchema
90460ac [Yin Huai] Infer the Catalyst data type from an object and cast a data value to the expected type.
3fa0df5 [Yin Huai] Provide easier ways to construct a StructType.
16be3e5 [Yin Huai] This commit contains three changes: * Expose `DataType`s in the sql package (internal details are private to sql). * Introduce `createSchemaRDD` to create a `SchemaRDD` from an `RDD` with a provided schema (represented by a `StructType`) and a provided function to construct `Row`, * Add a function `simpleString` to every `DataType`. Also, the schema represented by a `StructType` can be visualized by `printSchema`.
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Author: Josh Rosen <joshrosen@apache.org>
Closes #1626 from JoshRosen/SPARK-2305 and squashes the following commits:
03fb283 [Josh Rosen] Update Py4J to version 0.8.2.1.
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Datetime and time in Python will be converted into java.util.Calendar after serialization, it will be converted into java.sql.Timestamp during inferSchema().
In javaToPython(), Timestamp will be converted into Calendar, then be converted into datetime in Python after pickling.
Author: Davies Liu <davies.liu@gmail.com>
Closes #1601 from davies/date and squashes the following commits:
f0599b0 [Davies Liu] remove tests for sets and tuple in sql, fix list of list
c9d607a [Davies Liu] convert datetype for runtime
709d40d [Davies Liu] remove brackets
96db384 [Davies Liu] support datetime type for SchemaRDD
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