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* [SPARK-6091] [MLLIB] Add MulticlassMetrics in PySpark/MLlibYanbo Liang2015-05-101-0/+129
| | | | | | | | | | | | https://issues.apache.org/jira/browse/SPARK-6091 Author: Yanbo Liang <ybliang8@gmail.com> Closes #6011 from yanboliang/spark-6091 and squashes the following commits: bb3e4ba [Yanbo Liang] trigger jenkins 53c045d [Yanbo Liang] keep compatibility for python 2.6 972d5ac [Yanbo Liang] Add MulticlassMetrics in PySpark/MLlib
* [SPARK-5913] [MLLIB] Python API for ChiSqSelectorYanbo Liang2015-05-081-2/+57
| | | | | | | | | | | Add a Python API for mllib.feature.ChiSqSelector https://issues.apache.org/jira/browse/SPARK-5913 Author: Yanbo Liang <ybliang8@gmail.com> Closes #5939 from yanboliang/spark-5913 and squashes the following commits: cdaac99 [Yanbo Liang] Python API for ChiSqSelector
* [SPARK-7328] [MLLIB] [PYSPARK] Pyspark.mllib.linalg.Vectors: Missing itemsMechCoder2015-05-072-2/+171
| | | | | | | | | | | | | | | | | | | | Add 1. Class methods squared_dist 3. parse 4. norm 5. numNonzeros 6. copy I made a few vectorizations wrt squared_dist and dot as well. I have added support for SparseMatrix serialization in a separate PR (https://github.com/apache/spark/pull/5775) and plan to complete support for Matrices in another PR. Author: MechCoder <manojkumarsivaraj334@gmail.com> Closes #5872 from MechCoder/local_linalg_api and squashes the following commits: a8ff1e0 [MechCoder] minor ce3e53e [MechCoder] Add error message for parser 1bd3c04 [MechCoder] Robust parser and removed unnecessary methods f779561 [MechCoder] [SPARK-7328] Pyspark.mllib.linalg.Vectors: Missing items
* [SPARK-6093] [MLLIB] Add RegressionMetrics in PySpark/MLlibYanbo Liang2015-05-071-2/+76
| | | | | | | | | | | https://issues.apache.org/jira/browse/SPARK-6093 Author: Yanbo Liang <ybliang8@gmail.com> Closes #5941 from yanboliang/spark-6093 and squashes the following commits: 6934af3 [Yanbo Liang] change to @property aac3bc5 [Yanbo Liang] Add RegressionMetrics in PySpark/MLlib
* [SPARK-6267] [MLLIB] Python API for IsotonicRegressionYanbo Liang2015-05-051-2/+71
| | | | | | | | | | | | | | | | https://issues.apache.org/jira/browse/SPARK-6267 Author: Yanbo Liang <ybliang8@gmail.com> Author: Xiangrui Meng <meng@databricks.com> Closes #5890 from yanboliang/spark-6267 and squashes the following commits: f20541d [Yanbo Liang] Merge pull request #3 from mengxr/SPARK-6267 7f202f9 [Xiangrui Meng] use Vector to have the best Python 2&3 compatibility 4bccfee [Yanbo Liang] fix doctest ec09412 [Yanbo Liang] fix typos 8214bbb [Yanbo Liang] fix code style 5c8ebe5 [Yanbo Liang] Python API for IsotonicRegression
* [SPARK-6612] [MLLIB] [PYSPARK] Python KMeans parityHrishikesh Subramonian2015-05-052-7/+31
| | | | | | | | | | | | | | | | | The following items are added to Python kmeans: kmeans - setEpsilon, setInitializationSteps KMeansModel - computeCost, k Author: Hrishikesh Subramonian <hrishikesh.subramonian@flytxt.com> Closes #5647 from FlytxtRnD/newPyKmeansAPI and squashes the following commits: b9e451b [Hrishikesh Subramonian] set seed to fixed value in doc test 5fd3ced [Hrishikesh Subramonian] doc test corrections 20b3c68 [Hrishikesh Subramonian] python 3 fixes 4d4e695 [Hrishikesh Subramonian] added arguments in python tests 21eb84c [Hrishikesh Subramonian] Python Kmeans - setEpsilon, setInitializationSteps, k and computeCost added.
* [SPARK-7202] [MLLIB] [PYSPARK] Add SparseMatrixPickler to SerDeMechCoder2015-05-052-2/+5
| | | | | | | | | | Utilities for pickling and unpickling SparseMatrices using SerDe Author: MechCoder <manojkumarsivaraj334@gmail.com> Closes #5775 from MechCoder/spark-7202 and squashes the following commits: 7e689dc [MechCoder] [SPARK-7202] Add SparseMatrixPickler to SerDe
* [SPARK-6257] [PYSPARK] [MLLIB] MLlib API missing items in RecommendationMechCoder2015-04-301-0/+39
| | | | | | | | | | | | | Adds rank, recommendUsers and RecommendProducts to MatrixFactorizationModel in PySpark. Author: MechCoder <manojkumarsivaraj334@gmail.com> Closes #5807 from MechCoder/spark-6257 and squashes the following commits: 09629c6 [MechCoder] doc 953b326 [MechCoder] [SPARK-6257] MLlib API missing items in Recommendation
* [SPARK-7208] [ML] [PYTHON] Added Matrix, SparseMatrix to __all__ list in ↵Joseph K. Bradley2015-04-281-1/+2
| | | | | | | | | | | | | | linalg.py Added Matrix, SparseMatrix to __all__ list in linalg.py CC: mengxr Author: Joseph K. Bradley <joseph@databricks.com> Closes #5759 from jkbradley/SPARK-7208 and squashes the following commits: deb51a2 [Joseph K. Bradley] Added Matrix, SparseMatrix to __all__ list in linalg.py
* [SPARK-6827] [MLLIB] Wrap FPGrowthModel.freqItemsets and make it consistent ↵Yanbo Liang2015-04-221-3/+12
| | | | | | | | | | | | | | | with Java API Make PySpark ```FPGrowthModel.freqItemsets``` consistent with Java/Scala API like ```MatrixFactorizationModel.userFeatures``` It return a RDD with each tuple is composed of an array and a long value. I think it's difficult to implement namedtuples to wrap the output because items of freqItemsets can be any type with arbitrary length which is tedious to impelement corresponding SerDe function. Author: Yanbo Liang <ybliang8@gmail.com> Closes #5614 from yanboliang/spark-6827 and squashes the following commits: da8c404 [Yanbo Liang] use namedtuple 5532e78 [Yanbo Liang] Wrap FPGrowthModel.freqItemsets and make it consistent with Java API
* [SPARK-6953] [PySpark] speed up python testsReynold Xin2015-04-214-58/+68
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This PR try to speed up some python tests: ``` tests.py 144s -> 103s -41s mllib/classification.py 24s -> 17s -7s mllib/regression.py 27s -> 15s -12s mllib/tree.py 27s -> 13s -14s mllib/tests.py 64s -> 31s -33s streaming/tests.py 185s -> 84s -101s ``` Considering python3, the total saving will be 558s (almost 10 minutes) (core, and streaming run three times, mllib runs twice). During testing, it will show used time for each test file: ``` Run core tests ... Running test: pyspark/rdd.py ... ok (22s) Running test: pyspark/context.py ... ok (16s) Running test: pyspark/conf.py ... ok (4s) Running test: pyspark/broadcast.py ... ok (4s) Running test: pyspark/accumulators.py ... ok (4s) Running test: pyspark/serializers.py ... ok (6s) Running test: pyspark/profiler.py ... ok (5s) Running test: pyspark/shuffle.py ... ok (1s) Running test: pyspark/tests.py ... ok (103s) 144s ``` Author: Reynold Xin <rxin@databricks.com> Author: Xiangrui Meng <meng@databricks.com> Closes #5605 from rxin/python-tests-speed and squashes the following commits: d08542d [Reynold Xin] Merge pull request #14 from mengxr/SPARK-6953 89321ee [Xiangrui Meng] fix seed in tests 3ad2387 [Reynold Xin] Merge pull request #5427 from davies/python_tests
* [SPARK-7036][MLLIB] ALS.train should support DataFrames in PySparkXiangrui Meng2015-04-211-10/+26
| | | | | | | | | | SchemaRDD works with ALS.train in 1.2, so we should continue support DataFrames for compatibility. coderxiang Author: Xiangrui Meng <meng@databricks.com> Closes #5619 from mengxr/SPARK-7036 and squashes the following commits: dfcaf5a [Xiangrui Meng] ALS.train should support DataFrames in PySpark
* [SPARK-6845] [MLlib] [PySpark] Add isTranposed flag to DenseMatrixMechCoder2015-04-212-16/+49
| | | | | | | | | | | | | Since sparse matrices now support a isTransposed flag for row major data, DenseMatrices should do the same. Author: MechCoder <manojkumarsivaraj334@gmail.com> Closes #5455 from MechCoder/spark-6845 and squashes the following commits: 525c370 [MechCoder] minor 004a37f [MechCoder] Cast boolean to int 151f3b6 [MechCoder] [WIP] Add isTransposed to pickle DenseMatrix cc0b90a [MechCoder] [SPARK-6845] Add isTranposed flag to DenseMatrix
* [SPARK-6661] Python type errors should print type, not objectElisey Zanko2015-04-203-5/+7
| | | | | | | | Author: Elisey Zanko <elisey.zanko@gmail.com> Closes #5361 from 31z4/spark-6661 and squashes the following commits: 73c5d79 [Elisey Zanko] Python type errors should print type, not object
* [SPARK-4897] [PySpark] Python 3 supportDavies Liu2015-04-1613-107/+142
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This PR update PySpark to support Python 3 (tested with 3.4). Known issue: unpickle array from Pyrolite is broken in Python 3, those tests are skipped. TODO: ec2/spark-ec2.py is not fully tested with python3. Author: Davies Liu <davies@databricks.com> Author: twneale <twneale@gmail.com> Author: Josh Rosen <joshrosen@databricks.com> Closes #5173 from davies/python3 and squashes the following commits: d7d6323 [Davies Liu] fix tests 6c52a98 [Davies Liu] fix mllib test 99e334f [Davies Liu] update timeout b716610 [Davies Liu] Merge branch 'master' of github.com:apache/spark into python3 cafd5ec [Davies Liu] adddress comments from @mengxr bf225d7 [Davies Liu] Merge branch 'master' of github.com:apache/spark into python3 179fc8d [Davies Liu] tuning flaky tests 8c8b957 [Davies Liu] fix ResourceWarning in Python 3 5c57c95 [Davies Liu] Merge branch 'master' of github.com:apache/spark into python3 4006829 [Davies Liu] fix test 2fc0066 [Davies Liu] add python3 path 71535e9 [Davies Liu] fix xrange and divide 5a55ab4 [Davies Liu] Merge branch 'master' of github.com:apache/spark into python3 125f12c [Davies Liu] Merge branch 'master' of github.com:apache/spark into python3 ed498c8 [Davies Liu] fix compatibility with python 3 820e649 [Davies Liu] Merge branch 'master' of github.com:apache/spark into python3 e8ce8c9 [Davies Liu] Merge branch 'master' of github.com:apache/spark into python3 ad7c374 [Davies Liu] fix mllib test and warning ef1fc2f [Davies Liu] fix tests 4eee14a [Davies Liu] Merge branch 'master' of github.com:apache/spark into python3 20112ff [Davies Liu] Merge branch 'master' of github.com:apache/spark into python3 59bb492 [Davies Liu] fix tests 1da268c [Davies Liu] Merge branch 'master' of github.com:apache/spark into python3 ca0fdd3 [Davies Liu] fix code style 9563a15 [Davies Liu] add imap back for python 2 0b1ec04 [Davies Liu] make python examples work with Python 3 d2fd566 [Davies Liu] Merge branch 'master' of github.com:apache/spark into python3 a716d34 [Davies Liu] test with python 3.4 f1700e8 [Davies Liu] fix test in python3 671b1db [Davies Liu] fix test in python3 692ff47 [Davies Liu] fix flaky test 7b9699f [Davies Liu] invalidate import cache for Python 3.3+ 9c58497 [Davies Liu] fix kill worker 309bfbf [Davies Liu] keep compatibility 5707476 [Davies Liu] cleanup, fix hash of string in 3.3+ 8662d5b [Davies Liu] Merge branch 'master' of github.com:apache/spark into python3 f53e1f0 [Davies Liu] fix tests 70b6b73 [Davies Liu] compile ec2/spark_ec2.py in python 3 a39167e [Davies Liu] support customize class in __main__ 814c77b [Davies Liu] run unittests with python 3 7f4476e [Davies Liu] mllib tests passed d737924 [Davies Liu] pass ml tests 375ea17 [Davies Liu] SQL tests pass 6cc42a9 [Davies Liu] rename 431a8de [Davies Liu] streaming tests pass 78901a7 [Davies Liu] fix hash of serializer in Python 3 24b2f2e [Davies Liu] pass all RDD tests 35f48fe [Davies Liu] run future again 1eebac2 [Davies Liu] fix conflict in ec2/spark_ec2.py 6e3c21d [Davies Liu] make cloudpickle work with Python3 2fb2db3 [Josh Rosen] Guard more changes behind sys.version; still doesn't run 1aa5e8f [twneale] Turned out `pickle.DictionaryType is dict` == True, so swapped it out 7354371 [twneale] buffer --> memoryview I'm not super sure if this a valid change, but the 2.7 docs recommend using memoryview over buffer where possible, so hoping it'll work. b69ccdf [twneale] Uses the pure python pickle._Pickler instead of c-extension _pickle.Pickler. It appears pyspark 2.7 uses the pure python pickler as well, so this shouldn't degrade pickling performance (?). f40d925 [twneale] xrange --> range e104215 [twneale] Replaces 2.7 types.InstsanceType with 3.4 `object`....could be horribly wrong depending on how types.InstanceType is used elsewhere in the package--see http://bugs.python.org/issue8206 79de9d0 [twneale] Replaces python2.7 `file` with 3.4 _io.TextIOWrapper 2adb42d [Josh Rosen] Fix up some import differences between Python 2 and 3 854be27 [Josh Rosen] Run `futurize` on Python code: 7c5b4ce [Josh Rosen] Remove Python 3 check in shell.py.
* [SPARK-6643][MLLIB] Implement StandardScalerModel missing methodslewuathe2015-04-122-0/+40
| | | | | | | | | | | | | | | | This is the sub-task of SPARK-6254. Wrap missing method for `StandardScalerModel`. Author: lewuathe <lewuathe@me.com> Closes #5310 from Lewuathe/SPARK-6643 and squashes the following commits: fafd690 [lewuathe] Fix for lint-python bd31a64 [lewuathe] Merge branch 'master' into SPARK-6643 578f5ee [lewuathe] Remove unnecessary class a38f155 [lewuathe] Merge master 66bb2ab [lewuathe] Fix typos 82683a0 [lewuathe] [SPARK-6643] Implement StandardScalerModel missing methods
* [SPARK-6577] [MLlib] [PySpark] SparseMatrix should be supported in PySparkMechCoder2015-04-092-8/+154
| | | | | | | | | | | | | | | Supporting of SparseMatrix in PySpark. Author: MechCoder <manojkumarsivaraj334@gmail.com> Closes #5355 from MechCoder/spark-6577 and squashes the following commits: 7492190 [MechCoder] More readable code for densifying ea2c54b [MechCoder] Check bounds for indexing 454ef2c [MechCoder] Made the following changes 1. Used convert_to_array for array conversion. 2. Used F order for toArray 3. Minor improvements in speed. db76caf [MechCoder] Add support for CSR matrix 29653e7 [MechCoder] Renamed indices to rowIndices and indptr to colPtrs b6384fe [MechCoder] [SPARK-6577] SparseMatrix should be supported in PySpark
* [SPARK-6264] [MLLIB] Support FPGrowth algorithm in Python APIYanbo Liang2015-04-092-1/+82
| | | | | | | | | | | | | | | | | | | Support FPGrowth algorithm in Python API. Should we remove "Experimental" which were marked for FPGrowth and FPGrowthModel in Scala? jkbradley Author: Yanbo Liang <ybliang8@gmail.com> Closes #5213 from yanboliang/spark-6264 and squashes the following commits: ed62ead [Yanbo Liang] trigger jenkins 8ce0359 [Yanbo Liang] fix docstring style 544c725 [Yanbo Liang] address comments a2d7cf7 [Yanbo Liang] add doc for FPGrowth.train() dcf7d73 [Yanbo Liang] add python doc b18fd07 [Yanbo Liang] trigger jenkins 2c951b8 [Yanbo Liang] fix typos 7f62c8f [Yanbo Liang] add fpm to __init__.py b96206a [Yanbo Liang] Support FPGrowth algorithm in Python API
* [SPARK-6720][MLLIB] PySpark MultivariateStatisticalSummary unit test for ↵lewuathe2015-04-071-0/+7
| | | | | | | | | | | | | | | | normL1... ... and normL2. Add test cases to insufficient unit test for `normL1` and `normL2`. Ref: https://github.com/apache/spark/pull/5359 Author: lewuathe <lewuathe@me.com> Closes #5374 from Lewuathe/SPARK-6720 and squashes the following commits: 5541b24 [lewuathe] More accurate tests dc5718c [lewuathe] [SPARK-6720] PySpark MultivariateStatisticalSummary unit test for normL1 and normL2
* [SPARK-6262][MLLIB]Implement missing methods for MultivariateStatisticalSummarylewuathe2015-04-052-0/+12
| | | | | | | | | | | | Add below methods in pyspark for MultivariateStatisticalSummary - normL1 - normL2 Author: lewuathe <lewuathe@me.com> Closes #5359 from Lewuathe/SPARK-6262 and squashes the following commits: cbe439e [lewuathe] Implement missing methods for MultivariateStatisticalSummary
* [SPARK-6615][MLLIB] Python API for Word2Veclewuathe2015-04-032-6/+57
| | | | | | | | | | | | | | This is the sub-task of SPARK-6254. Wrap missing method for `Word2Vec` and `Word2VecModel`. Author: lewuathe <lewuathe@me.com> Closes #5296 from Lewuathe/SPARK-6615 and squashes the following commits: f14c304 [lewuathe] Reorder tests 1d326b9 [lewuathe] Merge master e2bedfb [lewuathe] Modify test cases afb866d [lewuathe] [SPARK-6615] Python API for Word2Vec
* [SPARK-6660][MLLIB] pythonToJava doesn't recognize object arraysXiangrui Meng2015-04-011-0/+8
| | | | | | | | | | | davies Author: Xiangrui Meng <meng@databricks.com> Closes #5318 from mengxr/SPARK-6660 and squashes the following commits: 0f66ec2 [Xiangrui Meng] recognize object arrays ad8c42f [Xiangrui Meng] add a test for SPARK-6660
* [SPARK-6576] [MLlib] [PySpark] DenseMatrix in PySpark should support indexingMechCoder2015-04-012-0/+17
| | | | | | | | | | | | Support indexing in DenseMatrices in PySpark Author: MechCoder <manojkumarsivaraj334@gmail.com> Closes #5232 from MechCoder/SPARK-6576 and squashes the following commits: a735078 [MechCoder] Change bounds a062025 [MechCoder] Matrices are stored in column order 7917bc1 [MechCoder] [SPARK-6576] DenseMatrix in PySpark should support indexing
* [SPARK-6642][MLLIB] use 1.2 lambda scaling and remove addImplicit from ↵Xiangrui Meng2015-04-011-3/+3
| | | | | | | | | | | | | NormalEquation This PR changes lambda scaling from number of users/items to number of explicit ratings. The latter is the behavior in 1.2. Slight refactor of NormalEquation to make it independent of ALS models. srowen codexiang Author: Xiangrui Meng <meng@databricks.com> Closes #5314 from mengxr/SPARK-6642 and squashes the following commits: dc655a1 [Xiangrui Meng] relax python tests f410df2 [Xiangrui Meng] use 1.2 scaling and remove addImplicit from NormalEquation
* [SPARK-6657] [Python] [Docs] fixed python doc build warningsJoseph K. Bradley2015-04-011-16/+10
| | | | | | | | | | | | fixed python doc build warnings CC whomever wants to review: rxin mengxr davies Author: Joseph K. Bradley <joseph@databricks.com> Closes #5317 from jkbradley/python-doc-warnings and squashes the following commits: 4cd43c2 [Joseph K. Bradley] fixed python doc build warnings
* [SPARK-6651][MLLIB] delegate dense vector arithmetics to the underlying ↵Xiangrui Meng2015-04-011-1/+37
| | | | | | | | | | | | | numpy array Users should be able to use numpy operators directly on dense vectors. davies atalwalkar Author: Xiangrui Meng <meng@databricks.com> Closes #5312 from mengxr/SPARK-6651 and squashes the following commits: e665c5c [Xiangrui Meng] wrap the result in a dense vector 23dfca3 [Xiangrui Meng] delegate dense vector arithmetics to the underlying numpy array
* [SPARK-6255] [MLLIB] Support multiclass classification in Python APIYanbo Liang2015-03-312-28/+116
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Python API parity check for classification and multiclass classification support, major disparities need to be added for Python: ```scala LogisticRegressionWithLBFGS setNumClasses setValidateData LogisticRegressionModel getThreshold numClasses numFeatures SVMWithSGD setValidateData SVMModel getThreshold ``` For users the greatest benefit in this PR is multiclass classification was supported by Python API. Users can train multiclass classification model and use it to predict in pyspark. Author: Yanbo Liang <ybliang8@gmail.com> Closes #5137 from yanboliang/spark-6255 and squashes the following commits: 0bd531e [Yanbo Liang] address comments 444d5e2 [Yanbo Liang] LogisticRegressionModel.predict() optimization fc7990b [Yanbo Liang] address comments b0d9c63 [Yanbo Liang] Support Mulinomial LR model predict in Python API ded847c [Yanbo Liang] Python API parity check for classification (support multiclass classification)
* [SPARK-6598][MLLIB] Python API for IDFModellewuathe2015-03-312-0/+20
| | | | | | | | | | | This is the sub-task of SPARK-6254. Wrapping IDFModel `idf` member function for pyspark. Author: lewuathe <lewuathe@me.com> Closes #5264 from Lewuathe/SPARK-6598 and squashes the following commits: 1dc522c [lewuathe] [SPARK-6598] Python API for IDFModel
* [SPARK-6571][MLLIB] use wrapper in MatrixFactorizationModel.loadXiangrui Meng2015-03-281-0/+8
| | | | | | | | | | This fixes `predictAll` after load. jkbradley Author: Xiangrui Meng <meng@databricks.com> Closes #5243 from mengxr/SPARK-6571 and squashes the following commits: 82dcaa7 [Xiangrui Meng] use wrapper in MatrixFactorizationModel.load
* [SPARK-6256] [MLlib] MLlib Python API parity check for regressionYanbo Liang2015-03-251-7/+36
| | | | | | | | | | | | | | | | | | | | | | | MLlib Python API parity check for Regression, major disparities need to be added for Python list following: ```scala LinearRegressionWithSGD setValidateData LassoWithSGD setIntercept setValidateData RidgeRegressionWithSGD setIntercept setValidateData ``` setFeatureScaling is mllib private function which is not needed to expose in pyspark. Author: Yanbo Liang <ybliang8@gmail.com> Closes #4997 from yanboliang/spark-6256 and squashes the following commits: 102f498 [Yanbo Liang] fix intercept issue & add doc test 1fb7b4f [Yanbo Liang] change 'intercept' to 'addIntercept' de5ecbc [Yanbo Liang] MLlib Python API parity check for regression
* [SPARK-6421][MLLIB] _regression_train_wrapper does not test initialWeights ↵lewuathe2015-03-202-1/+9
| | | | | | | | | | | | | correctly Weight parameters must be initialized correctly even when numpy array is passed as initial weights. Author: lewuathe <lewuathe@me.com> Closes #5101 from Lewuathe/SPARK-6421 and squashes the following commits: 7795201 [lewuathe] Fix lint-python errors 21d4fe3 [lewuathe] Fix init logic of weights
* [Spark 6096][MLlib] Add Naive Bayes load save methods in PythonXusen Yin2015-03-201-1/+30
| | | | | | | | | | | | | | See [SPARK-6096](https://issues.apache.org/jira/browse/SPARK-6096). Author: Xusen Yin <yinxusen@gmail.com> Closes #5090 from yinxusen/SPARK-6096 and squashes the following commits: bd0fea5 [Xusen Yin] fix style problem, etc. 3fd41f2 [Xusen Yin] use hanging indent in Python style e83803d [Xusen Yin] fix Python style d6dbde5 [Xusen Yin] fix python call java error a054bb3 [Xusen Yin] add save load for NaiveBayes python
* [SPARK-6095] [MLLIB] Support model save/load in Python's linear modelsYanbo Liang2015-03-203-3/+145
| | | | | | | | | | | | | For Python's linear models, weights and intercept are stored in Python. This PR implements Python's linear models sava/load functions which do the same thing as scala. It can also make model import/export cross languages. Author: Yanbo Liang <ybliang8@gmail.com> Closes #5016 from yanboliang/spark-6095 and squashes the following commits: d9bb824 [Yanbo Liang] fix python style b3813ca [Yanbo Liang] linear model save/load for Python reuse the Scala implementation
* [SPARK-6226][MLLIB] add save/load in PySpark's KMeansModelXiangrui Meng2015-03-172-5/+27
| | | | | | | | | | | Use `_py2java` and `_java2py` to convert Python model to/from Java model. yinxusen Author: Xiangrui Meng <meng@databricks.com> Closes #5049 from mengxr/SPARK-6226-mengxr and squashes the following commits: 570ba81 [Xiangrui Meng] fix python style b10b911 [Xiangrui Meng] add save/load in PySpark's KMeansModel
* [mllib] [python] Add LassoModel to __all__ in regression.pyJoseph K. Bradley2015-03-121-2/+4
| | | | | | | | | | | | | | Add LassoModel to __all__ in regression.py LassoModel does not show up in Python docs This should be merged into branch-1.3 and master. Author: Joseph K. Bradley <joseph@databricks.com> Closes #4970 from jkbradley/SPARK-6253 and squashes the following commits: c2cb533 [Joseph K. Bradley] Add LassoModel to __all__ in regression.py
* [SPARK-6090][MLLIB] add a basic BinaryClassificationMetrics to PySpark/MLlibXiangrui Meng2015-03-051-0/+83
| | | | | | | | | | | | | A simple wrapper around the Scala implementation. `DataFrame` is used for serialization/deserialization. Methods that return `RDD`s are not supported in this PR. davies If we recognize Scala's `Product`s in Py4J, we can easily add wrappers for Scala methods that returns `RDD[(Double, Double)]`. Is it easy to register serializer for `Product` in PySpark? Author: Xiangrui Meng <meng@databricks.com> Closes #4863 from mengxr/SPARK-6090 and squashes the following commits: 009a3a3 [Xiangrui Meng] provide schema dcddab5 [Xiangrui Meng] add a basic BinaryClassificationMetrics to PySpark/MLlib
* [SPARK-6097][MLLIB] Support tree model save/load in PySpark/MLlibXiangrui Meng2015-03-024-15/+79
| | | | | | | | | | | | | | | | Similar to `MatrixFactorizaionModel`, we only need wrappers to support save/load for tree models in Python. jkbradley Author: Xiangrui Meng <meng@databricks.com> Closes #4854 from mengxr/SPARK-6097 and squashes the following commits: 4586a4d [Xiangrui Meng] fix more typos 8ebcac2 [Xiangrui Meng] fix python style 91172d8 [Xiangrui Meng] fix typos 201b3b9 [Xiangrui Meng] update user guide b5158e2 [Xiangrui Meng] support tree model save/load in PySpark/MLlib
* [SPARK-6121][SQL][MLLIB] simpleString for UDTXiangrui Meng2015-03-021-0/+3
| | | | | | | | | | | | `df.dtypes` shows `null` for UDTs. This PR uses `udt` by default and `VectorUDT` overwrites it with `vector`. jkbradley davies Author: Xiangrui Meng <meng@databricks.com> Closes #4858 from mengxr/SPARK-6121 and squashes the following commits: 34f0a77 [Xiangrui Meng] simpleString for UDT
* [SPARK-6080] [PySpark] correct LogisticRegressionWithLBFGS regType parameter ↵Yanbo Liang2015-03-021-1/+1
| | | | | | | | | | | | | for pyspark Currently LogisticRegressionWithLBFGS in python/pyspark/mllib/classification.py will invoke callMLlibFunc with a wrong "regType" parameter. It was assigned to "str(regType)" which translate None(Python) to "None"(Java/Scala). The right way should be translate None(Python) to null(Java/Scala) just as what we did at LogisticRegressionWithSGD. Author: Yanbo Liang <ybliang8@gmail.com> Closes #4831 from yanboliang/pyspark_classification and squashes the following commits: 12db65a [Yanbo Liang] correct LogisticRegressionWithLBFGS regType parameter for pyspark
* [SPARK-6053][MLLIB] support save/load in PySpark's ALSXiangrui Meng2015-03-012-2/+76
| | | | | | | | | | | | | A simple wrapper to save/load `MatrixFactorizationModel` in Python. jkbradley Author: Xiangrui Meng <meng@databricks.com> Closes #4811 from mengxr/SPARK-5991 and squashes the following commits: f135dac [Xiangrui Meng] update save doc 57e5200 [Xiangrui Meng] address comments 06140a4 [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-5991 282ec8d [Xiangrui Meng] support save/load in PySpark's ALS
* [SPARK-5974] [SPARK-5980] [mllib] [python] [docs] Update ML guide with ↵Joseph K. Bradley2015-02-253-89/+141
| | | | | | | | | | | | | | | | | | | | | save/load, Python GBT * Add GradientBoostedTrees Python examples to ML guide * I ran these in the pyspark shell, and they worked. * Add save/load to examples in ML guide * Added note to python docs about predict,transform not working within RDD actions,transformations in some cases (See SPARK-5981) CC: mengxr Author: Joseph K. Bradley <joseph@databricks.com> Closes #4750 from jkbradley/SPARK-5974 and squashes the following commits: c410e38 [Joseph K. Bradley] Added note to LabeledPoint about attributes bcae18b [Joseph K. Bradley] Added import of models for save/load examples in ml guide. Fixed line length for tree.py, feature.py (but not other ML Pyspark files yet). 6d81c3e [Joseph K. Bradley] completed python GBT examples 9903309 [Joseph K. Bradley] Added note to python docs about predict,transform not working within RDD actions,transformations in some cases c7dfad8 [Joseph K. Bradley] Added model save/load to ML guide. Added GBT examples to ML guide
* [SPARK-5867] [SPARK-5892] [doc] [ml] [mllib] Doc cleanups for 1.3 releaseJoseph K. Bradley2015-02-207-8/+34
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | For SPARK-5867: * The spark.ml programming guide needs to be updated to use the new SQL DataFrame API instead of the old SchemaRDD API. * It should also include Python examples now. For SPARK-5892: * Fix Python docs * Various other cleanups BTW, I accidentally merged this with master. If you want to compile it on your own, use this branch which is based on spark/branch-1.3 and cherry-picks the commits from this PR: [https://github.com/jkbradley/spark/tree/doc-review-1.3-check] CC: mengxr (ML), davies (Python docs) Author: Joseph K. Bradley <joseph@databricks.com> Closes #4675 from jkbradley/doc-review-1.3 and squashes the following commits: f191bb0 [Joseph K. Bradley] small cleanups e786efa [Joseph K. Bradley] small doc corrections 6b1ab4a [Joseph K. Bradley] fixed python lint test 946affa [Joseph K. Bradley] Added sample data for ml.MovieLensALS example. Changed spark.ml Java examples to use DataFrames API instead of sql() da81558 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into doc-review-1.3 629dbf5 [Joseph K. Bradley] Updated based on code review: * made new page for old migration guides * small fixes * moved inherit_doc in python b9df7c4 [Joseph K. Bradley] Small cleanups: toDF to toDF(), adding s for string interpolation 34b067f [Joseph K. Bradley] small doc correction da16aef [Joseph K. Bradley] Fixed python mllib docs 8cce91c [Joseph K. Bradley] GMM: removed old imports, added some doc 695f3f6 [Joseph K. Bradley] partly done trying to fix inherit_doc for class hierarchies in python docs a72c018 [Joseph K. Bradley] made ChiSqTestResult appear in python docs b05a80d [Joseph K. Bradley] organize imports. doc cleanups e572827 [Joseph K. Bradley] updated programming guide for ml and mllib
* [SPARK-5752][SQL] Don't implicitly convert RDDs directly to DataFramesReynold Xin2015-02-131-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - The old implicit would convert RDDs directly to DataFrames, and that added too many methods. - toDataFrame -> toDF - Dsl -> functions - implicits moved into SQLContext.implicits - addColumn -> withColumn - renameColumn -> withColumnRenamed Python changes: - toDataFrame -> toDF - Dsl -> functions package - addColumn -> withColumn - renameColumn -> withColumnRenamed - add toDF functions to RDD on SQLContext init - add flatMap to DataFrame Author: Reynold Xin <rxin@databricks.com> Author: Davies Liu <davies@databricks.com> Closes #4556 from rxin/SPARK-5752 and squashes the following commits: 5ef9910 [Reynold Xin] More fix 61d3fca [Reynold Xin] Merge branch 'df5' of github.com:davies/spark into SPARK-5752 ff5832c [Reynold Xin] Fix python 749c675 [Reynold Xin] count(*) fixes. 5806df0 [Reynold Xin] Fix build break again. d941f3d [Reynold Xin] Fixed explode compilation break. fe1267a [Davies Liu] flatMap c4afb8e [Reynold Xin] style d9de47f [Davies Liu] add comment b783994 [Davies Liu] add comment for toDF e2154e5 [Davies Liu] schema() -> schema 3a1004f [Davies Liu] Dsl -> functions, toDF() fb256af [Reynold Xin] - toDataFrame -> toDF - Dsl -> functions - implicits moved into SQLContext.implicits - addColumn -> withColumn - renameColumn -> withColumnRenamed 0dd74eb [Reynold Xin] [SPARK-5752][SQL] Don't implicitly convert RDDs directly to DataFrames 97dd47c [Davies Liu] fix mistake 6168f74 [Davies Liu] fix test 1fc0199 [Davies Liu] fix test a075cd5 [Davies Liu] clean up, toPandas 663d314 [Davies Liu] add test for agg('*') 9e214d5 [Reynold Xin] count(*) fixes. 1ed7136 [Reynold Xin] Fix build break again. 921b2e3 [Reynold Xin] Fixed explode compilation break. 14698d4 [Davies Liu] flatMap ba3e12d [Reynold Xin] style d08c92d [Davies Liu] add comment 5c8b524 [Davies Liu] add comment for toDF a4e5e66 [Davies Liu] schema() -> schema d377fc9 [Davies Liu] Dsl -> functions, toDF() 6b3086c [Reynold Xin] - toDataFrame -> toDF - Dsl -> functions - implicits moved into SQLContext.implicits - addColumn -> withColumn - renameColumn -> withColumnRenamed 807e8b1 [Reynold Xin] [SPARK-5752][SQL] Don't implicitly convert RDDs directly to DataFrames
* [SPARK-5469] restructure pyspark.sql into multiple filesDavies Liu2015-02-091-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | All the DataTypes moved into pyspark.sql.types The changes can be tracked by `--find-copies-harder -M25` ``` davieslocalhost:~/work/spark/python$ git diff --find-copies-harder -M25 --numstat master.. 2 5 python/docs/pyspark.ml.rst 0 3 python/docs/pyspark.mllib.rst 10 2 python/docs/pyspark.sql.rst 1 1 python/pyspark/mllib/linalg.py 21 14 python/pyspark/{mllib => sql}/__init__.py 14 2108 python/pyspark/{sql.py => sql/context.py} 10 1772 python/pyspark/{sql.py => sql/dataframe.py} 7 6 python/pyspark/{sql_tests.py => sql/tests.py} 8 1465 python/pyspark/{sql.py => sql/types.py} 4 2 python/run-tests 1 1 sql/core/src/main/scala/org/apache/spark/sql/test/ExamplePointUDT.scala ``` Also `git blame -C -C python/pyspark/sql/context.py` to track the history. Author: Davies Liu <davies@databricks.com> Closes #4479 from davies/sql and squashes the following commits: 1b5f0a5 [Davies Liu] Merge branch 'master' of github.com:apache/spark into sql 2b2b983 [Davies Liu] restructure pyspark.sql
* [SPARK-5585] Flaky test in MLlib pythonDavies Liu2015-02-041-1/+1
| | | | | | | | | | | Add a seed for tests. Author: Davies Liu <davies@databricks.com> Closes #4358 from davies/flaky_test and squashes the following commits: 02371c3 [Davies Liu] Merge branch 'master' of github.com:apache/spark into flaky_test ced499b [Davies Liu] add seed for test
* [SPARK-5536] replace old ALS implementation by the new oneXiangrui Meng2015-02-021-8/+8
| | | | | | | | | | | | | | | | | | | | | The only issue is that `analyzeBlock` is removed, which was marked as a developer API. I didn't change other tests in the ALSSuite under `spark.mllib` to ensure that the implementation is correct. CC: srowen coderxiang Author: Xiangrui Meng <meng@databricks.com> Closes #4321 from mengxr/SPARK-5536 and squashes the following commits: 5a3cee8 [Xiangrui Meng] update python tests that are too strict e840acf [Xiangrui Meng] ignore scala style check for ALS.train e9a721c [Xiangrui Meng] update mima excludes 9ee6a36 [Xiangrui Meng] merge master 9a8aeac [Xiangrui Meng] update tests d8c3271 [Xiangrui Meng] remove analyzeBlocks d68eee7 [Xiangrui Meng] add checkpoint to new ALS 22a56f8 [Xiangrui Meng] wrap old ALS c387dff [Xiangrui Meng] support random seed 3bdf24b [Xiangrui Meng] make storage level configurable in the new ALS
* [SPARK-5012][MLLib][PySpark]Python API for Gaussian Mixture ModelFlytxtRnD2015-02-024-5/+147
| | | | | | | | | | | | | | | | | | | | | | | | | | | Python API for the Gaussian Mixture Model clustering algorithm in MLLib. Author: FlytxtRnD <meethu.mathew@flytxt.com> Closes #4059 from FlytxtRnD/PythonGmmWrapper and squashes the following commits: c973ab3 [FlytxtRnD] Merge branch 'PythonGmmWrapper', remote-tracking branch 'upstream/master' into PythonGmmWrapper 339b09c [FlytxtRnD] Added MultivariateGaussian namedtuple and Arraybuffer in trainGaussianMixture fa0a142 [FlytxtRnD] New line added d5b36ab [FlytxtRnD] Changed argument names to lowercase ac134f1 [FlytxtRnD] Merge branch 'PythonGmmWrapper' of https://github.com/FlytxtRnD/spark into PythonGmmWrapper 6671ea1 [FlytxtRnD] Added mllib/stat/distribution.py 3aee84b [FlytxtRnD] Fixed style issues 2e9f12a [FlytxtRnD] Added mllib/stat/distribution.py and fixed style issues b22532c [FlytxtRnD] Merge branch 'PythonGmmWrapper', remote-tracking branch 'upstream/master' into PythonGmmWrapper 2e14d82 [FlytxtRnD] Incorporate MultivariateGaussian instances in GaussianMixtureModel 05767c7 [FlytxtRnD] Merge branch 'PythonGmmWrapper', remote-tracking branch 'upstream/master' into PythonGmmWrapper 3464d19 [FlytxtRnD] Merge branch 'PythonGmmWrapper', remote-tracking branch 'upstream/master' into PythonGmmWrapper c1d4c71 [FlytxtRnD] Merge branch 'PythonGmmWrapper', remote-tracking branch 'origin/PythonGmmWrapper' into PythonGmmWrapper 426d130 [FlytxtRnD] Added random seed parameter 332bad1 [FlytxtRnD] Merge branch 'PythonGmmWrapper', remote-tracking branch 'upstream/master' into PythonGmmWrapper f82750b [FlytxtRnD] Fixed style issues 5c83825 [FlytxtRnD] Split input file with space delimiter fda60f3 [FlytxtRnD] Python API for Gaussian Mixture Model
* [SPARK-5094][MLlib] Add Python API for Gradient Boosted TreesKazuki Taniguchi2015-01-302-53/+209
| | | | | | | | | | This PR is implementing the Gradient Boosted Trees for Python API. Author: Kazuki Taniguchi <kazuki.t.1018@gmail.com> Closes #3951 from kazk1018/gbt_for_py and squashes the following commits: 620d247 [Kazuki Taniguchi] [SPARK-5094][MLlib] Add Python API for Gradient Boosted Trees
* [SPARK-5477] refactor stat.pyXiangrui Meng2015-01-293-53/+95
| | | | | | | | | | | | There is only a single `stat.py` file for the `mllib.stat` package. We recently added `MultivariateGaussian` under `mllib.stat.distribution` in Scala/Java. It would be nice to refactor `stat.py` and make it easy to expand. Note that `ChiSqTestResult` is moved from `mllib.stat` to `mllib.stat.test`. The latter is used in Scala/Java. It is only used in the return value of `Statistics.chiSqTest`, so this should be an okay change. davies Author: Xiangrui Meng <meng@databricks.com> Closes #4266 from mengxr/py-stat-refactor and squashes the following commits: 1a5e1db [Xiangrui Meng] refactor stat.py
* [SPARK-4749] [mllib]: Allow initializing KMeans clusters using a seednate.crosswhite2015-01-212-3/+18
| | | | | | | | | | | | | | | | | | | This implements the functionality for SPARK-4749 and provides units tests in Scala and PySpark Author: nate.crosswhite <nate.crosswhite@stresearch.com> Author: nxwhite-str <nxwhite-str@users.noreply.github.com> Author: Xiangrui Meng <meng@databricks.com> Closes #3610 from nxwhite-str/master and squashes the following commits: a2ebbd3 [nxwhite-str] Merge pull request #1 from mengxr/SPARK-4749-kmeans-seed 7668124 [Xiangrui Meng] minor updates f8d5928 [nate.crosswhite] Addressing PR issues 277d367 [nate.crosswhite] Merge remote-tracking branch 'upstream/master' 9156a57 [nate.crosswhite] Merge remote-tracking branch 'upstream/master' 5d087b4 [nate.crosswhite] Adding KMeans train with seed and Scala unit test 616d111 [nate.crosswhite] Merge remote-tracking branch 'upstream/master' 35c1884 [nate.crosswhite] Add kmeans initial seed to pyspark API
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