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* [SPARK-6486] [MLLIB] [PYTHON] Add BlockMatrix to PySpark.Mike Dusenberry2015-08-051-6/+322
| | | | | | | | | | | | | | | | mengxr This adds the `BlockMatrix` to PySpark. I have the conversions to `IndexedRowMatrix` and `CoordinateMatrix` ready as well, so once PR #7554 is completed (which relies on PR #7746), this PR can be finished. Author: Mike Dusenberry <mwdusenb@us.ibm.com> Closes #7761 from dusenberrymw/SPARK-6486_Add_BlockMatrix_to_PySpark and squashes the following commits: 27195c2 [Mike Dusenberry] Adding one more check to _convert_to_matrix_block_tuple, and a few minor documentation changes. ae50883 [Mike Dusenberry] Minor update: BlockMatrix should inherit from DistributedMatrix. b8acc1c [Mike Dusenberry] Moving BlockMatrix to pyspark.mllib.linalg.distributed, updating the logic to match that of the other distributed matrices, adding conversions, and adding documentation. c014002 [Mike Dusenberry] Using properties for better documentation. 3bda6ab [Mike Dusenberry] Adding documentation. 8fb3095 [Mike Dusenberry] Small cleanup. e17af2e [Mike Dusenberry] Adding BlockMatrix to PySpark.
* [SPARK-8231] [SQL] Add array_containsPedro Rodriguez2015-08-041-0/+17
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This PR is based on #7580 , thanks to EntilZha PR for work on https://issues.apache.org/jira/browse/SPARK-8231 Currently, I have an initial implementation for contains. Based on discussion on JIRA, it should behave same as Hive: https://github.com/apache/hive/blob/master/ql/src/java/org/apache/hadoop/hive/ql/udf/generic/GenericUDFArrayContains.java#L102-L128 Main points are: 1. If the array is empty, null, or the value is null, return false 2. If there is a type mismatch, throw error 3. If comparison is not supported, throw error Closes #7580 Author: Pedro Rodriguez <prodriguez@trulia.com> Author: Pedro Rodriguez <ski.rodriguez@gmail.com> Author: Davies Liu <davies@databricks.com> Closes #7949 from davies/array_contains and squashes the following commits: d3c08bc [Davies Liu] use foreach() to avoid copy bc3d1fe [Davies Liu] fix array_contains 719e37d [Davies Liu] Merge branch 'master' of github.com:apache/spark into array_contains e352cf9 [Pedro Rodriguez] fixed diff from master 4d5b0ff [Pedro Rodriguez] added docs and another type check ffc0591 [Pedro Rodriguez] fixed unit test 7a22deb [Pedro Rodriguez] Changed test to use strings instead of long/ints which are different between python 2 an 3 b5ffae8 [Pedro Rodriguez] fixed pyspark test 4e7dce3 [Pedro Rodriguez] added more docs 3082399 [Pedro Rodriguez] fixed unit test 46f9789 [Pedro Rodriguez] reverted change d3ca013 [Pedro Rodriguez] Fixed type checking to match hive behavior, then added tests to insure this 8528027 [Pedro Rodriguez] added more tests 686e029 [Pedro Rodriguez] fix scala style d262e9d [Pedro Rodriguez] reworked type checking code and added more tests 2517a58 [Pedro Rodriguez] removed unused import 28b4f71 [Pedro Rodriguez] fixed bug with type conversions and re-added tests 12f8795 [Pedro Rodriguez] fix scala style checks e8a20a9 [Pedro Rodriguez] added python df (broken atm) 65b562c [Pedro Rodriguez] made array_contains nullable false 33b45aa [Pedro Rodriguez] reordered test 9623c64 [Pedro Rodriguez] fixed test 4b4425b [Pedro Rodriguez] changed Arrays in tests to Seqs 72cb4b1 [Pedro Rodriguez] added checkInputTypes and docs 69c46fb [Pedro Rodriguez] added tests and codegen 9e0bfc4 [Pedro Rodriguez] initial attempt at implementation
* [SPARK-9513] [SQL] [PySpark] Add python API for DataFrame functionsDavies Liu2015-08-041-247/+602
| | | | | | | | | | | | | | | | | This adds Python API for those DataFrame functions that is introduced in 1.5. There is issue with serialize byte_array in Python 3, so some of functions (for BinaryType) does not have tests. cc rxin Author: Davies Liu <davies@databricks.com> Closes #7922 from davies/python_functions and squashes the following commits: 8ad942f [Davies Liu] fix test 5fb6ec3 [Davies Liu] fix bugs 3495ed3 [Davies Liu] fix issues ea5f7bb [Davies Liu] Add python API for DataFrame functions
* [SPARK-6485] [MLLIB] [PYTHON] Add ↵Mike Dusenberry2015-08-043-0/+547
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | CoordinateMatrix/RowMatrix/IndexedRowMatrix to PySpark. This PR adds the RowMatrix, IndexedRowMatrix, and CoordinateMatrix distributed matrices to PySpark. Each distributed matrix class acts as a wrapper around the Scala/Java counterpart by maintaining a reference to the Java object. New distributed matrices can be created using factory methods added to DistributedMatrices, which creates the Java distributed matrix and then wraps it with the corresponding PySpark class. This design allows for simple conversion between the various distributed matrices, and lets us re-use the Scala code. Serialization between Python and Java is implemented using DataFrames as needed for IndexedRowMatrix and CoordinateMatrix for simplicity. Associated documentation and unit-tests have also been added. To facilitate code review, this PR implements access to the rows/entries as RDDs, the number of rows & columns, and conversions between the various distributed matrices (not including BlockMatrix), and does not implement the other linear algebra functions of the matrices, although this will be very simple to add now. Author: Mike Dusenberry <mwdusenb@us.ibm.com> Closes #7554 from dusenberrymw/SPARK-6485_Add_CoordinateMatrix_RowMatrix_IndexedMatrix_to_PySpark and squashes the following commits: bb039cb [Mike Dusenberry] Minor documentation update. b887c18 [Mike Dusenberry] Updating the matrix conversion logic again to make it even cleaner. Now, we allow the 'rows' parameter in the constructors to be either an RDD or the Java matrix object. If 'rows' is an RDD, we create a Java matrix object, wrap it, and then store that. If 'rows' is a Java matrix object of the correct type, we just wrap and store that directly. This is only for internal usage, and publicly, we still require 'rows' to be an RDD. We no longer store the 'rows' RDD, and instead just compute it from the Java object when needed. The point of this is that when we do matrix conversions, we do the conversion on the Scala/Java side, which returns a Java object, so we should use that directly, but exposing 'java_matrix' parameter in the public API is not ideal. This non-public feature of allowing 'rows' to be a Java matrix object is documented in the '__init__' constructor docstrings, which are not part of the generated public API, and doctests are also included. 7f0dcb6 [Mike Dusenberry] Updating module docstring. cfc1be5 [Mike Dusenberry] Use 'new SQLContext(matrix.rows.sparkContext)' rather than 'SQLContext.getOrCreate', as the later doesn't guarantee that the SparkContext will be the same as for the matrix.rows data. 687e345 [Mike Dusenberry] Improving conversion performance. This adds an optional 'java_matrix' parameter to the constructors, and pulls the conversion logic out into a '_create_from_java' function. Now, if the constructors are given a valid Java distributed matrix object as 'java_matrix', they will store those internally, rather than create a new one on the Scala/Java side. 3e50b6e [Mike Dusenberry] Moving the distributed matrices to pyspark.mllib.linalg.distributed. 308f197 [Mike Dusenberry] Using properties for better documentation. 1633f86 [Mike Dusenberry] Minor documentation cleanup. f0c13a7 [Mike Dusenberry] CoordinateMatrix should inherit from DistributedMatrix. ffdd724 [Mike Dusenberry] Updating doctests to make documentation cleaner. 3fd4016 [Mike Dusenberry] Updating docstrings. 27cd5f6 [Mike Dusenberry] Simplifying input conversions in the constructors for each distributed matrix. a409cf5 [Mike Dusenberry] Updating doctests to be less verbose by using lists instead of DenseVectors explicitly. d19b0ba [Mike Dusenberry] Updating code and documentation to note that a vector-like object (numpy array, list, etc.) can be used in place of explicit Vector object, and adding conversions when necessary to RowMatrix construction. 4bd756d [Mike Dusenberry] Adding param documentation to IndexedRow and MatrixEntry. c6bded5 [Mike Dusenberry] Move conversion logic from tuples to IndexedRow or MatrixEntry types from within the IndexedRowMatrix and CoordinateMatrix constructors to separate _convert_to_indexed_row and _convert_to_matrix_entry functions. 329638b [Mike Dusenberry] Moving the Experimental tag to the top of each docstring. 0be6826 [Mike Dusenberry] Simplifying doctests by removing duplicated rows/entries RDDs within the various tests. c0900df [Mike Dusenberry] Adding the colons that were accidentally not inserted. 4ad6819 [Mike Dusenberry] Documenting the and parameters. 3b854b9 [Mike Dusenberry] Minor updates to documentation. 10046e8 [Mike Dusenberry] Updating documentation to use class constructors instead of the removed DistributedMatrices factory methods. 119018d [Mike Dusenberry] Adding static methods to each of the distributed matrix classes to consolidate conversion logic. 4d7af86 [Mike Dusenberry] Adding type checks to the constructors. Although it is slightly verbose, it is better for the user to have a good error message than a cryptic stacktrace. 93b6a3d [Mike Dusenberry] Pulling the DistributedMatrices Python class out of this pull request. f6f3c68 [Mike Dusenberry] Pulling the DistributedMatrices Scala class out of this pull request. 6a3ecb7 [Mike Dusenberry] Updating pattern matching. 08f287b [Mike Dusenberry] Slight reformatting of the documentation. a245dc0 [Mike Dusenberry] Updating Python doctests for compatability between Python 2 & 3. Since Python 3 removed the idea of a separate 'long' type, all values that would have been outputted as a 'long' (ex: '4L') will now be treated as an 'int' and outputed as one (ex: '4'). The doctests now explicitly convert to ints so that both Python 2 and 3 will have the same output. This is fine since the values are all small, and thus can be easily represented as ints. 4d3a37e [Mike Dusenberry] Reformatting a few long Python doctest lines. 7e3ca16 [Mike Dusenberry] Fixing long lines. f721ead [Mike Dusenberry] Updating documentation for each of the distributed matrices. ab0e8b6 [Mike Dusenberry] Updating unit test to be more useful. dda2f89 [Mike Dusenberry] Added wrappers for the conversions between the various distributed matrices. Added logic to be able to access the rows/entries of the distributed matrices, which requires serialization through DataFrames for IndexedRowMatrix and CoordinateMatrix types. Added unit tests. 0cd7166 [Mike Dusenberry] Implemented the CoordinateMatrix API in PySpark, following the idea of the IndexedRowMatrix API, including using DataFrames for serialization. 3c369cb [Mike Dusenberry] Updating the architecture a bit to make conversions between the various distributed matrix types easier. The different distributed matrix classes are now only wrappers around the Java objects, and take the Java object as an argument during construction. This way, we can call for example on an , which returns a reference to a Java RowMatrix object, and then construct a PySpark RowMatrix object wrapped around the Java object. This is analogous to the behavior of PySpark RDDs and DataFrames. We now delegate creation of the various distributed matrices from scratch in PySpark to the factory methods on . 4bdd09b [Mike Dusenberry] Implemented the IndexedRowMatrix API in PySpark, following the idea of the RowMatrix API. Note that for the IndexedRowMatrix, we use DataFrames to serialize the data between Python and Scala/Java, so we accept PySpark RDDs, then convert to a DataFrame, then convert back to RDDs on the Scala/Java side before constructing the IndexedRowMatrix. 23bf1ec [Mike Dusenberry] Updating documentation to add PySpark RowMatrix. Inserting newline above doctest so that it renders properly in API docs. b194623 [Mike Dusenberry] Updating design to have a PySpark RowMatrix simply create and keep a reference to a wrapper over a Java RowMatrix. Updating DistributedMatrices factory methods to accept numRows and numCols with default values. Updating PySpark DistributedMatrices factory method to simply create a PySpark RowMatrix. Adding additional doctests for numRows and numCols parameters. bc2d220 [Mike Dusenberry] Adding unit tests for RowMatrix methods. d7e316f [Mike Dusenberry] Implemented the RowMatrix API in PySpark by doing the following: Added a DistributedMatrices class to contain factory methods for creating the various distributed matrices. Added a factory method for creating a RowMatrix from an RDD of Vectors. Added a createRowMatrix function to the PythonMLlibAPI to interface with the factory method. Added DistributedMatrix, DistributedMatrices, and RowMatrix classes to the pyspark.mllib.linalg api.
* [SPARK-9447] [ML] [PYTHON] Added HasRawPredictionCol, HasProbabilityCol to ↵Joseph K. Bradley2015-08-041-1/+12
| | | | | | | | | | | | | | | RandomForestClassifier Added HasRawPredictionCol, HasProbabilityCol to RandomForestClassifier, plus doc tests for those columns. CC: holdenk yanboliang Author: Joseph K. Bradley <joseph@databricks.com> Closes #7903 from jkbradley/rf-prob-python and squashes the following commits: c62a83f [Joseph K. Bradley] made unit test more robust 14eeba2 [Joseph K. Bradley] added HasRawPredictionCol, HasProbabilityCol to RandomForestClassifier in PySpark
* [SPARK-8069] [ML] Add multiclass thresholds for ProbabilisticClassifierHolden Karau2015-08-041-12/+60
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This PR replaces the old "threshold" with a generalized "thresholds" Param. We keep getThreshold,setThreshold for backwards compatibility for binary classification. Note that the primary author of this PR is holdenk Author: Holden Karau <holden@pigscanfly.ca> Author: Joseph K. Bradley <joseph@databricks.com> Closes #7909 from jkbradley/holdenk-SPARK-8069-add-cutoff-aka-threshold-to-random-forest and squashes the following commits: 3952977 [Joseph K. Bradley] fixed pyspark doc test 85febc8 [Joseph K. Bradley] made python unit tests a little more robust 7eb1d86 [Joseph K. Bradley] small cleanups 6cc2ed8 [Joseph K. Bradley] Fixed remaining merge issues. 0255e44 [Joseph K. Bradley] Many cleanups for thresholds, some more tests 7565a60 [Holden Karau] fix pep8 style checks, add a getThreshold method similar to our LogisticRegression.scala one for API compat be87f26 [Holden Karau] Convert threshold to thresholds in the python code, add specialized support for Array[Double] to shared parems codegen, etc. 6747dad [Holden Karau] Override raw2prediction for ProbabilisticClassifier, fix some tests 25df168 [Holden Karau] Fix handling of thresholds in LogisticRegression c02d6c0 [Holden Karau] No default for thresholds 5e43628 [Holden Karau] CR feedback and fixed the renamed test f3fbbd1 [Holden Karau] revert the changes to random forest :( 51f581c [Holden Karau] Add explicit types to public methods, fix long line f7032eb [Holden Karau] Fix a java test bug, remove some unecessary changes adf15b4 [Holden Karau] rename the classifier suite test to ProbabilisticClassifierSuite now that we only have it in Probabilistic 398078a [Holden Karau] move the thresholding around a bunch based on the design doc 4893bdc [Holden Karau] Use numtrees of 3 since previous result was tied (one tree for each) and the switch from different max methods picked a different element (since they were equal I think this is ok) 638854c [Holden Karau] Add a scala RandomForestClassifierSuite test based on corresponding python test e09919c [Holden Karau] Fix return type, I need more coffee.... 8d92cac [Holden Karau] Use ClassifierParams as the head 3456ed3 [Holden Karau] Add explicit return types even though just test a0f3b0c [Holden Karau] scala style fixes 6f14314 [Holden Karau] Since hasthreshold/hasthresholds is in root classifier now ffc8dab [Holden Karau] Update the sharedParams 0420290 [Holden Karau] Allow us to override the get methods selectively 978e77a [Holden Karau] Move HasThreshold into classifier params and start defining the overloaded getThreshold/getThresholds functions 1433e52 [Holden Karau] Revert "try and hide threshold but chainges the API so no dice there" 1f09a2e [Holden Karau] try and hide threshold but chainges the API so no dice there efb9084 [Holden Karau] move setThresholds only to where its used 6b34809 [Holden Karau] Add a test with thresholding for the RFCS 74f54c3 [Holden Karau] Fix creation of vote array 1986fa8 [Holden Karau] Setting the thresholds only makes sense if the underlying class hasn't overridden predict, so lets push it down. 2f44b18 [Holden Karau] Add a global default of null for thresholds param f338cfc [Holden Karau] Wait that wasn't a good idea, Revert "Some progress towards unifying threshold and thresholds" 634b06f [Holden Karau] Some progress towards unifying threshold and thresholds 85c9e01 [Holden Karau] Test passes again... little fnur 099c0f3 [Holden Karau] Move thresholds around some more (set on model not trainer) 0f46836 [Holden Karau] Start adding a classifiersuite f70eb5e [Holden Karau] Fix test compile issues a7d59c8 [Holden Karau] Move thresholding into Classifier trait 5d999d2 [Holden Karau] Some more progress, start adding a test (maybe try and see if we can find a better thing to use for the base of the test) 1fed644 [Holden Karau] Use thresholds to scale scores in random forest classifcation 31d6bf2 [Holden Karau] Start threading the threshold info through 0ef228c [Holden Karau] Add hasthresholds
* [SPARK-9544] [MLLIB] add Python API for RFormulaXiangrui Meng2015-08-031-1/+84
| | | | | | | | | | | | | Add Python API for RFormula. Similar to other feature transformers in Python. This is just a thin wrapper over the Scala implementation. ericl MechCoder Author: Xiangrui Meng <meng@databricks.com> Closes #7879 from mengxr/SPARK-9544 and squashes the following commits: 3d5ff03 [Xiangrui Meng] add an doctest for . and - 5e969a5 [Xiangrui Meng] fix pydoc 1cd41f8 [Xiangrui Meng] organize imports 3c18b10 [Xiangrui Meng] add Python API for RFormula
* [SPARK-9536] [SPARK-9537] [SPARK-9538] [ML] [PYSPARK] ml.classification ↵Yanbo Liang2015-08-021-18/+43
| | | | | | | | | | | | | | | | | support raw and probability prediction for PySpark Make the following ml.classification class support raw and probability prediction for PySpark: ```scala NaiveBayesModel DecisionTreeClassifierModel LogisticRegressionModel ``` Author: Yanbo Liang <ybliang8@gmail.com> Closes #7866 from yanboliang/spark-9536-9537 and squashes the following commits: 2934dab [Yanbo Liang] ml.NaiveBayes, ml.DecisionTreeClassifier and ml.LogisticRegression support probability prediction
* [SPARK-8269] [SQL] string function: initcapHuJiayin2015-08-011-0/+12
| | | | | | | | | | | | | | | | | | | | | | | | This PR is based on #7208 , thanks to HuJiayin Closes #7208 Author: HuJiayin <jiayin.hu@intel.com> Author: Davies Liu <davies@databricks.com> Closes #7850 from davies/initcap and squashes the following commits: 54472e9 [Davies Liu] fix python test 17ffe51 [Davies Liu] Merge branch 'master' of github.com:apache/spark into initcap ca46390 [Davies Liu] Merge branch 'master' of github.com:apache/spark into initcap 3a906e4 [Davies Liu] implement title case in UTF8String 8b2506a [HuJiayin] Update functions.py 2cd43e5 [HuJiayin] fix python style check b616c0e [HuJiayin] add python api 1f5a0ef [HuJiayin] add codegen 7e0c604 [HuJiayin] Merge branch 'master' of https://github.com/apache/spark into initcap 6a0b958 [HuJiayin] add column c79482d [HuJiayin] support soundex 7ce416b [HuJiayin] support initcap rebase code
* [SPARK-8263] [SQL] substr/substring should also support binary typezhichao.li2015-08-011-1/+17
| | | | | | | | | | | | | | | | | This is based on #7641, thanks to zhichao-li Closes #7641 Author: zhichao.li <zhichao.li@intel.com> Author: Davies Liu <davies@databricks.com> Closes #7848 from davies/substr and squashes the following commits: 461b709 [Davies Liu] remove bytearry from tests b45377a [Davies Liu] Merge branch 'master' of github.com:apache/spark into substr 01d795e [zhichao.li] scala style 99aa130 [zhichao.li] add substring to dataframe 4f68bfe [zhichao.li] add binary type support for substring
* [SPARK-8232] [SQL] Add sort_array supportCheng Hao2015-08-011-0/+20
| | | | | | | | | | | | | | | | | This PR is based on #7581 , just fix the conflict. Author: Cheng Hao <hao.cheng@intel.com> Author: Davies Liu <davies@databricks.com> Closes #7851 from davies/sort_array and squashes the following commits: a80ef66 [Davies Liu] fix conflict 7cfda65 [Davies Liu] Merge branch 'master' of github.com:apache/spark into sort_array 664c960 [Cheng Hao] update the sort_array by using the ArrayData 276d2d5 [Cheng Hao] add empty line 0edab9c [Cheng Hao] Add asending/descending support for sort_array 80fc0f8 [Cheng Hao] Add type checking a42b678 [Cheng Hao] Add sort_array support
* Revert "[SPARK-8232] [SQL] Add sort_array support"Davies Liu2015-08-011-20/+0
| | | | This reverts commit 67ad4e21fc68336b0ad6f9a363fb5ebb51f592bf.
* [SPARK-8232] [SQL] Add sort_array supportCheng Hao2015-07-311-0/+20
| | | | | | | | | | | | | | | | | Add expression `sort_array` support. Author: Cheng Hao <hao.cheng@intel.com> This patch had conflicts when merged, resolved by Committer: Davies Liu <davies.liu@gmail.com> Closes #7581 from chenghao-intel/sort_array and squashes the following commits: 664c960 [Cheng Hao] update the sort_array by using the ArrayData 276d2d5 [Cheng Hao] add empty line 0edab9c [Cheng Hao] Add asending/descending support for sort_array 80fc0f8 [Cheng Hao] Add type checking a42b678 [Cheng Hao] Add sort_array support
* [SPARK-8264][SQL]add substring_index functionzhichao.li2015-07-311-0/+19
| | | | | | | | | | | | | | | | | | | | | | | This PR is based on #7533 , thanks to zhichao-li Closes #7533 Author: zhichao.li <zhichao.li@intel.com> Author: Davies Liu <davies@databricks.com> Closes #7843 from davies/str_index and squashes the following commits: 391347b [Davies Liu] add python api 3ce7802 [Davies Liu] fix substringIndex f2d29a1 [Davies Liu] Merge branch 'master' of github.com:apache/spark into str_index 515519b [zhichao.li] add foldable and remove null checking 9546991 [zhichao.li] scala style 67c253a [zhichao.li] hide some apis and clean code b19b013 [zhichao.li] add codegen and clean code ac863e9 [zhichao.li] reduce the calling of numChars 12e108f [zhichao.li] refine unittest d92951b [zhichao.li] add lastIndexOf 52d7b03 [zhichao.li] add substring_index function
* [SPARK-8271][SQL]string function: soundexHuJiayin2015-07-311-0/+17
| | | | | | | | | | | | | | | | | | This PR brings SQL function soundex(), see https://issues.apache.org/jira/browse/HIVE-9738 It's based on #7115 , thanks to HuJiayin Author: HuJiayin <jiayin.hu@intel.com> Author: Davies Liu <davies@databricks.com> Closes #7812 from davies/soundex and squashes the following commits: fa75941 [Davies Liu] Merge branch 'master' of github.com:apache/spark into soundex a4bd6d8 [Davies Liu] fix soundex 2538908 [HuJiayin] add codegen soundex d15d329 [HuJiayin] add back ut ded1a14 [HuJiayin] Merge branch 'master' of https://github.com/apache/spark e2dec2c [HuJiayin] support soundex rebase code
* [SPARK-8564] [STREAMING] Add the Python API for Kinesiszsxwing2015-07-312-1/+197
| | | | | | | | | | | | | | | | | | | | | | | | | This PR adds the Python API for Kinesis, including a Python example and a simple unit test. Author: zsxwing <zsxwing@gmail.com> Closes #6955 from zsxwing/kinesis-python and squashes the following commits: e42e471 [zsxwing] Merge branch 'master' into kinesis-python 455f7ea [zsxwing] Remove streaming_kinesis_asl_assembly module and simply add the source folder to streaming_kinesis_asl module 32e6451 [zsxwing] Merge remote-tracking branch 'origin/master' into kinesis-python 5082d28 [zsxwing] Fix the syntax error for Python 2.6 fca416b [zsxwing] Fix wrong comparison 96670ff [zsxwing] Fix the compilation error after merging master 756a128 [zsxwing] Merge branch 'master' into kinesis-python 6c37395 [zsxwing] Print stack trace for debug 7c5cfb0 [zsxwing] RUN_KINESIS_TESTS -> ENABLE_KINESIS_TESTS cc9d071 [zsxwing] Fix the python test errors 466b425 [zsxwing] Add python tests for Kinesis e33d505 [zsxwing] Merge remote-tracking branch 'origin/master' into kinesis-python 3da2601 [zsxwing] Fix the kinesis folder 687446b [zsxwing] Fix the error message and the maven output path add2beb [zsxwing] Merge branch 'master' into kinesis-python 4957c0b [zsxwing] Add the Python API for Kinesis
* [SPARK-9214] [ML] [PySpark] support ml.NaiveBayes for PythonYanbo Liang2015-07-301-1/+115
| | | | | | | | | | | | | | support ml.NaiveBayes for Python Author: Yanbo Liang <ybliang8@gmail.com> Closes #7568 from yanboliang/spark-9214 and squashes the following commits: 5ee3fd6 [Yanbo Liang] fix typos 3ecd046 [Yanbo Liang] fix typos f9c94d1 [Yanbo Liang] change lambda_ to smoothing and fix other issues 180452a [Yanbo Liang] fix typos 7dda1f4 [Yanbo Liang] support ml.NaiveBayes for Python
* [SPARK-7690] [ML] Multiclass classification EvaluatorRam Sriharsha2015-07-301-0/+66
| | | | | | | | | | | | | | | | | Multiclass Classification Evaluator for ML Pipelines. F1 score, precision, recall, weighted precision and weighted recall are supported as available metrics. Author: Ram Sriharsha <rsriharsha@hw11853.local> Closes #7475 from harsha2010/SPARK-7690 and squashes the following commits: 9bf4ec7 [Ram Sriharsha] fix indentation 3f09a85 [Ram Sriharsha] cleanup doc 16115ae [Ram Sriharsha] code review fixes 032d2a3 [Ram Sriharsha] fix test eec9865 [Ram Sriharsha] Fix Python Indentation 1dbeffd [Ram Sriharsha] Merge branch 'master' into SPARK-7690 68cea85 [Ram Sriharsha] Merge branch 'master' into SPARK-7690 54c03de [Ram Sriharsha] [SPARK-7690][ml][WIP] Multiclass Evaluator for ML Pipeline
* [SPARK-8176] [SPARK-8197] [SQL] function to_date/ truncDaoyuan Wang2015-07-301-0/+30
| | | | | | | | | | | | | | | | | | | This PR is based on #6988 , thanks to adrian-wang . This brings two SQL functions: to_date() and trunc(). Closes #6988 Author: Daoyuan Wang <daoyuan.wang@intel.com> Author: Davies Liu <davies@databricks.com> Closes #7805 from davies/to_date and squashes the following commits: 2c7beba [Davies Liu] Merge branch 'master' of github.com:apache/spark into to_date 310dd55 [Daoyuan Wang] remove dup test in rebase 980b092 [Daoyuan Wang] resolve rebase conflict a476c5a [Daoyuan Wang] address comments from davies d44ea5f [Daoyuan Wang] function to_date, trunc
* [SPARK-7157][SQL] add sampleBy to DataFrameXiangrui Meng2015-07-301-0/+41
| | | | | | | | | | | | | | | | | | | This was previously committed but then reverted due to test failures (see #6769). Author: Xiangrui Meng <meng@databricks.com> Closes #7755 from rxin/SPARK-7157 and squashes the following commits: fbf9044 [Xiangrui Meng] fix python test 542bd37 [Xiangrui Meng] update test 604fe6d [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-7157 f051afd [Xiangrui Meng] use udf instead of building expression f4e9425 [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-7157 8fb990b [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-7157 103beb3 [Xiangrui Meng] add Java-friendly sampleBy 991f26f [Xiangrui Meng] fix seed 4a14834 [Xiangrui Meng] move sampleBy to stat 832f7cc [Xiangrui Meng] add sampleBy to DataFrame
* [SPARK-9408] [PYSPARK] [MLLIB] Refactor linalg.py to /linalgXiangrui Meng2015-07-302-1/+1
| | | | | | | | | | | | | | | This is based on MechCoder 's PR https://github.com/apache/spark/pull/7731. Hopefully it could pass tests. MechCoder I tried to make minimal changes. If this passes Jenkins, we can merge this one first and then try to move `__init__.py` to `local.py` in a separate PR. Closes #7731 Author: Xiangrui Meng <meng@databricks.com> Closes #7746 from mengxr/SPARK-9408 and squashes the following commits: 0e05a3b [Xiangrui Meng] merge master 1135551 [Xiangrui Meng] add a comment for str(...) c48cae0 [Xiangrui Meng] update tests 173a805 [Xiangrui Meng] move linalg.py to linalg/__init__.py
* [SPARK-8186] [SPARK-8187] [SPARK-8194] [SPARK-8198] [SPARK-9133] ↵Daoyuan Wang2015-07-301-12/+64
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | [SPARK-9290] [SQL] functions: date_add, date_sub, add_months, months_between, time-interval calculation This PR is based on #7589 , thanks to adrian-wang Added SQL function date_add, date_sub, add_months, month_between, also add a rule for add/subtract of date/timestamp and interval. Closes #7589 cc rxin Author: Daoyuan Wang <daoyuan.wang@intel.com> Author: Davies Liu <davies@databricks.com> Closes #7754 from davies/date_add and squashes the following commits: e8c633a [Davies Liu] Merge branch 'master' of github.com:apache/spark into date_add 9e8e085 [Davies Liu] Merge branch 'master' of github.com:apache/spark into date_add 6224ce4 [Davies Liu] fix conclict bd18cd4 [Davies Liu] Merge branch 'master' of github.com:apache/spark into date_add e47ff2c [Davies Liu] add python api, fix date functions 01943d0 [Davies Liu] Merge branch 'master' into date_add 522e91a [Daoyuan Wang] fix e8a639a [Daoyuan Wang] fix 42df486 [Daoyuan Wang] fix style 87c4b77 [Daoyuan Wang] function add_months, months_between and some fixes 1a68e03 [Daoyuan Wang] poc of time interval calculation c506661 [Daoyuan Wang] function date_add , date_sub
* [SPARK-8850] [SQL] Enable Unsafe mode by defaultJosh Rosen2015-07-301-1/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This pull request enables Unsafe mode by default in Spark SQL. In order to do this, we had to fix a number of small issues: **List of fixed blockers**: - [x] Make some default buffer sizes configurable so that HiveCompatibilitySuite can run properly (#7741). - [x] Memory leak on grouped aggregation of empty input (fixed by #7560 to fix this) - [x] Update planner to also check whether codegen is enabled before planning unsafe operators. - [x] Investigate failing HiveThriftBinaryServerSuite test. This turns out to be caused by a ClassCastException that occurs when Exchange tries to apply an interpreted RowOrdering to an UnsafeRow when range partitioning an RDD. This could be fixed by #7408, but a shorter-term fix is to just skip the Unsafe exchange path when RangePartitioner is used. - [x] Memory leak exceptions masking exceptions that actually caused tasks to fail (will be fixed by #7603). - [x] ~~https://issues.apache.org/jira/browse/SPARK-9162, to implement code generation for ScalaUDF. This is necessary for `UDFSuite` to pass. For now, I've just ignored this test in order to try to find other problems while we wait for a fix.~~ This is no longer necessary as of #7682. - [x] Memory leaks from Limit after UnsafeExternalSort cause the memory leak detector to fail tests. This is a huge problem in the HiveCompatibilitySuite (fixed by f4ac642a4e5b2a7931c5e04e086bb10e263b1db6). - [x] Tests in `AggregationQuerySuite` are failing due to NaN-handling issues in UnsafeRow, which were fixed in #7736. - [x] `org.apache.spark.sql.ColumnExpressionSuite.rand` needs to be updated so that the planner check also matches `TungstenProject`. - [x] After having lowered the buffer sizes to 4MB so that most of HiveCompatibilitySuite runs: - [x] Wrong answer in `join_1to1` (fixed by #7680) - [x] Wrong answer in `join_nulls` (fixed by #7680) - [x] Managed memory OOM / leak in `lateral_view` - [x] Seems to hang indefinitely in `partcols1`. This might be a deadlock in script transformation or a bug in error-handling code? The hang was fixed by #7710. - [x] Error while freeing memory in `partcols1`: will be fixed by #7734. - [x] After fixing the `partcols1` hang, it appears that a number of later tests have issues as well. - [x] Fix thread-safety bug in codegen fallback expression evaluation (#7759). Author: Josh Rosen <joshrosen@databricks.com> Closes #7564 from JoshRosen/unsafe-by-default and squashes the following commits: 83c0c56 [Josh Rosen] Merge remote-tracking branch 'origin/master' into unsafe-by-default f4cc859 [Josh Rosen] Merge remote-tracking branch 'origin/master' into unsafe-by-default 963f567 [Josh Rosen] Reduce buffer size for R tests d6986de [Josh Rosen] Lower page size in PySpark tests 013b9da [Josh Rosen] Also match TungstenProject in checkNumProjects 5d0b2d3 [Josh Rosen] Add task completion callback to avoid leak in limit after sort ea250da [Josh Rosen] Disable unsafe Exchange path when RangePartitioning is used 715517b [Josh Rosen] Enable Unsafe by default
* [MINOR] [MLLIB] fix doc for RegexTokenizerXiangrui Meng2015-07-301-1/+1
| | | | | | | | | | This is #7791 for Python. hhbyyh Author: Xiangrui Meng <meng@databricks.com> Closes #7798 from mengxr/regex-tok-py and squashes the following commits: baa2dcd [Xiangrui Meng] fix doc for RegexTokenizer
* [SPARK-9116] [SQL] [PYSPARK] support Python only UDT in __main__Davies Liu2015-07-295-91/+247
| | | | | | | | | | | | | | | | | | | | | | | | Also we could create a Python UDT without having a Scala one, it's important for Python users. cc mengxr JoshRosen Author: Davies Liu <davies@databricks.com> Closes #7453 from davies/class_in_main and squashes the following commits: 4dfd5e1 [Davies Liu] add tests for Python and Scala UDT 793d9b2 [Davies Liu] Merge branch 'master' of github.com:apache/spark into class_in_main dc65f19 [Davies Liu] address comment a9a3c40 [Davies Liu] Merge branch 'master' of github.com:apache/spark into class_in_main a86e1fc [Davies Liu] fix serialization ad528ba [Davies Liu] Merge branch 'master' of github.com:apache/spark into class_in_main 63f52ef [Davies Liu] fix pylint check 655b8a9 [Davies Liu] Merge branch 'master' of github.com:apache/spark into class_in_main 316a394 [Davies Liu] support Python UDT with UTF 0bcb3ef [Davies Liu] fix bug in mllib de986d6 [Davies Liu] fix test 83d65ac [Davies Liu] fix bug in StructType 55bb86e [Davies Liu] support Python UDT in __main__ (without Scala one)
* Fix reference to self.names in StructTypeAlex Angelini2015-07-291-1/+1
| | | | | | | | | | | | `names` is not defined in this context, I think you meant `self.names`. davies Author: Alex Angelini <alex.louis.angelini@gmail.com> Closes #7766 from angelini/fix_struct_type_names and squashes the following commits: 01543a1 [Alex Angelini] Fix reference to self.names in StructType
* [SPARK-9016] [ML] make random forest classifiers implement classification traitHolden Karau2015-07-291-2/+2
| | | | | | | | | | | | | | | | | | | | | | | Implement the classification trait for RandomForestClassifiers. The plan is to use this in the future to providing thresholding for RandomForestClassifiers (as well as other classifiers that implement that trait). Author: Holden Karau <holden@pigscanfly.ca> Closes #7432 from holdenk/SPARK-9016-make-random-forest-classifiers-implement-classification-trait and squashes the following commits: bf22fa6 [Holden Karau] Add missing imports for testing suite e948f0d [Holden Karau] Check the prediction generation from rawprediciton 25320c3 [Holden Karau] Don't supply numClasses when not needed, assert model classes are as expected 1a67e04 [Holden Karau] Use old decission tree stuff instead 673e0c3 [Holden Karau] Merge branch 'master' into SPARK-9016-make-random-forest-classifiers-implement-classification-trait 0d15b96 [Holden Karau] FIx typo 5eafad4 [Holden Karau] add a constructor for rootnode + num classes fc6156f [Holden Karau] scala style fix 2597915 [Holden Karau] take num classes in constructor 3ccfe4a [Holden Karau] Merge in master, make pass numClasses through randomforest for training 222a10b [Holden Karau] Increase numtrees to 3 in the python test since before the two were equal and the argmax was selecting the last one 16aea1c [Holden Karau] Make tests match the new models b454a02 [Holden Karau] Make the Tree classifiers extends the Classifier base class 77b4114 [Holden Karau] Import vectors lib
* [SPARK-7105] [PYSPARK] [MLLIB] Support model save/load in GMMMechCoder2015-07-282-22/+59
| | | | | | | | | | | | This PR introduces save / load for GMM's in python API. Also I refactored `GaussianMixtureModel` and inherited it from `JavaModelWrapper` with model being `GaussianMixtureModelWrapper`, a wrapper which provides convenience methods to `GaussianMixtureModel` (due to serialization and deserialization issues) and I moved the creation of gaussians to the scala backend. Author: MechCoder <manojkumarsivaraj334@gmail.com> Closes #7617 from MechCoder/python_gmm_save_load and squashes the following commits: 9c305aa [MechCoder] [SPARK-7105] [PySpark] [MLlib] Support model save/load in GMM
* [Spark-8668][SQL] Adding expr to functionsJD2015-07-252-0/+17
| | | | | | | | | | | | | | | | | | Author: JD <jd@csh.rit.edu> Author: Joseph Batchik <josephbatchik@gmail.com> Closes #7606 from JDrit/expr and squashes the following commits: ad7f607 [Joseph Batchik] fixing python linter error 9d6daea [Joseph Batchik] removed order by per @rxin's comment 707d5c6 [Joseph Batchik] Added expr to fuctions.py 79df83c [JD] added example to the docs b89eec8 [JD] moved function up as per @rxin's comment 4960909 [JD] updated per @JoshRosen's comment 2cb329c [JD] updated per @rxin's comment 9a9ad0c [JD] removing unused import 6dc26d0 [JD] removed split 7f2222c [JD] Adding expr function as per SPARK-8668
* [SPARK-9270] [PYSPARK] allow --name option in pysparkCheolsoo Park2015-07-241-1/+1
| | | | | | | | | | | | | This is continuation of #7512 which added `--name` option to spark-shell. This PR adds the same option to pyspark. Note that `--conf spark.app.name` in command-line has no effect in spark-shell and pyspark. Instead, `--name` must be used. This is in fact inconsistency with spark-sql which doesn't accept `--name` option while it accepts `--conf spark.app.name`. I am not fixing this inconsistency in this PR. IMO, one of `--name` and `--conf spark.app.name` is needed not both. But since I cannot decide which to choose, I am not making any change here. Author: Cheolsoo Park <cheolsoop@netflix.com> Closes #7610 from piaozhexiu/SPARK-9270 and squashes the following commits: 763e86d [Cheolsoo Park] Update windows script 400b7f9 [Cheolsoo Park] Allow --name option to pyspark
* [SPARK-9122] [MLLIB] [PySpark] spark.mllib regression support batch predictYanbo Liang2015-07-231-2/+10
| | | | | | | | | | spark.mllib support batch predict for LinearRegressionModel, RidgeRegressionModel and LassoModel. Author: Yanbo Liang <ybliang8@gmail.com> Closes #7614 from yanboliang/spark-9122 and squashes the following commits: 4e610c0 [Yanbo Liang] spark.mllib regression support batch predict
* [SPARK-9069] [SPARK-9264] [SQL] remove unlimited precision support for ↵Davies Liu2015-07-231-15/+21
| | | | | | | | | | | | | | | | | | | | | | | | | DecimalType Romove Decimal.Unlimited (change to support precision up to 38, to match with Hive and other databases). In order to keep backward source compatibility, Decimal.Unlimited is still there, but change to Decimal(38, 18). If no precision and scale is provide, it's Decimal(10, 0) as before. Author: Davies Liu <davies@databricks.com> Closes #7605 from davies/decimal_unlimited and squashes the following commits: aa3f115 [Davies Liu] fix tests and style fb0d20d [Davies Liu] address comments bfaae35 [Davies Liu] fix style df93657 [Davies Liu] address comments and clean up 06727fd [Davies Liu] Merge branch 'master' of github.com:apache/spark into decimal_unlimited 4c28969 [Davies Liu] fix tests 8d783cc [Davies Liu] fix tests 788631c [Davies Liu] fix double with decimal in Union/except 1779bde [Davies Liu] fix scala style c9c7c78 [Davies Liu] remove Decimal.Unlimited
* [SPARK-9243] [Documentation] null -> zero in crosstab docXiangrui Meng2015-07-231-1/+1
| | | | | | | | | | We forgot to update doc. brkyvz Author: Xiangrui Meng <meng@databricks.com> Closes #7608 from mengxr/SPARK-9243 and squashes the following commits: 0ea3236 [Xiangrui Meng] null -> zero in crosstab doc
* [SPARK-9144] Remove DAGScheduler.runLocallyWithinThread and ↵Josh Rosen2015-07-222-4/+3
| | | | | | | | | | | | | | | | | | | | | | | | spark.localExecution.enabled Spark has an option called spark.localExecution.enabled; according to the docs: > Enables Spark to run certain jobs, such as first() or take() on the driver, without sending tasks to the cluster. This can make certain jobs execute very quickly, but may require shipping a whole partition of data to the driver. This feature ends up adding quite a bit of complexity to DAGScheduler, especially in the runLocallyWithinThread method, but as far as I know nobody uses this feature (I searched the mailing list and haven't seen any recent mentions of the configuration nor stacktraces including the runLocally method). As a step towards scheduler complexity reduction, I propose that we remove this feature and all code related to it for Spark 1.5. This pull request simply brings #7484 up to date. Author: Josh Rosen <joshrosen@databricks.com> Author: Reynold Xin <rxin@databricks.com> Closes #7585 from rxin/remove-local-exec and squashes the following commits: 84bd10e [Reynold Xin] Python fix. 1d9739a [Reynold Xin] Merge pull request #7484 from JoshRosen/remove-localexecution eec39fa [Josh Rosen] Remove allowLocal(); deprecate user-facing uses of it. b0835dc [Josh Rosen] Remove local execution code in DAGScheduler 8975d96 [Josh Rosen] Remove local execution tests. ffa8c9b [Josh Rosen] Remove documentation for configuration
* [SPARK-9223] [PYSPARK] [MLLIB] Support model save/load in LDAMechCoder2015-07-221-1/+42
| | | | | | | | | | Since save / load has been merged in LDA, it takes no time to write the wrappers in Python as well. Author: MechCoder <manojkumarsivaraj334@gmail.com> Closes #7587 from MechCoder/python_lda_save_load and squashes the following commits: c8e4ea7 [MechCoder] [SPARK-9223] [PySpark] Support model save/load in LDA
* [SPARK-9244] Increase some memory defaultsMatei Zaharia2015-07-221-3/+3
| | | | | | | | | | | | | | | | | | | There are a few memory limits that people hit often and that we could make higher, especially now that memory sizes have grown. - spark.akka.frameSize: This defaults at 10 but is often hit for map output statuses in large shuffles. This memory is not fully allocated up-front, so we can just make this larger and still not affect jobs that never sent a status that large. We increase it to 128. - spark.executor.memory: Defaults at 512m, which is really small. We increase it to 1g. Author: Matei Zaharia <matei@databricks.com> Closes #7586 from mateiz/configs and squashes the following commits: ce0038a [Matei Zaharia] [SPARK-9244] Increase some memory defaults
* [SPARK-8230][SQL] Add array/map size methodPedro Rodriguez2015-07-211-0/+15
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Pull Request for: https://issues.apache.org/jira/browse/SPARK-8230 Primary issue resolved is to implement array/map size for Spark SQL. Code is ready for review by a committer. Chen Hao is on the JIRA ticket, but I don't know his username on github, rxin is also on JIRA ticket. Things to review: 1. Where to put added functions namespace wise, they seem to be part of a few operations on collections which includes `sort_array` and `array_contains`. Hence the name given `collectionOperations.scala` and `_collection_functions` in python. 2. In Python code, should it be in a `1.5.0` function array or in a collections array? 3. Are there any missing methods on the `Size` case class? Looks like many of these functions have generated Java code, is that also needed in this case? 4. Something else? Author: Pedro Rodriguez <ski.rodriguez@gmail.com> Author: Pedro Rodriguez <prodriguez@trulia.com> Closes #7462 from EntilZha/SPARK-8230 and squashes the following commits: 9a442ae [Pedro Rodriguez] fixed functions and sorted __all__ 9aea3bb [Pedro Rodriguez] removed imports from python docs 15d4bf1 [Pedro Rodriguez] Added null test case and changed to nullSafeCodeGen d88247c [Pedro Rodriguez] removed python code bd5f0e4 [Pedro Rodriguez] removed duplicate function from rebase/merge 59931b4 [Pedro Rodriguez] fixed compile bug instroduced when merging c187175 [Pedro Rodriguez] updated code to add size to __all__ directly and removed redundent pretty print 130839f [Pedro Rodriguez] fixed failing test aa9bade [Pedro Rodriguez] fix style e093473 [Pedro Rodriguez] updated python code with docs, switched classes/traits implemented, added (failing) expression tests 0449377 [Pedro Rodriguez] refactored code to use better abstract classes/traits and implementations 9a1a2ff [Pedro Rodriguez] added unit tests for map size 2bfbcb6 [Pedro Rodriguez] added unit test for size 20df2b4 [Pedro Rodriguez] Finished working version of size function and added it to python b503e75 [Pedro Rodriguez] First attempt at implementing size for maps and arrays 99a6a5c [Pedro Rodriguez] fixed failing test cac75ac [Pedro Rodriguez] fix style 933d843 [Pedro Rodriguez] updated python code with docs, switched classes/traits implemented, added (failing) expression tests 42bb7d4 [Pedro Rodriguez] refactored code to use better abstract classes/traits and implementations f9c3b8a [Pedro Rodriguez] added unit tests for map size 2515d9f [Pedro Rodriguez] added documentation 0e60541 [Pedro Rodriguez] added unit test for size acf9853 [Pedro Rodriguez] Finished working version of size function and added it to python 84a5d38 [Pedro Rodriguez] First attempt at implementing size for maps and arrays
* [SPARK-8255] [SPARK-8256] [SQL] Add regex_extract/regex_replaceCheng Hao2015-07-211-0/+30
| | | | | | | | | | | | | Add expressions `regex_extract` & `regex_replace` Author: Cheng Hao <hao.cheng@intel.com> Closes #7468 from chenghao-intel/regexp and squashes the following commits: e5ea476 [Cheng Hao] minor update for documentation ef96fd6 [Cheng Hao] update the code gen 72cf28f [Cheng Hao] Add more log for compilation error 4e11381 [Cheng Hao] Add regexp_replace / regexp_extract support
* [SPARK-9100] [SQL] Adds DataFrame reader/writer shortcut methods for ORCCheng Lian2015-07-217-3/+41
| | | | | | | | | | | This PR adds DataFrame reader/writer shortcut methods for ORC in both Scala and Python. Author: Cheng Lian <lian@databricks.com> Closes #7444 from liancheng/spark-9100 and squashes the following commits: 284d043 [Cheng Lian] Fixes PySpark test cases and addresses PR comments e0b09fb [Cheng Lian] Adds DataFrame reader/writer shortcut methods for ORC
* [SPARK-9198] [MLLIB] [PYTHON] Fixed typo in pyspark sparsevector doc testsJoseph K. Bradley2015-07-201-4/+4
| | | | | | | | | | | | | | | | | Several places in the PySpark SparseVector docs have one defined as: ``` SparseVector(4, [2, 4], [1.0, 2.0]) ``` The index 4 goes out of bounds (but this is not checked). CC: mengxr Author: Joseph K. Bradley <joseph@databricks.com> Closes #7541 from jkbradley/sparsevec-doc-typo-fix and squashes the following commits: c806a65 [Joseph K. Bradley] fixed doc test e2dcb23 [Joseph K. Bradley] Fixed typo in pyspark sparsevector doc tests
* [SPARK-9114] [SQL] [PySpark] convert returned object from UDF into internal typeDavies Liu2015-07-203-21/+14
| | | | | | | | | | | | | | This PR also remove the duplicated code between registerFunction and UserDefinedFunction. cc JoshRosen Author: Davies Liu <davies@databricks.com> Closes #7450 from davies/fix_return_type and squashes the following commits: e80bf9f [Davies Liu] remove debugging code f94b1f6 [Davies Liu] fix mima 8f9c58b [Davies Liu] convert returned object from UDF into internal type
* [SPARK-9101] [PySpark] Add missing NullTypeMateusz Buśkiewicz2015-07-202-1/+5
| | | | | | | | | | | JIRA: https://issues.apache.org/jira/browse/SPARK-9101 Author: Mateusz Buśkiewicz <mateusz.buskiewicz@getbase.com> Closes #7499 from sixers/spark-9101 and squashes the following commits: dd75aa6 [Mateusz Buśkiewicz] [SPARK-9101] [PySpark] Test for selecting null literal 97e3f2f [Mateusz Buśkiewicz] [SPARK-9101] [PySpark] Add missing NullType to _atomic_types in pyspark.sql.types
* [SPARK-8996] [MLLIB] [PYSPARK] Python API for Kolmogorov-Smirnov TestMechCoder2015-07-203-13/+110
| | | | | | | | | | | | | | | Python API for the KS-test Statistics.kolmogorovSmirnovTest(data, distName, *params) I'm not quite sure how to support the callable function since it is not serializable. Author: MechCoder <manojkumarsivaraj334@gmail.com> Closes #7430 from MechCoder/spark-8996 and squashes the following commits: 2dd009d [MechCoder] minor 021d233 [MechCoder] Remove one wrapper and other minor stuff 49d07ab [MechCoder] [SPARK-8996] [MLlib] Python API for Kolmogorov-Smirnov Test
* [SPARK-9021] [PYSPARK] Change RDD.aggregate() to do reduce(mapPartitions()) ↵Nicholas Hwang2015-07-192-14/+137
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | instead of mapPartitions.fold() I'm relatively new to Spark and functional programming, so forgive me if this pull request is just a result of my misunderstanding of how Spark should be used. Currently, if one happens to use a mutable object as `zeroValue` for `RDD.aggregate()`, possibly unexpected behavior can occur. This is because pyspark's current implementation of `RDD.aggregate()` does not serialize or make a copy of `zeroValue` before handing it off to `RDD.mapPartitions(...).fold(...)`. This results in a single reference to `zeroValue` being used for both `RDD.mapPartitions()` and `RDD.fold()` on each partition. This can result in strange accumulator values being fed into each partition's call to `RDD.fold()`, as the `zeroValue` may have been changed in-place during the `RDD.mapPartitions()` call. As an illustrative example, submit the following to `spark-submit`: ``` from pyspark import SparkConf, SparkContext import collections def updateCounter(acc, val): print 'update acc:', acc print 'update val:', val acc[val] += 1 return acc def comboCounter(acc1, acc2): print 'combo acc1:', acc1 print 'combo acc2:', acc2 acc1.update(acc2) return acc1 def main(): conf = SparkConf().setMaster("local").setAppName("Aggregate with Counter") sc = SparkContext(conf = conf) print '======= AGGREGATING with ONE PARTITION =======' print sc.parallelize(range(1,10), 1).aggregate(collections.Counter(), updateCounter, comboCounter) print '======= AGGREGATING with TWO PARTITIONS =======' print sc.parallelize(range(1,10), 2).aggregate(collections.Counter(), updateCounter, comboCounter) if __name__ == "__main__": main() ``` One probably expects this to output the following: ``` Counter({1: 1, 2: 1, 3: 1, 4: 1, 5: 1, 6: 1, 7: 1, 8: 1, 9: 1}) ``` But it instead outputs this (regardless of the number of partitions): ``` Counter({1: 2, 2: 2, 3: 2, 4: 2, 5: 2, 6: 2, 7: 2, 8: 2, 9: 2}) ``` This is because (I believe) `zeroValue` gets passed correctly to each partition, but after `RDD.mapPartitions()` completes, the `zeroValue` object has been updated and is then passed to `RDD.fold()`, which results in all items being double-counted within each partition before being finally reduced at the calling node. I realize that this type of calculation is typically done by `RDD.mapPartitions(...).reduceByKey(...)`, but hopefully this illustrates some potentially confusing behavior. I also noticed that other `RDD` methods use this `deepcopy` approach to creating unique copies of `zeroValue` (i.e., `RDD.aggregateByKey()` and `RDD.foldByKey()`), and that the Scala implementations do seem to serialize the `zeroValue` object appropriately to prevent this type of behavior. Author: Nicholas Hwang <moogling@gmail.com> Closes #7378 from njhwang/master and squashes the following commits: 659bb27 [Nicholas Hwang] Fixed RDD.aggregate() to perform a reduce operation on collected mapPartitions results, similar to how fold currently is implemented. This prevents an initial combOp being performed on each partition with zeroValue (which leads to unexpected behavior if zeroValue is a mutable object) before being combOp'ed with other partition results. 8d8d694 [Nicholas Hwang] Changed dict construction to be compatible with Python 2.6 (cannot use list comprehensions to make dicts) 56eb2ab [Nicholas Hwang] Fixed whitespace after colon to conform with PEP8 391de4a [Nicholas Hwang] Removed used of collections.Counter from RDD tests for Python 2.6 compatibility; used defaultdict(int) instead. Merged treeAggregate test with mutable zero value into aggregate test to reduce code duplication. 2fa4e4b [Nicholas Hwang] Merge branch 'master' of https://github.com/njhwang/spark ba528bd [Nicholas Hwang] Updated comments regarding protection of zeroValue from mutation in RDD.aggregate(). Added regression tests for aggregate(), fold(), aggregateByKey(), foldByKey(), and treeAggregate(), all with both 1 and 2 partition RDDs. Confirmed that aggregate() is the only problematic implementation as of commit 257236c3e17906098f801cbc2059e7a9054e8cab. Also replaced some parallelizations of ranges with xranges, per the documentation's recommendations of preferring xrange over range. 7820391 [Nicholas Hwang] Updated comments regarding protection of zeroValue from mutation in RDD.aggregate(). Added regression tests for aggregate(), fold(), aggregateByKey(), foldByKey(), and treeAggregate(), all with both 1 and 2 partition RDDs. Confirmed that aggregate() is the only problematic implementation as of commit 257236c3e17906098f801cbc2059e7a9054e8cab. 90d1544 [Nicholas Hwang] Made sure RDD.aggregate() makes a deepcopy of zeroValue for all partitions; this ensures that the mapPartitions call works with unique copies of zeroValue in each partition, and prevents a single reference to zeroValue being used for both map and fold calls on each partition (resulting in possibly unexpected behavior).
* [SQL] Make date/time functions more consistent with other database systems.Reynold Xin2015-07-191-21/+14
| | | | | | | | | | | | | | | | | | | | | This pull request fixes some of the problems in #6981. - Added date functions to `__all__` so they get exposed - Rename day_of_month -> dayofmonth - Rename day_in_year -> dayofyear - Rename week_of_year -> weekofyear - Removed "day" from Scala/Python API since it is ambiguous. Only leaving the alias in SQL. Author: Reynold Xin <rxin@databricks.com> This patch had conflicts when merged, resolved by Committer: Reynold Xin <rxin@databricks.com> Closes #7506 from rxin/datetime and squashes the following commits: 0cb24d9 [Reynold Xin] Export all functions in Python. e44a4a0 [Reynold Xin] Removed day function from Scala and Python. 9c08fdc [Reynold Xin] [SQL] Make date/time functions more consistent with other database systems.
* [SPARK-9166][SQL][PYSPARK] Capture and hide IllegalArgumentException in ↵Liang-Chi Hsieh2015-07-192-2/+17
| | | | | | | | | | | | | | | | | Python API JIRA: https://issues.apache.org/jira/browse/SPARK-9166 Simply capture and hide `IllegalArgumentException` in Python API. Author: Liang-Chi Hsieh <viirya@appier.com> Closes #7497 from viirya/hide_illegalargument and squashes the following commits: 8324dce [Liang-Chi Hsieh] Fix python style. 9ace67d [Liang-Chi Hsieh] Also check exception message. 8b2ce5c [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into hide_illegalargument 7be016a [Liang-Chi Hsieh] Capture and hide IllegalArgumentException in Python.
* [SPARK-8199][SPARK-8184][SPARK-8183][SPARK-8182][SPARK-8181][SPARK-8180][SPA ↵Tarek Auel2015-07-181-0/+150
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | RK-8179][SPARK-8177][SPARK-8178][SPARK-9115][SQL] date functions Jira: https://issues.apache.org/jira/browse/SPARK-8199 https://issues.apache.org/jira/browse/SPARK-8184 https://issues.apache.org/jira/browse/SPARK-8183 https://issues.apache.org/jira/browse/SPARK-8182 https://issues.apache.org/jira/browse/SPARK-8181 https://issues.apache.org/jira/browse/SPARK-8180 https://issues.apache.org/jira/browse/SPARK-8179 https://issues.apache.org/jira/browse/SPARK-8177 https://issues.apache.org/jira/browse/SPARK-8179 https://issues.apache.org/jira/browse/SPARK-9115 Regarding `day`and `dayofmonth` are both necessary? ~~I am going to add `Quarter` to this PR as well.~~ Done. ~~As soon as the Scala coding is reviewed and discussed, I'll add the python api.~~ Done Author: Tarek Auel <tarek.auel@googlemail.com> Author: Tarek Auel <tarek.auel@gmail.com> Closes #6981 from tarekauel/SPARK-8199 and squashes the following commits: f7b4c8c [Tarek Auel] [SPARK-8199] fixed bug in tests bb567b6 [Tarek Auel] [SPARK-8199] fixed test 3e095ba [Tarek Auel] [SPARK-8199] style and timezone fix 256c357 [Tarek Auel] [SPARK-8199] code cleanup 5983dcc [Tarek Auel] [SPARK-8199] whitespace fix 6e0c78f [Tarek Auel] [SPARK-8199] removed setTimeZone in tests, according to cloud-fans comment in #7488 4afc09c [Tarek Auel] [SPARK-8199] concise leap year handling ea6c110 [Tarek Auel] [SPARK-8199] fix after merging master 70238e0 [Tarek Auel] Merge branch 'master' into SPARK-8199 3c6ae2e [Tarek Auel] [SPARK-8199] removed binary search fb98ba0 [Tarek Auel] [SPARK-8199] python docstring fix cdfae27 [Tarek Auel] [SPARK-8199] cleanup & python docstring fix 746b80a [Tarek Auel] [SPARK-8199] build fix 0ad6db8 [Tarek Auel] [SPARK-8199] minor fix 523542d [Tarek Auel] [SPARK-8199] address comments 2259299 [Tarek Auel] [SPARK-8199] day_of_month alias d01b977 [Tarek Auel] [SPARK-8199] python underscore 56c4a92 [Tarek Auel] [SPARK-8199] update python docu e223bc0 [Tarek Auel] [SPARK-8199] refactoring d6aa14e [Tarek Auel] [SPARK-8199] fixed Hive compatibility b382267 [Tarek Auel] [SPARK-8199] fixed bug in day calculation; removed set TimeZone in HiveCompatibilitySuite for test purposes; removed Hive tests for second and minute, because we can cast '2015-03-18' to a timestamp and extract a minute/second from it 1b2e540 [Tarek Auel] [SPARK-8119] style fix 0852655 [Tarek Auel] [SPARK-8119] changed from ExpectsInputTypes to implicit casts ec87c69 [Tarek Auel] [SPARK-8119] bug fixing and refactoring 1358cdc [Tarek Auel] Merge remote-tracking branch 'origin/master' into SPARK-8199 740af0e [Tarek Auel] implement date function using a calculation based on days 4fb66da [Tarek Auel] WIP: date functions on calculation only 1a436c9 [Tarek Auel] wip f775f39 [Tarek Auel] fixed return type ad17e96 [Tarek Auel] improved implementation c42b444 [Tarek Auel] Removed merge conflict file ccb723c [Tarek Auel] [SPARK-8199] style and fixed merge issues 10e4ad1 [Tarek Auel] Merge branch 'master' into date-functions-fast 7d9f0eb [Tarek Auel] [SPARK-8199] git renaming issue f3e7a9f [Tarek Auel] [SPARK-8199] revert change in DataFrameFunctionsSuite 6f5d95c [Tarek Auel] [SPARK-8199] fixed year interval d9f8ac3 [Tarek Auel] [SPARK-8199] implement fast track 7bc9d93 [Tarek Auel] Merge branch 'master' into SPARK-8199 5a105d9 [Tarek Auel] [SPARK-8199] rebase after #6985 got merged eb6760d [Tarek Auel] Merge branch 'master' into SPARK-8199 f120415 [Tarek Auel] improved runtime a8edebd [Tarek Auel] use Calendar instead of SimpleDateFormat 5fe74e1 [Tarek Auel] fixed python style 3bfac90 [Tarek Auel] fixed style 356df78 [Tarek Auel] rely on cast mechanism of Spark. Simplified implementation 02efc5d [Tarek Auel] removed doubled code a5ea120 [Tarek Auel] added python api; changed test to be more meaningful b680db6 [Tarek Auel] added codegeneration to all functions c739788 [Tarek Auel] added support for quarter SPARK-8178 849fb41 [Tarek Auel] fixed stupid test 638596f [Tarek Auel] improved codegen 4d8049b [Tarek Auel] fixed tests and added type check 5ebb235 [Tarek Auel] resolved naming conflict d0e2f99 [Tarek Auel] date functions
* [SPARK-7879] [MLLIB] KMeans API for spark.ml PipelinesYu ISHIKAWA2015-07-172-0/+214
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | I Implemented the KMeans API for spark.ml Pipelines. But it doesn't include clustering abstractions for spark.ml (SPARK-7610). It would fit for another issues. And I'll try it later, since we are trying to add the hierarchical clustering algorithms in another issue. Thanks. [SPARK-7879] KMeans API for spark.ml Pipelines - ASF JIRA https://issues.apache.org/jira/browse/SPARK-7879 Author: Yu ISHIKAWA <yuu.ishikawa@gmail.com> Closes #6756 from yu-iskw/SPARK-7879 and squashes the following commits: be752de [Yu ISHIKAWA] Add assertions a14939b [Yu ISHIKAWA] Fix the dashed line's length in pyspark.ml.rst 4c61693 [Yu ISHIKAWA] Remove the test about whether "features" and "prediction" columns exist or not in Python fb2417c [Yu ISHIKAWA] Use getInt, instead of get f397be4 [Yu ISHIKAWA] Switch the comparisons. ca78b7d [Yu ISHIKAWA] Add the Scala docs about the constraints of each parameter. effc650 [Yu ISHIKAWA] Using expertSetParam and expertGetParam c8dc6e6 [Yu ISHIKAWA] Remove an unnecessary test 19a9d63 [Yu ISHIKAWA] Include spark.ml.clustering to python tests 1abb19c [Yu ISHIKAWA] Add the statements about spark.ml.clustering into pyspark.ml.rst f8338bc [Yu ISHIKAWA] Add the placeholders in Python 4a03003 [Yu ISHIKAWA] Test for contains in Python 6566c8b [Yu ISHIKAWA] Use `get`, instead of `apply` 288e8d5 [Yu ISHIKAWA] Using `contains` to check the column names 5a7d574 [Yu ISHIKAWA] Renamce `validateInitializationMode` to `validateInitMode` and remove throwing exception 97cfae3 [Yu ISHIKAWA] Fix the type of return value of `KMeans.copy` e933723 [Yu ISHIKAWA] Remove the default value of seed from the Model class 978ee2c [Yu ISHIKAWA] Modify the docs of KMeans, according to mllib's KMeans 2ec80bc [Yu ISHIKAWA] Fit on 1 line e186be1 [Yu ISHIKAWA] Make a few variables, setters and getters be expert ones b2c205c [Yu ISHIKAWA] Rename the method `getInitializationSteps` to `getInitSteps` and `setInitializationSteps` to `setInitSteps` in Scala and Python f43f5b4 [Yu ISHIKAWA] Rename the method `getInitializationMode` to `getInitMode` and `setInitializationMode` to `setInitMode` in Scala and Python 3cb5ba4 [Yu ISHIKAWA] Modify the description about epsilon and the validation 4fa409b [Yu ISHIKAWA] Add a comment about the default value of epsilon 2f392e1 [Yu ISHIKAWA] Make some variables `final` and Use `IntParam` and `DoubleParam` 19326f8 [Yu ISHIKAWA] Use `udf`, instead of callUDF 4d2ad1e [Yu ISHIKAWA] Modify the indentations 0ae422f [Yu ISHIKAWA] Add a test for `setParams` 4ff7913 [Yu ISHIKAWA] Add "ml.clustering" to `javacOptions` in SparkBuild.scala 11ffdf1 [Yu ISHIKAWA] Use `===` and the variable 220a176 [Yu ISHIKAWA] Set a random seed in the unit testing 92c3efc [Yu ISHIKAWA] Make the points for a test be fewer c758692 [Yu ISHIKAWA] Modify the parameters of KMeans in Python 6aca147 [Yu ISHIKAWA] Add some unit testings to validate the setter methods 687cacc [Yu ISHIKAWA] Alias mllib.KMeans as MLlibKMeans in KMeansSuite.scala a4dfbef [Yu ISHIKAWA] Modify the last brace and indentations 5bedc51 [Yu ISHIKAWA] Remve an extra new line 444c289 [Yu ISHIKAWA] Add the validation for `runs` e41989c [Yu ISHIKAWA] Modify how to validate `initStep` 7ea133a [Yu ISHIKAWA] Change how to validate `initMode` 7991e15 [Yu ISHIKAWA] Add a validation for `k` c2df35d [Yu ISHIKAWA] Make `predict` private 93aa2ff [Yu ISHIKAWA] Use `withColumn` in `transform` d3a79f7 [Yu ISHIKAWA] Remove the inhefited docs e9532e1 [Yu ISHIKAWA] make `parentModel` of KMeansModel private 8559772 [Yu ISHIKAWA] Remove the `paramMap` parameter of KMeans 6684850 [Yu ISHIKAWA] Rename `initializationSteps` to `initSteps` 99b1b96 [Yu ISHIKAWA] Rename `initializationMode` to `initMode` 79ea82b [Yu ISHIKAWA] Modify the parameters of KMeans docs 6569bcd [Yu ISHIKAWA] Change how to set the default values with `setDefault` 20a795a [Yu ISHIKAWA] Change how to set the default values with `setDefault` 11c2a12 [Yu ISHIKAWA] Limit the imports badb481 [Yu ISHIKAWA] Alias spark.mllib.{KMeans, KMeansModel} f80319a [Yu ISHIKAWA] Rebase mater branch and add copy methods 85d92b1 [Yu ISHIKAWA] Add `KMeans.setPredictionCol` aa9469d [Yu ISHIKAWA] Fix a python test suite error caused by python 3.x c2d6bcb [Yu ISHIKAWA] ADD Java test suites of the KMeans API for spark.ml Pipeline 598ed2e [Yu ISHIKAWA] Implement the KMeans API for spark.ml Pipelines in Python 63ad785 [Yu ISHIKAWA] Implement the KMeans API for spark.ml Pipelines in Scala
* [SPARK-8792] [ML] Add Python API for PCA transformerYanbo Liang2015-07-171-1/+63
| | | | | | | | | | | Add Python API for PCA transformer Author: Yanbo Liang <ybliang8@gmail.com> Closes #7190 from yanboliang/spark-8792 and squashes the following commits: 8f4ac31 [Yanbo Liang] address comments 8a79cc0 [Yanbo Liang] Add Python API for PCA transformer
* [SPARK-9138] [MLLIB] fix Vectors.denseDavies Liu2015-07-171-3/+8
| | | | | | | | | | | | Vectors.dense() should accept numbers directly, like the one in Scala. We already use it in doctests, it worked by luck. cc mengxr jkbradley Author: Davies Liu <davies@databricks.com> Closes #7476 from davies/fix_vectors_dense and squashes the following commits: e0fd292 [Davies Liu] fix Vectors.dense
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