| Commit message (Collapse) | Author | Age | Files | Lines |
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Author: Reynold Xin <rxin@databricks.com>
Closes #6534 from rxin/whitespace-mllib and squashes the following commits:
38926e3 [Reynold Xin] [SPARK-3850] Trim trailing spaces for MLlib.
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Author: Reynold Xin <rxin@databricks.com>
Closes #6536 from rxin/structural-type-checker and squashes the following commits:
f833151 [Reynold Xin] Fixed compilation.
633f9a1 [Reynold Xin] Fixed typo.
d1fa804 [Reynold Xin] [SPARK-7979] Enforce structural type checker.
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Documentation Example).
The MLlib ChiSqSelector class is not serializable, and so the example in the ChiSqSelector documentation fails. Also, that example is missing the import of ChiSqSelector.
This PR makes ChiSqSelector extend Serializable in MLlib, and adds the ChiSqSelector import statement to the associated example in the documentation.
Author: Mike Dusenberry <dusenberrymw@gmail.com>
Closes #6462 from dusenberrymw/Make_ChiSqSelector_Serializable_and_Fix_Related_Docs_Example and squashes the following commits:
9cb2f94 [Mike Dusenberry] Make MLlib ChiSqSelector Serializable.
d9003bf [Mike Dusenberry] Add missing import in MLlib ChiSqSelector Docs Scala example.
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This patch fixes a build break in maven caused by #6441.
Note that this patch reverts the changes in flume-sink because
this module does not currently depend on Spark core, but the
tests require it. There is not an easy way to make this work
because mvn test dependencies are not transitive (MNG-1378).
For now, we will leave the one test suite in flume-sink out
until we figure out a better solution. This patch is mainly
intended to unbreak the maven build.
Author: Andrew Or <andrew@databricks.com>
Closes #6511 from andrewor14/fix-build-mvn and squashes the following commits:
3d53643 [Andrew Or] [HOT FIX #6441] Fix maven build failures
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Right now `unit-tests.log` are not of much value because we can't tell where the test boundaries are easily. This patch adds log statements before and after each test to outline the test boundaries, e.g.:
```
===== TEST OUTPUT FOR o.a.s.serializer.KryoSerializerSuite: 'kryo with parallelize for primitive arrays' =====
15/05/27 12:36:39.596 pool-1-thread-1-ScalaTest-running-KryoSerializerSuite INFO SparkContext: Starting job: count at KryoSerializerSuite.scala:230
15/05/27 12:36:39.596 dag-scheduler-event-loop INFO DAGScheduler: Got job 3 (count at KryoSerializerSuite.scala:230) with 4 output partitions (allowLocal=false)
15/05/27 12:36:39.596 dag-scheduler-event-loop INFO DAGScheduler: Final stage: ResultStage 3(count at KryoSerializerSuite.scala:230)
15/05/27 12:36:39.596 dag-scheduler-event-loop INFO DAGScheduler: Parents of final stage: List()
15/05/27 12:36:39.597 dag-scheduler-event-loop INFO DAGScheduler: Missing parents: List()
15/05/27 12:36:39.597 dag-scheduler-event-loop INFO DAGScheduler: Submitting ResultStage 3 (ParallelCollectionRDD[5] at parallelize at KryoSerializerSuite.scala:230), which has no missing parents
...
15/05/27 12:36:39.624 pool-1-thread-1-ScalaTest-running-KryoSerializerSuite INFO DAGScheduler: Job 3 finished: count at KryoSerializerSuite.scala:230, took 0.028563 s
15/05/27 12:36:39.625 pool-1-thread-1-ScalaTest-running-KryoSerializerSuite INFO KryoSerializerSuite:
***** FINISHED o.a.s.serializer.KryoSerializerSuite: 'kryo with parallelize for primitive arrays' *****
...
```
Author: Andrew Or <andrew@databricks.com>
Closes #6441 from andrewor14/demarcate-tests and squashes the following commits:
879b060 [Andrew Or] Fix compile after rebase
d622af7 [Andrew Or] Merge branch 'master' of github.com:apache/spark into demarcate-tests
017c8ba [Andrew Or] Merge branch 'master' of github.com:apache/spark into demarcate-tests
7790b6c [Andrew Or] Fix tests after logical merge conflict
c7460c0 [Andrew Or] Merge branch 'master' of github.com:apache/spark into demarcate-tests
c43ffc4 [Andrew Or] Fix tests?
8882581 [Andrew Or] Fix tests
ee22cda [Andrew Or] Fix log message
fa9450e [Andrew Or] Merge branch 'master' of github.com:apache/spark into demarcate-tests
12d1e1b [Andrew Or] Various whitespace changes (minor)
69cbb24 [Andrew Or] Make all test suites extend SparkFunSuite instead of FunSuite
bbce12e [Andrew Or] Fix manual things that cannot be covered through automation
da0b12f [Andrew Or] Add core tests as dependencies in all modules
f7d29ce [Andrew Or] Introduce base abstract class for all test suites
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LARROW, RARROW in style checker.
…
Author: Reynold Xin <rxin@databricks.com>
Closes #6491 from rxin/more-whitespace and squashes the following commits:
f6e63dc [Reynold Xin] [SPARK-7940] Enforce whitespace checking for DO, TRY, CATCH, FINALLY, MATCH, LARROW, RARROW in style checker.
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Author: MechCoder <manojkumarsivaraj334@gmail.com>
Closes #6497 from MechCoder/spark-7946 and squashes the following commits:
2fdd0a3 [MechCoder] Add non-regression test
8c988c6 [MechCoder] [SPARK-7946] DecayFactor wrongly set in StreamingKMeans
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attributes and change includeFirst to dropLast
This PR contains two major changes to `OneHotEncoder`:
1. more robust handling of ML attributes. If the input attribute is unknown, we look at the values to get the max category index
2. change `includeFirst` to `dropLast` and leave the default to `true`. There are couple benefits:
a. consistent with other tutorials of one-hot encoding (or dummy coding) (e.g., http://www.ats.ucla.edu/stat/mult_pkg/faq/general/dummy.htm)
b. keep the indices unmodified in the output vector. If we drop the first, all indices will be shifted by 1.
c. If users use `StringIndex`, the last element is the least frequent one.
Sorry for including two changes in one PR! I'll update the user guide in another PR.
jkbradley sryza
Author: Xiangrui Meng <meng@databricks.com>
Closes #6466 from mengxr/SPARK-7912 and squashes the following commits:
a280dca [Xiangrui Meng] fix tests
d8f234d [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-7912
171b276 [Xiangrui Meng] mention the difference between our impl vs sklearn's
00dfd96 [Xiangrui Meng] update OneHotEncoder in Python
208ddad [Xiangrui Meng] update OneHotEncoder to handle ML attributes and change includeFirst to dropLast
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Expose user/item factors in DataFrames. This is to be more consistent with the pipeline API. It also helps maintain consistent APIs across languages. This PR also removed fitting params from `ALSModel`.
coderxiang
Author: Xiangrui Meng <meng@databricks.com>
Closes #6468 from mengxr/SPARK-7922 and squashes the following commits:
7bfb1d5 [Xiangrui Meng] update ALSModel in PySpark
1ba5607 [Xiangrui Meng] use DataFrames for user/item factors in ALS
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rxin
Author: Xiangrui Meng <meng@databricks.com>
Closes #6481 from mengxr/mllib-scalastyle and squashes the following commits:
3ca4d61 [Xiangrui Meng] revert scalastyle config
30961ba [Xiangrui Meng] adjust spaces in mllib/test
571b5c5 [Xiangrui Meng] fix spaces in mllib
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CC jkbradley
Author: Xusen Yin <yinxusen@gmail.com>
Closes #6451 from yinxusen/SPARK-7577 and squashes the following commits:
e2dc32e [Xusen Yin] rename colums
e350e49 [Xusen Yin] add all demos
006ddf1 [Xusen Yin] add java test
3238481 [Xusen Yin] add bucketizer
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`VectorAssembler` should carry over ML attributes. For unknown attributes, we assume numeric values. This PR handles the following cases:
1. DoubleType with ML attribute: carry over
2. DoubleType without ML attribute: numeric value
3. Scalar type: numeric value
4. VectorType with all ML attributes: carry over and update names
5. VectorType with number of ML attributes: assume all numeric
6. VectorType without ML attributes: check the first row and get the number of attributes
jkbradley
Author: Xiangrui Meng <meng@databricks.com>
Closes #6452 from mengxr/SPARK-7198 and squashes the following commits:
a9d2469 [Xiangrui Meng] add space
facdb1f [Xiangrui Meng] VectorAssembler should output ML attributes
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being called multiple times
~~A PythonUDT shouldn't be serialized into external Scala types in PythonRDD. I'm not sure whether this should fix one of the bugs related to SQL UDT/UDF in PySpark.~~
The fix above didn't work. So I added a workaround for this. If a Python UDF is applied to a Python UDT. This will put the Python SQL types as inputs. Still incorrect, but at least it doesn't throw exceptions on the Scala side. davies harsha2010
Author: Xiangrui Meng <meng@databricks.com>
Closes #6442 from mengxr/SPARK-7903 and squashes the following commits:
c257d2a [Xiangrui Meng] add a workaround for VectorUDT
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1. removed `Params.validateParams(extra)`
2. added `Evaluate.evaluate(dataset, paramPairs*)`
3. updated `RegressionEvaluator` doc
jkbradley
Author: Xiangrui Meng <meng@databricks.com>
Closes #6392 from mengxr/SPARK-7535.1 and squashes the following commits:
5ff5af8 [Xiangrui Meng] add unit test for CV.validateParams
f1f8369 [Xiangrui Meng] update CV.validateParams() to test estimatorParamMaps
607445d [Xiangrui Meng] merge master
8716f5f [Xiangrui Meng] specify default metric name in RegressionEvaluator
e4e5631 [Xiangrui Meng] update RegressionEvaluator doc
801e864 [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-7535.1
fcbd3e2 [Xiangrui Meng] Merge branch 'master' into SPARK-7535.1
2192316 [Xiangrui Meng] remove validateParams(extra); add evaluate(dataset, extra*)
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With descent coverage of feature transformers, algorithms, and model tuning support, it is time to graduate `spark.ml` from alpha. This PR changes all `AlphaComponent` annotations to either `DeveloperApi` or `Experimental`, depending on whether we expect a class/method to be used by end users (who use the pipeline API to assemble/tune their ML pipelines but not to create new pipeline components.) `UnaryTransformer` becomes a `DeveloperApi` in this PR.
jkbradley harsha2010
Author: Xiangrui Meng <meng@databricks.com>
Closes #6417 from mengxr/SPARK-7748 and squashes the following commits:
effbccd [Xiangrui Meng] organize imports
c15028e [Xiangrui Meng] added missing docs
1b2e5f8 [Xiangrui Meng] update package doc
73ca791 [Xiangrui Meng] alpha -> ex/dev for the rest
93819db [Xiangrui Meng] alpha -> ex/dev in ml.param
55ca073 [Xiangrui Meng] alpha -> ex/dev in ml.feature
83572f1 [Xiangrui Meng] add Experimental and DeveloperApi tags (wip)
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The densities in KernelDensity are scaled down by
(number of parallel processes X number of points). It should be just no.of samples. This results in broken tests in KernelDensitySuite which haven't been tested properly.
Author: MechCoder <manojkumarsivaraj334@gmail.com>
Closes #6383 from MechCoder/spark-7844 and squashes the following commits:
ab81302 [MechCoder] Math->math
9b8ed50 [MechCoder] Make one pass to update count
a92fe50 [MechCoder] [SPARK-7844] Fix broken tests in KernelDensity
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Author: Ram Sriharsha <rsriharsha@hw11853.local>
Closes #6365 from harsha2010/SPARK-7833 and squashes the following commits:
923f288 [Ram Sriharsha] cleanup
7623b7d [Ram Sriharsha] python style fix
9743f83 [Ram Sriharsha] [SPARK-7833][ml] Add python wrapper for RegressionEvaluator
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Author: Ram Sriharsha <rsriharsha@hw11853.local>
Closes #6344 from harsha2010/SPARK-7404 and squashes the following commits:
16b9d77 [Ram Sriharsha] consistent naming
7f100b6 [Ram Sriharsha] cleanup
c46044d [Ram Sriharsha] Merge with Master + Code Review Fixes
188fa0a [Ram Sriharsha] Merge branch 'master' into SPARK-7404
f5b6a4c [Ram Sriharsha] cleanup doc
97beca5 [Ram Sriharsha] update test to use R packages
32dd310 [Ram Sriharsha] fix indentation
f93b812 [Ram Sriharsha] fix test
1b6ebb3 [Ram Sriharsha] [SPARK-7404][ml] Add RegressionEvaluator to spark.ml
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Added user guide sections with code examples.
Also added small Java unit tests to test Java example in guide.
CC: mengxr
Author: Joseph K. Bradley <joseph@databricks.com>
Closes #6127 from jkbradley/feature-guide-2 and squashes the following commits:
cd47f4b [Joseph K. Bradley] Updated based on code review
f16bcec [Joseph K. Bradley] Fixed merge issues and update Python examples print calls for Python 3
0a862f9 [Joseph K. Bradley] Added Normalizer, StandardScaler to ml-features doc, plus small Java unit tests
a21c2d6 [Joseph K. Bradley] Updated ml-features.md with IDF
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Some changes to the pipeilne APIs:
1. Estimator/Transformer/ doesn’t need to extend Params since PipelineStage already does.
1. Move Evaluator to ml.evaluation.
1. Mention larger metric values are better.
1. PipelineModel doc. “compiled” -> “fitted”
1. Hide object PolynomialExpansion.
1. Hide object VectorAssembler.
1. Word2Vec.minCount (and other) -> group param
1. ParamValidators -> DeveloperApi
1. Hide MetadataUtils/SchemaUtils.
jkbradley
Author: Xiangrui Meng <meng@databricks.com>
Closes #6322 from mengxr/SPARK-7535.0 and squashes the following commits:
9e9c7da [Xiangrui Meng] move JavaEvaluator to ml.evaluation as well
e179480 [Xiangrui Meng] move Evaluation to ml.evaluation in PySpark
08ef61f [Xiangrui Meng] update pipieline APIs
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This PR updates `HashingTF` to output ML attributes that tell the number of features in the output column. We need to expand `UnaryTransformer` to support output metadata. A `df outputMetadata: Metadata` is not sufficient because the metadata may also depends on the input data. Though this is not true for `HashingTF`, I think it is reasonable to update `UnaryTransformer` in a separate PR. `checkParams` is added to verify common requirements for params. I will send a separate PR to use it in other test suites. jkbradley
Author: Xiangrui Meng <meng@databricks.com>
Closes #6308 from mengxr/SPARK-7219 and squashes the following commits:
9bd2922 [Xiangrui Meng] address comments
e82a68a [Xiangrui Meng] remove sqlContext from test suite
995535b [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-7219
2194703 [Xiangrui Meng] add test for attributes
178ae23 [Xiangrui Meng] update HashingTF with tests
91a6106 [Xiangrui Meng] WIP
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The previous default is `{gaps: false, pattern: "\\p{L}+|[^\\p{L}\\s]+"}`. The default pattern is hard to understand. This PR changes the default to `{gaps: true, pattern: "\\s+"}`. jkbradley
Author: Xiangrui Meng <meng@databricks.com>
Closes #6330 from mengxr/SPARK-7794 and squashes the following commits:
5ee7cde [Xiangrui Meng] update RegexTokenizer default settings
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We removed `varargs` due to Java compilation issues. That was a false alarm because I didn't run `build/sbt clean`. So this PR reverts the changes. jkbradley
Author: Xiangrui Meng <meng@databricks.com>
Closes #6320 from mengxr/SPARK-7498 and squashes the following commits:
74a7259 [Xiangrui Meng] add varargs back to setDefault
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Added VectorIndexer section to ML user guide. Also added javaCategoryMaps() method and Java unit test for it.
CC: mengxr
Author: Joseph K. Bradley <joseph@databricks.com>
Closes #6255 from jkbradley/vector-indexer-guide and squashes the following commits:
dbb8c4c [Joseph K. Bradley] simplified VectorIndexerModel.javaCategoryMaps
f692084 [Joseph K. Bradley] Added VectorIndexer section to ML user guide. Also added javaCategoryMaps() method and Java unit test for it.
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same issue and fix as in Spark-7694.
Author: Shuo Xiang <shuoxiangpub@gmail.com>
Closes #6321 from coderxiang/nb and squashes the following commits:
a5e6de4 [Shuo Xiang] use getOrElse for svmmodel.tostring
2cb0177 [Shuo Xiang] Merge remote-tracking branch 'upstream/master' into nb
5f109b4 [Shuo Xiang] Merge remote-tracking branch 'upstream/master'
c5c5bfe [Shuo Xiang] Merge remote-tracking branch 'upstream/master'
98804c9 [Shuo Xiang] fix bug in topBykey and update test
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to be consistent with other string names in MLlib. This PR also updates the implementation to use vals instead of hardcoded strings. jkbradley leahmcguire
Author: Xiangrui Meng <meng@databricks.com>
Closes #6277 from mengxr/SPARK-7752 and squashes the following commits:
f38b662 [Xiangrui Meng] add another case _ back in test
ae5c66a [Xiangrui Meng] model type -> modelType
711d1c6 [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-7752
40ae53e [Xiangrui Meng] fix Java test suite
264a814 [Xiangrui Meng] add case _ back
3c456a8 [Xiangrui Meng] update NB user guide
17bba53 [Xiangrui Meng] update naive Bayes to use lowercase model type strings
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Update `KernelDensity` API to make it extensible to different kernels in the future. `bandwidth` is used instead of `standardDeviation`. The static `kernelDensity` method is removed from `Statistics`. The implementation is updated using BLAS, while the algorithm remains the same. sryza srowen
Author: Xiangrui Meng <meng@databricks.com>
Closes #6279 from mengxr/SPARK-7753 and squashes the following commits:
4cdfadc [Xiangrui Meng] add example code in the doc
767fd5a [Xiangrui Meng] update KernelDensity API
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to simplify test suites that require a SQLContext.
Author: Xiangrui Meng <meng@databricks.com>
Closes #6303 from mengxr/SPARK-7774 and squashes the following commits:
0622b5a [Xiangrui Meng] update some other test suites
e1f9b8d [Xiangrui Meng] add sqlContext to MLlibTestSparkContext
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Set a default value for `outputCol` instead of forcing users to name it. This is useful for intermediate transformers in the pipeline. jkbradley
Author: Xiangrui Meng <meng@databricks.com>
Closes #6289 from mengxr/SPARK-7762 and squashes the following commits:
54edebc [Xiangrui Meng] merge master
bff8667 [Xiangrui Meng] update unit test
171246b [Xiangrui Meng] add unit test for outputCol
a4321bd [Xiangrui Meng] set default value for outputCol
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Minor updates to the spark.mllib APIs:
1. Add `DeveloperApi` to `PMMLExportable` and add `Experimental` to `toPMML` methods.
2. Mention `RankingMetrics.of` in the `RankingMetrics` constructor.
Author: Xiangrui Meng <meng@databricks.com>
Closes #6280 from mengxr/SPARK-7537 and squashes the following commits:
1bd2583 [Xiangrui Meng] organize imports
94afa7a [Xiangrui Meng] mark all toPMML methods experimental
4c40da1 [Xiangrui Meng] mention the factory method for RankingMetrics for Java users
88c62d0 [Xiangrui Meng] add DeveloperApi to PMMLExportable
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Add MultilabelMetrics in PySpark/MLlib
Author: Yanbo Liang <ybliang8@gmail.com>
Closes #6276 from yanboliang/spark-6094 and squashes the following commits:
b8e3343 [Yanbo Liang] Add MultilabelMetrics in PySpark/MLlib
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parquetFile -> read.parquet rxin
Author: Xiangrui Meng <meng@databricks.com>
Closes #6281 from mengxr/SPARK-7654 and squashes the following commits:
a79b612 [Xiangrui Meng] parquetFile -> read.parquet
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JIRA issue [link](https://issues.apache.org/jira/browse/SPARK-7663).
We should check the model size of word2vec, to prevent the unexpected empty.
CC srowen.
Author: Xusen Yin <yinxusen@gmail.com>
Closes #6228 from yinxusen/SPARK-7663 and squashes the following commits:
21770c5 [Xusen Yin] check the vocab size
54ae63e [Xusen Yin] add requirement for word2vec model
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with BLAS
JIRA: https://issues.apache.org/jira/browse/SPARK-7652
Author: Liang-Chi Hsieh <viirya@gmail.com>
Closes #6189 from viirya/naive_bayes_blas_prediction and squashes the following commits:
ab611fd [Liang-Chi Hsieh] Remove unnecessary space.
ddc48b9 [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into naive_bayes_blas_prediction
b5772b4 [Liang-Chi Hsieh] Fix binary compatibility.
2f65186 [Liang-Chi Hsieh] Remove toDense.
1b6cdfe [Liang-Chi Hsieh] Update the implementation of naive Bayes prediction with BLAS.
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CC jkbradley.
JIRA [issue](https://issues.apache.org/jira/browse/SPARK-7586).
Author: Xusen Yin <yinxusen@gmail.com>
Closes #6181 from yinxusen/SPARK-7586 and squashes the following commits:
77014c5 [Xusen Yin] comment fix
57a4c07 [Xusen Yin] small fix for docs
1178c8f [Xusen Yin] remove the correctness check in java suite
1c3f389 [Xusen Yin] delete sbt commit
1af152b [Xusen Yin] check python example code
1b5369e [Xusen Yin] add docs of word2vec
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Changed shared param HasSeed to have default based on hashCode of class name, instead of random number.
Also, removed fixed random seeds from Word2Vec and ALS.
CC: mengxr
Author: Joseph K. Bradley <joseph@databricks.com>
Closes #6251 from jkbradley/scala-fixed-seed and squashes the following commits:
0e37184 [Joseph K. Bradley] Fixed Word2VecSuite, ALSSuite in spark.ml to use original fixed random seeds
678ec3a [Joseph K. Bradley] Removed fixed random seeds from Word2Vec and ALS. Changed shared param HasSeed to have default based on hashCode of class name, instead of random number.
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Made Model.parent transient. Added Model.hasParent to test for null parent
CC: mengxr
Author: Joseph K. Bradley <joseph@databricks.com>
Closes #5914 from jkbradley/parent-optional and squashes the following commits:
d501774 [Joseph K. Bradley] Made Model.parent transient. Added Model.hasParent to test for null parent
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JIRA [here](https://issues.apache.org/jira/browse/SPARK-7581).
CC jkbradley
Author: Xusen Yin <yinxusen@gmail.com>
Closes #6113 from yinxusen/SPARK-7581 and squashes the following commits:
1a7d80d [Xusen Yin] merge with master
892a8e9 [Xusen Yin] fix python 3 compatibility
ec935bf [Xusen Yin] small fix
3e9fa1d [Xusen Yin] delete note
69fcf85 [Xusen Yin] simplify and add python example
81d21dc [Xusen Yin] add programming guide for Polynomial Expansion
40babfb [Xusen Yin] add java test suite for PolynomialExpansion
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JIRA: https://issues.apache.org/jira/browse/SPARK-7681
Author: Liang-Chi Hsieh <viirya@gmail.com>
Closes #6209 from viirya/sparsevector_gemv and squashes the following commits:
ce0bb8b [Liang-Chi Hsieh] Still need to scal y when beta is 0.0 because it clears out y.
b890e63 [Liang-Chi Hsieh] Do not delete multiply for DenseVector.
57a8c1e [Liang-Chi Hsieh] Add MimaExcludes for v1.4.
458d1ae [Liang-Chi Hsieh] List DenseMatrix.multiply and SparseMatrix.multiply to MimaExcludes too.
054f05d [Liang-Chi Hsieh] Fix scala style.
410381a [Liang-Chi Hsieh] Address comments. Make Matrix.multiply more generalized.
4616696 [Liang-Chi Hsieh] Add support for SparseVector with SparseMatrix.
5d6d07a [Liang-Chi Hsieh] Merge remote-tracking branch 'upstream/master' into sparsevector_gemv
c069507 [Liang-Chi Hsieh] Add SparseVector support for gemv with DenseMatrix.
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This PR makes pipeline stages in Python copyable and hence simplifies some implementations. It also includes the following changes:
1. Rename `paramMap` and `defaultParamMap` to `_paramMap` and `_defaultParamMap`, respectively.
2. Accept a list of param maps in `fit`.
3. Use parent uid and name to identify param.
jkbradley
Author: Xiangrui Meng <meng@databricks.com>
Author: Joseph K. Bradley <joseph@databricks.com>
Closes #6088 from mengxr/SPARK-7380 and squashes the following commits:
413c463 [Xiangrui Meng] remove unnecessary doc
4159f35 [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-7380
611c719 [Xiangrui Meng] fix python style
68862b8 [Xiangrui Meng] update _java_obj initialization
927ad19 [Xiangrui Meng] fix ml/tests.py
0138fc3 [Xiangrui Meng] update feature transformers and fix a bug in RegexTokenizer
9ca44fb [Xiangrui Meng] simplify Java wrappers and add tests
c7d84ef [Xiangrui Meng] update ml/tests.py to test copy params
7e0d27f [Xiangrui Meng] merge master
46840fb [Xiangrui Meng] update wrappers
b6db1ed [Xiangrui Meng] update all self.paramMap to self._paramMap
46cb6ed [Xiangrui Meng] merge master
a163413 [Xiangrui Meng] fix style
1042e80 [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-7380
9630eae [Xiangrui Meng] fix Identifiable._randomUID
13bd70a [Xiangrui Meng] update ml/tests.py
64a536c [Xiangrui Meng] use _fit/_transform/_evaluate to simplify the impl
02abf13 [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into copyable-python
66ce18c [Joseph K. Bradley] some cleanups before sending to Xiangrui
7431272 [Joseph K. Bradley] Rebased with master
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The `toString` method of `LogisticRegressionModel` calls `get` method on an Option (threshold) without a safeguard. In spark-shell, the following code `val model = algorithm.run(data).clearThreshold()` in lbfgs code will fail as `toString `method will be called right after `clearThreshold()` to show the results in the REPL.
Author: Shuo Xiang <shuoxiangpub@gmail.com>
Closes #6224 from coderxiang/getorelse and squashes the following commits:
d5f53c9 [Shuo Xiang] use getOrElse for getting the threshold of LR model
5f109b4 [Shuo Xiang] Merge remote-tracking branch 'upstream/master'
c5c5bfe [Shuo Xiang] Merge remote-tracking branch 'upstream/master'
98804c9 [Shuo Xiang] fix bug in topBykey and update test
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Author: Reynold Xin <rxin@databricks.com>
Closes #6211 from rxin/mllib-reader and squashes the following commits:
79a2cb9 [Reynold Xin] [SPARK-7654][MLlib] Migrate MLlib to the DataFrame reader/writer API.
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reservoir feature sample by using existing api
Author: AiHe <ai.he@ussuning.com>
Closes #5988 from AiHe/reservoir and squashes the following commits:
e7a41ac [AiHe] remove non-robust testing case
28ffb9a [AiHe] set seed as rng.nextLong
37459e1 [AiHe] set fixed seed
1e98a4c [AiHe] [MLLIB][tree] Add reservoir sample in RandomForest
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map function
JIRA: https://issues.apache.org/jira/browse/SPARK-7668
Author: Liang-Chi Hsieh <viirya@gmail.com>
Closes #6188 from viirya/fix_matrix_map and squashes the following commits:
2a7cc97 [Liang-Chi Hsieh] Preserve isTransposed property for Matrix after calling map function.
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Implement Python API for major disparities of GaussianMixture cluster algorithm between Scala & Python
```scala
GaussianMixture
setInitialModel
GaussianMixtureModel
k
```
Author: Yanbo Liang <ybliang8@gmail.com>
Closes #6087 from yanboliang/spark-6258 and squashes the following commits:
b3af21c [Yanbo Liang] fix typo
2b645c1 [Yanbo Liang] fix doc
638b4b7 [Yanbo Liang] address comments
b5bcade [Yanbo Liang] GaussianMixture Python API parity check
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A param instance is strongly attached to an parent in the current implementation. So if we make a copy of an estimator or a transformer in pipelines and other meta-algorithms, it becomes error-prone to copy the params to the copied instances. In this PR, a param is identified by its parent's UID and the param name. So it becomes loosely attached to its parent and all its derivatives. The UID is preserved during copying or fitting. All components now have a default constructor and a constructor that takes a UID as input. I keep the constructors for Param in this PR to reduce the amount of diff and moved `parent` as a mutable field.
This PR still needs some clean-ups, and there are several spark.ml PRs pending. I'll try to get them merged first and then update this PR.
jkbradley
Author: Xiangrui Meng <meng@databricks.com>
Closes #6019 from mengxr/SPARK-7407 and squashes the following commits:
c4c8120 [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-7407
520f0a2 [Xiangrui Meng] address comments
2569168 [Xiangrui Meng] fix tests
873caca [Xiangrui Meng] fix tests in OneVsRest; fix a racing condition in shouldOwn
409ea08 [Xiangrui Meng] minor updates
83a163c [Xiangrui Meng] update JavaDeveloperApiExample
5db5325 [Xiangrui Meng] update OneVsRest
7bde7ae [Xiangrui Meng] merge master
697fdf9 [Xiangrui Meng] update Bucketizer
7b4f6c2 [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-7407
629d402 [Xiangrui Meng] fix LRSuite
154516f [Xiangrui Meng] merge master
aa4a611 [Xiangrui Meng] fix examples/compile
a4794dd [Xiangrui Meng] change Param to use to reduce the size of diff
fdbc415 [Xiangrui Meng] all tests passed
c255f17 [Xiangrui Meng] fix tests in ParamsSuite
818e1db [Xiangrui Meng] merge master
e1160cf [Xiangrui Meng] fix tests
fbc39f0 [Xiangrui Meng] pass test:compile
108937e [Xiangrui Meng] pass compile
8726d39 [Xiangrui Meng] use parent uid in Param
eaeed35 [Xiangrui Meng] update Identifiable
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avoid extra JVM call
Author: DB Tsai <dbt@netflix.com>
Closes #6137 from dbtsai/clean and squashes the following commits:
185816d [DB Tsai] fix compilication issue
f418d08 [DB Tsai] first commit
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This is similar to the changes to k-means, which gives us better control on the performance. dbtsai
Author: Xiangrui Meng <meng@databricks.com>
Closes #6128 from mengxr/SPARK-7612 and squashes the following commits:
b5c24c5 [Xiangrui Meng] merge master
a90e3ec [Xiangrui Meng] update NB training to use mllib's BLAS
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both training and predict features have values of 0 or 1
Author: leahmcguire <lmcguire@salesforce.com>
Closes #6073 from leahmcguire/binaryCheckNB and squashes the following commits:
b8442c2 [leahmcguire] changed to if else for value checks
911bf83 [leahmcguire] undid reformat
4eedf1e [leahmcguire] moved bernoulli check
9ee9e84 [leahmcguire] fixed style error
3f3b32c [leahmcguire] fixed zero one check so only called in combiner
831fd27 [leahmcguire] got test working
f44bb3c [leahmcguire] removed changes from CV branch
67253f0 [leahmcguire] added check to bernoulli to ensure feature values are zero or one
f191c71 [leahmcguire] fixed name
58d060b [leahmcguire] changed param name and test according to comments
04f0d3c [leahmcguire] Added stats from cross validation as a val in the cross validation model to save them for user access
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Added `ml.feature.Bucketizer` to PySpark.
cc mengxr
Author: Burak Yavuz <brkyvz@gmail.com>
Closes #6124 from brkyvz/ml-bucket and squashes the following commits:
05285be [Burak Yavuz] added sphinx doc
6abb6ed [Burak Yavuz] added support for Bucketizer
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