Having sizeInBytes in HadoopFsRelation to enable broadcast join.

cc marmbrus

Author: Davies Liu <davies@databricks.com>

Closes #8490 from davies/sizeInByte.

https://issues.apache.org/jira/browse/SPARK-10287

After porting json to HadoopFsRelation, it seems hard to keep the behavior of picking up new files automatically for JSON. This PR removes this behavior, so JSON is consistent with others (ORC and Parquet).

Author: Yin Huai <yhuai@databricks.com>

Closes #8469 from yhuai/jsonRefresh.

* Adds user guide for ml.feature.StopWordsRemovers, ran code examples on my machine
* Cleans up scaladocs for public methods
* Adds test for Java compatibility
* Follow up Python user guide code example is tracked by SPARK-10249

Author: Feynman Liang <fliang@databricks.com>

Closes #8436 from feynmanliang/SPARK-10230.

User guide for LogisticRegression summaries

Author: MechCoder <manojkumarsivaraj334@gmail.com>
Author: Manoj Kumar <mks542@nyu.edu>
Author: Feynman Liang <fliang@databricks.com>

Closes #8197 from MechCoder/log_summary_user_guide.

jira: https://issues.apache.org/jira/browse/SPARK-9901

The jira covers only the document update. I can further provide example code for QR (like the ones for SVD and PCA) in a separate PR.

Author: Yuhao Yang <hhbyyh@gmail.com>

Closes #8462 from hhbyyh/qrDoc.

https://issues.apache.org/jira/browse/SPARK-10315

this parameter is not used any longer and there is some mistake in the current document , should be 'akka.remote.watch-failure-detector.threshold'

Author: CodingCat <zhunansjtu@gmail.com>

Closes #8483 from CodingCat/SPARK_10315.

Author: Michael Armbrust <michael@databricks.com>

Closes #8441 from marmbrus/documentation.

`GeneralizedLinearModel` creates a cached RDD when building a model. It's inconvenient, since these RDDs flood the memory when building several models in a row, so useful data might get evicted from the cache.

The proposed solution is to always cache the dataset & remove the warning. There's a caveat though: input dataset gets evaluated twice, in line 270 when fitting `StandardScaler` for the first time, and when running optimizer for the second time. So, it might worth to return removed warning.

Another possible solution is to disable caching entirely & return removed warning. I don't really know what approach is better.

Author: Vyacheslav Baranov <slavik.baranov@gmail.com>

Closes #8395 from SlavikBaranov/SPARK-10182.

* Replaces instances of `Lists.newArrayList` with `Arrays.asList`
* Replaces `commons.lang.StringUtils` over `com.google.collections.Strings`
* Replaces `List` interface over `ArrayList` implementations

This PR along with #8445 #8446 #8447 completely removes all `com.google.collections.Lists` dependencies within mllib's Java tests.

Author: Feynman Liang <fliang@databricks.com>

Closes #8451 from feynmanliang/SPARK-10257.

Fix for [JavaConverters.asJavaListConverter](http://www.scala-lang.org/api/2.10.5/index.html#scala.collection.JavaConverters$) being removed in 2.11.7 and hence the build fails with the 2.11 profile enabled. Tested with the default 2.10 and 2.11 profiles. BUILD SUCCESS in both cases.

Build for 2.10:

    ./build/mvn -Pyarn -Phadoop-2.6 -Dhadoop.version=2.7.1 -DskipTests clean install

and 2.11:

    ./dev/change-scala-version.sh 2.11
    ./build/mvn -Pyarn -Phadoop-2.6 -Dhadoop.version=2.7.1 -Dscala-2.11 -DskipTests clean install

Author: Jacek Laskowski <jacek@japila.pl>

Closes #8479 from jaceklaskowski/SPARK-9613-hotfix.

Author: Feynman Liang <fliang@databricks.com>

Closes #8447 from feynmanliang/SPARK-10256.

Author: Feynman Liang <fliang@databricks.com>

Closes #8446 from feynmanliang/SPARK-10255.

* Replaces `com.google.common` dependencies with `java.util.Arrays`
* Small clean up in `JavaNormalizerSuite`

Author: Feynman Liang <fliang@databricks.com>

Closes #8445 from feynmanliang/SPARK-10254.

Fix Typo in exactly once semantics
[Semantics of output operations] link

Author: Moussa Taifi <moutai10@gmail.com>

Closes #8468 from moutai/patch-3.

…ion by default

Author: Ram Sriharsha <rsriharsha@hw11853.local>

Closes #8465 from harsha2010/SPARK-10251.

cc sun-rui davies

Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu>

Closes #8475 from shivaram/varargs-fix.

PySpark DataFrameReader should could accept an RDD of Strings (like the Scala version does) for JSON, rather than only taking a path.
If this PR is merged, it should be duplicated to cover the other input types (not just JSON).

Author: Yanbo Liang <ybliang8@gmail.com>

Closes #8444 from yanboliang/spark-9964.

Author: Cheng Lian <lian@databricks.com>

Closes #8467 from liancheng/spark-9424/parquet-docs-for-1.5.

Getting rid of some validation problems in SparkR
https://github.com/apache/spark/pull/7883

cc shivaram

```
inst/tests/test_Serde.R:26:1: style: Trailing whitespace is superfluous.

^~
inst/tests/test_Serde.R:34:1: style: Trailing whitespace is superfluous.

^~
inst/tests/test_Serde.R:37:38: style: Trailing whitespace is superfluous.
  expect_equal(class(x), "character")
                                     ^~
inst/tests/test_Serde.R:50:1: style: Trailing whitespace is superfluous.

^~
inst/tests/test_Serde.R:55:1: style: Trailing whitespace is superfluous.

^~
inst/tests/test_Serde.R:60:1: style: Trailing whitespace is superfluous.

^~
inst/tests/test_sparkSQL.R:611:1: style: Trailing whitespace is superfluous.

^~
R/DataFrame.R:664:1: style: Trailing whitespace is superfluous.

^~~~~~~~~~~~~~
R/DataFrame.R:670:55: style: Trailing whitespace is superfluous.
                df <- data.frame(row.names = 1 : nrow)
                                                      ^~~~~~~~~~~~~~~~
R/DataFrame.R:672:1: style: Trailing whitespace is superfluous.

^~~~~~~~~~~~~~
R/DataFrame.R:686:49: style: Trailing whitespace is superfluous.
                    df[[names[colIndex]]] <- vec
                                                ^~~~~~~~~~~~~~~~~~
```

Author: Yu ISHIKAWA <yuu.ishikawa@gmail.com>

Closes #8474 from yu-iskw/minor-fix-sparkr.

I also checked all the other functions defined in column.R, functions.R and DataFrame.R and everything else looked fine.

cc yu-iskw

Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu>

Closes #8473 from shivaram/in-namespace.

cc jkbradley

Author: Davies Liu <davies@databricks.com>

Closes #8470 from davies/fix_create_df.

Same as #8421 but for `mllib.recommendation`.

cc srowen coderxiang

Author: Xiangrui Meng <meng@databricks.com>

Closes #8432 from mengxr/SPARK-10241.

I only found `ml.NaiveBayes` missing `Experimental` annotation. This PR doesn't cover Python APIs.

cc jkbradley

Author: Xiangrui Meng <meng@databricks.com>

Closes #8452 from mengxr/SPARK-9665.

Add support for
```
   df[df$name == "Smith", c(1,2)]
   df[df$age %in% c(19, 30), 1:2]
```

shivaram

Author: felixcheung <felixcheung_m@hotmail.com>

Closes #8394 from felixcheung/rsubset.

Same as #8421 but for `mllib.feature`.

cc dbtsai

Author: Xiangrui Meng <meng@databricks.com>

Closes #8449 from mengxr/SPARK-10236.feature and squashes the following commits:

0e8d658 [Xiangrui Meng] remove unnecessary comment
ad70b03 [Xiangrui Meng] update since versions in mllib.feature

Same as #8421 but for `mllib.regression`.

cc freeman-lab dbtsai

Author: Xiangrui Meng <meng@databricks.com>

Closes #8426 from mengxr/SPARK-10235 and squashes the following commits:

6cd28e4 [Xiangrui Meng] update since versions in mllib.regression

Same as #8421 but for `mllib.tree`.

cc jkbradley

Author: Xiangrui Meng <meng@databricks.com>

Closes #8442 from mengxr/SPARK-10236.

Same as #8421 but for `mllib.clustering`.

cc feynmanliang yu-iskw

Author: Xiangrui Meng <meng@databricks.com>

Closes #8435 from mengxr/SPARK-10234.

The same as #8241 but for `mllib.stat` and `mllib.random`.

cc feynmanliang

Author: Xiangrui Meng <meng@databricks.com>

Closes #8439 from mengxr/SPARK-10242.

Same as #8421 but for `mllib.linalg`.

cc dbtsai

Author: Xiangrui Meng <meng@databricks.com>

Closes #8440 from mengxr/SPARK-10238 and squashes the following commits:

b38437e [Xiangrui Meng] update since versions in mllib.linalg

Same as #8421 but for `mllib.evaluation`.

cc avulanov

Author: Xiangrui Meng <meng@databricks.com>

Closes #8423 from mengxr/SPARK-10233.

 * Adds two new sections to LDA's user guide; one for each optimizer/model
 * Documents new features added to LDA (e.g. topXXXperXXX, asymmetric priors, hyperpam optimization)
 * Cleans up a TODO and sets a default parameter in LDA code

jkbradley hhbyyh

Author: Feynman Liang <fliang@databricks.com>

Closes #8254 from feynmanliang/SPARK-9888.

Follow the rule in Hive for decimal division. see https://github.com/apache/hive/blob/ac755ebe26361a4647d53db2a28500f71697b276/ql/src/java/org/apache/hadoop/hive/ql/udf/generic/GenericUDFOPDivide.java#L113

cc chenghao-intel

Author: Davies Liu <davies@databricks.com>

Closes #8415 from davies/decimal_div2.

In BigDecimal or java.math.BigDecimal, the precision could be smaller than scale, for example, BigDecimal("0.001") has precision = 1 and scale = 3. But DecimalType require that the precision should be larger than scale, so we should use the maximum of precision and scale when inferring the schema from decimal literal.

Author: Davies Liu <davies@databricks.com>

Closes #8428 from davies/smaller_decimal.

Same as #8421 but for `mllib.pmml` and `mllib.util`.

cc dbtsai

Author: Xiangrui Meng <meng@databricks.com>

Closes #8430 from mengxr/SPARK-10239 and squashes the following commits:

a189acf [Xiangrui Meng] update since versions in mllib.pmml and mllib.util

Adds default convergence tolerance (0.001, set in `GradientDescent.convergenceTol`) to `setConvergenceTol`'s scaladoc

Author: Feynman Liang <fliang@databricks.com>

Closes #8424 from feynmanliang/SPARK-9797.

Same as #8421 but for `mllib.fpm`.

cc feynmanliang

Author: Xiangrui Meng <meng@databricks.com>

Closes #8429 from mengxr/SPARK-10237.

* Adds doc for alias of runMIniBatchSGD documenting default value for convergeTol
* Cleans up a note in code

Author: Feynman Liang <fliang@databricks.com>

Closes #8425 from feynmanliang/SPARK-9800.