SPARK-971 [DOCS] Link to Confluence wiki from project website / documentation

This is a trivial change to add links to the wiki from `README.md` and the main docs page. It is already linked to from spark.apache.org.

Author: Sean Owen <sowen@cloudera.com>

Closes #3169 from srowen/SPARK-971 and squashes the following commits:

dcb84d0 [Sean Owen] Add link to wiki from README, docs home page
SPARK-1344 [DOCS] Scala API docs for top methods

Use "k" in javadoc of top and takeOrdered to avoid confusion with type K in pair RDDs. I think this resolves the discussion in SPARK-1344.

Author: Sean Owen <sowen@cloudera.com>

Closes #3168 from srowen/SPARK-1344 and squashes the following commits:

6963fcc [Sean Owen] Use "k" in javadoc of top and takeOrdered to avoid confusion with type K in pair RDDs
MAINTENANCE: Automated closing of pull requests.

This commit exists to close the following pull requests on Github:

Closes #464 (close requested by 'JoshRosen')
Closes #283 (close requested by 'pwendell')
Closes #449 (close requested by 'pwendell')
Closes #907 (close requested by 'pwendell')
Closes #2478 (close requested by 'JoshRosen')
Closes #2192 (close requested by 'tdas')
Closes #918 (close requested by 'pwendell')
Closes #1465 (close requested by 'pwendell')
Closes #3135 (close requested by 'JoshRosen')
Closes #1693 (close requested by 'tdas')
Closes #1279 (close requested by 'pwendell')
SPARK-1209 [CORE] (Take 2) SparkHadoop{MapRed,MapReduce}Util should not use package org.apache.hadoop

andrewor14 Another try at SPARK-1209, to address https://github.com/apache/spark/pull/2814#issuecomment-61197619

I successfully tested with `mvn -Dhadoop.version=1.0.4 -DskipTests clean package; mvn -Dhadoop.version=1.0.4 test` I assume that is what failed Jenkins last time. I also tried `-Dhadoop.version1.2.1` and `-Phadoop-2.4 -Pyarn -Phive` for more coverage.

So this is why the class was put in `org.apache.hadoop` to begin with, I assume. One option is to leave this as-is for now and move it only when Hadoop 1.0.x support goes away.

This is the other option, which adds a call to force the constructor to be public at run-time. It's probably less surprising than putting Spark code in `org.apache.hadoop`, but, does involve reflection. A `SecurityManager` might forbid this, but it would forbid a lot of stuff Spark does. This would also only affect Hadoop 1.0.x it seems.

Author: Sean Owen <sowen@cloudera.com>

Closes #3048 from srowen/SPARK-1209 and squashes the following commits:

0d48f4b [Sean Owen] For Hadoop 1.0.x, make certain constructors public, which were public in later versions
466e179 [Sean Owen] Disable MIMA warnings resulting from moving the class -- this was also part of the PairRDDFunctions type hierarchy though?
eb61820 [Sean Owen] Move SparkHadoopMapRedUtil / SparkHadoopMapReduceUtil from org.apache.hadoop to org.apache.spark
SPARK-3179. Add task OutputMetrics.

Author: Sandy Ryza <sandy@cloudera.com>

This patch had conflicts when merged, resolved by
Committer: Kay Ousterhout <kayousterhout@gmail.com>

Closes #2968 from sryza/sandy-spark-3179 and squashes the following commits:

dce4784 [Sandy Ryza] More review feedback
8d350d1 [Sandy Ryza] Fix test against Hadoop 2.5+
e7c74d0 [Sandy Ryza] More review feedback
6cff9c4 [Sandy Ryza] Review feedback
fb2dde0 [Sandy Ryza] SPARK-3179
MAINTENANCE: Automated closing of pull requests.

This commit exists to close the following pull requests on Github:

Closes #2898 (close requested by 'pwendell')
Closes #2212 (close requested by 'pwendell')
Closes #2102 (close requested by 'pwendell')
[SPARK-2703][Core]Make Tachyon related unit tests execute without deploying a Tachyon system locally.

Make Tachyon related unit tests execute without deploying a Tachyon system locally.

Author: RongGu <gurongwalker@gmail.com>

Closes #3030 from RongGu/SPARK-2703 and squashes the following commits:

ad08827 [RongGu] Make Tachyon related unit tests execute without deploying a Tachyon system locally
[SQL] support udt to hive types conversion (hive->udt is not supported)

marmbrus

Author: Xiangrui Meng <meng@databricks.com>

Closes #3164 from mengxr/hive-udt and squashes the following commits:

57c7519 [Xiangrui Meng] support udt->hive types (hive->udt is not supported)
[SPARK-4169] [Core] Accommodate non-English Locales in unit tests

For me the core tests failed because there are two locale dependent parts in the code.
Look at the Jira ticket for details.

Why is it necessary to check the exception message in isBindCollision in
https://github.com/apache/spark/blob/master/core/src/main/scala/org/apache/spark/util/Utils.scala#L1686
?

Author: Niklas Wilcke <1wilcke@informatik.uni-hamburg.de>

Closes #3036 from numbnut/core-test-fix and squashes the following commits:

1fb0d04 [Niklas Wilcke] Fixing locale dependend code and tests
SPARK-2548 [STREAMING] JavaRecoverableWordCount is missing

Here's my attempt to re-port `RecoverableNetworkWordCount` to Java, following the example of its Scala and Java siblings. I fixed a few minor doc/formatting issues along the way I believe.

Author: Sean Owen <sowen@cloudera.com>

Closes #2564 from srowen/SPARK-2548 and squashes the following commits:

0d0bf29 [Sean Owen] Update checkpoint call as in https://github.com/apache/spark/pull/2735
35f23e3 [Sean Owen] Remove old comment about running in standalone mode
179b3c2 [Sean Owen] Re-port RecoverableNetworkWordCount to Java example, and touch up doc / formatting in related examples
Update RecoverableNetworkWordCount.scala

Trying this example, I missed the moment when the checkpoint was iniciated

Author: comcmipi <pitonak@fns.uniba.sk>

Closes #2735 from comcmipi/patch-1 and squashes the following commits:

b6d8001 [comcmipi] Update RecoverableNetworkWordCount.scala
96fe274 [comcmipi] Update RecoverableNetworkWordCount.scala
[SPARK-4312] bash doesn't have "die"

sbt-launch-lib.bash includes `die` command but it's not valid command for Linux, MacOS X or Windows.

Closes #2898

Author: Jey Kottalam <jey@kottalam.net>

Closes #3182 from sarutak/SPARK-4312 and squashes the following commits:

24c6677 [Jey Kottalam] bash doesn't have "die"
SPARK-4230. Doc for spark.default.parallelism is incorrect

Author: Sandy Ryza <sandy@cloudera.com>

Closes #3107 from sryza/sandy-spark-4230 and squashes the following commits:

37a1d19 [Sandy Ryza] Clear up a couple things
34d53de [Sandy Ryza] SPARK-4230. Doc for spark.default.parallelism is incorrect
SPARK-1297 Upgrade HBase dependency to 0.98

pwendell rxin
Please take a look

Author: tedyu <yuzhihong@gmail.com>

Closes #3115 from tedyu/master and squashes the following commits:

2b079c8 [tedyu] SPARK-1297 Upgrade HBase dependency to 0.98
[SPARK-4047] - Generate runtime warnings for example implementation of PageRank

Based on SPARK-2434, this PR generates runtime warnings for example implementations (Python, Scala) of PageRank.

Author: Varadharajan Mukundan <srinathsmn@gmail.com>

Closes #2894 from varadharajan/SPARK-4047 and squashes the following commits:

5f9406b [Varadharajan Mukundan] [SPARK-4047] - Point users to LogisticRegressionWithSGD and LogisticRegressionWithLBFGS instead of LogisticRegressionModel
252f595 [Varadharajan Mukundan] a. Generate runtime warnings for
05a018b [Varadharajan Mukundan] Fix PageRank implementation's package reference
5c2bf54 [Varadharajan Mukundan] [SPARK-4047] - Generate runtime warnings for example implementation of PageRank
Revert "[SPARK-2703][Core]Make Tachyon related unit tests execute without deploying a Tachyon system locally."

This reverts commit bd86cb1738800a0aa4c88b9afdba2f97ac6cbf25.
[SPARK-4319][SQL] Enable an ignored test "null count".

Author: Takuya UESHIN <ueshin@happy-camper.st>

Closes #3185 from ueshin/issues/SPARK-4319 and squashes the following commits:

a44a38e [Takuya UESHIN] Enable an ignored test "null count".
[SPARK-4000][Build] Uploads HiveCompatibilitySuite logs

This is a follow up of #2845. In addition to unit-tests.log files, also upload failure output files generated by `HiveCompatibilitySuite` to Jenkins master. These files can be very helpful to debug Hive compatibility test failures.

/cc pwendell marmbrus

Author: Cheng Lian <lian@databricks.com>

Closes #2993 from liancheng/upload-hive-compat-logs and squashes the following commits:

8e6247f [Cheng Lian] Uploads HiveCompatibilitySuite logs
[SPARK-4308][SQL] Sets SQL operation state to ERROR when exception is thrown

In `HiveThriftServer2`, when an exception is thrown during a SQL execution, the SQL operation state should be set to `ERROR`, but now it remains `RUNNING`. This affects the result of the `GetOperationStatus` Thrift API.

Author: Cheng Lian <lian@databricks.com>

Closes #3175 from liancheng/fix-op-state and squashes the following commits:

6d4c1fe [Cheng Lian] Sets SQL operation state to ERROR when exception is thrown
[SQL] remove a decimal case branch that has no effect at runtime

it generates warnings at compile time marmbrus

Author: Xiangrui Meng <meng@databricks.com>

Closes #3192 from mengxr/dtc-decimal and squashes the following commits:

955e9fb [Xiangrui Meng] remove a decimal case branch that has no effect