[SPARK-546] Add full outer join to RDD and DStream.

leftOuterJoin and rightOuterJoin are already implemented.  This patch adds fullOuterJoin.

Author: Aaron Staple <aaron.staple@gmail.com>

Closes #1395 from staple/SPARK-546 and squashes the following commits:

1f5595c [Aaron Staple] Fix python style
7ac0aa9 [Aaron Staple] [SPARK-546] Add full outer join to RDD and DStream.
3b5d137 [Aaron Staple] In JavaPairDStream, make class tag specification in rightOuterJoin consistent with other functions.
31f2956 [Aaron Staple] Fix left outer join documentation comments.
[SPARK-2778] [yarn] Add yarn integration tests.

This patch adds a couple of, currently, very simple integration tests
to make sure both client and cluster modes are working. The tests don't
do much yet other than run a simple job, but the plan is to enhance
them after we get the framework in.

The cluster tests are noisy, so redirect all log output to a file
like other tests do. Copying the conf around sucks but it's less
work than messing with maven/sbt and having to clean up other
projects.

Note the test is only added for yarn-stable. The code compiles
against yarn-alpha but there are two issues I ran into that I
could not overcome:
- an old netty dependency kept creeping into the classpath and
  causing akka to not work, when using sbt; the old netty was
  correctly suppressed under maven.
- MiniYARNCluster kept failing to execute containers because it
  did not create the NM's local dir itself; this is apparently
  a known behavior, but I'm not sure how to work around it.

None of those issues are present with the stable Yarn.

Also, these tests are a little slow to run. Apparently Spark doesn't
yet tag tests (so that these could be isolated in a "slow" batch),
so this is something to keep in mind.

Author: Marcelo Vanzin <vanzin@cloudera.com>

Closes #2257 from vanzin/yarn-tests and squashes the following commits:

6d5b84e [Marcelo Vanzin] Fix wrong system property being set.
8b0933d [Marcelo Vanzin] Merge branch 'master' into yarn-tests
5c2b56f [Marcelo Vanzin] Use custom log4j conf for Yarn containers.
ec73f17 [Marcelo Vanzin] More review feedback.
67f5b02 [Marcelo Vanzin] Review feedback.
f01517c [Marcelo Vanzin] Review feedback.
68fbbbf [Marcelo Vanzin] Use older constructor available in older Hadoop releases.
d07ef9a [Marcelo Vanzin] Merge branch 'master' into yarn-tests
add8416 [Marcelo Vanzin] [SPARK-2778] [yarn] Add yarn integration tests.
SPARK-2932 [STREAMING] Move MasterFailureTest out of "main" source directory

(HT @vanzin) Whatever the reason was for having this test class in `main`, if there is one, appear to be moot. This may have been a result of earlier streaming test reorganization.

This simply puts `MasterFailureTest` back under `test/`, removes some redundant copied code, and touches up a few tiny inspection warnings along the way.

Author: Sean Owen <sowen@cloudera.com>

Closes #2399 from srowen/SPARK-2932 and squashes the following commits:

3909411 [Sean Owen] Move MasterFailureTest to src/test, and remove redundant TestOutputStream
[SPARK-3690] Closing shuffle writers we swallow more important exception

Author: epahomov <pahomov.egor@gmail.com>

Closes #2537 from epahomov/SPARK-3690 and squashes the following commits:

a0b7de4 [epahomov] [SPARK-3690] Closing shuffle writers we swallow more important exception
[SPARK-1484][MLLIB] Warn when running an iterative algorithm on uncached data.

Add warnings to KMeans, GeneralizedLinearAlgorithm, and computeSVD when called with input data that is not cached. KMeans is implemented iteratively, and I believe that GeneralizedLinearAlgorithm’s current optimizers are iterative and its future optimizers are also likely to be iterative. RowMatrix’s computeSVD is iterative against an RDD when run in DistARPACK mode. ALS and DecisionTree are iterative as well, but they implement RDD caching internally so do not require a warning.

I added a warning to GeneralizedLinearAlgorithm rather than inside its optimizers, where the iteration actually occurs, because internally GeneralizedLinearAlgorithm maps its input data to an uncached RDD before passing it to an optimizer. (In other words, the warning would be printed for every GeneralizedLinearAlgorithm run, regardless of whether its input is cached, if the warning were in GradientDescent or other optimizer.) I assume that use of an uncached RDD by GeneralizedLinearAlgorithm is intentional, and that the mapping there (adding label, intercepts and scaling) is a lightweight operation. Arguably a user calling an optimizer such as GradientDescent will be knowledgable enough to cache their data without needing a log warning, so lack of a warning in the optimizers may be ok.

Some of the documentation examples making use of these iterative algorithms did not cache their training RDDs (while others did). I updated the examples to always cache. I also fixed some (unrelated) minor errors in the documentation examples.

Author: Aaron Staple <aaron.staple@gmail.com>

Closes #2347 from staple/SPARK-1484 and squashes the following commits:

bd49701 [Aaron Staple] Address review comments.
ab2d4a4 [Aaron Staple] Disable warnings on python code path.
a7a0f99 [Aaron Staple] Change code comments per review comments.
7cca1dc [Aaron Staple] Change warning message text.
c77e939 [Aaron Staple] [SPARK-1484][MLLIB] Warn when running an iterative algorithm on uncached data.
3b6c511 [Aaron Staple] Minor doc example fixes.
[SPARK-3584] sbin/slaves doesn't work when we use password authentication for SSH

Author: Kousuke Saruta <sarutak@oss.nttdata.co.jp>

Closes #2444 from sarutak/slaves-scripts-modification and squashes the following commits:

eff7394 [Kousuke Saruta] Improve the description about Cluster Launch Script in docs/spark-standalone.md
7858225 [Kousuke Saruta] Modified sbin/slaves to use the environment variable "SPARK_SSH_FOREGROUND" as a flag
53d7121 [Kousuke Saruta] Merge branch 'master' of git://git.apache.org/spark into slaves-scripts-modification
e570431 [Kousuke Saruta] Added a description for SPARK_SSH_FOREGROUND variable
7120a0c [Kousuke Saruta] Added a description about default host for sbin/slaves
1bba8a9 [Kousuke Saruta] Added SPARK_SSH_FOREGROUND flag to sbin/slaves
88e2f17 [Kousuke Saruta] Merge branch 'master' of git://git.apache.org/spark into slaves-scripts-modification
297e75d [Kousuke Saruta] Modified sbin/slaves not to export HOSTLIST
SPARK-2634: Change MapOutputTrackerWorker.mapStatuses to ConcurrentHashMap

MapOutputTrackerWorker.mapStatuses is used concurrently, it should be thread-safe. This bug has already been fixed in #1328. Nevertheless, considering #1328 won't be merged soon, I send this trivial fix and hope this issue can be solved soon.

Author: zsxwing <zsxwing@gmail.com>

Closes #1541 from zsxwing/SPARK-2634 and squashes the following commits:

d450053 [zsxwing] SPARK-2634: Change MapOutputTrackerWorker.mapStatuses to ConcurrentHashMap
[SPARK-3686][STREAMING] Wait for sink to commit the channel before check...

...ing for the channel size.

Author: Hari Shreedharan <hshreedharan@apache.org>

Closes #2531 from harishreedharan/sparksinksuite-fix and squashes the following commits:

30393c1 [Hari Shreedharan] Use more deterministic method to figure out when batches come in.
6ce9d8b [Hari Shreedharan] [SPARK-3686][STREAMING] Wait for sink to commit the channel before checking for the channel size.