SPARK-1189: Add Security to Spark - Akka, Http, ConnectionManager, UI use servlets

resubmit pull request.  was https://github.com/apache/incubator-spark/pull/332.

Author: Thomas Graves <tgraves@apache.org>

Closes #33 from tgravescs/security-branch-0.9-with-client-rebase and squashes the following commits:

dfe3918 [Thomas Graves] Fix merge conflict since startUserClass now using runAsUser
05eebed [Thomas Graves] Fix dependency lost in upmerge
d1040ec [Thomas Graves] Fix up various imports
05ff5e0 [Thomas Graves] Fix up imports after upmerging to master
ac046b3 [Thomas Graves] Merge remote-tracking branch 'upstream/master' into security-branch-0.9-with-client-rebase
13733e1 [Thomas Graves] Pass securityManager and SparkConf around where we can. Switch to use sparkConf for reading config whereever possible. Added ConnectionManagerSuite unit tests.
4a57acc [Thomas Graves] Change UI createHandler routines to createServlet since they now return servlets
2f77147 [Thomas Graves] Rework from comments
50dd9f2 [Thomas Graves] fix header in SecurityManager
ecbfb65 [Thomas Graves] Fix spacing and formatting
b514bec [Thomas Graves] Fix reference to config
ed3d1c1 [Thomas Graves] Add security.md
6f7ddf3 [Thomas Graves] Convert SaslClient and SaslServer to scala, change spark.authenticate.ui to spark.ui.acls.enable, and fix up various other things from review comments
2d9e23e [Thomas Graves] Merge remote-tracking branch 'upstream/master' into security-branch-0.9-with-client-rebase_rework
5721c5a [Thomas Graves] update AkkaUtilsSuite test for the actorSelection changes, fix typos based on comments, and remove extra lines I missed in rebase from AkkaUtils
f351763 [Thomas Graves] Add Security to Spark - Akka, Http, ConnectionManager, UI to use servlets
SPARK-1197. Change yarn-standalone to yarn-cluster and fix up running on YARN docs

This patch changes "yarn-standalone" to "yarn-cluster" (but still supports the former).  It also cleans up the Running on YARN docs and adds a section on how to view logs.

Author: Sandy Ryza <sandy@cloudera.com>

Closes #95 from sryza/sandy-spark-1197 and squashes the following commits:

563ef3a [Sandy Ryza] Review feedback
6ad06d4 [Sandy Ryza] Change yarn-standalone to yarn-cluster and fix up running on YARN docs
Example for cassandra CQL read/write from spark

Cassandra read/write using CqlPagingInputFormat/CqlOutputFormat

Author: anitatailor <tailor.anita@gmail.com>

Closes #87 from anitatailor/master and squashes the following commits:

3493f81 [anitatailor] Fixed scala style as per review
19480b7 [anitatailor] Example for cassandra CQL read/write from spark
Small clean-up to flatmap tests
SPARK-1136: Fix FaultToleranceTest for Docker 0.8.1

This patch allows the FaultToleranceTest to work in newer versions of Docker.
See https://spark-project.atlassian.net/browse/SPARK-1136 for more details.

Besides changing the Docker and FaultToleranceTest internals, this patch also changes the behavior of Master to accept new Workers which share an address with a Worker that we are currently trying to recover. This can only happen when the Worker itself was restarted and got the same IP address/port at the same time as a Master recovery occurs.

Finally, this adds a good bit of ASCII art to the test to make failures, successes, and actions more apparent. This is very much needed.

Author: Aaron Davidson <aaron@databricks.com>

Closes #5 from aarondav/zookeeper and squashes the following commits:

5d7a72a [Aaron Davidson] SPARK-1136: Fix FaultToleranceTest for Docker 0.8.1
SPARK-1195: set map_input_file environment variable in PipedRDD

Hadoop uses the config mapreduce.map.input.file to indicate the input filename to the map when the input split is of type FileSplit. Some of the hadoop input and output formats set or use this config. This config can also be used by user code.
PipedRDD runs an external process and the configs aren't available to that process. Hadoop Streaming does something very similar and the way they make configs available is exporting them into the environment replacing '.' with '_'. Spark should also export this variable when launching the pipe command so the user code has access to that config.
Note that the config mapreduce.map.input.file is the new one, the old one which is deprecated but not yet removed is map.input.file. So we should handle both.

Perhaps it would be better to abstract this out somehow so it goes into the HadoopParition code?

Author: Thomas Graves <tgraves@apache.org>

Closes #94 from tgravescs/map_input_file and squashes the following commits:

cc97a6a [Thomas Graves] Update test to check for existence of command, add a getPipeEnvVars function to HadoopRDD
e3401dc [Thomas Graves] Merge remote-tracking branch 'upstream/master' into map_input_file
2ba805e [Thomas Graves] set map_input_file environment variable in PipedRDD
Spark 1165 rdd.intersection in python and java

Author: Prashant Sharma <prashant.s@imaginea.com>
Author: Prashant Sharma <scrapcodes@gmail.com>

Closes #80 from ScrapCodes/SPARK-1165/RDD.intersection and squashes the following commits:

9b015e9 [Prashant Sharma] Added a note, shuffle is required for intersection.
1fea813 [Prashant Sharma] correct the lines wrapping
d0c71f3 [Prashant Sharma] SPARK-1165 RDD.intersection in java
d6effee [Prashant Sharma] SPARK-1165 Implemented RDD.intersection in python.
SPARK-1193. Fix indentation in pom.xmls

Author: Sandy Ryza <sandy@cloudera.com>

Closes #91 from sryza/sandy-spark-1193 and squashes the following commits:

a878124 [Sandy Ryza] SPARK-1193. Fix indentation in pom.xmls
Allow sbt to use more than 1G of heap.

There was a mistake in sbt build file ( introduced by 012bd5fbc97dc40bb61e0e2b9cc97ed0083f37f6 ) in which we set the default to 2048 and the immediately reset it to 1024.

Without this, building Spark can run out of permgen space on my machine.

Author: Reynold Xin <rxin@apache.org>

Closes #103 from rxin/sbt and squashes the following commits:

8829c34 [Reynold Xin] Allow sbt to use more than 1G of heap.
[SPARK-1194] Fix the same-RDD rule for cache replacement

SPARK-1194: https://spark-project.atlassian.net/browse/SPARK-1194

In the current implementation, when selecting candidate blocks to be swapped out, once we find a block from the same RDD that the block to be stored belongs to, cache eviction fails  and aborts.

In this PR, we keep selecting blocks *not* from the RDD that the block to be stored belongs to until either enough free space can be ensured (cache eviction succeeds) or all such blocks are checked (cache eviction fails).

Author: Cheng Lian <lian.cs.zju@gmail.com>

Closes #96 from liancheng/fix-spark-1194 and squashes the following commits:

2524ab9 [Cheng Lian] Added regression test case for SPARK-1194
6e40c22 [Cheng Lian] Remove redundant comments
40cdcb2 [Cheng Lian] Bug fix, and addressed PR comments from @mridulm
62c92ac [Cheng Lian] Fixed SPARK-1194 https://spark-project.atlassian.net/browse/SPARK-1194
Update junitxml plugin to the latest version to avoid recompilation in every SBT command.

Author: Reynold Xin <rxin@apache.org>

Closes #104 from rxin/junitxml and squashes the following commits:

67ef7bf [Reynold Xin] Update junitxml plugin to the latest version to avoid recompilation in every SBT command.
SPARK-1190: Do not initialize log4j if slf4j log4j backend is not being used

Author: Patrick Wendell <pwendell@gmail.com>

Closes #107 from pwendell/logging and squashes the following commits:

be21c11 [Patrick Wendell] Logging fix
SPARK-929: Fully deprecate usage of SPARK_MEM

(Continued from old repo, prior discussion at https://github.com/apache/incubator-spark/pull/615)

This patch cements our deprecation of the SPARK_MEM environment variable by replacing it with three more specialized variables:
SPARK_DAEMON_MEMORY, SPARK_EXECUTOR_MEMORY, and SPARK_DRIVER_MEMORY

The creation of the latter two variables means that we can safely set driver/job memory without accidentally setting the executor memory. Neither is public.

SPARK_EXECUTOR_MEMORY is only used by the Mesos scheduler (and set within SparkContext). The proper way of configuring executor memory is through the "spark.executor.memory" property.

SPARK_DRIVER_MEMORY is the new way of specifying the amount of memory run by jobs launched by spark-class, without possibly affecting executor memory.

Other memory considerations:
- The repl's memory can be set through the "--drivermem" command-line option, which really just sets SPARK_DRIVER_MEMORY.
- run-example doesn't use spark-class, so the only way to modify examples' memory is actually an unusual use of SPARK_JAVA_OPTS (which is normally overriden in all cases by spark-class).

This patch also fixes a lurking bug where spark-shell misused spark-class (the first argument is supposed to be the main class name, not java options), as well as a bug in the Windows spark-class2.cmd. I have not yet tested this patch on either Windows or Mesos, however.

Author: Aaron Davidson <aaron@databricks.com>

Closes #99 from aarondav/sparkmem and squashes the following commits:

9df4c68 [Aaron Davidson] SPARK-929: Fully deprecate usage of SPARK_MEM
Add timeout for fetch file

    Currently, when fetch a file, the connection's connect timeout
    and read timeout is based on the default jvm setting, in this change, I change it to
    use spark.worker.timeout. This can be usefull, when the
    connection status between worker is not perfect. And prevent
    prematurely remove task set.

Author: Jiacheng Guo <guojc03@gmail.com>

Closes #98 from guojc/master and squashes the following commits:

abfe698 [Jiacheng Guo] add space according request
2a37c34 [Jiacheng Guo] Add timeout for fetch file     Currently, when fetch a file, the connection's connect timeout     and read timeout is based on the default jvm setting, in this change, I change it to     use spark.worker.timeout. This can be usefull, when the     connection status between worker is not perfect. And prevent     prematurely remove task set.
Fix markup errors introduced in #33 (SPARK-1189)

These were causing errors on the configuration page.

Author: Patrick Wendell <pwendell@gmail.com>

Closes #111 from pwendell/master and squashes the following commits:

8467a86 [Patrick Wendell] Fix markup errors introduced in #33 (SPARK-1189)
SPARK-782 Clean up for ASM dependency.

This makes two changes.

1) Spark uses the shaded version of asm that is (conveniently) published
   with Kryo.
2) Existing exclude rules around asm are updated to reflect the new groupId
   of `org.ow2.asm`. This made all of the old rules not work with newer Hadoop
   versions that pull in new asm versions.

Author: Patrick Wendell <pwendell@gmail.com>

Closes #100 from pwendell/asm and squashes the following commits:

9235f3f [Patrick Wendell] SPARK-782 Clean up for ASM dependency.
maintain arbitrary state data for each key

RT

Author: Chen Chao <crazyjvm@gmail.com>

Closes #114 from CrazyJvm/patch-1 and squashes the following commits:

dcb0df5 [Chen Chao] maintain arbitrary state data for each key
SPARK-977 Added Python RDD.zip function

was raised earlier as a part of  apache/incubator-spark#486

Author: Prabin Banka <prabin.banka@imaginea.com>

Closes #76 from prabinb/python-api-zip and squashes the following commits:

b1a31a0 [Prabin Banka] Added Python RDD.zip function
[SPARK-972] Added detailed callsite info for ValueError in context.py (resubmitted)

Author: jyotiska <jyotiska123@gmail.com>

Closes #34 from jyotiska/pyspark_code and squashes the following commits:

c9439be [jyotiska] replaced dict with namedtuple
a6bf4cd [jyotiska] added callsite info for context.py
SPARK-1168, Added foldByKey to pyspark.

Author: Prashant Sharma <prashant.s@imaginea.com>

Closes #115 from ScrapCodes/SPARK-1168/pyspark-foldByKey and squashes the following commits:

db6f67e [Prashant Sharma] SPARK-1168, Added foldByKey to pyspark.