Fix bug in VertexPartition.isActive

This took me ~5 hours to find!
Revert "Add debug logging to Pregel"

This reverts commit e62013cdd92137507a96b6a5b347a1d239209587.
Avoid re-creating the view RDDs multiple times

Previously, successive operations that support incremental view
maintenance would inadvertently recreate previous view RDDs by calling
VTableReplicated.get(), which created the RDDs anew though they were
already cached. This change memoizes the RDDs and separates the process
of shipping active-set information to an existing view.
Merge remote-tracking branch 'upstream/master' into mrTriplets-active-set

Updates standalone PageRank to work with the new API.
Remove debug printing from PregelSuite
Remove commented code
Merge pull request #84 from amatsukawa/graphlab_enhancements

GraphLab bug fix & set start vertex
Fix typo
Merge remote-tracking branch 'upstream/master'
Making IPython PySpark compatible across versions <1.0.0. Also cleaned up '-i' option and made IPYTHON_OPTS work
Use CoarseGrainedExecutorBackend in spark-class
Use scala.binary.version in POMs
Merge pull request #264 from shivaram/spark-class-fix

Use CoarseGrainedExecutorBackend in spark-class
Merge pull request #257 from tgravescs/sparkYarnFixName

Fix the --name option for Spark on Yarn

Looks like the --name option accidentally got broken in one of the merges.  The Client hangs if the --name option is used right now.
Merge pull request #256 from MLnick/master

Fix 'IPYTHON=1 ./pyspark' throwing ValueError

This fixes an annoying issue where running ```IPYTHON=1 ./pyspark``` resulted in:

```
Welcome to
      ____              __
     / __/__  ___ _____/ /__
    _\ \/ _ \/ _ `/ __/  '_/
   /__ / .__/\_,_/_/ /_/\_\   version 0.8.0
      /_/

Using Python version 2.7.5 (default, Jun 20 2013 11:06:30)
Spark context avaiable as sc.
---------------------------------------------------------------------------
ValueError                                Traceback (most recent call last)
/usr/local/lib/python2.7/site-packages/IPython/utils/py3compat.pyc in execfile(fname, *where)
    202             else:
    203                 filename = fname
--> 204             __builtin__.execfile(filename, *where)

/Users/Nick/workspace/scala/spark-0.8.0-incubating-bin-hadoop1/python/pyspark/shell.py in <module>()
     30 add_files = os.environ.get("ADD_FILES").split(',') if os.environ.get("ADD_FILES") != None else None
     31
---> 32 sc = SparkContext(os.environ.get("MASTER", "local"), "PySparkShell", pyFiles=add_files)
     33
     34 print """Welcome to

/Users/Nick/workspace/scala/spark-0.8.0-incubating-bin-hadoop1/python/pyspark/context.pyc in __init__(self, master, jobName, sparkHome, pyFiles, environment, batchSize)
     70         with SparkContext._lock:
     71             if SparkContext._active_spark_context:
---> 72                 raise ValueError("Cannot run multiple SparkContexts at once")
     73             else:
     74                 SparkContext._active_spark_context = self

ValueError: Cannot run multiple SparkContexts at once
```

The issue arises since previously IPython didn't seem to respect ```$PYTHONSTARTUP```, but since at least 1.0.0 it has. Technically this might break for older versions of IPython, but most users should be able to upgrade IPython to at least 1.0.0 (and should be encouraged to do so :).

New behaviour:
```
Nicks-MacBook-Pro:incubator-spark-mlnick Nick$ IPYTHON=1 ./pyspark
Python 2.7.5 (default, Jun 20 2013, 11:06:30)
Type "copyright", "credits" or "license" for more information.

IPython 1.1.0 -- An enhanced Interactive Python.
?         -> Introduction and overview of IPython's features.
%quickref -> Quick reference.
help      -> Python's own help system.
object?   -> Details about 'object', use 'object??' for extra details.
SLF4J: Class path contains multiple SLF4J bindings.
SLF4J: Found binding in [jar:file:/Users/Nick/workspace/scala/incubator-spark-mlnick/tools/target/scala-2.9.3/spark-tools-assembly-0.9.0-incubating-SNAPSHOT.jar!/org/slf4j/impl/StaticLoggerBinder.class]
SLF4J: Found binding in [jar:file:/Users/Nick/workspace/scala/incubator-spark-mlnick/assembly/target/scala-2.9.3/spark-assembly-0.9.0-incubating-SNAPSHOT-hadoop1.0.4.jar!/org/slf4j/impl/StaticLoggerBinder.class]
SLF4J: See http://www.slf4j.org/codes.html#multiple_bindings for an explanation.
SLF4J: Actual binding is of type [org.slf4j.impl.Log4jLoggerFactory]
13/12/12 13:08:15 WARN Utils: Your hostname, Nicks-MacBook-Pro.local resolves to a loopback address: 127.0.0.1; using 10.0.0.4 instead (on interface en0)
13/12/12 13:08:15 WARN Utils: Set SPARK_LOCAL_IP if you need to bind to another address
13/12/12 13:08:15 INFO Slf4jEventHandler: Slf4jEventHandler started
13/12/12 13:08:15 INFO SparkEnv: Registering BlockManagerMaster
13/12/12 13:08:15 INFO DiskBlockManager: Created local directory at /var/folders/_l/06wxljt13wqgm7r08jlc44_r0000gn/T/spark-local-20131212130815-0e76
13/12/12 13:08:15 INFO MemoryStore: MemoryStore started with capacity 326.7 MB.
13/12/12 13:08:15 INFO ConnectionManager: Bound socket to port 53732 with id = ConnectionManagerId(10.0.0.4,53732)
13/12/12 13:08:15 INFO BlockManagerMaster: Trying to register BlockManager
13/12/12 13:08:15 INFO BlockManagerMasterActor$BlockManagerInfo: Registering block manager 10.0.0.4:53732 with 326.7 MB RAM
13/12/12 13:08:15 INFO BlockManagerMaster: Registered BlockManager
13/12/12 13:08:15 INFO HttpBroadcast: Broadcast server started at http://10.0.0.4:53733
13/12/12 13:08:15 INFO SparkEnv: Registering MapOutputTracker
13/12/12 13:08:15 INFO HttpFileServer: HTTP File server directory is /var/folders/_l/06wxljt13wqgm7r08jlc44_r0000gn/T/spark-8f40e897-8211-4628-a7a8-755562d5244c
13/12/12 13:08:16 INFO SparkUI: Started Spark Web UI at http://10.0.0.4:4040
2013-12-12 13:08:16.337 java[56801:4003] Unable to load realm info from SCDynamicStore
Welcome to
      ____              __
     / __/__  ___ _____/ /__
    _\ \/ _ \/ _ `/ __/  '_/
   /__ / .__/\_,_/_/ /_/\_\   version 0.9.0-SNAPSHOT
      /_/

Using Python version 2.7.5 (default, Jun 20 2013 11:06:30)
Spark context avaiable as sc.
```
Unrolled while loop in readVarLong.

(cherry picked from commit 45ffb1ae3c0527aae50502741a3585c411875b9a)
Signed-off-by: Ankur Dave <ankurdave@gmail.com>
Use murmur3 hash for open hashset.

(cherry picked from commit 212ff6834515543163aa63a3f4f762ebe641f8ca)
Signed-off-by: Ankur Dave <ankurdave@gmail.com>
Merge pull request #103 from amplab/optimizations

Optimizations cherry-picked from SIGMOD branches
Fix Cygwin support in several scripts.

This allows the spark-shell, spark-class, run-example, make-distribution.sh,
and ./bin/start-* scripts to work under Cygwin.  Note that this doesn't
support PySpark under Cygwin, since that requires many additional `cygpath`
calls from within Python and will be non-trivial to implement.

This PR was inspired by, and subsumes, #253 (so close #253 after this is merged).
Merge pull request #265 from markhamstra/scala.binary.version

DRY out the POMs with scala.binary.version

...instead of hard-coding 2.10 repeatedly.

As long as it's not a `<project>`-level `<artifactId>`, I think that we are okay parameterizing these.