SPARK-1167: Remove metrics-ganglia from default build due to LGPL issues...

This patch removes Ganglia integration from the default build. It
allows users willing to link against LGPL code to use Ganglia
by adding build flags or linking against a new Spark artifact called
spark-ganglia-lgpl.

This brings Spark in line with the Apache policy on LGPL code
enumerated here:

https://www.apache.org/legal/3party.html#options-optional

Author: Patrick Wendell <pwendell@gmail.com>

Closes #108 from pwendell/ganglia and squashes the following commits:

326712a [Patrick Wendell] Responding to review feedback
5f28ee4 [Patrick Wendell] SPARK-1167: Remove metrics-ganglia from default build due to LGPL issues.
SPARK-1064

This reopens PR 649 from incubator-spark against the new repo

Author: Sandy Ryza <sandy@cloudera.com>

Closes #102 from sryza/sandy-spark-1064 and squashes the following commits:

270e490 [Sandy Ryza] Handle different application classpath variables in different versions
88b04e0 [Sandy Ryza] SPARK-1064. Make it possible to run on YARN without bundling Hadoop jars in Spark assembly
Spark-1163, Added missing Python RDD functions

Author: prabinb <prabin.banka@imaginea.com>

Closes #92 from prabinb/python-api-rdd and squashes the following commits:

51129ca [prabinb] Added missing Python RDD functions Added __repr__ function to StorageLevel class. Added doctest for RDD.getStorageLevel().
[SPARK-1232] Fix the hadoop 0.23 yarn build

Author: Thomas Graves <tgraves@apache.org>

Closes #127 from tgravescs/SPARK-1232 and squashes the following commits:

c05cfd4 [Thomas Graves] Fix the hadoop 0.23 yarn build
[SPARK-1233] Fix running hadoop 0.23 due to java.lang.NoSuchFieldException: DEFAULT_M...

...APREDUCE_APPLICATION_CLASSPATH

Author: Thomas Graves <tgraves@apache.org>

Closes #129 from tgravescs/SPARK-1233 and squashes the following commits:

85ff5a6 [Thomas Graves] Fix running hadoop 0.23 due to java.lang.NoSuchFieldException: DEFAULT_MAPREDUCE_APPLICATION_CLASSPATH
Fix #SPARK-1149 Bad partitioners can cause Spark to hang

Author: liguoqiang <liguoqiang@rd.tuan800.com>

Closes #44 from witgo/SPARK-1149 and squashes the following commits:

3dcdcaf [liguoqiang] Merge branch 'master' into SPARK-1149
8425395 [liguoqiang] Merge remote-tracking branch 'upstream/master' into SPARK-1149
3dad595 [liguoqiang] review comment
e3e56aa [liguoqiang] Merge branch 'master' into SPARK-1149
b0d5c07 [liguoqiang] review comment
d0a6005 [liguoqiang] review comment
3395ee7 [liguoqiang] Merge remote-tracking branch 'upstream/master' into SPARK-1149
ac006a3 [liguoqiang] code Formatting
3feb3a8 [liguoqiang] Merge branch 'master' into SPARK-1149
adc443e [liguoqiang] partitions check  bugfix
928e1e3 [liguoqiang] Added a unit test for PairRDDFunctions.lookup with bad partitioner
db6ecc5 [liguoqiang] Merge branch 'master' into SPARK-1149
1e3331e [liguoqiang] Merge branch 'master' into SPARK-1149
3348619 [liguoqiang] Optimize performance for partitions check
61e5a87 [liguoqiang] Merge branch 'master' into SPARK-1149
e68210a [liguoqiang] add partition index check to submitJob
3a65903 [liguoqiang] make the code more readable
6bb725e [liguoqiang] fix #SPARK-1149 Bad partitioners can cause Spark to hang
SPARK-1162 Added top in python.

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

Closes #93 from ScrapCodes/SPARK-1162/pyspark-top-takeOrdered and squashes the following commits:

ece1fa4 [Prashant Sharma] Added top in python.
SPARK-1160: Deprecate toArray in RDD

https://spark-project.atlassian.net/browse/SPARK-1160

reported by @mateiz: "It's redundant with collect() and the name doesn't make sense in Java, where we return a List (we can't return an array due to the way Java generics work). It's also missing in Python."

In this patch, I deprecated the method and changed the source files using it by replacing toArray with collect() directly

Author: CodingCat <zhunansjtu@gmail.com>

Closes #105 from CodingCat/SPARK-1060 and squashes the following commits:

286f163 [CodingCat] deprecate in JavaRDDLike
ee17b4e [CodingCat] add message and since
2ff7319 [CodingCat] deprecate toArray in RDD
Fix example bug: compile error

Author: jianghan <jianghan@xiaomi.com>

Closes #132 from pooorman/master and squashes the following commits:

54afbe0 [jianghan] Fix example bug: compile error
hot fix for PR105 - change to Java annotation

Author: CodingCat <zhunansjtu@gmail.com>

Closes #133 from CodingCat/SPARK-1160-2 and squashes the following commits:

6607155 [CodingCat] hot fix for PR105 - change to Java annotation
SPARK-1019: pyspark RDD take() throws an NPE

Author: Patrick Wendell <pwendell@gmail.com>

Closes #112 from pwendell/pyspark-take and squashes the following commits:

daae80e [Patrick Wendell] SPARK-1019: pyspark RDD take() throws an NPE
[SPARK-1237, 1238] Improve the computation of YtY for implicit ALS

Computing YtY can be implemented using BLAS's DSPR operations instead of generating y_i y_i^T and then combining them. The latter generates many k-by-k matrices. On the movielens data, this change improves the performance by 10-20%. The algorithm remains the same, verified by computing RMSE on the movielens data.

To compare the results, I also added an option to set a random seed in ALS.

JIRA:
1. https://spark-project.atlassian.net/browse/SPARK-1237
2. https://spark-project.atlassian.net/browse/SPARK-1238

Author: Xiangrui Meng <meng@databricks.com>

Closes #131 from mengxr/als and squashes the following commits:

ed00432 [Xiangrui Meng] minor changes
d984623 [Xiangrui Meng] minor changes
2fc1641 [Xiangrui Meng] remove commented code
4c7cde2 [Xiangrui Meng] allow specifying a random seed in ALS
200bef0 [Xiangrui Meng] optimize computeYtY and updateBlock
SPARK-1183. Don't use "worker" to mean executor

Author: Sandy Ryza <sandy@cloudera.com>

Closes #120 from sryza/sandy-spark-1183 and squashes the following commits:

5066a4a [Sandy Ryza] Remove "worker" in a couple comments
0bd1e46 [Sandy Ryza] Remove --am-class from usage
bfc8fe0 [Sandy Ryza] Remove am-class from doc and fix yarn-alpha
607539f [Sandy Ryza] Address review comments
74d087a [Sandy Ryza] SPARK-1183. Don't use "worker" to mean executor
SPARK-1236 - Upgrade Jetty to 9.1.3.v20140225.

Author: Reynold Xin <rxin@apache.org>

Closes #113 from rxin/jetty9 and squashes the following commits:

867a2ce [Reynold Xin] Updated Jetty version to 9.1.3.v20140225 in Maven build file.
d7c97ca [Reynold Xin] Return the correctly bound port.
d14706f [Reynold Xin] Upgrade Jetty to 9.1.3.v20140225.
[bugfix] wrong client arg, should use executor-cores

client arg is wrong, it should be executor-cores. it causes executor fail to start when executor-cores is specified

Author: Tianshuo Deng <tdeng@twitter.com>

Closes #138 from tsdeng/bugfix_wrong_client_args and squashes the following commits:

304826d [Tianshuo Deng] wrong client arg, should use executor-cores