Added switches to spark context creation code to allow buffer size increase and increased logging for profiling.
Merge pull request #161 from fnothaft/context-debug

Added switches to spark context creation code
Add util.BuildInformation and buildinfo command

This is a first attempt at #41.

- adam-core: Add git-commit plugin to POM file. The file is generated
is `adam-core/src/main/resources/git.properties` and the info is
available in the object
`edu.berkeley.cs.amplab.adam.core.util.BuildInformation`.
- adam-cli: Add the command `buildinfo`.
Merge pull request #138 from smondet/git_properties

Display Git commit info on command line
Remove extraneous initLogging() calls
Upgrade to Spark 0.9 and Scala 2.10
Workaround apparent changes to implicit resolution
Upgrade to Java 7. Resolves #134
Upgrade to Parquet 1.3.2. Resolves #94
Merge pull request #78 from jey/spark-0.9-upgrade

Upgrade to Spark 0.9 and Scala 2.10
Refactoring FASTA work to break contig sizes.
Merge pull request #160 from fnothaft/fix-fasta-large

Refactoring FASTA work to break contig sizes.
Merge branch 'master' of https://github.com/bigdatagenomics/adam into changes-for-avocado-to-build

Conflicts:
	adam-core/src/main/scala/edu/berkeley/cs/amplab/adam/rdd/AdamContext.scala
	adam-core/src/main/scala/edu/berkeley/cs/amplab/adam/rdd/variation/ADAMVariationContext.scala
	adam-core/src/main/scala/edu/berkeley/cs/amplab/adam/rdd/variation/ADAMVariationRDDFunctions.scala
	pom.xml