[ADAM-543][ADAM-544] Fix issues with ADAM scripts and classpath

[laserson]

Note that this adds a Python utility script to bin/. Is this ok? Parsing the command line in bash just seemed so much less appetizing. This also has a workaround for SPARK-5185.

Fixes #543.
Fixes #544.

[fnothaft]

I'm OK with python.

[fnothaft]

Also, LGTM.

[AmplabJenkins]

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[AmplabJenkins]

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Build result: FAILURE

GitHub pull request #545 of commit 61ad74a automatically merged.[EnvInject] - Loading node environment variables.Building remotely on amp-jenkins-worker-05 (centos) in workspace /home/jenkins/workspace/ADAM-prb > git rev-parse --is-inside-work-tree # timeout=10Fetching changes from the remote Git repository > git config remote.origin.url https://github.com/bigdatagenomics/adam.git # timeout=10Fetching upstream changes from https://github.com/bigdatagenomics/adam.git > git --version # timeout=10 > git fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/pull/:refs/remotes/origin/pr/ > git rev-parse origin/pr/545/merge^{commit} # timeout=10Checking out Revision 086157c11730413e8a91e3dfe3bcce19af086df5 (detached) > git config core.sparsecheckout # timeout=10 > git checkout -f 086157c11730413e8a91e3dfe3bcce19af086df5 > git rev-list b409bd0004a00c2dac712b5c567963b3e013c8e3 # timeout=10Triggering ADAM-prb ? 2.2.0,centosTriggering ADAM-prb ? 1.0.4,centosTriggering ADAM-prb ? 2.3.0,centosADAM-prb ? 2.2.0,centos completed with result SUCCESSADAM-prb ? 1.0.4,centos completed with result FAILUREADAM-prb ? 2.3.0,centos completed with result SUCCESS
Test FAILed.

[laserson]

Jenkins, retest this please.

[AmplabJenkins]

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[fnothaft]

Merged! Thanks @laserson!