[ADAM-194] Use separate filtersFailed and filtersPassed arrays for variant quality filters

[heuermh]

Fixes #194
Depends on bigdatagenomics/bdg-formats#88

[AmplabJenkins]

Test FAILed.
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Build result: FAILURE

GitHub pull request #1075 of commit 006ab04 automatically merged.Notifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'[EnvInject] - Loading node environment variables.Building remotely on amp-jenkins-worker-05 (centos spark-test) in workspace /home/jenkins/workspace/ADAM-prb > /home/jenkins/git2/bin/git rev-parse --is-inside-work-tree # timeout=10Fetching changes from the remote Git repository > /home/jenkins/git2/bin/git config remote.origin.url https://github.com/bigdatagenomics/adam.git # timeout=10Fetching upstream changes from https://github.com/bigdatagenomics/adam.git > /home/jenkins/git2/bin/git --version # timeout=10 > /home/jenkins/git2/bin/git -c core.askpass=true fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/pull/:refs/remotes/origin/pr/ # timeout=15 > /home/jenkins/git2/bin/git rev-parse origin/pr/1075/merge^{commit} # timeout=10 > /home/jenkins/git2/bin/git branch -a --contains 24c4491 # timeout=10 > /home/jenkins/git2/bin/git rev-parse remotes/origin/pr/1075/merge^{commit} # timeout=10Checking out Revision 24c4491 (origin/pr/1075/merge) > /home/jenkins/git2/bin/git config core.sparsecheckout # timeout=10 > /home/jenkins/git2/bin/git checkout -f 24c4491108f3fc1315142910700e6c24d5ce18beFirst time build. Skipping changelog.Triggering ADAM-prb ? 2.6.0,2.11,1.5.2,centosTriggering ADAM-prb ? 2.6.0,2.10,1.5.2,centosTouchstone configurations resulted in FAILURE, so aborting...Notifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'
Test FAILed.

[AmplabJenkins]

Test FAILed.
Refer to this link for build results (access rights to CI server needed):
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Build result: FAILURE

GitHub pull request #1075 of commit 37e1673 automatically merged.Notifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'[EnvInject] - Loading node environment variables.Building remotely on amp-jenkins-worker-05 (centos spark-test) in workspace /home/jenkins/workspace/ADAM-prb > /home/jenkins/git2/bin/git rev-parse --is-inside-work-tree # timeout=10Fetching changes from the remote Git repository > /home/jenkins/git2/bin/git config remote.origin.url https://github.com/bigdatagenomics/adam.git # timeout=10Fetching upstream changes from https://github.com/bigdatagenomics/adam.git > /home/jenkins/git2/bin/git --version # timeout=10 > /home/jenkins/git2/bin/git -c core.askpass=true fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/pull/:refs/remotes/origin/pr/ # timeout=15 > /home/jenkins/git2/bin/git rev-parse origin/pr/1075/merge^{commit} # timeout=10 > /home/jenkins/git2/bin/git branch -a --contains ab7b8cf # timeout=10 > /home/jenkins/git2/bin/git rev-parse remotes/origin/pr/1075/merge^{commit} # timeout=10Checking out Revision ab7b8cf (origin/pr/1075/merge) > /home/jenkins/git2/bin/git config core.sparsecheckout # timeout=10 > /home/jenkins/git2/bin/git checkout -f ab7b8cfd5c52da0925e8a2a6dff41130b27572c4First time build. Skipping changelog.Triggering ADAM-prb ? 2.6.0,2.11,1.5.2,centosTriggering ADAM-prb ? 2.6.0,2.10,1.5.2,centosTouchstone configurations resulted in FAILURE, so aborting...Notifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'
Test FAILed.

[heuermh]

In order for this to build cleanly, it needs a specific snapshot version (not the latest one, in other words) of bdg-formats. Should I close this pull request and move the commit over to #1078?

[heuermh]

I believe I was able to properly cherry-pick the commit here to #1078. Feel free to reopen if I git-borked it up.