[ADAM-1889] Run R/Python tests.

[fnothaft]

Resolves #1889.

Let's see if this does it...

[heuermh]

I seem to recall skipping python tests was intentional?

Sorry, this was the thread I was mis-remembering...
https://gitter.im/bigdatagenomics/adam?at=5a01ec9d976e63937e3b5202

... which refers to #1800

[akmorrow13]

Why would we want to skip python tests? This would result in merging broken code.

[heuermh]

I dunno, git blame points to commit 7e92b9d and before that commit 640c44b and before that commit c34a440, so it's always been that way

[fnothaft]

Nope, not intentional, just a goof on my end.

[AmplabJenkins]

Test FAILed.
Refer to this link for build results (access rights to CI server needed):
https://amplab.cs.berkeley.edu/jenkins//job/ADAM-prb/2602/

Build result: FAILURE

[...truncated 7 lines...] > /home/jenkins/git2/bin/git init /home/jenkins/workspace/ADAM-prb # timeout=10Fetching upstream changes from https://github.com/bigdatagenomics/adam.git > /home/jenkins/git2/bin/git --version # timeout=10 > /home/jenkins/git2/bin/git fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/heads/:refs/remotes/origin/ # timeout=15 > /home/jenkins/git2/bin/git config remote.origin.url https://github.com/bigdatagenomics/adam.git # timeout=10 > /home/jenkins/git2/bin/git config --add remote.origin.fetch +refs/heads/:refs/remotes/origin/ # timeout=10 > /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 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/1890/merge^{commit} # timeout=10 > /home/jenkins/git2/bin/git branch -a -v --no-abbrev --contains 307fec4 # timeout=10Checking out Revision 307fec4 (origin/pr/1890/merge) > /home/jenkins/git2/bin/git config core.sparsecheckout # timeout=10 > /home/jenkins/git2/bin/git checkout -f 307fec48d25a927beb2179d3c7dea0052f139db1First time build. Skipping changelog.Triggering ADAM-prb ? 2.7.3,2.11,2.2.1,centosTriggering ADAM-prb ? 2.6.2,2.10,2.2.1,centosTriggering ADAM-prb ? 2.7.3,2.10,2.2.1,centosTriggering ADAM-prb ? 2.6.2,2.11,2.2.1,centosADAM-prb ? 2.7.3,2.11,2.2.1,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,2.2.1,centos completed with result SUCCESSADAM-prb ? 2.7.3,2.10,2.2.1,centos completed with result SUCCESSADAM-prb ? 2.6.2,2.11,2.2.1,centos completed with result FAILURENotifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'
Test FAILed.

[coveralls]

Coverage remained the same at 82.707% when pulling c696772 on fnothaft:issues/1889-python-r-tests into adff336 on bigdatagenomics:master.

[akmorrow13]

@fnothaft do you have residual code for python ReferenceRegion that wasn't merged or should we write this from scratch?

[fnothaft]

do you have residual code for python ReferenceRegion that wasn't merged or should we write this from scratch?

Yeah, let me find it. I think it is on my Berkeley laptop.

[akmorrow13]

Closing in favor of #1892