Merge pull request #131 from RosettaCommons/rhiju/change_swm_rna_o2prime_phosphate_packing_defaults
Rhiju/change swm rna o2prime phosphate packing defaults
Tests did finish here:
<a href="http://benchmark.graylab.jhu.edu/revision?id=380&branch=">http://benchmark.graylab.jhu.edu/revision?id=380&branch=</a>
This is a really minor update in some flags, and highly isolated to stepwise code. All integration test changes in integration.release are expected, except a few weird things remarked upon below.
@gideonla @sarelf Actually I'm not sure about splice_out_tail: http://benchmark.graylab.jhu.edu/sub_test/6409795
You might have an uninitialized variable -- some boolean or Size in a class that is either not initialized or cloned properly. I tracked one issue down previously in the splice_ tests, but won't have time to do the same here...
@aleaverfay No clue why match_1ct2 keeps failing. The diffed lines look the same to me: <a href="http://benchmark.graylab.jhu.edu/sub_test/6409884">http://benchmark.graylab.jhu.edu/sub_test/6409884</a>.
@rfalford12 some of the score tests (like score_jd2) are showing erratic behavior in the display of 'total_score' vs. 'score' columns in .fsc files. Only seems to show up in integration.release_debug, not integration.release comparisons. Probably an uninitialized variable -- I didn't track down fully but saw that you recently made some updates to SilentFileJobOutputter. Let me know if you can't find the fix!