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bigdatagenomics / adam / 3068

Build:
DEFAULT BRANCH: master
Ran 17 Oct 2017 08:02PM UTC
Jobs 8
Files 140
Run time 2min
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Michael L Heuer
[ADAM-1680] Eliminate non-determinism in the ShuffleRegionJoin.

Resolves #1680. In the existing shuffle region join code, the partition
start/stop boundaries are determined by sorting the data and looking at the
coordinates of the first and last record on each partition. This is done via a
sampling process, which is fundamentally non-deterministic. Once these partition
bounds are picked, we replicate records from the right side of the join into the
partitions they overlap. There was a bug in this step that led to records being
dropped from the first partition of each contig (except for the first contig).
This was due to a bug in how the IntervalArray was being used to search for
repartitioning bounds.

This PR replaces the interval array with a map between contig names and the
partitions that contain their data. The first and last partition of each contig
are extended to the start/end of each contig.

6286 of 7562 relevant lines covered (83.13%)

6.62 hits per line

Jobs
ID Job ID Ran Files Coverage
1 3068.1 17 Oct 2017 08:02PM UTC 0
82.74
2 3068.2 17 Oct 2017 08:02PM UTC 0
82.73
3 3068.3 17 Oct 2017 08:02PM UTC 0
82.74
4 3068.4 17 Oct 2017 08:03PM UTC 0
82.73
5 3068.5 17 Oct 2017 08:03PM UTC 0
82.84
6 3068.6 17 Oct 2017 08:04PM UTC 0
82.85
7 3068.7 17 Oct 2017 08:04PM UTC 0
82.85
8 3068.8 17 Oct 2017 08:04PM UTC 0
82.84
Source Files on build 3068
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