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Ran 18 Mar 2015 08:16PM UTC

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Committed 18 Mar 2015 08:08PM UTC coverage: 75.036% (-0.007%) from 75.043%

Job # TERM=dumb

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push

travis-pro

Committed by

droazen

Commit Message

Move SimpleInterval to hellbender, and add overlaps()/contains()/size() methods

-We've decided to develop SimpleInterval in hellbender for now so that we don't
 have to deal with the tricky politics of standardization across htsjdk (though
 we will eventually address this when we're ready).

-Locatable interface remains in htsjdk, so a small victory there.

-Added overlaps()/contains()/size() methods to SimpleInterval.

-Removed support for zero-length intervals for now, since none of our current
 query interfaces support it, and it complicates basic interval operations.
 Will open a ticket to investigate whether support for zero-length intervals
 will be needed given GA4GH query interfaces, future representation of
 insertions, etc.

Resolves #305

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