gatk-3.8/scala
chartl b089d35b21 Fix expand intervals to do the right thing:
- No more duplicate intervals
 - Truncation at intervals that already exist, e.g.

exists:      |--------|           |-------|
new:               |---------|
fixed:                 |-----|

note that weird instances like:

exists:           |-|        |-|                  |-|
new:           |---------------------|
fixed:                          |----|

e.g. you're truncated to the nearest interval on whatever side. In general many behaviors could happen in this instance, this is the one currently implemented.



git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5323 348d0f76-0448-11de-a6fe-93d51630548a
2011-02-26 04:19:01 +00:00
..
qscript Fix expand intervals to do the right thing: 2011-02-26 04:19:01 +00:00
src/org/broadinstitute/sting Fix expand intervals to do the right thing: 2011-02-26 04:19:01 +00:00
test/org/broadinstitute/sting/queue While generating YAML now warning and skipping TSV rows that don't have all values. 2011-02-25 20:50:03 +00:00