#385 Problem saving GAME XML as GFF

[Brian O.]

- Saving GAME XML as GFF:
(Do we need a merged tiers file? If so, can we make tiers that contain
no data not show up in the Types panel, so it's not so cluttered?)
Saves GAME as GFF ok, loads GFF ok, but when I click on one of the
annotations (which is unhelpfully named "feature_set:33") and try to
zoom to it (ctrl-Z), I get an exception:
java.lang.StringIndexOutOfBoundsException: String index out of range: -15589396
at java.lang.String.substring(String.java:1444)
at apollo.datamodel.Sequence.getResiduesImpl(Sequence.java:95)
When I had it print start, end, and residueOffset, I got:
start = 16065177, end = 16067462, residueOffset = 0
How is it supposed to know that there's a residueOffset? How does it
normally figure this out in GFF, which doesn't have a map element like
GAME does?