String mask = "0";
int maxWidth = 0;
int tmp;
- AlignmentI alignment=av.getAlignment();
+ AlignmentI alignment = av.getAlignment();
for (int i = 0; i < alignment.getHeight(); i++)
{
tmp = alignment.getSequenceAt(i).getEnd();
if ((group == null) && (av.getAlignment().getGroups().size() > 0))
{
- group = (SequenceGroup) av.getAlignment().getGroups().elementAt(0);
+ group = (SequenceGroup) av.getAlignment().getGroups().get(0);
groupIndex = 0;
}
{
if ((bottom == -1)
&& (i >= alHeight || !group.getSequences(null)
- .contains(av.getAlignment().getSequenceAt(i + 1))))
+ .contains(
+ av.getAlignment().getSequenceAt(i + 1))))
{
bottom = sy + av.charHeight;
}
break;
}
- group = (SequenceGroup) av.getAlignment().getGroups().elementAt(
- groupIndex);
+ group = (SequenceGroup) av.getAlignment().getGroups()
+ .get(groupIndex);
} while (groupIndex < av.getAlignment().getGroups().size());
}