/** @param family family info */
public SegregationBlock(final FamilyGt family) {
mSeq = family.seq();
mStart = family.posn();
mEnd = family.posn();
mPatterns = family.pattern();
mIsXlike = family.isXLike();
assert integrity();
}
/**
* Extend the block if it can be done and keep consistent phasing. Update the block phasing
* pattern if successful.
*
* @param family containing a set of calls.
* @return true iff the block was successfully extended.
*/
boolean extend(final FamilyGt family) {
final int length = family.length();
assert length == mPatterns.length();
assert family.posn() > mEnd;
assert mSeq.equals(family.seq());
final PatternArray pattern = family.pattern();
for (int f = 0; f < Pattern.NUMBER_FLIPS; f++) {
final PatternArray pat = mPatterns.flipIntersect(pattern, f);
if (pat != null) {
mPatterns = pat;
mEnd = family.posn();
mCount++;
return true;
}
}
return false;
}
