public synchronized void addProfile(Profile p) {
if (p.isStranded()) {
stranded = true;
}
if (p.length() != params.getNumBins()) {
throw new IllegalArgumentException(
String.format(
"Profile length %d doesn't" + " match bin-length %d",
p.length(), params.getNumBins()));
}
if (isNormalized()) {
throw new IllegalArgumentException("Can't add profile to a normalized MetaProfile");
}
if (profiles.contains(p)) {
/*throw new IllegalArgumentException(String.format(
"Can't add same profile %s to MetaProfile",
p.getName()));*/
} else {
profiles.add(p);
p.addProfileListener(this);
for (int i = 0; i < values.length; i++) {
values[i] += p.value(i);
max = Math.max(max, values[i]);
min = Math.min(min, values[i]);
}
dispatchChange(new ProfileEvent(this, p));
}
}
protected void recalculate() {
max = min = 0.0;
for (int i = 0; i < values.length; i++) {
values[i] = 0.0;
}
for (Profile p : profiles) {
for (int i = 0; i < values.length; i++) {
values[i] += p.value(i);
}
}
if (isNormalized()) {
for (int i = 0; i < values.length; i++) {
values[i] /= normalization;
max = Math.max(max, values[i]);
min = Math.min(min, values[i]);
}
}
}