public Double getMaxSigma(XYPair pair) {
double mPulsar = pair.getX();
double mCompanion = pair.getY();
List<Double> sigmaList = new ArrayList<Double>();
List<Double> signedSigmaList = new ArrayList<Double>();
PKNames.remove(leastErrorPKName);
for (String name : PKNames) {
// if(name.equals(leastErrorPKName)) continue;
PKBean pkBean = pkBeanMap.get(name);
double value = PKBean.getValue(name, mPulsar, mCompanion);
double sigma = computeSigma(pkBean.getValueFixed(), value, pkBean.getErrorFixed());
sigmaList.add(Math.abs(sigma));
signedSigmaList.add(sigma);
}
return Collections.max(
sigmaList); // signedSigmaList.get(sigmaList.indexOf(Collections.max(sigmaList)));
}
public List<Polygon> getIntersections() throws InvalidBoundsException {
intersectionList.clear();
circlePoints.clear();
MMLine line = mmLinesMap.get(leastErrorPKName);
PKBean refPKBean = pkBeanMap.get(leastErrorPKName);
// inp.setNumPts(10);
Bounds bounds =
new Bounds(
refPKBean.getBounds().getMassMin(),
refPKBean.getBounds().getMassMax(),
intersectionNumPts,
false);
PKBean reference =
new PKBean(refPKBean.getName(), refPKBean.getValue(), refPKBean.getError(), bounds);
findIntersections(reference, line.getSigma());
return intersectionList;
}
public void populateData() throws InvalidBoundsException {
Set<Entry<String, PKBean>> pkBeanEntrySet = pkBeanMap.entrySet();
for (Entry<String, PKBean> pkBeanEntry : pkBeanEntrySet) {
MMLine line = mmLinesMap.get(pkBeanEntry.getKey());
PKBean pkBean = pkBeanEntry.getValue();
Double sigma = line.getSigma();
List<List<XYPair>> curve = pkBean.getCurves().get(sigma);
if (curve == null) {
curve = pkBean.computeCurvesForSigma(sigma);
pkBean.getCurves().put(sigma, curve); // review if this is needed.
}
addDataToLine(line, curve, line.getName());
}
if (inp.isPlotIntersection()) {
getIntersections();
} else {
circlePoints.clear();
}
}
public String getLeastErrorLine(PKBean line1, PKBean line2) {
if (line1 == null && line2 == null) return null;
if (line1 == null) return line2.getName();
if (line2 == null) return line1.getName();
// System.err.println(line1.getErrorPercent() + " " + line2.getErrorPercent());
if (Math.abs(line1.getErrorPercent()) < Math.abs(line2.getErrorPercent()))
return line1.getName();
return line2.getName();
}
public void initMMBean() throws InvalidBoundsException {
PKNames.clear();
circlePoints.clear();
PKBean.setAlpha(inp.getAlpha());
PKBean.setBeta(inp.getBeta());
PKBean.setEccintricity(inp.getEccintricity());
PKBean.setKa(inp.getKa());
PKBean.setPb(inp.getPb());
PKBean.setPbGal(inp.getPbGal());
PKBean.setPbKin(inp.getPbKin());
PKBean.setePbGal(inp.getePbGal());
PKBean.setePbKin(inp.getePbKin());
PKBean.setAlphaPulsar(inp.getAlphaPulsar());
PKBean.setAlphaCompanion(inp.getAlphaCompanion());
PKBean.setBetaPulsar(inp.getBetaPulsar());
PKBean.setBetaCompanion(inp.getBetaCompanion());
Bounds linBounds = new Bounds(inp.getMinMp(), inp.getMaxMp(), inp.getNumPts(), false);
Bounds logBounds = new Bounds(inp.getMinMp(), inp.getMaxMp(), inp.getNumPts(), true);
Bounds ratioBounds =
new Bounds(
inp.getMinMp() / inp.getMaxMp(),
inp.getMaxMp() / inp.getMinMp(),
inp.getNumPts(),
true);
Bounds ratioLinBounds =
new Bounds(
inp.getMinMp() / (double) inp.getMaxMp(),
inp.getMaxMp() / (double) inp.getMinMp(),
inp.getNumPts(),
false);
if (inp.isPlotMassFunc()) {
PKBean massFunc =
new PKBean(Constants.massfunc, inp.getMassFunc(), inp.geteMassFunc(), ratioBounds.copy());
MMLine massFuncLine = new MMLine(Constants.massfunc);
massFuncLine.setColor(Color.MEDIUMAQUAMARINE);
massFuncLine.setActive(true);
pkBeanMap.put(Constants.massfunc, massFunc);
mmLinesMap.put(Constants.massfunc, massFuncLine);
}
if (inp.isPlotMassRatio()) {
PKBean massRatio =
new PKBean(Constants.massratio, inp.getMassRatio(), inp.geteMassFunc(), linBounds.copy());
MMLine massRatioLine = new MMLine(Constants.massratio);
massRatioLine.setColor(Color.MEDIUMPURPLE);
massRatioLine.setActive(true);
pkBeanMap.put(Constants.massratio, massRatio);
mmLinesMap.put(Constants.massratio, massRatioLine);
leastErrorPKName = Constants.massratio;
PKNames.add(Constants.massratio);
// System.err.println("****** Least Error Line: "+leastErrorPKName);
}
if (inp.isPlotPbDot()) {
PKBean pbDot = new PKBean(Constants.pbdot, inp.getPbDot(), inp.getePbDot(), ratioBounds);
MMLine pbDotLine = new MMLine(Constants.pbdot);
pbDotLine.setColor(Color.MEDIUMVIOLETRED);
pbDotLine.setActive(true);
pkBeanMap.put(Constants.pbdot, pbDot);
mmLinesMap.put(Constants.pbdot, pbDotLine);
leastErrorPKName = getLeastErrorLine(pkBeanMap.get(leastErrorPKName), pbDot);
PKNames.add(Constants.pbdot);
// System.err.println("****** Least Error Line: "+leastErrorPKName);
// PKBean pbDotFreire = new PKBean(Constants.pbdotFreire, inp.getPbDot(), inp.getePbDot(),
// ratioLinBounds.copy());
// MMLine pbDotFreireLine = new MMLine(Constants.pbdotFreire);
// pbDotFreireLine.setColor(Color.MEDIUMAQUAMARINE);
// pbDotFreireLine.setActive(true);
// pkBeanMap.put(Constants.pbdotFreire, pbDotFreire);
// mmLinesMap.put(Constants.pbdotFreire, pbDotFreireLine);
// System.err.println("****** Least Error Line: "+leastErrorPKName);
//
}
if (inp.isPlotOmDot()) {
PKBean omDot =
new PKBean(Constants.omdot, inp.getOmDot(), inp.geteOmDot(), ratioBounds.copy());
MMLine omDotLine = new MMLine(Constants.omdot);
omDotLine.setColor(Color.DARKGOLDENROD);
omDotLine.setActive(true);
pkBeanMap.put(Constants.omdot, omDot);
mmLinesMap.put(Constants.omdot, omDotLine);
leastErrorPKName = getLeastErrorLine(pkBeanMap.get(leastErrorPKName), omDot);
PKNames.add(Constants.omdot);
// System.err.println("****** Least Error Line: "+leastErrorPKName);
}
if (inp.isPlotGamma()) {
PKBean gamma =
new PKBean(Constants.gamma, inp.getGamma(), inp.geteGamma(), ratioBounds.copy());
MMLine gammaLine = new MMLine(Constants.gamma);
gammaLine.setColor(Color.DARKSALMON);
gammaLine.setActive(true);
pkBeanMap.put(Constants.gamma, gamma);
mmLinesMap.put(Constants.gamma, gammaLine);
leastErrorPKName = getLeastErrorLine(pkBeanMap.get(leastErrorPKName), gamma);
PKNames.add(Constants.gamma);
// System.err.println("****** Least Error Line: "+leastErrorPKName);
}
// System.err.println("mmLinesMap"+mmLinesMap.size());
}
public void findIntersections2(PKBean refPKBean, Double refSigma, Double minSigma)
throws InvalidBoundsException {
Double startX = null;
Double endX = null;
XYPair positiveStartPair = null;
XYPair negativeStartPair = null;
XYPair positiveEndPair = null;
XYPair negativeEndPair = null;
boolean insideMinSigma = false;
boolean signChanged = false;
List<XYPair> positiveRefCurve = refPKBean.getCurveForSigma(refSigma);
List<XYPair> negativeRefCurve = refPKBean.getCurveForSigma(-refSigma);
if (positiveRefCurve.size() > 0)
for (int i = 1; i < positiveRefCurve.size(); i++) {
XYPair positivePt = positiveRefCurve.get(i);
XYPair negativePt = negativeRefCurve.get(i);
XYPair positivePtPrev = positiveRefCurve.get(i - 1);
XYPair negativePtPrev = negativeRefCurve.get(i - 1);
double positiveMaxSigma = getMaxSigma(positivePt);
double negativeMaxSigma = getMaxSigma(negativePt);
double positiveMaxSigmaPrev = getMaxSigma(positivePtPrev);
double negativeMaxSigmaPrev = getMaxSigma(negativePtPrev);
if ((positiveMaxSigmaPrev <= 0 && positiveMaxSigma >= 0
|| positiveMaxSigmaPrev >= 0 && positiveMaxSigma <= 0
|| negativeMaxSigmaPrev <= 0 && negativeMaxSigma >= 0
|| negativeMaxSigmaPrev >= 0 && negativeMaxSigma <= 0)) {
signChanged = true;
/* sign of sigma changes but no point is within minsigma*/
if (startX == null) {
startX = Math.min(positivePtPrev.getX(), negativePtPrev.getX());
positiveStartPair = positivePtPrev;
negativeStartPair = negativePtPrev;
}
endX = Math.min(positivePt.getX(), negativePt.getX());
positiveEndPair = positivePt;
negativeEndPair = negativePt;
Bounds bounds = new Bounds(startX, endX, inp.getNumPts(), false);
PKBean subRefPKBean =
new PKBean(leastErrorPKName, refPKBean.getValue(), refPKBean.getError(), bounds);
System.err.println(
"sign changed:"
+ positiveMaxSigma
+ " "
+ +positiveMaxSigmaPrev
+ " "
+ positiveMaxSigma
+ " "
+ negativeMaxSigmaPrev
+ " minSigma: "
+ minSigma);
findIntersections(subRefPKBean, refSigma, minSigma);
startX = null;
}
System.err.println(
"positiveMaxSigma: "
+ positiveMaxSigma
+ " negativeMaxSigma: "
+ negativeMaxSigma
+ " minSigma: "
+ minSigma);
if ((Math.abs(positiveMaxSigma) < minSigma || Math.abs(negativeMaxSigma) < minSigma)) {
insideMinSigma = true;
if (startX == null) {
startX = Math.min(positivePtPrev.getX(), negativePtPrev.getX());
positiveStartPair = positivePtPrev;
negativeStartPair = negativePtPrev;
System.err.println(
"Selected start"
+ " positiveMaxSigma: "
+ positiveMaxSigmaPrev
+ " negativeMaxSigma: "
+ negativeMaxSigmaPrev
+ " minSigma: "
+ minSigma);
}
} else {
if (startX != null && insideMinSigma) {
insideMinSigma = false;
endX = Math.min(positivePt.getX(), negativePt.getX());
System.err.println(
"Selected end"
+ " positiveMaxSigma: "
+ positiveMaxSigma
+ " negativeMaxSigma: "
+ negativeMaxSigma
+ " minSigma: "
+ minSigma);
positiveEndPair = positivePt;
negativeEndPair = negativePt;
if (minSigma > 1) {
System.err.println(
"minSigma:" + minSigma + " " + Math.abs((startX - endX) / inp.numPts));
if (Math.abs((startX - endX) / inp.numPts) > epsilon) {
Bounds bounds = new Bounds(startX, endX, inp.getNumPts(), false);
PKBean subRefPKBean =
new PKBean(
leastErrorPKName, refPKBean.getValue(), refPKBean.getError(), bounds);
findIntersections(subRefPKBean, refSigma, minSigma - 1);
startX = null;
} else {
Bounds bounds =
new Bounds(
startX,
endX,
Math.round((float) (Math.abs((startX - endX)) / epsilon)),
false);
PKBean subRefPKBean =
new PKBean(
leastErrorPKName, refPKBean.getValue(), refPKBean.getError(), bounds);
findIntersections(subRefPKBean, refSigma, 1.0);
startX = null;
}
} else {
if (Math.abs((startX - endX) / inp.numPts) > epsilon) {
Bounds bounds = new Bounds(startX, endX, inp.getNumPts(), false);
PKBean subRefPKBean =
new PKBean(
leastErrorPKName, refPKBean.getValue(), refPKBean.getError(), bounds);
findIntersections(subRefPKBean, refSigma, 1.0);
startX = null;
} else {
Polygon polygon = new Polygon();
polygon
.getPoints()
.addAll(
new Double[] {
positiveStartPair.getX(), positiveStartPair.getY(),
positiveEndPair.getX(), positiveEndPair.getY(),
negativeStartPair.getX(), negativeStartPair.getY(),
negativeEndPair.getX(), negativeEndPair.getY()
});
intersectionList.add(polygon);
}
}
}
}
}
}
public void findIntersections(PKBean refPKBean, Double refSigma, Double minSigma)
throws InvalidBoundsException {
Double startX = null;
Double endX = null;
List<XYPair> posRef = refPKBean.getCurveForSigma(refSigma);
List<XYPair> negRef = refPKBean.getCurveForSigma(-refSigma);
List<Double> posMaxSig = new ArrayList<Double>();
List<Double> negMaxSig = new ArrayList<Double>();
for (int i = 0; i < posRef.size(); i++) {
posMaxSig.add(getMaxSigma(posRef.get(i)));
negMaxSig.add(getMaxSigma(negRef.get(i)));
}
if (posRef.size() > 0 && negRef.size() > 0 && posRef.size() == negRef.size()) {
for (int i = 1; i < posRef.size() - 1; i++) {
XYPair posNow = posRef.get(i);
XYPair negNow = negRef.get(i);
double posMaxSigNow = posMaxSig.get(i);
double negMaxSigNow = negMaxSig.get(i);
XYPair posNext = posRef.get(i + 1);
XYPair negNext = negRef.get(i + 1);
double posMaxSigNext = posMaxSig.get(i + 1);
double negMaxSigNext = negMaxSig.get(i + 1);
XYPair posPrev = posRef.get(i - 1);
XYPair negPrev = negRef.get(i - 1);
double posMaxSigPrev = posMaxSig.get(i - 1);
double negMaxSigPrev = negMaxSig.get(i - 1);
// find if the difference changes sign meaning the intersecting curve is changing course.
// System.err.println(posPrev + " "+ posNow+ " "+posNext + " "+posMaxSigPrev + "
// "+posMaxSigNow + " "+posMaxSigNext + " "
// +Math.signum(posMaxSigPrev-posMaxSigNow)+ " "+Math.signum(posMaxSigNow-posMaxSigNext));
if ((Math.signum(posMaxSigPrev - posMaxSigNow) != Math.signum(posMaxSigNow - posMaxSigNext))
|| (Math.signum(negMaxSigPrev - negMaxSigNow)
!= Math.signum(negMaxSigNow - negMaxSigNext))) {
startX = Math.min(posPrev.getX(), negPrev.getX());
endX = Math.min(posNext.getX(), negNext.getX());
// System.err.println("Turns! "+posMaxSigPrev + " "+posMaxSigNow + " "+posMaxSigNext + "
// "+startX+" "+endX + " " +Math.abs((startX-endX)/inp.numPts));
if (Math.abs((startX - endX) / inp.numPts) > epsilon) {
Bounds bounds = new Bounds(startX, endX, inp.getNumPts(), false);
PKBean subRefPKBean =
new PKBean(leastErrorPKName, refPKBean.getValue(), refPKBean.getError(), bounds);
findIntersections(subRefPKBean, refSigma, minSigma);
// System.err.println("came out"+ startX+ " " + endX);
} else {
if (posMaxSigNow < 1 || negMaxSigNow < 1) {
Polygon polygon = new Polygon();
polygon
.getPoints()
.addAll(
new Double[] {
posPrev.getX(), posPrev.getY(),
posNext.getX(), posNext.getY(),
negPrev.getX(), negPrev.getY(),
negNext.getX(), negNext.getY()
});
// System.err.println("Polygon" + polygon.getPoints());
intersectionList.add(polygon);
} else {
System.err.println(posMaxSigNow + " " + negMaxSigNow);
}
}
}
/* find if the individual sigma changes sign*/
// else if( (Math.signum(posMaxSigPrev)==Math.signum(posMaxSigNow)) ||
// (Math.signum(negMaxSigPrev)==Math.signum(negMaxSigNow)) ){
//
// }
}
}
}
public void findIntersections(PKBean refPKBean, Double refSigma) {
List<List<XYPair>> reference = refPKBean.getCurvesForSigma(refSigma);
PKNames.remove(leastErrorPKName);
// System.err.println("Inside:" +PKNames);
for (List<XYPair> ref : reference) {
Map<String, List<Set<XYPair>>> intersectionsMap = new HashMap<String, List<Set<XYPair>>>();
for (String name : PKNames) {
boolean storing = false;
int storingStartIndex = 0;
List<Set<XYPair>> intersectingSections = new ArrayList<Set<XYPair>>();
PKBean pkBean = pkBeanMap.get(name);
for (int i = 0; i < ref.size() - 1; i++) {
XYPair posNow = ref.get(i);
XYPair posNext = ref.get(i + 1);
if (PKBean.getValue(Constants.massfunc, posNext.getX(), posNext.getY())
< inp.getMassFunc()) {
if (!storing) continue;
else {
storing = false;
Set<XYPair> intersection = new HashSet<XYPair>(ref.subList(storingStartIndex, i));
intersectingSections.add(intersection);
}
}
double valueNow = PKBean.getValue(name, posNow.getX(), posNow.getY());
double sigmaNow = computeSigma(pkBean.getValueFixed(), valueNow, pkBean.getErrorFixed());
double valueNext = PKBean.getValue(name, posNext.getX(), posNext.getY());
double sigmaNext =
computeSigma(pkBean.getValueFixed(), valueNext, pkBean.getErrorFixed());
if (Math.abs(sigmaNow) > 1 && Math.abs(sigmaNext) < 1) {
storing = true;
storingStartIndex = i + 1;
} else if (storing && Math.abs(sigmaNow) < 1 && Math.abs(sigmaNext) > 1) {
storing = false;
Set<XYPair> intersection = new HashSet<XYPair>(ref.subList(storingStartIndex, i));
intersectingSections.add(intersection);
}
}
intersectionsMap.put(name, intersectingSections);
}
List<Set<XYPair>> initial = intersectionsMap.get(PKNames.get(0));
for (Set<XYPair> initialSet : initial) {
List<Set<XYPair>> intersections = new ArrayList<Set<XYPair>>();
for (int i = 1; i < PKNames.size(); i++) {
List<Set<XYPair>> iter = intersectionsMap.get(PKNames.get(i));
Set<XYPair> small, big;
Set<XYPair> res = new HashSet<XYPair>();
for (Set<XYPair> iterSet : iter) {
if (initialSet.size() <= iterSet.size()) {
small = initialSet;
big = iterSet;
} else {
small = iterSet;
big = initialSet;
}
for (XYPair s : small) {
if (big.contains(s)) {
res.add(s);
}
}
}
if (res.size() > 0) intersections.add(res);
}
if (intersections.size() == PKNames.size() - 1) {
// System.err.println("We have an intersection.");
for (Set<XYPair> set : intersections) {
circlePoints.addAll(set);
}
}
}
}
}