int refinePixelStatitics() {
stampIPOs();
int[][] pixelsTemp = m_pnPixels;
m_pnPixels = m_pnPixelsCompensated;
m_cIMSC.reset();
int len = m_cIMSC.m_nTotalSteps + 1;
int i, c, step = 0;
Point p = m_cIMSC.getPosition();
int index = 0;
ImageShape shape;
Histogram hist;
double mean, median;
int y, y0 = 0;
int pixel, nRef;
double dsur;
int numRings = m_cvRings.size();
while (true) {
p = m_cIMSC.getPosition();
y = p.y;
if (y > y0)
IJ.showStatus(
"refinePixelStatistics "
+ PrintAssist.ToString(y)
+ "-th line of "
+ PrintAssist.ToString(h)
+ " lines!");
index = getPercentileIndex(step);
dsur = m_pcRingMeanSems_Mean[index][m_nRMax].mean;
ImageShapeHandler.copyElements(m_pnPixelsCompensated, m_pnPixelsTemp, m_cvRings, p);
for (i = 0; i < numRings; i++) {
pixel = (int) (m_pcRingMeanSems_Mean[index][i].mean - dsur);
if (pixel < 1) break;
shape = m_cvRings.get(i);
shape.setCenter(p);
ImageShapeHandler.addValue(m_pnPixelsTemp, shape, pixel);
}
nRef =
(int) ImageShapeHandler.getMean(m_pnPixelsTemp, m_cRefRing, m_pnStamp, m_nExcludingType);
CommonMethods.fillHistogram(
m_pnPixelsTemp,
nRef,
m_cvRings.get(numRings - 1),
p,
m_cvHists.get(numRings - 1),
m_pnStamp,
m_nExcludingType);
CommonMethods.fillHistograms(m_pnPixelsTemp, nRef, m_cvRings, p, m_cvHists);
for (i = 0; i < numRings; i++) {
hist = m_cvHists.get(i);
mean = hist.getMeanSem().mean;
median = hist.getPercentileValue();
m_pdRingMean[step][i] = mean;
m_pdRingMedian[step][i] = median;
}
// m_pnPixels_trail[step]=m_pnPixelsTemp[p.y][p.x]-nRef;
if (m_cIMSC.done()) break;
m_cIMSC.move();
step++;
}
for (c = 0; c < numRings; c++) {
m_pcMeanSems_Median[c] = CommonStatisticsMethods.buildMeanSem(m_pdRingMedian, c);
m_pcMeanSems_Mean[c] = CommonStatisticsMethods.buildMeanSem(m_pdRingMean, c);
}
if (m_bPresetPoints) {
len = pixelsOfPresetPoints.size();
int num = len / m_nPercentileDivision;
int rI, rF;
for (i = 0; i < m_nPercentileDivision; i++) {
rI = Math.max(0, (int) ((i - .5) * num));
rF = Math.min(len - 1, (int) ((i + .5) * num));
for (c = 0; c < numRings; c++) {
m_pcRingMeanSems_Median[i][c] =
CommonStatisticsMethods.buildMeanSem(m_pdRingMedian, rI, rF, 1, c);
m_pcRingMeanSems_Mean[i][c] =
CommonStatisticsMethods.buildMeanSem(m_pdRingMean, rI, rF, 1, c);
}
}
}
m_pnPixels = pixelsTemp;
return 1;
}
void calPixelStatistics() {
calRefPixels();
int len = m_cIMSC.m_nTotalSteps + 1;
int numRings = m_cvRings.size();
m_pdRingMean = new double[len][numRings];
m_pdRingMedian = new double[len][numRings];
int i, c;
Point p = m_cIMSC.getPosition();
int index = 0;
// ImageShape shape;
Histogram hist;
double mean, median;
int y, y0 = 0;
int nRef;
while (true) {
p = m_cIMSC.getPosition();
y = p.y;
if (y > y0)
IJ.showStatus(
"calPixelStatistics "
+ PrintAssist.ToString(y)
+ "-th line of "
+ PrintAssist.ToString(h)
+ " lines!");
// m_cRefRing.setCenter(p);
nRef = getRefPixel(p);
CommonMethods.fillHistograms(m_pnPixels, nRef, m_cvRings, p, m_cvHists);
for (i = 0; i <= m_nRMax; i++) {
hist = m_cvHists.get(i);
mean = hist.getMeanSem().mean;
median = hist.getPercentileValue();
m_pdRingMean[index][i] = mean;
m_pdRingMedian[index][i] = median;
}
if (m_cIMSC.done()) break;
m_cIMSC.move();
index++;
}
m_cPixelMeanSems = CommonStatisticsMethods.buildMeanSem(m_pnPixelsLR);
// m_cPixelMeanSem_trail=CommonStatisticsMethods.buildMeanSem(m_pnPixels_trail);
for (c = 0; c <= m_nRMax; c++) {
m_pcMeanSems_Median[c] = CommonStatisticsMethods.buildMeanSem(m_pdRingMedian, c);
m_pcMeanSems_Mean[c] = CommonStatisticsMethods.buildMeanSem(m_pdRingMean, c);
}
if (m_bPresetPoints) {
len = pixelsOfPresetPoints.size();
int num = len / m_nPercentileDivision;
int rI, rF;
for (i = 0; i < m_nPercentileDivision; i++) {
rI = Math.max(0, (int) ((i - .5) * num));
rF = Math.min(len - 1, (int) ((i + .5) * num));
//
// m_cPixelMeanSems_trail[i]=CommonStatisticsMethods.buildMeanSem(m_pnPixels_trail,rI,rF,1);
for (c = 0; c < numRings; c++) {
m_pcRingMeanSems_Median[i][c] =
CommonStatisticsMethods.buildMeanSem(m_pdRingMedian, rI, rF, 1, c);
m_pcRingMeanSems_Mean[i][c] =
CommonStatisticsMethods.buildMeanSem(m_pdRingMean, rI, rF, 1, c);
}
}
}
}