use of uk.ac.sussex.gdsc.smlm.results.data.PeakResultDataCategory in project GDSC-SMLM by aherbert.
the class PeakResultTableModel method createTableStructure.
/**
* Called when the structure of the table should be created. If the structure has not changed or
* no live table are attached then this does nothing.
*
* @param changed Set to true if a property controlling the structure has changed
*/
private void createTableStructure(boolean changed) {
if (changed) {
columnsComputed.set(false);
}
// so it can be turned off by PeakResultTableModelFrame.
if (liveCount.get() == 0 || columnsComputed.get()) {
return;
}
columnsComputed.set(true);
rounder = RounderUtils.create(tableSettings.getRoundingPrecision());
// Create the converters
final PeakResultConversionHelper helper = new PeakResultConversionHelper(calibration, psf);
helper.setIntensityUnit(tableSettings.getIntensityUnit());
helper.setDistanceUnit(tableSettings.getDistanceUnit());
helper.setAngleUnit(tableSettings.getAngleUnit());
final Converter[] converters = helper.getConverters();
final Converter ic = converters[PeakResult.INTENSITY];
final String[] paramNames = helper.getNames();
final String[] unitNames = helper.getUnitNames();
// Calibration tableCalibration = (helper.isCalibrationChanged()) ? helper.getCalibration() :
// calibration;
// Organise the data columns.
// This is done as per the IJTablePeakResults for consistency
final LocalList<PeakResultData<?>> valuesList = new LocalList<>();
final LocalList<String> namesList = new LocalList<>();
rowCounter = tableSettings.getShowRowCounter();
if (rowCounter) {
valuesList.add(new PeakResultDataFrame());
namesList.add("#");
}
valuesList.add(new PeakResultDataFrame());
addName(valuesList, namesList);
if (showEndFrame) {
valuesList.add(new PeakResultDataEndFrame());
addName(valuesList, namesList);
}
if (showId) {
valuesList.add(new PeakResultDataId());
addName(valuesList, namesList);
}
if (showCategory) {
valuesList.add(new PeakResultDataCategory());
addName(valuesList, namesList);
}
if (tableSettings.getShowFittingData()) {
valuesList.add(new PeakResultDataOrigX());
addName(valuesList, namesList);
valuesList.add(new PeakResultDataOrigY());
addName(valuesList, namesList);
valuesList.add(new PeakResultDataOrigValue());
addName(valuesList, namesList);
valuesList.add(new PeakResultDataError());
addName(valuesList, namesList);
}
if (tableSettings.getShowNoiseData()) {
// Must be converted
valuesList.add(new PeakResultDataFloat() {
@Override
public Float getValue(PeakResult result) {
return ic.convert(result.getNoise());
}
});
addName("Noise", namesList, unitNames[PeakResult.INTENSITY]);
valuesList.add(new PeakResultDataFloat() {
@Override
public Float getValue(PeakResult result) {
return ic.convert(result.getMeanIntensity());
}
});
addName("Mean" + paramNames[PeakResult.INTENSITY], namesList, unitNames[PeakResult.INTENSITY]);
valuesList.add(new PeakResultDataSnr());
addName(valuesList, namesList);
}
int[] outIndices = SimpleArrayUtils.natural(converters.length);
if (!showZ) {
final TIntArrayList list = new TIntArrayList(outIndices);
list.remove(PeakResult.Z);
outIndices = list.toArray();
}
for (final int i : outIndices) {
// Must be converted
valuesList.add(new PeakResultDataParameterConverter(converters[i], i));
addName(paramNames[i], namesList, unitNames[i]);
if (showDeviations) {
valuesList.add(new PeakResultDataParameterDeviationConverter(converters[i], i));
namesList.add("+/-");
}
}
if (tableSettings.getShowPrecision()) {
PeakResultDataPrecision precision = null;
try {
final Gaussian2DPeakResultCalculator calculator = Gaussian2DPeakResultHelper.create(getPsf(), calibration, Gaussian2DPeakResultHelper.LSE_PRECISION);
precision = new PeakResultDataPrecision() {
@Override
public Double getValue(PeakResult result) {
if (result.hasPrecision()) {
return result.getPrecision();
}
if (calculator != null) {
return calculator.getLsePrecision(result.getParameters(), result.getNoise());
}
return 0.0;
}
};
} catch (final ConfigurationException | ConversionException ex) {
// Ignore
}
if (precision == null) {
precision = new PeakResultDataPrecision();
}
valuesList.add(precision);
namesList.add("Precision (nm)");
}
values = valuesList.toArray(new PeakResultData<?>[0]);
names = namesList.toArray(new String[0]);
fireTableStructureChanged();
}
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