Examples with FitEngineConfiguration gdsc.smlm.engine.FitEngineConfiguration used on opensource projects

Example 21 with FitEngineConfiguration

use of gdsc.smlm.engine.FitEngineConfiguration in project GDSC-SMLM by aherbert.

the class SettingsManager method unsafeLoadFitEngineConfiguration.

/**
	 * Load the configuration within the specified file
	 * 
	 * @param filename
	 * @return The configuration (or null)
	 */
public static FitEngineConfiguration unsafeLoadFitEngineConfiguration(String filename) {
    XStream xs = createXStream();
    FitEngineConfiguration config = null;
    FileInputStream fs = null;
    try {
        fs = new FileInputStream(filename);
        config = (FitEngineConfiguration) xs.fromXML(fs);
    } catch (ClassCastException ex) {
    //ex.printStackTrace();
    } catch (FileNotFoundException ex) {
    //ex.printStackTrace();
    } catch (XStreamException ex) {
        ex.printStackTrace();
    } finally {
        if (fs != null) {
            try {
                fs.close();
            } catch (IOException e) {
                e.printStackTrace();
            }
        }
    }
    return config;
}

Example 22 with FitEngineConfiguration

use of gdsc.smlm.engine.FitEngineConfiguration in project GDSC-SMLM by aherbert.

the class SpotInspector method getStandardDeviation.

private float getStandardDeviation(MemoryPeakResults results2) {
    // Standard deviation is only needed for the width filtering
    if (sortOrderIndex != 8)
        return 0;
    FitEngineConfiguration config = (FitEngineConfiguration) XmlUtils.fromXML(results.getConfiguration());
    if (config == null || config.getFitConfiguration() == null) {
        return -1;
    }
    FitConfiguration fitConfig = config.getFitConfiguration();
    float stdDevMax = (float) ((fitConfig.getInitialPeakStdDev0() > 0) ? fitConfig.getInitialPeakStdDev0() : 1);
    if (fitConfig.getInitialPeakStdDev1() > 0)
        stdDevMax = (float) FastMath.max(fitConfig.getInitialPeakStdDev1(), stdDevMax);
    return stdDevMax;
}