private void displayRoutine(
PatternFeatureID featureID, PatternFeature feature, double modelValue, double error) {
if (display) {
String displayString = "\t" + featureID;
if (feature.isRange()) {
displayString +=
"\t("
+ GeneralUtils.formatTwoDecimal(feature.getValueMin())
+ ", "
+ GeneralUtils.formatTwoDecimal(feature.getValueMax())
+ ")";
} else {
displayString += "\t" + GeneralUtils.formatTwoDecimal(feature.getValue());
}
displayString += "\t" + GeneralUtils.formatTwoDecimal(modelValue);
displayString += "\t" + GeneralUtils.formatThreeDecimal(error) + "\t/";
System.out.println(displayString);
}
}
private double NormalizedErrorObsNormed(PatternFeature feature, double modelValue) {
/*
* the w here is manual weight assigned in JSON. only for special cases!! like 3-000 to get D.ASP.
* shouldn't be confused with dynamic W calculated in spikepatternclassifier
* Typically, w is 0 in JSON, so that this manual weight is ignored!
*/
double w = feature.getWeight();
if (GeneralUtils.isCloseEnough(w, 0, 0.001)) {
w = 1;
}
if (feature.isRange()) {
return w
* StatUtil.calculateObsNormalizedError(
feature.getValueMin(), feature.getValueMax(), modelValue);
} else {
return w * StatUtil.calculateObsNormalizedError(feature.getValue(), modelValue);
}
}
public double burstFeatureError() {
BurstFeature expBurstFeature = expSpikePatternData.getBurstFeatures();
ArrayList<HashMap<BurstFeatureID, Double>> expBurstFeatures = expBurstFeature.getValue();
double error = 0;
/* if(display) {
System.out.print("\tBursts:");
modelSpikePattern.getBurstPattern().displayBursts();
System.out.println("\n");
}*/
for (int i = 0; i < expBurstFeatures.size(); i++) {
error += singleBurstError(i, expBurstFeatures.get(i));
}
error = expBurstFeature.getTotalWeight() * (error / (1.0f * expBurstFeatures.size()));
if (display) {
System.out.print("\t" + GeneralUtils.formatThreeDecimal(error) + "\n");
}
return error;
}
private double singleBurstError(
int burstIdx, HashMap<BurstFeatureID, Double> expSingleBurstFeatures) {
if (burstIdx >= modelSpikePattern.getBurstPattern().getNBursts()) {
return 1;
}
double errorBW = 0;
double errorIBI = 0;
double errorNspikes = 0;
// 2. BW error
double bw = -1;
if (expSingleBurstFeatures.containsKey(BurstFeatureID.b_w)) {
bw = expSingleBurstFeatures.get(BurstFeatureID.b_w);
double modelBw = modelSpikePattern.getBurstPattern().getBW(burstIdx);
errorBW = StatUtil.calculateObsNormalizedError(bw, modelBw);
}
// 3. IBI error
double pbi = -1;
if (expSingleBurstFeatures.containsKey(BurstFeatureID.pbi)) {
pbi = expSingleBurstFeatures.get(BurstFeatureID.pbi);
double modelPbi = modelSpikePattern.getBurstPattern().getIBI(burstIdx);
errorIBI = StatUtil.calculateObsNormalizedError(pbi, modelPbi);
}
// 4. N spikes error
double nspikes = expSingleBurstFeatures.get(BurstFeatureID.nspikes);
errorNspikes =
StatUtil.calculateObsNormalizedError(
nspikes, modelSpikePattern.getBurstPattern().getNSpikes(burstIdx));
/*
* display
*/
if (display) {
System.out.print("\t");
if (expSingleBurstFeatures.containsKey(BurstFeatureID.b_w)) {
String displayString = "\tb_w\t" + GeneralUtils.formatTwoDecimal(bw);
displayString +=
"\t"
+ GeneralUtils.formatTwoDecimal(
modelSpikePattern.getBurstPattern().getBW(burstIdx));
displayString += "\t" + GeneralUtils.formatThreeDecimal(errorBW) + "\t/";
System.out.print(displayString);
}
if (expSingleBurstFeatures.containsKey(BurstFeatureID.pbi)) {
String displayString = "\tibi\t" + GeneralUtils.formatTwoDecimal(pbi);
displayString +=
"\t"
+ GeneralUtils.formatTwoDecimal(
modelSpikePattern.getBurstPattern().getIBI(burstIdx));
displayString += "\t" + GeneralUtils.formatThreeDecimal(errorIBI) + "\t/";
System.out.print(displayString);
}
String displayString = "\tnspikes\t" + GeneralUtils.formatTwoDecimal(nspikes);
displayString +=
"\t"
+ GeneralUtils.formatTwoDecimal(
modelSpikePattern.getBurstPattern().getNSpikes(burstIdx));
displayString += "\t" + GeneralUtils.formatThreeDecimal(errorNspikes) + "\t/";
System.out.print(displayString + "\n");
}
return ((expSpikePatternData.getBurstFeatures().getFeatureWeight(BurstFeatureID.b_w) * errorBW)
+ (expSpikePatternData.getBurstFeatures().getFeatureWeight(BurstFeatureID.pbi) * errorIBI)
+ (expSpikePatternData.getBurstFeatures().getFeatureWeight(BurstFeatureID.nspikes)
* errorNspikes));
}
public float calculatePatternError() {
float patternError = Float.MAX_VALUE;
float patternValidityErrorVmin = 0;
float patternValidityErrorVrest = 0;
if (modelSpikePattern == null) {
if (display) {
System.out.println(
"**NULL compartment SPIKE PATTERN** SPEvaluatorV2:calculatePatternError()");
}
return patternError;
}
// && Math.abs(Float.MAX_VALUE - modelError)>10.0f
if (checkForPatternValidity) {
if (expSpikePatternData.getType() == PatternType.SPIKES) {
// if(!modelSpikePattern.isValidSpikesPattern(modelVmin, modelVr)) { if(display) {
// System.out.println("**Invalid SPIKEs Pattern**"); }
if (!modelSpikePattern.isValidSpikesPattern()) {
if (display) {
System.out.println("**Invalid SPIKEs Pattern** SPEvaluatorV2:calculatePatternError()");
}
return patternError;
}
/*else{
// if(!expSpikePatternData.getFeaturesToEvaluate().contains(PatternFeatureID.bursts))
{
patternValidityErrorVmin = nonBurstBelowVminError(modelVmin);
}
patternValidityErrorVrest = spikesBelowVrestError(modelVr);
}*/
if (modelSpikePattern.getISIs() == null) {
if (display) {
System.out.println("**Null ISIs** SPEvaluatorV2:calculatePatternError()");
}
return patternError;
}
}
} /*else{
if(modelSpikePattern.getSpikeTimes().length < 1
||
(modelSpikePattern.getSpikeTimes()[modelSpikePattern.getSpikeTimes().length-1] - modelSpikePattern.getTimeMin()) > (modelSpikePattern.getDurationOfCurrentInjection()+10)) {
return patternError;
}
if(modelSpikePattern.getISIs() == null ) { if(display) {System.out.println("**Null ISIs**"); }
return patternError;
}
}*/
// System.out.println("SPE:: patternWeighted Avg Error will..");
patternError = patternWeightedAvgError();
// System.out.println("SPE:: patternWeighted Avg Error done..");
float avgPatternError;
if (expSpikePatternData.getType() == PatternType.SPIKES
|| expSpikePatternData.getType() == PatternType.RBASE) {
avgPatternError =
(float)
(patternRepairWeights[0] * patternError
+ patternRepairWeights[1] * patternValidityErrorVmin
+ patternRepairWeights[2] * patternValidityErrorVrest);
} else {
avgPatternError = patternError;
}
if (display) {
System.out.print(
"\nPatternFeatError\t"
+ GeneralUtils.formatThreeDecimal(patternError)
+ "\nPatternValidityErrorVmin\t"
+ GeneralUtils.formatThreeDecimal(patternValidityErrorVmin)
+ "\nPatternValidityErrorVrest\t"
+ GeneralUtils.formatThreeDecimal(patternValidityErrorVrest));
}
return avgPatternError * expSpikePatternData.getPatternWeight();
}
private void displayRoutineForSFA(PatternFeature[] exp, double[] model, double error) {
String displayString = "";
displayString = "\ty=";
if (exp[0].isRange()) {
displayString +=
"("
+ GeneralUtils.formatThreeDecimal(exp[0].getValueMin())
+ ", "
+ GeneralUtils.formatThreeDecimal(exp[0].getValueMax())
+ ")"
+ "x+"
+ "("
+ GeneralUtils.formatThreeDecimal(exp[1].getValueMin())
+ ", "
+ GeneralUtils.formatThreeDecimal(exp[1].getValueMax())
+ ")";
displayString +=
"\tnISIs: "
+ "("
+ GeneralUtils.formatThreeDecimal(exp[2].getValueMin())
+ ", "
+ GeneralUtils.formatThreeDecimal(exp[2].getValueMax())
+ ")";
} else {
displayString +=
GeneralUtils.formatThreeDecimal(exp[0].getValue())
+ "x+"
+ GeneralUtils.formatThreeDecimal(exp[1].getValue());
displayString += "\tnISIs: " + GeneralUtils.formatThreeDecimal(exp[2].getValue());
}
displayString += "\ty=";
if (exp[3].isRange()) {
displayString +=
"("
+ GeneralUtils.formatThreeDecimal(exp[3].getValueMin())
+ ", "
+ GeneralUtils.formatThreeDecimal(exp[3].getValueMax())
+ ")"
+ "x+"
+ "("
+ GeneralUtils.formatThreeDecimal(exp[4].getValueMin())
+ ", "
+ GeneralUtils.formatThreeDecimal(exp[4].getValueMax())
+ ")";
displayString +=
"\tnISIs: "
+ "("
+ GeneralUtils.formatThreeDecimal(exp[5].getValueMin())
+ ", "
+ GeneralUtils.formatThreeDecimal(exp[5].getValueMax())
+ ")";
} else {
displayString +=
GeneralUtils.formatThreeDecimal(exp[3].getValue())
+ "x+"
+ GeneralUtils.formatThreeDecimal(exp[4].getValue());
displayString += "\tnISIs: " + GeneralUtils.formatThreeDecimal(exp[5].getValue());
}
displayString +=
"\n\ty="
+ GeneralUtils.formatThreeDecimal(model[0])
+ "x+"
+ GeneralUtils.formatThreeDecimal(model[1]);
displayString += "\tnISIs: " + model[2];
displayString +=
"\ty="
+ GeneralUtils.formatThreeDecimal(model[3])
+ "x+"
+ GeneralUtils.formatThreeDecimal(model[4]);
displayString += "\tnISIs: " + model[5];
displayString += "\t" + GeneralUtils.formatThreeDecimal(error) + "\t/";
System.out.println(displayString);
}