@Override
public <G, D, L> void importParameters(
ParameterHelper helper, DataDocument<G, D, L> document, D dictionary) {
final Set<String> keys = document.keySetOfDictionary(dictionary);
if (keys.contains("intensityDeviation"))
setIntensityDeviation(document.getDoubleFromDictionary(dictionary, "intensityDeviation"));
if (keys.contains("medianNoiseIntensity"))
setMedianNoiseIntensity(document.getDoubleFromDictionary(dictionary, "medianNoiseIntensity"));
if (keys.contains("formulaConstraints"))
setFormulaConstraints(
(FormulaConstraints)
helper.unwrap(
document, document.getFromDictionary(dictionary, "formulaConstraints")));
if (keys.contains("allowedMassDeviation"))
allowedMassDeviation =
Deviation.fromString(
document.getStringFromDictionary(dictionary, "allowedMassDeviation"));
if (keys.contains("standardMs1MassDeviation"))
standardMs1MassDeviation =
Deviation.fromString(
document.getStringFromDictionary(dictionary, "standardMs1MassDeviation"));
if (keys.contains("standardMs2MassDeviation"))
standardMs2MassDeviation =
Deviation.fromString(
document.getStringFromDictionary(dictionary, "standardMs2MassDeviation"));
if (keys.contains("standardMassDifferenceDeviation"))
standardMassDifferenceDeviation =
Deviation.fromString(
document.getStringFromDictionary(dictionary, "standardMassDifferenceDeviation"));
}
@Override
public <G, D, L> LinearIntensityDependency readFromParameters(
ParameterHelper helper, DataDocument<G, D, L> document, D dictionary) {
final double zeroIntensity = document.getDoubleFromDictionary(dictionary, "zeroIntensity");
final double fullIntensity = document.getDoubleFromDictionary(dictionary, "fullIntensity");
return new LinearIntensityDependency(fullIntensity, zeroIntensity);
}
@Override
public <G, D, L> void importParameters(
ParameterHelper helper, DataDocument<G, D, L> document, D dictionary) {
this.penalty = document.getDoubleFromDictionary(dictionary, "score");
}
