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package DNPM.dto;
import de.itc.onkostar.api.Procedure;
import java.util.Optional;
public class Variant {
private final Integer id;
private final String ergebnis;
private final String gen;
private final String exon;
private final String pathogenitaetsklasse;
private Variant(
final int id,
final String ergebnis,
final String gen,
final String exon,
final String pathogenitaetsklasse
) {
this.id = id;
this.ergebnis = ergebnis;
this.gen = gen;
this.exon = exon;
this.pathogenitaetsklasse = pathogenitaetsklasse;
}
public Integer getId() {
return id;
}
public String getErgebnis() {
return ergebnis;
}
public String getGen() {
return gen;
}
public String getExon() {
return exon;
}
public String getPathogenitaetsklasse() {
return pathogenitaetsklasse;
}
public static Optional<Variant> fromProcedure(Procedure procedure) {
if (!"OS.Molekulargenetische Untersuchung".equals(procedure.getFormName())) {
return Optional.empty();
}
var ergebnis = procedure.getValue("Ergebnis");
var gene = procedure.getValue("Untersucht");
var exon = procedure.getValue("ExonInt");
var pathogenitaetsklasse = procedure.getValue("Pathogenitaetsklasse");
if (null == gene) {
return Optional.empty();
}
if (ergebnis.getString().equals("P")) {
return Optional.of(
new Variant(
procedure.getId(),
"Einfache Variante (Mutation)",
gene.getString().isBlank() ? "-" : gene.getString(),
null == exon || exon.getString().isBlank() ? "-" : exon.getString(),
null == pathogenitaetsklasse || pathogenitaetsklasse.getString().isBlank() ? "-" : pathogenitaetsklasse.getString()
)
);
} else if (ergebnis.getString().equals("CNV")) {
return Optional.of(
new Variant(
procedure.getId(),
"Copy Number Variation (CNV)",
gene.getString().isBlank() ? "-" : gene.getString(),
null == exon || exon.getString().isBlank() ? "-" : exon.getString(),
null == pathogenitaetsklasse || pathogenitaetsklasse.getString().isBlank() ? "-" : pathogenitaetsklasse.getString()
)
);
} else if (ergebnis.getString().equals("F")) {
return Optional.of(
new Variant(
procedure.getId(),
"Fusion (Translokation Inversion Insertion)",
gene.getString().isBlank() ? "-" : gene.getString(),
null == exon || exon.getString().isBlank() ? "-" : exon.getString(),
null == pathogenitaetsklasse || pathogenitaetsklasse.getString().isBlank() ? "-" : pathogenitaetsklasse.getString()
)
);
} else {
return Optional.empty();
}
}
}
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