Issue #28: Initiale Implementierung zur Ermittlung der NGS-Befund-Varianten

1 files changed, 67 insertions, 0 deletions

diff --git a/src/main/java/DNPM/dto/Variant.java b/src/main/java/DNPM/dto/Variant.java
new file mode 100644
index 0000000..36788f2
--- /dev/null
+++ b/src/main/java/DNPM/dto/Variant.java
@@ -0,0 +1,67 @@
+package DNPM.dto;
+
+import de.itc.onkostar.api.Procedure;
+
+import java.util.Optional;
+
+public class Variant {
+    private final Integer id;
+
+    private final String shortDescription;
+
+    private Variant(
+            final int id,
+            final String shortDescription
+    ) {
+        this.id = id;
+        this.shortDescription = shortDescription.trim();
+    }
+
+    public Integer getId() {
+        return id;
+    }
+
+    public String getShortDescription() {
+        return shortDescription;
+    }
+
+    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(),
+                            String.format("Einfache Variante: %s, %s, %s", gene.getString(), exon.getString(), pathogenitaetsklasse.getString())
+                    )
+            );
+        } else if (ergebnis.getString().equals("CNV")) {
+            return Optional.of(
+                    new Variant(
+                            procedure.getId(),
+                            String.format("Copy Number Variation: %s, %s, %s", gene.getString(), exon.getString(), pathogenitaetsklasse.getString())
+                    )
+            );
+        } else if (ergebnis.getString().equals("F")) {
+            return Optional.of(
+                    new Variant(
+                            procedure.getId(),
+                            String.format("Fusion: %s, %s, %s", gene.getString(), exon.getString(), pathogenitaetsklasse.getString())
+                    )
+            );
+        } else {
+            return Optional.empty();
+        }
+    }
+}