feat: add "Stützende molekulare Alterationen"

src/test/java/dev/pcvolkmer/onco/datamapper/genes/GeneUtilsTest.java

@@ -0,0 +1,57 @@
+/*
+ * This file is part of mv64e-onkostar-data
+ *
+ * Copyright (C) 2025  Paul-Christian Volkmer
+ *
+ * This program is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ * GNU Lesser General Public License for more details.
+ *
+ * You should have received a copy of the GNU Lesser General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
+ *
+ */
+
+package dev.pcvolkmer.onco.datamapper.genes;
+
+import dev.pcvolkmer.mv64e.mtb.Chromosome;
+import org.junit.jupiter.api.Test;
+
+import static org.assertj.core.api.Assertions.assertThat;
+
+class GeneUtilsTest {
+
+    @Test
+    void findByHgncId() {
+        var actual = GeneUtils.findByHgncId("HGNC:1097");
+
+        assertThat(actual).isPresent().hasValueSatisfying(gene -> {
+            assertThat(gene.getHgncId()).isEqualTo("HGNC:1097");
+            assertThat(gene.getEnsemblId()).isEqualTo("ENSG00000157764");
+            assertThat(gene.getSymbol()).isEqualTo("BRAF");
+            assertThat(gene.getName()).isEqualTo("B-Raf proto-oncogene, serine/threonine kinase");
+            assertThat(gene.getChromosome()).isEqualTo("7q34");
+            assertThat(gene.getSingleChromosomeInPropertyForm()).hasValue(Chromosome.CHR7);
+        });
+    }
+
+    @Test
+    void findByHgncSymbol() {
+        var actual = GeneUtils.findBySymbol("ABCD1");
+
+        assertThat(actual).isPresent().hasValueSatisfying(gene -> {
+            assertThat(gene.getHgncId()).isEqualTo("HGNC:61");
+            assertThat(gene.getEnsemblId()).isEqualTo("ENSG00000101986");
+            assertThat(gene.getSymbol()).isEqualTo("ABCD1");
+            assertThat(gene.getName()).isEqualTo("ATP binding cassette subfamily D member 1");
+            assertThat(gene.getChromosome()).isEqualTo("Xq28");
+            assertThat(gene.getSingleChromosomeInPropertyForm()).hasValue(Chromosome.CHR_X);
+        });
+    }
+}

src/test/java/dev/pcvolkmer/onco/datamapper/mapper/JsonToMolAltVarianteMapperTest.java

@@ -0,0 +1,49 @@
+/*
+ * This file is part of mv64e-onkostar-data
+ *
+ * Copyright (C) 2025  Paul-Christian Volkmer
+ *
+ * This program is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ * GNU Lesser General Public License for more details.
+ *
+ * You should have received a copy of the GNU Lesser General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
+ *
+ */
+
+package dev.pcvolkmer.onco.datamapper.mapper;
+
+import dev.pcvolkmer.mv64e.mtb.Coding;
+import dev.pcvolkmer.mv64e.mtb.GeneAlterationReference;
+import dev.pcvolkmer.mv64e.mtb.Reference;
+import org.junit.jupiter.api.Test;
+
+import static org.assertj.core.api.Assertions.assertThat;
+
+class JsonToMolAltVarianteMapperTest {
+
+    @Test
+    void shouldMapJson() {
+        var json = "[{\"id\":22641112,\"ergebnis\":\"Einfache Variante (Mutation)\",\"gen\":\"BRAF\",\"exon\":\"-\",\"pathogenitaetsklasse\":\"-\"}]";
+
+        var actual = JsonToMolAltVarianteMapper.map(json);
+
+        assertThat(actual).hasSize(1);
+
+        var variant = actual.get(0);
+        assertThat(variant).isEqualTo(
+                GeneAlterationReference.builder()
+                        .gene(Coding.builder().code("HGNC:1097").display("BRAF").system("https://www.genenames.org/").build())
+                        .variant(Reference.builder().id("22641112").type("Variant").build())
+                        .build()
+        );
+    }
+
+}