Update rfc80 poc (#11298)

* Remove CH code from legacy class and remove material_view.sql * Update CH Test container to not use material_view.sql --------- Co-authored-by: haynescd <[email protected]>
cBioPortal · Dec 19, 2024 · 8703b87 · 8703b87
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commit 8703b87
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Showing 9 changed files with 244 additions and 371 deletions.
diff --git a/...main/java/org/cbioportal/persistence/mybatis/UnImplementedStudyViewMyBatisRepository.java b/...main/java/org/cbioportal/persistence/mybatis/UnImplementedStudyViewMyBatisRepository.java
diff --git a/src/main/java/org/cbioportal/service/AlterationCountService.java b/src/main/java/org/cbioportal/service/AlterationCountService.java
@@ -79,10 +79,4 @@ Pair<List<CopyNumberCountByGene>, Long> getPatientCnaGeneCounts(List<MolecularPr
                                                                     boolean includeFrequency,
                                                                     boolean includeMissingAlterationsFromGenePanel,
                                                                     AlterationFilter alterationFilter);
-
-    List<AlterationCountByGene> getMutatedGenes(StudyViewFilterContext studyViewFilterContext) throws StudyNotFoundException;
-    List<CopyNumberCountByGene> getCnaGenes(StudyViewFilterContext studyViewFilterContext) throws StudyNotFoundException;
-
-    List<AlterationCountByGene> getStructuralVariantGenes(StudyViewFilterContext studyViewFilterContext) throws StudyNotFoundException;
-
 }
diff --git a/src/main/java/org/cbioportal/service/alteration/AlterationCountByGeneService.java b/src/main/java/org/cbioportal/service/alteration/AlterationCountByGeneService.java
@@ -0,0 +1,14 @@
+package org.cbioportal.service.alteration;
+
+import org.cbioportal.model.AlterationCountByGene;
+import org.cbioportal.model.CopyNumberCountByGene;
+import org.cbioportal.model.StudyViewFilterContext;
+import org.cbioportal.service.exception.StudyNotFoundException;
+
+import java.util.List;
+
+public interface AlterationCountByGeneService {
+    List<AlterationCountByGene> getMutatedGenes(StudyViewFilterContext studyViewFilterContext) throws StudyNotFoundException;
+    List<CopyNumberCountByGene> getCnaGenes(StudyViewFilterContext studyViewFilterContext) throws StudyNotFoundException;
+    List<AlterationCountByGene> getStructuralVariantGenes(StudyViewFilterContext studyViewFilterContext) throws StudyNotFoundException;
+}