models: use Long instead of Integer for variant summary stats, #TASK-…

…5611, #TASK-5610
opencb · Nov 21, 2024 · a5e8754 · a5e8754
1 parent c4322ac
commit a5e8754
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Showing 2 changed files with 49 additions and 49 deletions.
diff --git a/.../org/opencb/biodata/models/clinical/interpretation/stats/ClinicalVariantSummaryStats.java b/.../org/opencb/biodata/models/clinical/interpretation/stats/ClinicalVariantSummaryStats.java
@@ -24,13 +24,13 @@
 
 public class ClinicalVariantSummaryStats {
 
-    private int numCases;
-    private Map<String, Integer> variantStatusCounts;
-    private Map<String, Integer> variantConfidenceCounts;
-    private int numPrimaryInterpretations;
-    private int numSecondaryInterpretations;
+    private long numCases;
+    private Map<String, Long> variantStatusCounts;
+    private Map<String, Long> variantConfidenceCounts;
+    private long numPrimaryInterpretations;
+    private long numSecondaryInterpretations;
     private InterpretationSummaryStats interpretationSummaryStats;
-    private Map<String, Integer> clinicalAnalysisDisorderCounts;
+    private Map<String, Long> clinicalAnalysisDisorderCounts;
 
     public ClinicalVariantSummaryStats() {
         this.numCases = 0;
@@ -42,10 +42,10 @@ public ClinicalVariantSummaryStats() {
         this.clinicalAnalysisDisorderCounts = new HashMap<>();
     }
 
-    public ClinicalVariantSummaryStats(int numCases, Map<String, Integer> variantStatusCounts, Map<String, Integer> variantConfidenceCounts,
+    public ClinicalVariantSummaryStats(int numCases, Map<String, Long> variantStatusCounts, Map<String, Long> variantConfidenceCounts,
                                        int numPrimaryInterpretations, int numSecondaryInterpretations,
                                        InterpretationSummaryStats interpretationSummaryStats,
-                                       Map<String, Integer> clinicalAnalysisDisorderCounts) {
+                                       Map<String, Long> clinicalAnalysisDisorderCounts) {
         this.numCases = numCases;
         this.variantStatusCounts = variantStatusCounts;
         this.variantConfidenceCounts = variantConfidenceCounts;
@@ -69,47 +69,47 @@ public String toString() {
         return sb.toString();
     }
 
-    public int getNumCases() {
+    public long getNumCases() {
         return numCases;
     }
 
-    public ClinicalVariantSummaryStats setNumCases(int numCases) {
+    public ClinicalVariantSummaryStats setNumCases(long numCases) {
         this.numCases = numCases;
         return this;
     }
 
-    public Map<String, Integer> getVariantStatusCounts() {
+    public Map<String, Long> getVariantStatusCounts() {
         return variantStatusCounts;
     }
 
-    public ClinicalVariantSummaryStats setVariantStatusCounts(Map<String, Integer> variantStatusCounts) {
+    public ClinicalVariantSummaryStats setVariantStatusCounts(Map<String, Long> variantStatusCounts) {
         this.variantStatusCounts = variantStatusCounts;
         return this;
     }
 
-    public Map<String, Integer> getVariantConfidenceCounts() {
+    public Map<String, Long> getVariantConfidenceCounts() {
         return variantConfidenceCounts;
     }
 
-    public ClinicalVariantSummaryStats setVariantConfidenceCounts(Map<String, Integer> variantConfidenceCounts) {
+    public ClinicalVariantSummaryStats setVariantConfidenceCounts(Map<String, Long> variantConfidenceCounts) {
         this.variantConfidenceCounts = variantConfidenceCounts;
         return this;
     }
 
-    public int getNumPrimaryInterpretations() {
+    public long getNumPrimaryInterpretations() {
         return numPrimaryInterpretations;
     }
 
-    public ClinicalVariantSummaryStats setNumPrimaryInterpretations(int numPrimaryInterpretations) {
+    public ClinicalVariantSummaryStats setNumPrimaryInterpretations(long numPrimaryInterpretations) {
         this.numPrimaryInterpretations = numPrimaryInterpretations;
         return this;
     }
 
-    public int getNumSecondaryInterpretations() {
+    public long getNumSecondaryInterpretations() {
         return numSecondaryInterpretations;
     }
 
-    public ClinicalVariantSummaryStats setNumSecondaryInterpretations(int numSecondaryInterpretations) {
+    public ClinicalVariantSummaryStats setNumSecondaryInterpretations(long numSecondaryInterpretations) {
         this.numSecondaryInterpretations = numSecondaryInterpretations;
         return this;
     }
@@ -123,11 +123,11 @@ public ClinicalVariantSummaryStats setInterpretationSummaryStats(InterpretationS
         return this;
     }
 
-    public Map<String, Integer> getClinicalAnalysisDisorderCounts() {
+    public Map<String, Long> getClinicalAnalysisDisorderCounts() {
         return clinicalAnalysisDisorderCounts;
     }
 
-    public ClinicalVariantSummaryStats setClinicalAnalysisDisorderCounts(Map<String, Integer> clinicalAnalysisDisorderCounts) {
+    public ClinicalVariantSummaryStats setClinicalAnalysisDisorderCounts(Map<String, Long> clinicalAnalysisDisorderCounts) {
         this.clinicalAnalysisDisorderCounts = clinicalAnalysisDisorderCounts;
         return this;
     }

diff --git a/...a/org/opencb/biodata/models/clinical/interpretation/stats/InterpretationSummaryStats.java b/...a/org/opencb/biodata/models/clinical/interpretation/stats/InterpretationSummaryStats.java
@@ -24,14 +24,14 @@
 
 public class InterpretationSummaryStats {
 
-    private Map<String, Integer> evidenceTranscriptCounts;
-    private Map<String, Integer> evidenceGeneNameCounts;
-    private Map<String, Integer> evidenceModeOfInheritanceCounts;
-    private Map<String, Integer> evidencePanelCounts;
-    private Map<String, Integer> evidenceReviewTierCounts;
-    private Map<String, Integer> evidenceReviewAcmgCounts;
-    private Map<String, Integer> evidenceReviewClinicalSignificanceCounts;
-    private Map<String, Integer> evidenceClassificationAcmgCounts;
+    private Map<String, Long> evidenceTranscriptCounts;
+    private Map<String, Long> evidenceGeneNameCounts;
+    private Map<String, Long> evidenceModeOfInheritanceCounts;
+    private Map<String, Long> evidencePanelCounts;
+    private Map<String, Long> evidenceReviewTierCounts;
+    private Map<String, Long> evidenceReviewAcmgCounts;
+    private Map<String, Long> evidenceReviewClinicalSignificanceCounts;
+    private Map<String, Long> evidenceClassificationAcmgCounts;
 
     public InterpretationSummaryStats() {
         this.evidenceTranscriptCounts = new HashMap<>();
@@ -44,11 +44,11 @@ public InterpretationSummaryStats() {
         this.evidenceClassificationAcmgCounts = new HashMap<>();
     }
 
-    public InterpretationSummaryStats(Map<String, Integer> evidenceTranscriptCounts, Map<String, Integer> evidenceGeneNameCounts,
-                                      Map<String, Integer> evidenceModeOfInheritanceCounts, Map<String, Integer> evidencePanelCounts,
-                                      Map<String, Integer> evidenceReviewTierCounts, Map<String, Integer> evidenceReviewAcmgCounts,
-                                      Map<String, Integer> evidenceReviewClinicalSignificanceCounts,
-                                      Map<String, Integer> evidenceClassificationAcmgCounts) {
+    public InterpretationSummaryStats(Map<String, Long> evidenceTranscriptCounts, Map<String, Long> evidenceGeneNameCounts,
+                                      Map<String, Long> evidenceModeOfInheritanceCounts, Map<String, Long> evidencePanelCounts,
+                                      Map<String, Long> evidenceReviewTierCounts, Map<String, Long> evidenceReviewAcmgCounts,
+                                      Map<String, Long> evidenceReviewClinicalSignificanceCounts,
+                                      Map<String, Long> evidenceClassificationAcmgCounts) {
         this.evidenceTranscriptCounts = evidenceTranscriptCounts;
         this.evidenceGeneNameCounts = evidenceGeneNameCounts;
         this.evidenceModeOfInheritanceCounts = evidenceModeOfInheritanceCounts;
@@ -74,74 +74,74 @@ public String toString() {
         return sb.toString();
     }
 
-    public Map<String, Integer> getEvidenceTranscriptCounts() {
+    public Map<String, Long> getEvidenceTranscriptCounts() {
         return evidenceTranscriptCounts;
     }
 
-    public InterpretationSummaryStats setEvidenceTranscriptCounts(Map<String, Integer> evidenceTranscriptCounts) {
+    public InterpretationSummaryStats setEvidenceTranscriptCounts(Map<String, Long> evidenceTranscriptCounts) {
         this.evidenceTranscriptCounts = evidenceTranscriptCounts;
         return this;
     }
 
-    public Map<String, Integer> getEvidenceGeneNameCounts() {
+    public Map<String, Long> getEvidenceGeneNameCounts() {
         return evidenceGeneNameCounts;
     }
 
-    public InterpretationSummaryStats setEvidenceGeneNameCounts(Map<String, Integer> evidenceGeneNameCounts) {
+    public InterpretationSummaryStats setEvidenceGeneNameCounts(Map<String, Long> evidenceGeneNameCounts) {
         this.evidenceGeneNameCounts = evidenceGeneNameCounts;
         return this;
     }
 
-    public Map<String, Integer> getEvidenceModeOfInheritanceCounts() {
+    public Map<String, Long> getEvidenceModeOfInheritanceCounts() {
         return evidenceModeOfInheritanceCounts;
     }
 
-    public InterpretationSummaryStats setEvidenceModeOfInheritanceCounts(Map<String, Integer> evidenceModeOfInheritanceCounts) {
+    public InterpretationSummaryStats setEvidenceModeOfInheritanceCounts(Map<String, Long> evidenceModeOfInheritanceCounts) {
         this.evidenceModeOfInheritanceCounts = evidenceModeOfInheritanceCounts;
         return this;
     }
 
-    public Map<String, Integer> getEvidencePanelCounts() {
+    public Map<String, Long> getEvidencePanelCounts() {
         return evidencePanelCounts;
     }
 
-    public InterpretationSummaryStats setEvidencePanelCounts(Map<String, Integer> evidencePanelCounts) {
+    public InterpretationSummaryStats setEvidencePanelCounts(Map<String, Long> evidencePanelCounts) {
         this.evidencePanelCounts = evidencePanelCounts;
         return this;
     }
 
-    public Map<String, Integer> getEvidenceReviewTierCounts() {
+    public Map<String, Long> getEvidenceReviewTierCounts() {
         return evidenceReviewTierCounts;
     }
 
-    public InterpretationSummaryStats setEvidenceReviewTierCounts(Map<String, Integer> evidenceReviewTierCounts) {
+    public InterpretationSummaryStats setEvidenceReviewTierCounts(Map<String, Long> evidenceReviewTierCounts) {
         this.evidenceReviewTierCounts = evidenceReviewTierCounts;
         return this;
     }
 
-    public Map<String, Integer> getEvidenceReviewAcmgCounts() {
+    public Map<String, Long> getEvidenceReviewAcmgCounts() {
         return evidenceReviewAcmgCounts;
     }
 
-    public InterpretationSummaryStats setEvidenceReviewAcmgCounts(Map<String, Integer> evidenceReviewAcmgCounts) {
+    public InterpretationSummaryStats setEvidenceReviewAcmgCounts(Map<String, Long> evidenceReviewAcmgCounts) {
         this.evidenceReviewAcmgCounts = evidenceReviewAcmgCounts;
         return this;
     }
 
-    public Map<String, Integer> getEvidenceReviewClinicalSignificanceCounts() {
+    public Map<String, Long> getEvidenceReviewClinicalSignificanceCounts() {
         return evidenceReviewClinicalSignificanceCounts;
     }
 
-    public InterpretationSummaryStats setEvidenceReviewClinicalSignificanceCounts(Map<String, Integer> evidenceReviewClinicalSignificanceCounts) {
+    public InterpretationSummaryStats setEvidenceReviewClinicalSignificanceCounts(Map<String, Long> evidenceReviewClinicalSignificanceCounts) {
         this.evidenceReviewClinicalSignificanceCounts = evidenceReviewClinicalSignificanceCounts;
         return this;
     }
 
-    public Map<String, Integer> getEvidenceClassificationAcmgCounts() {
+    public Map<String, Long> getEvidenceClassificationAcmgCounts() {
         return evidenceClassificationAcmgCounts;
     }
 
-    public InterpretationSummaryStats setEvidenceClassificationAcmgCounts(Map<String, Integer> evidenceClassificationAcmgCounts) {
+    public InterpretationSummaryStats setEvidenceClassificationAcmgCounts(Map<String, Long> evidenceClassificationAcmgCounts) {
         this.evidenceClassificationAcmgCounts = evidenceClassificationAcmgCounts;
         return this;
     }