[DUOS-2617][risk=no] Update v3 for DAR abstain cases (#879)

* add abstain fields and purpose/consent descriptions * add abstain condition and tests
DataBiosphere · Jul 27, 2023 · 4dff32d · 4dff32d
1 parent 4569054
commit 4dff32d
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Showing 5 changed files with 559 additions and 124 deletions.
diff --git a/src/main/java/org/broadinstitute/dsde/consent/ontology/datause/DataUseMatchCasesV3.java b/src/main/java/org/broadinstitute/dsde/consent/ontology/datause/DataUseMatchCasesV3.java
@@ -255,6 +255,23 @@ static MatchResult matchCommercial(DataUseV3 purpose, DataUseV3 dataset) {
   static MatchResult abstainDecision(
       DataUseV3 purpose, DataUseV3 dataset, Map<String, List<String>> purposeDiseaseIdMap,
       MatchResultType diseaseMatch) {
+
+    // Immediate Abstain Cases:
+    if (
+        getNullableOrFalse(purpose.getControls()) ||
+            getNullableOrFalse(purpose.getPopulation()) ||
+            Objects.nonNull(purpose.getGender()) ||
+            getNullableOrFalse(purpose.getPediatric()) ||
+            getNullableOrFalse(purpose.getVulnerablePopulations()) ||
+            getNullableOrFalse(purpose.getIllegalBehavior()) ||
+            getNullableOrFalse(purpose.getSexualDiseases()) ||
+            getNullableOrFalse(purpose.getPsychologicalTraits()) ||
+            getNullableOrFalse(purpose.getNotHealth()) ||
+            getNullableOrFalse(purpose.getStigmatizeDiseases())
+    ) {
+      return MatchResult.from(MatchResultType.ABSTAIN, Collections.singletonList(ABSTAIN));
+    }
+
     // Valid RPs
     boolean purposeDSX = getNullableOrFalse(!purpose.getDiseaseRestrictions().isEmpty());
     boolean purposeHMB = getNullableOrFalse(purpose.getHmbResearch());

diff --git a/src/main/java/org/broadinstitute/dsde/consent/ontology/model/DataUseBuilderV3.java b/src/main/java/org/broadinstitute/dsde/consent/ontology/model/DataUseBuilderV3.java
@@ -72,4 +72,75 @@ public DataUseBuilderV3 setCollaboratorRequired(boolean collaboratorRequired) {
     du.setCollaboratorRequired(collaboratorRequired);
     return this;
   }
+
+  public DataUseBuilderV3 setGeographicalRestrictions(String geographicalRestrictions) {
+    du.setGeographicalRestrictions(geographicalRestrictions);
+    return this;
+  }
+
+  public DataUseBuilderV3 setGeneticStudiesOnly(boolean geneticStudiesOnly) {
+    du.setGeneticStudiesOnly(geneticStudiesOnly);
+    return this;
+  }
+
+  public DataUseBuilderV3 setPublicationResults(boolean publicationResults) {
+    du.setPublicationResults(publicationResults);
+    return this;
+  }
+
+  public DataUseBuilderV3 setPublicationMoratorium(String publicationMoratorium) {
+    du.setPublicationMoratorium(publicationMoratorium);
+    return this;
+  }
+
+  public DataUseBuilderV3 setControls(boolean controls) {
+    du.setControls(controls);
+    return this;
+  }
+
+  public DataUseBuilderV3 setGender(String gender) {
+    du.setGender(gender);
+    return this;
+  }
+
+  public DataUseBuilderV3 setPediatric(boolean pediatric) {
+    du.setPediatric(pediatric);
+    return this;
+  }
+
+  public DataUseBuilderV3 setPopulation(boolean population) {
+    du.setPopulation(population);
+    return this;
+  }
+
+  public DataUseBuilderV3 setIllegalBehavior(boolean illegalBehavior) {
+    du.setIllegalBehavior(illegalBehavior);
+    return this;
+  }
+
+  public DataUseBuilderV3 setSexualDiseases(boolean sexualDiseases) {
+    du.setSexualDiseases(sexualDiseases);
+    return this;
+  }
+
+  public DataUseBuilderV3 setStigmatizeDiseases(boolean stigmatizeDiseases) {
+    du.setStigmatizeDiseases(stigmatizeDiseases);
+    return this;
+  }
+
+  public DataUseBuilderV3 setVulnerablePopulations(boolean vulnerablePopulations) {
+    du.setVulnerablePopulations(vulnerablePopulations);
+    return this;
+  }
+
+  public DataUseBuilderV3 setPsychologicalTraits(boolean psychologicalTraits) {
+    du.setPsychologicalTraits(psychologicalTraits);
+    return this;
+  }
+
+  public DataUseBuilderV3 setNotHealth(boolean notHealth) {
+    du.setNotHealth(notHealth);
+    return this;
+  }
+
 }