feat: latitude longitude and elevation calculated for 3rd generation …

…parent trees (#1514)

Co-authored-by: mgaseta <[email protected]>

backend/src/main/java/ca/bc/gov/backendstartapi/service/ParentTreeService.java

@@ -90,7 +90,7 @@ public PtCalculationResDto calculatePtVals(PtValsCalReqDto ptVals) {
         }
 
         // --col:W
-        if (varTotalConeCount.compareTo(BigDecimal.ZERO) > 0) {
+        if (varTotalPollenCount.compareTo(BigDecimal.ZERO) > 0) {
           varParentPropOrchPoll = ptPollenCount.divide(varTotalPollenCount, DIVISION_SCALE, halfUp);
         }
 

oracle-api/src/main/java/ca/bc/gov/oracleapi/dto/ParentTreeGeoNodeDto.java

@@ -0,0 +1,62 @@
+package ca.bc.gov.oracleapi.dto;
+
+import ca.bc.gov.oracleapi.entity.ParentTreeEntity;
+import java.util.Optional;
+import lombok.NoArgsConstructor;
+import lombok.Setter;
+
+/** This class represents a GeoNode with all elevation, lat and long mean values. */
+@Setter
+@NoArgsConstructor
+public class ParentTreeGeoNodeDto {
+
+  private Integer elevation;
+  private Integer latitudeDegrees;
+  private Integer latitudeMinutes;
+  private Integer latitudeSeconds;
+  private Integer longitudeDegrees;
+  private Integer longitudeMinutes;
+  private Integer longitudeSeconds;
+
+  ParentTreeGeoNodeDto(ParentTreeEntity entity) {
+    this.elevation = entity.getElevation();
+    this.latitudeDegrees = entity.getLatitudeDegrees();
+    this.latitudeMinutes = entity.getLatitudeMinutes();
+    this.latitudeSeconds = entity.getLatitudeSeconds();
+    this.longitudeDegrees = entity.getLongitudeDegrees();
+    this.longitudeMinutes = entity.getLongitudeMinutes();
+    this.longitudeSeconds = entity.getLongitudeSeconds();
+  }
+
+  public Integer getElevation() {
+    return this.elevation;
+  }
+
+  public int getElevationIntVal() {
+    return Optional.ofNullable(elevation).orElse(0);
+  }
+
+  public int getLatitudeDegreesIntVal() {
+    return Optional.ofNullable(latitudeDegrees).orElse(0);
+  }
+
+  public int getLatitudeMinutesIntVal() {
+    return Optional.ofNullable(latitudeMinutes).orElse(0);
+  }
+
+  public int getLatitudeSecondsIntVal() {
+    return Optional.ofNullable(latitudeSeconds).orElse(0);
+  }
+
+  public int getLongitudeDegreesIntVal() {
+    return Optional.ofNullable(longitudeDegrees).orElse(0);
+  }
+
+  public int getLongitudeMinutesIntVal() {
+    return Optional.ofNullable(longitudeMinutes).orElse(0);
+  }
+
+  public int getLongitudeSecondsIntVal() {
+    return Optional.ofNullable(longitudeSeconds).orElse(0);
+  }
+}

oracle-api/src/main/java/ca/bc/gov/oracleapi/dto/ParentTreeNodeDto.java

@@ -0,0 +1,195 @@
+package ca.bc.gov.oracleapi.dto;
+
+import ca.bc.gov.oracleapi.config.SparLog;
+import ca.bc.gov.oracleapi.entity.ParentTreeEntity;
+import java.util.Optional;
+import lombok.Getter;
+import lombok.Setter;
+
+/** This class represents a parent tree node. */
+@Getter
+@Setter
+public class ParentTreeNodeDto {
+
+  private final ParentTreeEntity value;
+  private ParentTreeNodeDto femaleParent;
+  private ParentTreeNodeDto maleParent;
+  private ParentTreeGeoNodeDto geoNode;
+
+  /**
+   * Creates a Parent Tree Node.
+   *
+   * @param value The parent tree entity instance.
+   */
+  public ParentTreeNodeDto(ParentTreeEntity value) {
+    this.value = value;
+    this.geoNode = new ParentTreeGeoNodeDto(value);
+  }
+
+  /**
+   * Add a parent tree node female or male.
+   *
+   * @param parentTreeId the reference parent id tree to look for.
+   * @param entity the parent tree entity instance.
+   */
+  public void add(Long parentTreeId, ParentTreeEntity entity) {
+    if (parentTreeId.equals(value.getFemaleParentTreeId())) {
+      femaleParent = new ParentTreeNodeDto(entity);
+    } else if (parentTreeId.equals(value.getMaleParentTreeId())) {
+      maleParent = new ParentTreeNodeDto(entity);
+    } else {
+      if (femaleParent != null) {
+        femaleParent.add(parentTreeId, entity);
+      }
+      if (maleParent != null) {
+        maleParent.add(parentTreeId, entity);
+      }
+    }
+  }
+
+  /**
+   * Get a Parent tree's parent elevation (and all lat and long mean values), recursively, looking
+   * at parent's parent and finding the 'mean' value when required. The calculation piece of code
+   * was brought exactly as is in SPR_GET_PT_GEOG.prc file on SPAR Legacy.
+   *
+   * @param current Current node in the tree
+   * @param femaleNode Female parent node in the tree
+   * @param maleNode Male parent node in the tree
+   * @return A female node if female has data, or a new node with mean values from female and male.
+   */
+  private ParentTreeGeoNodeDto getParentsMeanElevation(
+      ParentTreeNodeDto current, ParentTreeNodeDto femaleNode, ParentTreeNodeDto maleNode) {
+    if (current.geoNode.getElevation() != null) {
+      return current.geoNode;
+    }
+    ParentTreeGeoNodeDto femaleElevation = new ParentTreeGeoNodeDto();
+    if (current.femaleParent != null) {
+      femaleElevation =
+          Optional.ofNullable(
+                  getParentsMeanElevation(
+                      current.femaleParent,
+                      current.femaleParent.femaleParent,
+                      current.femaleParent.maleParent))
+              .orElse(new ParentTreeGeoNodeDto());
+    }
+    ParentTreeGeoNodeDto maleElevation = new ParentTreeGeoNodeDto();
+    if (current.maleParent != null) {
+      maleElevation =
+          Optional.ofNullable(
+                  getParentsMeanElevation(
+                      current.maleParent,
+                      current.maleParent.femaleParent,
+                      current.maleParent.maleParent))
+              .orElse(new ParentTreeGeoNodeDto());
+    }
+    if (maleElevation.getElevationIntVal() == 0 && femaleElevation.getElevationIntVal() > 0) {
+      return femaleElevation;
+    } else if (maleElevation.getElevationIntVal() > 0 && femaleElevation.getElevationIntVal() > 0) {
+      int noOfParents = 2;
+      ParentTreeGeoNodeDto meanNode = new ParentTreeGeoNodeDto();
+
+      // Elevation
+      int meanElevation =
+          (maleElevation.getElevationIntVal() + femaleElevation.getElevationIntVal()) / noOfParents;
+      meanNode.setElevation(meanElevation);
+
+      // All other calculations (Lat and Long)
+      int calc =
+          (femaleElevation.getLatitudeDegreesIntVal() * 3600)
+              + (femaleElevation.getLatitudeMinutesIntVal() * 60)
+              + femaleElevation.getLatitudeSecondsIntVal();
+      calc =
+          calc
+              + (maleElevation.getLatitudeDegreesIntVal() * 3600)
+              + (maleElevation.getLatitudeMinutesIntVal() * 60)
+              + maleElevation.getLatitudeSecondsIntVal();
+      // --derive mean
+      calc = calc / noOfParents;
+      int latitudeDegrees = calc / 3600;
+      meanNode.setLatitudeDegrees(latitudeDegrees);
+
+      int buff = calc % 3600;
+      int latitudeMinutes = buff / 60;
+      meanNode.setLatitudeMinutes(latitudeMinutes);
+
+      buff = calc % 60;
+      int latitudeSeconds = buff;
+      meanNode.setLatitudeSeconds(latitudeSeconds);
+
+      calc =
+          (femaleElevation.getLongitudeDegreesIntVal() * 3600)
+              + (femaleElevation.getLongitudeMinutesIntVal() * 60)
+              + femaleElevation.getLongitudeSecondsIntVal();
+      calc =
+          calc
+              + (maleElevation.getLongitudeDegreesIntVal() * 3600)
+              + (maleElevation.getLongitudeMinutesIntVal() * 60)
+              + maleElevation.getLongitudeSecondsIntVal();
+      // --derive mean
+      calc = calc / noOfParents;
+      int longitudeDegrees = calc / 3600;
+      meanNode.setLongitudeDegrees(longitudeDegrees);
+
+      buff = calc % 3600;
+      int longitudeMinutes = buff / 60;
+      meanNode.setLongitudeMinutes(longitudeMinutes);
+
+      buff = calc % 60;
+      int longitudeSeconds = buff;
+      meanNode.setLongitudeSeconds(longitudeSeconds);
+
+      return meanNode;
+    }
+    return null;
+  }
+
+  /**
+   * Get the parent tree mean elevation looking into parent trees family.
+   *
+   * @return an integer representing the mean elevation.
+   */
+  public ParentTreeGeoNodeDto getParentTreeElevation() {
+    ParentTreeGeoNodeDto elevation =
+        getParentsMeanElevation(this, this.femaleParent, this.maleParent);
+    return elevation;
+  }
+
+  /**
+   * Prints the current node.
+   *
+   * @param level Current level in the tree
+   */
+  public String printLevel(int level) {
+    String message = String.format("Level %d - %s", level, toString());
+    SparLog.info(message);
+    if (femaleParent != null) {
+      return femaleParent.printLevel(level + 1);
+    }
+    if (maleParent != null) {
+      return maleParent.printLevel(level + 1);
+    }
+    return message;
+  }
+
+  /** Gets the string version of the node. */
+  @Override
+  public String toString() {
+    StringBuilder sb = new StringBuilder("ParentTreeId=");
+    sb.append(value.getId());
+    sb.append(" (elev: ").append(value.getElevation()).append(") ");
+    sb.append("[");
+    boolean added = false;
+    if (value.getFemaleParentTreeId() != null) {
+      sb.append("femaleParentId=").append(value.getFemaleParentTreeId());
+      added = true;
+    }
+    if (value.getMaleParentTreeId() != null) {
+      if (added) {
+        sb.append(", ");
+      }
+      sb.append("male=").append(value.getMaleParentTreeId());
+    }
+    sb.append("]");
+    return sb.toString();
+  }
+}

oracle-api/src/main/java/ca/bc/gov/oracleapi/entity/ParentTreeEntity.java

@@ -73,4 +73,9 @@ public class ParentTreeEntity {
 
   @Column(name = "ELEVATION")
   private Integer elevation;
+
+  @Override
+  public String toString() {
+    return getId().toString();
+  }
 }

oracle-api/src/main/java/ca/bc/gov/oracleapi/repository/ParentTreeRepository.java

@@ -9,8 +9,7 @@
 /** This class holds methods for retrieving {@link ParentTreeEntity} data from the database. */
 public interface ParentTreeRepository extends JpaRepository<ParentTreeEntity, Long> {
 
-  @Query("from ParentTreeEntity where id in ?1")
-  List<ParentTreeEntity> findAllIn(List<Long> ids);
+  List<ParentTreeEntity> findAllByIdIn(List<Long> ids);
 
   @Query(
       value =

oracle-api/src/main/java/ca/bc/gov/oracleapi/service/OrchardService.java

@@ -283,7 +283,7 @@ private List<ParentTreeGeneticInfoDto> findAllParentTree(
     long endingFour = Instant.now().toEpochMilli();
     SparLog.debug("Time elapsed mapping all parent tree orchard ids: {}", endingFour - endingThree);
 
-    List<ParentTreeEntity> parentTreeList = parentTreeRepository.findAllIn(parentTreeIdList);
+    List<ParentTreeEntity> parentTreeList = parentTreeRepository.findAllByIdIn(parentTreeIdList);
 
     long endingFive = Instant.now().toEpochMilli();
     SparLog.debug("Time elapsed finding all parent tree (select in): {}", endingFive - endingFour);