Add bulk file import to Births and treat UNKNOWN as no parent

nbri_ehr/resources/queries/study/Pedigree.sql

@@ -6,8 +6,9 @@
 SELECT
 
     d.id as Id,
-    d.dam as Dam,
-    d.sire as Sire,
+    -- UNKNOWN is a placeholder parent; passed through, kinship would treat every animal recorded against it as siblings
+    CASE WHEN UPPER(d.dam) = 'UNKNOWN' THEN NULL ELSE d.dam END as Dam,
+    CASE WHEN UPPER(d.sire) = 'UNKNOWN' THEN NULL ELSE d.sire END as Sire,
     d.modified,
 
     CASE (d.id.demographics.gender.meaning)
@@ -28,4 +29,4 @@ SELECT
     d.modified
 
 FROM study.demographics d
-WHERE d.Dam IS NOT NULL OR d.Sire IS NOT NULL
+WHERE (d.Dam IS NOT NULL AND UPPER(d.Dam) <> 'UNKNOWN') OR (d.Sire IS NOT NULL AND UPPER(d.Sire) <> 'UNKNOWN')

nbri_ehr/resources/queries/study/birth.js

@@ -22,6 +22,11 @@ function isBlankGeneration(value) {
     return value === null || value === undefined || value === '';
 }
 
+// UNKNOWN is a placeholder parent, so it must not supply the newborn's species, origin or generation
+function knownParent(value) {
+    return value && String(value).toUpperCase() !== 'UNKNOWN' ? value : null;
+}
+
 // opens one assignment record against the animal being entered; each dataset carries the assignment under its own field
 function createAssignment(scriptErrors, dataset, fieldName, value, row) {
     if (!value)
@@ -177,8 +182,8 @@ EHR.Server.TriggerManager.registerHandlerForQuery(EHR.Server.TriggerManager.Even
                 Id: row.Id,
                 date: row.date,
                 calculated_status: calc_status,
-                dam: row['Id/demographics/dam'] || null,
-                sire: row['Id/demographics/sire'] || null,
+                dam: knownParent(row['Id/demographics/dam']),
+                sire: knownParent(row['Id/demographics/sire']),
                 species: row['Id/demographics/species'] || null,
                 birth: row.date || null,
                 gender: row['Id/demographics/gender'] || null,

nbri_ehr/resources/queries/study/demographics.js

@@ -54,4 +54,12 @@ function onUpsert(helper, scriptErrors, row, oldRow){
             }
         }
     }
+
+    // UNKNOWN is a placeholder parent; stored, every parent-based query would treat the animals recorded against it as siblings
+    if (row.dam && String(row.dam).toUpperCase() === 'UNKNOWN') {
+        row.dam = null;
+    }
+    if (row.sire && String(row.sire).toUpperCase() === 'UNKNOWN') {
+        row.sire = null;
+    }
 }

nbri_ehr/resources/queries/study/demographicsFamily.sql

@@ -0,0 +1,31 @@
+/*
+ * Copyright (c) 2026 LabKey Corporation
+ *
+ * Licensed under the Apache License, Version 2.0: http://www.apache.org/licenses/LICENSE-2.0
+ */
+-- parents rather than the raw columns, which drops the UNKNOWN placeholder parent
+SELECT
+
+d1.id,
+
+d1.Id.parents.dam AS dam,
+
+d1.Id.parents.sire AS sire,
+
+dam.Id.parents.dam AS MaternalGranddam,
+
+dam.Id.parents.sire AS MaternalGrandsire,
+
+sire.Id.parents.dam AS PaternalGranddam,
+
+sire.Id.parents.sire AS PaternalGrandsire,
+
+d1.qcstate
+
+FROM study.Demographics d1
+
+LEFT JOIN study.Demographics dam
+  ON (d1.Id.parents.dam = dam.id)
+
+LEFT JOIN study.Demographics sire
+  ON (d1.Id.parents.sire = sire.id)

nbri_ehr/resources/queries/study/demographicsOffspring.sql

@@ -8,14 +8,15 @@ SELECT
     d.id as Id,
     d2.id  AS Offspring,
     d2.birth AS date,
-d2.sire,
-d2.dam,
+d2.id.parents.sire AS sire,
+d2.id.parents.dam AS dam,
 d2.gender AS sex,
 d.qcstate
 
 FROM study.Demographics d
 
+    -- parents rather than the raw columns, which drops the UNKNOWN placeholder parent
     INNER JOIN study.Demographics d2
-ON ((d2.sire = d.id OR d2.dam = d.id) AND d.id != d2.id)
+ON ((d2.id.parents.sire = d.id OR d2.id.parents.dam = d.id) AND d.id != d2.id)
 
-group by d.id, d2.id, d2.birth, d2.sire, d2.dam, d2.gender, d.qcstate
+group by d.id, d2.id, d2.birth, d2.id.parents.sire, d2.id.parents.dam, d2.gender, d.qcstate

nbri_ehr/resources/queries/study/demographicsParents.sql

@@ -14,17 +14,24 @@
  * limitations under the License.
  */
 SELECT
-    d.id,
-    d.dam as dam,
+    p.id,
+    p.dam,
     'Observed' as damType,
-    d.sire as sire,
+    p.sire,
     'Observed' as sireType,
     CASE
-        WHEN d.dam IS NOT NULL AND d.sire IS NOT NULL THEN 2
-        WHEN d.dam IS NOT NULL OR d.sire IS NOT NULL THEN 1
+        WHEN p.dam IS NOT NULL AND p.sire IS NOT NULL THEN 2
+        WHEN p.dam IS NOT NULL OR p.sire IS NOT NULL THEN 1
         ELSE 0
         END as numParents
-FROM study.demographics d
+FROM (
+    -- UNKNOWN is a placeholder parent; left in, every query joining on Id/parents would treat its offspring as siblings
+    SELECT
+        d.id,
+        CASE WHEN UPPER(d.dam) = 'UNKNOWN' THEN NULL ELSE d.dam END as dam,
+        CASE WHEN UPPER(d.sire) = 'UNKNOWN' THEN NULL ELSE d.sire END as sire
+    FROM study.demographics d
+) p
 
 -- TODO: Incorporate fostering? Genetic testing?
 

nbri_ehr/resources/queries/study/parentageSummary.sql

@@ -13,10 +13,11 @@
  * See the License for the specific language governing permissions and
  * limitations under the License.
  */
+-- parents rather than the raw columns, which drops the UNKNOWN placeholder parent
 SELECT
   d.Id,
   d.date,
-  d.dam as parent,
+  d.Id.parents.dam as parent,
   'Dam' as relationship,
   'Observed' as method
 
@@ -28,7 +29,7 @@ UNION ALL
 SELECT
   d.Id,
   d.date,
-  d.sire as parent,
+  d.Id.parents.sire as parent,
   'Sire' as relationship,
   'Observed' as method
 

nbri_ehr/resources/web/nbri_ehr/panel/SnapshotPanel.js

@@ -394,10 +394,16 @@ Ext4.define('NBRI_EHR.panel.SnapshotPanel', {
 
     appendDataResults: function(toSet, results, id){
         this.callParent(arguments);
-        this.appendPregnancy(toSet, results);
+        this.appendPregnancy(toSet, results, id);
     },
 
-    appendPregnancy: function(toSet, results){
+    appendPregnancy: function(toSet, results, id){
+        // UNKNOWN is a placeholder ID, so the conceptions recorded against it describe no single animal
+        if (id && id.toUpperCase() === 'UNKNOWN'){
+            toSet['pregnant'] = '';
+            return;
+        }
+
         var records = results ? results.getData()['activeConceptions'] : null;
         // getEHRContext returns null when the study container property is unset; fall back to the current container
         var ctx = EHR.Utils.getEHRContext() || {};

nbri_ehr/src/org/labkey/nbri_ehr/dataentry/section/NBRIBirthFormSection.java

@@ -53,6 +53,8 @@ public NBRIBirthFormSection()
         super("study", "birth", "Births", false);
         addClientDependency(ClientDependency.supplierFromPath("nbri_ehr/window/StartWithConceptionWindow.js"));
         addClientDependency(ClientDependency.supplierFromPath("nbri_ehr/field/ConceptionField.js"));
+        addClientDependency(ClientDependency.supplierFromPath("ehr/window/FormBulkAddWindow.js"));
+        addClientDependency(ClientDependency.supplierFromPath("nbri_ehr/window/FormBulkAddWindow.js"));
     }
 
     @Override
@@ -98,6 +100,7 @@ public List<String> getTbarMoreActionButtons()
     {
         List<String> defaultButtons = super.getTbarMoreActionButtons();
         defaultButtons.remove("GUESSPROJECT");
+        defaultButtons.add("NBRI_FORM_BULK_ADD");
         return defaultButtons;
     }
 }