changed the parentageDamMismatch query by adding more filters

Author: kollil

onprc_ehr/resources/queries/study/ParentageDamMismatch.sql

@@ -48,26 +48,17 @@ LEFT JOIN study.birth b
 WHERE d.calculated_status.code IN ('Alive', 'Dead')
   AND d.qcstate = 18
 
-    /* exclude animals with active Foster Dam */
+    /* exclude animals with active Foster Dam  */
+    /* And, exclude animals with active Surrogate Dam */
   AND NOT EXISTS (
     SELECT 1
     FROM study.parentage fd
     WHERE fd.Id = d.Id
-      AND fd.relationship = 'Foster Dam'
+      AND fd.relationship IN ('Foster Dam', 'Surrogate Dam')
       AND fd.enddate IS NULL
       AND COALESCE(RTRIM(LTRIM(CAST(fd.parent AS VARCHAR(50)))), '') <> ''
   )
 
-    /* exclude animals with active Surrogate Dam */
-  AND NOT EXISTS (
-    SELECT 1
-    FROM study.parentage sd
-    WHERE sd.Id = d.Id
-      AND sd.relationship = 'Surrogate Dam'
-      AND sd.enddate IS NULL
-      AND COALESCE(RTRIM(LTRIM(CAST(sd.parent AS VARCHAR(50)))), '') <> ''
-  )
-
     /* observed dam is not blank */
   AND COALESCE(RTRIM(LTRIM(CAST(b.dam AS VARCHAR(50)))), '') <> ''
 
@@ -83,67 +74,3 @@ WHERE d.calculated_status.code IN ('Alive', 'Dead')
     /* observed dam does not match genetic dam */
   AND COALESCE(RTRIM(LTRIM(CAST(b.dam AS VARCHAR(50)))), '') <>
       COALESCE(RTRIM(LTRIM(CAST(gd.geneticDam AS VARCHAR(50)))), '');
-
-
--- SELECT
---     d.Id,
---     d.Id.curLocation.area AS Area,
---     coalesce(p2.parent, '') as geneticDam,
---     coalesce(b.dam, '') as observedDam
--- FROM study.demographics d
---
---     LEFT JOIN (
---     SELECT
---         p2.Id,
---         MAX(p2.parent) AS parent
---     FROM study.parentage p2
---     WHERE (p2.method = 'Genetic' OR p2.method = 'Provisional Genetic')
---       AND p2.relationship = 'Dam'
---       AND p2.enddate IS NULL
---     GROUP BY p2.Id
--- ) p2 ON d.Id = p2.Id
---
---     LEFT JOIN (
---     SELECT
---         p3.Id,
---         MAX(p3.parent) AS parent
---     FROM study.parentage p3
---     WHERE p3.relationship = 'Foster Dam'
---       AND p3.enddate IS NULL
---     GROUP BY p3.Id
--- ) p3 ON d.Id = p3.Id
---
---     LEFT JOIN study.birth b
---         ON b.Id = d.Id
---
--- WHERE d.calculated_status.code IN ('Alive', 'Dead') AND d.qcstate = 18
---     /* exclude foster-dam cases (NULL or blank only) */
---   AND COALESCE(RTRIM(LTRIM(CAST(p3.parent AS VARCHAR(50)))), '') = ''
---
---     /* 1. exclude animals with active Surrogate Dam entered */
---   AND NOT EXISTS (
---     SELECT 1
---     FROM study.parentage sd
---     WHERE sd.Id = d.Id
---       AND sd.relationship = 'Surrogate Dam'
---       AND sd.enddate IS NULL
---       AND COALESCE(RTRIM(LTRIM(CAST(sd.parent AS VARCHAR(50)))), '') <> ''
--- )
---
---     /* 2. exclude observed dam = unknown */
---   AND LOWER(COALESCE(RTRIM(LTRIM(CAST(b.dam AS VARCHAR(50)))), '')) <> 'unknown'
---
---     /* 3. exclude observed dam IDs that are not ONPRC IDs, e.g. NEPRC ###-#### */
---   AND COALESCE(RTRIM(LTRIM(CAST(b.dam AS VARCHAR(50)))), '') NOT LIKE '%-%'
---
---     /* exclude blank observed dam */
---   AND COALESCE(RTRIM(LTRIM(CAST(b.dam AS VARCHAR(50)))), '') <> ''
---
---     /* exclude blank genetic dam */
---   AND COALESCE(RTRIM(LTRIM(CAST(p2.parent AS VARCHAR(50)))), '') <> ''
---
---     /* mismatch observed vs genetic */
---   AND COALESCE(RTRIM(LTRIM(CAST(b.dam AS VARCHAR(50)))), '') <>
---       COALESCE(RTRIM(LTRIM(CAST(p2.parent AS VARCHAR(50)))), '')
---
---