Impala casts (#268) (#291)

* Indices creation skip if netezza

* fix

* ATLP-301 Impala: Achilles reports fails

* test fixes

inst/sql/sql_server/AchillesHeel_v5.sql

@@ -95,15 +95,18 @@ create table @results_database_schema.ACHILLES_results_derived
 --generate counts for meas type, drug type, proc type, obs type
 --optional TODO: possibly rewrite this with CASE statement to better make 705 into drug, 605 into proc ...etc
 --               in measure_id column (or make that separate sql calls for each category)
-insert into @results_database_schema.ACHILLES_results_derived (analysis_id, stratum_1, statistic_value,measure_id)    
-select 
+with t1(label_id, measure_id) as (select analysis_id as label_id, CAST(CONCAT('ach_',CAST(analysis_id as VARCHAR(10)),':GlobalCnt') AS VARCHAR(100)) as measure_id
+                                  from @results_database_schema.achilles_results
+                                  where analysis_id in(1805,705,605,805,405))
+insert into @results_database_schema.ACHILLES_results_derived (analysis_id, stratum_1, statistic_value,measure_id)
+select
   --100000+analysis_id, 
   NULL as analysis_id,
   stratum_2 as stratum_1,
   sum(count_value) as statistic_value,
   CAST(CONCAT('ach_',CAST(analysis_id as VARCHAR(10)),':GlobalCnt') AS VARCHAR(100)) as measure_id
-from @results_database_schema.achilles_results 
-where analysis_id in(1805,705,605,805,405) group by analysis_id,stratum_2,CAST(CONCAT('ach_',CAST(analysis_id as VARCHAR(10)),':GlobalCnt') AS VARCHAR(100));
+from t1 inner join @results_database_schema.achilles_results on t1.label_id = analysis_id
+group by analysis_id,stratum_2,measure_id;
 
 
 

inst/sql/sql_server/Achilles_v5.sql

@@ -7511,7 +7511,7 @@ Reports
 -- 1900	concept_0 report
 
 INSERT INTO @results_database_schema.ACHILLES_results (analysis_id, stratum_1, stratum_2, count_value)
-select 1900 as analysis_id, CAST(table_name AS VARCHAR(255)) as stratum_1, source_value as stratum_2, cnt as count_value
+select 1900 as analysis_id, CAST(table_name AS VARCHAR(255)) as stratum_1, CAST(source_value AS VARCHAR(255)) as stratum_2, cnt as count_value
  from (
 select 'measurement' as table_name,measurement_source_value as source_value, COUNT_BIG(*) as cnt from @cdm_database_schema.measurement where measurement_concept_id = 0 group by measurement_source_value 
 union

inst/sql/sql_server/ConceptHierarchy_v5.sql

@@ -27,12 +27,12 @@ INSERT INTO @results_database_schema.concept_hierarchy
 (concept_id, concept_name, treemap, level1_concept_name, level2_concept_name, level3_concept_name, level4_concept_name)
   SELECT
     snomed.concept_id,
-    snomed.concept_name AS snomed_concept_name,
+    CAST(snomed.concept_name AS VARCHAR(400)) AS snomed_concept_name,
     CAST('Condition' AS VARCHAR(20)) AS treemap,
-    pt_to_hlt.pt_concept_name,
-    hlt_to_hlgt.hlt_concept_name,
-    hlgt_to_soc.hlgt_concept_name,
-    soc.concept_name    AS soc_concept_name
+    CAST(pt_to_hlt.pt_concept_name AS VARCHAR(255)),
+    CAST(hlt_to_hlgt.hlt_concept_name AS VARCHAR(255)),
+    CAST(hlgt_to_soc.hlgt_concept_name AS VARCHAR(255)),
+    CAST(soc.concept_name AS VARCHAR(255)) AS soc_concept_name
   FROM
     (
       SELECT
@@ -128,12 +128,12 @@ INSERT INTO @results_database_schema.concept_hierarchy
 (concept_id, concept_name, treemap, level1_concept_name, level2_concept_name, level3_concept_name, level4_concept_name)
   SELECT
     rxnorm.concept_id,
-    rxnorm.concept_name AS rxnorm_concept_name,
+    CAST(rxnorm.concept_name AS VARCHAR(400)) AS rxnorm_concept_name,
     CAST('Drug' AS VARCHAR(20)) AS treemap,
-    rxnorm.rxnorm_ingredient_concept_name,
-    atc5_to_atc3.atc5_concept_name,
-    atc3_to_atc1.atc3_concept_name,
-    atc1.concept_name   AS atc1_concept_name
+    CAST(rxnorm.rxnorm_ingredient_concept_name AS VARCHAR(255)),
+    CAST(atc5_to_atc3.atc5_concept_name AS VARCHAR(255)),
+    CAST(atc3_to_atc1.atc3_concept_name AS VARCHAR(255)),
+    CAST(atc1.concept_name AS VARCHAR(255)) AS atc1_concept_name
   FROM
     (
       SELECT
@@ -220,11 +220,11 @@ INSERT INTO @results_database_schema.concept_hierarchy
 (concept_id, concept_name, treemap, level1_concept_name, level2_concept_name, level3_concept_name)
   SELECT
     rxnorm.rxnorm_ingredient_concept_id,
-    rxnorm.rxnorm_ingredient_concept_name,
+    CAST(rxnorm.rxnorm_ingredient_concept_name AS VARCHAR(400)),
     CAST('Drug Era' AS VARCHAR(20)) AS treemap,
-    atc5_to_atc3.atc5_concept_name,
-    atc3_to_atc1.atc3_concept_name,
-    atc1.concept_name AS atc1_concept_name
+    CAST(atc5_to_atc3.atc5_concept_name AS VARCHAR(255)),
+    CAST(atc3_to_atc1.atc3_concept_name AS VARCHAR(255)),
+    CAST(atc1.concept_name AS VARCHAR(255)) AS atc1_concept_name
   FROM
     (
       SELECT
@@ -306,7 +306,7 @@ INSERT INTO @results_database_schema.concept_hierarchy
 (concept_id, concept_name, treemap, level1_concept_name, level2_concept_name, level3_concept_name)
   SELECT
     m.concept_id,
-    m.concept_name,
+    CAST(m.concept_name AS VARCHAR(400)),
     CAST('Measurement' AS VARCHAR(20)) AS treemap,
     CAST(max(c1.concept_name) AS VARCHAR(255)) AS level1_concept_name,
     CAST(max(c2.concept_name) AS VARCHAR(255)) AS level2_concept_name,
@@ -335,7 +335,7 @@ INSERT INTO @results_database_schema.concept_hierarchy
 (concept_id, concept_name, treemap, level1_concept_name, level2_concept_name, level3_concept_name)
   SELECT
     obs.concept_id,
-    obs.concept_name,
+    CAST(obs.concept_name AS VARCHAR(400)),
     CAST('Observation' AS VARCHAR(20)) AS treemap,
     CAST(max(c1.concept_name) AS VARCHAR(255)) AS level1_concept_name,
     CAST(max(c2.concept_name) AS VARCHAR(255)) AS level2_concept_name,