[DC-3635] Remove portion of query checking primary consent (#1834)

* [DC-3635] Remove portion of query checking primary consent * [DC-3635] Remove fitbit check in CT
all-of-us · Jan 29, 2024 · ed403e4 · ed403e4
1 parent b680735
commit ed403e4
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Showing 2 changed files with 2 additions and 42 deletions.
diff --git a/data_steward/analytics/cdr_ops/controlled_tier_qc/check_controlled_tier_part2.py b/data_steward/analytics/cdr_ops/controlled_tier_qc/check_controlled_tier_part2.py
@@ -1300,7 +1300,6 @@ def query_template(table_era):
 # **If check fails:**<br>
 # * The issue `participant with multiple records` means that those participants have multiple rows in the wear_study table, which should not be possible. Investigate the issue. Start with the CR that creates the wear_study table. <br>
 # * The issue `not in person table` means that participants exist in the wear_study table that aren't in the person table, which should not be possible. Investigate the issue. Start with the CR that creates the wear_study table.<br>
-# * The issue `no primary consent` means that participants exist in the wear_study table that do not have proper primary consent. Investigate the issue. It is possible that there is another way to determine primary consent. <br>
 
 # +
 query = JINJA_ENV.from_string("""
@@ -1329,26 +1328,6 @@ def query_template(table_era):
   SELECT person_id
   FROM `{{project_id}}.{{ct_dataset}}.person` o
   )
-
-UNION ALL
-
-SELECT
-  'no primary consent' as issue,
-  COUNT(person_id) as bad_rows
-FROM `{{project_id}}.{{ct_dataset}}.wear_study` ws
-WHERE person_id not in (  -- aou consenting participants --
-  SELECT cte.person_id
-  FROM latest_primary_consent_records cte
-    LEFT JOIN ( -- any positive primary consent --
-      SELECT *
-      FROM `{{project_id}}.{{ct_dataset}}.observation`
-      WHERE REGEXP_CONTAINS(observation_source_value, '(?i)extraconsent_agreetoconsent')
-      AND value_as_concept_id = 45877994) o
-    ON cte.person_id = o.person_id
-    AND cte.latest_date = o.observation_date
-  WHERE o.person_id IS NOT NULL
-  )
-
 """)
 q = query.render(project_id=project_id, ct_dataset=ct_dataset)
 df1 = execute(client, q)
@@ -1371,6 +1350,7 @@ def query_template(table_era):
         ignore_index=True)
 # -
 
+
 df1
 
 # +
@@ -1530,4 +1510,4 @@ def highlight_cells(val):
     return f'background-color: {color}'
 
 
-df.style.applymap(highlight_cells).set_properties(**{'text-align': 'left'})
+df.style.applymap(highlight_cells).set_properties(**{'text-align': 'left'})
diff --git a/data_steward/analytics/cdr_ops/rt_cdr_qc/cdr_deid_qa_report10_extra.py b/data_steward/analytics/cdr_ops/rt_cdr_qc/cdr_deid_qa_report10_extra.py
@@ -864,26 +864,6 @@ def my_sql(table_name, column_name):
   SELECT person_id
   FROM `{{project_id}}.{{rt_cdr_deid}}.person` o
   )
-  
-UNION ALL
-
-SELECT
-  'no primary consent' as issue,
-  COUNT(person_id) as bad_rows
-FROM `{{project_id}}.{{rt_cdr_deid}}.wear_study` ws
-WHERE person_id not in (  -- aou consenting participants --
-  SELECT cte.person_id
-  FROM latest_primary_consent_records cte
-    LEFT JOIN ( -- any positive primary consent --
-      SELECT *
-      FROM `{{project_id}}.{{rt_cdr_deid}}.observation`
-      WHERE REGEXP_CONTAINS(observation_source_value, '(?i)extraconsent_agreetoconsent')
-      AND value_as_concept_id = 45877994) o
-    ON cte.person_id = o.person_id
-    AND cte.latest_date = o.observation_date
-  WHERE o.person_id IS NOT NULL
-  )
-
 """)
 q = query.render(project_id=project_id,
                  rt_cdr_deid=rt_cdr_deid)