apply automatic formatting fixes

Author: alistairewj

mimic-iv/concepts/treatment/code_status.sql

@@ -3,67 +3,79 @@
 --    ii) a patient's last code status
 --    iii) the time of the first entry of DNR or CMO
 
-with t1 as
-(
-  /* 
+with t1 as (
+  /*
 There are five distinct values for the code status order in the dataset:
 1 DNR / DNI
 2	DNI (do not intubate)
 3	Comfort measures only
 4	Full code
 5	DNR (do not resuscitate)
  */
-  
-  select stay_id, charttime, value
-  -- use row number to identify first and last code status
-  , ROW_NUMBER() over (PARTITION BY stay_id order by charttime) as rnfirst
-  , ROW_NUMBER() over (PARTITION BY stay_id order by charttime desc) as rnlast
-  -- coalesce the values
-  , case
-      when value in ('Full code') then 1
-    else 0 end as fullcode
-  , case
-      when value in ('Comfort measures only') then 1
-    else 0 end as cmo
-  , case
-      when value in ('DNI (do not intubate)','DNR / DNI') then 1
-    else 0 end as dni
-  , case
-      when value in ('DNR (do not resuscitate)','DNR / DNI') then 1
-    else 0 end as dnr
-  FROM `physionet-data.mimic_icu.chartevents`
-  where itemid in (223758)
+
+    select
+        stay_id,
+        charttime,
+        value,
+        -- use row number to identify first and last code status
+        ROW_NUMBER() over (partition by stay_id order by charttime) as rnfirst,
+        ROW_NUMBER() over (
+            partition by stay_id order by charttime desc
+        ) as rnlast,
+        -- coalesce the values
+        case
+            when value in ('Full code') then 1
+            else 0 end as fullcode,
+        case
+            when value in ('Comfort measures only') then 1
+            else 0 end as cmo,
+        case
+            when value in ('DNI (do not intubate)', 'DNR / DNI') then 1
+            else 0 end as dni,
+        case
+            when value in ('DNR (do not resuscitate)', 'DNR / DNI') then 1
+            else 0 end as dnr
+    from `physionet-data.mimic_icu.chartevents`
+    where itemid in (223758)
 )
-select ie.subject_id, ie.hadm_id, ie.stay_id
-  -- first recorded code status
-  , max(case when rnfirst = 1 then t1.fullcode else null end) as fullcode_first
-  , max(case when rnfirst = 1 then t1.cmo else null end) as cmo_first
-  , max(case when rnfirst = 1 then t1.dnr else null end) as dnr_first
-  , max(case when rnfirst = 1 then t1.dni else null end) as dni_first
 
-  -- last recorded code status
-  , max(case when  rnlast = 1 then t1.fullcode else null end) as fullcode_last
-  , max(case when  rnlast = 1 then t1.cmo else null end) as cmo_last
-  , max(case when  rnlast = 1 then t1.dnr else null end) as dnr_last
-  , max(case when  rnlast = 1 then t1.dni else null end) as dni_last
+select
+    ie.subject_id,
+    ie.hadm_id,
+    ie.stay_id,
+    -- first recorded code status
+    MAX(
+        case when rnfirst = 1 then t1.fullcode end
+    ) as fullcode_first,
+    MAX(case when rnfirst = 1 then t1.cmo end) as cmo_first,
+    MAX(case when rnfirst = 1 then t1.dnr end) as dnr_first,
+    MAX(case when rnfirst = 1 then t1.dni end) as dni_first,
+
+    -- last recorded code status
+    MAX(
+        case when rnlast = 1 then t1.fullcode end
+    ) as fullcode_last,
+    MAX(case when rnlast = 1 then t1.cmo end) as cmo_last,
+    MAX(case when rnlast = 1 then t1.dnr end) as dnr_last,
+    MAX(case when rnlast = 1 then t1.dni end) as dni_last,
 
-  -- were they *at any time* given a certain code status
-  , max(t1.fullcode) as fullcode
-  , max(t1.cmo) as cmo
-  , max(t1.dnr) as dnr
-  , max(t1.dni) as dni
+    -- were they *at any time* given a certain code status
+    MAX(t1.fullcode) as fullcode,
+    MAX(t1.cmo) as cmo,
+    MAX(t1.dnr) as dnr,
+    MAX(t1.dni) as dni,
 
-  -- time until their first DNR
-  , min(case when t1.dnr = 1 then t1.charttime else null end)
-        as dnr_first_charttime
-  , min(case when t1.dni = 1 then t1.charttime else null end)
-        as dni_first_charttime
+    -- time until their first DNR
+    MIN(case when t1.dnr = 1 then t1.charttime end)
+    as dnr_first_charttime,
+    MIN(case when t1.dni = 1 then t1.charttime end)
+    as dni_first_charttime,
 
-  -- first code status of CMO
-  , min(case when t1.cmo = 1 then t1.charttime else null end)
-        as timecmo_chart
+    -- first code status of CMO
+    MIN(case when t1.cmo = 1 then t1.charttime end)
+    as timecmo_chart
 
-FROM `physionet-data.mimic_icu.icustays` ie
+from `physionet-data.mimic_icu.icustays` as ie
 left join t1
-  on ie.stay_id = t1.stay_id
+          on ie.stay_id = t1.stay_id
 group by ie.subject_id, ie.hadm_id, ie.stay_id, ie.intime;