add physionet-data project to from statements

Author: alistairewj

mimic-iv/concepts/measurement/bg.sql

@@ -44,7 +44,7 @@ select
   , MAX(CASE WHEN itemid = 50824 THEN valuenum ELSE NULL END) AS sodium
   , MAX(CASE WHEN itemid = 50825 THEN valuenum ELSE NULL END) AS temperature
   , MAX(CASE WHEN itemid = 50807 THEN value ELSE NULL END) AS comments
-FROM mimic_hosp.labevents le
+FROM `physionet-data.mimic_hosp.labevents` le
 where le.ITEMID in
 -- blood gases
 (
@@ -84,7 +84,7 @@ GROUP BY le.specimen_id
   select subject_id, charttime
     -- avg here is just used to group SpO2 by charttime
     , AVG(valuenum) as SpO2
-  FROM mimic_icu.chartevents
+  FROM `physionet-data.mimic_icu.chartevents`
   where ITEMID = 220277 -- O2 saturation pulseoxymetry
   and valuenum > 0 and valuenum <= 100
   group by subject_id, charttime
@@ -104,7 +104,7 @@ GROUP BY le.specimen_id
             then valuenum
       else null end
     ) as fio2_chartevents
-  FROM mimic_icu.chartevents
+  FROM `physionet-data.mimic_icu.chartevents`
   where ITEMID = 223835 -- Inspired O2 Fraction (FiO2)
   and valuenum > 0 and valuenum <= 100
   group by subject_id, charttime

mimic-iv/concepts/measurement/blood_differential.sql

@@ -47,7 +47,7 @@ SELECT
     AND SUM(CASE WHEN itemid IN (51146, 51200, 51244, 51245, 51254, 51256) THEN valuenum ELSE NULL END) > 0
     THEN 1 ELSE 0 END AS impute_abs
 
-FROM mimic_hosp.labevents le
+FROM `physionet-data.mimic_hosp.labevents` le
 WHERE le.itemid IN
 (
     51146, -- basophils

mimic-iv/concepts/measurement/cardiac_marker.sql

@@ -8,7 +8,7 @@ SELECT
   , MAX(CASE WHEN itemid = 51003 THEN value ELSE NULL END) AS troponin_t
   , MAX(CASE WHEN itemid = 50911 THEN valuenum ELSE NULL END) AS ck_mb
   , MAX(CASE WHEN itemid = 50963 THEN valuenum ELSE NULL END) AS ntprobnp
-FROM mimic_hosp.labevents le
+FROM `physionet-data.mimic_hosp.labevents` le
 WHERE le.itemid IN
 (
     -- 51002, -- Troponin I (troponin-I is not measured in MIMIC-IV)

mimic-iv/concepts/measurement/chemistry.sql

@@ -20,7 +20,7 @@ SELECT
   , MAX(CASE WHEN itemid = 50931 AND valuenum <= 10000 THEN valuenum ELSE NULL END) AS glucose
   , MAX(CASE WHEN itemid = 50983 AND valuenum <=   200 THEN valuenum ELSE NULL END) AS sodium
   , MAX(CASE WHEN itemid = 50971 AND valuenum <=    30 THEN valuenum ELSE NULL END) AS potassium
-FROM mimic_hosp.labevents le
+FROM `physionet-data.mimic_hosp.labevents` le
 WHERE le.itemid IN
 (
   -- comment is: LABEL | CATEGORY | FLUID | NUMBER OF ROWS IN LABEVENTS

mimic-iv/concepts/measurement/coagulation.sql

@@ -10,7 +10,7 @@ SELECT
   , MAX(CASE WHEN itemid = 51237 THEN valuenum ELSE NULL END) AS inr
   , MAX(CASE WHEN itemid = 51274 THEN valuenum ELSE NULL END) AS pt
   , MAX(CASE WHEN itemid = 51275 THEN valuenum ELSE NULL END) AS ptt
-FROM mimic_hosp.labevents le
+FROM `physionet-data.mimic_hosp.labevents` le
 WHERE le.itemid IN
 (
     -- 51149, 52750, 52072, 52073 -- Bleeding Time, no data as of MIMIC-IV v0.4

mimic-iv/concepts/measurement/complete_blood_count.sql

@@ -15,7 +15,7 @@ SELECT
   , MAX(CASE WHEN itemid = 51277 THEN valuenum ELSE NULL END) AS rdw
   , MAX(CASE WHEN itemid = 52159 THEN valuenum ELSE NULL END) AS rdwsd
   , MAX(CASE WHEN itemid = 51301 THEN valuenum ELSE NULL END) AS wbc
-FROM mimic_hosp.labevents le
+FROM `physionet-data.mimic_hosp.labevents` le
 WHERE le.itemid IN
 (
     51221, -- hematocrit

mimic-iv/concepts/measurement/creatinine_baseline.sql

@@ -34,7 +34,7 @@ WITH p as
 , ckd as 
 (
     SELECT hadm_id, MAX(1) AS CKD_flag
-    FROM mimic_hosp.diagnoses_icd
+    FROM `physionet-data.mimic_hosp.diagnoses_icd`
     WHERE 
         (
             SUBSTR(icd_code, 1, 3) = '585'

mimic-iv/concepts/measurement/enzyme.sql

@@ -16,7 +16,7 @@ SELECT
   , MAX(CASE WHEN itemid = 50911 THEN valuenum ELSE NULL END) AS ck_mb
   , MAX(CASE WHEN itemid = 50927 THEN valuenum ELSE NULL END) AS ggt
   , MAX(CASE WHEN itemid = 50954 THEN valuenum ELSE NULL END) AS ld_ldh
-FROM mimic_hosp.labevents le
+FROM `physionet-data.mimic_hosp.labevents` le
 WHERE le.itemid IN
 (
     50861, -- Alanine transaminase (ALT)

mimic-iv/concepts/measurement/gcs.sql

@@ -41,7 +41,7 @@ with base as
     as endotrachflag
   , ROW_NUMBER ()
           OVER (PARTITION BY ce.stay_id ORDER BY ce.charttime ASC) as rn
-  from mimic_icu.chartevents ce
+  from `physionet-data.mimic_icu.chartevents` ce
   -- Isolate the desired GCS variables
   where ce.ITEMID in
   (

mimic-iv/concepts/measurement/inflammation.sql

@@ -7,7 +7,7 @@ SELECT
   , MAX(CASE WHEN itemid = 50889 THEN valuenum ELSE NULL END) AS crp
   -- , CAST(NULL AS NUMERIC) AS il6
   -- , CAST(NULL AS NUMERIC) AS procalcitonin
-FROM mimic_hosp.labevents le
+FROM `physionet-data.mimic_hosp.labevents` le
 WHERE le.itemid IN
 (
     50889 -- crp