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privacykit
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removing SQL files

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pull/2/head
Steve L. Nyemba 7 years ago
parent 0239b0ab42
commit 0456a77beb
2 changed files with 0 additions and 459 deletions
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83
src/sql/basic-observation.sql
Unescape View File

@ -1,83 +0,0 @@
SELECT person.person_id,sex_at_birth,birth_date, race,zip,city,state, gender
FROM
(SELECT DISTINCT person_id from deid_tmp.observation order by person_id) as person
FULL JOIN (
SELECT
person_id,MAX(value_as_string) as race
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'Race_WhatRace') and value_as_string IS NOT NULL
GROUP BY person_id
order by person_id
) as lang
ON lang.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_as_string) as zip
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'PIIZIP') and value_as_string IS NOT NULL
GROUP BY person_id
order by person_id
) as work_add
ON work_add.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_as_string) as city
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'PIICity') and value_as_string IS NOT NULL
GROUP BY person_id
order by person_id
) as u_city
ON u_city.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_as_string) as state
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'PIIState') and value_as_string IS NOT NULL
GROUP BY person_id
order by person_id
) as p_addr_o
ON p_addr_o.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_as_string) as gender
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'Gender_GenderIdentity') and value_as_string IS NOT NULL
GROUP BY person_id
order by person_id
) as p_gender
ON p_gender.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_as_string) as birth_date
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'PIIBirthInformation_BirthDate') and value_as_string IS NOT NULL
GROUP BY person_id
order by person_id
) as p_birth
ON p_birth.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_as_string) as sex_at_birth
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'BiologicalSexAtBirth_SexAtBirth') and value_as_string IS NOT NULL
GROUP BY person_id
order by person_id
) as p_sex
ON p_sex.person_id = person.person_id
ORDER BY person.person_id

376
src/sql/observation-registered.sql
Unescape View File

@ -1,376 +0,0 @@
SELECT *
FROM (
SELECT person.person_id,first_name,last_name,birth_date,city,family_history_aware,current_hyper_tension,sex_at_birth, race,state, gender,ethnicity,birth_place,orientation,education,employment_status,
marital_status,language,home_owner,sd_bloodbank, nhpi, living_situation,income,death_cause, death_date, active_duty_status,
gender_identity, insurance_type, work_address_state,consent_18_years_age,person_one_state,person_two_state,sc_site,
health_abroad_6_months,travel_abroad_6_months
FROM
(SELECT DISTINCT person_id from deid_tmp.observation order by person_id) as person
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as travel_abroad_6_months
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'OutsideTravel6Month_OutsideTravel6MonthWhere') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as te_
ON te_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as health_abroad_6_months
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'OverallHealth_OutsideTravel6Month') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as he_
ON he_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as active_duty_status
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'ActiveDuty_AvtiveDutyServeStatus') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as mil_
ON mil_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as sc_site
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'SouthCarolinaSitePairing_EauClaireAppointment') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as sc_
ON sc_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as person_one_state
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'PersonOneAddress_PersonOneAddressState') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as p1_
ON p1_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as person_two_state
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'SecondContactsAddress_SecondContactState') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as p2_
ON p2_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_as_string) as work_address_state
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'EmploymentWorkAddress_State') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as ws_
ON ws_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as consent_18_years_age
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'ExtraConsent_18YearsofAge') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as c18_
ON c18_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as gender_identity
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'Gender_GenderIdentity') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as gi_
ON gi_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as income
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'Income_AnnualIncome') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as income_
ON income_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as living_situation
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'LivingSituation_CurrentLiving') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as living_
ON living_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as nhpi
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'NHPI_NHPISpecific') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as nhpi_
ON nhpi_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_as_string) as sd_bloodbank
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'SanDiegoBloodBank') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as sd
ON sd.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as education
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'EducationLevel_HighestGrade') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as edu
ON edu.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as home_owner
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'HomeOwn_CurrentHomeOwn') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as h_owner
ON h_owner.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as employment_status
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'Employment_EmploymentStatus') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as empl
ON empl.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as marital_status
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'MaritalStatus_CurrentMaritalStatus') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as marital
ON marital.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as language
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'Language_SpokenWrittenLanguage') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as lang_
ON lang_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as race
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'Race_WhatRace') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as lang
ON lang.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as ethnicity
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'Race_WhatRaceEthnicity') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as ethnic
ON ethnic.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as birth_place
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'TheBasics_Birthplace') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as birthp
ON birthp.person_id = person.person_id
FULL JOIN (
SELECT
person_id,MAX(value_source_value) as orientation
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'TheBasics_SexualOrientation') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as sexo
ON sexo.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_source_value) as state
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'PIIState') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as p_addr_o
ON p_addr_o.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_source_value) as gender
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'Gender_GenderIdentity') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as p_gender
ON p_gender.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_source_value) as sex_at_birth
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'_SexAtBirth') --and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as p_sex
ON p_sex.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_source_value) as insurance_type
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'HealthInsurance_HealthInsuranceType') and value_source_value IS NOT NULL
GROUP BY person_id
order by person_id
) as ins_
ON ins_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_as_string) as last_name
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'PIIName_Last') and value_as_string IS NOT NULL
GROUP BY person_id
order by person_id
) as ln_
ON ln_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_as_string) as first_name
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'PIIName_First')
GROUP BY person_id
order by person_id
) as fn_
ON fn_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_as_string) as current_hyper_tension
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'Circulatory_HypertensionCurrently')
GROUP BY person_id
order by person_id
) as cht_
ON cht_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max( cast(value_as_string as DATE)) as birth_date
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'PIIBirthInformation_BirthDate')
GROUP BY person_id
order by person_id
) as bd_
ON bd_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_as_string) as city
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'StreetAddress_PIICity')
GROUP BY person_id
order by person_id
) as city_
ON city_.person_id = person.person_id
FULL JOIN (
SELECT
person_id,max(value_as_string) as family_history_aware
FROM deid_tmp.observation
WHERE REGEXP_CONTAINS(observation_source_value,'FamilyHistory_FamilyMedicalHistoryAware')
GROUP BY person_id
order by person_id
) as bro_
ON bro_.person_id = person.person_id
FULL JOIN (
SELECT person_id, max(death_date) AS death_date
FROM deid_tmp.death
GROUP BY person_id
order BY person_id
) as death_
ON death_.person_id = person.person_id
FULL JOIN (
SELECT person_id, max(cause_source_value) as death_cause
FROM deid_tmp.death
GROUP BY person_id
order BY person_id
) as death_c ON death_c.person_id = person.person_id
ORDER BY person.person_id
) as frame
-- WHERE first_name is not NULL
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