In connection with David Rowley's proposal to change bitmapset.c to use
64-bit words, I dug out an old test case I had for a complex-to-plan query
(attached). Andres Freund posted this to the lists perhaps ten years ago,
though I can't locate the original posting right now.
I was distressed to discover via perf that 69% of the runtime of this
test now goes into match_eclasses_to_foreign_key_col(). That seems
clearly unacceptable. There aren't an unreasonable number of foreign key
constraints in the underlying schema --- mostly one per table, and there's
only one table with as many as 3. However, poking around in the planner
data structures, it turns out there are:
888 base relations
1005 EquivalenceClasses
167815 fkey_list entries initially
690 fkey_list entries after match_foreign_keys_to_quals trims them
So the reason match_eclasses_to_foreign_key_col is so dominant in the
runtime is it's invoked 167815 times and has to scan a thousand
EquivalenceClasses (unsuccessfully) on most of those calls.
How did the fkey_list get that big? I think the issue is that the
query touches the same tables many many times (888 baserels, but
there are only 20 distinct tables in the schema) and we get an
O(N^2) growth in the apparent number of FKs.
Clearly, we ought to rethink that data structure. I'm not sure
offhand how to make it better, but this is pretty awful.
Perhaps there'd also be some use in having better indexing for
the EquivalenceClass list, but again I'm not sure what that'd
look like.
regards, tom lane
\set ON_ERROR_STOP on
DROP SCHEMA IF EXISTS test_data CASCADE;
DROP SCHEMA IF EXISTS test_view CASCADE;
CREATE SCHEMA test_data;
CREATE SCHEMA test_view;
SET SEARCH_PATH = test_data, test_view;
CREATE TABLE proband (
proband_id bigserial PRIMARY KEY
);
CREATE TABLE sample (
sample_id bigserial PRIMARY KEY
);
CREATE TABLE proband__sample (
proband_id bigint NOT NULL REFERENCES proband,
sample_id bigint NOT NULL REFERENCES sample,
UNIQUE(proband_id, sample_id)
);
CREATE TABLE project (
project_id bigserial PRIMARY KEY,
name text NOT NULL UNIQUE
);
/*
* Stuff like:
* -Double Entry
* -Single Entry
* -Machine Read
* - ...
*/
CREATE TABLE data_quality (
data_quality_id bigserial PRIMARY KEY,
name text NOT NULL UNIQUE,
description text
);
CREATE TABLE information_set (
information_set_id bigserial PRIMARY KEY,
name text NOT NULL UNIQUE,
description text
);
CREATE TABLE information (
information_id bigserial PRIMARY KEY,
information_set_id bigint NOT NULL REFERENCES information_set,
name text NOT NULL UNIQUE,
description text
);
CREATE INDEX information__information_set_id ON information
(information_set_id);
CREATE TABLE information_set_instance (
information_set_instance_id bigserial PRIMARY KEY,
information_set_id bigint NOT NULL REFERENCES information_set
);
CREATE INDEX information_set_instance__information_set_id ON
information_set_instance (information_set_id);
CREATE TABLE information_set_instance__proband (
information_set_instance_id bigint NOT NULL REFERENCES
information_set_instance,
proband_id bigint NOT NULL REFERENCES proband,
UNIQUE (information_set_instance_id, proband_id)
);
CREATE INDEX information_set_instance__proband__information_set_id ON
information_set_instance__proband (information_set_instance_id);
CREATE INDEX information_set_instance__proband__proband_id ON
information_set_instance__proband (proband_id);
CREATE TABLE information_set_instance__sample (
information_set_instance_id bigint NOT NULL REFERENCES
information_set_instance,
sample_id bigint NOT NULL REFERENCES sample,
UNIQUE (information_set_instance_id, sample_id)
);
CREATE INDEX information_set_instance__sample__information_set_id ON
information_set_instance__sample (information_set_instance_id);
CREATE INDEX information_set_instance__sample__sample_id ON
information_set_instance__sample (sample_id);
CREATE TABLE information_instance (
information_instance_id bigserial PRIMARY KEY,
information_set_instance_id bigint NOT NULL REFERENCES
information_set_instance,
information_id bigint NOT NULL REFERENCES information,
data_quality_id int REFERENCES data_quality
);
CREATE INDEX information_instance__information_set_instance_id ON
information_set_instance(information_set_instance_id);
CREATE INDEX information_instance__information_id ON
information(information_id);
CREATE TABLE information_about_tnm (
information_about_tnm bigserial PRIMARY KEY,
information_instance_id bigint REFERENCES information_instance,
t int,
n int,
m int
);
CREATE INDEX information_about_tnm__information_instance_id ON
information_about_tnm(information_instance_id);
CREATE TABLE information_about_sequenced_data (
information_about_sequenced_data bigserial PRIMARY KEY,
information_instance_id bigint REFERENCES information_instance,
filename text,
data text
);
CREATE INDEX information_about_sequenced_data__information_instance_id ON
information_about_sequenced_data(information_instance_id);
CREATE TABLE information_about_time (
information_about_sequenced_data bigserial PRIMARY KEY,
information_instance_id bigint REFERENCES information_instance,
data timestamp
);
CREATE INDEX information_about_time__information_instance_id ON
information_about_time(information_instance_id);
CREATE TABLE information_about_text (
information_about_text_data bigserial PRIMARY KEY,
information_instance_id bigint REFERENCES information_instance,
data text
);
CREATE INDEX information_about_text__information_instance_id ON
information_about_text(information_instance_id);
/*
* Normally refers to a table containing icd10 classiffication codes
*/
CREATE TABLE information_about_icd10_classification (
information_about_icd10_classification_data bigserial PRIMARY KEY,
information_instance_id bigint REFERENCES information_instance,
data int
);
CREATE INDEX information_about_icd10_classification__information_instance_id ON
information_about_icd10_classification(information_instance_id);
CREATE TABLE information_about_location (
information_about_allowance bigserial PRIMARY KEY,
information_instance_id bigint REFERENCES information_instance,
street text,
building text
-- Additional Attributes
);
CREATE INDEX information_about_location__information_instance_id ON
information_about_location(information_instance_id);
CREATE TABLE information_about_allowance (
information_about_allowance bigserial PRIMARY KEY,
information_instance_id bigint REFERENCES information_instance,
granted bool
);
CREATE INDEX information_about_allowance__information_instance_id ON
information_about_allowance(information_instance_id);
CREATE TABLE information_about_clinic (
information_about_clinic bigserial PRIMARY KEY,
information_instance_id bigint REFERENCES information_instance,
clinic_id int
);
CREATE INDEX information_about_clinic__information_instance_id ON
information_about_allowance(information_instance_id);
CREATE TABLE information_about_personel (
information_about_personel bigserial PRIMARY KEY,
information_instance_id bigint REFERENCES information_instance,
name text
);
CREATE INDEX information_about_personel__information_instance_id ON
information_about_allowance(information_instance_id);
/*
* Lots of other
* information_about_* tables
*/
CREATE TABLE information_about_placeholder (
information_about_personel bigserial PRIMARY KEY,
information_instance_id bigint REFERENCES information_instance,
data text
);
CREATE INDEX information_about_placeholder__information_instance_id ON
information_about_allowance(information_instance_id);
/*
* Views
*/
DROP SCHEMA IF EXISTS test_view CASCADE;
CREATE SCHEMA test_view;
SET SEARCH_PATH = test_view, test_data;
CREATE OR REPLACE VIEW information_set_completition_status AS
SELECT
information_set.information_set_id,
information_set_instance.information_set_instance_id,
COUNT(information.information_id) AS possible_information_nr,
COUNT(information_instance.information_id) AS available_information_nr
FROM
information_set_instance
JOIN information_set USING(information_set_id)
JOIN information USING(information_set_id)
LEFT JOIN information_instance USING(information_id)
GROUP BY
information_set.information_set_id,
information_set_instance.information_set_instance_id;
CREATE OR REPLACE VIEW information_generic_allowance AS
SELECT
information_set_instance__proband.proband_id
,information_set.information_set_id
,information_set_instance.information_set_instance_id
,generic_allowance.granted AS generic_allowance_granted
,anonymized_use_noncommercial_research.granted AS
anonymized_use_noncommercial_research_granted
,anonymized_use_commercial_research.granted AS
anonymized_use_commercial_research_granted
,contact_in_noncommercial_research.granted AS
contact_in_noncommercial_research_granted
,contact_in_commercial_research.granted AS
contact_in_commercial_research_granted
,information_6.granted AS information_6_granted
,information_7.granted AS information_7_granted
,information_8.granted AS information_8_granted
,information_9.granted AS information_9_granted
,information_10.granted AS information_10_granted
,information_11.granted AS information_11_granted
FROM
information_set_instance__proband
JOIN information_set_instance USING (information_set_instance_id)
JOIN information_set USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'generic_allowance'
) AS generic_allowance
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'anonymized_use_noncommercial_research'
) AS anonymized_use_noncommercial_research
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'anonymized_use_commercial_research'
) AS anonymized_use_commercial_research
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'contact_in_noncommercial_research'
) AS contact_in_noncommercial_research
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'contact_in_commercial_research'
) AS contact_in_commercial_research
USING (information_set_id)
/*
* All further joins have pointless names to ease the writing
*/
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_5'
) AS information_6
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_6'
) AS information_7
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_7'
) AS information_8
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_8'
) AS information_9
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_9'
) AS information_10
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_10'
) AS information_11
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_11'
) AS information_12
USING (information_set_id)
WHERE TRUE
AND information_set.name = 'generic_allowance_v3';
CREATE OR REPLACE VIEW information_genetic_allowance AS
SELECT
information_set_instance__proband.proband_id
,information_set.information_set_id
,information_set_instance.information_set_instance_id
,notification_incurable_illness_found.granted AS
notification_incurable_illness_found_granted
,notification_curable_illness_found.granted AS
notification_curable_illness_found_granted
,notification_inheritable_illness_found.granted AS
notification_inheritable_illness_found_granted
,use_of_genetic_data_if_ill_internal.granted AS
use_of_genetic_data_if_ill_internal_granted
,use_of_genetic_data_if_ill_external.granted AS
use_of_genetic_data_if_ill_external_granted
,information_6.granted AS information_6_granted
,information_7.granted AS information_7_granted
,information_8.granted AS information_8_granted
,information_9.granted AS information_9_granted
,information_10.granted AS information_10_granted
,information_11.granted AS information_11_granted
,information_12.granted AS information_12_granted
,information_13.granted AS information_13_granted
,information_14.granted AS information_14_granted
,information_15.granted AS information_15_granted
,information_16.granted AS information_16_granted
,information_17.granted AS information_17_granted
,information_18.granted AS information_18_granted
,information_19.granted AS information_19_granted
,information_20.granted AS information_20_granted
,information_21.granted AS information_21_granted
FROM
information_set_instance__proband
JOIN information_set_instance USING (information_set_instance_id)
JOIN information_set USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'notification_incurable_illness_found'
) AS notification_incurable_illness_found
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'notification_curable_illness_found'
) AS notification_curable_illness_found
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'notification_inheritable_illness_found'
) AS notification_inheritable_illness_found
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'use_of_genetic_data_if_ill_internal'
) AS use_of_genetic_data_if_ill_internal
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'use_of_genetic_data_if_ill_external'
) AS use_of_genetic_data_if_ill_external
USING (information_set_id)
/*
* All further joins have pointless names to ease the writing
*/
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_6'
) AS information_6
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_7'
) AS information_7
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_8'
) AS information_8
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_9'
) AS information_9
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_10'
) AS information_10
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_11'
) AS information_11
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_12'
) AS information_12
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_13'
) AS information_13
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_14'
) AS information_14
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_15'
) AS information_15
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_16'
) AS information_16
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_17'
) AS information_17
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_18'
) AS information_18
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_19'
) AS information_19
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_20'
) AS information_20
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_allowance.granted
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_allowance USING (information_instance_id)
WHERE true
AND information.name = 'information_21'
) AS information_21
USING (information_set_id)
WHERE TRUE
AND information_set.name = 'genetic_allowance_v3';
CREATE OR REPLACE VIEW information_patient_diagnosis AS
SELECT
information_set_instance__proband.proband_id
,information_set.information_set_id
,information_set_instance.information_set_instance_id
,diagnosis_icd10.data AS diagnosis_icd10
FROM
information_set_instance__proband
JOIN information_set_instance USING (information_set_instance_id)
JOIN information_set USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_icd10_classification.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_icd10_classification USING
(information_instance_id)
WHERE true
AND information.name = 'diagnosis'
) AS diagnosis_icd10
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_time.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_time USING (information_instance_id)
WHERE true
AND information.name = 'diagnosis_date'
) AS diagnosis_date
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_clinic.clinic_id
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_clinic USING (information_instance_id)
WHERE true
AND information.name = 'diagnosing_clinic'
) AS diagnosis_clinic
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_personel.name
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_personel USING (information_instance_id)
WHERE true
AND information.name = 'diagnosing_personel'
) AS diagnosis_personel
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_1'
) AS information_1
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_2'
) AS information_2
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_3'
) AS information_3
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_4'
) AS information_4
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_5'
) AS information_5
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_6'
) AS information_6
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_7'
) AS information_7
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_8'
) AS information_8
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_9'
) AS information_9
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_10'
) AS information_10
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_11'
) AS information_11
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_12'
) AS information_12
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_13'
) AS information_13
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_14'
) AS information_14
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_15'
) AS information_15
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_16'
) AS information_16
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_17'
) AS information_17
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_18'
) AS information_18
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_19'
) AS information_19
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_20'
) AS information_20
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_21'
) AS information_21
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_22'
) AS information_22
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_23'
) AS information_23
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_24'
) AS information_24
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_25'
) AS information_25
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_26'
) AS information_26
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_27'
) AS information_27
USING (information_set_id)
WHERE TRUE
AND information_set.name = 'patient_diagnosis_plain';
CREATE OR REPLACE VIEW information_patient_placeholder AS
SELECT
information_set_instance__proband.proband_id
,information_set.information_set_id
,information_set_instance.information_set_instance_id
,information_1.data AS information_1_data
,information_2.data AS information_2_data
,information_3.data AS information_3_data
,information_4.data AS information_4_data
,information_5.data AS information_5_data
,information_6.data AS information_6_data
,information_7.data AS information_7_data
,information_8.data AS information_8_data
,information_9.data AS information_9_data
,information_10.data AS information_10_data
,information_11.data AS information_11_data
,information_12.data AS information_12_data
,information_13.data AS information_13_data
,information_14.data AS information_14_data
,information_15.data AS information_15_data
,information_16.data AS information_16_data
,information_17.data AS information_17_data
,information_18.data AS information_18_data
,information_19.data AS information_19_data
,information_20.data AS information_20_data
,information_21.data AS information_21_data
,information_22.data AS information_22_data
,information_23.data AS information_23_data
,information_24.data AS information_24_data
,information_25.data AS information_25_data
,information_26.data AS information_26_data
,information_27.data AS information_27_data
FROM
information_set_instance__proband
JOIN information_set_instance USING (information_set_instance_id)
JOIN information_set USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_1'
) AS information_1
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_2'
) AS information_2
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_3'
) AS information_3
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_4'
) AS information_4
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_5'
) AS information_5
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_6'
) AS information_6
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_7'
) AS information_7
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_8'
) AS information_8
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_9'
) AS information_9
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_10'
) AS information_10
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_11'
) AS information_11
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_12'
) AS information_12
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_13'
) AS information_13
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_14'
) AS information_14
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_15'
) AS information_15
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_16'
) AS information_16
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_17'
) AS information_17
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_18'
) AS information_18
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_19'
) AS information_19
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_20'
) AS information_20
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_21'
) AS information_21
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_22'
) AS information_22
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_23'
) AS information_23
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_24'
) AS information_24
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_25'
) AS information_25
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_26'
) AS information_26
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_27'
) AS information_27
USING (information_set_id)
WHERE TRUE
AND information_set.name = 'patient_placeholder';
CREATE OR REPLACE VIEW information_sample_placeholder AS
SELECT
information_set_instance__sample.sample_id
,information_set.information_set_id
,information_set_instance.information_set_instance_id
,information_1.data AS information_1_data
,information_2.data AS information_2_data
,information_3.data AS information_3_data
,information_4.data AS information_4_data
,information_5.data AS information_5_data
,information_6.data AS information_6_data
,information_7.data AS information_7_data
,information_8.data AS information_8_data
,information_9.data AS information_9_data
,information_10.data AS information_10_data
,information_11.data AS information_11_data
,information_12.data AS information_12_data
,information_13.data AS information_13_data
,information_14.data AS information_14_data
,information_15.data AS information_15_data
,information_16.data AS information_16_data
,information_17.data AS information_17_data
,information_18.data AS information_18_data
,information_19.data AS information_19_data
,information_20.data AS information_20_data
,information_21.data AS information_21_data
,information_22.data AS information_22_data
,information_23.data AS information_23_data
,information_24.data AS information_24_data
,information_25.data AS information_25_data
,information_26.data AS information_26_data
,information_27.data AS information_27_data
FROM
information_set_instance__sample
JOIN information_set_instance USING (information_set_instance_id)
JOIN information_set USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_1'
) AS information_1
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_2'
) AS information_2
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_3'
) AS information_3
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_4'
) AS information_4
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_5'
) AS information_5
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_6'
) AS information_6
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_7'
) AS information_7
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_8'
) AS information_8
USING (information_set_id)
JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_9'
) AS information_9
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_10'
) AS information_10
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_11'
) AS information_11
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_12'
) AS information_12
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_13'
) AS information_13
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_14'
) AS information_14
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_15'
) AS information_15
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_16'
) AS information_16
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_17'
) AS information_17
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_18'
) AS information_18
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_19'
) AS information_19
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_20'
) AS information_20
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_21'
) AS information_21
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_22'
) AS information_22
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_23'
) AS information_23
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_24'
) AS information_24
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_25'
) AS information_25
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_26'
) AS information_26
USING (information_set_id)
LEFT JOIN (
SELECT
information.information_set_id,
information_about_placeholder.data
FROM
information
JOIN information_instance USING (information_id)
JOIN information_about_placeholder USING (information_instance_id)
WHERE true
AND information.name = 'information_27'
) AS information_27
USING (information_set_id)
WHERE TRUE
AND information_set.name = 'sample_placeholder';
SET SEARCH_PATH = test_data, test_view;
/*
* moderately complex query
*/
explain
SELECT *
FROM
proband
JOIN proband__sample USING(proband_id)
JOIN sample USING (sample_id)
JOIN information_generic_allowance USING (proband_id)
JOIN information_genetic_allowance USING (proband_id)
JOIN information_patient_diagnosis diag_1 USING (proband_id)
JOIN information_patient_diagnosis diag_2 USING (proband_id)
JOIN information_patient_placeholder patient_histology USING (proband_id)
JOIN information_sample_placeholder sample_rna_experiment_1_status USING
(sample_id)
JOIN information_sample_placeholder sample_rna_experiment_1_data USING
(sample_id)
JOIN information_sample_placeholder sample_rna_experiment_2_status USING
(sample_id)
JOIN information_sample_placeholder sample_rna_experiment_2_data USING
(sample_id)
JOIN information_sample_placeholder sample_rna_experiment_3_status USING
(sample_id)
JOIN information_sample_placeholder sample_rna_experiment_3_data USING
(sample_id)
WHERE TRUE
AND information_generic_allowance.generic_allowance_granted = true
AND information_genetic_allowance.information_6_granted = true
AND diag_1.diagnosis_icd10 = 1343 /*some icd code*/
AND diag_2.diagnosis_icd10 = 1344 /*another icd code*/
AND (
SELECT
available_information_nr / available_information_nr
FROM
information_set_completition_status
WHERE
information_set_completition_status.information_set_instance_id =
patient_histology.information_set_instance_id
) > 0.8
AND (
SELECT
available_information_nr / available_information_nr
FROM
information_set_completition_status
WHERE
information_set_completition_status.information_set_instance_id =
diag_1.information_set_instance_id
) > 0.5
AND (
SELECT
available_information_nr / available_information_nr
FROM
information_set_completition_status
WHERE
information_set_completition_status.information_set_instance_id =
diag_2.information_set_instance_id
) > 0.5;
