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Merge pull request #2058 from youennmerel/correct-stats-regression
Correct regression on series_number field in stats export
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docker-compose/database/db-changes/datasets/0044_add_statistics_procedure.sql
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| -- Shanoir NG - Import, manage and share neuroimaging data | ||
| -- Copyright (C) 2009-2019 Inria - https://www.inria.fr/ | ||
| -- Contact us on https://project.inria.fr/shanoir/ | ||
| -- | ||
| -- This program is free software: you can redistribute it and/or modify | ||
| -- it under the terms of the GNU General Public License as published by | ||
| -- the Free Software Foundation, either version 3 of the License, or | ||
| -- (at your option) any later version. | ||
| -- | ||
| -- You should have received a copy of the GNU General Public License | ||
| -- along with this program. If not, see https://www.gnu.org/licenses/gpl-3.0.html | ||
|
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| use datasets; | ||
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| DROP PROCEDURE IF EXISTS getStatistics; | ||
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| delimiter // | ||
| CREATE PROCEDURE getStatistics(IN studyNameInRegExp VARCHAR(255), IN studyNameOutRegExp VARCHAR(255), IN subjectNameInRegExp VARCHAR(255), IN subjectNameOutRegExp VARCHAR(255)) | ||
| BEGIN | ||
| SELECT 'patient_id', 'shanoir_name', 'double_hash', 'birthname1', 'birthname2', 'birthname3', 'lastname1', 'lastname2', 'lastname3', 'firstname1', 'firstname2', 'firstname3', 'birthdate1', 'sex', 'birth_year', 'study_id', 'study_name', 'sequence_id', 'norm_sequence_name', 'sequence_name', 'center_id', 'center', 'device_manufacturer', 'device_model', 'device_field_strength', 'device_serial_number', 'examination_id', 'examination_date', 'import_date', 'creation_date', 'series_number', 'protocol_type', 'dicom_size_mo', 'execution' | ||
| UNION ALL | ||
| SELECT | ||
| subject.id AS patient_id, | ||
| subject.name AS shanoir_name, | ||
| subject.identifier AS double_hash, | ||
| pseudonymus_hash_values.birth_name_hash1 AS birthname1, | ||
| pseudonymus_hash_values.birth_name_hash2 AS birthname2, | ||
| pseudonymus_hash_values.birth_name_hash3 AS birthname3, | ||
| pseudonymus_hash_values.last_name_hash1 AS lastname1, | ||
| pseudonymus_hash_values.last_name_hash2 AS lastname2, | ||
| pseudonymus_hash_values.last_name_hash3 AS lastname3, | ||
| pseudonymus_hash_values.first_name_hash1 AS firstname1, | ||
| pseudonymus_hash_values.first_name_hash2 AS firstname2, | ||
| pseudonymus_hash_values.first_name_hash3 AS firstname3, | ||
| pseudonymus_hash_values.birth_date_hash AS birthdate1, | ||
| (case subject.sex when 1 then 'M' else 'F' end) AS sex, | ||
| year(subject.birth_date) AS birth_year, | ||
| study.id AS study_id, | ||
| study.name AS study_name, | ||
| dataset.id AS sequence_id, | ||
| dataset_metadata.name AS norm_sequence_name, | ||
| dataset_metadata.comment AS sequence_name, | ||
| center.id AS center_id, | ||
| center.name AS center, | ||
| manufacturer.name AS device_manufacturer, | ||
| manufacturer_model.name AS device_model, | ||
| manufacturer_model.magnetic_field AS device_field_strength, | ||
| acquisition_equipment.serial_number AS device_serial_number, | ||
| examination.id AS examination_id, | ||
| date(examination.examination_date) AS examination_date, | ||
| date(dataset_acquisition.creation_date) AS import_date, | ||
| date(dataset.creation_date) AS creation_date, | ||
| dataset_acquisition.sorting_index as series_number, | ||
| mr_protocol_metadata.name AS protocol_type, | ||
| (SELECT sum(size)/1000000 FROM dataset_expression AS de WHERE de.dataset_id = dataset.id AND de.dataset_expression_format = 6) AS dicom_size_mo, | ||
| (SELECT JSON_OBJECT('execution_name', exe.name, 'status', (CASE | ||
| WHEN exe.status = 0 THEN 'RUNNING' | ||
| WHEN exe.status = 1 THEN 'FINISHED' | ||
| WHEN exe.status = 2 THEN 'EXECUTION_FAILED' | ||
| WHEN exe.status = 4 THEN 'KILLED' | ||
| ELSE 'UNKNOWN' | ||
| END), 'processing_date', proc.processing_date, 'properties', JSON_ARRAYAGG(JSON_OBJECT(property.name, property.value))) | ||
| FROM datasets.dataset_property property | ||
| LEFT JOIN dataset_processing proc ON property.dataset_processing_id = proc.id | ||
| LEFT JOIN execution_monitoring exe ON proc.id = exe.id | ||
| WHERE property.dataset_id = dataset.id | ||
| GROUP BY property.dataset_processing_id | ||
| ORDER BY exe.start_date DESC | ||
| LIMIT 1) AS execution | ||
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| FROM dataset | ||
| LEFT JOIN dataset_acquisition ON (dataset_acquisition.id = dataset.dataset_acquisition_id) | ||
| LEFT JOIN dataset_metadata ON (dataset_metadata.id = dataset.updated_metadata_id) | ||
| LEFT JOIN mr_dataset_acquisition ON (mr_dataset_acquisition.id = dataset_acquisition.id) | ||
| LEFT JOIN mr_protocol ON (mr_protocol.id = mr_dataset_acquisition.mr_protocol_id) | ||
| LEFT JOIN mr_protocol_metadata ON (mr_protocol_metadata.id = mr_protocol.id) | ||
| LEFT JOIN studies.acquisition_equipment AS acquisition_equipment ON (acquisition_equipment.id = dataset_acquisition.acquisition_equipment_id) | ||
| LEFT JOIN studies.manufacturer_model AS manufacturer_model ON (manufacturer_model.id = acquisition_equipment.manufacturer_model_id) | ||
| LEFT JOIN studies.manufacturer AS manufacturer ON (manufacturer.id = manufacturer_model.manufacturer_id) | ||
| LEFT JOIN examination ON (examination.id = dataset_acquisition.examination_id) | ||
| LEFT JOIN studies.subject AS subject ON (subject.id = examination.subject_id) | ||
| LEFT JOIN studies.study AS study ON (study.id = examination.study_id) | ||
| LEFT JOIN studies.center AS center ON (center.id = examination.center_id) | ||
| LEFT JOIN studies.pseudonymus_hash_values AS pseudonymus_hash_values ON (pseudonymus_hash_values.id = subject.pseudonymus_hash_values_id) | ||
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| WHERE subject.name rlike if(subjectNameInRegExp IS NULL OR subjectNameInRegExp = '', '.*', subjectNameInRegExp) | ||
| AND subject.name NOT rlike if(subjectNameOutRegExp IS NULL OR subjectNameOutRegExp = '', '^\b\B$', subjectNameOutRegExp) | ||
| AND study.name rlike if(studyNameInRegExp IS NULL OR studyNameInRegExp = '', '.*', studyNameInRegExp) | ||
| AND study.name NOT rlike if(studyNameOutRegExp IS NULL OR studyNameOutRegExp = '', '^\b\B$', studyNameOutRegExp); | ||
| END // | ||
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| delimiter ; |