90 lines
2.9 KiB
Python
90 lines
2.9 KiB
Python
"""
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import_patients.py — import pacientských reportů z IWRS/Incoming/ do MongoDB.
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Verze: 1.1 | Datum: 2026-06-10
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v1.1: přesun na úroveň IWRS/, worker přejmenován na import_patients_mongo
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Pořadí zpracování per typ + studie: nejstarší soubor podle mtime první
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(důležité pro chronologickou správnost snapshotů).
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Po úspěšném importu se soubor přesune do IWRS/Incoming/Processed/.
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Při chybě zůstane soubor v Incoming/.
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Volá se z IWRS/run_all_v1.1.py (ensure_indexes volá orchestrátor);
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lze spustit i samostatně: python import_patients.py
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"""
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import os
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import sys
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import glob
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BASE_DIR = os.path.dirname(os.path.abspath(__file__))
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if BASE_DIR not in sys.path:
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sys.path.insert(0, BASE_DIR)
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from common.paths import INCOMING_DIR, PROCESSED_DIR, STUDIES, move_done, sorted_by_mtime
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from common.mongo_writer import ensure_indexes
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import import_patients_mongo
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import import_notifications_to_mongo
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def import_summaries(study):
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pattern = os.path.join(INCOMING_DIR, f"* {study} Subject Summary Report*.xlsx")
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files = sorted_by_mtime(glob.glob(pattern))
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if not files:
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print(f" [{study}] summary: nic ke zpracování")
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return
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print(f" [{study}] summary: {len(files)} soubor(ů) (oldest first)")
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for path in files:
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try:
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import_patients_mongo.import_subject_summary(study, path)
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move_done(path)
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except Exception as e:
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print(f" [{study}] CHYBA summary {os.path.basename(path)}: {e}")
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def import_details(study):
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pattern = os.path.join(INCOMING_DIR, f"* {study} * Subject Detail.xlsx")
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files = sorted_by_mtime(glob.glob(pattern))
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if not files:
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print(f" [{study}] detail: nic ke zpracování")
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return
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print(f" [{study}] detail: {len(files)} soubor(ů) (oldest first)")
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for path in files:
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parsed = import_patients_mongo.parse_detail_filename(path)
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if not parsed:
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print(f" [{study}] PŘESKAKUJI (nelze parsovat název): {os.path.basename(path)}")
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continue
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_, parsed_study, subject = parsed
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if parsed_study != study:
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continue # patří jiné studii
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try:
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import_patients_mongo.import_visits_single_file(study, subject, path)
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move_done(path)
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except Exception as e:
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print(f" [{study}] CHYBA detail {os.path.basename(path)}: {e}")
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def run(studies=None):
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studies = studies or STUDIES
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if not os.path.isdir(INCOMING_DIR):
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print(f"Adresář neexistuje: {INCOMING_DIR}")
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return
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print("=" * 60)
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print("Import Subject Summary + Visits")
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print("=" * 60)
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for study in studies:
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import_summaries(study)
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import_details(study)
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print("\n" + "=" * 60)
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print("Import notifikací")
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print("=" * 60)
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import_notifications_to_mongo.import_from_dir(INCOMING_DIR, PROCESSED_DIR, studies)
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if __name__ == "__main__":
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ensure_indexes()
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run()
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