def update_mimic_doc_dates(doc_dates):
es = EntityCentricES.get_instance('./index_settings/es_mimic_setting.json')
container = []
utils.multi_thread_tasking(doc_dates,
20,
do_doc_update_date,
args=[es, container])
def index_mimic_notes():
es = EntityCentricES.get_instance('./index_settings/es_mimic_setting.json')
ann_files = [
f for f in listdir(_f_yodie_anns) if isfile(join(_f_yodie_anns, f))
]
patients = []
for ann in ann_files:
print 'indexing %s ...' % ann
utils.multi_thread_large_file_tasking(join(_f_yodie_anns, ann),
20,
do_index_mimic,
args=[es, patients])
print 'full text and annotations done.'
patients = list(set(patients))
index_patients(patients, es)