save_query: Save Search Query

In CEDARS: Simple and Efficient Pipeline for Electronic Health Record Annotation

Description

Saves the search query. The query consists of keywords/UMLS concept unique identifiers (CUI's), boolean elements and other operators ('AND', 'OR', '!', '(', or ')').

Usage

save_query(
  uri_fun,
  user,
  password,
  host,
  port,
  database,
  search_query,
  use_negation,
  hide_duplicates,
  skip_after_event
)

Arguments

uri_fun	Uniform resource identifier (URI) string generating function for MongoDB credentials.
user	MongoDB user name.
password	MongoDB user password.
host	MongoDB host server.
port	MongoDB port.
database	MongoDB database name.
search_query	Medical corpus query containg keywords/CUI's, boolean elements and other operators ('AND', 'OR', '!', '(', or ')').
use_negation	Should negated items be ignored in the keyword/concept search?
hide_duplicates	Should duplicated sentences be removed for search results?
skip_after_event	Should sentences occurring after recorded clinical event be skipped?

Value

Confirmation that requested operation was completed, or error message if attempt failed.

Examples

## Not run: 
save_query(uri_fun = mongo_uri_standard, user = 'John', password = 'db_password_1234',
host = 'server1234', port = NA, database = 'TEST_PROJECT', search_query = 'thrombosis AND venous',
use_negation = TRUE, hide_duplicates = TRUE, skip_after_event = TRUE)

## End(Not run)

CEDARS documentation built on Feb. 7, 2021, 5:06 p.m.