dbparser (version 1.1.1)

drug_ex_identity: Extracts the drug external identifiers element and return data as tibble.

Description

drug_ex_identity returns tibble of external identifiers groups elements.

Usage

drug_ex_identity(
  save_table = FALSE,
  save_csv = FALSE,
  csv_path = ".",
  override_csv = FALSE,
  database_connection = NULL
)

Arguments

save_table

boolean, save table in database if true.

save_csv

boolean, save csv version of parsed tibble if true

csv_path

location to save csv files into it, default is current location, save_csv must be true

override_csv

override existing csv, if any, in case it is true in the new parse operation

database_connection

DBI connection object that holds a connection to user defined database. If save_table is enabled without providing value for this function an error will be thrown.

Value

drug external identifiers node attributes tibble

Details

This functions extracts the external identifiers element of drug node in drugbank xml database with the option to save it in a predefined database via passed database connection. It takes two optional arguments to save the returned tibble in the database save_table and database_connection. It must be called after read_drugbank_xml_db function like any other parser function. If read_drugbank_xml_db is called before for any reason, so no need to call it again before calling this function.

See Also

Other drugs: drug_affected_organisms(), drug_ahfs_codes(), drug_articles(), drug_atc_codes(), drug_books(), drug_calc_prop(), drug_categories(), drug_classification(), drug_dosages(), drug_exp_prop(), drug_external_links(), drug_food_interactions(), drug_groups(), drug_interactions(), drug_intern_brand(), drug_links(), drug_manufacturers(), drug_mixtures(), drug_packagers(), drug_patents(), drug_pdb_entries(), drug_products(), drug_salts(), drug_snp_adverse_reactions(), drug_snp_effects(), drug_syn(), drug()

Examples

# NOT RUN {
# return only the parsed tibble
drug_ex_identity()

# will throw an error, as database_connection is NULL
drug_ex_identity(save_table = TRUE)

# save in database in SQLite in memory database and return parsed tibble
sqlite_con <- DBI::dbConnect(RSQLite::SQLite())
drug_ex_identity(save_table = TRUE, database_connection = sqlite_con)

# save parsed tibble as csv if it does not exist in current location
# and return parsed tibble.
# If the csv exist before read it and return its data.
drug_ex_identity(save_csv = TRUE)

# save in database, save parsed tibble as csv if it does not exist in
# current location and return parsed tibble.
# If the csv exist before read it and return its data.
drug_ex_identity(save_table = TRUE, save_csv = TRUE,
 database_connection = sqlite_con)

# save parsed tibble as csv if it does not exist in given location and
# return parsed tibble.
# If the csv exist before read it and return its data.
drug_ex_identity(save_csv = TRUE, csv_path = TRUE)

# save parsed tibble as csv if it does not exist in current location and
# return parsed tibble.
# If the csv exist override it and return it.
drug_ex_identity(
  save_csv = TRUE, csv_path = TRUE,
  override = TRUE
)
# }