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Update Assay Status

update_assay_status.Rd

update_assay_status() changes active flag on existing assay type in the assay lookup table

Usage

update_assay_status(con, assay_id, set_active = TRUE)

Arguments

con

A DBI connection object obtained from DBI::dbConnect()

assay_id

A numeric ID for the targeted assay get_assays

set_active

A boolean, TRUE for activating and FALSE for deactivating. When a record is active, it is returned by default when get_assays is called. This helps preserve look up values that are valid in historic contexts, but are no longer valid for current data records.

See also

Other assay functions: add_assay(), delete_assay(), get_assays(), update_assay()

Examples

# example database connection
cfg <- config::get()
con <- DBI::dbConnect(RPostgres::Postgres(),
                      dbname = cfg$dbname,
                      host = cfg$host,
                      port = cfg$port,
                      user = cfg$username,
                      password = cfg$password)
#> Error: connection to server at "localhost" (::1), port 5432 failed: Connection refused (0x0000274D/10061)
#> 	Is the server running on that host and accepting TCP/IP connections?
#> connection to server at "localhost" (127.0.0.1), port 5432 failed: Connection refused (0x0000274D/10061)
#> 	Is the server running on that host and accepting TCP/IP connections?

all_assays <- get_assays(con)
#> Error in h(simpleError(msg, call)): error in evaluating the argument 'dbObj' in selecting a method for function 'dbIsValid': object 'con' not found
View(all_assays) # to view the ID of the assay needing status change
#> Error in eval(expr, envir, enclos): object 'all_assays' not found

#deactivate
update_assay_status(con, 1, set_active=FALSE)
#> Error in h(simpleError(msg, call)): error in evaluating the argument 'dbObj' in selecting a method for function 'dbIsValid': object 'con' not found
#reactivate
update_assay_status(con, 1)
#> Error in h(simpleError(msg, call)): error in evaluating the argument 'dbObj' in selecting a method for function 'dbIsValid': object 'con' not found