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Set the phase to be validated.

Source: R/misc.R
set_phase.Rd

A group might choose to combine different phases, due to the complications associated with PASS1A/1C, or to release several human tranches together. If they choose to combine phases, the CAS must provide a new file metadata_phase.txt with a single line, as for example: PASS1A-06|PASS1C-06 or HUMAN-MAIN-TR01|HUMAN-MAIN-TR02. Human and animal phases cannot be combined. This function checks if the file is available, and set that phase as the phases to validate. In summary, the order of preference is:

  1. function's argument: dmaqc_phase2validate (if provided in the validation functions)

  2. metadata_phase.txt file if available in the batch folder.

  3. Phase in folder structure

Usage

set_phase(input_results_folder, dmaqc_phase2validate, verbose = TRUE)

Arguments

input_results_folder

(char) path to the PROCESSED/RESULTS folder to check

dmaqc_phase2validate

(data.frame) dmaqc shipping information

verbose

(logical) TRUE (default) shows messages

Value

(int) the phase to be validated.