# Path Configuration
from tools.preprocess import *

# Processing context
trait = "Brugada_Syndrome"

# Input paths
tcga_root_dir = "../DATA/TCGA"

# Output paths
out_data_file = "./output/preprocess/3/Brugada_Syndrome/TCGA.csv"
out_gene_data_file = "./output/preprocess/3/Brugada_Syndrome/gene_data/TCGA.csv"
out_clinical_data_file = "./output/preprocess/3/Brugada_Syndrome/clinical_data/TCGA.csv"
json_path = "./output/preprocess/3/Brugada_Syndrome/cohort_info.json"

# No suitable directory found for Brugada Syndrome in TCGA dataset
is_gene_available = False
is_trait_available = False

validate_and_save_cohort_info(
    is_final=False,
    cohort="TCGA", 
    info_path=json_path,
    is_gene_available=is_gene_available,
    is_trait_available=is_trait_available
)