# Path Configuration
from tools.preprocess import *

# Processing context
trait = "Anxiety_disorder"

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

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

# No TCGA cohort is suitable for anxiety disorder analysis since TCGA focuses on cancer data and does not
# contain psychiatric/psychological clinical variables. None of the available cancer cohorts contain 
# anxiety-related clinical data.

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