| # Path Configuration | |
| from tools.preprocess import * | |
| # Processing context | |
| trait = "Canavan_Disease" | |
| # Input paths | |
| tcga_root_dir = "../DATA/TCGA" | |
| # Output paths | |
| out_data_file = "./output/preprocess/3/Canavan_Disease/TCGA.csv" | |
| out_gene_data_file = "./output/preprocess/3/Canavan_Disease/gene_data/TCGA.csv" | |
| out_clinical_data_file = "./output/preprocess/3/Canavan_Disease/clinical_data/TCGA.csv" | |
| json_path = "./output/preprocess/3/Canavan_Disease/cohort_info.json" | |
| # No directly matching cohorts for Canavan Disease | |
| is_usable = validate_and_save_cohort_info(is_final=False, | |
| cohort="TCGA", | |
| info_path=json_path, | |
| is_gene_available=False, | |
| is_trait_available=False) | |
| raise ValueError("No suitable TCGA cohort found for Canavan Disease") |