comparison data_manager/add_ctat_ref_lib.py @ 14:3bb91cebec5c draft

Uploaded

13:abdf6aad584a

    if (args.genome_name is None) or (args.genome_name == ""):
        genome_name = "GRCh38_gencode_v26"
    else:
        genome_name = args.genome_name

    data_manager_dict = {}
    data_manager_dict['data_tables'] = {}
    data_manager_dict['data_tables']['ctat_genome_ref_libs'] = []
    data_table_entry = dict(value="CTAT_RESOURCE_LIB", name=genome_name, path=ctat_genome_resource_lib_path)
    data_manager_dict['data_tables']['ctat_genome_ref_libs'].append(data_table_entry)

    # Save info to json file. This is used to transfer data from the DataManager tool, to the data manager,
    # which then puts it into the correct .loc file (I think).
    open(args.output_filename, 'wb').write(to_json_string(data_manager_dict))

14:3bb91cebec5c

    if (args.genome_name is None) or (args.genome_name == ""):
        genome_name = "GRCh38_gencode_v26"
    else:
        genome_name = args.genome_name
    # Set the value to the basename of the directory path minus the extension. 
    # FIX - Need to make sure is unique. This is not good way to do it. Just doing it this way now for testing.
    table_entry_value = os.path.basename(ctat_genome_resource_lib_path).split(".")[0]
    data_manager_dict = {}
    data_manager_dict['data_tables'] = {}
    data_manager_dict['data_tables']['ctat_genome_ref_libs'] = []
    data_table_entry = dict(value=table_entry_value, name=genome_name, path=ctat_genome_resource_lib_path)
    data_manager_dict['data_tables']['ctat_genome_ref_libs'].append(data_table_entry)

    # Save info to json file. This is used to transfer data from the DataManager tool, to the data manager,
    # which then puts it into the correct .loc file (I think).
    open(args.output_filename, 'wb').write(to_json_string(data_manager_dict))