comparison COBRAxy/custom_data_generator.py @ 365:8a6da55f4e0e draft

Uploaded

364:ae3bb0caee30

                        help="Custom medium file if medium_selector=Custom")
    
    parser.add_argument("--output_format", type=str, choices=["tabular", "xlsx"], required=True,
                        help="Output format: CSV (tabular) or Excel (xlsx)")
    
    parser.add_argument("--out_data", type=str, required=True,
                        help="Output file for the merged dataset (CSV or XLSX)")

    
    parser.add_argument("--tool_dir", type=str, default=os.path.dirname(__file__),
                        help="Tool directory (passed from Galaxy as $__tool_directory__)")

    #merged.to_csv(out_file, sep = '\t', index = False)


    ####
    out_data_path = ARGS.out_data  # Galaxy provides a filepath

    if ARGS.output_format == "xlsx":
        merged.to_excel(out_data_path, index=False)
    else:
        merged.to_csv(out_data_path, sep="\t", index=False)



if __name__ == '__main__':
    main()

365:8a6da55f4e0e

                        help="Custom medium file if medium_selector=Custom")
    
    parser.add_argument("--output_format", type=str, choices=["tabular", "xlsx"], required=True,
                        help="Output format: CSV (tabular) or Excel (xlsx)")
    
    parser.add_argument("--out_tabular", type=str,
                        help="Output file for the merged dataset (CSV or XLSX)")
    
    parser.add_argument("--out_xlsx", type=str,
                        help="Output file for the merged dataset (CSV or XLSX)")
    
    parser.add_argument("--tool_dir", type=str, default=os.path.dirname(__file__),
                        help="Tool directory (passed from Galaxy as $__tool_directory__)")

    #merged.to_csv(out_file, sep = '\t', index = False)


    ####

    if ARGS.output_format == "xlsx":
        merged.to_excel(ARGS.out_xlsx, index=False)
    else:
        merged.to_csv(ARGS.out_tabular, sep="\t", index=False)



if __name__ == '__main__':
    main()