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comparison COBRAxy/flux_simulation_beta.py @ 470:46901af8df7c draft

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author luca_milaz
date Mon, 22 Sep 2025 15:23:09 +0000
parents 5f02f7e4ea9f
children 05a80f8e0574
comparison
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469:5f02f7e4ea9f 470:46901af8df7c
45 choices=['True', 'False'], 45 choices=['True', 'False'],
46 required=True, 46 required=True,
47 help="upload mode: True for model+bounds, False for complete models") 47 help="upload mode: True for model+bounds, False for complete models")
48 48
49 parser.add_argument("-ens", "--sampling_enabled", type=str, 49 parser.add_argument("-ens", "--sampling_enabled", type=str,
50 choices=['True', 'False'], 50 choices=['true', 'false'],
51 required=True, 51 required=True,
52 help="enable sampling: True for sampling, False for no sampling") 52 help="enable sampling: 'true' for sampling, 'false' for no sampling")
53 53
54 parser.add_argument('-ol', '--out_log', 54 parser.add_argument('-ol', '--out_log',
55 help="Output log") 55 help="Output log")
56 56
57 parser.add_argument('-td', '--tool_dir', 57 parser.add_argument('-td', '--tool_dir',
346 346
347 Returns: 347 Returns:
348 List[pd.DataFrame]: A list of DataFrames containing statistics and analysis results. 348 List[pd.DataFrame]: A list of DataFrames containing statistics and analysis results.
349 """ 349 """
350 350
351 if ARGS.sampling_enabled == "True" and ARGS.n_samples > 0: 351 if ARGS.sampling_enabled == "true" and ARGS.n_samples > 0:
352 352
353 if ARGS.algorithm == 'OPTGP': 353 if ARGS.algorithm == 'OPTGP':
354 OPTGP_sampler(model_input, cell_name, ARGS.n_samples, ARGS.thinning, ARGS.n_batches, ARGS.seed) 354 OPTGP_sampler(model_input, cell_name, ARGS.n_samples, ARGS.thinning, ARGS.n_batches, ARGS.seed)
355 elif ARGS.algorithm == 'CBS': 355 elif ARGS.algorithm == 'CBS':
356 CBS_sampler(model_input, cell_name, ARGS.n_samples, ARGS.n_batches, ARGS.seed) 356 CBS_sampler(model_input, cell_name, ARGS.n_samples, ARGS.n_batches, ARGS.seed)
497 ARGS.output_types = ARGS.output_type.split(",") if ARGS.output_type else [] 497 ARGS.output_types = ARGS.output_type.split(",") if ARGS.output_type else []
498 # optional analysis output types -> list or empty 498 # optional analysis output types -> list or empty
499 ARGS.output_type_analysis = ARGS.output_type_analysis.split(",") if ARGS.output_type_analysis else [] 499 ARGS.output_type_analysis = ARGS.output_type_analysis.split(",") if ARGS.output_type_analysis else []
500 500
501 # Determine if sampling should be performed 501 # Determine if sampling should be performed
502 if ARGS.sampling_enabled == "True" and ARGS.n_samples > 0: 502 if ARGS.sampling_enabled == "true" and ARGS.n_samples > 0:
503 perform_sampling = True 503 perform_sampling = True
504 504
505 print("=== INPUT FILES ===") 505 print("=== INPUT FILES ===")
506 print(f"{ARGS.input_files}") 506 print(f"{ARGS.input_files}")
507 print(f"{ARGS.file_names}") 507 print(f"{ARGS.file_names}")