Mercurial > repos > bimib > cobraxy
diff COBRAxy/custom_data_generator.py @ 365:8a6da55f4e0e draft
Uploaded
| author | francesco_lapi |
|---|---|
| date | Thu, 04 Sep 2025 23:44:03 +0000 |
| parents | 941ff9b896e4 |
| children | 0961c8a27939 |
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--- a/COBRAxy/custom_data_generator.py Thu Sep 04 23:40:09 2025 +0000 +++ b/COBRAxy/custom_data_generator.py Thu Sep 04 23:44:03 2025 +0000 @@ -38,9 +38,11 @@ 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, + 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__)") @@ -255,12 +257,11 @@ #### - out_data_path = ARGS.out_data # Galaxy provides a filepath if ARGS.output_format == "xlsx": - merged.to_excel(out_data_path, index=False) + merged.to_excel(ARGS.out_xlsx, index=False) else: - merged.to_csv(out_data_path, sep="\t", index=False) + merged.to_csv(ARGS.out_tabular, sep="\t", index=False)