Mercurial > repos > bimib > cobraxy
comparison COBRAxy/ras_generator_beta.py @ 427:4a385fdb9e58 draft
Uploaded
| author | francesco_lapi |
|---|---|
| date | Wed, 10 Sep 2025 11:38:08 +0000 |
| parents | 187cee1a00e2 |
| children | a6e45049c1b9 |
comparison
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| 426:00a78da611ba | 427:4a385fdb9e58 |
|---|---|
| 647 #if filenamePath.ext is utils.FileFormat.PICKLE: return utils.readPickle(datFilePath) | 647 #if filenamePath.ext is utils.FileFormat.PICKLE: return utils.readPickle(datFilePath) |
| 648 | 648 |
| 649 dict_rule = {} | 649 dict_rule = {} |
| 650 | 650 |
| 651 try: | 651 try: |
| 652 rows = utils.readCsv(datFilePath, delimiter = "\t", skipHeader=False) | |
| 653 if len(rows) <= 1: | |
| 654 raise ValueError("Model tabular with 1 column is not supported.") | |
| 655 | |
| 656 if not rows: | |
| 657 raise ValueError("Model tabular is file is empty.") | |
| 658 | |
| 659 id_idx, idx_gpr = utils.findIdxByName(rows[0], "GPR") | |
| 660 | |
| 652 # Proviamo prima con delimitatore tab | 661 # Proviamo prima con delimitatore tab |
| 653 for line in utils.readCsv(datFilePath, delimiter = "\t"): | 662 for line in rows[1:]: |
| 654 if len(line) < 3: # Controlliamo che ci siano almeno 3 colonne | 663 if len(line) <= idx_gpr: |
| 655 utils.logWarning(f"Skipping malformed line: {line}", ARGS.out_log) | 664 utils.logWarning(f"Skipping malformed line: {line}", ARGS.out_log) |
| 656 continue | 665 continue |
| 657 | 666 |
| 658 if line[2] == "": | 667 if line[idx_gpr] == "": |
| 659 dict_rule[line[0]] = ruleUtils.OpList([""]) | 668 dict_rule[line[id_idx]] = ruleUtils.OpList([""]) |
| 660 else: | 669 else: |
| 661 dict_rule[line[0]] = ruleUtils.parseRuleToNestedList(line[2]) | 670 dict_rule[line[id_idx]] = ruleUtils.parseRuleToNestedList(line[idx_gpr]) |
| 662 | 671 |
| 663 except Exception as e: | 672 except Exception as e: |
| 664 # Se fallisce con tab, proviamo con virgola | 673 # Se fallisce con tab, proviamo con virgola |
| 665 try: | 674 try: |
| 666 dict_rule = {} | 675 rows = utils.readCsv(datFilePath, delimiter = ",", skipHeader=False) |
| 667 for line in utils.readCsv(datFilePath, delimiter = ","): | 676 |
| 668 if len(line) < 3: | 677 if len(rows) <= 1: |
| 678 raise ValueError("Model tabular with 1 column is not supported.") | |
| 679 | |
| 680 if not rows: | |
| 681 raise ValueError("Model tabular is file is empty.") | |
| 682 | |
| 683 id_idx, idx_gpr = utils.findIdxByName(rows[0], "GPR") | |
| 684 | |
| 685 # Proviamo prima con delimitatore tab | |
| 686 for line in rows[1:]: | |
| 687 if len(line) <= idx_gpr: | |
| 669 utils.logWarning(f"Skipping malformed line: {line}", ARGS.out_log) | 688 utils.logWarning(f"Skipping malformed line: {line}", ARGS.out_log) |
| 670 continue | 689 continue |
| 671 | 690 |
| 672 if line[2] == "": | 691 if line[idx_gpr] == "": |
| 673 dict_rule[line[0]] = ruleUtils.OpList([""]) | 692 dict_rule[line[id_idx]] = ruleUtils.OpList([""]) |
| 674 else: | 693 else: |
| 675 dict_rule[line[0]] = ruleUtils.parseRuleToNestedList(line[2]) | 694 dict_rule[line[id_idx]] = ruleUtils.parseRuleToNestedList(line[idx_gpr]) |
| 695 | |
| 676 except Exception as e2: | 696 except Exception as e2: |
| 677 raise ValueError(f"Unable to parse rules file. Tried both tab and comma delimiters. Original errors: Tab: {e}, Comma: {e2}") | 697 raise ValueError(f"Unable to parse rules file. Tried both tab and comma delimiters. Original errors: Tab: {e}, Comma: {e2}") |
| 678 | 698 |
| 679 if not dict_rule: | 699 if not dict_rule: |
| 680 raise ValueError("No valid rules found in the uploaded file. Please check the file format.") | 700 raise ValueError("No valid rules found in the uploaded file. Please check the file format.") |