Mercurial > repos > galaxyp > unipept
comparison unipept.py @ 6:9aaa46d45472 draft
"planemo upload for repository http://unipept.ugent.be/apidocs commit 228074586987e33782b8c2faf61257ac7506e51e"
| author | galaxyp |
|---|---|
| date | Tue, 02 Jun 2020 10:30:01 -0400 |
| parents | 917fd3ebc223 |
| children | 75b3b3d0adbf |
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| 5:917fd3ebc223 | 6:9aaa46d45472 |
|---|---|
| 335 if 'ec' in pdict: | 335 if 'ec' in pdict: |
| 336 for ec in pdict['ec']: | 336 for ec in pdict['ec']: |
| 337 ec_numbers.append(ec['ec_number']) | 337 ec_numbers.append(ec['ec_number']) |
| 338 protein_counts.append(str(ec['protein_count'])) | 338 protein_counts.append(str(ec['protein_count'])) |
| 339 if extra: | 339 if extra: |
| 340 ec_names.append(ec['name'] if 'name' in ec else '') | 340 ec_names.append(ec['name'] if 'name' in ec and ec['name'] else '') |
| 341 vals = [','.join(ec_numbers), ','.join(protein_counts)] | 341 vals = [','.join(ec_numbers), ','.join(protein_counts)] |
| 342 if extra: | 342 if extra: |
| 343 vals.append(','.join(ec_names)) | 343 vals.append(','.join(ec_names)) |
| 344 ec_dict[peptide] = vals | 344 ec_dict[peptide] = vals |
| 345 return (ec_dict, ec_cols) | 345 return (ec_dict, ec_cols) |
| 358 for go in pdict['go']: | 358 for go in pdict['go']: |
| 359 if 'go_term' in go: | 359 if 'go_term' in go: |
| 360 go_terms.append(go['go_term']) | 360 go_terms.append(go['go_term']) |
| 361 protein_counts.append(str(go['protein_count'])) | 361 protein_counts.append(str(go['protein_count'])) |
| 362 if extra: | 362 if extra: |
| 363 go_names.append(go['name'] if 'name' in go else '') | 363 go_names.append(go['name'] if 'name' in go and go['name'] else '') |
| 364 else: | 364 else: |
| 365 for go_type in go_types: | 365 for go_type in go_types: |
| 366 if go_type in go: | 366 if go_type in go: |
| 367 for _go in go[go_type]: | 367 for _go in go[go_type]: |
| 368 go_terms.append(_go['go_term']) | 368 go_terms.append(_go['go_term']) |
| 369 protein_counts.append(str(_go['protein_count'])) | 369 protein_counts.append(str(_go['protein_count'])) |
| 370 if extra: | 370 if extra: |
| 371 go_names.append(_go['name'] if 'name' in _go else '') | 371 go_names.append(_go['name'] if 'name' in _go and _go['name'] else '') |
| 372 vals = [','.join(go_terms), ','.join(protein_counts)] | 372 vals = [','.join(go_terms), ','.join(protein_counts)] |
| 373 if extra: | 373 if extra: |
| 374 vals.append(','.join(go_names)) | 374 vals.append(','.join(go_names)) |
| 375 go_dict[peptide] = vals | 375 go_dict[peptide] = vals |
| 376 return (go_dict, go_cols) | 376 return (go_dict, go_cols) |