Mercurial > repos > gga > chado_expression_get_biomaterials
comparison chado.py @ 2:3df5eaa8ae44 draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit f5c5d81fc9781371e12b91c0d609b9201587cda5
| author | gga |
|---|---|
| date | Fri, 23 Nov 2018 11:18:22 -0500 |
| parents | 2dc7f958f3ff |
| children | 5013700f821b |
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| 1:87d423ea58f4 | 2:3df5eaa8ae44 |
|---|---|
| 404 if cacheKey not in cache: | 404 if cacheKey not in cache: |
| 405 # However if it ISN'T there, we know we're safe to fetch + put in | 405 # However if it ISN'T there, we know we're safe to fetch + put in |
| 406 # there. | 406 # there. |
| 407 data = _list_organisms(ci, *args, **kwargs) | 407 data = _list_organisms(ci, *args, **kwargs) |
| 408 cache[cacheKey] = data | 408 cache[cacheKey] = data |
| 409 ci.session.close() | |
| 409 return data | 410 return data |
| 410 try: | 411 try: |
| 411 # The cache key may or may not be in the cache at this point, it | 412 # The cache key may or may not be in the cache at this point, it |
| 412 # /likely/ is. However we take no chances that it wasn't evicted between | 413 # /likely/ is. However we take no chances that it wasn't evicted between |
| 413 # when we checked above and now, so we reference the object from the | 414 # when we checked above and now, so we reference the object from the |
| 414 # cache in preparation to return. | 415 # cache in preparation to return. |
| 415 data = cache[cacheKey] | 416 data = cache[cacheKey] |
| 417 ci.session.close() | |
| 416 return data | 418 return data |
| 417 except KeyError: | 419 except KeyError: |
| 418 # If access fails due to eviction, we will fail over and can ensure that | 420 # If access fails due to eviction, we will fail over and can ensure that |
| 419 # data is inserted. | 421 # data is inserted. |
| 420 data = _list_organisms(ci, *args, **kwargs) | 422 data = _list_organisms(ci, *args, **kwargs) |
| 421 cache[cacheKey] = data | 423 cache[cacheKey] = data |
| 424 ci.session.close() | |
| 422 return data | 425 return data |
| 423 | 426 |
| 424 | 427 |
| 425 def _list_organisms(ci, *args, **kwargs): | 428 def _list_organisms(ci, *args, **kwargs): |
| 426 # Fetch the orgs. | 429 # Fetch the orgs. |
| 445 # However if it ISN'T there, we know we're safe to fetch + put in | 448 # However if it ISN'T there, we know we're safe to fetch + put in |
| 446 # there.<?xml version="1.0"?> | 449 # there.<?xml version="1.0"?> |
| 447 | 450 |
| 448 data = _list_analyses(ci, *args, **kwargs) | 451 data = _list_analyses(ci, *args, **kwargs) |
| 449 cache[cacheKey] = data | 452 cache[cacheKey] = data |
| 453 ci.session.close() | |
| 450 return data | 454 return data |
| 451 try: | 455 try: |
| 452 # The cache key may or may not be in the cache at this point, it | 456 # The cache key may or may not be in the cache at this point, it |
| 453 # /likely/ is. However we take no chances that it wasn't evicted between | 457 # /likely/ is. However we take no chances that it wasn't evicted between |
| 454 # when we checked above and now, so we reference the object from the | 458 # when we checked above and now, so we reference the object from the |
| 455 # cache in preparation to return. | 459 # cache in preparation to return. |
| 456 data = cache[cacheKey] | 460 data = cache[cacheKey] |
| 461 ci.session.close() | |
| 457 return data | 462 return data |
| 458 except KeyError: | 463 except KeyError: |
| 459 # If access fails due to eviction, we will fail over and can ensure that | 464 # If access fails due to eviction, we will fail over and can ensure that |
| 460 # data is inserted. | 465 # data is inserted. |
| 461 data = _list_analyses(ci, *args, **kwargs) | 466 data = _list_analyses(ci, *args, **kwargs) |
| 462 cache[cacheKey] = data | 467 cache[cacheKey] = data |
| 468 ci.session.close() | |
| 463 return data | 469 return data |
| 464 | 470 |
| 465 | 471 |
| 466 def _list_analyses(ci, *args, **kwargs): | 472 def _list_analyses(ci, *args, **kwargs): |
| 467 ans_data = [] | 473 ans_data = [] |