pybiolib 1.2.465.dev1__tar.gz → 1.2.497__tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (124) hide show
  1. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/PKG-INFO +1 -1
  2. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/data_record/data_record.py +5 -2
  3. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/jobs/job.py +13 -0
  4. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/pyproject.toml +1 -1
  5. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/LICENSE +0 -0
  6. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/PYPI_README.md +0 -0
  7. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/__init__.py +0 -0
  8. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_data_record/data_record.py +0 -0
  9. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/__init__.py +0 -0
  10. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/data_record/__init__.py +0 -0
  11. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/data_record/push_data.py +0 -0
  12. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/data_record/remote_storage_endpoint.py +0 -0
  13. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/file_utils.py +0 -0
  14. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/fuse_mount/__init__.py +0 -0
  15. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/fuse_mount/experiment_fuse_mount.py +0 -0
  16. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/http_client.py +0 -0
  17. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/lfs/__init__.py +0 -0
  18. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/lfs/cache.py +0 -0
  19. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/libs/__init__.py +0 -0
  20. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/libs/fusepy/__init__.py +0 -0
  21. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/push_application.py +0 -0
  22. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/runtime.py +0 -0
  23. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/types/__init__.py +0 -0
  24. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/types/app.py +0 -0
  25. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/types/data_record.py +0 -0
  26. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/types/experiment.py +0 -0
  27. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/types/file_node.py +0 -0
  28. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/types/resource.py +0 -0
  29. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/types/resource_version.py +0 -0
  30. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/types/typing.py +0 -0
  31. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/utils/__init__.py +0 -0
  32. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_internal/utils/multinode.py +0 -0
  33. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/_runtime/runtime.py +0 -0
  34. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/api/__init__.py +0 -0
  35. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/api/client.py +0 -0
  36. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/app/__init__.py +0 -0
  37. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/app/app.py +0 -0
  38. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/app/search_apps.py +0 -0
  39. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_api_client/__init__.py +0 -0
  40. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_api_client/api_client.py +0 -0
  41. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_api_client/app_types.py +0 -0
  42. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_api_client/auth.py +0 -0
  43. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_api_client/biolib_app_api.py +0 -0
  44. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_api_client/biolib_job_api.py +0 -0
  45. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_api_client/common_types.py +0 -0
  46. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_api_client/job_types.py +0 -0
  47. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_api_client/lfs_types.py +0 -0
  48. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_api_client/user_state.py +0 -0
  49. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_binary_format/__init__.py +0 -0
  50. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_binary_format/base_bbf_package.py +0 -0
  51. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_binary_format/file_in_container.py +0 -0
  52. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_binary_format/module_input.py +0 -0
  53. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_binary_format/module_output_v2.py +0 -0
  54. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_binary_format/remote_endpoints.py +0 -0
  55. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_binary_format/remote_stream_seeker.py +0 -0
  56. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_binary_format/saved_job.py +0 -0
  57. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_binary_format/stdout_and_stderr.py +0 -0
  58. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_binary_format/system_exception.py +0 -0
  59. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_binary_format/system_status_update.py +0 -0
  60. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_binary_format/utils.py +0 -0
  61. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_docker_client/__init__.py +0 -0
  62. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_download_container.py +0 -0
  63. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_errors.py +0 -0
  64. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/biolib_logging.py +0 -0
  65. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/cli/__init__.py +0 -0
  66. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/cli/auth.py +0 -0
  67. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/cli/data_record.py +0 -0
  68. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/cli/download_container.py +0 -0
  69. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/cli/init.py +0 -0
  70. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/cli/lfs.py +0 -0
  71. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/cli/push.py +0 -0
  72. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/cli/run.py +0 -0
  73. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/cli/runtime.py +0 -0
  74. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/cli/start.py +0 -0
  75. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/.gitignore +0 -0
  76. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/__init__.py +0 -0
  77. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/cloud_utils/__init__.py +0 -0
  78. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/cloud_utils/cloud_utils.py +0 -0
  79. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/__init__.py +0 -0
  80. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/cache_state.py +0 -0
  81. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/cache_types.py +0 -0
  82. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/docker_image_cache.py +0 -0
  83. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/executors/__init__.py +0 -0
  84. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/executors/docker_executor.py +0 -0
  85. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/executors/docker_types.py +0 -0
  86. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/executors/tars/__init__.py +0 -0
  87. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/executors/types.py +0 -0
  88. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/job_legacy_input_wait_timeout_thread.py +0 -0
  89. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/job_max_runtime_timer_thread.py +0 -0
  90. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/job_storage.py +0 -0
  91. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/job_worker.py +0 -0
  92. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/large_file_system.py +0 -0
  93. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/mappings.py +0 -0
  94. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/utilization_reporter_thread.py +0 -0
  95. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/job_worker/utils.py +0 -0
  96. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/remote_host_proxy.py +0 -0
  97. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/socker_listener_thread.py +0 -0
  98. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/socket_sender_thread.py +0 -0
  99. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/utils.py +0 -0
  100. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/webserver/__init__.py +0 -0
  101. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/webserver/gunicorn_flask_application.py +0 -0
  102. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/webserver/webserver.py +0 -0
  103. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/webserver/webserver_types.py +0 -0
  104. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/webserver/webserver_utils.py +0 -0
  105. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/compute_node/webserver/worker_thread.py +0 -0
  106. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/experiments/__init__.py +0 -0
  107. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/experiments/experiment.py +0 -0
  108. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/jobs/__init__.py +0 -0
  109. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/jobs/job_result.py +0 -0
  110. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/jobs/types.py +0 -0
  111. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/runtime/__init__.py +0 -0
  112. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/sdk/__init__.py +0 -0
  113. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/tables.py +0 -0
  114. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/templates/__init__.py +0 -0
  115. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/templates/example_app.py +0 -0
  116. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/typing_utils.py +0 -0
  117. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/user/__init__.py +0 -0
  118. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/user/sign_in.py +0 -0
  119. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/utils/__init__.py +0 -0
  120. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/utils/app_uri.py +0 -0
  121. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/utils/cache_state.py +0 -0
  122. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/utils/multipart_uploader.py +0 -0
  123. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/utils/seq_util.py +0 -0
  124. {pybiolib-1.2.465.dev1 → pybiolib-1.2.497}/biolib/utils/zip/remote_zip.py +0 -0
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.3
2
2
  Name: pybiolib
3
- Version: 1.2.465.dev1
3
+ Version: 1.2.497
4
4
  Summary: BioLib Python Client
5
5
  License: MIT
6
6
  Keywords: biolib
@@ -4,6 +4,7 @@ from pathlib import Path
4
4
  from biolib._internal.types.data_record import SqliteV1DatabaseSchema
5
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  from biolib.api import client as api_client
6
6
  from biolib.biolib_api_client import AppGetResponse
7
+ from biolib.biolib_api_client.biolib_app_api import _get_app_uri_from_str
7
8
  from biolib.biolib_api_client.lfs_types import DataRecordVersionInfo
8
9
 
9
10
 
@@ -82,9 +83,11 @@ def verify_schema(specification: SqliteV1DatabaseSchema, actual_schema: SqliteV1
82
83
 
83
84
 
84
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  def get_data_record_state_from_uri(uri) -> 'DataRecordVersionInfo':
85
- app_response: AppGetResponse = api_client.get(path='/app/', params={'uri': uri}).json()
86
+ normalized_uri = _get_app_uri_from_str(uri)
87
+ app_response: AppGetResponse = api_client.get(path='/app/', params={'uri': normalized_uri}).json()
88
+ resource_uri = app_response['app_version']['app_uri']
86
89
  if app_response['app']['type'] != 'data-record':
87
- raise Exception(f'Resource "{uri}" is not a Data Record')
90
+ raise Exception(f'Resource "{resource_uri}" is not a Data Record')
88
91
  return DataRecordVersionInfo(
89
92
  resource_uri=app_response['app_version']['app_uri'],
90
93
  resource_uuid=app_response['app']['public_id'],
@@ -217,6 +217,19 @@ class Job:
217
217
  except Exception as error:
218
218
  logger.error(f'Failed to cancel job {self._uuid} due to: {error}')
219
219
 
220
+ def rename(self, name: str) -> None:
221
+ try:
222
+ api.client.patch(
223
+ path=f'/jobs/{self._uuid}/main_result/',
224
+ headers={'Job-Auth-Token': self._auth_token} if self._auth_token else None,
225
+ data={'result_name_prefix': name},
226
+ )
227
+ self._refetch_job_dict(force_refetch=True)
228
+ updated_name = self.get_name()
229
+ logger.info(f'Job {self._uuid} renamed to "{updated_name}"')
230
+ except Exception as error:
231
+ raise BioLibError(f'Failed to rename job {self._uuid} due to: {error}') from error
232
+
220
233
  def recompute(self, app_uri: Optional[str] = None, machine: Optional[str] = None, blocking: bool = True) -> 'Job':
221
234
  app_response = BiolibAppApi.get_by_uri(uri=app_uri or self._job_dict['app_uri'])
222
235
 
@@ -1,6 +1,6 @@
1
1
  [tool.poetry]
2
2
  name = "pybiolib"
3
- version = "1.2.465.dev1"
3
+ version = "1.2.497"
4
4
  description = "BioLib Python Client"
5
5
  readme = "PYPI_README.md"
6
6
  license = "MIT"
File without changes