pybiolib 1.1.2023__tar.gz → 1.1.2025__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.
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/PKG-INFO +1 -1
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/data_record/data_record.py +9 -6
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/pyproject.toml +1 -1
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/LICENSE +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/README.md +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/data_record/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/data_record/remote_storage_endpoint.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/fuse_mount/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/fuse_mount/experiment_fuse_mount.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/http_client.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/libs/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/libs/fusepy/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/push_application.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/runtime.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/utils/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/api/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/api/client.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/app/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/app/app.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/app/search_apps.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_api_client/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_api_client/api_client.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_api_client/app_types.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_api_client/auth.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_api_client/biolib_app_api.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_api_client/biolib_job_api.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_api_client/common_types.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_api_client/job_types.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_api_client/lfs_types.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_api_client/user_state.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_binary_format/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_binary_format/base_bbf_package.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_binary_format/file_in_container.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_binary_format/module_input.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_binary_format/module_output_v2.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_binary_format/remote_endpoints.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_binary_format/remote_stream_seeker.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_binary_format/saved_job.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_binary_format/stdout_and_stderr.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_binary_format/system_exception.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_binary_format/system_status_update.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_binary_format/utils.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_docker_client/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_download_container.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_errors.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/biolib_logging.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/cli/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/cli/auth.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/cli/data_record.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/cli/download_container.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/cli/init.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/cli/lfs.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/cli/push.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/cli/run.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/cli/runtime.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/cli/start.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/.gitignore +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/cloud_utils/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/cloud_utils/cloud_utils.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/cache_state.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/cache_types.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/docker_image_cache.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/executors/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/executors/docker_executor.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/executors/docker_types.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/executors/tars/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/executors/types.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/job_legacy_input_wait_timeout_thread.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/job_max_runtime_timer_thread.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/job_storage.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/job_worker.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/large_file_system.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/mappings.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/utilization_reporter_thread.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/job_worker/utils.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/remote_host_proxy.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/socker_listener_thread.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/socket_sender_thread.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/utils.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/webserver/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/webserver/gunicorn_flask_application.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/webserver/webserver.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/webserver/webserver_types.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/webserver/webserver_utils.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/compute_node/webserver/worker_thread.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/experiments/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/experiments/experiment.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/experiments/types.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/jobs/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/jobs/job.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/jobs/job_result.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/jobs/types.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/lfs/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/lfs/cache.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/lfs/utils.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/runtime/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/sdk/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/tables.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/templates/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/templates/example_app.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/typing_utils.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/user/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/user/sign_in.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/utils/__init__.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/utils/app_uri.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/utils/cache_state.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/utils/multipart_uploader.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/utils/seq_util.py +0 -0
- {pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/utils/zip/remote_zip.py +0 -0
@@ -22,11 +22,6 @@ PathFilter = Union[str, Callable[[str], bool]]
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class DataRecord:
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def __init__(self, uri: str):
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self._uri = uri
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uri_parsed = parse_app_uri(uri, use_account_as_name_default=False)
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if not uri_parsed['app_name']:
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raise ValueError('Expected parameter "uri" to contain resource name')
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self._name = uri_parsed['app_name']
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def __repr__(self):
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return f'DataRecord: {self._uri}'
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@property
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def name(self) -> str:
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uri_parsed = parse_app_uri(self.uri, use_account_as_name_default=False)
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if not uri_parsed['app_name']:
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raise ValueError('Expected parameter "uri" to contain resource name')
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return uri_parsed['app_name']
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def list_files(self, path_filter: Optional[PathFilter] = None) -> List[LazyLoadedFile]:
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app_response: AppGetResponse = api_client.get(path='/app/', params={'uri': self._uri}).json()
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def save_files(self, output_dir: str, path_filter: Optional[PathFilter] = None) -> None:
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self.download_files(output_dir=output_dir, path_filter=path_filter)
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def update(self, data_path: str) -> None:
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assert os.path.isdir(data_path), f'The path "{data_path}" is not a directory.'
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self._uri = lfs.push_large_file_system(lfs_uri=self._uri, input_dir=data_path)
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@staticmethod
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def create(destination: str, data_path: str, name: Optional[str] = None) -> 'DataRecord':
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assert os.path.isdir(data_path), f'The path "{data_path}" is not a directory.'
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{pybiolib-1.1.2023 → pybiolib-1.1.2025}/biolib/_internal/data_record/remote_storage_endpoint.py
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