pybiolib 1.1.1892__tar.gz → 1.1.1896__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-1.1.1892 → pybiolib-1.1.1896}/PKG-INFO +1 -1
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/_internal/data_record/data_record.py +12 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/pyproject.toml +1 -1
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/LICENSE +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/README.md +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/_internal/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/_internal/data_record/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/_internal/data_record/remote_storage_endpoint.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/_internal/http_client.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/_internal/push_application.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/_internal/runtime.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/_internal/utils/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/api/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/api/client.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/app/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/app/app.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/app/search_apps.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_api_client/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_api_client/api_client.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_api_client/app_types.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_api_client/auth.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_api_client/biolib_app_api.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_api_client/biolib_job_api.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_api_client/common_types.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_api_client/job_types.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_api_client/lfs_types.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_api_client/user_state.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_binary_format/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_binary_format/base_bbf_package.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_binary_format/file_in_container.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_binary_format/module_input.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_binary_format/module_output_v2.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_binary_format/remote_endpoints.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_binary_format/remote_stream_seeker.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_binary_format/saved_job.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_binary_format/stdout_and_stderr.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_binary_format/system_exception.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_binary_format/system_status_update.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_binary_format/utils.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_docker_client/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_download_container.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_errors.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/biolib_logging.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/cli/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/cli/auth.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/cli/data_record.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/cli/download_container.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/cli/init.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/cli/lfs.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/cli/push.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/cli/run.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/cli/runtime.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/cli/start.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/.gitignore +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/cloud_utils/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/cloud_utils/cloud_utils.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/cache_state.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/cache_types.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/docker_image_cache.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/executors/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/executors/docker_executor.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/executors/docker_types.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/executors/tars/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/executors/types.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/job_legacy_input_wait_timeout_thread.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/job_max_runtime_timer_thread.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/job_storage.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/job_worker.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/large_file_system.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/mappings.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/utilization_reporter_thread.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/job_worker/utils.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/remote_host_proxy.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/socker_listener_thread.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/socket_sender_thread.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/utils.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/webserver/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/webserver/gunicorn_flask_application.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/webserver/webserver.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/webserver/webserver_types.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/webserver/webserver_utils.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/compute_node/webserver/worker_thread.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/experiments/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/experiments/experiment.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/experiments/types.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/jobs/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/jobs/job.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/jobs/job_result.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/jobs/types.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/lfs/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/lfs/cache.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/lfs/utils.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/runtime/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/sdk/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/tables.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/templates/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/templates/example_app.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/typing_utils.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/user/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/user/sign_in.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/utils/__init__.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/utils/app_uri.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/utils/cache_state.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/utils/multipart_uploader.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/utils/seq_util.py +0 -0
- {pybiolib-1.1.1892 → pybiolib-1.1.1896}/biolib/utils/zip/remote_zip.py +0 -0
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import os
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import shutil
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import urllib.request
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from datetime import datetime
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from fnmatch import fnmatch
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return self._get_filtered_files(files=files, path_filter=path_filter) if path_filter else files
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def download_zip(self, output_path: str):
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app_response: AppGetResponse = api_client.get(path='/app/', params={'uri': self._uri}).json()
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remote_storage_endpoint = DataRecordRemoteStorageEndpoint(
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resource_version_uuid=app_response['app_version']['public_id'],
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with urllib.request.urlopen(remote_storage_endpoint.get_remote_url()) as response, open(
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def download_files(self, output_dir: str, path_filter: Optional[PathFilter] = None) -> None:
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filtered_files = self.list_files(path_filter=path_filter)
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