pybiolib 1.2.589__tar.gz → 1.2.600__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-1.2.589 → pybiolib-1.2.600}/PKG-INFO +1 -1
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/push_application.py +10 -7
- {pybiolib-1.2.589 → pybiolib-1.2.600}/pyproject.toml +1 -1
- {pybiolib-1.2.589 → pybiolib-1.2.600}/LICENSE +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/PYPI_README.md +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_data_record/data_record.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/data_record/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/data_record/data_record.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/data_record/push_data.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/data_record/remote_storage_endpoint.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/file_utils.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/fuse_mount/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/fuse_mount/experiment_fuse_mount.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/http_client.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/lfs/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/lfs/cache.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/libs/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/libs/fusepy/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/runtime.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/types/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/types/app.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/types/data_record.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/types/experiment.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/types/file_node.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/types/resource.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/types/resource_version.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/types/typing.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/utils/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_internal/utils/multinode.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_runtime/runtime.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/_session/session.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/api/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/api/client.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/app/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/app/app.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/app/search_apps.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_api_client/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_api_client/api_client.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_api_client/app_types.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_api_client/auth.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_api_client/biolib_app_api.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_api_client/biolib_job_api.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_api_client/common_types.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_api_client/job_types.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_api_client/lfs_types.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_api_client/user_state.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_binary_format/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_binary_format/base_bbf_package.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_binary_format/file_in_container.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_binary_format/module_input.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_binary_format/module_output_v2.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_binary_format/remote_endpoints.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_binary_format/remote_stream_seeker.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_binary_format/saved_job.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_binary_format/stdout_and_stderr.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_binary_format/system_exception.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_binary_format/system_status_update.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_binary_format/utils.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_docker_client/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_download_container.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_errors.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/biolib_logging.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/cli/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/cli/auth.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/cli/data_record.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/cli/download_container.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/cli/init.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/cli/lfs.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/cli/push.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/cli/run.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/cli/runtime.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/cli/start.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/.gitignore +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/cloud_utils/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/cloud_utils/cloud_utils.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/cache_state.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/cache_types.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/docker_image_cache.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/executors/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/executors/docker_executor.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/executors/docker_types.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/executors/tars/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/executors/types.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/job_legacy_input_wait_timeout_thread.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/job_max_runtime_timer_thread.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/job_storage.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/job_worker.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/large_file_system.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/mappings.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/utilization_reporter_thread.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/job_worker/utils.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/remote_host_proxy.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/socker_listener_thread.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/socket_sender_thread.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/utils.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/webserver/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/webserver/gunicorn_flask_application.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/webserver/webserver.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/webserver/webserver_types.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/webserver/webserver_utils.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/compute_node/webserver/worker_thread.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/experiments/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/experiments/experiment.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/jobs/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/jobs/job.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/jobs/job_result.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/jobs/types.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/py.typed +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/runtime/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/sdk/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/tables.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/templates/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/templates/example_app.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/typing_utils.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/user/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/user/sign_in.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/utils/__init__.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/utils/app_uri.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/utils/cache_state.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/utils/multipart_uploader.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/utils/seq_util.py +0 -0
- {pybiolib-1.2.589 → pybiolib-1.2.600}/biolib/utils/zip/remote_zip.py +0 -0
@@ -17,6 +17,7 @@ from biolib.biolib_docker_client import BiolibDockerClient
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from biolib.biolib_errors import BioLibError
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from biolib.biolib_logging import logger
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from biolib.typing_utils import Iterable, Optional, Set, TypedDict
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from biolib.utils.app_uri import parse_app_uri
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REGEX_MARKDOWN_INLINE_IMAGE = re.compile(r'!\[(?P<alt>.*)\]\((?P<src>.*)\)')
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@@ -79,22 +80,24 @@ def push_application(
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set_as_active: bool,
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set_as_published: bool,
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):
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raise BioLibError('Invalid URI only a single colon allowed')
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parsed_uri = parse_app_uri(app_uri)
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app_name = parsed_uri['app_name']
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app_uri_to_fetch =
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app_uri_to_fetch = f"@{parsed_uri['resource_name_prefix']}/{parsed_uri['account_handle_normalized']}/{app_name}"
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version = parsed_uri['version']
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semantic_version = f"{version['major']}.{version['minor']}.{version['patch']}" if version else None
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app_path_absolute = Path(app_path).resolve()
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api_client = BiolibApiClient.get()
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if not api_client.is_signed_in:
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# TODO: Create an exception class for expected errors like this that does not print stacktrace
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raise Exception(
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'You must be authenticated to push an application.\n'
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'Please set the environment variable "BIOLIB_TOKEN=[
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f'You can get
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'Please set the environment variable "BIOLIB_TOKEN=[your_deploy_token]"\n'
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f'You can get a deploy key at: {api_client.base_url}/{app_uri_to_fetch}/settings/keys'
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) from None
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