pybiolib 1.1.1934__tar.gz → 1.1.1942__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-1.1.1934 → pybiolib-1.1.1942}/PKG-INFO +1 -1
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/_internal/runtime.py +12 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/pyproject.toml +1 -1
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/LICENSE +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/README.md +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/_internal/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/_internal/data_record/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/_internal/data_record/data_record.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/_internal/data_record/remote_storage_endpoint.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/_internal/http_client.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/_internal/push_application.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/_internal/utils/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/api/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/api/client.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/app/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/app/app.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/app/search_apps.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_api_client/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_api_client/api_client.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_api_client/app_types.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_api_client/auth.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_api_client/biolib_app_api.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_api_client/biolib_job_api.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_api_client/common_types.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_api_client/job_types.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_api_client/lfs_types.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_api_client/user_state.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_binary_format/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_binary_format/base_bbf_package.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_binary_format/file_in_container.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_binary_format/module_input.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_binary_format/module_output_v2.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_binary_format/remote_endpoints.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_binary_format/remote_stream_seeker.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_binary_format/saved_job.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_binary_format/stdout_and_stderr.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_binary_format/system_exception.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_binary_format/system_status_update.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_binary_format/utils.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_docker_client/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_download_container.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_errors.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/biolib_logging.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/cli/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/cli/auth.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/cli/data_record.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/cli/download_container.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/cli/init.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/cli/lfs.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/cli/push.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/cli/run.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/cli/runtime.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/cli/start.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/.gitignore +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/cloud_utils/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/cloud_utils/cloud_utils.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/cache_state.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/cache_types.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/docker_image_cache.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/executors/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/executors/docker_executor.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/executors/docker_types.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/executors/tars/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/executors/types.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/job_legacy_input_wait_timeout_thread.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/job_max_runtime_timer_thread.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/job_storage.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/job_worker.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/large_file_system.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/mappings.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/utilization_reporter_thread.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/utils.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/remote_host_proxy.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/socker_listener_thread.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/socket_sender_thread.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/utils.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/webserver/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/webserver/gunicorn_flask_application.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/webserver/webserver.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/webserver/webserver_types.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/webserver/webserver_utils.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/webserver/worker_thread.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/experiments/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/experiments/experiment.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/experiments/types.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/jobs/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/jobs/job.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/jobs/job_result.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/jobs/types.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/lfs/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/lfs/cache.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/lfs/utils.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/runtime/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/sdk/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/tables.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/templates/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/templates/example_app.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/typing_utils.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/user/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/user/sign_in.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/utils/__init__.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/utils/app_uri.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/utils/cache_state.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/utils/multipart_uploader.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/utils/seq_util.py +0 -0
- {pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/utils/zip/remote_zip.py +0 -0
@@ -1,4 +1,5 @@
|
|
1
1
|
import json
|
2
|
+
import re
|
2
3
|
|
3
4
|
from biolib import api
|
4
5
|
from biolib.typing_utils import Optional, TypedDict, cast
|
@@ -45,6 +46,17 @@ class Runtime:
|
|
45
46
|
def get_app_uri() -> str:
|
46
47
|
return Runtime._get_job_data()['app_uri']
|
47
48
|
|
49
|
+
@staticmethod
|
50
|
+
def get_secret(secret_name: str) -> bytes:
|
51
|
+
assert re.match(
|
52
|
+
'^[a-zA-Z0-9_-]*$', secret_name
|
53
|
+
), 'Secret name can only contain alphanumeric characters and dashes or underscores '
|
54
|
+
try:
|
55
|
+
with open(f'/biolib/secrets/{secret_name}', 'rb') as file:
|
56
|
+
return file.read()
|
57
|
+
except BaseException as error:
|
58
|
+
raise BioLibRuntimeError(f'Unable to get system secret: {secret_name}') from error
|
59
|
+
|
48
60
|
@staticmethod
|
49
61
|
def set_main_result_prefix(result_prefix: str) -> None:
|
50
62
|
job_data = Runtime._get_job_data()
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
{pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/_internal/data_record/remote_storage_endpoint.py
RENAMED
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
{pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/docker_image_cache.py
RENAMED
File without changes
|
{pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/executors/__init__.py
RENAMED
File without changes
|
{pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/executors/docker_executor.py
RENAMED
File without changes
|
{pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/executors/docker_types.py
RENAMED
File without changes
|
{pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/job_worker/executors/tars/__init__.py
RENAMED
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
{pybiolib-1.1.1934 → pybiolib-1.1.1942}/biolib/compute_node/webserver/gunicorn_flask_application.py
RENAMED
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|