PyPI - pybiolib - Versions diffs - 1.2.883__py3-none-any.whl → 1.2.1890__py3-none-any.whl - Mend

pybiolib 1.2.883py3-none-any.whl → 1.2.1890py3-none-any.whl

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

biolib/__init__.py +33 -10
biolib/_data_record/data_record.py +220 -126
biolib/_index/index.py +55 -0
biolib/_index/query_result.py +103 -0
biolib/_internal/add_copilot_prompts.py +24 -11
biolib/_internal/add_gui_files.py +81 -0
biolib/_internal/data_record/__init__.py +1 -1
biolib/_internal/data_record/data_record.py +1 -18
biolib/_internal/data_record/push_data.py +65 -16
biolib/_internal/data_record/remote_storage_endpoint.py +18 -13
biolib/_internal/file_utils.py +48 -0
biolib/_internal/lfs/cache.py +4 -2
biolib/_internal/push_application.py +95 -24
biolib/_internal/runtime.py +2 -0
biolib/_internal/string_utils.py +13 -0
biolib/_internal/{llm_instructions → templates/copilot_template}/.github/instructions/style-general.instructions.md +5 -0
biolib/_internal/templates/copilot_template/.github/instructions/style-react-ts.instructions.md +47 -0
biolib/_internal/templates/copilot_template/.github/prompts/biolib_onboard_repo.prompt.md +19 -0
biolib/_internal/templates/dashboard_template/.biolib/config.yml +5 -0
biolib/_internal/templates/{init_template → github_workflow_template}/.github/workflows/biolib.yml +7 -2
biolib/_internal/templates/gitignore_template/.gitignore +10 -0
biolib/_internal/templates/gui_template/.yarnrc.yml +1 -0
biolib/_internal/templates/gui_template/App.tsx +53 -0
biolib/_internal/templates/gui_template/Dockerfile +27 -0
biolib/_internal/templates/gui_template/biolib-sdk.ts +82 -0
biolib/_internal/templates/gui_template/dev-data/output.json +7 -0
biolib/_internal/templates/gui_template/index.css +5 -0
biolib/_internal/templates/gui_template/index.html +13 -0
biolib/_internal/templates/gui_template/index.tsx +10 -0
biolib/_internal/templates/gui_template/package.json +27 -0
biolib/_internal/templates/gui_template/tsconfig.json +24 -0
biolib/_internal/templates/gui_template/vite-plugin-dev-data.ts +50 -0
biolib/_internal/templates/gui_template/vite.config.mts +10 -0
biolib/_internal/templates/init_template/.biolib/config.yml +1 -0
biolib/_internal/templates/init_template/Dockerfile +5 -1
biolib/_internal/templates/init_template/run.py +6 -15
biolib/_internal/templates/init_template/run.sh +1 -0
biolib/_internal/templates/templates.py +21 -1
biolib/_internal/utils/__init__.py +47 -0
biolib/_internal/utils/auth.py +46 -0
biolib/_internal/utils/job_url.py +33 -0
biolib/_internal/utils/multinode.py +12 -14
biolib/_runtime/runtime.py +15 -2
biolib/_session/session.py +7 -5
biolib/_shared/__init__.py +0 -0
biolib/_shared/types/__init__.py +74 -0
biolib/_shared/types/account.py +12 -0
biolib/_shared/types/account_member.py +8 -0
biolib/{_internal → _shared}/types/experiment.py +1 -0
biolib/_shared/types/resource.py +37 -0
biolib/_shared/types/resource_deploy_key.py +11 -0
biolib/{_internal → _shared}/types/resource_version.py +8 -2
biolib/_shared/types/user.py +19 -0
biolib/_shared/utils/__init__.py +7 -0
biolib/_shared/utils/resource_uri.py +75 -0
biolib/api/client.py +5 -48
biolib/app/app.py +97 -55
biolib/biolib_api_client/api_client.py +3 -47
biolib/biolib_api_client/app_types.py +1 -1
biolib/biolib_api_client/biolib_app_api.py +31 -6
biolib/biolib_api_client/biolib_job_api.py +1 -1
biolib/biolib_api_client/user_state.py +34 -2
biolib/biolib_binary_format/module_input.py +8 -0
biolib/biolib_binary_format/remote_endpoints.py +3 -3
biolib/biolib_binary_format/remote_stream_seeker.py +39 -25
biolib/biolib_logging.py +1 -1
biolib/cli/__init__.py +2 -2
biolib/cli/auth.py +4 -16
biolib/cli/data_record.py +82 -0
biolib/cli/index.py +32 -0
biolib/cli/init.py +393 -71
biolib/cli/lfs.py +1 -1
biolib/cli/run.py +9 -6
biolib/cli/start.py +14 -1
biolib/compute_node/job_worker/executors/docker_executor.py +31 -9
biolib/compute_node/job_worker/executors/docker_types.py +1 -1
biolib/compute_node/job_worker/executors/types.py +6 -5
biolib/compute_node/job_worker/job_storage.py +2 -1
biolib/compute_node/job_worker/job_worker.py +155 -90
biolib/compute_node/job_worker/large_file_system.py +2 -6
biolib/compute_node/job_worker/network_alloc.py +99 -0
biolib/compute_node/job_worker/network_buffer.py +240 -0
biolib/compute_node/job_worker/utilization_reporter_thread.py +2 -2
biolib/compute_node/remote_host_proxy.py +163 -79
biolib/compute_node/utils.py +2 -0
biolib/compute_node/webserver/compute_node_results_proxy.py +189 -0
biolib/compute_node/webserver/proxy_utils.py +28 -0
biolib/compute_node/webserver/webserver.py +64 -19
biolib/experiments/experiment.py +111 -16
biolib/jobs/job.py +128 -31
biolib/jobs/job_result.py +74 -34
biolib/jobs/types.py +1 -0
biolib/sdk/__init__.py +28 -3
biolib/typing_utils.py +1 -1
biolib/utils/cache_state.py +8 -5
biolib/utils/multipart_uploader.py +24 -18
biolib/utils/seq_util.py +1 -1
pybiolib-1.2.1890.dist-info/METADATA +41 -0
pybiolib-1.2.1890.dist-info/RECORD +177 -0
{pybiolib-1.2.883.dist-info → pybiolib-1.2.1890.dist-info}/WHEEL +1 -1
pybiolib-1.2.1890.dist-info/entry_points.txt +2 -0
biolib/_internal/llm_instructions/.github/instructions/style-react-ts.instructions.md +0 -22
biolib/_internal/templates/init_template/.gitignore +0 -2
biolib/_internal/types/__init__.py +0 -6
biolib/_internal/types/resource.py +0 -18
biolib/biolib_download_container.py +0 -38
biolib/cli/download_container.py +0 -14
biolib/utils/app_uri.py +0 -57
pybiolib-1.2.883.dist-info/METADATA +0 -50
pybiolib-1.2.883.dist-info/RECORD +0 -148
pybiolib-1.2.883.dist-info/entry_points.txt +0 -3
/biolib/{_internal/llm_instructions → _index}/__init__.py +0 -0
/biolib/_internal/{llm_instructions → templates/copilot_template}/.github/instructions/general-app-knowledge.instructions.md +0 -0
/biolib/_internal/{llm_instructions → templates/copilot_template}/.github/instructions/style-python.instructions.md +0 -0
/biolib/_internal/{llm_instructions → templates/copilot_template}/.github/prompts/biolib_app_inputs.prompt.md +0 -0
/biolib/_internal/{llm_instructions → templates/copilot_template}/.github/prompts/biolib_run_apps.prompt.md +0 -0
/biolib/{_internal → _shared}/types/app.py +0 -0
/biolib/{_internal → _shared}/types/data_record.py +0 -0
/biolib/{_internal → _shared}/types/file_node.py +0 -0
/biolib/{_internal → _shared}/types/push.py +0 -0
/biolib/{_internal → _shared}/types/resource_permission.py +0 -0
/biolib/{_internal → _shared}/types/result.py +0 -0
/biolib/{_internal → _shared}/types/typing.py +0 -0
{pybiolib-1.2.883.dist-info → pybiolib-1.2.1890.dist-info/licenses}/LICENSE +0 -0

pybiolib-1.2.883.dist-info/RECORD DELETED Viewed

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