2026-01-13T17:24:54,865 Created temporary directory: /tmp/pip-ephem-wheel-cache-obxd6ljt 2026-01-13T17:24:54,867 Created temporary directory: /tmp/pip-build-tracker-dd_vw4vb 2026-01-13T17:24:54,867 Initialized build tracking at /tmp/pip-build-tracker-dd_vw4vb 2026-01-13T17:24:54,868 Created build tracker: /tmp/pip-build-tracker-dd_vw4vb 2026-01-13T17:24:54,868 Entered build tracker: /tmp/pip-build-tracker-dd_vw4vb 2026-01-13T17:24:54,869 Created temporary directory: /tmp/pip-wheel-1mk1bdi6 2026-01-13T17:24:54,872 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. 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2026-01-13T17:24:55,337 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.3.7-py3-none-any.whl#sha256=1afa293c77ee76f5bae5d6fb353e616bfc2166a47ddb11566d5d5674a846897b (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-13T17:24:55,338 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.3.6-py3-none-any.whl#sha256=cd61b1b10eedca49752a6bf6fded18e0ae82aadbc6fb197db209817e3759f621 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-13T17:24:55,338 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.3.1-py3-none-any.whl#sha256=959b603e58e54b88d9df36539c50557fee9d9335e93af19608099db9d90f5521 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-13T17:24:55,339 Skipping link: No binaries permitted for lobster-ai: 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https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.0.7-py3-none-any.whl#sha256=cbee755d3f7ac5e1cd5b65bfe0309faa4acba90c1a6a1b32036010c45f0868d9 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-13T17:24:55,352 Skipping link: not a file: https://www.piwheels.org/simple/lobster-ai/ 2026-01-13T17:24:55,353 Skipping link: not a file: https://pypi.org/simple/lobster-ai/ 2026-01-13T17:24:55,375 Given no hashes to check 1 links for project 'lobster-ai': discarding no candidates 2026-01-13T17:24:55,393 Collecting lobster-ai==0.4.3.9 2026-01-13T17:24:55,395 Created temporary directory: /tmp/pip-unpack-2agzj_uz 2026-01-13T17:24:55,529 Downloading lobster_ai-0.4.3.9.tar.gz (1.2 MB) 2026-01-13T17:24:56,502 Added lobster-ai==0.4.3.9 from https://files.pythonhosted.org/packages/de/ec/5c70b06b267e093e0c8cd130480eda6d7e5bd0523a6bfff6b7fa6d4c0b01/lobster_ai-0.4.3.9.tar.gz to build tracker '/tmp/pip-build-tracker-dd_vw4vb' 2026-01-13T17:24:56,510 Created temporary directory: /tmp/pip-build-env-pj5jzodb 2026-01-13T17:24:56,515 Installing build dependencies: started 2026-01-13T17:24:56,516 Running command pip subprocess to install build dependencies 2026-01-13T17:24:57,647 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-01-13T17:24:58,300 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-01-13T17:24:58,323 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-13T17:25:00,043 Collecting setuptools>=65.0 2026-01-13T17:25:00,135 Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB) 2026-01-13T17:25:00,418 Collecting wheel 2026-01-13T17:25:00,434 Using cached https://www.piwheels.org/simple/wheel/wheel-0.45.1-py3-none-any.whl (72 kB) 2026-01-13T17:25:03,420 Installing collected packages: wheel, setuptools 2026-01-13T17:25:03,665 Creating /tmp/pip-build-env-pj5jzodb/overlay/local/bin 2026-01-13T17:25:03,667 changing mode of /tmp/pip-build-env-pj5jzodb/overlay/local/bin/wheel to 755 2026-01-13T17:25:07,271 Successfully installed setuptools-80.9.0 wheel-0.45.1 2026-01-13T17:25:07,544 Installing build dependencies: finished with status 'done' 2026-01-13T17:25:07,551 Getting requirements to build wheel: started 2026-01-13T17:25:07,552 Running command Getting requirements to build wheel 2026-01-13T17:25:08,246 /tmp/pip-build-env-pj5jzodb/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-13T17:25:08,246 corresp(dist, value, root_dir) 2026-01-13T17:25:08,247 /tmp/pip-build-env-pj5jzodb/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-13T17:25:08,248 corresp(dist, value, root_dir) 2026-01-13T17:25:08,248 /tmp/pip-build-env-pj5jzodb/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-13T17:25:08,249 corresp(dist, value, root_dir) 2026-01-13T17:25:08,354 running egg_info 2026-01-13T17:25:08,362 writing lobster_ai.egg-info/PKG-INFO 2026-01-13T17:25:08,392 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-13T17:25:08,394 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-13T17:25:08,414 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-13T17:25:08,415 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-13T17:25:08,566 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-13T17:25:08,583 adding license file 'LICENSE' 2026-01-13T17:25:08,598 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-13T17:25:08,697 Getting requirements to build wheel: finished with status 'done' 2026-01-13T17:25:08,700 Created temporary directory: /tmp/pip-modern-metadata-zn4_2ic9 2026-01-13T17:25:08,703 Preparing metadata (pyproject.toml): started 2026-01-13T17:25:08,704 Running command Preparing metadata (pyproject.toml) 2026-01-13T17:25:09,331 /tmp/pip-build-env-pj5jzodb/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-13T17:25:09,331 corresp(dist, value, root_dir) 2026-01-13T17:25:09,331 /tmp/pip-build-env-pj5jzodb/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-13T17:25:09,332 corresp(dist, value, root_dir) 2026-01-13T17:25:09,332 /tmp/pip-build-env-pj5jzodb/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-13T17:25:09,333 corresp(dist, value, root_dir) 2026-01-13T17:25:09,436 running dist_info 2026-01-13T17:25:09,449 creating /tmp/pip-modern-metadata-zn4_2ic9/lobster_ai.egg-info 2026-01-13T17:25:09,450 writing /tmp/pip-modern-metadata-zn4_2ic9/lobster_ai.egg-info/PKG-INFO 2026-01-13T17:25:09,480 writing dependency_links to /tmp/pip-modern-metadata-zn4_2ic9/lobster_ai.egg-info/dependency_links.txt 2026-01-13T17:25:09,482 writing entry points to /tmp/pip-modern-metadata-zn4_2ic9/lobster_ai.egg-info/entry_points.txt 2026-01-13T17:25:09,501 writing requirements to /tmp/pip-modern-metadata-zn4_2ic9/lobster_ai.egg-info/requires.txt 2026-01-13T17:25:09,502 writing top-level names to /tmp/pip-modern-metadata-zn4_2ic9/lobster_ai.egg-info/top_level.txt 2026-01-13T17:25:09,504 writing manifest file '/tmp/pip-modern-metadata-zn4_2ic9/lobster_ai.egg-info/SOURCES.txt' 2026-01-13T17:25:09,648 reading manifest file '/tmp/pip-modern-metadata-zn4_2ic9/lobster_ai.egg-info/SOURCES.txt' 2026-01-13T17:25:09,651 adding license file 'LICENSE' 2026-01-13T17:25:09,661 writing manifest file '/tmp/pip-modern-metadata-zn4_2ic9/lobster_ai.egg-info/SOURCES.txt' 2026-01-13T17:25:09,663 creating '/tmp/pip-modern-metadata-zn4_2ic9/lobster_ai-0.4.3.9.dist-info' 2026-01-13T17:25:09,793 Preparing metadata (pyproject.toml): finished with status 'done' 2026-01-13T17:25:09,799 Source in /tmp/pip-wheel-1mk1bdi6/lobster-ai_8daf9ffd95174615839daaaca2ef315d has version 0.4.3.9, which satisfies requirement lobster-ai==0.4.3.9 from https://files.pythonhosted.org/packages/de/ec/5c70b06b267e093e0c8cd130480eda6d7e5bd0523a6bfff6b7fa6d4c0b01/lobster_ai-0.4.3.9.tar.gz 2026-01-13T17:25:09,800 Removed lobster-ai==0.4.3.9 from https://files.pythonhosted.org/packages/de/ec/5c70b06b267e093e0c8cd130480eda6d7e5bd0523a6bfff6b7fa6d4c0b01/lobster_ai-0.4.3.9.tar.gz from build tracker '/tmp/pip-build-tracker-dd_vw4vb' 2026-01-13T17:25:09,812 Created temporary directory: /tmp/pip-unpack-zjxr87mo 2026-01-13T17:25:09,813 Building wheels for collected packages: lobster-ai 2026-01-13T17:25:09,817 Created temporary directory: /tmp/pip-wheel-0ph_6jy6 2026-01-13T17:25:09,818 Destination directory: /tmp/pip-wheel-0ph_6jy6 2026-01-13T17:25:09,820 Building wheel for lobster-ai (pyproject.toml): started 2026-01-13T17:25:09,821 Running command Building wheel for lobster-ai (pyproject.toml) 2026-01-13T17:25:10,432 /tmp/pip-build-env-pj5jzodb/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-13T17:25:10,432 corresp(dist, value, root_dir) 2026-01-13T17:25:10,433 /tmp/pip-build-env-pj5jzodb/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-13T17:25:10,434 corresp(dist, value, root_dir) 2026-01-13T17:25:10,435 /tmp/pip-build-env-pj5jzodb/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-13T17:25:10,435 corresp(dist, value, root_dir) 2026-01-13T17:25:10,525 running bdist_wheel 2026-01-13T17:25:10,545 running build 2026-01-13T17:25:10,546 running build_py 2026-01-13T17:25:10,553 creating build/lib/lobster 2026-01-13T17:25:10,555 copying lobster/version.py -> build/lib/lobster 2026-01-13T17:25:10,556 copying lobster/_version.py -> build/lib/lobster 2026-01-13T17:25:10,558 copying lobster/__main__.py -> build/lib/lobster 2026-01-13T17:25:10,560 copying lobster/cli.py -> build/lib/lobster 2026-01-13T17:25:10,568 copying lobster/main.py -> build/lib/lobster 2026-01-13T17:25:10,570 creating build/lib/lobster/config 2026-01-13T17:25:10,571 copying lobster/config/supervisor_config.py -> build/lib/lobster/config 2026-01-13T17:25:10,574 copying lobster/config/agent_config.py -> build/lib/lobster/config 2026-01-13T17:25:10,577 copying lobster/config/ollama_service.py -> build/lib/lobster/config 2026-01-13T17:25:10,579 copying lobster/config/workspace_config.py -> build/lib/lobster/config 2026-01-13T17:25:10,582 copying lobster/config/base_config.py -> build/lib/lobster/config 2026-01-13T17:25:10,584 copying lobster/config/ssl_setup.py -> build/lib/lobster/config 2026-01-13T17:25:10,587 copying lobster/config/version_check.py -> build/lib/lobster/config 2026-01-13T17:25:10,589 copying lobster/config/llm_factory.py -> build/lib/lobster/config 2026-01-13T17:25:10,591 copying lobster/config/global_config.py -> build/lib/lobster/config 2026-01-13T17:25:10,594 copying lobster/config/provider_setup.py -> build/lib/lobster/config 2026-01-13T17:25:10,597 copying lobster/config/config_manager.py -> build/lib/lobster/config 2026-01-13T17:25:10,599 copying lobster/config/agent_registry.py -> build/lib/lobster/config 2026-01-13T17:25:10,601 copying lobster/config/model_service.py -> build/lib/lobster/config 2026-01-13T17:25:10,604 copying lobster/config/__init__.py -> build/lib/lobster/config 2026-01-13T17:25:10,606 copying lobster/config/settings.py -> build/lib/lobster/config 2026-01-13T17:25:10,609 copying lobster/config/agent_capabilities.py -> build/lib/lobster/config 2026-01-13T17:25:10,611 copying lobster/config/subscription_tiers.py -> build/lib/lobster/config 2026-01-13T17:25:10,614 copying lobster/config/constants.py -> build/lib/lobster/config 2026-01-13T17:25:10,616 creating build/lib/lobster/utils 2026-01-13T17:25:10,617 copying lobster/utils/system.py -> build/lib/lobster/utils 2026-01-13T17:25:10,619 copying lobster/utils/callbacks.py -> build/lib/lobster/utils 2026-01-13T17:25:10,622 copying lobster/utils/json_extractor.py -> build/lib/lobster/utils 2026-01-13T17:25:10,625 copying lobster/utils/file_analyzer.py -> build/lib/lobster/utils 2026-01-13T17:25:10,628 copying lobster/utils/__init__.py -> build/lib/lobster/utils 2026-01-13T17:25:10,630 copying lobster/utils/ssl_utils.py -> build/lib/lobster/utils 2026-01-13T17:25:10,632 copying lobster/utils/error_handlers.py -> build/lib/lobster/utils 2026-01-13T17:25:10,635 copying lobster/utils/file_naming.py -> build/lib/lobster/utils 2026-01-13T17:25:10,638 copying lobster/utils/logger.py -> build/lib/lobster/utils 2026-01-13T17:25:10,640 copying lobster/utils/deviance.py -> build/lib/lobster/utils 2026-01-13T17:25:10,642 copying lobster/utils/progress_wrapper.py -> build/lib/lobster/utils 2026-01-13T17:25:10,644 creating build/lib/lobster/cli_internal 2026-01-13T17:25:10,645 copying lobster/cli_internal/__init__.py -> build/lib/lobster/cli_internal 2026-01-13T17:25:10,648 creating build/lib/lobster/lobster_cloud 2026-01-13T17:25:10,649 copying lobster/lobster_cloud/client.py -> build/lib/lobster/lobster_cloud 2026-01-13T17:25:10,652 copying lobster/lobster_cloud/__init__.py -> build/lib/lobster/lobster_cloud 2026-01-13T17:25:10,655 creating build/lib/lobster/tools 2026-01-13T17:25:10,656 copying lobster/tools/expert_handoff_manager.py -> build/lib/lobster/tools 2026-01-13T17:25:10,658 copying lobster/tools/gpu_detector.py -> build/lib/lobster/tools 2026-01-13T17:25:10,661 copying lobster/tools/geo_parser.py -> build/lib/lobster/tools 2026-01-13T17:25:10,662 copying lobster/tools/download_orchestrator.py -> build/lib/lobster/tools 2026-01-13T17:25:10,665 copying lobster/tools/workflow_tracker.py -> build/lib/lobster/tools 2026-01-13T17:25:10,668 copying lobster/tools/todo_tools.py -> build/lib/lobster/tools 2026-01-13T17:25:10,670 copying lobster/tools/custom_code_tool.py -> build/lib/lobster/tools 2026-01-13T17:25:10,673 copying lobster/tools/rate_limiter.py -> build/lib/lobster/tools 2026-01-13T17:25:10,677 copying lobster/tools/expert_handoff_patterns.py -> build/lib/lobster/tools 2026-01-13T17:25:10,680 copying lobster/tools/pipeline_strategy.py -> build/lib/lobster/tools 2026-01-13T17:25:10,682 copying lobster/tools/geo_downloader.py -> build/lib/lobster/tools 2026-01-13T17:25:10,684 copying lobster/tools/__init__.py -> build/lib/lobster/tools 2026-01-13T17:25:10,686 copying lobster/tools/enhanced_handoff_tool.py -> build/lib/lobster/tools 2026-01-13T17:25:10,688 copying lobster/tools/handoff_tool.py -> build/lib/lobster/tools 2026-01-13T17:25:10,691 copying lobster/tools/url_transforms.py -> build/lib/lobster/tools 2026-01-13T17:25:10,693 copying lobster/tools/workspace_tool.py -> build/lib/lobster/tools 2026-01-13T17:25:10,698 creating build/lib/lobster/core 2026-01-13T17:25:10,699 copying lobster/core/notebook_validator.py -> build/lib/lobster/core 2026-01-13T17:25:10,702 copying lobster/core/ir_coverage.py -> build/lib/lobster/core 2026-01-13T17:25:10,704 copying lobster/core/exceptions.py -> build/lib/lobster/core 2026-01-13T17:25:10,707 copying lobster/core/plugin_loader.py -> build/lib/lobster/core 2026-01-13T17:25:10,709 copying lobster/core/provenance.py -> build/lib/lobster/core 2026-01-13T17:25:10,712 copying lobster/core/client.py -> build/lib/lobster/core 2026-01-13T17:25:10,717 copying lobster/core/data_manager_v2.py -> build/lib/lobster/core 2026-01-13T17:25:10,722 copying lobster/core/publication_queue.py -> build/lib/lobster/core 2026-01-13T17:25:10,725 copying lobster/core/plot_manager.py -> build/lib/lobster/core 2026-01-13T17:25:10,728 copying lobster/core/archive_utils.py -> build/lib/lobster/core 2026-01-13T17:25:10,731 copying lobster/core/__init__.py -> build/lib/lobster/core 2026-01-13T17:25:10,732 copying lobster/core/analysis_ir.py -> build/lib/lobster/core 2026-01-13T17:25:10,735 copying lobster/core/config_resolver.py -> build/lib/lobster/core 2026-01-13T17:25:10,738 copying lobster/core/notebook_exporter.py -> build/lib/lobster/core 2026-01-13T17:25:10,740 copying lobster/core/license_manager.py -> build/lib/lobster/core 2026-01-13T17:25:10,743 copying lobster/core/component_registry.py -> build/lib/lobster/core 2026-01-13T17:25:10,746 copying lobster/core/notebook_executor.py -> build/lib/lobster/core 2026-01-13T17:25:10,748 copying lobster/core/download_queue.py -> build/lib/lobster/core 2026-01-13T17:25:10,751 copying lobster/core/queue_storage.py -> build/lib/lobster/core 2026-01-13T17:25:10,753 copying lobster/core/ris_parser.py -> build/lib/lobster/core 2026-01-13T17:25:10,755 copying lobster/core/workspace.py -> build/lib/lobster/core 2026-01-13T17:25:10,758 creating build/lib/lobster/ui 2026-01-13T17:25:10,759 copying lobster/ui/console_manager.py -> build/lib/lobster/ui 2026-01-13T17:25:10,762 copying lobster/ui/progress_manager.py -> build/lib/lobster/ui 2026-01-13T17:25:10,765 copying lobster/ui/live_dashboard.py -> build/lib/lobster/ui 2026-01-13T17:25:10,767 copying lobster/ui/themes.py -> build/lib/lobster/ui 2026-01-13T17:25:10,770 copying lobster/ui/os_app.py -> build/lib/lobster/ui 2026-01-13T17:25:10,772 copying lobster/ui/__init__.py -> build/lib/lobster/ui 2026-01-13T17:25:10,774 copying lobster/ui/commands.py -> build/lib/lobster/ui 2026-01-13T17:25:10,777 creating build/lib/lobster/services 2026-01-13T17:25:10,778 copying lobster/services/__init__.py -> build/lib/lobster/services 2026-01-13T17:25:10,780 creating build/lib/lobster/agents 2026-01-13T17:25:10,781 copying lobster/agents/draw_graph.py -> build/lib/lobster/agents 2026-01-13T17:25:10,783 copying lobster/agents/graph.py -> build/lib/lobster/agents 2026-01-13T17:25:10,785 copying lobster/agents/state.py -> build/lib/lobster/agents 2026-01-13T17:25:10,787 copying lobster/agents/visualization_expert.py -> build/lib/lobster/agents 2026-01-13T17:25:10,790 copying lobster/agents/supervisor.py -> build/lib/lobster/agents 2026-01-13T17:25:10,793 creating build/lib/lobster/config/providers 2026-01-13T17:25:10,794 copying lobster/config/providers/ollama_provider.py -> build/lib/lobster/config/providers 2026-01-13T17:25:10,797 copying lobster/config/providers/bedrock_provider.py -> build/lib/lobster/config/providers 2026-01-13T17:25:10,799 copying lobster/config/providers/__init__.py -> build/lib/lobster/config/providers 2026-01-13T17:25:10,801 copying lobster/config/providers/registry.py -> build/lib/lobster/config/providers 2026-01-13T17:25:10,803 copying lobster/config/providers/gemini_provider.py -> build/lib/lobster/config/providers 2026-01-13T17:25:10,805 copying lobster/config/providers/base_provider.py -> build/lib/lobster/config/providers 2026-01-13T17:25:10,807 copying lobster/config/providers/anthropic_provider.py -> build/lib/lobster/config/providers 2026-01-13T17:25:10,810 creating build/lib/lobster/cli_internal/utils 2026-01-13T17:25:10,811 copying lobster/cli_internal/utils/path_resolution.py -> build/lib/lobster/cli_internal/utils 2026-01-13T17:25:10,813 copying lobster/cli_internal/utils/__init__.py -> build/lib/lobster/cli_internal/utils 2026-01-13T17:25:10,815 creating build/lib/lobster/cli_internal/commands 2026-01-13T17:25:10,816 copying lobster/cli_internal/commands/output_adapter.py -> build/lib/lobster/cli_internal/commands 2026-01-13T17:25:10,819 copying lobster/cli_internal/commands/__init__.py -> build/lib/lobster/cli_internal/commands 2026-01-13T17:25:10,822 creating build/lib/lobster/cli_internal/commands/heavy 2026-01-13T17:25:10,822 copying lobster/cli_internal/commands/heavy/visualization_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-13T17:25:10,825 copying lobster/cli_internal/commands/heavy/__init__.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-13T17:25:10,827 copying lobster/cli_internal/commands/heavy/modality_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-13T17:25:10,830 copying lobster/cli_internal/commands/heavy/data_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-13T17:25:10,834 creating build/lib/lobster/cli_internal/commands/light 2026-01-13T17:25:10,835 copying lobster/cli_internal/commands/light/workspace_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-13T17:25:10,838 copying lobster/cli_internal/commands/light/__init__.py -> build/lib/lobster/cli_internal/commands/light 2026-01-13T17:25:10,840 copying lobster/cli_internal/commands/light/pipeline_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-13T17:25:10,843 copying lobster/cli_internal/commands/light/queue_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-13T17:25:10,846 copying lobster/cli_internal/commands/light/config_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-13T17:25:10,849 copying lobster/cli_internal/commands/light/metadata_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-13T17:25:10,852 copying lobster/cli_internal/commands/light/file_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-13T17:25:10,856 creating build/lib/lobster/tools/providers 2026-01-13T17:25:10,857 copying lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,861 copying lobster/tools/providers/geo_provider.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,864 copying lobster/tools/providers/biorxiv_medrxiv_config.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,866 copying lobster/tools/providers/organism_enum.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,869 copying lobster/tools/providers/publication_resolver.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,872 copying lobster/tools/providers/pride_provider.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,875 copying lobster/tools/providers/webpage_provider.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,877 copying lobster/tools/providers/massive_provider.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,880 copying lobster/tools/providers/ncbi_query_builder.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,882 copying lobster/tools/providers/__init__.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,884 copying lobster/tools/providers/pdb_provider.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,887 copying lobster/tools/providers/pmc_provider.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,892 copying lobster/tools/providers/biopython_entrez_wrapper.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,894 copying lobster/tools/providers/abstract_provider.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,897 copying lobster/tools/providers/pride_normalizer.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,899 copying lobster/tools/providers/geo_utils.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,902 copying lobster/tools/providers/structure_provider.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,904 copying lobster/tools/providers/base_provider.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,908 copying lobster/tools/providers/pubmed_provider.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,912 copying lobster/tools/providers/provider_registry.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,914 copying lobster/tools/providers/sra_provider.py -> build/lib/lobster/tools/providers 2026-01-13T17:25:10,918 creating build/lib/lobster/tools/archive 2026-01-13T17:25:10,919 copying lobster/tools/archive/unified_content_service.py -> build/lib/lobster/tools/archive 2026-01-13T17:25:10,922 copying lobster/tools/archive/publication_service.py -> build/lib/lobster/tools/archive 2026-01-13T17:25:10,925 creating build/lib/lobster/core/identifiers 2026-01-13T17:25:10,926 copying lobster/core/identifiers/accession_resolver.py -> build/lib/lobster/core/identifiers 2026-01-13T17:25:10,929 copying lobster/core/identifiers/__init__.py -> build/lib/lobster/core/identifiers 2026-01-13T17:25:10,931 creating build/lib/lobster/core/backends 2026-01-13T17:25:10,932 copying lobster/core/backends/base.py -> build/lib/lobster/core/backends 2026-01-13T17:25:10,935 copying lobster/core/backends/h5ad_backend.py -> build/lib/lobster/core/backends 2026-01-13T17:25:10,937 copying lobster/core/backends/__init__.py -> build/lib/lobster/core/backends 2026-01-13T17:25:10,939 copying lobster/core/backends/mudata_backend.py -> build/lib/lobster/core/backends 2026-01-13T17:25:10,942 creating build/lib/lobster/core/adapters 2026-01-13T17:25:10,943 copying lobster/core/adapters/base.py -> build/lib/lobster/core/adapters 2026-01-13T17:25:10,946 copying lobster/core/adapters/pseudobulk_adapter.py -> build/lib/lobster/core/adapters 2026-01-13T17:25:10,949 copying lobster/core/adapters/proteomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-13T17:25:10,952 copying lobster/core/adapters/__init__.py -> build/lib/lobster/core/adapters 2026-01-13T17:25:10,954 copying lobster/core/adapters/protein_structure_adapter.py -> build/lib/lobster/core/adapters 2026-01-13T17:25:10,956 copying lobster/core/adapters/transcriptomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-13T17:25:10,960 creating build/lib/lobster/core/schemas 2026-01-13T17:25:10,961 copying lobster/core/schemas/database_registry.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,963 copying lobster/core/schemas/export_schemas.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,968 copying lobster/core/schemas/validation.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,971 copying lobster/core/schemas/transcriptomics.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,974 copying lobster/core/schemas/metagenomics.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,978 copying lobster/core/schemas/metabolomics.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,981 copying lobster/core/schemas/publication_queue.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,983 copying lobster/core/schemas/ontology.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,985 copying lobster/core/schemas/protein_structure.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,988 copying lobster/core/schemas/download_urls.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,991 copying lobster/core/schemas/__init__.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,993 copying lobster/core/schemas/sra.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,996 copying lobster/core/schemas/database_mappings.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:10,999 copying lobster/core/schemas/download_queue.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:11,001 copying lobster/core/schemas/proteomics.py -> build/lib/lobster/core/schemas 2026-01-13T17:25:11,005 creating build/lib/lobster/core/utils 2026-01-13T17:25:11,006 copying lobster/core/utils/h5ad_utils.py -> build/lib/lobster/core/utils 2026-01-13T17:25:11,009 copying lobster/core/utils/__init__.py -> build/lib/lobster/core/utils 2026-01-13T17:25:11,012 creating build/lib/lobster/core/interfaces 2026-01-13T17:25:11,012 copying lobster/core/interfaces/adapter.py -> build/lib/lobster/core/interfaces 2026-01-13T17:25:11,015 copying lobster/core/interfaces/validator.py -> build/lib/lobster/core/interfaces 2026-01-13T17:25:11,017 copying lobster/core/interfaces/base_client.py -> build/lib/lobster/core/interfaces 2026-01-13T17:25:11,019 copying lobster/core/interfaces/backend.py -> build/lib/lobster/core/interfaces 2026-01-13T17:25:11,022 copying lobster/core/interfaces/__init__.py -> build/lib/lobster/core/interfaces 2026-01-13T17:25:11,024 copying lobster/core/interfaces/download_service.py -> build/lib/lobster/core/interfaces 2026-01-13T17:25:11,027 creating build/lib/lobster/ui/widgets 2026-01-13T17:25:11,028 copying lobster/ui/widgets/query_prompt.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,030 copying lobster/ui/widgets/error_modal.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,033 copying lobster/ui/widgets/chat_message.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,035 copying lobster/ui/widgets/queue_status_bar.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,037 copying lobster/ui/widgets/activity_log.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,040 copying lobster/ui/widgets/results_display.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,042 copying lobster/ui/widgets/connections_panel.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,044 copying lobster/ui/widgets/data_hub.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,048 copying lobster/ui/widgets/token_usage_panel.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,051 copying lobster/ui/widgets/__init__.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,054 copying lobster/ui/widgets/agents_panel.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,057 copying lobster/ui/widgets/adapters_panel.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,060 copying lobster/ui/widgets/plot_preview.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,063 copying lobster/ui/widgets/queue_panel.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,066 copying lobster/ui/widgets/system_info.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,069 copying lobster/ui/widgets/modality_list.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,072 copying lobster/ui/widgets/status_bar.py -> build/lib/lobster/ui/widgets 2026-01-13T17:25:11,076 creating build/lib/lobster/ui/callbacks 2026-01-13T17:25:11,077 copying lobster/ui/callbacks/__init__.py -> build/lib/lobster/ui/callbacks 2026-01-13T17:25:11,080 copying lobster/ui/callbacks/textual_callback.py -> build/lib/lobster/ui/callbacks 2026-01-13T17:25:11,084 creating build/lib/lobster/ui/screens 2026-01-13T17:25:11,085 copying lobster/ui/screens/analysis_screen.py -> build/lib/lobster/ui/screens 2026-01-13T17:25:11,090 copying lobster/ui/screens/__init__.py -> build/lib/lobster/ui/screens 2026-01-13T17:25:11,093 creating build/lib/lobster/ui/formatters 2026-01-13T17:25:11,094 copying lobster/ui/formatters/__init__.py -> build/lib/lobster/ui/formatters 2026-01-13T17:25:11,097 creating build/lib/lobster/ui/services 2026-01-13T17:25:11,099 copying lobster/ui/services/__init__.py -> build/lib/lobster/ui/services 2026-01-13T17:25:11,101 copying lobster/ui/services/error_service.py -> build/lib/lobster/ui/services 2026-01-13T17:25:11,105 creating build/lib/lobster/ui/components 2026-01-13T17:25:11,107 copying lobster/ui/components/status_display.py -> build/lib/lobster/ui/components 2026-01-13T17:25:11,111 copying lobster/ui/components/multi_progress.py -> build/lib/lobster/ui/components 2026-01-13T17:25:11,114 copying lobster/ui/components/file_tree.py -> build/lib/lobster/ui/components 2026-01-13T17:25:11,118 copying lobster/ui/components/parallel_workers_progress.py -> build/lib/lobster/ui/components 2026-01-13T17:25:11,122 copying lobster/ui/components/__init__.py -> build/lib/lobster/ui/components 2026-01-13T17:25:11,125 creating build/lib/lobster/services/data_management 2026-01-13T17:25:11,126 copying lobster/services/data_management/modality_detection_service.py -> build/lib/lobster/services/data_management 2026-01-13T17:25:11,130 copying lobster/services/data_management/concatenation_service.py -> build/lib/lobster/services/data_management 2026-01-13T17:25:11,134 copying lobster/services/data_management/__init__.py -> build/lib/lobster/services/data_management 2026-01-13T17:25:11,137 copying lobster/services/data_management/modality_management_service.py -> build/lib/lobster/services/data_management 2026-01-13T17:25:11,142 copying lobster/services/data_management/strategy_recommendation_service.py -> build/lib/lobster/services/data_management 2026-01-13T17:25:11,146 creating build/lib/lobster/services/metadata 2026-01-13T17:25:11,147 copying lobster/services/metadata/manual_annotation_service.py -> build/lib/lobster/services/metadata 2026-01-13T17:25:11,151 copying lobster/services/metadata/metadata_validation_service.py -> build/lib/lobster/services/metadata 2026-01-13T17:25:11,154 copying lobster/services/metadata/__init__.py -> build/lib/lobster/services/metadata 2026-01-13T17:25:11,155 copying lobster/services/metadata/identifier_provenance_service.py -> build/lib/lobster/services/metadata 2026-01-13T17:25:11,158 copying lobster/services/metadata/sample_grouping_service.py -> build/lib/lobster/services/metadata 2026-01-13T17:25:11,161 copying lobster/services/metadata/metadata_standardization_service.py -> build/lib/lobster/services/metadata 2026-01-13T17:25:11,165 creating build/lib/lobster/services/orchestration 2026-01-13T17:25:11,166 copying lobster/services/orchestration/__init__.py -> build/lib/lobster/services/orchestration 2026-01-13T17:25:11,168 copying lobster/services/orchestration/publication_processing_service.py -> build/lib/lobster/services/orchestration 2026-01-13T17:25:11,174 creating build/lib/lobster/services/ml 2026-01-13T17:25:11,176 copying lobster/services/ml/__init__.py -> build/lib/lobster/services/ml 2026-01-13T17:25:11,178 creating build/lib/lobster/services/analysis 2026-01-13T17:25:11,180 copying lobster/services/analysis/enhanced_singlecell_service.py -> build/lib/lobster/services/analysis 2026-01-13T17:25:11,184 copying lobster/services/analysis/scvi_embedding_service.py -> build/lib/lobster/services/analysis 2026-01-13T17:25:11,186 copying lobster/services/analysis/differential_formula_service.py -> build/lib/lobster/services/analysis 2026-01-13T17:25:11,190 copying lobster/services/analysis/structure_analysis_service.py -> build/lib/lobster/services/analysis 2026-01-13T17:25:11,192 copying lobster/services/analysis/bulk_rnaseq_service.py -> build/lib/lobster/services/analysis 2026-01-13T17:25:11,196 copying lobster/services/analysis/clustering_service.py -> build/lib/lobster/services/analysis 2026-01-13T17:25:11,200 copying lobster/services/analysis/__init__.py -> build/lib/lobster/services/analysis 2026-01-13T17:25:11,201 copying lobster/services/analysis/pseudobulk_service.py -> build/lib/lobster/services/analysis 2026-01-13T17:25:11,205 creating build/lib/lobster/services/visualization 2026-01-13T17:25:11,206 copying lobster/services/visualization/visualization_service.py -> build/lib/lobster/services/visualization 2026-01-13T17:25:11,209 copying lobster/services/visualization/pymol_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-13T17:25:11,212 copying lobster/services/visualization/__init__.py -> build/lib/lobster/services/visualization 2026-01-13T17:25:11,214 copying lobster/services/visualization/bulk_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-13T17:25:11,218 creating build/lib/lobster/services/quality 2026-01-13T17:25:11,219 copying lobster/services/quality/quality_service.py -> build/lib/lobster/services/quality 2026-01-13T17:25:11,223 copying lobster/services/quality/preprocessing_service.py -> build/lib/lobster/services/quality 2026-01-13T17:25:11,228 copying lobster/services/quality/__init__.py -> build/lib/lobster/services/quality 2026-01-13T17:25:11,230 creating build/lib/lobster/services/data_access 2026-01-13T17:25:11,231 copying lobster/services/data_access/pride_download_service.py -> build/lib/lobster/services/data_access 2026-01-13T17:25:11,234 copying lobster/services/data_access/geo_fallback_service.py -> build/lib/lobster/services/data_access 2026-01-13T17:25:11,237 copying lobster/services/data_access/massive_download_service.py -> build/lib/lobster/services/data_access 2026-01-13T17:25:11,241 copying lobster/services/data_access/docling_service.py -> build/lib/lobster/services/data_access 2026-01-13T17:25:11,244 copying lobster/services/data_access/__init__.py -> build/lib/lobster/services/data_access 2026-01-13T17:25:11,246 copying lobster/services/data_access/content_access_service.py -> build/lib/lobster/services/data_access 2026-01-13T17:25:11,250 copying lobster/services/data_access/geo_download_service.py -> build/lib/lobster/services/data_access 2026-01-13T17:25:11,253 copying lobster/services/data_access/workspace_content_service.py -> build/lib/lobster/services/data_access 2026-01-13T17:25:11,256 copying lobster/services/data_access/protein_structure_fetch_service.py -> build/lib/lobster/services/data_access 2026-01-13T17:25:11,259 copying lobster/services/data_access/sra_download_service.py -> build/lib/lobster/services/data_access 2026-01-13T17:25:11,263 copying lobster/services/data_access/geo_service.py -> build/lib/lobster/services/data_access 2026-01-13T17:25:11,276 creating build/lib/lobster/services/templates 2026-01-13T17:25:11,277 copying lobster/services/templates/annotation_templates.py -> build/lib/lobster/services/templates 2026-01-13T17:25:11,281 copying lobster/services/templates/__init__.py -> build/lib/lobster/services/templates 2026-01-13T17:25:11,283 creating build/lib/lobster/services/execution 2026-01-13T17:25:11,284 copying lobster/services/execution/execution_context_builder.py -> build/lib/lobster/services/execution 2026-01-13T17:25:11,287 copying lobster/services/execution/custom_code_execution_service.py -> build/lib/lobster/services/execution 2026-01-13T17:25:11,292 copying lobster/services/execution/__init__.py -> build/lib/lobster/services/execution 2026-01-13T17:25:11,294 creating build/lib/lobster/services/metadata/protocol_extraction 2026-01-13T17:25:11,295 copying lobster/services/metadata/protocol_extraction/base.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-13T17:25:11,297 copying lobster/services/metadata/protocol_extraction/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-13T17:25:11,300 creating build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-13T17:25:11,301 copying lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-13T17:25:11,303 copying lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-13T17:25:11,305 copying lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-13T17:25:11,308 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-13T17:25:11,309 copying lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-13T17:25:11,312 copying lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-13T17:25:11,314 copying lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-13T17:25:11,317 creating build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-13T17:25:11,318 copying lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-13T17:25:11,320 copying lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-13T17:25:11,322 copying lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-13T17:25:11,325 creating build/lib/lobster/services/data_access/geo 2026-01-13T17:25:11,326 copying lobster/services/data_access/geo/parser.py -> build/lib/lobster/services/data_access/geo 2026-01-13T17:25:11,331 copying lobster/services/data_access/geo/facade.py -> build/lib/lobster/services/data_access/geo 2026-01-13T17:25:11,333 copying lobster/services/data_access/geo/__init__.py -> build/lib/lobster/services/data_access/geo 2026-01-13T17:25:11,335 copying lobster/services/data_access/geo/downloader.py -> build/lib/lobster/services/data_access/geo 2026-01-13T17:25:11,339 copying lobster/services/data_access/geo/strategy.py -> build/lib/lobster/services/data_access/geo 2026-01-13T17:25:11,341 copying lobster/services/data_access/geo/constants.py -> build/lib/lobster/services/data_access/geo 2026-01-13T17:25:11,345 creating build/lib/lobster/services/data_access/geo/metadata 2026-01-13T17:25:11,346 copying lobster/services/data_access/geo/metadata/__init__.py -> build/lib/lobster/services/data_access/geo/metadata 2026-01-13T17:25:11,348 creating build/lib/lobster/services/data_access/geo/utils 2026-01-13T17:25:11,350 copying lobster/services/data_access/geo/utils/__init__.py -> build/lib/lobster/services/data_access/geo/utils 2026-01-13T17:25:11,352 creating build/lib/lobster/services/data_access/geo/sample 2026-01-13T17:25:11,353 copying lobster/services/data_access/geo/sample/__init__.py -> build/lib/lobster/services/data_access/geo/sample 2026-01-13T17:25:11,356 creating build/lib/lobster/services/data_access/geo/loaders 2026-01-13T17:25:11,357 copying lobster/services/data_access/geo/loaders/__init__.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-13T17:25:11,359 copying lobster/services/data_access/geo/loaders/tenx.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-13T17:25:11,363 creating build/lib/lobster/agents/data_expert 2026-01-13T17:25:11,364 copying lobster/agents/data_expert/assistant.py -> build/lib/lobster/agents/data_expert 2026-01-13T17:25:11,367 copying lobster/agents/data_expert/config.py -> build/lib/lobster/agents/data_expert 2026-01-13T17:25:11,370 copying lobster/agents/data_expert/data_expert.py -> build/lib/lobster/agents/data_expert 2026-01-13T17:25:11,374 copying lobster/agents/data_expert/state.py -> build/lib/lobster/agents/data_expert 2026-01-13T17:25:11,375 copying lobster/agents/data_expert/__init__.py -> build/lib/lobster/agents/data_expert 2026-01-13T17:25:11,377 copying lobster/agents/data_expert/prompts.py -> build/lib/lobster/agents/data_expert 2026-01-13T17:25:11,380 creating build/lib/lobster/agents/research 2026-01-13T17:25:11,381 copying lobster/agents/research/config.py -> build/lib/lobster/agents/research 2026-01-13T17:25:11,383 copying lobster/agents/research/state.py -> build/lib/lobster/agents/research 2026-01-13T17:25:11,385 copying lobster/agents/research/__init__.py -> build/lib/lobster/agents/research 2026-01-13T17:25:11,387 copying lobster/agents/research/research_agent.py -> build/lib/lobster/agents/research 2026-01-13T17:25:11,394 copying lobster/agents/research/prompts.py -> build/lib/lobster/agents/research 2026-01-13T17:25:11,397 creating build/lib/lobster/agents/proteomics 2026-01-13T17:25:11,398 copying lobster/agents/proteomics/state.py -> build/lib/lobster/agents/proteomics 2026-01-13T17:25:11,400 copying lobster/agents/proteomics/__init__.py -> build/lib/lobster/agents/proteomics 2026-01-13T17:25:11,403 creating build/lib/lobster/agents/transcriptomics 2026-01-13T17:25:11,404 copying lobster/agents/transcriptomics/transcriptomics_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-13T17:25:11,409 copying lobster/agents/transcriptomics/de_analysis_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-13T17:25:11,414 copying lobster/agents/transcriptomics/shared_tools.py -> build/lib/lobster/agents/transcriptomics 2026-01-13T17:25:11,417 copying lobster/agents/transcriptomics/config.py -> build/lib/lobster/agents/transcriptomics 2026-01-13T17:25:11,419 copying lobster/agents/transcriptomics/state.py -> build/lib/lobster/agents/transcriptomics 2026-01-13T17:25:11,421 copying lobster/agents/transcriptomics/__init__.py -> build/lib/lobster/agents/transcriptomics 2026-01-13T17:25:11,423 copying lobster/agents/transcriptomics/prompts.py -> build/lib/lobster/agents/transcriptomics 2026-01-13T17:25:11,425 copying lobster/agents/transcriptomics/annotation_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-13T17:25:11,429 creating build/lib/lobster/agents/archive 2026-01-13T17:25:11,430 copying lobster/agents/archive/research_agent_assistant.py -> build/lib/lobster/agents/archive 2026-01-13T17:25:11,433 creating build/lib/lobster/agents/langgraph_supervisor 2026-01-13T17:25:11,434 copying lobster/agents/langgraph_supervisor/handoff.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-13T17:25:11,437 copying lobster/agents/langgraph_supervisor/agent_name.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-13T17:25:11,439 copying lobster/agents/langgraph_supervisor/__init__.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-13T17:25:11,441 copying lobster/agents/langgraph_supervisor/supervisor.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-13T17:25:11,444 running egg_info 2026-01-13T17:25:11,455 writing lobster_ai.egg-info/PKG-INFO 2026-01-13T17:25:11,485 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-13T17:25:11,487 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-13T17:25:11,506 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-13T17:25:11,508 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-13T17:25:11,639 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-13T17:25:11,655 adding license file 'LICENSE' 2026-01-13T17:25:11,670 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-13T17:25:11,769 copying lobster/config/disease_ontology.json -> build/lib/lobster/config 2026-01-13T17:25:11,772 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-13T17:25:11,773 copying lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-13T17:25:11,812 installing to build/bdist.linux-armv7l/wheel 2026-01-13T17:25:11,813 running install 2026-01-13T17:25:11,837 running install_lib 2026-01-13T17:25:11,843 creating build/bdist.linux-armv7l/wheel 2026-01-13T17:25:11,845 creating build/bdist.linux-armv7l/wheel/lobster 2026-01-13T17:25:11,847 creating build/bdist.linux-armv7l/wheel/lobster/config 2026-01-13T17:25:11,849 creating build/bdist.linux-armv7l/wheel/lobster/config/providers 2026-01-13T17:25:11,850 copying build/lib/lobster/config/providers/ollama_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-13T17:25:11,853 copying build/lib/lobster/config/providers/bedrock_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-13T17:25:11,856 copying build/lib/lobster/config/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-13T17:25:11,858 copying build/lib/lobster/config/providers/registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-13T17:25:11,860 copying build/lib/lobster/config/providers/gemini_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-13T17:25:11,863 copying build/lib/lobster/config/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-13T17:25:11,865 copying build/lib/lobster/config/providers/anthropic_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-13T17:25:11,868 copying build/lib/lobster/config/supervisor_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,870 copying build/lib/lobster/config/agent_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,873 copying build/lib/lobster/config/ollama_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,876 copying build/lib/lobster/config/workspace_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,878 copying build/lib/lobster/config/base_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,880 copying build/lib/lobster/config/ssl_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,883 copying build/lib/lobster/config/version_check.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,885 copying build/lib/lobster/config/llm_factory.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,888 copying build/lib/lobster/config/global_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,890 copying build/lib/lobster/config/provider_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,893 copying build/lib/lobster/config/config_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,895 copying build/lib/lobster/config/agent_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,898 copying build/lib/lobster/config/model_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,901 copying build/lib/lobster/config/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,903 copying build/lib/lobster/config/settings.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,905 copying build/lib/lobster/config/agent_capabilities.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,908 copying build/lib/lobster/config/disease_ontology.json -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,910 copying build/lib/lobster/config/subscription_tiers.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,912 copying build/lib/lobster/config/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-13T17:25:11,914 copying build/lib/lobster/version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-13T17:25:11,917 creating build/bdist.linux-armv7l/wheel/lobster/utils 2026-01-13T17:25:11,918 copying build/lib/lobster/utils/system.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-13T17:25:11,920 copying build/lib/lobster/utils/callbacks.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-13T17:25:11,923 copying build/lib/lobster/utils/json_extractor.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-13T17:25:11,926 copying build/lib/lobster/utils/file_analyzer.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-13T17:25:11,929 copying build/lib/lobster/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-13T17:25:11,931 copying build/lib/lobster/utils/ssl_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-13T17:25:11,933 copying build/lib/lobster/utils/error_handlers.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-13T17:25:11,936 copying build/lib/lobster/utils/file_naming.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-13T17:25:11,938 copying build/lib/lobster/utils/logger.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-13T17:25:11,940 copying build/lib/lobster/utils/deviance.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-13T17:25:11,942 copying build/lib/lobster/utils/progress_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-13T17:25:11,945 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal 2026-01-13T17:25:11,947 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/utils 2026-01-13T17:25:11,948 copying build/lib/lobster/cli_internal/utils/path_resolution.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-13T17:25:11,951 copying build/lib/lobster/cli_internal/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-13T17:25:11,953 copying build/lib/lobster/cli_internal/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal 2026-01-13T17:25:11,955 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands 2026-01-13T17:25:11,956 copying build/lib/lobster/cli_internal/commands/output_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-13T17:25:11,959 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/heavy 2026-01-13T17:25:11,961 copying build/lib/lobster/cli_internal/commands/heavy/visualization_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-13T17:25:11,963 copying build/lib/lobster/cli_internal/commands/heavy/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-13T17:25:11,965 copying build/lib/lobster/cli_internal/commands/heavy/modality_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-13T17:25:11,968 copying build/lib/lobster/cli_internal/commands/heavy/data_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-13T17:25:11,971 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/light 2026-01-13T17:25:11,973 copying build/lib/lobster/cli_internal/commands/light/workspace_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-13T17:25:11,976 copying build/lib/lobster/cli_internal/commands/light/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-13T17:25:11,978 copying build/lib/lobster/cli_internal/commands/light/pipeline_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-13T17:25:11,981 copying build/lib/lobster/cli_internal/commands/light/queue_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-13T17:25:11,984 copying build/lib/lobster/cli_internal/commands/light/config_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-13T17:25:11,987 copying build/lib/lobster/cli_internal/commands/light/metadata_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-13T17:25:11,990 copying build/lib/lobster/cli_internal/commands/light/file_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-13T17:25:11,992 copying build/lib/lobster/cli_internal/commands/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-13T17:25:11,995 copying build/lib/lobster/_version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-13T17:25:11,997 copying build/lib/lobster/__main__.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-13T17:25:11,999 creating build/bdist.linux-armv7l/wheel/lobster/lobster_cloud 2026-01-13T17:25:12,000 copying build/lib/lobster/lobster_cloud/client.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-13T17:25:12,003 copying build/lib/lobster/lobster_cloud/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-13T17:25:12,005 copying build/lib/lobster/cli.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-13T17:25:12,015 creating build/bdist.linux-armv7l/wheel/lobster/tools 2026-01-13T17:25:12,017 creating build/bdist.linux-armv7l/wheel/lobster/tools/providers 2026-01-13T17:25:12,019 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,023 copying build/lib/lobster/tools/providers/geo_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,027 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_config.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,029 copying build/lib/lobster/tools/providers/organism_enum.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,031 copying build/lib/lobster/tools/providers/publication_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,034 copying build/lib/lobster/tools/providers/pride_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,037 copying build/lib/lobster/tools/providers/webpage_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,040 copying build/lib/lobster/tools/providers/massive_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,043 copying build/lib/lobster/tools/providers/ncbi_query_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,045 copying build/lib/lobster/tools/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,047 copying build/lib/lobster/tools/providers/pdb_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,050 copying build/lib/lobster/tools/providers/pmc_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,054 copying build/lib/lobster/tools/providers/biopython_entrez_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,057 copying build/lib/lobster/tools/providers/abstract_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,059 copying build/lib/lobster/tools/providers/pride_normalizer.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,062 copying build/lib/lobster/tools/providers/geo_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,065 copying build/lib/lobster/tools/providers/structure_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,067 copying build/lib/lobster/tools/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,070 copying build/lib/lobster/tools/providers/pubmed_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,074 copying build/lib/lobster/tools/providers/provider_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,077 copying build/lib/lobster/tools/providers/sra_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-13T17:25:12,081 copying build/lib/lobster/tools/expert_handoff_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,083 copying build/lib/lobster/tools/gpu_detector.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,086 copying build/lib/lobster/tools/geo_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,088 copying build/lib/lobster/tools/download_orchestrator.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,091 copying build/lib/lobster/tools/workflow_tracker.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,094 copying build/lib/lobster/tools/todo_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,096 copying build/lib/lobster/tools/custom_code_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,099 copying build/lib/lobster/tools/rate_limiter.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,102 copying build/lib/lobster/tools/expert_handoff_patterns.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,104 copying build/lib/lobster/tools/pipeline_strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,106 copying build/lib/lobster/tools/geo_downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,108 copying build/lib/lobster/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,110 copying build/lib/lobster/tools/enhanced_handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,113 copying build/lib/lobster/tools/handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,115 creating build/bdist.linux-armv7l/wheel/lobster/tools/archive 2026-01-13T17:25:12,117 copying build/lib/lobster/tools/archive/unified_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-13T17:25:12,119 copying build/lib/lobster/tools/archive/publication_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-13T17:25:12,122 copying build/lib/lobster/tools/url_transforms.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,124 copying build/lib/lobster/tools/workspace_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-13T17:25:12,129 creating build/bdist.linux-armv7l/wheel/lobster/core 2026-01-13T17:25:12,130 copying build/lib/lobster/core/notebook_validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,133 creating build/bdist.linux-armv7l/wheel/lobster/core/identifiers 2026-01-13T17:25:12,135 copying build/lib/lobster/core/identifiers/accession_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-13T17:25:12,137 copying build/lib/lobster/core/identifiers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-13T17:25:12,139 copying build/lib/lobster/core/ir_coverage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,142 copying build/lib/lobster/core/exceptions.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,144 copying build/lib/lobster/core/plugin_loader.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,147 copying build/lib/lobster/core/provenance.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,149 copying build/lib/lobster/core/client.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,154 creating build/bdist.linux-armv7l/wheel/lobster/core/backends 2026-01-13T17:25:12,155 copying build/lib/lobster/core/backends/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-13T17:25:12,158 copying build/lib/lobster/core/backends/h5ad_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-13T17:25:12,161 copying build/lib/lobster/core/backends/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-13T17:25:12,163 copying build/lib/lobster/core/backends/mudata_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-13T17:25:12,166 creating build/bdist.linux-armv7l/wheel/lobster/core/adapters 2026-01-13T17:25:12,167 copying build/lib/lobster/core/adapters/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-13T17:25:12,170 copying build/lib/lobster/core/adapters/pseudobulk_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-13T17:25:12,172 copying build/lib/lobster/core/adapters/proteomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-13T17:25:12,175 copying build/lib/lobster/core/adapters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-13T17:25:12,177 copying build/lib/lobster/core/adapters/protein_structure_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-13T17:25:12,180 copying build/lib/lobster/core/adapters/transcriptomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-13T17:25:12,183 creating build/bdist.linux-armv7l/wheel/lobster/core/schemas 2026-01-13T17:25:12,184 copying build/lib/lobster/core/schemas/database_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,187 copying build/lib/lobster/core/schemas/export_schemas.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,190 copying build/lib/lobster/core/schemas/validation.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,192 copying build/lib/lobster/core/schemas/transcriptomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,196 copying build/lib/lobster/core/schemas/metagenomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,200 copying build/lib/lobster/core/schemas/metabolomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,202 copying build/lib/lobster/core/schemas/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,205 copying build/lib/lobster/core/schemas/ontology.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,207 copying build/lib/lobster/core/schemas/protein_structure.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,209 copying build/lib/lobster/core/schemas/download_urls.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,212 copying build/lib/lobster/core/schemas/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,214 copying build/lib/lobster/core/schemas/sra.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,217 copying build/lib/lobster/core/schemas/database_mappings.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,219 copying build/lib/lobster/core/schemas/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,222 copying build/lib/lobster/core/schemas/proteomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-13T17:25:12,225 copying build/lib/lobster/core/data_manager_v2.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,229 copying build/lib/lobster/core/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,232 creating build/bdist.linux-armv7l/wheel/lobster/core/utils 2026-01-13T17:25:12,233 copying build/lib/lobster/core/utils/h5ad_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-13T17:25:12,236 copying build/lib/lobster/core/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-13T17:25:12,238 copying build/lib/lobster/core/plot_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,241 copying build/lib/lobster/core/archive_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,244 copying build/lib/lobster/core/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,245 copying build/lib/lobster/core/analysis_ir.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,249 creating build/bdist.linux-armv7l/wheel/lobster/core/interfaces 2026-01-13T17:25:12,250 copying build/lib/lobster/core/interfaces/adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-13T17:25:12,252 copying build/lib/lobster/core/interfaces/validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-13T17:25:12,254 copying build/lib/lobster/core/interfaces/base_client.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-13T17:25:12,257 copying build/lib/lobster/core/interfaces/backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-13T17:25:12,259 copying build/lib/lobster/core/interfaces/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-13T17:25:12,261 copying build/lib/lobster/core/interfaces/download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-13T17:25:12,264 copying build/lib/lobster/core/config_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,266 copying build/lib/lobster/core/notebook_exporter.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,269 copying build/lib/lobster/core/license_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,272 copying build/lib/lobster/core/component_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,274 copying build/lib/lobster/core/notebook_executor.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,277 copying build/lib/lobster/core/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,279 copying build/lib/lobster/core/queue_storage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,281 copying build/lib/lobster/core/ris_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,284 copying build/lib/lobster/core/workspace.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-13T17:25:12,287 creating build/bdist.linux-armv7l/wheel/lobster/ui 2026-01-13T17:25:12,288 copying build/lib/lobster/ui/console_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-13T17:25:12,291 creating build/bdist.linux-armv7l/wheel/lobster/ui/widgets 2026-01-13T17:25:12,292 copying build/lib/lobster/ui/widgets/query_prompt.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,294 copying build/lib/lobster/ui/widgets/error_modal.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,297 copying build/lib/lobster/ui/widgets/chat_message.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,299 copying build/lib/lobster/ui/widgets/queue_status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,301 copying build/lib/lobster/ui/widgets/activity_log.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,304 copying build/lib/lobster/ui/widgets/results_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,306 copying build/lib/lobster/ui/widgets/connections_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,308 copying build/lib/lobster/ui/widgets/data_hub.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,310 copying build/lib/lobster/ui/widgets/token_usage_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,313 copying build/lib/lobster/ui/widgets/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,314 copying build/lib/lobster/ui/widgets/agents_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,317 copying build/lib/lobster/ui/widgets/adapters_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,319 copying build/lib/lobster/ui/widgets/plot_preview.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,321 copying build/lib/lobster/ui/widgets/queue_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,324 copying build/lib/lobster/ui/widgets/system_info.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,326 copying build/lib/lobster/ui/widgets/modality_list.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,328 copying build/lib/lobster/ui/widgets/status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-13T17:25:12,330 copying build/lib/lobster/ui/progress_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-13T17:25:12,333 copying build/lib/lobster/ui/live_dashboard.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-13T17:25:12,336 creating build/bdist.linux-armv7l/wheel/lobster/ui/callbacks 2026-01-13T17:25:12,337 copying build/lib/lobster/ui/callbacks/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-13T17:25:12,339 copying build/lib/lobster/ui/callbacks/textual_callback.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-13T17:25:12,342 copying build/lib/lobster/ui/themes.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-13T17:25:12,344 copying build/lib/lobster/ui/os_app.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-13T17:25:12,347 creating build/bdist.linux-armv7l/wheel/lobster/ui/screens 2026-01-13T17:25:12,348 copying build/lib/lobster/ui/screens/analysis_screen.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-13T17:25:12,351 copying build/lib/lobster/ui/screens/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-13T17:25:12,353 copying build/lib/lobster/ui/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-13T17:25:12,355 copying build/lib/lobster/ui/commands.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-13T17:25:12,358 creating build/bdist.linux-armv7l/wheel/lobster/ui/formatters 2026-01-13T17:25:12,359 copying build/lib/lobster/ui/formatters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/formatters 2026-01-13T17:25:12,362 creating build/bdist.linux-armv7l/wheel/lobster/ui/services 2026-01-13T17:25:12,363 copying build/lib/lobster/ui/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-13T17:25:12,365 copying build/lib/lobster/ui/services/error_service.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-13T17:25:12,368 creating build/bdist.linux-armv7l/wheel/lobster/ui/components 2026-01-13T17:25:12,369 copying build/lib/lobster/ui/components/status_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-13T17:25:12,372 copying build/lib/lobster/ui/components/multi_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-13T17:25:12,375 copying build/lib/lobster/ui/components/file_tree.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-13T17:25:12,377 copying build/lib/lobster/ui/components/parallel_workers_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-13T17:25:12,380 copying build/lib/lobster/ui/components/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-13T17:25:12,382 copying build/lib/lobster/main.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-13T17:25:12,384 creating build/bdist.linux-armv7l/wheel/lobster/services 2026-01-13T17:25:12,386 creating build/bdist.linux-armv7l/wheel/lobster/services/data_management 2026-01-13T17:25:12,387 copying build/lib/lobster/services/data_management/modality_detection_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-13T17:25:12,390 copying build/lib/lobster/services/data_management/concatenation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-13T17:25:12,393 copying build/lib/lobster/services/data_management/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-13T17:25:12,395 copying build/lib/lobster/services/data_management/modality_management_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-13T17:25:12,398 copying build/lib/lobster/services/data_management/strategy_recommendation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-13T17:25:12,401 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata 2026-01-13T17:25:12,402 copying build/lib/lobster/services/metadata/manual_annotation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-13T17:25:12,405 copying build/lib/lobster/services/metadata/metadata_validation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-13T17:25:12,407 copying build/lib/lobster/services/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-13T17:25:12,409 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction 2026-01-13T17:25:12,410 copying build/lib/lobster/services/metadata/protocol_extraction/base.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-13T17:25:12,413 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-13T17:25:12,414 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-13T17:25:12,416 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-13T17:25:12,419 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-13T17:25:12,421 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon 2026-01-13T17:25:12,423 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-13T17:25:12,424 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-13T17:25:12,426 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-13T17:25:12,429 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-13T17:25:12,431 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-13T17:25:12,434 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-13T17:25:12,435 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-13T17:25:12,438 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-13T17:25:12,439 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-13T17:25:12,441 copying build/lib/lobster/services/metadata/protocol_extraction/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-13T17:25:12,443 copying build/lib/lobster/services/metadata/identifier_provenance_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-13T17:25:12,446 copying build/lib/lobster/services/metadata/sample_grouping_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-13T17:25:12,448 copying build/lib/lobster/services/metadata/metadata_standardization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-13T17:25:12,452 creating build/bdist.linux-armv7l/wheel/lobster/services/orchestration 2026-01-13T17:25:12,453 copying build/lib/lobster/services/orchestration/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-13T17:25:12,454 copying build/lib/lobster/services/orchestration/publication_processing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-13T17:25:12,459 creating build/bdist.linux-armv7l/wheel/lobster/services/ml 2026-01-13T17:25:12,461 copying build/lib/lobster/services/ml/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/ml 2026-01-13T17:25:12,463 copying build/lib/lobster/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services 2026-01-13T17:25:12,465 creating build/bdist.linux-armv7l/wheel/lobster/services/analysis 2026-01-13T17:25:12,466 copying build/lib/lobster/services/analysis/enhanced_singlecell_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-13T17:25:12,470 copying build/lib/lobster/services/analysis/scvi_embedding_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-13T17:25:12,472 copying build/lib/lobster/services/analysis/differential_formula_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-13T17:25:12,475 copying build/lib/lobster/services/analysis/structure_analysis_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-13T17:25:12,478 copying build/lib/lobster/services/analysis/bulk_rnaseq_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-13T17:25:12,482 copying build/lib/lobster/services/analysis/clustering_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-13T17:25:12,487 copying build/lib/lobster/services/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-13T17:25:12,489 copying build/lib/lobster/services/analysis/pseudobulk_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-13T17:25:12,492 creating build/bdist.linux-armv7l/wheel/lobster/services/visualization 2026-01-13T17:25:12,493 copying build/lib/lobster/services/visualization/visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-13T17:25:12,497 copying build/lib/lobster/services/visualization/pymol_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-13T17:25:12,500 copying build/lib/lobster/services/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-13T17:25:12,502 copying build/lib/lobster/services/visualization/bulk_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-13T17:25:12,505 creating build/bdist.linux-armv7l/wheel/lobster/services/quality 2026-01-13T17:25:12,506 copying build/lib/lobster/services/quality/quality_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-13T17:25:12,509 copying build/lib/lobster/services/quality/preprocessing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-13T17:25:12,512 copying build/lib/lobster/services/quality/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-13T17:25:12,514 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access 2026-01-13T17:25:12,515 copying build/lib/lobster/services/data_access/pride_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-13T17:25:12,518 copying build/lib/lobster/services/data_access/geo_fallback_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-13T17:25:12,521 copying build/lib/lobster/services/data_access/massive_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-13T17:25:12,524 copying build/lib/lobster/services/data_access/docling_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-13T17:25:12,527 copying build/lib/lobster/services/data_access/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-13T17:25:12,529 copying build/lib/lobster/services/data_access/content_access_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-13T17:25:12,533 copying build/lib/lobster/services/data_access/geo_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-13T17:25:12,535 copying build/lib/lobster/services/data_access/workspace_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-13T17:25:12,539 copying build/lib/lobster/services/data_access/protein_structure_fetch_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-13T17:25:12,542 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo 2026-01-13T17:25:12,544 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/metadata 2026-01-13T17:25:12,545 copying build/lib/lobster/services/data_access/geo/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/metadata 2026-01-13T17:25:12,548 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/utils 2026-01-13T17:25:12,549 copying build/lib/lobster/services/data_access/geo/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/utils 2026-01-13T17:25:12,551 copying build/lib/lobster/services/data_access/geo/parser.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-13T17:25:12,555 copying build/lib/lobster/services/data_access/geo/facade.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-13T17:25:12,557 copying build/lib/lobster/services/data_access/geo/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-13T17:25:12,560 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/sample 2026-01-13T17:25:12,562 copying build/lib/lobster/services/data_access/geo/sample/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/sample 2026-01-13T17:25:12,564 copying build/lib/lobster/services/data_access/geo/downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-13T17:25:12,568 copying build/lib/lobster/services/data_access/geo/strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-13T17:25:12,571 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/loaders 2026-01-13T17:25:12,573 copying build/lib/lobster/services/data_access/geo/loaders/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-13T17:25:12,575 copying build/lib/lobster/services/data_access/geo/loaders/tenx.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-13T17:25:12,578 copying build/lib/lobster/services/data_access/geo/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-13T17:25:12,581 copying build/lib/lobster/services/data_access/sra_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-13T17:25:12,585 copying build/lib/lobster/services/data_access/geo_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-13T17:25:12,594 creating build/bdist.linux-armv7l/wheel/lobster/services/templates 2026-01-13T17:25:12,595 copying build/lib/lobster/services/templates/annotation_templates.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-13T17:25:12,599 copying build/lib/lobster/services/templates/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-13T17:25:12,601 creating build/bdist.linux-armv7l/wheel/lobster/services/execution 2026-01-13T17:25:12,602 copying build/lib/lobster/services/execution/execution_context_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-13T17:25:12,605 copying build/lib/lobster/services/execution/custom_code_execution_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-13T17:25:12,609 copying build/lib/lobster/services/execution/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-13T17:25:12,612 creating build/bdist.linux-armv7l/wheel/lobster/agents 2026-01-13T17:25:12,614 copying build/lib/lobster/agents/draw_graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-13T17:25:12,616 copying build/lib/lobster/agents/graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-13T17:25:12,620 creating build/bdist.linux-armv7l/wheel/lobster/agents/data_expert 2026-01-13T17:25:12,621 copying build/lib/lobster/agents/data_expert/assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/data_expert 2026-01-13T17:25:12,625 copying build/lib/lobster/agents/data_expert/config.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/data_expert 2026-01-13T17:25:12,628 copying build/lib/lobster/agents/data_expert/data_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/data_expert 2026-01-13T17:25:12,632 copying build/lib/lobster/agents/data_expert/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/data_expert 2026-01-13T17:25:12,634 copying build/lib/lobster/agents/data_expert/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/data_expert 2026-01-13T17:25:12,636 copying build/lib/lobster/agents/data_expert/prompts.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/data_expert 2026-01-13T17:25:12,640 creating build/bdist.linux-armv7l/wheel/lobster/agents/research 2026-01-13T17:25:12,642 copying build/lib/lobster/agents/research/config.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/research 2026-01-13T17:25:12,644 copying build/lib/lobster/agents/research/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/research 2026-01-13T17:25:12,647 copying build/lib/lobster/agents/research/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/research 2026-01-13T17:25:12,650 copying build/lib/lobster/agents/research/research_agent.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/research 2026-01-13T17:25:12,655 copying build/lib/lobster/agents/research/prompts.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/research 2026-01-13T17:25:12,659 copying build/lib/lobster/agents/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-13T17:25:12,662 creating build/bdist.linux-armv7l/wheel/lobster/agents/proteomics 2026-01-13T17:25:12,663 copying build/lib/lobster/agents/proteomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-13T17:25:12,666 copying build/lib/lobster/agents/proteomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-13T17:25:12,668 copying build/lib/lobster/agents/visualization_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-13T17:25:12,672 creating build/bdist.linux-armv7l/wheel/lobster/agents/transcriptomics 2026-01-13T17:25:12,673 copying build/lib/lobster/agents/transcriptomics/transcriptomics_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-13T17:25:12,676 copying build/lib/lobster/agents/transcriptomics/de_analysis_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-13T17:25:12,681 copying build/lib/lobster/agents/transcriptomics/shared_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-13T17:25:12,684 copying build/lib/lobster/agents/transcriptomics/config.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-13T17:25:12,687 copying build/lib/lobster/agents/transcriptomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-13T17:25:12,689 copying build/lib/lobster/agents/transcriptomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-13T17:25:12,691 copying build/lib/lobster/agents/transcriptomics/prompts.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-13T17:25:12,694 copying build/lib/lobster/agents/transcriptomics/annotation_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-13T17:25:12,698 creating build/bdist.linux-armv7l/wheel/lobster/agents/archive 2026-01-13T17:25:12,700 copying build/lib/lobster/agents/archive/research_agent_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/archive 2026-01-13T17:25:12,703 copying build/lib/lobster/agents/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-13T17:25:12,706 creating build/bdist.linux-armv7l/wheel/lobster/agents/langgraph_supervisor 2026-01-13T17:25:12,708 copying build/lib/lobster/agents/langgraph_supervisor/handoff.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-13T17:25:12,711 copying build/lib/lobster/agents/langgraph_supervisor/agent_name.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-13T17:25:12,713 copying build/lib/lobster/agents/langgraph_supervisor/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-13T17:25:12,716 copying build/lib/lobster/agents/langgraph_supervisor/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-13T17:25:12,719 running install_egg_info 2026-01-13T17:25:12,725 Copying lobster_ai.egg-info to build/bdist.linux-armv7l/wheel/./lobster_ai-0.4.3.9-py3.11.egg-info 2026-01-13T17:25:12,739 running install_scripts 2026-01-13T17:25:12,754 creating build/bdist.linux-armv7l/wheel/lobster_ai-0.4.3.9.dist-info/WHEEL 2026-01-13T17:25:12,758 creating '/tmp/pip-wheel-0ph_6jy6/.tmp-hj97nkm3/lobster_ai-0.4.3.9-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-01-13T17:25:12,761 adding 'lobster/__main__.py' 2026-01-13T17:25:12,762 adding 'lobster/_version.py' 2026-01-13T17:25:12,791 adding 'lobster/cli.py' 2026-01-13T17:25:12,794 adding 'lobster/main.py' 2026-01-13T17:25:12,796 adding 'lobster/version.py' 2026-01-13T17:25:12,799 adding 'lobster/agents/draw_graph.py' 2026-01-13T17:25:12,801 adding 'lobster/agents/graph.py' 2026-01-13T17:25:12,804 adding 'lobster/agents/state.py' 2026-01-13T17:25:12,809 adding 'lobster/agents/supervisor.py' 2026-01-13T17:25:12,813 adding 'lobster/agents/visualization_expert.py' 2026-01-13T17:25:12,816 adding 'lobster/agents/archive/research_agent_assistant.py' 2026-01-13T17:25:12,819 adding 'lobster/agents/data_expert/__init__.py' 2026-01-13T17:25:12,822 adding 'lobster/agents/data_expert/assistant.py' 2026-01-13T17:25:12,825 adding 'lobster/agents/data_expert/config.py' 2026-01-13T17:25:12,831 adding 'lobster/agents/data_expert/data_expert.py' 2026-01-13T17:25:12,833 adding 'lobster/agents/data_expert/prompts.py' 2026-01-13T17:25:12,835 adding 'lobster/agents/data_expert/state.py' 2026-01-13T17:25:12,837 adding 'lobster/agents/langgraph_supervisor/__init__.py' 2026-01-13T17:25:12,839 adding 'lobster/agents/langgraph_supervisor/agent_name.py' 2026-01-13T17:25:12,841 adding 'lobster/agents/langgraph_supervisor/handoff.py' 2026-01-13T17:25:12,844 adding 'lobster/agents/langgraph_supervisor/supervisor.py' 2026-01-13T17:25:12,847 adding 'lobster/agents/proteomics/__init__.py' 2026-01-13T17:25:12,848 adding 'lobster/agents/proteomics/state.py' 2026-01-13T17:25:12,851 adding 'lobster/agents/research/__init__.py' 2026-01-13T17:25:12,852 adding 'lobster/agents/research/config.py' 2026-01-13T17:25:12,856 adding 'lobster/agents/research/prompts.py' 2026-01-13T17:25:12,867 adding 'lobster/agents/research/research_agent.py' 2026-01-13T17:25:12,870 adding 'lobster/agents/research/state.py' 2026-01-13T17:25:12,872 adding 'lobster/agents/transcriptomics/__init__.py' 2026-01-13T17:25:12,877 adding 'lobster/agents/transcriptomics/annotation_expert.py' 2026-01-13T17:25:12,879 adding 'lobster/agents/transcriptomics/config.py' 2026-01-13T17:25:12,887 adding 'lobster/agents/transcriptomics/de_analysis_expert.py' 2026-01-13T17:25:12,891 adding 'lobster/agents/transcriptomics/prompts.py' 2026-01-13T17:25:12,894 adding 'lobster/agents/transcriptomics/shared_tools.py' 2026-01-13T17:25:12,896 adding 'lobster/agents/transcriptomics/state.py' 2026-01-13T17:25:12,901 adding 'lobster/agents/transcriptomics/transcriptomics_expert.py' 2026-01-13T17:25:12,903 adding 'lobster/cli_internal/__init__.py' 2026-01-13T17:25:12,905 adding 'lobster/cli_internal/commands/__init__.py' 2026-01-13T17:25:12,907 adding 'lobster/cli_internal/commands/output_adapter.py' 2026-01-13T17:25:12,910 adding 'lobster/cli_internal/commands/heavy/__init__.py' 2026-01-13T17:25:12,912 adding 'lobster/cli_internal/commands/heavy/data_commands.py' 2026-01-13T17:25:12,915 adding 'lobster/cli_internal/commands/heavy/modality_commands.py' 2026-01-13T17:25:12,917 adding 'lobster/cli_internal/commands/heavy/visualization_commands.py' 2026-01-13T17:25:12,920 adding 'lobster/cli_internal/commands/light/__init__.py' 2026-01-13T17:25:12,923 adding 'lobster/cli_internal/commands/light/config_commands.py' 2026-01-13T17:25:12,926 adding 'lobster/cli_internal/commands/light/file_commands.py' 2026-01-13T17:25:12,929 adding 'lobster/cli_internal/commands/light/metadata_commands.py' 2026-01-13T17:25:12,932 adding 'lobster/cli_internal/commands/light/pipeline_commands.py' 2026-01-13T17:25:12,935 adding 'lobster/cli_internal/commands/light/queue_commands.py' 2026-01-13T17:25:12,939 adding 'lobster/cli_internal/commands/light/workspace_commands.py' 2026-01-13T17:25:12,942 adding 'lobster/cli_internal/utils/__init__.py' 2026-01-13T17:25:12,944 adding 'lobster/cli_internal/utils/path_resolution.py' 2026-01-13T17:25:12,947 adding 'lobster/config/__init__.py' 2026-01-13T17:25:12,949 adding 'lobster/config/agent_capabilities.py' 2026-01-13T17:25:12,953 adding 'lobster/config/agent_config.py' 2026-01-13T17:25:12,956 adding 'lobster/config/agent_registry.py' 2026-01-13T17:25:12,958 adding 'lobster/config/base_config.py' 2026-01-13T17:25:12,960 adding 'lobster/config/config_manager.py' 2026-01-13T17:25:12,962 adding 'lobster/config/constants.py' 2026-01-13T17:25:12,964 adding 'lobster/config/disease_ontology.json' 2026-01-13T17:25:12,966 adding 'lobster/config/global_config.py' 2026-01-13T17:25:12,968 adding 'lobster/config/llm_factory.py' 2026-01-13T17:25:12,971 adding 'lobster/config/model_service.py' 2026-01-13T17:25:12,973 adding 'lobster/config/ollama_service.py' 2026-01-13T17:25:12,975 adding 'lobster/config/provider_setup.py' 2026-01-13T17:25:12,978 adding 'lobster/config/settings.py' 2026-01-13T17:25:12,981 adding 'lobster/config/ssl_setup.py' 2026-01-13T17:25:12,983 adding 'lobster/config/subscription_tiers.py' 2026-01-13T17:25:12,985 adding 'lobster/config/supervisor_config.py' 2026-01-13T17:25:12,987 adding 'lobster/config/version_check.py' 2026-01-13T17:25:12,989 adding 'lobster/config/workspace_config.py' 2026-01-13T17:25:12,991 adding 'lobster/config/providers/__init__.py' 2026-01-13T17:25:12,993 adding 'lobster/config/providers/anthropic_provider.py' 2026-01-13T17:25:12,996 adding 'lobster/config/providers/base_provider.py' 2026-01-13T17:25:12,998 adding 'lobster/config/providers/bedrock_provider.py' 2026-01-13T17:25:13,000 adding 'lobster/config/providers/gemini_provider.py' 2026-01-13T17:25:13,003 adding 'lobster/config/providers/ollama_provider.py' 2026-01-13T17:25:13,005 adding 'lobster/config/providers/registry.py' 2026-01-13T17:25:13,008 adding 'lobster/core/__init__.py' 2026-01-13T17:25:13,011 adding 'lobster/core/analysis_ir.py' 2026-01-13T17:25:13,014 adding 'lobster/core/archive_utils.py' 2026-01-13T17:25:13,025 adding 'lobster/core/client.py' 2026-01-13T17:25:13,028 adding 'lobster/core/component_registry.py' 2026-01-13T17:25:13,030 adding 'lobster/core/config_resolver.py' 2026-01-13T17:25:13,044 adding 'lobster/core/data_manager_v2.py' 2026-01-13T17:25:13,048 adding 'lobster/core/download_queue.py' 2026-01-13T17:25:13,050 adding 'lobster/core/exceptions.py' 2026-01-13T17:25:13,052 adding 'lobster/core/ir_coverage.py' 2026-01-13T17:25:13,056 adding 'lobster/core/license_manager.py' 2026-01-13T17:25:13,059 adding 'lobster/core/notebook_executor.py' 2026-01-13T17:25:13,063 adding 'lobster/core/notebook_exporter.py' 2026-01-13T17:25:13,065 adding 'lobster/core/notebook_validator.py' 2026-01-13T17:25:13,069 adding 'lobster/core/plot_manager.py' 2026-01-13T17:25:13,071 adding 'lobster/core/plugin_loader.py' 2026-01-13T17:25:13,074 adding 'lobster/core/provenance.py' 2026-01-13T17:25:13,077 adding 'lobster/core/publication_queue.py' 2026-01-13T17:25:13,079 adding 'lobster/core/queue_storage.py' 2026-01-13T17:25:13,082 adding 'lobster/core/ris_parser.py' 2026-01-13T17:25:13,084 adding 'lobster/core/workspace.py' 2026-01-13T17:25:13,086 adding 'lobster/core/adapters/__init__.py' 2026-01-13T17:25:13,089 adding 'lobster/core/adapters/base.py' 2026-01-13T17:25:13,092 adding 'lobster/core/adapters/protein_structure_adapter.py' 2026-01-13T17:25:13,096 adding 'lobster/core/adapters/proteomics_adapter.py' 2026-01-13T17:25:13,099 adding 'lobster/core/adapters/pseudobulk_adapter.py' 2026-01-13T17:25:13,103 adding 'lobster/core/adapters/transcriptomics_adapter.py' 2026-01-13T17:25:13,105 adding 'lobster/core/backends/__init__.py' 2026-01-13T17:25:13,107 adding 'lobster/core/backends/base.py' 2026-01-13T17:25:13,112 adding 'lobster/core/backends/h5ad_backend.py' 2026-01-13T17:25:13,115 adding 'lobster/core/backends/mudata_backend.py' 2026-01-13T17:25:13,117 adding 'lobster/core/identifiers/__init__.py' 2026-01-13T17:25:13,120 adding 'lobster/core/identifiers/accession_resolver.py' 2026-01-13T17:25:13,122 adding 'lobster/core/interfaces/__init__.py' 2026-01-13T17:25:13,124 adding 'lobster/core/interfaces/adapter.py' 2026-01-13T17:25:13,126 adding 'lobster/core/interfaces/backend.py' 2026-01-13T17:25:13,128 adding 'lobster/core/interfaces/base_client.py' 2026-01-13T17:25:13,131 adding 'lobster/core/interfaces/download_service.py' 2026-01-13T17:25:13,133 adding 'lobster/core/interfaces/validator.py' 2026-01-13T17:25:13,136 adding 'lobster/core/schemas/__init__.py' 2026-01-13T17:25:13,139 adding 'lobster/core/schemas/database_mappings.py' 2026-01-13T17:25:13,141 adding 'lobster/core/schemas/database_registry.py' 2026-01-13T17:25:13,144 adding 'lobster/core/schemas/download_queue.py' 2026-01-13T17:25:13,147 adding 'lobster/core/schemas/download_urls.py' 2026-01-13T17:25:13,152 adding 'lobster/core/schemas/export_schemas.py' 2026-01-13T17:25:13,157 adding 'lobster/core/schemas/metabolomics.py' 2026-01-13T17:25:13,163 adding 'lobster/core/schemas/metagenomics.py' 2026-01-13T17:25:13,165 adding 'lobster/core/schemas/ontology.py' 2026-01-13T17:25:13,168 adding 'lobster/core/schemas/protein_structure.py' 2026-01-13T17:25:13,172 adding 'lobster/core/schemas/proteomics.py' 2026-01-13T17:25:13,175 adding 'lobster/core/schemas/publication_queue.py' 2026-01-13T17:25:13,180 adding 'lobster/core/schemas/sra.py' 2026-01-13T17:25:13,188 adding 'lobster/core/schemas/transcriptomics.py' 2026-01-13T17:25:13,190 adding 'lobster/core/schemas/validation.py' 2026-01-13T17:25:13,193 adding 'lobster/core/utils/__init__.py' 2026-01-13T17:25:13,195 adding 'lobster/core/utils/h5ad_utils.py' 2026-01-13T17:25:13,197 adding 'lobster/lobster_cloud/__init__.py' 2026-01-13T17:25:13,200 adding 'lobster/lobster_cloud/client.py' 2026-01-13T17:25:13,202 adding 'lobster/services/__init__.py' 2026-01-13T17:25:13,204 adding 'lobster/services/analysis/__init__.py' 2026-01-13T17:25:13,213 adding 'lobster/services/analysis/bulk_rnaseq_service.py' 2026-01-13T17:25:13,222 adding 'lobster/services/analysis/clustering_service.py' 2026-01-13T17:25:13,227 adding 'lobster/services/analysis/differential_formula_service.py' 2026-01-13T17:25:13,234 adding 'lobster/services/analysis/enhanced_singlecell_service.py' 2026-01-13T17:25:13,238 adding 'lobster/services/analysis/pseudobulk_service.py' 2026-01-13T17:25:13,241 adding 'lobster/services/analysis/scvi_embedding_service.py' 2026-01-13T17:25:13,244 adding 'lobster/services/analysis/structure_analysis_service.py' 2026-01-13T17:25:13,246 adding 'lobster/services/data_access/__init__.py' 2026-01-13T17:25:13,255 adding 'lobster/services/data_access/content_access_service.py' 2026-01-13T17:25:13,261 adding 'lobster/services/data_access/docling_service.py' 2026-01-13T17:25:13,265 adding 'lobster/services/data_access/geo_download_service.py' 2026-01-13T17:25:13,268 adding 'lobster/services/data_access/geo_fallback_service.py' 2026-01-13T17:25:13,293 adding 'lobster/services/data_access/geo_service.py' 2026-01-13T17:25:13,298 adding 'lobster/services/data_access/massive_download_service.py' 2026-01-13T17:25:13,301 adding 'lobster/services/data_access/pride_download_service.py' 2026-01-13T17:25:13,304 adding 'lobster/services/data_access/protein_structure_fetch_service.py' 2026-01-13T17:25:13,309 adding 'lobster/services/data_access/sra_download_service.py' 2026-01-13T17:25:13,314 adding 'lobster/services/data_access/workspace_content_service.py' 2026-01-13T17:25:13,317 adding 'lobster/services/data_access/geo/__init__.py' 2026-01-13T17:25:13,319 adding 'lobster/services/data_access/geo/constants.py' 2026-01-13T17:25:13,323 adding 'lobster/services/data_access/geo/downloader.py' 2026-01-13T17:25:13,325 adding 'lobster/services/data_access/geo/facade.py' 2026-01-13T17:25:13,333 adding 'lobster/services/data_access/geo/parser.py' 2026-01-13T17:25:13,336 adding 'lobster/services/data_access/geo/strategy.py' 2026-01-13T17:25:13,339 adding 'lobster/services/data_access/geo/loaders/__init__.py' 2026-01-13T17:25:13,342 adding 'lobster/services/data_access/geo/loaders/tenx.py' 2026-01-13T17:25:13,344 adding 'lobster/services/data_access/geo/metadata/__init__.py' 2026-01-13T17:25:13,346 adding 'lobster/services/data_access/geo/sample/__init__.py' 2026-01-13T17:25:13,348 adding 'lobster/services/data_access/geo/utils/__init__.py' 2026-01-13T17:25:13,350 adding 'lobster/services/data_management/__init__.py' 2026-01-13T17:25:13,357 adding 'lobster/services/data_management/concatenation_service.py' 2026-01-13T17:25:13,360 adding 'lobster/services/data_management/modality_detection_service.py' 2026-01-13T17:25:13,363 adding 'lobster/services/data_management/modality_management_service.py' 2026-01-13T17:25:13,365 adding 'lobster/services/data_management/strategy_recommendation_service.py' 2026-01-13T17:25:13,368 adding 'lobster/services/execution/__init__.py' 2026-01-13T17:25:13,373 adding 'lobster/services/execution/custom_code_execution_service.py' 2026-01-13T17:25:13,375 adding 'lobster/services/execution/execution_context_builder.py' 2026-01-13T17:25:13,377 adding 'lobster/services/metadata/__init__.py' 2026-01-13T17:25:13,379 adding 'lobster/services/metadata/identifier_provenance_service.py' 2026-01-13T17:25:13,384 adding 'lobster/services/metadata/manual_annotation_service.py' 2026-01-13T17:25:13,388 adding 'lobster/services/metadata/metadata_standardization_service.py' 2026-01-13T17:25:13,392 adding 'lobster/services/metadata/metadata_validation_service.py' 2026-01-13T17:25:13,394 adding 'lobster/services/metadata/sample_grouping_service.py' 2026-01-13T17:25:13,397 adding 'lobster/services/metadata/protocol_extraction/__init__.py' 2026-01-13T17:25:13,399 adding 'lobster/services/metadata/protocol_extraction/base.py' 2026-01-13T17:25:13,401 adding 'lobster/services/metadata/protocol_extraction/amplicon/__init__.py' 2026-01-13T17:25:13,403 adding 'lobster/services/metadata/protocol_extraction/amplicon/details.py' 2026-01-13T17:25:13,406 adding 'lobster/services/metadata/protocol_extraction/amplicon/service.py' 2026-01-13T17:25:13,408 adding 'lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json' 2026-01-13T17:25:13,410 adding 'lobster/services/metadata/protocol_extraction/mass_spec/__init__.py' 2026-01-13T17:25:13,411 adding 'lobster/services/metadata/protocol_extraction/mass_spec/details.py' 2026-01-13T17:25:13,413 adding 'lobster/services/metadata/protocol_extraction/mass_spec/service.py' 2026-01-13T17:25:13,415 adding 'lobster/services/metadata/protocol_extraction/rnaseq/__init__.py' 2026-01-13T17:25:13,416 adding 'lobster/services/metadata/protocol_extraction/rnaseq/details.py' 2026-01-13T17:25:13,418 adding 'lobster/services/metadata/protocol_extraction/rnaseq/service.py' 2026-01-13T17:25:13,420 adding 'lobster/services/ml/__init__.py' 2026-01-13T17:25:13,421 adding 'lobster/services/orchestration/__init__.py' 2026-01-13T17:25:13,430 adding 'lobster/services/orchestration/publication_processing_service.py' 2026-01-13T17:25:13,433 adding 'lobster/services/quality/__init__.py' 2026-01-13T17:25:13,438 adding 'lobster/services/quality/preprocessing_service.py' 2026-01-13T17:25:13,442 adding 'lobster/services/quality/quality_service.py' 2026-01-13T17:25:13,444 adding 'lobster/services/templates/__init__.py' 2026-01-13T17:25:13,449 adding 'lobster/services/templates/annotation_templates.py' 2026-01-13T17:25:13,451 adding 'lobster/services/visualization/__init__.py' 2026-01-13T17:25:13,454 adding 'lobster/services/visualization/bulk_visualization_service.py' 2026-01-13T17:25:13,457 adding 'lobster/services/visualization/pymol_visualization_service.py' 2026-01-13T17:25:13,465 adding 'lobster/services/visualization/visualization_service.py' 2026-01-13T17:25:13,468 adding 'lobster/tools/__init__.py' 2026-01-13T17:25:13,470 adding 'lobster/tools/custom_code_tool.py' 2026-01-13T17:25:13,472 adding 'lobster/tools/download_orchestrator.py' 2026-01-13T17:25:13,475 adding 'lobster/tools/enhanced_handoff_tool.py' 2026-01-13T17:25:13,477 adding 'lobster/tools/expert_handoff_manager.py' 2026-01-13T17:25:13,479 adding 'lobster/tools/expert_handoff_patterns.py' 2026-01-13T17:25:13,480 adding 'lobster/tools/geo_downloader.py' 2026-01-13T17:25:13,482 adding 'lobster/tools/geo_parser.py' 2026-01-13T17:25:13,483 adding 'lobster/tools/gpu_detector.py' 2026-01-13T17:25:13,485 adding 'lobster/tools/handoff_tool.py' 2026-01-13T17:25:13,486 adding 'lobster/tools/pipeline_strategy.py' 2026-01-13T17:25:13,490 adding 'lobster/tools/rate_limiter.py' 2026-01-13T17:25:13,492 adding 'lobster/tools/todo_tools.py' 2026-01-13T17:25:13,493 adding 'lobster/tools/url_transforms.py' 2026-01-13T17:25:13,497 adding 'lobster/tools/workflow_tracker.py' 2026-01-13T17:25:13,509 adding 'lobster/tools/workspace_tool.py' 2026-01-13T17:25:13,513 adding 'lobster/tools/archive/publication_service.py' 2026-01-13T17:25:13,516 adding 'lobster/tools/archive/unified_content_service.py' 2026-01-13T17:25:13,518 adding 'lobster/tools/providers/__init__.py' 2026-01-13T17:25:13,520 adding 'lobster/tools/providers/abstract_provider.py' 2026-01-13T17:25:13,522 adding 'lobster/tools/providers/base_provider.py' 2026-01-13T17:25:13,524 adding 'lobster/tools/providers/biopython_entrez_wrapper.py' 2026-01-13T17:25:13,525 adding 'lobster/tools/providers/biorxiv_medrxiv_config.py' 2026-01-13T17:25:13,531 adding 'lobster/tools/providers/biorxiv_medrxiv_provider.py' 2026-01-13T17:25:13,537 adding 'lobster/tools/providers/geo_provider.py' 2026-01-13T17:25:13,539 adding 'lobster/tools/providers/geo_utils.py' 2026-01-13T17:25:13,541 adding 'lobster/tools/providers/massive_provider.py' 2026-01-13T17:25:13,544 adding 'lobster/tools/providers/ncbi_query_builder.py' 2026-01-13T17:25:13,546 adding 'lobster/tools/providers/organism_enum.py' 2026-01-13T17:25:13,549 adding 'lobster/tools/providers/pdb_provider.py' 2026-01-13T17:25:13,555 adding 'lobster/tools/providers/pmc_provider.py' 2026-01-13T17:25:13,558 adding 'lobster/tools/providers/pride_normalizer.py' 2026-01-13T17:25:13,561 adding 'lobster/tools/providers/pride_provider.py' 2026-01-13T17:25:13,563 adding 'lobster/tools/providers/provider_registry.py' 2026-01-13T17:25:13,566 adding 'lobster/tools/providers/publication_resolver.py' 2026-01-13T17:25:13,575 adding 'lobster/tools/providers/pubmed_provider.py' 2026-01-13T17:25:13,582 adding 'lobster/tools/providers/sra_provider.py' 2026-01-13T17:25:13,584 adding 'lobster/tools/providers/structure_provider.py' 2026-01-13T17:25:13,586 adding 'lobster/tools/providers/webpage_provider.py' 2026-01-13T17:25:13,588 adding 'lobster/ui/__init__.py' 2026-01-13T17:25:13,591 adding 'lobster/ui/commands.py' 2026-01-13T17:25:13,593 adding 'lobster/ui/console_manager.py' 2026-01-13T17:25:13,595 adding 'lobster/ui/live_dashboard.py' 2026-01-13T17:25:13,597 adding 'lobster/ui/os_app.py' 2026-01-13T17:25:13,599 adding 'lobster/ui/progress_manager.py' 2026-01-13T17:25:13,601 adding 'lobster/ui/themes.py' 2026-01-13T17:25:13,603 adding 'lobster/ui/callbacks/__init__.py' 2026-01-13T17:25:13,606 adding 'lobster/ui/callbacks/textual_callback.py' 2026-01-13T17:25:13,608 adding 'lobster/ui/components/__init__.py' 2026-01-13T17:25:13,610 adding 'lobster/ui/components/file_tree.py' 2026-01-13T17:25:13,612 adding 'lobster/ui/components/multi_progress.py' 2026-01-13T17:25:13,614 adding 'lobster/ui/components/parallel_workers_progress.py' 2026-01-13T17:25:13,616 adding 'lobster/ui/components/status_display.py' 2026-01-13T17:25:13,618 adding 'lobster/ui/formatters/__init__.py' 2026-01-13T17:25:13,620 adding 'lobster/ui/screens/__init__.py' 2026-01-13T17:25:13,623 adding 'lobster/ui/screens/analysis_screen.py' 2026-01-13T17:25:13,625 adding 'lobster/ui/services/__init__.py' 2026-01-13T17:25:13,627 adding 'lobster/ui/services/error_service.py' 2026-01-13T17:25:13,629 adding 'lobster/ui/widgets/__init__.py' 2026-01-13T17:25:13,631 adding 'lobster/ui/widgets/activity_log.py' 2026-01-13T17:25:13,632 adding 'lobster/ui/widgets/adapters_panel.py' 2026-01-13T17:25:13,634 adding 'lobster/ui/widgets/agents_panel.py' 2026-01-13T17:25:13,635 adding 'lobster/ui/widgets/chat_message.py' 2026-01-13T17:25:13,636 adding 'lobster/ui/widgets/connections_panel.py' 2026-01-13T17:25:13,640 adding 'lobster/ui/widgets/data_hub.py' 2026-01-13T17:25:13,641 adding 'lobster/ui/widgets/error_modal.py' 2026-01-13T17:25:13,643 adding 'lobster/ui/widgets/modality_list.py' 2026-01-13T17:25:13,644 adding 'lobster/ui/widgets/plot_preview.py' 2026-01-13T17:25:13,646 adding 'lobster/ui/widgets/query_prompt.py' 2026-01-13T17:25:13,647 adding 'lobster/ui/widgets/queue_panel.py' 2026-01-13T17:25:13,649 adding 'lobster/ui/widgets/queue_status_bar.py' 2026-01-13T17:25:13,650 adding 'lobster/ui/widgets/results_display.py' 2026-01-13T17:25:13,652 adding 'lobster/ui/widgets/status_bar.py' 2026-01-13T17:25:13,653 adding 'lobster/ui/widgets/system_info.py' 2026-01-13T17:25:13,655 adding 'lobster/ui/widgets/token_usage_panel.py' 2026-01-13T17:25:13,657 adding 'lobster/utils/__init__.py' 2026-01-13T17:25:13,662 adding 'lobster/utils/callbacks.py' 2026-01-13T17:25:13,664 adding 'lobster/utils/deviance.py' 2026-01-13T17:25:13,668 adding 'lobster/utils/error_handlers.py' 2026-01-13T17:25:13,671 adding 'lobster/utils/file_analyzer.py' 2026-01-13T17:25:13,673 adding 'lobster/utils/file_naming.py' 2026-01-13T17:25:13,674 adding 'lobster/utils/json_extractor.py' 2026-01-13T17:25:13,676 adding 'lobster/utils/logger.py' 2026-01-13T17:25:13,677 adding 'lobster/utils/progress_wrapper.py' 2026-01-13T17:25:13,679 adding 'lobster/utils/ssl_utils.py' 2026-01-13T17:25:13,680 adding 'lobster/utils/system.py' 2026-01-13T17:25:13,687 adding 'lobster_ai-0.4.3.9.dist-info/licenses/LICENSE' 2026-01-13T17:25:13,690 adding 'lobster_ai-0.4.3.9.dist-info/METADATA' 2026-01-13T17:25:13,691 adding 'lobster_ai-0.4.3.9.dist-info/WHEEL' 2026-01-13T17:25:13,692 adding 'lobster_ai-0.4.3.9.dist-info/entry_points.txt' 2026-01-13T17:25:13,693 adding 'lobster_ai-0.4.3.9.dist-info/top_level.txt' 2026-01-13T17:25:13,698 adding 'lobster_ai-0.4.3.9.dist-info/RECORD' 2026-01-13T17:25:13,716 removing build/bdist.linux-armv7l/wheel 2026-01-13T17:25:13,898 Building wheel for lobster-ai (pyproject.toml): finished with status 'done' 2026-01-13T17:25:13,931 Created wheel for lobster-ai: filename=lobster_ai-0.4.3.9-py3-none-any.whl size=1390766 sha256=0c7eaba3a5a91f5c6bf172c5cbe10d758d336c9b6d32e33f912f18d37dd80f35 2026-01-13T17:25:13,932 Stored in directory: /tmp/pip-ephem-wheel-cache-4e02l0m2/wheels/bb/71/26/0242208f10982004b568f207ced8e347f2159cef909a5732db 2026-01-13T17:25:13,958 Successfully built lobster-ai 2026-01-13T17:25:13,993 Removed build tracker: '/tmp/pip-build-tracker-dd_vw4vb'