2026-01-12T15:36:07,886 Created temporary directory: /tmp/pip-ephem-wheel-cache-wd_z7cny 2026-01-12T15:36:07,887 Created temporary directory: /tmp/pip-build-tracker-xeew05cc 2026-01-12T15:36:07,888 Initialized build tracking at /tmp/pip-build-tracker-xeew05cc 2026-01-12T15:36:07,888 Created build tracker: /tmp/pip-build-tracker-xeew05cc 2026-01-12T15:36:07,889 Entered build tracker: /tmp/pip-build-tracker-xeew05cc 2026-01-12T15:36:07,890 Created temporary directory: /tmp/pip-wheel-naig5yjp 2026-01-12T15:36:07,892 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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2026-01-12T15:36:08,308 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.2.6-py3-none-any.whl#sha256=ca28e21145fc4a1936f013a907db69df8bc14be38e4780128404c7ad5e059e30 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-12T15:36:08,309 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.2.5-py3-none-any.whl#sha256=a7da5f06f7ae456fba8ebde188162be937d83d5b35fed871a15a2da14b66cb31 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-12T15:36:08,309 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.2.4-py3-none-any.whl#sha256=bc4dd2139d3a25cddfd4ea133273777bdbaa10bd8fdec1598075ae8f2b9e5a48 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-12T15:36:08,310 Skipping link: No binaries permitted for lobster-ai: 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https://pypi.org/simple/lobster-ai/ 2026-01-12T15:36:08,341 Given no hashes to check 1 links for project 'lobster-ai': discarding no candidates 2026-01-12T15:36:08,360 Collecting lobster-ai==0.4.3.7 2026-01-12T15:36:08,362 Created temporary directory: /tmp/pip-unpack-zc8dy5dm 2026-01-12T15:36:08,589 Downloading lobster_ai-0.4.3.7.tar.gz (1.2 MB) 2026-01-12T15:36:09,628 Added lobster-ai==0.4.3.7 from https://files.pythonhosted.org/packages/00/78/5d0f57ca6c2c5f9d497e4906a5a7ef9372c12d9040dd0a491f46c8aaa117/lobster_ai-0.4.3.7.tar.gz to build tracker '/tmp/pip-build-tracker-xeew05cc' 2026-01-12T15:36:09,636 Created temporary directory: /tmp/pip-build-env-00e7e2uz 2026-01-12T15:36:09,641 Installing build dependencies: started 2026-01-12T15:36:09,642 Running command pip subprocess to install build dependencies 2026-01-12T15:36:10,765 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-01-12T15:36:11,411 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 2026-01-12T15:36:11,434 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-12T15:36:13,159 Collecting setuptools>=65.0 2026-01-12T15:36:13,249 Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB) 2026-01-12T15:36:13,521 Collecting wheel 2026-01-12T15:36:13,539 Using cached https://www.piwheels.org/simple/wheel/wheel-0.45.1-py3-none-any.whl (72 kB) 2026-01-12T15:36:16,531 Installing collected packages: wheel, setuptools 2026-01-12T15:36:16,776 Creating /tmp/pip-build-env-00e7e2uz/overlay/local/bin 2026-01-12T15:36:16,778 changing mode of /tmp/pip-build-env-00e7e2uz/overlay/local/bin/wheel to 755 2026-01-12T15:36:20,549 Successfully installed setuptools-80.9.0 wheel-0.45.1 2026-01-12T15:36:20,827 Installing build dependencies: finished with status 'done' 2026-01-12T15:36:20,833 Getting requirements to build wheel: started 2026-01-12T15:36:20,834 Running command Getting requirements to build wheel 2026-01-12T15:36:21,510 /tmp/pip-build-env-00e7e2uz/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-12T15:36:21,510 corresp(dist, value, root_dir) 2026-01-12T15:36:21,511 /tmp/pip-build-env-00e7e2uz/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-12T15:36:21,512 corresp(dist, value, root_dir) 2026-01-12T15:36:21,512 /tmp/pip-build-env-00e7e2uz/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-12T15:36:21,513 corresp(dist, value, root_dir) 2026-01-12T15:36:21,621 running egg_info 2026-01-12T15:36:21,628 writing lobster_ai.egg-info/PKG-INFO 2026-01-12T15:36:21,658 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-12T15:36:21,660 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-12T15:36:21,679 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-12T15:36:21,680 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-12T15:36:21,836 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-12T15:36:21,855 adding license file 'LICENSE' 2026-01-12T15:36:21,869 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-12T15:36:21,969 Getting requirements to build wheel: finished with status 'done' 2026-01-12T15:36:21,973 Created temporary directory: /tmp/pip-modern-metadata-tayojk6s 2026-01-12T15:36:21,975 Preparing metadata (pyproject.toml): started 2026-01-12T15:36:21,976 Running command Preparing metadata (pyproject.toml) 2026-01-12T15:36:22,597 /tmp/pip-build-env-00e7e2uz/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-12T15:36:22,597 corresp(dist, value, root_dir) 2026-01-12T15:36:22,598 /tmp/pip-build-env-00e7e2uz/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-12T15:36:22,599 corresp(dist, value, root_dir) 2026-01-12T15:36:22,600 /tmp/pip-build-env-00e7e2uz/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-12T15:36:22,600 corresp(dist, value, root_dir) 2026-01-12T15:36:22,702 running dist_info 2026-01-12T15:36:22,714 creating /tmp/pip-modern-metadata-tayojk6s/lobster_ai.egg-info 2026-01-12T15:36:22,715 writing /tmp/pip-modern-metadata-tayojk6s/lobster_ai.egg-info/PKG-INFO 2026-01-12T15:36:22,745 writing dependency_links to /tmp/pip-modern-metadata-tayojk6s/lobster_ai.egg-info/dependency_links.txt 2026-01-12T15:36:22,747 writing entry points to /tmp/pip-modern-metadata-tayojk6s/lobster_ai.egg-info/entry_points.txt 2026-01-12T15:36:22,766 writing requirements to /tmp/pip-modern-metadata-tayojk6s/lobster_ai.egg-info/requires.txt 2026-01-12T15:36:22,767 writing top-level names to /tmp/pip-modern-metadata-tayojk6s/lobster_ai.egg-info/top_level.txt 2026-01-12T15:36:22,769 writing manifest file '/tmp/pip-modern-metadata-tayojk6s/lobster_ai.egg-info/SOURCES.txt' 2026-01-12T15:36:22,911 reading manifest file '/tmp/pip-modern-metadata-tayojk6s/lobster_ai.egg-info/SOURCES.txt' 2026-01-12T15:36:22,913 adding license file 'LICENSE' 2026-01-12T15:36:22,924 writing manifest file '/tmp/pip-modern-metadata-tayojk6s/lobster_ai.egg-info/SOURCES.txt' 2026-01-12T15:36:22,926 creating '/tmp/pip-modern-metadata-tayojk6s/lobster_ai-0.4.3.7.dist-info' 2026-01-12T15:36:23,056 Preparing metadata (pyproject.toml): finished with status 'done' 2026-01-12T15:36:23,063 Source in /tmp/pip-wheel-naig5yjp/lobster-ai_5311914f769a40468d5905ee01b03af7 has version 0.4.3.7, which satisfies requirement lobster-ai==0.4.3.7 from https://files.pythonhosted.org/packages/00/78/5d0f57ca6c2c5f9d497e4906a5a7ef9372c12d9040dd0a491f46c8aaa117/lobster_ai-0.4.3.7.tar.gz 2026-01-12T15:36:23,064 Removed lobster-ai==0.4.3.7 from https://files.pythonhosted.org/packages/00/78/5d0f57ca6c2c5f9d497e4906a5a7ef9372c12d9040dd0a491f46c8aaa117/lobster_ai-0.4.3.7.tar.gz from build tracker '/tmp/pip-build-tracker-xeew05cc' 2026-01-12T15:36:23,074 Created temporary directory: /tmp/pip-unpack-14s5jmmq 2026-01-12T15:36:23,075 Building wheels for collected packages: lobster-ai 2026-01-12T15:36:23,080 Created temporary directory: /tmp/pip-wheel-pljmaj32 2026-01-12T15:36:23,080 Destination directory: /tmp/pip-wheel-pljmaj32 2026-01-12T15:36:23,083 Building wheel for lobster-ai (pyproject.toml): started 2026-01-12T15:36:23,084 Running command Building wheel for lobster-ai (pyproject.toml) 2026-01-12T15:36:23,714 /tmp/pip-build-env-00e7e2uz/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-12T15:36:23,715 corresp(dist, value, root_dir) 2026-01-12T15:36:23,715 /tmp/pip-build-env-00e7e2uz/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-12T15:36:23,716 corresp(dist, value, root_dir) 2026-01-12T15:36:23,716 /tmp/pip-build-env-00e7e2uz/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-12T15:36:23,717 corresp(dist, value, root_dir) 2026-01-12T15:36:23,812 running bdist_wheel 2026-01-12T15:36:23,832 running build 2026-01-12T15:36:23,833 running build_py 2026-01-12T15:36:23,840 creating build/lib/lobster 2026-01-12T15:36:23,842 copying lobster/version.py -> build/lib/lobster 2026-01-12T15:36:23,844 copying lobster/_version.py -> build/lib/lobster 2026-01-12T15:36:23,846 copying lobster/__main__.py -> build/lib/lobster 2026-01-12T15:36:23,848 copying lobster/cli.py -> build/lib/lobster 2026-01-12T15:36:23,855 copying lobster/main.py -> build/lib/lobster 2026-01-12T15:36:23,858 creating build/lib/lobster/config 2026-01-12T15:36:23,859 copying lobster/config/supervisor_config.py -> build/lib/lobster/config 2026-01-12T15:36:23,862 copying lobster/config/agent_config.py -> build/lib/lobster/config 2026-01-12T15:36:23,865 copying lobster/config/ollama_service.py -> build/lib/lobster/config 2026-01-12T15:36:23,868 copying lobster/config/workspace_config.py -> build/lib/lobster/config 2026-01-12T15:36:23,870 copying lobster/config/base_config.py -> build/lib/lobster/config 2026-01-12T15:36:23,872 copying lobster/config/ssl_setup.py -> build/lib/lobster/config 2026-01-12T15:36:23,875 copying lobster/config/version_check.py -> build/lib/lobster/config 2026-01-12T15:36:23,878 copying lobster/config/llm_factory.py -> build/lib/lobster/config 2026-01-12T15:36:23,882 copying lobster/config/global_config.py -> build/lib/lobster/config 2026-01-12T15:36:23,886 copying lobster/config/provider_setup.py -> build/lib/lobster/config 2026-01-12T15:36:23,888 copying lobster/config/config_manager.py -> build/lib/lobster/config 2026-01-12T15:36:23,891 copying lobster/config/agent_registry.py -> build/lib/lobster/config 2026-01-12T15:36:23,893 copying lobster/config/model_service.py -> build/lib/lobster/config 2026-01-12T15:36:23,895 copying lobster/config/__init__.py -> build/lib/lobster/config 2026-01-12T15:36:23,897 copying lobster/config/settings.py -> build/lib/lobster/config 2026-01-12T15:36:23,900 copying lobster/config/agent_capabilities.py -> build/lib/lobster/config 2026-01-12T15:36:23,902 copying lobster/config/subscription_tiers.py -> build/lib/lobster/config 2026-01-12T15:36:23,904 copying lobster/config/constants.py -> build/lib/lobster/config 2026-01-12T15:36:23,907 creating build/lib/lobster/utils 2026-01-12T15:36:23,908 copying lobster/utils/system.py -> build/lib/lobster/utils 2026-01-12T15:36:23,910 copying lobster/utils/callbacks.py -> build/lib/lobster/utils 2026-01-12T15:36:23,914 copying lobster/utils/json_extractor.py -> build/lib/lobster/utils 2026-01-12T15:36:23,916 copying lobster/utils/file_analyzer.py -> build/lib/lobster/utils 2026-01-12T15:36:23,919 copying lobster/utils/__init__.py -> build/lib/lobster/utils 2026-01-12T15:36:23,921 copying lobster/utils/ssl_utils.py -> build/lib/lobster/utils 2026-01-12T15:36:23,923 copying lobster/utils/error_handlers.py -> build/lib/lobster/utils 2026-01-12T15:36:23,926 copying lobster/utils/file_naming.py -> build/lib/lobster/utils 2026-01-12T15:36:23,928 copying lobster/utils/logger.py -> build/lib/lobster/utils 2026-01-12T15:36:23,930 copying lobster/utils/deviance.py -> build/lib/lobster/utils 2026-01-12T15:36:23,932 copying lobster/utils/progress_wrapper.py -> build/lib/lobster/utils 2026-01-12T15:36:23,935 creating build/lib/lobster/cli_internal 2026-01-12T15:36:23,936 copying lobster/cli_internal/__init__.py -> build/lib/lobster/cli_internal 2026-01-12T15:36:23,938 creating build/lib/lobster/lobster_cloud 2026-01-12T15:36:23,939 copying lobster/lobster_cloud/client.py -> build/lib/lobster/lobster_cloud 2026-01-12T15:36:23,942 copying lobster/lobster_cloud/__init__.py -> build/lib/lobster/lobster_cloud 2026-01-12T15:36:23,944 creating build/lib/lobster/tools 2026-01-12T15:36:23,945 copying lobster/tools/expert_handoff_manager.py -> build/lib/lobster/tools 2026-01-12T15:36:23,948 copying lobster/tools/gpu_detector.py -> build/lib/lobster/tools 2026-01-12T15:36:23,950 copying lobster/tools/geo_parser.py -> build/lib/lobster/tools 2026-01-12T15:36:23,952 copying lobster/tools/download_orchestrator.py -> build/lib/lobster/tools 2026-01-12T15:36:23,954 copying lobster/tools/workflow_tracker.py -> build/lib/lobster/tools 2026-01-12T15:36:23,957 copying lobster/tools/todo_tools.py -> build/lib/lobster/tools 2026-01-12T15:36:23,959 copying lobster/tools/custom_code_tool.py -> build/lib/lobster/tools 2026-01-12T15:36:23,962 copying lobster/tools/rate_limiter.py -> build/lib/lobster/tools 2026-01-12T15:36:23,964 copying lobster/tools/expert_handoff_patterns.py -> build/lib/lobster/tools 2026-01-12T15:36:23,967 copying lobster/tools/pipeline_strategy.py -> build/lib/lobster/tools 2026-01-12T15:36:23,969 copying lobster/tools/geo_downloader.py -> build/lib/lobster/tools 2026-01-12T15:36:23,971 copying lobster/tools/__init__.py -> build/lib/lobster/tools 2026-01-12T15:36:23,975 copying lobster/tools/enhanced_handoff_tool.py -> build/lib/lobster/tools 2026-01-12T15:36:23,978 copying lobster/tools/handoff_tool.py -> build/lib/lobster/tools 2026-01-12T15:36:23,980 copying lobster/tools/url_transforms.py -> build/lib/lobster/tools 2026-01-12T15:36:23,982 copying lobster/tools/workspace_tool.py -> build/lib/lobster/tools 2026-01-12T15:36:23,987 creating build/lib/lobster/core 2026-01-12T15:36:23,988 copying lobster/core/notebook_validator.py -> build/lib/lobster/core 2026-01-12T15:36:23,991 copying lobster/core/ir_coverage.py -> build/lib/lobster/core 2026-01-12T15:36:23,993 copying lobster/core/exceptions.py -> build/lib/lobster/core 2026-01-12T15:36:23,996 copying lobster/core/plugin_loader.py -> build/lib/lobster/core 2026-01-12T15:36:23,998 copying lobster/core/provenance.py -> build/lib/lobster/core 2026-01-12T15:36:24,001 copying lobster/core/client.py -> build/lib/lobster/core 2026-01-12T15:36:24,004 copying lobster/core/data_manager_v2.py -> build/lib/lobster/core 2026-01-12T15:36:24,009 copying lobster/core/publication_queue.py -> build/lib/lobster/core 2026-01-12T15:36:24,012 copying lobster/core/plot_manager.py -> build/lib/lobster/core 2026-01-12T15:36:24,014 copying lobster/core/archive_utils.py -> build/lib/lobster/core 2026-01-12T15:36:24,017 copying lobster/core/__init__.py -> build/lib/lobster/core 2026-01-12T15:36:24,019 copying lobster/core/analysis_ir.py -> build/lib/lobster/core 2026-01-12T15:36:24,022 copying lobster/core/config_resolver.py -> build/lib/lobster/core 2026-01-12T15:36:24,025 copying lobster/core/notebook_exporter.py -> build/lib/lobster/core 2026-01-12T15:36:24,028 copying lobster/core/license_manager.py -> build/lib/lobster/core 2026-01-12T15:36:24,031 copying lobster/core/component_registry.py -> build/lib/lobster/core 2026-01-12T15:36:24,034 copying lobster/core/notebook_executor.py -> build/lib/lobster/core 2026-01-12T15:36:24,036 copying lobster/core/download_queue.py -> build/lib/lobster/core 2026-01-12T15:36:24,038 copying lobster/core/queue_storage.py -> build/lib/lobster/core 2026-01-12T15:36:24,041 copying lobster/core/ris_parser.py -> build/lib/lobster/core 2026-01-12T15:36:24,043 copying lobster/core/workspace.py -> build/lib/lobster/core 2026-01-12T15:36:24,046 creating build/lib/lobster/ui 2026-01-12T15:36:24,047 copying lobster/ui/console_manager.py -> build/lib/lobster/ui 2026-01-12T15:36:24,050 copying lobster/ui/progress_manager.py -> build/lib/lobster/ui 2026-01-12T15:36:24,053 copying lobster/ui/live_dashboard.py -> build/lib/lobster/ui 2026-01-12T15:36:24,055 copying lobster/ui/themes.py -> build/lib/lobster/ui 2026-01-12T15:36:24,058 copying lobster/ui/os_app.py -> build/lib/lobster/ui 2026-01-12T15:36:24,060 copying lobster/ui/__init__.py -> build/lib/lobster/ui 2026-01-12T15:36:24,062 copying lobster/ui/commands.py -> build/lib/lobster/ui 2026-01-12T15:36:24,065 creating build/lib/lobster/services 2026-01-12T15:36:24,066 copying lobster/services/__init__.py -> build/lib/lobster/services 2026-01-12T15:36:24,068 creating build/lib/lobster/agents 2026-01-12T15:36:24,069 copying lobster/agents/draw_graph.py -> build/lib/lobster/agents 2026-01-12T15:36:24,072 copying lobster/agents/graph.py -> build/lib/lobster/agents 2026-01-12T15:36:24,074 copying lobster/agents/state.py -> build/lib/lobster/agents 2026-01-12T15:36:24,077 copying lobster/agents/visualization_expert.py -> build/lib/lobster/agents 2026-01-12T15:36:24,081 copying lobster/agents/supervisor.py -> build/lib/lobster/agents 2026-01-12T15:36:24,084 creating build/lib/lobster/config/providers 2026-01-12T15:36:24,085 copying lobster/config/providers/ollama_provider.py -> build/lib/lobster/config/providers 2026-01-12T15:36:24,088 copying lobster/config/providers/bedrock_provider.py -> build/lib/lobster/config/providers 2026-01-12T15:36:24,091 copying lobster/config/providers/__init__.py -> build/lib/lobster/config/providers 2026-01-12T15:36:24,093 copying lobster/config/providers/registry.py -> build/lib/lobster/config/providers 2026-01-12T15:36:24,095 copying lobster/config/providers/gemini_provider.py -> build/lib/lobster/config/providers 2026-01-12T15:36:24,098 copying lobster/config/providers/base_provider.py -> build/lib/lobster/config/providers 2026-01-12T15:36:24,100 copying lobster/config/providers/anthropic_provider.py -> build/lib/lobster/config/providers 2026-01-12T15:36:24,103 creating build/lib/lobster/cli_internal/utils 2026-01-12T15:36:24,104 copying lobster/cli_internal/utils/path_resolution.py -> build/lib/lobster/cli_internal/utils 2026-01-12T15:36:24,106 copying lobster/cli_internal/utils/__init__.py -> build/lib/lobster/cli_internal/utils 2026-01-12T15:36:24,108 creating build/lib/lobster/cli_internal/commands 2026-01-12T15:36:24,109 copying lobster/cli_internal/commands/output_adapter.py -> build/lib/lobster/cli_internal/commands 2026-01-12T15:36:24,112 copying lobster/cli_internal/commands/__init__.py -> build/lib/lobster/cli_internal/commands 2026-01-12T15:36:24,115 creating build/lib/lobster/cli_internal/commands/heavy 2026-01-12T15:36:24,118 copying lobster/cli_internal/commands/heavy/visualization_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-12T15:36:24,121 copying lobster/cli_internal/commands/heavy/__init__.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-12T15:36:24,123 copying lobster/cli_internal/commands/heavy/modality_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-12T15:36:24,126 copying lobster/cli_internal/commands/heavy/data_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-12T15:36:24,129 creating build/lib/lobster/cli_internal/commands/light 2026-01-12T15:36:24,130 copying lobster/cli_internal/commands/light/workspace_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-12T15:36:24,133 copying lobster/cli_internal/commands/light/__init__.py -> build/lib/lobster/cli_internal/commands/light 2026-01-12T15:36:24,135 copying lobster/cli_internal/commands/light/pipeline_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-12T15:36:24,138 copying lobster/cli_internal/commands/light/queue_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-12T15:36:24,141 copying lobster/cli_internal/commands/light/config_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-12T15:36:24,144 copying lobster/cli_internal/commands/light/metadata_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-12T15:36:24,146 copying lobster/cli_internal/commands/light/file_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-12T15:36:24,150 creating build/lib/lobster/tools/providers 2026-01-12T15:36:24,151 copying lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,154 copying lobster/tools/providers/geo_provider.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,158 copying lobster/tools/providers/biorxiv_medrxiv_config.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,160 copying lobster/tools/providers/organism_enum.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,162 copying lobster/tools/providers/publication_resolver.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,165 copying lobster/tools/providers/pride_provider.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,169 copying lobster/tools/providers/webpage_provider.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,171 copying lobster/tools/providers/massive_provider.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,174 copying lobster/tools/providers/ncbi_query_builder.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,177 copying lobster/tools/providers/__init__.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,179 copying lobster/tools/providers/pdb_provider.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,182 copying lobster/tools/providers/pmc_provider.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,186 copying lobster/tools/providers/biopython_entrez_wrapper.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,189 copying lobster/tools/providers/abstract_provider.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,194 copying lobster/tools/providers/pride_normalizer.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,197 copying lobster/tools/providers/geo_utils.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,200 copying lobster/tools/providers/structure_provider.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,203 copying lobster/tools/providers/base_provider.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,205 copying lobster/tools/providers/pubmed_provider.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,212 copying lobster/tools/providers/provider_registry.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,220 copying lobster/tools/providers/sra_provider.py -> build/lib/lobster/tools/providers 2026-01-12T15:36:24,228 creating build/lib/lobster/tools/archive 2026-01-12T15:36:24,230 copying lobster/tools/archive/unified_content_service.py -> build/lib/lobster/tools/archive 2026-01-12T15:36:24,233 copying lobster/tools/archive/publication_service.py -> build/lib/lobster/tools/archive 2026-01-12T15:36:24,237 creating build/lib/lobster/core/identifiers 2026-01-12T15:36:24,238 copying lobster/core/identifiers/accession_resolver.py -> build/lib/lobster/core/identifiers 2026-01-12T15:36:24,241 copying lobster/core/identifiers/__init__.py -> build/lib/lobster/core/identifiers 2026-01-12T15:36:24,243 creating build/lib/lobster/core/backends 2026-01-12T15:36:24,244 copying lobster/core/backends/base.py -> build/lib/lobster/core/backends 2026-01-12T15:36:24,247 copying lobster/core/backends/h5ad_backend.py -> build/lib/lobster/core/backends 2026-01-12T15:36:24,251 copying lobster/core/backends/__init__.py -> build/lib/lobster/core/backends 2026-01-12T15:36:24,252 copying lobster/core/backends/mudata_backend.py -> build/lib/lobster/core/backends 2026-01-12T15:36:24,255 creating build/lib/lobster/core/adapters 2026-01-12T15:36:24,257 copying lobster/core/adapters/base.py -> build/lib/lobster/core/adapters 2026-01-12T15:36:24,259 copying lobster/core/adapters/pseudobulk_adapter.py -> build/lib/lobster/core/adapters 2026-01-12T15:36:24,262 copying lobster/core/adapters/proteomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-12T15:36:24,265 copying lobster/core/adapters/__init__.py -> build/lib/lobster/core/adapters 2026-01-12T15:36:24,267 copying lobster/core/adapters/protein_structure_adapter.py -> build/lib/lobster/core/adapters 2026-01-12T15:36:24,269 copying lobster/core/adapters/transcriptomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-12T15:36:24,273 creating build/lib/lobster/core/schemas 2026-01-12T15:36:24,274 copying lobster/core/schemas/database_registry.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,276 copying lobster/core/schemas/export_schemas.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,279 copying lobster/core/schemas/validation.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,282 copying lobster/core/schemas/transcriptomics.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,286 copying lobster/core/schemas/metagenomics.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,289 copying lobster/core/schemas/metabolomics.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,293 copying lobster/core/schemas/publication_queue.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,296 copying lobster/core/schemas/ontology.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,298 copying lobster/core/schemas/protein_structure.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,301 copying lobster/core/schemas/download_urls.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,303 copying lobster/core/schemas/__init__.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,305 copying lobster/core/schemas/sra.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,308 copying lobster/core/schemas/database_mappings.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,311 copying lobster/core/schemas/download_queue.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,313 copying lobster/core/schemas/proteomics.py -> build/lib/lobster/core/schemas 2026-01-12T15:36:24,317 creating build/lib/lobster/core/utils 2026-01-12T15:36:24,318 copying lobster/core/utils/h5ad_utils.py -> build/lib/lobster/core/utils 2026-01-12T15:36:24,321 copying lobster/core/utils/__init__.py -> build/lib/lobster/core/utils 2026-01-12T15:36:24,323 creating build/lib/lobster/core/interfaces 2026-01-12T15:36:24,324 copying lobster/core/interfaces/adapter.py -> build/lib/lobster/core/interfaces 2026-01-12T15:36:24,326 copying lobster/core/interfaces/validator.py -> build/lib/lobster/core/interfaces 2026-01-12T15:36:24,329 copying lobster/core/interfaces/base_client.py -> build/lib/lobster/core/interfaces 2026-01-12T15:36:24,331 copying lobster/core/interfaces/backend.py -> build/lib/lobster/core/interfaces 2026-01-12T15:36:24,334 copying lobster/core/interfaces/__init__.py -> build/lib/lobster/core/interfaces 2026-01-12T15:36:24,335 copying lobster/core/interfaces/download_service.py -> build/lib/lobster/core/interfaces 2026-01-12T15:36:24,339 creating build/lib/lobster/ui/widgets 2026-01-12T15:36:24,340 copying lobster/ui/widgets/query_prompt.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,342 copying lobster/ui/widgets/error_modal.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,344 copying lobster/ui/widgets/chat_message.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,346 copying lobster/ui/widgets/queue_status_bar.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,348 copying lobster/ui/widgets/activity_log.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,351 copying lobster/ui/widgets/results_display.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,353 copying lobster/ui/widgets/connections_panel.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,355 copying lobster/ui/widgets/data_hub.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,358 copying lobster/ui/widgets/token_usage_panel.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,360 copying lobster/ui/widgets/__init__.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,362 copying lobster/ui/widgets/agents_panel.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,364 copying lobster/ui/widgets/adapters_panel.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,366 copying lobster/ui/widgets/plot_preview.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,369 copying lobster/ui/widgets/queue_panel.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,371 copying lobster/ui/widgets/system_info.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,373 copying lobster/ui/widgets/modality_list.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,375 copying lobster/ui/widgets/status_bar.py -> build/lib/lobster/ui/widgets 2026-01-12T15:36:24,378 creating build/lib/lobster/ui/callbacks 2026-01-12T15:36:24,379 copying lobster/ui/callbacks/__init__.py -> build/lib/lobster/ui/callbacks 2026-01-12T15:36:24,381 copying lobster/ui/callbacks/textual_callback.py -> build/lib/lobster/ui/callbacks 2026-01-12T15:36:24,384 creating build/lib/lobster/ui/screens 2026-01-12T15:36:24,385 copying lobster/ui/screens/analysis_screen.py -> build/lib/lobster/ui/screens 2026-01-12T15:36:24,388 copying lobster/ui/screens/__init__.py -> build/lib/lobster/ui/screens 2026-01-12T15:36:24,390 creating build/lib/lobster/ui/formatters 2026-01-12T15:36:24,391 copying lobster/ui/formatters/__init__.py -> build/lib/lobster/ui/formatters 2026-01-12T15:36:24,394 creating build/lib/lobster/ui/services 2026-01-12T15:36:24,395 copying lobster/ui/services/__init__.py -> build/lib/lobster/ui/services 2026-01-12T15:36:24,397 copying lobster/ui/services/error_service.py -> build/lib/lobster/ui/services 2026-01-12T15:36:24,399 creating build/lib/lobster/ui/components 2026-01-12T15:36:24,400 copying lobster/ui/components/status_display.py -> build/lib/lobster/ui/components 2026-01-12T15:36:24,403 copying lobster/ui/components/multi_progress.py -> build/lib/lobster/ui/components 2026-01-12T15:36:24,406 copying lobster/ui/components/file_tree.py -> build/lib/lobster/ui/components 2026-01-12T15:36:24,408 copying lobster/ui/components/parallel_workers_progress.py -> build/lib/lobster/ui/components 2026-01-12T15:36:24,411 copying lobster/ui/components/__init__.py -> build/lib/lobster/ui/components 2026-01-12T15:36:24,413 creating build/lib/lobster/services/data_management 2026-01-12T15:36:24,414 copying lobster/services/data_management/modality_detection_service.py -> build/lib/lobster/services/data_management 2026-01-12T15:36:24,417 copying lobster/services/data_management/concatenation_service.py -> build/lib/lobster/services/data_management 2026-01-12T15:36:24,420 copying lobster/services/data_management/__init__.py -> build/lib/lobster/services/data_management 2026-01-12T15:36:24,422 copying lobster/services/data_management/modality_management_service.py -> build/lib/lobster/services/data_management 2026-01-12T15:36:24,425 copying lobster/services/data_management/strategy_recommendation_service.py -> build/lib/lobster/services/data_management 2026-01-12T15:36:24,428 creating build/lib/lobster/services/metadata 2026-01-12T15:36:24,429 copying lobster/services/metadata/manual_annotation_service.py -> build/lib/lobster/services/metadata 2026-01-12T15:36:24,432 copying lobster/services/metadata/metadata_validation_service.py -> build/lib/lobster/services/metadata 2026-01-12T15:36:24,435 copying lobster/services/metadata/__init__.py -> build/lib/lobster/services/metadata 2026-01-12T15:36:24,437 copying lobster/services/metadata/identifier_provenance_service.py -> build/lib/lobster/services/metadata 2026-01-12T15:36:24,439 copying lobster/services/metadata/sample_grouping_service.py -> build/lib/lobster/services/metadata 2026-01-12T15:36:24,442 copying lobster/services/metadata/metadata_standardization_service.py -> build/lib/lobster/services/metadata 2026-01-12T15:36:24,446 creating build/lib/lobster/services/orchestration 2026-01-12T15:36:24,447 copying lobster/services/orchestration/__init__.py -> build/lib/lobster/services/orchestration 2026-01-12T15:36:24,448 copying lobster/services/orchestration/publication_processing_service.py -> build/lib/lobster/services/orchestration 2026-01-12T15:36:24,453 creating build/lib/lobster/services/ml 2026-01-12T15:36:24,454 copying lobster/services/ml/__init__.py -> build/lib/lobster/services/ml 2026-01-12T15:36:24,456 creating build/lib/lobster/services/analysis 2026-01-12T15:36:24,457 copying lobster/services/analysis/enhanced_singlecell_service.py -> build/lib/lobster/services/analysis 2026-01-12T15:36:24,460 copying lobster/services/analysis/scvi_embedding_service.py -> build/lib/lobster/services/analysis 2026-01-12T15:36:24,463 copying lobster/services/analysis/differential_formula_service.py -> build/lib/lobster/services/analysis 2026-01-12T15:36:24,467 copying lobster/services/analysis/structure_analysis_service.py -> build/lib/lobster/services/analysis 2026-01-12T15:36:24,469 copying lobster/services/analysis/bulk_rnaseq_service.py -> build/lib/lobster/services/analysis 2026-01-12T15:36:24,473 copying lobster/services/analysis/clustering_service.py -> build/lib/lobster/services/analysis 2026-01-12T15:36:24,477 copying lobster/services/analysis/__init__.py -> build/lib/lobster/services/analysis 2026-01-12T15:36:24,479 copying lobster/services/analysis/pseudobulk_service.py -> build/lib/lobster/services/analysis 2026-01-12T15:36:24,482 creating build/lib/lobster/services/visualization 2026-01-12T15:36:24,483 copying lobster/services/visualization/visualization_service.py -> build/lib/lobster/services/visualization 2026-01-12T15:36:24,487 copying lobster/services/visualization/pymol_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-12T15:36:24,490 copying lobster/services/visualization/__init__.py -> build/lib/lobster/services/visualization 2026-01-12T15:36:24,492 copying lobster/services/visualization/bulk_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-12T15:36:24,495 creating build/lib/lobster/services/quality 2026-01-12T15:36:24,496 copying lobster/services/quality/quality_service.py -> build/lib/lobster/services/quality 2026-01-12T15:36:24,500 copying lobster/services/quality/preprocessing_service.py -> build/lib/lobster/services/quality 2026-01-12T15:36:24,503 copying lobster/services/quality/__init__.py -> build/lib/lobster/services/quality 2026-01-12T15:36:24,505 creating build/lib/lobster/services/data_access 2026-01-12T15:36:24,506 copying lobster/services/data_access/pride_download_service.py -> build/lib/lobster/services/data_access 2026-01-12T15:36:24,509 copying lobster/services/data_access/geo_fallback_service.py -> build/lib/lobster/services/data_access 2026-01-12T15:36:24,511 copying lobster/services/data_access/massive_download_service.py -> build/lib/lobster/services/data_access 2026-01-12T15:36:24,514 copying lobster/services/data_access/docling_service.py -> build/lib/lobster/services/data_access 2026-01-12T15:36:24,517 copying lobster/services/data_access/__init__.py -> build/lib/lobster/services/data_access 2026-01-12T15:36:24,519 copying lobster/services/data_access/content_access_service.py -> build/lib/lobster/services/data_access 2026-01-12T15:36:24,523 copying lobster/services/data_access/geo_download_service.py -> build/lib/lobster/services/data_access 2026-01-12T15:36:24,525 copying lobster/services/data_access/workspace_content_service.py -> build/lib/lobster/services/data_access 2026-01-12T15:36:24,528 copying lobster/services/data_access/protein_structure_fetch_service.py -> build/lib/lobster/services/data_access 2026-01-12T15:36:24,531 copying lobster/services/data_access/sra_download_service.py -> build/lib/lobster/services/data_access 2026-01-12T15:36:24,534 copying lobster/services/data_access/geo_service.py -> build/lib/lobster/services/data_access 2026-01-12T15:36:24,540 creating build/lib/lobster/services/templates 2026-01-12T15:36:24,542 copying lobster/services/templates/annotation_templates.py -> build/lib/lobster/services/templates 2026-01-12T15:36:24,545 copying lobster/services/templates/__init__.py -> build/lib/lobster/services/templates 2026-01-12T15:36:24,547 creating build/lib/lobster/services/execution 2026-01-12T15:36:24,548 copying lobster/services/execution/execution_context_builder.py -> build/lib/lobster/services/execution 2026-01-12T15:36:24,551 copying lobster/services/execution/custom_code_execution_service.py -> build/lib/lobster/services/execution 2026-01-12T15:36:24,554 copying lobster/services/execution/__init__.py -> build/lib/lobster/services/execution 2026-01-12T15:36:24,556 creating build/lib/lobster/services/metadata/protocol_extraction 2026-01-12T15:36:24,557 copying lobster/services/metadata/protocol_extraction/base.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-12T15:36:24,560 copying lobster/services/metadata/protocol_extraction/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-12T15:36:24,562 creating build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-12T15:36:24,563 copying lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-12T15:36:24,565 copying lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-12T15:36:24,567 copying lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-12T15:36:24,570 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-12T15:36:24,571 copying lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-12T15:36:24,574 copying lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-12T15:36:24,576 copying lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-12T15:36:24,579 creating build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-12T15:36:24,580 copying lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-12T15:36:24,582 copying lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-12T15:36:24,583 copying lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-12T15:36:24,586 creating build/lib/lobster/services/data_access/geo 2026-01-12T15:36:24,587 copying lobster/services/data_access/geo/parser.py -> build/lib/lobster/services/data_access/geo 2026-01-12T15:36:24,591 copying lobster/services/data_access/geo/facade.py -> build/lib/lobster/services/data_access/geo 2026-01-12T15:36:24,592 copying lobster/services/data_access/geo/__init__.py -> build/lib/lobster/services/data_access/geo 2026-01-12T15:36:24,594 copying lobster/services/data_access/geo/downloader.py -> build/lib/lobster/services/data_access/geo 2026-01-12T15:36:24,598 copying lobster/services/data_access/geo/strategy.py -> build/lib/lobster/services/data_access/geo 2026-01-12T15:36:24,600 copying lobster/services/data_access/geo/constants.py -> build/lib/lobster/services/data_access/geo 2026-01-12T15:36:24,603 creating build/lib/lobster/services/data_access/geo/metadata 2026-01-12T15:36:24,604 copying lobster/services/data_access/geo/metadata/__init__.py -> build/lib/lobster/services/data_access/geo/metadata 2026-01-12T15:36:24,606 creating build/lib/lobster/services/data_access/geo/utils 2026-01-12T15:36:24,608 copying lobster/services/data_access/geo/utils/__init__.py -> build/lib/lobster/services/data_access/geo/utils 2026-01-12T15:36:24,610 creating build/lib/lobster/services/data_access/geo/sample 2026-01-12T15:36:24,611 copying lobster/services/data_access/geo/sample/__init__.py -> build/lib/lobster/services/data_access/geo/sample 2026-01-12T15:36:24,613 creating build/lib/lobster/services/data_access/geo/loaders 2026-01-12T15:36:24,614 copying lobster/services/data_access/geo/loaders/__init__.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-12T15:36:24,616 copying lobster/services/data_access/geo/loaders/tenx.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-12T15:36:24,619 creating build/lib/lobster/agents/data_expert 2026-01-12T15:36:24,620 copying lobster/agents/data_expert/assistant.py -> build/lib/lobster/agents/data_expert 2026-01-12T15:36:24,623 copying lobster/agents/data_expert/config.py -> build/lib/lobster/agents/data_expert 2026-01-12T15:36:24,626 copying lobster/agents/data_expert/data_expert.py -> build/lib/lobster/agents/data_expert 2026-01-12T15:36:24,629 copying lobster/agents/data_expert/state.py -> build/lib/lobster/agents/data_expert 2026-01-12T15:36:24,631 copying lobster/agents/data_expert/__init__.py -> build/lib/lobster/agents/data_expert 2026-01-12T15:36:24,632 copying lobster/agents/data_expert/prompts.py -> build/lib/lobster/agents/data_expert 2026-01-12T15:36:24,635 creating build/lib/lobster/agents/research 2026-01-12T15:36:24,636 copying lobster/agents/research/config.py -> build/lib/lobster/agents/research 2026-01-12T15:36:24,638 copying lobster/agents/research/state.py -> build/lib/lobster/agents/research 2026-01-12T15:36:24,640 copying lobster/agents/research/__init__.py -> build/lib/lobster/agents/research 2026-01-12T15:36:24,642 copying lobster/agents/research/research_agent.py -> build/lib/lobster/agents/research 2026-01-12T15:36:24,646 copying lobster/agents/research/prompts.py -> build/lib/lobster/agents/research 2026-01-12T15:36:24,649 creating build/lib/lobster/agents/proteomics 2026-01-12T15:36:24,650 copying lobster/agents/proteomics/state.py -> build/lib/lobster/agents/proteomics 2026-01-12T15:36:24,652 copying lobster/agents/proteomics/__init__.py -> build/lib/lobster/agents/proteomics 2026-01-12T15:36:24,655 creating build/lib/lobster/agents/transcriptomics 2026-01-12T15:36:24,656 copying lobster/agents/transcriptomics/transcriptomics_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-12T15:36:24,659 copying lobster/agents/transcriptomics/de_analysis_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-12T15:36:24,662 copying lobster/agents/transcriptomics/shared_tools.py -> build/lib/lobster/agents/transcriptomics 2026-01-12T15:36:24,665 copying lobster/agents/transcriptomics/config.py -> build/lib/lobster/agents/transcriptomics 2026-01-12T15:36:24,667 copying lobster/agents/transcriptomics/state.py -> build/lib/lobster/agents/transcriptomics 2026-01-12T15:36:24,669 copying lobster/agents/transcriptomics/__init__.py -> build/lib/lobster/agents/transcriptomics 2026-01-12T15:36:24,671 copying lobster/agents/transcriptomics/prompts.py -> build/lib/lobster/agents/transcriptomics 2026-01-12T15:36:24,674 copying lobster/agents/transcriptomics/annotation_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-12T15:36:24,677 creating build/lib/lobster/agents/archive 2026-01-12T15:36:24,678 copying lobster/agents/archive/research_agent_assistant.py -> build/lib/lobster/agents/archive 2026-01-12T15:36:24,681 creating build/lib/lobster/agents/langgraph_supervisor 2026-01-12T15:36:24,682 copying lobster/agents/langgraph_supervisor/handoff.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-12T15:36:24,685 copying lobster/agents/langgraph_supervisor/agent_name.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-12T15:36:24,687 copying lobster/agents/langgraph_supervisor/__init__.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-12T15:36:24,689 copying lobster/agents/langgraph_supervisor/supervisor.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-12T15:36:24,692 running egg_info 2026-01-12T15:36:24,703 writing lobster_ai.egg-info/PKG-INFO 2026-01-12T15:36:24,734 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-12T15:36:24,736 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-12T15:36:24,755 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-12T15:36:24,757 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-12T15:36:24,883 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-12T15:36:24,900 adding license file 'LICENSE' 2026-01-12T15:36:24,914 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-12T15:36:25,008 copying lobster/config/disease_ontology.json -> build/lib/lobster/config 2026-01-12T15:36:25,010 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-12T15:36:25,011 copying lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-12T15:36:25,051 installing to build/bdist.linux-armv7l/wheel 2026-01-12T15:36:25,052 running install 2026-01-12T15:36:25,075 running install_lib 2026-01-12T15:36:25,081 creating build/bdist.linux-armv7l/wheel 2026-01-12T15:36:25,083 creating build/bdist.linux-armv7l/wheel/lobster 2026-01-12T15:36:25,085 creating build/bdist.linux-armv7l/wheel/lobster/config 2026-01-12T15:36:25,087 creating build/bdist.linux-armv7l/wheel/lobster/config/providers 2026-01-12T15:36:25,088 copying build/lib/lobster/config/providers/ollama_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-12T15:36:25,091 copying build/lib/lobster/config/providers/bedrock_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-12T15:36:25,093 copying build/lib/lobster/config/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-12T15:36:25,095 copying build/lib/lobster/config/providers/registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-12T15:36:25,097 copying build/lib/lobster/config/providers/gemini_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-12T15:36:25,099 copying build/lib/lobster/config/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-12T15:36:25,102 copying build/lib/lobster/config/providers/anthropic_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-12T15:36:25,104 copying build/lib/lobster/config/supervisor_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,106 copying build/lib/lobster/config/agent_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,109 copying build/lib/lobster/config/ollama_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,111 copying build/lib/lobster/config/workspace_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,113 copying build/lib/lobster/config/base_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,115 copying build/lib/lobster/config/ssl_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,117 copying build/lib/lobster/config/version_check.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,120 copying build/lib/lobster/config/llm_factory.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,122 copying build/lib/lobster/config/global_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,125 copying build/lib/lobster/config/provider_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,127 copying build/lib/lobster/config/config_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,129 copying build/lib/lobster/config/agent_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,132 copying build/lib/lobster/config/model_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,134 copying build/lib/lobster/config/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,136 copying build/lib/lobster/config/settings.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,139 copying build/lib/lobster/config/agent_capabilities.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,141 copying build/lib/lobster/config/disease_ontology.json -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,143 copying build/lib/lobster/config/subscription_tiers.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,145 copying build/lib/lobster/config/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-12T15:36:25,147 copying build/lib/lobster/version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-12T15:36:25,150 creating build/bdist.linux-armv7l/wheel/lobster/utils 2026-01-12T15:36:25,151 copying build/lib/lobster/utils/system.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-12T15:36:25,153 copying build/lib/lobster/utils/callbacks.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-12T15:36:25,156 copying build/lib/lobster/utils/json_extractor.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-12T15:36:25,159 copying build/lib/lobster/utils/file_analyzer.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-12T15:36:25,161 copying build/lib/lobster/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-12T15:36:25,164 copying build/lib/lobster/utils/ssl_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-12T15:36:25,166 copying build/lib/lobster/utils/error_handlers.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-12T15:36:25,169 copying build/lib/lobster/utils/file_naming.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-12T15:36:25,171 copying build/lib/lobster/utils/logger.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-12T15:36:25,173 copying build/lib/lobster/utils/deviance.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-12T15:36:25,176 copying build/lib/lobster/utils/progress_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-12T15:36:25,179 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal 2026-01-12T15:36:25,180 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/utils 2026-01-12T15:36:25,182 copying build/lib/lobster/cli_internal/utils/path_resolution.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-12T15:36:25,185 copying build/lib/lobster/cli_internal/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-12T15:36:25,187 copying build/lib/lobster/cli_internal/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal 2026-01-12T15:36:25,189 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands 2026-01-12T15:36:25,191 copying build/lib/lobster/cli_internal/commands/output_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-12T15:36:25,194 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/heavy 2026-01-12T15:36:25,195 copying build/lib/lobster/cli_internal/commands/heavy/visualization_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-12T15:36:25,198 copying build/lib/lobster/cli_internal/commands/heavy/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-12T15:36:25,201 copying build/lib/lobster/cli_internal/commands/heavy/modality_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-12T15:36:25,204 copying build/lib/lobster/cli_internal/commands/heavy/data_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-12T15:36:25,207 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/light 2026-01-12T15:36:25,208 copying build/lib/lobster/cli_internal/commands/light/workspace_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-12T15:36:25,211 copying build/lib/lobster/cli_internal/commands/light/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-12T15:36:25,213 copying build/lib/lobster/cli_internal/commands/light/pipeline_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-12T15:36:25,216 copying build/lib/lobster/cli_internal/commands/light/queue_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-12T15:36:25,220 copying build/lib/lobster/cli_internal/commands/light/config_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-12T15:36:25,223 copying build/lib/lobster/cli_internal/commands/light/metadata_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-12T15:36:25,226 copying build/lib/lobster/cli_internal/commands/light/file_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-12T15:36:25,229 copying build/lib/lobster/cli_internal/commands/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-12T15:36:25,231 copying build/lib/lobster/_version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-12T15:36:25,234 copying build/lib/lobster/__main__.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-12T15:36:25,236 creating build/bdist.linux-armv7l/wheel/lobster/lobster_cloud 2026-01-12T15:36:25,238 copying build/lib/lobster/lobster_cloud/client.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-12T15:36:25,240 copying build/lib/lobster/lobster_cloud/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-12T15:36:25,242 copying build/lib/lobster/cli.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-12T15:36:25,249 creating build/bdist.linux-armv7l/wheel/lobster/tools 2026-01-12T15:36:25,251 creating build/bdist.linux-armv7l/wheel/lobster/tools/providers 2026-01-12T15:36:25,253 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,257 copying build/lib/lobster/tools/providers/geo_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,261 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_config.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,263 copying build/lib/lobster/tools/providers/organism_enum.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,265 copying build/lib/lobster/tools/providers/publication_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,269 copying build/lib/lobster/tools/providers/pride_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,272 copying build/lib/lobster/tools/providers/webpage_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,275 copying build/lib/lobster/tools/providers/massive_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,278 copying build/lib/lobster/tools/providers/ncbi_query_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,281 copying build/lib/lobster/tools/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,283 copying build/lib/lobster/tools/providers/pdb_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,286 copying build/lib/lobster/tools/providers/pmc_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,290 copying build/lib/lobster/tools/providers/biopython_entrez_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,293 copying build/lib/lobster/tools/providers/abstract_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,295 copying build/lib/lobster/tools/providers/pride_normalizer.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,299 copying build/lib/lobster/tools/providers/geo_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,301 copying build/lib/lobster/tools/providers/structure_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,304 copying build/lib/lobster/tools/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,307 copying build/lib/lobster/tools/providers/pubmed_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,311 copying build/lib/lobster/tools/providers/provider_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,314 copying build/lib/lobster/tools/providers/sra_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-12T15:36:25,318 copying build/lib/lobster/tools/expert_handoff_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,321 copying build/lib/lobster/tools/gpu_detector.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,324 copying build/lib/lobster/tools/geo_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,326 copying build/lib/lobster/tools/download_orchestrator.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,329 copying build/lib/lobster/tools/workflow_tracker.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,331 copying build/lib/lobster/tools/todo_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,334 copying build/lib/lobster/tools/custom_code_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,336 copying build/lib/lobster/tools/rate_limiter.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,339 copying build/lib/lobster/tools/expert_handoff_patterns.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,341 copying build/lib/lobster/tools/pipeline_strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,343 copying build/lib/lobster/tools/geo_downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,345 copying build/lib/lobster/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,347 copying build/lib/lobster/tools/enhanced_handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,349 copying build/lib/lobster/tools/handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,352 creating build/bdist.linux-armv7l/wheel/lobster/tools/archive 2026-01-12T15:36:25,353 copying build/lib/lobster/tools/archive/unified_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-12T15:36:25,356 copying build/lib/lobster/tools/archive/publication_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-12T15:36:25,359 copying build/lib/lobster/tools/url_transforms.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,361 copying build/lib/lobster/tools/workspace_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-12T15:36:25,366 creating build/bdist.linux-armv7l/wheel/lobster/core 2026-01-12T15:36:25,367 copying build/lib/lobster/core/notebook_validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,370 creating build/bdist.linux-armv7l/wheel/lobster/core/identifiers 2026-01-12T15:36:25,371 copying build/lib/lobster/core/identifiers/accession_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-12T15:36:25,374 copying build/lib/lobster/core/identifiers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-12T15:36:25,376 copying build/lib/lobster/core/ir_coverage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,378 copying build/lib/lobster/core/exceptions.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,380 copying build/lib/lobster/core/plugin_loader.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,383 copying build/lib/lobster/core/provenance.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,385 copying build/lib/lobster/core/client.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,390 creating build/bdist.linux-armv7l/wheel/lobster/core/backends 2026-01-12T15:36:25,391 copying build/lib/lobster/core/backends/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-12T15:36:25,394 copying build/lib/lobster/core/backends/h5ad_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-12T15:36:25,397 copying build/lib/lobster/core/backends/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-12T15:36:25,399 copying build/lib/lobster/core/backends/mudata_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-12T15:36:25,402 creating build/bdist.linux-armv7l/wheel/lobster/core/adapters 2026-01-12T15:36:25,403 copying build/lib/lobster/core/adapters/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-12T15:36:25,406 copying build/lib/lobster/core/adapters/pseudobulk_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-12T15:36:25,409 copying build/lib/lobster/core/adapters/proteomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-12T15:36:25,411 copying build/lib/lobster/core/adapters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-12T15:36:25,413 copying build/lib/lobster/core/adapters/protein_structure_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-12T15:36:25,415 copying build/lib/lobster/core/adapters/transcriptomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-12T15:36:25,419 creating build/bdist.linux-armv7l/wheel/lobster/core/schemas 2026-01-12T15:36:25,420 copying build/lib/lobster/core/schemas/database_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,422 copying build/lib/lobster/core/schemas/export_schemas.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,425 copying build/lib/lobster/core/schemas/validation.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,428 copying build/lib/lobster/core/schemas/transcriptomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,432 copying build/lib/lobster/core/schemas/metagenomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,435 copying build/lib/lobster/core/schemas/metabolomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,438 copying build/lib/lobster/core/schemas/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,440 copying build/lib/lobster/core/schemas/ontology.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,442 copying build/lib/lobster/core/schemas/protein_structure.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,445 copying build/lib/lobster/core/schemas/download_urls.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,448 copying build/lib/lobster/core/schemas/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,449 copying build/lib/lobster/core/schemas/sra.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,452 copying build/lib/lobster/core/schemas/database_mappings.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,455 copying build/lib/lobster/core/schemas/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,458 copying build/lib/lobster/core/schemas/proteomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-12T15:36:25,461 copying build/lib/lobster/core/data_manager_v2.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,465 copying build/lib/lobster/core/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,468 creating build/bdist.linux-armv7l/wheel/lobster/core/utils 2026-01-12T15:36:25,469 copying build/lib/lobster/core/utils/h5ad_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-12T15:36:25,472 copying build/lib/lobster/core/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-12T15:36:25,473 copying build/lib/lobster/core/plot_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,476 copying build/lib/lobster/core/archive_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,479 copying build/lib/lobster/core/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,481 copying build/lib/lobster/core/analysis_ir.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,484 creating build/bdist.linux-armv7l/wheel/lobster/core/interfaces 2026-01-12T15:36:25,485 copying build/lib/lobster/core/interfaces/adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-12T15:36:25,488 copying build/lib/lobster/core/interfaces/validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-12T15:36:25,490 copying build/lib/lobster/core/interfaces/base_client.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-12T15:36:25,493 copying build/lib/lobster/core/interfaces/backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-12T15:36:25,495 copying build/lib/lobster/core/interfaces/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-12T15:36:25,497 copying build/lib/lobster/core/interfaces/download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-12T15:36:25,499 copying build/lib/lobster/core/config_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,502 copying build/lib/lobster/core/notebook_exporter.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,504 copying build/lib/lobster/core/license_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,507 copying build/lib/lobster/core/component_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,510 copying build/lib/lobster/core/notebook_executor.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,512 copying build/lib/lobster/core/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,514 copying build/lib/lobster/core/queue_storage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,516 copying build/lib/lobster/core/ris_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,519 copying build/lib/lobster/core/workspace.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-12T15:36:25,522 creating build/bdist.linux-armv7l/wheel/lobster/ui 2026-01-12T15:36:25,523 copying build/lib/lobster/ui/console_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-12T15:36:25,526 creating build/bdist.linux-armv7l/wheel/lobster/ui/widgets 2026-01-12T15:36:25,527 copying build/lib/lobster/ui/widgets/query_prompt.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,529 copying build/lib/lobster/ui/widgets/error_modal.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,531 copying build/lib/lobster/ui/widgets/chat_message.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,533 copying build/lib/lobster/ui/widgets/queue_status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,536 copying build/lib/lobster/ui/widgets/activity_log.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,538 copying build/lib/lobster/ui/widgets/results_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,540 copying build/lib/lobster/ui/widgets/connections_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,542 copying build/lib/lobster/ui/widgets/data_hub.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,545 copying build/lib/lobster/ui/widgets/token_usage_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,547 copying build/lib/lobster/ui/widgets/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,549 copying build/lib/lobster/ui/widgets/agents_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,552 copying build/lib/lobster/ui/widgets/adapters_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,554 copying build/lib/lobster/ui/widgets/plot_preview.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,556 copying build/lib/lobster/ui/widgets/queue_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,558 copying build/lib/lobster/ui/widgets/system_info.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,561 copying build/lib/lobster/ui/widgets/modality_list.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,563 copying build/lib/lobster/ui/widgets/status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-12T15:36:25,565 copying build/lib/lobster/ui/progress_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-12T15:36:25,568 copying build/lib/lobster/ui/live_dashboard.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-12T15:36:25,571 creating build/bdist.linux-armv7l/wheel/lobster/ui/callbacks 2026-01-12T15:36:25,572 copying build/lib/lobster/ui/callbacks/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-12T15:36:25,574 copying build/lib/lobster/ui/callbacks/textual_callback.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-12T15:36:25,576 copying build/lib/lobster/ui/themes.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-12T15:36:25,579 copying build/lib/lobster/ui/os_app.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-12T15:36:25,581 creating build/bdist.linux-armv7l/wheel/lobster/ui/screens 2026-01-12T15:36:25,582 copying build/lib/lobster/ui/screens/analysis_screen.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-12T15:36:25,585 copying build/lib/lobster/ui/screens/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-12T15:36:25,587 copying build/lib/lobster/ui/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-12T15:36:25,589 copying build/lib/lobster/ui/commands.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-12T15:36:25,592 creating build/bdist.linux-armv7l/wheel/lobster/ui/formatters 2026-01-12T15:36:25,594 copying build/lib/lobster/ui/formatters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/formatters 2026-01-12T15:36:25,596 creating build/bdist.linux-armv7l/wheel/lobster/ui/services 2026-01-12T15:36:25,597 copying build/lib/lobster/ui/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-12T15:36:25,599 copying build/lib/lobster/ui/services/error_service.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-12T15:36:25,602 creating build/bdist.linux-armv7l/wheel/lobster/ui/components 2026-01-12T15:36:25,603 copying build/lib/lobster/ui/components/status_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-12T15:36:25,606 copying build/lib/lobster/ui/components/multi_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-12T15:36:25,609 copying build/lib/lobster/ui/components/file_tree.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-12T15:36:25,612 copying build/lib/lobster/ui/components/parallel_workers_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-12T15:36:25,614 copying build/lib/lobster/ui/components/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-12T15:36:25,616 copying build/lib/lobster/main.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-12T15:36:25,619 creating build/bdist.linux-armv7l/wheel/lobster/services 2026-01-12T15:36:25,620 creating build/bdist.linux-armv7l/wheel/lobster/services/data_management 2026-01-12T15:36:25,622 copying build/lib/lobster/services/data_management/modality_detection_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-12T15:36:25,624 copying build/lib/lobster/services/data_management/concatenation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-12T15:36:25,628 copying build/lib/lobster/services/data_management/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-12T15:36:25,630 copying build/lib/lobster/services/data_management/modality_management_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-12T15:36:25,632 copying build/lib/lobster/services/data_management/strategy_recommendation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-12T15:36:25,635 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata 2026-01-12T15:36:25,636 copying build/lib/lobster/services/metadata/manual_annotation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-12T15:36:25,639 copying build/lib/lobster/services/metadata/metadata_validation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-12T15:36:25,642 copying build/lib/lobster/services/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-12T15:36:25,644 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction 2026-01-12T15:36:25,645 copying build/lib/lobster/services/metadata/protocol_extraction/base.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-12T15:36:25,648 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-12T15:36:25,649 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-12T15:36:25,651 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-12T15:36:25,653 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-12T15:36:25,655 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon 2026-01-12T15:36:25,657 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-12T15:36:25,658 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-12T15:36:25,660 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-12T15:36:25,663 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-12T15:36:25,665 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-12T15:36:25,668 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-12T15:36:25,669 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-12T15:36:25,672 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-12T15:36:25,673 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-12T15:36:25,675 copying build/lib/lobster/services/metadata/protocol_extraction/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-12T15:36:25,677 copying build/lib/lobster/services/metadata/identifier_provenance_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-12T15:36:25,680 copying build/lib/lobster/services/metadata/sample_grouping_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-12T15:36:25,682 copying build/lib/lobster/services/metadata/metadata_standardization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-12T15:36:25,686 creating build/bdist.linux-armv7l/wheel/lobster/services/orchestration 2026-01-12T15:36:25,687 copying build/lib/lobster/services/orchestration/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-12T15:36:25,689 copying build/lib/lobster/services/orchestration/publication_processing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-12T15:36:25,693 creating build/bdist.linux-armv7l/wheel/lobster/services/ml 2026-01-12T15:36:25,694 copying build/lib/lobster/services/ml/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/ml 2026-01-12T15:36:25,696 copying build/lib/lobster/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services 2026-01-12T15:36:25,699 creating build/bdist.linux-armv7l/wheel/lobster/services/analysis 2026-01-12T15:36:25,700 copying build/lib/lobster/services/analysis/enhanced_singlecell_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-12T15:36:25,705 copying build/lib/lobster/services/analysis/scvi_embedding_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-12T15:36:25,707 copying build/lib/lobster/services/analysis/differential_formula_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-12T15:36:25,710 copying build/lib/lobster/services/analysis/structure_analysis_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-12T15:36:25,713 copying build/lib/lobster/services/analysis/bulk_rnaseq_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-12T15:36:25,717 copying build/lib/lobster/services/analysis/clustering_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-12T15:36:25,722 copying build/lib/lobster/services/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-12T15:36:25,724 copying build/lib/lobster/services/analysis/pseudobulk_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-12T15:36:25,727 creating build/bdist.linux-armv7l/wheel/lobster/services/visualization 2026-01-12T15:36:25,728 copying build/lib/lobster/services/visualization/visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-12T15:36:25,732 copying build/lib/lobster/services/visualization/pymol_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-12T15:36:25,735 copying build/lib/lobster/services/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-12T15:36:25,737 copying build/lib/lobster/services/visualization/bulk_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-12T15:36:25,741 creating build/bdist.linux-armv7l/wheel/lobster/services/quality 2026-01-12T15:36:25,742 copying build/lib/lobster/services/quality/quality_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-12T15:36:25,745 copying build/lib/lobster/services/quality/preprocessing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-12T15:36:25,748 copying build/lib/lobster/services/quality/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-12T15:36:25,750 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access 2026-01-12T15:36:25,751 copying build/lib/lobster/services/data_access/pride_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-12T15:36:25,754 copying build/lib/lobster/services/data_access/geo_fallback_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-12T15:36:25,757 copying build/lib/lobster/services/data_access/massive_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-12T15:36:25,759 copying build/lib/lobster/services/data_access/docling_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-12T15:36:25,762 copying build/lib/lobster/services/data_access/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-12T15:36:25,764 copying build/lib/lobster/services/data_access/content_access_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-12T15:36:25,767 copying build/lib/lobster/services/data_access/geo_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-12T15:36:25,769 copying build/lib/lobster/services/data_access/workspace_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-12T15:36:25,772 copying build/lib/lobster/services/data_access/protein_structure_fetch_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-12T15:36:25,775 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo 2026-01-12T15:36:25,777 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/metadata 2026-01-12T15:36:25,778 copying build/lib/lobster/services/data_access/geo/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/metadata 2026-01-12T15:36:25,780 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/utils 2026-01-12T15:36:25,781 copying build/lib/lobster/services/data_access/geo/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/utils 2026-01-12T15:36:25,783 copying build/lib/lobster/services/data_access/geo/parser.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-12T15:36:25,786 copying build/lib/lobster/services/data_access/geo/facade.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-12T15:36:25,788 copying build/lib/lobster/services/data_access/geo/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-12T15:36:25,791 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/sample 2026-01-12T15:36:25,792 copying build/lib/lobster/services/data_access/geo/sample/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/sample 2026-01-12T15:36:25,794 copying build/lib/lobster/services/data_access/geo/downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-12T15:36:25,797 copying build/lib/lobster/services/data_access/geo/strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-12T15:36:25,800 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/loaders 2026-01-12T15:36:25,801 copying build/lib/lobster/services/data_access/geo/loaders/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-12T15:36:25,803 copying build/lib/lobster/services/data_access/geo/loaders/tenx.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-12T15:36:25,806 copying build/lib/lobster/services/data_access/geo/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-12T15:36:25,808 copying build/lib/lobster/services/data_access/sra_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-12T15:36:25,811 copying build/lib/lobster/services/data_access/geo_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-12T15:36:25,819 creating build/bdist.linux-armv7l/wheel/lobster/services/templates 2026-01-12T15:36:25,820 copying build/lib/lobster/services/templates/annotation_templates.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-12T15:36:25,823 copying build/lib/lobster/services/templates/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-12T15:36:25,826 creating build/bdist.linux-armv7l/wheel/lobster/services/execution 2026-01-12T15:36:25,827 copying build/lib/lobster/services/execution/execution_context_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-12T15:36:25,829 copying build/lib/lobster/services/execution/custom_code_execution_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-12T15:36:25,832 copying build/lib/lobster/services/execution/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-12T15:36:25,834 creating build/bdist.linux-armv7l/wheel/lobster/agents 2026-01-12T15:36:25,835 copying build/lib/lobster/agents/draw_graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-12T15:36:25,837 copying build/lib/lobster/agents/graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-12T15:36:25,840 creating build/bdist.linux-armv7l/wheel/lobster/agents/data_expert 2026-01-12T15:36:25,841 copying build/lib/lobster/agents/data_expert/assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/data_expert 2026-01-12T15:36:25,844 copying build/lib/lobster/agents/data_expert/config.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/data_expert 2026-01-12T15:36:25,847 copying build/lib/lobster/agents/data_expert/data_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/data_expert 2026-01-12T15:36:25,850 copying build/lib/lobster/agents/data_expert/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/data_expert 2026-01-12T15:36:25,852 copying build/lib/lobster/agents/data_expert/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/data_expert 2026-01-12T15:36:25,854 copying build/lib/lobster/agents/data_expert/prompts.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/data_expert 2026-01-12T15:36:25,857 creating build/bdist.linux-armv7l/wheel/lobster/agents/research 2026-01-12T15:36:25,858 copying build/lib/lobster/agents/research/config.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/research 2026-01-12T15:36:25,860 copying build/lib/lobster/agents/research/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/research 2026-01-12T15:36:25,862 copying build/lib/lobster/agents/research/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/research 2026-01-12T15:36:25,863 copying build/lib/lobster/agents/research/research_agent.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/research 2026-01-12T15:36:25,868 copying build/lib/lobster/agents/research/prompts.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/research 2026-01-12T15:36:25,871 copying build/lib/lobster/agents/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-12T15:36:25,874 creating build/bdist.linux-armv7l/wheel/lobster/agents/proteomics 2026-01-12T15:36:25,875 copying build/lib/lobster/agents/proteomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-12T15:36:25,877 copying build/lib/lobster/agents/proteomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-12T15:36:25,879 copying build/lib/lobster/agents/visualization_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-12T15:36:25,882 creating build/bdist.linux-armv7l/wheel/lobster/agents/transcriptomics 2026-01-12T15:36:25,883 copying build/lib/lobster/agents/transcriptomics/transcriptomics_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-12T15:36:25,886 copying build/lib/lobster/agents/transcriptomics/de_analysis_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-12T15:36:25,890 copying build/lib/lobster/agents/transcriptomics/shared_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-12T15:36:25,893 copying build/lib/lobster/agents/transcriptomics/config.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-12T15:36:25,896 copying build/lib/lobster/agents/transcriptomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-12T15:36:25,898 copying build/lib/lobster/agents/transcriptomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-12T15:36:25,899 copying build/lib/lobster/agents/transcriptomics/prompts.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-12T15:36:25,902 copying build/lib/lobster/agents/transcriptomics/annotation_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-12T15:36:25,905 creating build/bdist.linux-armv7l/wheel/lobster/agents/archive 2026-01-12T15:36:25,906 copying build/lib/lobster/agents/archive/research_agent_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/archive 2026-01-12T15:36:25,909 copying build/lib/lobster/agents/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-12T15:36:25,912 creating build/bdist.linux-armv7l/wheel/lobster/agents/langgraph_supervisor 2026-01-12T15:36:25,913 copying build/lib/lobster/agents/langgraph_supervisor/handoff.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-12T15:36:25,915 copying build/lib/lobster/agents/langgraph_supervisor/agent_name.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-12T15:36:25,918 copying build/lib/lobster/agents/langgraph_supervisor/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-12T15:36:25,919 copying build/lib/lobster/agents/langgraph_supervisor/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-12T15:36:25,922 running install_egg_info 2026-01-12T15:36:25,927 Copying lobster_ai.egg-info to build/bdist.linux-armv7l/wheel/./lobster_ai-0.4.3.7-py3.11.egg-info 2026-01-12T15:36:25,940 running install_scripts 2026-01-12T15:36:25,953 creating build/bdist.linux-armv7l/wheel/lobster_ai-0.4.3.7.dist-info/WHEEL 2026-01-12T15:36:25,956 creating '/tmp/pip-wheel-pljmaj32/.tmp-sya_8w7q/lobster_ai-0.4.3.7-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-01-12T15:36:25,958 adding 'lobster/__main__.py' 2026-01-12T15:36:25,959 adding 'lobster/_version.py' 2026-01-12T15:36:25,987 adding 'lobster/cli.py' 2026-01-12T15:36:25,990 adding 'lobster/main.py' 2026-01-12T15:36:25,992 adding 'lobster/version.py' 2026-01-12T15:36:25,994 adding 'lobster/agents/draw_graph.py' 2026-01-12T15:36:25,996 adding 'lobster/agents/graph.py' 2026-01-12T15:36:25,998 adding 'lobster/agents/state.py' 2026-01-12T15:36:26,003 adding 'lobster/agents/supervisor.py' 2026-01-12T15:36:26,006 adding 'lobster/agents/visualization_expert.py' 2026-01-12T15:36:26,009 adding 'lobster/agents/archive/research_agent_assistant.py' 2026-01-12T15:36:26,011 adding 'lobster/agents/data_expert/__init__.py' 2026-01-12T15:36:26,014 adding 'lobster/agents/data_expert/assistant.py' 2026-01-12T15:36:26,016 adding 'lobster/agents/data_expert/config.py' 2026-01-12T15:36:26,021 adding 'lobster/agents/data_expert/data_expert.py' 2026-01-12T15:36:26,023 adding 'lobster/agents/data_expert/prompts.py' 2026-01-12T15:36:26,025 adding 'lobster/agents/data_expert/state.py' 2026-01-12T15:36:26,026 adding 'lobster/agents/langgraph_supervisor/__init__.py' 2026-01-12T15:36:26,028 adding 'lobster/agents/langgraph_supervisor/agent_name.py' 2026-01-12T15:36:26,030 adding 'lobster/agents/langgraph_supervisor/handoff.py' 2026-01-12T15:36:26,032 adding 'lobster/agents/langgraph_supervisor/supervisor.py' 2026-01-12T15:36:26,034 adding 'lobster/agents/proteomics/__init__.py' 2026-01-12T15:36:26,035 adding 'lobster/agents/proteomics/state.py' 2026-01-12T15:36:26,037 adding 'lobster/agents/research/__init__.py' 2026-01-12T15:36:26,039 adding 'lobster/agents/research/config.py' 2026-01-12T15:36:26,042 adding 'lobster/agents/research/prompts.py' 2026-01-12T15:36:26,053 adding 'lobster/agents/research/research_agent.py' 2026-01-12T15:36:26,055 adding 'lobster/agents/research/state.py' 2026-01-12T15:36:26,057 adding 'lobster/agents/transcriptomics/__init__.py' 2026-01-12T15:36:26,061 adding 'lobster/agents/transcriptomics/annotation_expert.py' 2026-01-12T15:36:26,063 adding 'lobster/agents/transcriptomics/config.py' 2026-01-12T15:36:26,071 adding 'lobster/agents/transcriptomics/de_analysis_expert.py' 2026-01-12T15:36:26,074 adding 'lobster/agents/transcriptomics/prompts.py' 2026-01-12T15:36:26,077 adding 'lobster/agents/transcriptomics/shared_tools.py' 2026-01-12T15:36:26,078 adding 'lobster/agents/transcriptomics/state.py' 2026-01-12T15:36:26,082 adding 'lobster/agents/transcriptomics/transcriptomics_expert.py' 2026-01-12T15:36:26,084 adding 'lobster/cli_internal/__init__.py' 2026-01-12T15:36:26,086 adding 'lobster/cli_internal/commands/__init__.py' 2026-01-12T15:36:26,088 adding 'lobster/cli_internal/commands/output_adapter.py' 2026-01-12T15:36:26,090 adding 'lobster/cli_internal/commands/heavy/__init__.py' 2026-01-12T15:36:26,092 adding 'lobster/cli_internal/commands/heavy/data_commands.py' 2026-01-12T15:36:26,094 adding 'lobster/cli_internal/commands/heavy/modality_commands.py' 2026-01-12T15:36:26,096 adding 'lobster/cli_internal/commands/heavy/visualization_commands.py' 2026-01-12T15:36:26,098 adding 'lobster/cli_internal/commands/light/__init__.py' 2026-01-12T15:36:26,100 adding 'lobster/cli_internal/commands/light/config_commands.py' 2026-01-12T15:36:26,103 adding 'lobster/cli_internal/commands/light/file_commands.py' 2026-01-12T15:36:26,106 adding 'lobster/cli_internal/commands/light/metadata_commands.py' 2026-01-12T15:36:26,108 adding 'lobster/cli_internal/commands/light/pipeline_commands.py' 2026-01-12T15:36:26,111 adding 'lobster/cli_internal/commands/light/queue_commands.py' 2026-01-12T15:36:26,115 adding 'lobster/cli_internal/commands/light/workspace_commands.py' 2026-01-12T15:36:26,118 adding 'lobster/cli_internal/utils/__init__.py' 2026-01-12T15:36:26,120 adding 'lobster/cli_internal/utils/path_resolution.py' 2026-01-12T15:36:26,122 adding 'lobster/config/__init__.py' 2026-01-12T15:36:26,124 adding 'lobster/config/agent_capabilities.py' 2026-01-12T15:36:26,128 adding 'lobster/config/agent_config.py' 2026-01-12T15:36:26,130 adding 'lobster/config/agent_registry.py' 2026-01-12T15:36:26,132 adding 'lobster/config/base_config.py' 2026-01-12T15:36:26,134 adding 'lobster/config/config_manager.py' 2026-01-12T15:36:26,135 adding 'lobster/config/constants.py' 2026-01-12T15:36:26,137 adding 'lobster/config/disease_ontology.json' 2026-01-12T15:36:26,139 adding 'lobster/config/global_config.py' 2026-01-12T15:36:26,141 adding 'lobster/config/llm_factory.py' 2026-01-12T15:36:26,142 adding 'lobster/config/model_service.py' 2026-01-12T15:36:26,144 adding 'lobster/config/ollama_service.py' 2026-01-12T15:36:26,146 adding 'lobster/config/provider_setup.py' 2026-01-12T15:36:26,148 adding 'lobster/config/settings.py' 2026-01-12T15:36:26,150 adding 'lobster/config/ssl_setup.py' 2026-01-12T15:36:26,152 adding 'lobster/config/subscription_tiers.py' 2026-01-12T15:36:26,154 adding 'lobster/config/supervisor_config.py' 2026-01-12T15:36:26,155 adding 'lobster/config/version_check.py' 2026-01-12T15:36:26,157 adding 'lobster/config/workspace_config.py' 2026-01-12T15:36:26,159 adding 'lobster/config/providers/__init__.py' 2026-01-12T15:36:26,161 adding 'lobster/config/providers/anthropic_provider.py' 2026-01-12T15:36:26,162 adding 'lobster/config/providers/base_provider.py' 2026-01-12T15:36:26,164 adding 'lobster/config/providers/bedrock_provider.py' 2026-01-12T15:36:26,167 adding 'lobster/config/providers/gemini_provider.py' 2026-01-12T15:36:26,169 adding 'lobster/config/providers/ollama_provider.py' 2026-01-12T15:36:26,171 adding 'lobster/config/providers/registry.py' 2026-01-12T15:36:26,174 adding 'lobster/core/__init__.py' 2026-01-12T15:36:26,176 adding 'lobster/core/analysis_ir.py' 2026-01-12T15:36:26,179 adding 'lobster/core/archive_utils.py' 2026-01-12T15:36:26,189 adding 'lobster/core/client.py' 2026-01-12T15:36:26,191 adding 'lobster/core/component_registry.py' 2026-01-12T15:36:26,193 adding 'lobster/core/config_resolver.py' 2026-01-12T15:36:26,208 adding 'lobster/core/data_manager_v2.py' 2026-01-12T15:36:26,210 adding 'lobster/core/download_queue.py' 2026-01-12T15:36:26,212 adding 'lobster/core/exceptions.py' 2026-01-12T15:36:26,214 adding 'lobster/core/ir_coverage.py' 2026-01-12T15:36:26,217 adding 'lobster/core/license_manager.py' 2026-01-12T15:36:26,219 adding 'lobster/core/notebook_executor.py' 2026-01-12T15:36:26,223 adding 'lobster/core/notebook_exporter.py' 2026-01-12T15:36:26,225 adding 'lobster/core/notebook_validator.py' 2026-01-12T15:36:26,228 adding 'lobster/core/plot_manager.py' 2026-01-12T15:36:26,229 adding 'lobster/core/plugin_loader.py' 2026-01-12T15:36:26,232 adding 'lobster/core/provenance.py' 2026-01-12T15:36:26,234 adding 'lobster/core/publication_queue.py' 2026-01-12T15:36:26,236 adding 'lobster/core/queue_storage.py' 2026-01-12T15:36:26,238 adding 'lobster/core/ris_parser.py' 2026-01-12T15:36:26,240 adding 'lobster/core/workspace.py' 2026-01-12T15:36:26,242 adding 'lobster/core/adapters/__init__.py' 2026-01-12T15:36:26,244 adding 'lobster/core/adapters/base.py' 2026-01-12T15:36:26,247 adding 'lobster/core/adapters/protein_structure_adapter.py' 2026-01-12T15:36:26,250 adding 'lobster/core/adapters/proteomics_adapter.py' 2026-01-12T15:36:26,252 adding 'lobster/core/adapters/pseudobulk_adapter.py' 2026-01-12T15:36:26,256 adding 'lobster/core/adapters/transcriptomics_adapter.py' 2026-01-12T15:36:26,258 adding 'lobster/core/backends/__init__.py' 2026-01-12T15:36:26,259 adding 'lobster/core/backends/base.py' 2026-01-12T15:36:26,263 adding 'lobster/core/backends/h5ad_backend.py' 2026-01-12T15:36:26,266 adding 'lobster/core/backends/mudata_backend.py' 2026-01-12T15:36:26,267 adding 'lobster/core/identifiers/__init__.py' 2026-01-12T15:36:26,270 adding 'lobster/core/identifiers/accession_resolver.py' 2026-01-12T15:36:26,272 adding 'lobster/core/interfaces/__init__.py' 2026-01-12T15:36:26,273 adding 'lobster/core/interfaces/adapter.py' 2026-01-12T15:36:26,275 adding 'lobster/core/interfaces/backend.py' 2026-01-12T15:36:26,276 adding 'lobster/core/interfaces/base_client.py' 2026-01-12T15:36:26,279 adding 'lobster/core/interfaces/download_service.py' 2026-01-12T15:36:26,280 adding 'lobster/core/interfaces/validator.py' 2026-01-12T15:36:26,282 adding 'lobster/core/schemas/__init__.py' 2026-01-12T15:36:26,285 adding 'lobster/core/schemas/database_mappings.py' 2026-01-12T15:36:26,287 adding 'lobster/core/schemas/database_registry.py' 2026-01-12T15:36:26,289 adding 'lobster/core/schemas/download_queue.py' 2026-01-12T15:36:26,291 adding 'lobster/core/schemas/download_urls.py' 2026-01-12T15:36:26,297 adding 'lobster/core/schemas/export_schemas.py' 2026-01-12T15:36:26,301 adding 'lobster/core/schemas/metabolomics.py' 2026-01-12T15:36:26,306 adding 'lobster/core/schemas/metagenomics.py' 2026-01-12T15:36:26,308 adding 'lobster/core/schemas/ontology.py' 2026-01-12T15:36:26,310 adding 'lobster/core/schemas/protein_structure.py' 2026-01-12T15:36:26,314 adding 'lobster/core/schemas/proteomics.py' 2026-01-12T15:36:26,317 adding 'lobster/core/schemas/publication_queue.py' 2026-01-12T15:36:26,321 adding 'lobster/core/schemas/sra.py' 2026-01-12T15:36:26,328 adding 'lobster/core/schemas/transcriptomics.py' 2026-01-12T15:36:26,330 adding 'lobster/core/schemas/validation.py' 2026-01-12T15:36:26,332 adding 'lobster/core/utils/__init__.py' 2026-01-12T15:36:26,334 adding 'lobster/core/utils/h5ad_utils.py' 2026-01-12T15:36:26,336 adding 'lobster/lobster_cloud/__init__.py' 2026-01-12T15:36:26,338 adding 'lobster/lobster_cloud/client.py' 2026-01-12T15:36:26,340 adding 'lobster/services/__init__.py' 2026-01-12T15:36:26,341 adding 'lobster/services/analysis/__init__.py' 2026-01-12T15:36:26,350 adding 'lobster/services/analysis/bulk_rnaseq_service.py' 2026-01-12T15:36:26,359 adding 'lobster/services/analysis/clustering_service.py' 2026-01-12T15:36:26,364 adding 'lobster/services/analysis/differential_formula_service.py' 2026-01-12T15:36:26,369 adding 'lobster/services/analysis/enhanced_singlecell_service.py' 2026-01-12T15:36:26,373 adding 'lobster/services/analysis/pseudobulk_service.py' 2026-01-12T15:36:26,375 adding 'lobster/services/analysis/scvi_embedding_service.py' 2026-01-12T15:36:26,378 adding 'lobster/services/analysis/structure_analysis_service.py' 2026-01-12T15:36:26,379 adding 'lobster/services/data_access/__init__.py' 2026-01-12T15:36:26,387 adding 'lobster/services/data_access/content_access_service.py' 2026-01-12T15:36:26,394 adding 'lobster/services/data_access/docling_service.py' 2026-01-12T15:36:26,397 adding 'lobster/services/data_access/geo_download_service.py' 2026-01-12T15:36:26,399 adding 'lobster/services/data_access/geo_fallback_service.py' 2026-01-12T15:36:26,423 adding 'lobster/services/data_access/geo_service.py' 2026-01-12T15:36:26,427 adding 'lobster/services/data_access/massive_download_service.py' 2026-01-12T15:36:26,430 adding 'lobster/services/data_access/pride_download_service.py' 2026-01-12T15:36:26,432 adding 'lobster/services/data_access/protein_structure_fetch_service.py' 2026-01-12T15:36:26,437 adding 'lobster/services/data_access/sra_download_service.py' 2026-01-12T15:36:26,442 adding 'lobster/services/data_access/workspace_content_service.py' 2026-01-12T15:36:26,444 adding 'lobster/services/data_access/geo/__init__.py' 2026-01-12T15:36:26,445 adding 'lobster/services/data_access/geo/constants.py' 2026-01-12T15:36:26,449 adding 'lobster/services/data_access/geo/downloader.py' 2026-01-12T15:36:26,451 adding 'lobster/services/data_access/geo/facade.py' 2026-01-12T15:36:26,458 adding 'lobster/services/data_access/geo/parser.py' 2026-01-12T15:36:26,461 adding 'lobster/services/data_access/geo/strategy.py' 2026-01-12T15:36:26,463 adding 'lobster/services/data_access/geo/loaders/__init__.py' 2026-01-12T15:36:26,465 adding 'lobster/services/data_access/geo/loaders/tenx.py' 2026-01-12T15:36:26,467 adding 'lobster/services/data_access/geo/metadata/__init__.py' 2026-01-12T15:36:26,468 adding 'lobster/services/data_access/geo/sample/__init__.py' 2026-01-12T15:36:26,470 adding 'lobster/services/data_access/geo/utils/__init__.py' 2026-01-12T15:36:26,471 adding 'lobster/services/data_management/__init__.py' 2026-01-12T15:36:26,476 adding 'lobster/services/data_management/concatenation_service.py' 2026-01-12T15:36:26,479 adding 'lobster/services/data_management/modality_detection_service.py' 2026-01-12T15:36:26,481 adding 'lobster/services/data_management/modality_management_service.py' 2026-01-12T15:36:26,483 adding 'lobster/services/data_management/strategy_recommendation_service.py' 2026-01-12T15:36:26,485 adding 'lobster/services/execution/__init__.py' 2026-01-12T15:36:26,490 adding 'lobster/services/execution/custom_code_execution_service.py' 2026-01-12T15:36:26,491 adding 'lobster/services/execution/execution_context_builder.py' 2026-01-12T15:36:26,493 adding 'lobster/services/metadata/__init__.py' 2026-01-12T15:36:26,495 adding 'lobster/services/metadata/identifier_provenance_service.py' 2026-01-12T15:36:26,499 adding 'lobster/services/metadata/manual_annotation_service.py' 2026-01-12T15:36:26,502 adding 'lobster/services/metadata/metadata_standardization_service.py' 2026-01-12T15:36:26,505 adding 'lobster/services/metadata/metadata_validation_service.py' 2026-01-12T15:36:26,508 adding 'lobster/services/metadata/sample_grouping_service.py' 2026-01-12T15:36:26,510 adding 'lobster/services/metadata/protocol_extraction/__init__.py' 2026-01-12T15:36:26,511 adding 'lobster/services/metadata/protocol_extraction/base.py' 2026-01-12T15:36:26,513 adding 'lobster/services/metadata/protocol_extraction/amplicon/__init__.py' 2026-01-12T15:36:26,515 adding 'lobster/services/metadata/protocol_extraction/amplicon/details.py' 2026-01-12T15:36:26,518 adding 'lobster/services/metadata/protocol_extraction/amplicon/service.py' 2026-01-12T15:36:26,520 adding 'lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json' 2026-01-12T15:36:26,521 adding 'lobster/services/metadata/protocol_extraction/mass_spec/__init__.py' 2026-01-12T15:36:26,523 adding 'lobster/services/metadata/protocol_extraction/mass_spec/details.py' 2026-01-12T15:36:26,524 adding 'lobster/services/metadata/protocol_extraction/mass_spec/service.py' 2026-01-12T15:36:26,526 adding 'lobster/services/metadata/protocol_extraction/rnaseq/__init__.py' 2026-01-12T15:36:26,527 adding 'lobster/services/metadata/protocol_extraction/rnaseq/details.py' 2026-01-12T15:36:26,528 adding 'lobster/services/metadata/protocol_extraction/rnaseq/service.py' 2026-01-12T15:36:26,530 adding 'lobster/services/ml/__init__.py' 2026-01-12T15:36:26,531 adding 'lobster/services/orchestration/__init__.py' 2026-01-12T15:36:26,540 adding 'lobster/services/orchestration/publication_processing_service.py' 2026-01-12T15:36:26,542 adding 'lobster/services/quality/__init__.py' 2026-01-12T15:36:26,547 adding 'lobster/services/quality/preprocessing_service.py' 2026-01-12T15:36:26,551 adding 'lobster/services/quality/quality_service.py' 2026-01-12T15:36:26,553 adding 'lobster/services/templates/__init__.py' 2026-01-12T15:36:26,557 adding 'lobster/services/templates/annotation_templates.py' 2026-01-12T15:36:26,559 adding 'lobster/services/visualization/__init__.py' 2026-01-12T15:36:26,561 adding 'lobster/services/visualization/bulk_visualization_service.py' 2026-01-12T15:36:26,565 adding 'lobster/services/visualization/pymol_visualization_service.py' 2026-01-12T15:36:26,572 adding 'lobster/services/visualization/visualization_service.py' 2026-01-12T15:36:26,575 adding 'lobster/tools/__init__.py' 2026-01-12T15:36:26,577 adding 'lobster/tools/custom_code_tool.py' 2026-01-12T15:36:26,579 adding 'lobster/tools/download_orchestrator.py' 2026-01-12T15:36:26,582 adding 'lobster/tools/enhanced_handoff_tool.py' 2026-01-12T15:36:26,584 adding 'lobster/tools/expert_handoff_manager.py' 2026-01-12T15:36:26,586 adding 'lobster/tools/expert_handoff_patterns.py' 2026-01-12T15:36:26,588 adding 'lobster/tools/geo_downloader.py' 2026-01-12T15:36:26,589 adding 'lobster/tools/geo_parser.py' 2026-01-12T15:36:26,591 adding 'lobster/tools/gpu_detector.py' 2026-01-12T15:36:26,592 adding 'lobster/tools/handoff_tool.py' 2026-01-12T15:36:26,594 adding 'lobster/tools/pipeline_strategy.py' 2026-01-12T15:36:26,598 adding 'lobster/tools/rate_limiter.py' 2026-01-12T15:36:26,600 adding 'lobster/tools/todo_tools.py' 2026-01-12T15:36:26,601 adding 'lobster/tools/url_transforms.py' 2026-01-12T15:36:26,604 adding 'lobster/tools/workflow_tracker.py' 2026-01-12T15:36:26,616 adding 'lobster/tools/workspace_tool.py' 2026-01-12T15:36:26,620 adding 'lobster/tools/archive/publication_service.py' 2026-01-12T15:36:26,623 adding 'lobster/tools/archive/unified_content_service.py' 2026-01-12T15:36:26,625 adding 'lobster/tools/providers/__init__.py' 2026-01-12T15:36:26,627 adding 'lobster/tools/providers/abstract_provider.py' 2026-01-12T15:36:26,629 adding 'lobster/tools/providers/base_provider.py' 2026-01-12T15:36:26,632 adding 'lobster/tools/providers/biopython_entrez_wrapper.py' 2026-01-12T15:36:26,633 adding 'lobster/tools/providers/biorxiv_medrxiv_config.py' 2026-01-12T15:36:26,639 adding 'lobster/tools/providers/biorxiv_medrxiv_provider.py' 2026-01-12T15:36:26,645 adding 'lobster/tools/providers/geo_provider.py' 2026-01-12T15:36:26,647 adding 'lobster/tools/providers/geo_utils.py' 2026-01-12T15:36:26,650 adding 'lobster/tools/providers/massive_provider.py' 2026-01-12T15:36:26,653 adding 'lobster/tools/providers/ncbi_query_builder.py' 2026-01-12T15:36:26,655 adding 'lobster/tools/providers/organism_enum.py' 2026-01-12T15:36:26,657 adding 'lobster/tools/providers/pdb_provider.py' 2026-01-12T15:36:26,664 adding 'lobster/tools/providers/pmc_provider.py' 2026-01-12T15:36:26,667 adding 'lobster/tools/providers/pride_normalizer.py' 2026-01-12T15:36:26,670 adding 'lobster/tools/providers/pride_provider.py' 2026-01-12T15:36:26,672 adding 'lobster/tools/providers/provider_registry.py' 2026-01-12T15:36:26,675 adding 'lobster/tools/providers/publication_resolver.py' 2026-01-12T15:36:26,684 adding 'lobster/tools/providers/pubmed_provider.py' 2026-01-12T15:36:26,691 adding 'lobster/tools/providers/sra_provider.py' 2026-01-12T15:36:26,693 adding 'lobster/tools/providers/structure_provider.py' 2026-01-12T15:36:26,695 adding 'lobster/tools/providers/webpage_provider.py' 2026-01-12T15:36:26,697 adding 'lobster/ui/__init__.py' 2026-01-12T15:36:26,699 adding 'lobster/ui/commands.py' 2026-01-12T15:36:26,701 adding 'lobster/ui/console_manager.py' 2026-01-12T15:36:26,704 adding 'lobster/ui/live_dashboard.py' 2026-01-12T15:36:26,705 adding 'lobster/ui/os_app.py' 2026-01-12T15:36:26,708 adding 'lobster/ui/progress_manager.py' 2026-01-12T15:36:26,709 adding 'lobster/ui/themes.py' 2026-01-12T15:36:26,711 adding 'lobster/ui/callbacks/__init__.py' 2026-01-12T15:36:26,714 adding 'lobster/ui/callbacks/textual_callback.py' 2026-01-12T15:36:26,716 adding 'lobster/ui/components/__init__.py' 2026-01-12T15:36:26,718 adding 'lobster/ui/components/file_tree.py' 2026-01-12T15:36:26,721 adding 'lobster/ui/components/multi_progress.py' 2026-01-12T15:36:26,722 adding 'lobster/ui/components/parallel_workers_progress.py' 2026-01-12T15:36:26,725 adding 'lobster/ui/components/status_display.py' 2026-01-12T15:36:26,727 adding 'lobster/ui/formatters/__init__.py' 2026-01-12T15:36:26,728 adding 'lobster/ui/screens/__init__.py' 2026-01-12T15:36:26,732 adding 'lobster/ui/screens/analysis_screen.py' 2026-01-12T15:36:26,733 adding 'lobster/ui/services/__init__.py' 2026-01-12T15:36:26,735 adding 'lobster/ui/services/error_service.py' 2026-01-12T15:36:26,737 adding 'lobster/ui/widgets/__init__.py' 2026-01-12T15:36:26,739 adding 'lobster/ui/widgets/activity_log.py' 2026-01-12T15:36:26,740 adding 'lobster/ui/widgets/adapters_panel.py' 2026-01-12T15:36:26,742 adding 'lobster/ui/widgets/agents_panel.py' 2026-01-12T15:36:26,743 adding 'lobster/ui/widgets/chat_message.py' 2026-01-12T15:36:26,745 adding 'lobster/ui/widgets/connections_panel.py' 2026-01-12T15:36:26,748 adding 'lobster/ui/widgets/data_hub.py' 2026-01-12T15:36:26,749 adding 'lobster/ui/widgets/error_modal.py' 2026-01-12T15:36:26,751 adding 'lobster/ui/widgets/modality_list.py' 2026-01-12T15:36:26,752 adding 'lobster/ui/widgets/plot_preview.py' 2026-01-12T15:36:26,754 adding 'lobster/ui/widgets/query_prompt.py' 2026-01-12T15:36:26,755 adding 'lobster/ui/widgets/queue_panel.py' 2026-01-12T15:36:26,757 adding 'lobster/ui/widgets/queue_status_bar.py' 2026-01-12T15:36:26,758 adding 'lobster/ui/widgets/results_display.py' 2026-01-12T15:36:26,760 adding 'lobster/ui/widgets/status_bar.py' 2026-01-12T15:36:26,761 adding 'lobster/ui/widgets/system_info.py' 2026-01-12T15:36:26,763 adding 'lobster/ui/widgets/token_usage_panel.py' 2026-01-12T15:36:26,765 adding 'lobster/utils/__init__.py' 2026-01-12T15:36:26,770 adding 'lobster/utils/callbacks.py' 2026-01-12T15:36:26,772 adding 'lobster/utils/deviance.py' 2026-01-12T15:36:26,776 adding 'lobster/utils/error_handlers.py' 2026-01-12T15:36:26,779 adding 'lobster/utils/file_analyzer.py' 2026-01-12T15:36:26,781 adding 'lobster/utils/file_naming.py' 2026-01-12T15:36:26,783 adding 'lobster/utils/json_extractor.py' 2026-01-12T15:36:26,784 adding 'lobster/utils/logger.py' 2026-01-12T15:36:26,786 adding 'lobster/utils/progress_wrapper.py' 2026-01-12T15:36:26,787 adding 'lobster/utils/ssl_utils.py' 2026-01-12T15:36:26,789 adding 'lobster/utils/system.py' 2026-01-12T15:36:26,796 adding 'lobster_ai-0.4.3.7.dist-info/licenses/LICENSE' 2026-01-12T15:36:26,799 adding 'lobster_ai-0.4.3.7.dist-info/METADATA' 2026-01-12T15:36:26,800 adding 'lobster_ai-0.4.3.7.dist-info/WHEEL' 2026-01-12T15:36:26,801 adding 'lobster_ai-0.4.3.7.dist-info/entry_points.txt' 2026-01-12T15:36:26,802 adding 'lobster_ai-0.4.3.7.dist-info/top_level.txt' 2026-01-12T15:36:26,807 adding 'lobster_ai-0.4.3.7.dist-info/RECORD' 2026-01-12T15:36:26,827 removing build/bdist.linux-armv7l/wheel 2026-01-12T15:36:27,028 Building wheel for lobster-ai (pyproject.toml): finished with status 'done' 2026-01-12T15:36:27,066 Created wheel for lobster-ai: filename=lobster_ai-0.4.3.7-py3-none-any.whl size=1390112 sha256=1afa293c77ee76f5bae5d6fb353e616bfc2166a47ddb11566d5d5674a846897b 2026-01-12T15:36:27,067 Stored in directory: /tmp/pip-ephem-wheel-cache-4o53n_qx/wheels/18/4d/5c/9500afc30fe558f213788b2a49690b00b59f24a49ca1c2040a 2026-01-12T15:36:27,102 Successfully built lobster-ai 2026-01-12T15:36:27,160 Removed build tracker: '/tmp/pip-build-tracker-xeew05cc'