2026-01-11T20:40:37,679 Created temporary directory: /tmp/pip-ephem-wheel-cache-b29kkmay 2026-01-11T20:40:37,681 Created temporary directory: /tmp/pip-build-tracker-az308v6i 2026-01-11T20:40:37,682 Initialized build tracking at /tmp/pip-build-tracker-az308v6i 2026-01-11T20:40:37,682 Created build tracker: /tmp/pip-build-tracker-az308v6i 2026-01-11T20:40:37,683 Entered build tracker: /tmp/pip-build-tracker-az308v6i 2026-01-11T20:40:37,683 Created temporary directory: /tmp/pip-wheel-uzrixkk3 2026-01-11T20:40:37,686 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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https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.0.8-py3-none-any.whl#sha256=a66d81b7558824d17ab891c3a592ceb8ee53492f413d9cfdd89bdecd8fd1de85 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-11T20:40:38,206 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.0.7-py3-none-any.whl#sha256=cbee755d3f7ac5e1cd5b65bfe0309faa4acba90c1a6a1b32036010c45f0868d9 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-11T20:40:38,207 Skipping link: not a file: https://www.piwheels.org/simple/lobster-ai/ 2026-01-11T20:40:38,207 Skipping link: not a file: https://pypi.org/simple/lobster-ai/ 2026-01-11T20:40:38,229 Given no hashes to check 1 links for project 'lobster-ai': discarding no candidates 2026-01-11T20:40:38,247 Collecting lobster-ai==0.4.3.1 2026-01-11T20:40:38,249 Created temporary directory: /tmp/pip-unpack-yomqgt3_ 2026-01-11T20:40:38,475 Downloading lobster_ai-0.4.3.1.tar.gz (1.2 MB) 2026-01-11T20:40:39,865 Added lobster-ai==0.4.3.1 from https://files.pythonhosted.org/packages/fa/7e/bf878dedf963e1e84013b4745706bbd51c3bc83922939b209707bdde46cf/lobster_ai-0.4.3.1.tar.gz to build tracker '/tmp/pip-build-tracker-az308v6i' 2026-01-11T20:40:39,874 Created temporary directory: /tmp/pip-build-env-uogis3kr 2026-01-11T20:40:39,878 Installing build dependencies: started 2026-01-11T20:40:39,879 Running command pip subprocess to install build dependencies 2026-01-11T20:40:41,015 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-01-11T20:40:41,690 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 2026-01-11T20:40:41,713 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-11T20:40:43,411 Collecting setuptools>=65.0 2026-01-11T20:40:43,524 Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB) 2026-01-11T20:40:43,790 Collecting wheel 2026-01-11T20:40:43,807 Using cached https://www.piwheels.org/simple/wheel/wheel-0.45.1-py3-none-any.whl (72 kB) 2026-01-11T20:40:46,801 Installing collected packages: wheel, setuptools 2026-01-11T20:40:47,052 Creating /tmp/pip-build-env-uogis3kr/overlay/local/bin 2026-01-11T20:40:47,054 changing mode of /tmp/pip-build-env-uogis3kr/overlay/local/bin/wheel to 755 2026-01-11T20:40:50,704 Successfully installed setuptools-80.9.0 wheel-0.45.1 2026-01-11T20:40:50,978 Installing build dependencies: finished with status 'done' 2026-01-11T20:40:50,984 Getting requirements to build wheel: started 2026-01-11T20:40:50,986 Running command Getting requirements to build wheel 2026-01-11T20:40:51,653 /tmp/pip-build-env-uogis3kr/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-11T20:40:51,654 corresp(dist, value, root_dir) 2026-01-11T20:40:51,654 /tmp/pip-build-env-uogis3kr/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-11T20:40:51,655 corresp(dist, value, root_dir) 2026-01-11T20:40:51,656 /tmp/pip-build-env-uogis3kr/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-11T20:40:51,656 corresp(dist, value, root_dir) 2026-01-11T20:40:51,761 running egg_info 2026-01-11T20:40:51,769 writing lobster_ai.egg-info/PKG-INFO 2026-01-11T20:40:51,798 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-11T20:40:51,800 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-11T20:40:51,820 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-11T20:40:51,822 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-11T20:40:51,971 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-11T20:40:51,987 adding license file 'LICENSE' 2026-01-11T20:40:52,001 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-11T20:40:52,100 Getting requirements to build wheel: finished with status 'done' 2026-01-11T20:40:52,104 Created temporary directory: /tmp/pip-modern-metadata-pr2e5iq8 2026-01-11T20:40:52,106 Preparing metadata (pyproject.toml): started 2026-01-11T20:40:52,107 Running command Preparing metadata (pyproject.toml) 2026-01-11T20:40:52,731 /tmp/pip-build-env-uogis3kr/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-11T20:40:52,731 corresp(dist, value, root_dir) 2026-01-11T20:40:52,732 /tmp/pip-build-env-uogis3kr/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-11T20:40:52,733 corresp(dist, value, root_dir) 2026-01-11T20:40:52,733 /tmp/pip-build-env-uogis3kr/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-11T20:40:52,734 corresp(dist, value, root_dir) 2026-01-11T20:40:52,837 running dist_info 2026-01-11T20:40:52,850 creating /tmp/pip-modern-metadata-pr2e5iq8/lobster_ai.egg-info 2026-01-11T20:40:52,851 writing /tmp/pip-modern-metadata-pr2e5iq8/lobster_ai.egg-info/PKG-INFO 2026-01-11T20:40:52,881 writing dependency_links to /tmp/pip-modern-metadata-pr2e5iq8/lobster_ai.egg-info/dependency_links.txt 2026-01-11T20:40:52,883 writing entry points to /tmp/pip-modern-metadata-pr2e5iq8/lobster_ai.egg-info/entry_points.txt 2026-01-11T20:40:52,902 writing requirements to /tmp/pip-modern-metadata-pr2e5iq8/lobster_ai.egg-info/requires.txt 2026-01-11T20:40:52,903 writing top-level names to /tmp/pip-modern-metadata-pr2e5iq8/lobster_ai.egg-info/top_level.txt 2026-01-11T20:40:52,905 writing manifest file '/tmp/pip-modern-metadata-pr2e5iq8/lobster_ai.egg-info/SOURCES.txt' 2026-01-11T20:40:53,047 reading manifest file '/tmp/pip-modern-metadata-pr2e5iq8/lobster_ai.egg-info/SOURCES.txt' 2026-01-11T20:40:53,049 adding license file 'LICENSE' 2026-01-11T20:40:53,060 writing manifest file '/tmp/pip-modern-metadata-pr2e5iq8/lobster_ai.egg-info/SOURCES.txt' 2026-01-11T20:40:53,061 creating '/tmp/pip-modern-metadata-pr2e5iq8/lobster_ai-0.4.3.1.dist-info' 2026-01-11T20:40:53,191 Preparing metadata (pyproject.toml): finished with status 'done' 2026-01-11T20:40:53,198 Source in /tmp/pip-wheel-uzrixkk3/lobster-ai_bc84eee0413b4f07a6c0e76871d479aa has version 0.4.3.1, which satisfies requirement lobster-ai==0.4.3.1 from https://files.pythonhosted.org/packages/fa/7e/bf878dedf963e1e84013b4745706bbd51c3bc83922939b209707bdde46cf/lobster_ai-0.4.3.1.tar.gz 2026-01-11T20:40:53,199 Removed lobster-ai==0.4.3.1 from https://files.pythonhosted.org/packages/fa/7e/bf878dedf963e1e84013b4745706bbd51c3bc83922939b209707bdde46cf/lobster_ai-0.4.3.1.tar.gz from build tracker '/tmp/pip-build-tracker-az308v6i' 2026-01-11T20:40:53,210 Created temporary directory: /tmp/pip-unpack-wiq_p4e9 2026-01-11T20:40:53,210 Building wheels for collected packages: lobster-ai 2026-01-11T20:40:53,215 Created temporary directory: /tmp/pip-wheel-wyf8xbrp 2026-01-11T20:40:53,216 Destination directory: /tmp/pip-wheel-wyf8xbrp 2026-01-11T20:40:53,218 Building wheel for lobster-ai (pyproject.toml): started 2026-01-11T20:40:53,220 Running command Building wheel for lobster-ai (pyproject.toml) 2026-01-11T20:40:53,828 /tmp/pip-build-env-uogis3kr/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-11T20:40:53,828 corresp(dist, value, root_dir) 2026-01-11T20:40:53,829 /tmp/pip-build-env-uogis3kr/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-11T20:40:53,829 corresp(dist, value, root_dir) 2026-01-11T20:40:53,830 /tmp/pip-build-env-uogis3kr/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-11T20:40:53,830 corresp(dist, value, root_dir) 2026-01-11T20:40:53,922 running bdist_wheel 2026-01-11T20:40:53,943 running build 2026-01-11T20:40:53,943 running build_py 2026-01-11T20:40:53,950 creating build/lib/lobster 2026-01-11T20:40:53,952 copying lobster/version.py -> build/lib/lobster 2026-01-11T20:40:53,954 copying lobster/_version.py -> build/lib/lobster 2026-01-11T20:40:53,956 copying lobster/__main__.py -> build/lib/lobster 2026-01-11T20:40:53,958 copying lobster/cli.py -> build/lib/lobster 2026-01-11T20:40:53,965 copying lobster/main.py -> build/lib/lobster 2026-01-11T20:40:53,967 creating build/lib/lobster/config 2026-01-11T20:40:53,968 copying lobster/config/supervisor_config.py -> build/lib/lobster/config 2026-01-11T20:40:53,971 copying lobster/config/agent_config.py -> build/lib/lobster/config 2026-01-11T20:40:53,974 copying lobster/config/ollama_service.py -> build/lib/lobster/config 2026-01-11T20:40:53,977 copying lobster/config/workspace_config.py -> build/lib/lobster/config 2026-01-11T20:40:53,979 copying lobster/config/base_config.py -> build/lib/lobster/config 2026-01-11T20:40:53,981 copying lobster/config/ssl_setup.py -> build/lib/lobster/config 2026-01-11T20:40:53,984 copying lobster/config/version_check.py -> build/lib/lobster/config 2026-01-11T20:40:53,987 copying lobster/config/llm_factory.py -> build/lib/lobster/config 2026-01-11T20:40:53,990 copying lobster/config/global_config.py -> build/lib/lobster/config 2026-01-11T20:40:53,992 copying lobster/config/provider_setup.py -> build/lib/lobster/config 2026-01-11T20:40:53,995 copying lobster/config/config_manager.py -> build/lib/lobster/config 2026-01-11T20:40:53,998 copying lobster/config/agent_registry.py -> build/lib/lobster/config 2026-01-11T20:40:54,000 copying lobster/config/model_service.py -> build/lib/lobster/config 2026-01-11T20:40:54,003 copying lobster/config/__init__.py -> build/lib/lobster/config 2026-01-11T20:40:54,005 copying lobster/config/settings.py -> build/lib/lobster/config 2026-01-11T20:40:54,008 copying lobster/config/agent_capabilities.py -> build/lib/lobster/config 2026-01-11T20:40:54,010 copying lobster/config/subscription_tiers.py -> build/lib/lobster/config 2026-01-11T20:40:54,013 copying lobster/config/constants.py -> build/lib/lobster/config 2026-01-11T20:40:54,015 creating build/lib/lobster/utils 2026-01-11T20:40:54,016 copying lobster/utils/system.py -> build/lib/lobster/utils 2026-01-11T20:40:54,019 copying lobster/utils/callbacks.py -> build/lib/lobster/utils 2026-01-11T20:40:54,022 copying lobster/utils/json_extractor.py -> build/lib/lobster/utils 2026-01-11T20:40:54,025 copying lobster/utils/file_analyzer.py -> build/lib/lobster/utils 2026-01-11T20:40:54,028 copying lobster/utils/__init__.py -> build/lib/lobster/utils 2026-01-11T20:40:54,029 copying lobster/utils/ssl_utils.py -> build/lib/lobster/utils 2026-01-11T20:40:54,032 copying lobster/utils/error_handlers.py -> build/lib/lobster/utils 2026-01-11T20:40:54,035 copying lobster/utils/file_naming.py -> build/lib/lobster/utils 2026-01-11T20:40:54,037 copying lobster/utils/logger.py -> build/lib/lobster/utils 2026-01-11T20:40:54,039 copying lobster/utils/deviance.py -> build/lib/lobster/utils 2026-01-11T20:40:54,041 copying lobster/utils/progress_wrapper.py -> build/lib/lobster/utils 2026-01-11T20:40:54,044 creating build/lib/lobster/cli_internal 2026-01-11T20:40:54,045 copying lobster/cli_internal/__init__.py -> build/lib/lobster/cli_internal 2026-01-11T20:40:54,048 creating build/lib/lobster/lobster_cloud 2026-01-11T20:40:54,049 copying lobster/lobster_cloud/client.py -> build/lib/lobster/lobster_cloud 2026-01-11T20:40:54,051 copying lobster/lobster_cloud/__init__.py -> build/lib/lobster/lobster_cloud 2026-01-11T20:40:54,054 creating build/lib/lobster/tools 2026-01-11T20:40:54,055 copying lobster/tools/expert_handoff_manager.py -> build/lib/lobster/tools 2026-01-11T20:40:54,058 copying lobster/tools/gpu_detector.py -> build/lib/lobster/tools 2026-01-11T20:40:54,060 copying lobster/tools/geo_parser.py -> build/lib/lobster/tools 2026-01-11T20:40:54,062 copying lobster/tools/download_orchestrator.py -> build/lib/lobster/tools 2026-01-11T20:40:54,065 copying lobster/tools/workflow_tracker.py -> build/lib/lobster/tools 2026-01-11T20:40:54,068 copying lobster/tools/todo_tools.py -> build/lib/lobster/tools 2026-01-11T20:40:54,070 copying lobster/tools/custom_code_tool.py -> build/lib/lobster/tools 2026-01-11T20:40:54,073 copying lobster/tools/rate_limiter.py -> build/lib/lobster/tools 2026-01-11T20:40:54,076 copying lobster/tools/expert_handoff_patterns.py -> build/lib/lobster/tools 2026-01-11T20:40:54,079 copying lobster/tools/pipeline_strategy.py -> build/lib/lobster/tools 2026-01-11T20:40:54,081 copying lobster/tools/geo_downloader.py -> build/lib/lobster/tools 2026-01-11T20:40:54,083 copying lobster/tools/__init__.py -> build/lib/lobster/tools 2026-01-11T20:40:54,085 copying lobster/tools/enhanced_handoff_tool.py -> build/lib/lobster/tools 2026-01-11T20:40:54,087 copying lobster/tools/handoff_tool.py -> build/lib/lobster/tools 2026-01-11T20:40:54,090 copying lobster/tools/url_transforms.py -> build/lib/lobster/tools 2026-01-11T20:40:54,092 copying lobster/tools/workspace_tool.py -> build/lib/lobster/tools 2026-01-11T20:40:54,098 creating build/lib/lobster/core 2026-01-11T20:40:54,099 copying lobster/core/notebook_validator.py -> build/lib/lobster/core 2026-01-11T20:40:54,101 copying lobster/core/ir_coverage.py -> build/lib/lobster/core 2026-01-11T20:40:54,104 copying lobster/core/exceptions.py -> build/lib/lobster/core 2026-01-11T20:40:54,106 copying lobster/core/plugin_loader.py -> build/lib/lobster/core 2026-01-11T20:40:54,109 copying lobster/core/provenance.py -> build/lib/lobster/core 2026-01-11T20:40:54,112 copying lobster/core/client.py -> build/lib/lobster/core 2026-01-11T20:40:54,116 copying lobster/core/data_manager_v2.py -> build/lib/lobster/core 2026-01-11T20:40:54,121 copying lobster/core/publication_queue.py -> build/lib/lobster/core 2026-01-11T20:40:54,124 copying lobster/core/plot_manager.py -> build/lib/lobster/core 2026-01-11T20:40:54,126 copying lobster/core/archive_utils.py -> build/lib/lobster/core 2026-01-11T20:40:54,129 copying lobster/core/__init__.py -> build/lib/lobster/core 2026-01-11T20:40:54,131 copying lobster/core/analysis_ir.py -> build/lib/lobster/core 2026-01-11T20:40:54,134 copying lobster/core/config_resolver.py -> build/lib/lobster/core 2026-01-11T20:40:54,136 copying lobster/core/notebook_exporter.py -> build/lib/lobster/core 2026-01-11T20:40:54,139 copying lobster/core/license_manager.py -> build/lib/lobster/core 2026-01-11T20:40:54,142 copying lobster/core/component_registry.py -> build/lib/lobster/core 2026-01-11T20:40:54,145 copying lobster/core/notebook_executor.py -> build/lib/lobster/core 2026-01-11T20:40:54,148 copying lobster/core/download_queue.py -> build/lib/lobster/core 2026-01-11T20:40:54,151 copying lobster/core/queue_storage.py -> build/lib/lobster/core 2026-01-11T20:40:54,153 copying lobster/core/ris_parser.py -> build/lib/lobster/core 2026-01-11T20:40:54,156 copying lobster/core/workspace.py -> build/lib/lobster/core 2026-01-11T20:40:54,159 creating build/lib/lobster/ui 2026-01-11T20:40:54,160 copying lobster/ui/console_manager.py -> build/lib/lobster/ui 2026-01-11T20:40:54,163 copying lobster/ui/progress_manager.py -> build/lib/lobster/ui 2026-01-11T20:40:54,166 copying lobster/ui/live_dashboard.py -> build/lib/lobster/ui 2026-01-11T20:40:54,169 copying lobster/ui/themes.py -> build/lib/lobster/ui 2026-01-11T20:40:54,171 copying lobster/ui/os_app.py -> build/lib/lobster/ui 2026-01-11T20:40:54,173 copying lobster/ui/__init__.py -> build/lib/lobster/ui 2026-01-11T20:40:54,175 copying lobster/ui/commands.py -> build/lib/lobster/ui 2026-01-11T20:40:54,178 creating build/lib/lobster/services 2026-01-11T20:40:54,179 copying lobster/services/__init__.py -> build/lib/lobster/services 2026-01-11T20:40:54,181 creating build/lib/lobster/agents 2026-01-11T20:40:54,182 copying lobster/agents/draw_graph.py -> build/lib/lobster/agents 2026-01-11T20:40:54,184 copying lobster/agents/graph.py -> build/lib/lobster/agents 2026-01-11T20:40:54,187 copying lobster/agents/data_expert_assistant.py -> build/lib/lobster/agents 2026-01-11T20:40:54,190 copying lobster/agents/data_expert.py -> build/lib/lobster/agents 2026-01-11T20:40:54,193 copying lobster/agents/state.py -> build/lib/lobster/agents 2026-01-11T20:40:54,196 copying lobster/agents/__init__.py -> build/lib/lobster/agents 2026-01-11T20:40:54,198 copying lobster/agents/research_agent.py -> build/lib/lobster/agents 2026-01-11T20:40:54,203 copying lobster/agents/visualization_expert.py -> build/lib/lobster/agents 2026-01-11T20:40:54,206 copying lobster/agents/supervisor.py -> build/lib/lobster/agents 2026-01-11T20:40:54,209 creating build/lib/lobster/config/providers 2026-01-11T20:40:54,211 copying lobster/config/providers/ollama_provider.py -> build/lib/lobster/config/providers 2026-01-11T20:40:54,213 copying lobster/config/providers/bedrock_provider.py -> build/lib/lobster/config/providers 2026-01-11T20:40:54,216 copying lobster/config/providers/__init__.py -> build/lib/lobster/config/providers 2026-01-11T20:40:54,218 copying lobster/config/providers/registry.py -> build/lib/lobster/config/providers 2026-01-11T20:40:54,221 copying lobster/config/providers/gemini_provider.py -> build/lib/lobster/config/providers 2026-01-11T20:40:54,223 copying lobster/config/providers/base_provider.py -> build/lib/lobster/config/providers 2026-01-11T20:40:54,226 copying lobster/config/providers/anthropic_provider.py -> build/lib/lobster/config/providers 2026-01-11T20:40:54,229 creating build/lib/lobster/cli_internal/utils 2026-01-11T20:40:54,230 copying lobster/cli_internal/utils/path_resolution.py -> build/lib/lobster/cli_internal/utils 2026-01-11T20:40:54,233 copying lobster/cli_internal/utils/__init__.py -> build/lib/lobster/cli_internal/utils 2026-01-11T20:40:54,235 creating build/lib/lobster/cli_internal/commands 2026-01-11T20:40:54,236 copying lobster/cli_internal/commands/output_adapter.py -> build/lib/lobster/cli_internal/commands 2026-01-11T20:40:54,239 copying lobster/cli_internal/commands/__init__.py -> build/lib/lobster/cli_internal/commands 2026-01-11T20:40:54,242 creating build/lib/lobster/cli_internal/commands/heavy 2026-01-11T20:40:54,243 copying lobster/cli_internal/commands/heavy/visualization_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-11T20:40:54,246 copying lobster/cli_internal/commands/heavy/__init__.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-11T20:40:54,248 copying lobster/cli_internal/commands/heavy/modality_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-11T20:40:54,251 copying lobster/cli_internal/commands/heavy/data_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-11T20:40:54,254 creating build/lib/lobster/cli_internal/commands/light 2026-01-11T20:40:54,255 copying lobster/cli_internal/commands/light/workspace_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T20:40:54,258 copying lobster/cli_internal/commands/light/__init__.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T20:40:54,260 copying lobster/cli_internal/commands/light/pipeline_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T20:40:54,263 copying lobster/cli_internal/commands/light/queue_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T20:40:54,265 copying lobster/cli_internal/commands/light/config_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T20:40:54,268 copying lobster/cli_internal/commands/light/metadata_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T20:40:54,271 copying lobster/cli_internal/commands/light/file_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T20:40:54,275 creating build/lib/lobster/tools/providers 2026-01-11T20:40:54,276 copying lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,279 copying lobster/tools/providers/geo_provider.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,282 copying lobster/tools/providers/biorxiv_medrxiv_config.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,284 copying lobster/tools/providers/organism_enum.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,287 copying lobster/tools/providers/publication_resolver.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,290 copying lobster/tools/providers/pride_provider.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,293 copying lobster/tools/providers/webpage_provider.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,296 copying lobster/tools/providers/massive_provider.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,298 copying lobster/tools/providers/ncbi_query_builder.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,302 copying lobster/tools/providers/__init__.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,304 copying lobster/tools/providers/pdb_provider.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,307 copying lobster/tools/providers/pmc_provider.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,311 copying lobster/tools/providers/biopython_entrez_wrapper.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,314 copying lobster/tools/providers/abstract_provider.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,317 copying lobster/tools/providers/pride_normalizer.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,320 copying lobster/tools/providers/geo_utils.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,322 copying lobster/tools/providers/structure_provider.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,325 copying lobster/tools/providers/base_provider.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,328 copying lobster/tools/providers/pubmed_provider.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,332 copying lobster/tools/providers/provider_registry.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,335 copying lobster/tools/providers/sra_provider.py -> build/lib/lobster/tools/providers 2026-01-11T20:40:54,340 creating build/lib/lobster/tools/archive 2026-01-11T20:40:54,341 copying lobster/tools/archive/unified_content_service.py -> build/lib/lobster/tools/archive 2026-01-11T20:40:54,344 copying lobster/tools/archive/publication_service.py -> build/lib/lobster/tools/archive 2026-01-11T20:40:54,347 creating build/lib/lobster/core/identifiers 2026-01-11T20:40:54,348 copying lobster/core/identifiers/accession_resolver.py -> build/lib/lobster/core/identifiers 2026-01-11T20:40:54,351 copying lobster/core/identifiers/__init__.py -> build/lib/lobster/core/identifiers 2026-01-11T20:40:54,354 creating build/lib/lobster/core/backends 2026-01-11T20:40:54,355 copying lobster/core/backends/base.py -> build/lib/lobster/core/backends 2026-01-11T20:40:54,358 copying lobster/core/backends/h5ad_backend.py -> build/lib/lobster/core/backends 2026-01-11T20:40:54,361 copying lobster/core/backends/__init__.py -> build/lib/lobster/core/backends 2026-01-11T20:40:54,363 copying lobster/core/backends/mudata_backend.py -> build/lib/lobster/core/backends 2026-01-11T20:40:54,366 creating build/lib/lobster/core/adapters 2026-01-11T20:40:54,367 copying lobster/core/adapters/base.py -> build/lib/lobster/core/adapters 2026-01-11T20:40:54,370 copying lobster/core/adapters/pseudobulk_adapter.py -> build/lib/lobster/core/adapters 2026-01-11T20:40:54,373 copying lobster/core/adapters/proteomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-11T20:40:54,376 copying lobster/core/adapters/__init__.py -> build/lib/lobster/core/adapters 2026-01-11T20:40:54,377 copying lobster/core/adapters/protein_structure_adapter.py -> build/lib/lobster/core/adapters 2026-01-11T20:40:54,380 copying lobster/core/adapters/transcriptomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-11T20:40:54,384 creating build/lib/lobster/core/schemas 2026-01-11T20:40:54,385 copying lobster/core/schemas/database_registry.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,387 copying lobster/core/schemas/export_schemas.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,390 copying lobster/core/schemas/validation.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,393 copying lobster/core/schemas/transcriptomics.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,397 copying lobster/core/schemas/metagenomics.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,400 copying lobster/core/schemas/metabolomics.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,404 copying lobster/core/schemas/publication_queue.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,406 copying lobster/core/schemas/ontology.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,408 copying lobster/core/schemas/protein_structure.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,411 copying lobster/core/schemas/download_urls.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,414 copying lobster/core/schemas/__init__.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,416 copying lobster/core/schemas/sra.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,419 copying lobster/core/schemas/database_mappings.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,422 copying lobster/core/schemas/download_queue.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,424 copying lobster/core/schemas/proteomics.py -> build/lib/lobster/core/schemas 2026-01-11T20:40:54,428 creating build/lib/lobster/core/utils 2026-01-11T20:40:54,429 copying lobster/core/utils/h5ad_utils.py -> build/lib/lobster/core/utils 2026-01-11T20:40:54,431 copying lobster/core/utils/__init__.py -> build/lib/lobster/core/utils 2026-01-11T20:40:54,434 creating build/lib/lobster/core/interfaces 2026-01-11T20:40:54,435 copying lobster/core/interfaces/adapter.py -> build/lib/lobster/core/interfaces 2026-01-11T20:40:54,437 copying lobster/core/interfaces/validator.py -> build/lib/lobster/core/interfaces 2026-01-11T20:40:54,440 copying lobster/core/interfaces/base_client.py -> build/lib/lobster/core/interfaces 2026-01-11T20:40:54,442 copying lobster/core/interfaces/backend.py -> build/lib/lobster/core/interfaces 2026-01-11T20:40:54,444 copying lobster/core/interfaces/__init__.py -> build/lib/lobster/core/interfaces 2026-01-11T20:40:54,446 copying lobster/core/interfaces/download_service.py -> build/lib/lobster/core/interfaces 2026-01-11T20:40:54,450 creating build/lib/lobster/ui/widgets 2026-01-11T20:40:54,451 copying lobster/ui/widgets/query_prompt.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,453 copying lobster/ui/widgets/error_modal.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,455 copying lobster/ui/widgets/chat_message.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,457 copying lobster/ui/widgets/queue_status_bar.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,460 copying lobster/ui/widgets/activity_log.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,462 copying lobster/ui/widgets/results_display.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,464 copying lobster/ui/widgets/connections_panel.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,466 copying lobster/ui/widgets/data_hub.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,468 copying lobster/ui/widgets/token_usage_panel.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,471 copying lobster/ui/widgets/__init__.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,472 copying lobster/ui/widgets/agents_panel.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,475 copying lobster/ui/widgets/adapters_panel.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,477 copying lobster/ui/widgets/plot_preview.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,479 copying lobster/ui/widgets/queue_panel.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,481 copying lobster/ui/widgets/system_info.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,484 copying lobster/ui/widgets/modality_list.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,486 copying lobster/ui/widgets/status_bar.py -> build/lib/lobster/ui/widgets 2026-01-11T20:40:54,488 creating build/lib/lobster/ui/callbacks 2026-01-11T20:40:54,489 copying lobster/ui/callbacks/__init__.py -> build/lib/lobster/ui/callbacks 2026-01-11T20:40:54,491 copying lobster/ui/callbacks/textual_callback.py -> build/lib/lobster/ui/callbacks 2026-01-11T20:40:54,494 creating build/lib/lobster/ui/screens 2026-01-11T20:40:54,495 copying lobster/ui/screens/analysis_screen.py -> build/lib/lobster/ui/screens 2026-01-11T20:40:54,498 copying lobster/ui/screens/__init__.py -> build/lib/lobster/ui/screens 2026-01-11T20:40:54,501 creating build/lib/lobster/ui/formatters 2026-01-11T20:40:54,502 copying lobster/ui/formatters/__init__.py -> build/lib/lobster/ui/formatters 2026-01-11T20:40:54,504 creating build/lib/lobster/ui/services 2026-01-11T20:40:54,505 copying lobster/ui/services/__init__.py -> build/lib/lobster/ui/services 2026-01-11T20:40:54,507 copying lobster/ui/services/error_service.py -> build/lib/lobster/ui/services 2026-01-11T20:40:54,510 creating build/lib/lobster/ui/components 2026-01-11T20:40:54,511 copying lobster/ui/components/status_display.py -> build/lib/lobster/ui/components 2026-01-11T20:40:54,514 copying lobster/ui/components/multi_progress.py -> build/lib/lobster/ui/components 2026-01-11T20:40:54,517 copying lobster/ui/components/file_tree.py -> build/lib/lobster/ui/components 2026-01-11T20:40:54,519 copying lobster/ui/components/parallel_workers_progress.py -> build/lib/lobster/ui/components 2026-01-11T20:40:54,522 copying lobster/ui/components/__init__.py -> build/lib/lobster/ui/components 2026-01-11T20:40:54,524 creating build/lib/lobster/services/data_management 2026-01-11T20:40:54,525 copying lobster/services/data_management/concatenation_service.py -> build/lib/lobster/services/data_management 2026-01-11T20:40:54,529 copying lobster/services/data_management/__init__.py -> build/lib/lobster/services/data_management 2026-01-11T20:40:54,531 copying lobster/services/data_management/modality_management_service.py -> build/lib/lobster/services/data_management 2026-01-11T20:40:54,534 creating build/lib/lobster/services/metadata 2026-01-11T20:40:54,535 copying lobster/services/metadata/manual_annotation_service.py -> build/lib/lobster/services/metadata 2026-01-11T20:40:54,538 copying lobster/services/metadata/metadata_validation_service.py -> build/lib/lobster/services/metadata 2026-01-11T20:40:54,541 copying lobster/services/metadata/__init__.py -> build/lib/lobster/services/metadata 2026-01-11T20:40:54,542 copying lobster/services/metadata/identifier_provenance_service.py -> build/lib/lobster/services/metadata 2026-01-11T20:40:54,545 copying lobster/services/metadata/sample_grouping_service.py -> build/lib/lobster/services/metadata 2026-01-11T20:40:54,547 copying lobster/services/metadata/metadata_standardization_service.py -> build/lib/lobster/services/metadata 2026-01-11T20:40:54,551 creating build/lib/lobster/services/orchestration 2026-01-11T20:40:54,552 copying lobster/services/orchestration/__init__.py -> build/lib/lobster/services/orchestration 2026-01-11T20:40:54,554 copying lobster/services/orchestration/publication_processing_service.py -> build/lib/lobster/services/orchestration 2026-01-11T20:40:54,558 creating build/lib/lobster/services/ml 2026-01-11T20:40:54,559 copying lobster/services/ml/__init__.py -> build/lib/lobster/services/ml 2026-01-11T20:40:54,562 creating build/lib/lobster/services/analysis 2026-01-11T20:40:54,563 copying lobster/services/analysis/enhanced_singlecell_service.py -> build/lib/lobster/services/analysis 2026-01-11T20:40:54,566 copying lobster/services/analysis/scvi_embedding_service.py -> build/lib/lobster/services/analysis 2026-01-11T20:40:54,568 copying lobster/services/analysis/differential_formula_service.py -> build/lib/lobster/services/analysis 2026-01-11T20:40:54,571 copying lobster/services/analysis/structure_analysis_service.py -> build/lib/lobster/services/analysis 2026-01-11T20:40:54,574 copying lobster/services/analysis/bulk_rnaseq_service.py -> build/lib/lobster/services/analysis 2026-01-11T20:40:54,578 copying lobster/services/analysis/clustering_service.py -> build/lib/lobster/services/analysis 2026-01-11T20:40:54,583 copying lobster/services/analysis/__init__.py -> build/lib/lobster/services/analysis 2026-01-11T20:40:54,584 copying lobster/services/analysis/pseudobulk_service.py -> build/lib/lobster/services/analysis 2026-01-11T20:40:54,587 creating build/lib/lobster/services/visualization 2026-01-11T20:40:54,588 copying lobster/services/visualization/visualization_service.py -> build/lib/lobster/services/visualization 2026-01-11T20:40:54,593 copying lobster/services/visualization/pymol_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-11T20:40:54,596 copying lobster/services/visualization/__init__.py -> build/lib/lobster/services/visualization 2026-01-11T20:40:54,597 copying lobster/services/visualization/bulk_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-11T20:40:54,601 creating build/lib/lobster/services/quality 2026-01-11T20:40:54,602 copying lobster/services/quality/quality_service.py -> build/lib/lobster/services/quality 2026-01-11T20:40:54,605 copying lobster/services/quality/preprocessing_service.py -> build/lib/lobster/services/quality 2026-01-11T20:40:54,608 copying lobster/services/quality/__init__.py -> build/lib/lobster/services/quality 2026-01-11T20:40:54,611 creating build/lib/lobster/services/data_access 2026-01-11T20:40:54,612 copying lobster/services/data_access/pride_download_service.py -> build/lib/lobster/services/data_access 2026-01-11T20:40:54,614 copying lobster/services/data_access/geo_fallback_service.py -> build/lib/lobster/services/data_access 2026-01-11T20:40:54,617 copying lobster/services/data_access/massive_download_service.py -> build/lib/lobster/services/data_access 2026-01-11T20:40:54,620 copying lobster/services/data_access/docling_service.py -> build/lib/lobster/services/data_access 2026-01-11T20:40:54,624 copying lobster/services/data_access/__init__.py -> build/lib/lobster/services/data_access 2026-01-11T20:40:54,626 copying lobster/services/data_access/content_access_service.py -> build/lib/lobster/services/data_access 2026-01-11T20:40:54,630 copying lobster/services/data_access/geo_download_service.py -> build/lib/lobster/services/data_access 2026-01-11T20:40:54,633 copying lobster/services/data_access/workspace_content_service.py -> build/lib/lobster/services/data_access 2026-01-11T20:40:54,636 copying lobster/services/data_access/protein_structure_fetch_service.py -> build/lib/lobster/services/data_access 2026-01-11T20:40:54,639 copying lobster/services/data_access/sra_download_service.py -> build/lib/lobster/services/data_access 2026-01-11T20:40:54,642 copying lobster/services/data_access/geo_service.py -> build/lib/lobster/services/data_access 2026-01-11T20:40:54,648 creating build/lib/lobster/services/templates 2026-01-11T20:40:54,649 copying lobster/services/templates/annotation_templates.py -> build/lib/lobster/services/templates 2026-01-11T20:40:54,652 copying lobster/services/templates/__init__.py -> build/lib/lobster/services/templates 2026-01-11T20:40:54,654 creating build/lib/lobster/services/execution 2026-01-11T20:40:54,655 copying lobster/services/execution/execution_context_builder.py -> build/lib/lobster/services/execution 2026-01-11T20:40:54,657 copying lobster/services/execution/custom_code_execution_service.py -> build/lib/lobster/services/execution 2026-01-11T20:40:54,660 copying lobster/services/execution/__init__.py -> build/lib/lobster/services/execution 2026-01-11T20:40:54,662 creating build/lib/lobster/services/metadata/protocol_extraction 2026-01-11T20:40:54,663 copying lobster/services/metadata/protocol_extraction/base.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-11T20:40:54,665 copying lobster/services/metadata/protocol_extraction/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-11T20:40:54,668 creating build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T20:40:54,669 copying lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T20:40:54,672 copying lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T20:40:54,674 copying lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T20:40:54,676 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T20:40:54,677 copying lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T20:40:54,680 copying lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T20:40:54,682 copying lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T20:40:54,685 creating build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T20:40:54,686 copying lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T20:40:54,688 copying lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T20:40:54,690 copying lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T20:40:54,693 creating build/lib/lobster/services/data_access/geo 2026-01-11T20:40:54,694 copying lobster/services/data_access/geo/parser.py -> build/lib/lobster/services/data_access/geo 2026-01-11T20:40:54,698 copying lobster/services/data_access/geo/facade.py -> build/lib/lobster/services/data_access/geo 2026-01-11T20:40:54,700 copying lobster/services/data_access/geo/__init__.py -> build/lib/lobster/services/data_access/geo 2026-01-11T20:40:54,702 copying lobster/services/data_access/geo/downloader.py -> build/lib/lobster/services/data_access/geo 2026-01-11T20:40:54,704 copying lobster/services/data_access/geo/strategy.py -> build/lib/lobster/services/data_access/geo 2026-01-11T20:40:54,707 copying lobster/services/data_access/geo/constants.py -> build/lib/lobster/services/data_access/geo 2026-01-11T20:40:54,710 creating build/lib/lobster/services/data_access/geo/metadata 2026-01-11T20:40:54,711 copying lobster/services/data_access/geo/metadata/__init__.py -> build/lib/lobster/services/data_access/geo/metadata 2026-01-11T20:40:54,714 creating build/lib/lobster/services/data_access/geo/utils 2026-01-11T20:40:54,715 copying lobster/services/data_access/geo/utils/__init__.py -> build/lib/lobster/services/data_access/geo/utils 2026-01-11T20:40:54,718 creating build/lib/lobster/services/data_access/geo/sample 2026-01-11T20:40:54,719 copying lobster/services/data_access/geo/sample/__init__.py -> build/lib/lobster/services/data_access/geo/sample 2026-01-11T20:40:54,721 creating build/lib/lobster/services/data_access/geo/loaders 2026-01-11T20:40:54,722 copying lobster/services/data_access/geo/loaders/__init__.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-11T20:40:54,724 copying lobster/services/data_access/geo/loaders/tenx.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-11T20:40:54,727 creating build/lib/lobster/agents/proteomics 2026-01-11T20:40:54,728 copying lobster/agents/proteomics/state.py -> build/lib/lobster/agents/proteomics 2026-01-11T20:40:54,730 copying lobster/agents/proteomics/__init__.py -> build/lib/lobster/agents/proteomics 2026-01-11T20:40:54,733 creating build/lib/lobster/agents/transcriptomics 2026-01-11T20:40:54,734 copying lobster/agents/transcriptomics/transcriptomics_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-11T20:40:54,737 copying lobster/agents/transcriptomics/de_analysis_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-11T20:40:54,741 copying lobster/agents/transcriptomics/shared_tools.py -> build/lib/lobster/agents/transcriptomics 2026-01-11T20:40:54,743 copying lobster/agents/transcriptomics/state.py -> build/lib/lobster/agents/transcriptomics 2026-01-11T20:40:54,745 copying lobster/agents/transcriptomics/__init__.py -> build/lib/lobster/agents/transcriptomics 2026-01-11T20:40:54,747 copying lobster/agents/transcriptomics/annotation_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-11T20:40:54,751 creating build/lib/lobster/agents/archive 2026-01-11T20:40:54,752 copying lobster/agents/archive/research_agent_assistant.py -> build/lib/lobster/agents/archive 2026-01-11T20:40:54,755 creating build/lib/lobster/agents/langgraph_supervisor 2026-01-11T20:40:54,756 copying lobster/agents/langgraph_supervisor/handoff.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-11T20:40:54,759 copying lobster/agents/langgraph_supervisor/agent_name.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-11T20:40:54,761 copying lobster/agents/langgraph_supervisor/__init__.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-11T20:40:54,763 copying lobster/agents/langgraph_supervisor/supervisor.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-11T20:40:54,766 running egg_info 2026-01-11T20:40:54,780 writing lobster_ai.egg-info/PKG-INFO 2026-01-11T20:40:54,823 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-11T20:40:54,825 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-11T20:40:54,854 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-11T20:40:54,855 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-11T20:40:54,984 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-11T20:40:55,000 adding license file 'LICENSE' 2026-01-11T20:40:55,014 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-11T20:40:55,103 copying lobster/config/disease_ontology.json -> build/lib/lobster/config 2026-01-11T20:40:55,106 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-11T20:40:55,107 copying lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-11T20:40:55,145 installing to build/bdist.linux-armv7l/wheel 2026-01-11T20:40:55,145 running install 2026-01-11T20:40:55,169 running install_lib 2026-01-11T20:40:55,176 creating build/bdist.linux-armv7l/wheel 2026-01-11T20:40:55,178 creating build/bdist.linux-armv7l/wheel/lobster 2026-01-11T20:40:55,180 creating build/bdist.linux-armv7l/wheel/lobster/config 2026-01-11T20:40:55,181 creating build/bdist.linux-armv7l/wheel/lobster/config/providers 2026-01-11T20:40:55,183 copying build/lib/lobster/config/providers/ollama_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T20:40:55,185 copying build/lib/lobster/config/providers/bedrock_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T20:40:55,187 copying build/lib/lobster/config/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T20:40:55,189 copying build/lib/lobster/config/providers/registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T20:40:55,191 copying build/lib/lobster/config/providers/gemini_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T20:40:55,193 copying build/lib/lobster/config/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T20:40:55,195 copying build/lib/lobster/config/providers/anthropic_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T20:40:55,198 copying build/lib/lobster/config/supervisor_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,200 copying build/lib/lobster/config/agent_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,202 copying build/lib/lobster/config/ollama_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,204 copying build/lib/lobster/config/workspace_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,207 copying build/lib/lobster/config/base_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,208 copying build/lib/lobster/config/ssl_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,211 copying build/lib/lobster/config/version_check.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,213 copying build/lib/lobster/config/llm_factory.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,215 copying build/lib/lobster/config/global_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,217 copying build/lib/lobster/config/provider_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,220 copying build/lib/lobster/config/config_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,222 copying build/lib/lobster/config/agent_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,224 copying build/lib/lobster/config/model_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,227 copying build/lib/lobster/config/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,228 copying build/lib/lobster/config/settings.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,231 copying build/lib/lobster/config/agent_capabilities.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,233 copying build/lib/lobster/config/disease_ontology.json -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,235 copying build/lib/lobster/config/subscription_tiers.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,237 copying build/lib/lobster/config/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T20:40:55,239 copying build/lib/lobster/version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-11T20:40:55,241 creating build/bdist.linux-armv7l/wheel/lobster/utils 2026-01-11T20:40:55,242 copying build/lib/lobster/utils/system.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T20:40:55,245 copying build/lib/lobster/utils/callbacks.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T20:40:55,248 copying build/lib/lobster/utils/json_extractor.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T20:40:55,250 copying build/lib/lobster/utils/file_analyzer.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T20:40:55,252 copying build/lib/lobster/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T20:40:55,254 copying build/lib/lobster/utils/ssl_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T20:40:55,256 copying build/lib/lobster/utils/error_handlers.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T20:40:55,259 copying build/lib/lobster/utils/file_naming.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T20:40:55,261 copying build/lib/lobster/utils/logger.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T20:40:55,262 copying build/lib/lobster/utils/deviance.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T20:40:55,264 copying build/lib/lobster/utils/progress_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T20:40:55,267 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal 2026-01-11T20:40:55,268 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/utils 2026-01-11T20:40:55,269 copying build/lib/lobster/cli_internal/utils/path_resolution.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-11T20:40:55,272 copying build/lib/lobster/cli_internal/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-11T20:40:55,273 copying build/lib/lobster/cli_internal/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal 2026-01-11T20:40:55,276 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands 2026-01-11T20:40:55,277 copying build/lib/lobster/cli_internal/commands/output_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-11T20:40:55,279 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/heavy 2026-01-11T20:40:55,280 copying build/lib/lobster/cli_internal/commands/heavy/visualization_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-11T20:40:55,283 copying build/lib/lobster/cli_internal/commands/heavy/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-11T20:40:55,285 copying build/lib/lobster/cli_internal/commands/heavy/modality_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-11T20:40:55,287 copying build/lib/lobster/cli_internal/commands/heavy/data_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-11T20:40:55,290 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/light 2026-01-11T20:40:55,291 copying build/lib/lobster/cli_internal/commands/light/workspace_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T20:40:55,294 copying build/lib/lobster/cli_internal/commands/light/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T20:40:55,295 copying build/lib/lobster/cli_internal/commands/light/pipeline_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T20:40:55,298 copying build/lib/lobster/cli_internal/commands/light/queue_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T20:40:55,300 copying build/lib/lobster/cli_internal/commands/light/config_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T20:40:55,303 copying build/lib/lobster/cli_internal/commands/light/metadata_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T20:40:55,306 copying build/lib/lobster/cli_internal/commands/light/file_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T20:40:55,309 copying build/lib/lobster/cli_internal/commands/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-11T20:40:55,311 copying build/lib/lobster/_version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-11T20:40:55,313 copying build/lib/lobster/__main__.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-11T20:40:55,315 creating build/bdist.linux-armv7l/wheel/lobster/lobster_cloud 2026-01-11T20:40:55,316 copying build/lib/lobster/lobster_cloud/client.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-11T20:40:55,318 copying build/lib/lobster/lobster_cloud/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-11T20:40:55,320 copying build/lib/lobster/cli.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-11T20:40:55,326 creating build/bdist.linux-armv7l/wheel/lobster/tools 2026-01-11T20:40:55,328 creating build/bdist.linux-armv7l/wheel/lobster/tools/providers 2026-01-11T20:40:55,329 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,333 copying build/lib/lobster/tools/providers/geo_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,336 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_config.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,338 copying build/lib/lobster/tools/providers/organism_enum.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,340 copying build/lib/lobster/tools/providers/publication_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,342 copying build/lib/lobster/tools/providers/pride_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,345 copying build/lib/lobster/tools/providers/webpage_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,348 copying build/lib/lobster/tools/providers/massive_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,350 copying build/lib/lobster/tools/providers/ncbi_query_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,353 copying build/lib/lobster/tools/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,355 copying build/lib/lobster/tools/providers/pdb_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,358 copying build/lib/lobster/tools/providers/pmc_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,361 copying build/lib/lobster/tools/providers/biopython_entrez_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,363 copying build/lib/lobster/tools/providers/abstract_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,366 copying build/lib/lobster/tools/providers/pride_normalizer.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,368 copying build/lib/lobster/tools/providers/geo_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,370 copying build/lib/lobster/tools/providers/structure_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,373 copying build/lib/lobster/tools/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,375 copying build/lib/lobster/tools/providers/pubmed_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,379 copying build/lib/lobster/tools/providers/provider_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,381 copying build/lib/lobster/tools/providers/sra_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T20:40:55,384 copying build/lib/lobster/tools/expert_handoff_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,386 copying build/lib/lobster/tools/gpu_detector.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,388 copying build/lib/lobster/tools/geo_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,390 copying build/lib/lobster/tools/download_orchestrator.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,392 copying build/lib/lobster/tools/workflow_tracker.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,395 copying build/lib/lobster/tools/todo_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,398 copying build/lib/lobster/tools/custom_code_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,400 copying build/lib/lobster/tools/rate_limiter.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,403 copying build/lib/lobster/tools/expert_handoff_patterns.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,406 copying build/lib/lobster/tools/pipeline_strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,407 copying build/lib/lobster/tools/geo_downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,409 copying build/lib/lobster/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,411 copying build/lib/lobster/tools/enhanced_handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,413 copying build/lib/lobster/tools/handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,416 creating build/bdist.linux-armv7l/wheel/lobster/tools/archive 2026-01-11T20:40:55,417 copying build/lib/lobster/tools/archive/unified_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-11T20:40:55,420 copying build/lib/lobster/tools/archive/publication_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-11T20:40:55,423 copying build/lib/lobster/tools/url_transforms.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,424 copying build/lib/lobster/tools/workspace_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T20:40:55,429 creating build/bdist.linux-armv7l/wheel/lobster/core 2026-01-11T20:40:55,431 copying build/lib/lobster/core/notebook_validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,434 creating build/bdist.linux-armv7l/wheel/lobster/core/identifiers 2026-01-11T20:40:55,435 copying build/lib/lobster/core/identifiers/accession_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-11T20:40:55,438 copying build/lib/lobster/core/identifiers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-11T20:40:55,440 copying build/lib/lobster/core/ir_coverage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,442 copying build/lib/lobster/core/exceptions.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,445 copying build/lib/lobster/core/plugin_loader.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,447 copying build/lib/lobster/core/provenance.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,449 copying build/lib/lobster/core/client.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,454 creating build/bdist.linux-armv7l/wheel/lobster/core/backends 2026-01-11T20:40:55,455 copying build/lib/lobster/core/backends/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-11T20:40:55,457 copying build/lib/lobster/core/backends/h5ad_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-11T20:40:55,460 copying build/lib/lobster/core/backends/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-11T20:40:55,462 copying build/lib/lobster/core/backends/mudata_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-11T20:40:55,465 creating build/bdist.linux-armv7l/wheel/lobster/core/adapters 2026-01-11T20:40:55,466 copying build/lib/lobster/core/adapters/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-11T20:40:55,468 copying build/lib/lobster/core/adapters/pseudobulk_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-11T20:40:55,471 copying build/lib/lobster/core/adapters/proteomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-11T20:40:55,474 copying build/lib/lobster/core/adapters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-11T20:40:55,475 copying build/lib/lobster/core/adapters/protein_structure_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-11T20:40:55,478 copying build/lib/lobster/core/adapters/transcriptomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-11T20:40:55,481 creating build/bdist.linux-armv7l/wheel/lobster/core/schemas 2026-01-11T20:40:55,482 copying build/lib/lobster/core/schemas/database_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,484 copying build/lib/lobster/core/schemas/export_schemas.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,488 copying build/lib/lobster/core/schemas/validation.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,490 copying build/lib/lobster/core/schemas/transcriptomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,494 copying build/lib/lobster/core/schemas/metagenomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,497 copying build/lib/lobster/core/schemas/metabolomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,500 copying build/lib/lobster/core/schemas/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,503 copying build/lib/lobster/core/schemas/ontology.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,505 copying build/lib/lobster/core/schemas/protein_structure.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,507 copying build/lib/lobster/core/schemas/download_urls.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,510 copying build/lib/lobster/core/schemas/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,512 copying build/lib/lobster/core/schemas/sra.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,515 copying build/lib/lobster/core/schemas/database_mappings.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,518 copying build/lib/lobster/core/schemas/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,520 copying build/lib/lobster/core/schemas/proteomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T20:40:55,523 copying build/lib/lobster/core/data_manager_v2.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,527 copying build/lib/lobster/core/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,530 creating build/bdist.linux-armv7l/wheel/lobster/core/utils 2026-01-11T20:40:55,531 copying build/lib/lobster/core/utils/h5ad_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-11T20:40:55,534 copying build/lib/lobster/core/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-11T20:40:55,536 copying build/lib/lobster/core/plot_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,539 copying build/lib/lobster/core/archive_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,542 copying build/lib/lobster/core/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,544 copying build/lib/lobster/core/analysis_ir.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,547 creating build/bdist.linux-armv7l/wheel/lobster/core/interfaces 2026-01-11T20:40:55,548 copying build/lib/lobster/core/interfaces/adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-11T20:40:55,550 copying build/lib/lobster/core/interfaces/validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-11T20:40:55,553 copying build/lib/lobster/core/interfaces/base_client.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-11T20:40:55,555 copying build/lib/lobster/core/interfaces/backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-11T20:40:55,557 copying build/lib/lobster/core/interfaces/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-11T20:40:55,559 copying build/lib/lobster/core/interfaces/download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-11T20:40:55,562 copying build/lib/lobster/core/config_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,565 copying build/lib/lobster/core/notebook_exporter.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,567 copying build/lib/lobster/core/license_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,570 copying build/lib/lobster/core/component_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,572 copying build/lib/lobster/core/notebook_executor.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,575 copying build/lib/lobster/core/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,577 copying build/lib/lobster/core/queue_storage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,579 copying build/lib/lobster/core/ris_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,582 copying build/lib/lobster/core/workspace.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T20:40:55,584 creating build/bdist.linux-armv7l/wheel/lobster/ui 2026-01-11T20:40:55,585 copying build/lib/lobster/ui/console_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T20:40:55,589 creating build/bdist.linux-armv7l/wheel/lobster/ui/widgets 2026-01-11T20:40:55,590 copying build/lib/lobster/ui/widgets/query_prompt.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,592 copying build/lib/lobster/ui/widgets/error_modal.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,595 copying build/lib/lobster/ui/widgets/chat_message.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,596 copying build/lib/lobster/ui/widgets/queue_status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,599 copying build/lib/lobster/ui/widgets/activity_log.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,601 copying build/lib/lobster/ui/widgets/results_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,603 copying build/lib/lobster/ui/widgets/connections_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,605 copying build/lib/lobster/ui/widgets/data_hub.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,608 copying build/lib/lobster/ui/widgets/token_usage_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,610 copying build/lib/lobster/ui/widgets/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,612 copying build/lib/lobster/ui/widgets/agents_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,615 copying build/lib/lobster/ui/widgets/adapters_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,617 copying build/lib/lobster/ui/widgets/plot_preview.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,619 copying build/lib/lobster/ui/widgets/queue_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,621 copying build/lib/lobster/ui/widgets/system_info.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,624 copying build/lib/lobster/ui/widgets/modality_list.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,626 copying build/lib/lobster/ui/widgets/status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T20:40:55,628 copying build/lib/lobster/ui/progress_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T20:40:55,631 copying build/lib/lobster/ui/live_dashboard.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T20:40:55,634 creating build/bdist.linux-armv7l/wheel/lobster/ui/callbacks 2026-01-11T20:40:55,635 copying build/lib/lobster/ui/callbacks/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-11T20:40:55,637 copying build/lib/lobster/ui/callbacks/textual_callback.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-11T20:40:55,640 copying build/lib/lobster/ui/themes.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T20:40:55,642 copying build/lib/lobster/ui/os_app.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T20:40:55,645 creating build/bdist.linux-armv7l/wheel/lobster/ui/screens 2026-01-11T20:40:55,646 copying build/lib/lobster/ui/screens/analysis_screen.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-11T20:40:55,649 copying build/lib/lobster/ui/screens/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-11T20:40:55,651 copying build/lib/lobster/ui/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T20:40:55,653 copying build/lib/lobster/ui/commands.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T20:40:55,656 creating build/bdist.linux-armv7l/wheel/lobster/ui/formatters 2026-01-11T20:40:55,657 copying build/lib/lobster/ui/formatters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/formatters 2026-01-11T20:40:55,659 creating build/bdist.linux-armv7l/wheel/lobster/ui/services 2026-01-11T20:40:55,661 copying build/lib/lobster/ui/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-11T20:40:55,663 copying build/lib/lobster/ui/services/error_service.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-11T20:40:55,665 creating build/bdist.linux-armv7l/wheel/lobster/ui/components 2026-01-11T20:40:55,666 copying build/lib/lobster/ui/components/status_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-11T20:40:55,669 copying build/lib/lobster/ui/components/multi_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-11T20:40:55,672 copying build/lib/lobster/ui/components/file_tree.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-11T20:40:55,675 copying build/lib/lobster/ui/components/parallel_workers_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-11T20:40:55,678 copying build/lib/lobster/ui/components/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-11T20:40:55,680 copying build/lib/lobster/main.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-11T20:40:55,682 creating build/bdist.linux-armv7l/wheel/lobster/services 2026-01-11T20:40:55,684 creating build/bdist.linux-armv7l/wheel/lobster/services/data_management 2026-01-11T20:40:55,685 copying build/lib/lobster/services/data_management/concatenation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-11T20:40:55,688 copying build/lib/lobster/services/data_management/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-11T20:40:55,690 copying build/lib/lobster/services/data_management/modality_management_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-11T20:40:55,694 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata 2026-01-11T20:40:55,695 copying build/lib/lobster/services/metadata/manual_annotation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-11T20:40:55,698 copying build/lib/lobster/services/metadata/metadata_validation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-11T20:40:55,700 copying build/lib/lobster/services/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-11T20:40:55,703 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction 2026-01-11T20:40:55,704 copying build/lib/lobster/services/metadata/protocol_extraction/base.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-11T20:40:55,706 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T20:40:55,708 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T20:40:55,710 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T20:40:55,712 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T20:40:55,714 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T20:40:55,716 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-11T20:40:55,718 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-11T20:40:55,720 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T20:40:55,723 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T20:40:55,725 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T20:40:55,728 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T20:40:55,729 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T20:40:55,731 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T20:40:55,733 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T20:40:55,735 copying build/lib/lobster/services/metadata/protocol_extraction/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-11T20:40:55,737 copying build/lib/lobster/services/metadata/identifier_provenance_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-11T20:40:55,740 copying build/lib/lobster/services/metadata/sample_grouping_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-11T20:40:55,742 copying build/lib/lobster/services/metadata/metadata_standardization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-11T20:40:55,745 creating build/bdist.linux-armv7l/wheel/lobster/services/orchestration 2026-01-11T20:40:55,746 copying build/lib/lobster/services/orchestration/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-11T20:40:55,748 copying build/lib/lobster/services/orchestration/publication_processing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-11T20:40:55,752 creating build/bdist.linux-armv7l/wheel/lobster/services/ml 2026-01-11T20:40:55,754 copying build/lib/lobster/services/ml/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/ml 2026-01-11T20:40:55,755 copying build/lib/lobster/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services 2026-01-11T20:40:55,758 creating build/bdist.linux-armv7l/wheel/lobster/services/analysis 2026-01-11T20:40:55,759 copying build/lib/lobster/services/analysis/enhanced_singlecell_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T20:40:55,762 copying build/lib/lobster/services/analysis/scvi_embedding_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T20:40:55,765 copying build/lib/lobster/services/analysis/differential_formula_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T20:40:55,768 copying build/lib/lobster/services/analysis/structure_analysis_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T20:40:55,771 copying build/lib/lobster/services/analysis/bulk_rnaseq_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T20:40:55,774 copying build/lib/lobster/services/analysis/clustering_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T20:40:55,778 copying build/lib/lobster/services/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T20:40:55,780 copying build/lib/lobster/services/analysis/pseudobulk_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T20:40:55,783 creating build/bdist.linux-armv7l/wheel/lobster/services/visualization 2026-01-11T20:40:55,784 copying build/lib/lobster/services/visualization/visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-11T20:40:55,788 copying build/lib/lobster/services/visualization/pymol_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-11T20:40:55,791 copying build/lib/lobster/services/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-11T20:40:55,793 copying build/lib/lobster/services/visualization/bulk_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-11T20:40:55,796 creating build/bdist.linux-armv7l/wheel/lobster/services/quality 2026-01-11T20:40:55,798 copying build/lib/lobster/services/quality/quality_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-11T20:40:55,801 copying build/lib/lobster/services/quality/preprocessing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-11T20:40:55,804 copying build/lib/lobster/services/quality/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-11T20:40:55,806 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access 2026-01-11T20:40:55,808 copying build/lib/lobster/services/data_access/pride_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T20:40:55,810 copying build/lib/lobster/services/data_access/geo_fallback_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T20:40:55,813 copying build/lib/lobster/services/data_access/massive_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T20:40:55,816 copying build/lib/lobster/services/data_access/docling_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T20:40:55,819 copying build/lib/lobster/services/data_access/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T20:40:55,821 copying build/lib/lobster/services/data_access/content_access_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T20:40:55,825 copying build/lib/lobster/services/data_access/geo_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T20:40:55,827 copying build/lib/lobster/services/data_access/workspace_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T20:40:55,830 copying build/lib/lobster/services/data_access/protein_structure_fetch_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T20:40:55,834 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo 2026-01-11T20:40:55,835 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/metadata 2026-01-11T20:40:55,837 copying build/lib/lobster/services/data_access/geo/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/metadata 2026-01-11T20:40:55,839 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/utils 2026-01-11T20:40:55,840 copying build/lib/lobster/services/data_access/geo/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/utils 2026-01-11T20:40:55,842 copying build/lib/lobster/services/data_access/geo/parser.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-11T20:40:55,846 copying build/lib/lobster/services/data_access/geo/facade.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-11T20:40:55,848 copying build/lib/lobster/services/data_access/geo/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-11T20:40:55,850 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/sample 2026-01-11T20:40:55,851 copying build/lib/lobster/services/data_access/geo/sample/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/sample 2026-01-11T20:40:55,853 copying build/lib/lobster/services/data_access/geo/downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-11T20:40:55,856 copying build/lib/lobster/services/data_access/geo/strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-11T20:40:55,859 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/loaders 2026-01-11T20:40:55,861 copying build/lib/lobster/services/data_access/geo/loaders/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-11T20:40:55,863 copying build/lib/lobster/services/data_access/geo/loaders/tenx.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-11T20:40:55,865 copying build/lib/lobster/services/data_access/geo/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-11T20:40:55,868 copying build/lib/lobster/services/data_access/sra_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T20:40:55,871 copying build/lib/lobster/services/data_access/geo_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T20:40:55,878 creating build/bdist.linux-armv7l/wheel/lobster/services/templates 2026-01-11T20:40:55,879 copying build/lib/lobster/services/templates/annotation_templates.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-11T20:40:55,882 copying build/lib/lobster/services/templates/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-11T20:40:55,884 creating build/bdist.linux-armv7l/wheel/lobster/services/execution 2026-01-11T20:40:55,886 copying build/lib/lobster/services/execution/execution_context_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-11T20:40:55,888 copying build/lib/lobster/services/execution/custom_code_execution_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-11T20:40:55,891 copying build/lib/lobster/services/execution/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-11T20:40:55,894 creating build/bdist.linux-armv7l/wheel/lobster/agents 2026-01-11T20:40:55,895 copying build/lib/lobster/agents/draw_graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T20:40:55,897 copying build/lib/lobster/agents/graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T20:40:55,900 copying build/lib/lobster/agents/data_expert_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T20:40:55,903 copying build/lib/lobster/agents/data_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T20:40:55,906 copying build/lib/lobster/agents/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T20:40:55,909 copying build/lib/lobster/agents/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T20:40:55,910 copying build/lib/lobster/agents/research_agent.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T20:40:55,916 creating build/bdist.linux-armv7l/wheel/lobster/agents/proteomics 2026-01-11T20:40:55,917 copying build/lib/lobster/agents/proteomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-11T20:40:55,919 copying build/lib/lobster/agents/proteomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-11T20:40:55,921 copying build/lib/lobster/agents/visualization_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T20:40:55,925 creating build/bdist.linux-armv7l/wheel/lobster/agents/transcriptomics 2026-01-11T20:40:55,926 copying build/lib/lobster/agents/transcriptomics/transcriptomics_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-11T20:40:55,929 copying build/lib/lobster/agents/transcriptomics/de_analysis_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-11T20:40:55,933 copying build/lib/lobster/agents/transcriptomics/shared_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-11T20:40:55,936 copying build/lib/lobster/agents/transcriptomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-11T20:40:55,938 copying build/lib/lobster/agents/transcriptomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-11T20:40:55,940 copying build/lib/lobster/agents/transcriptomics/annotation_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-11T20:40:55,944 creating build/bdist.linux-armv7l/wheel/lobster/agents/archive 2026-01-11T20:40:55,945 copying build/lib/lobster/agents/archive/research_agent_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/archive 2026-01-11T20:40:55,948 copying build/lib/lobster/agents/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T20:40:55,952 creating build/bdist.linux-armv7l/wheel/lobster/agents/langgraph_supervisor 2026-01-11T20:40:55,953 copying build/lib/lobster/agents/langgraph_supervisor/handoff.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-11T20:40:55,955 copying build/lib/lobster/agents/langgraph_supervisor/agent_name.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-11T20:40:55,958 copying build/lib/lobster/agents/langgraph_supervisor/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-11T20:40:55,960 copying build/lib/lobster/agents/langgraph_supervisor/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-11T20:40:55,962 running install_egg_info 2026-01-11T20:40:55,968 Copying lobster_ai.egg-info to build/bdist.linux-armv7l/wheel/./lobster_ai-0.4.3.1-py3.11.egg-info 2026-01-11T20:40:55,981 running install_scripts 2026-01-11T20:40:55,995 creating build/bdist.linux-armv7l/wheel/lobster_ai-0.4.3.1.dist-info/WHEEL 2026-01-11T20:40:55,998 creating '/tmp/pip-wheel-wyf8xbrp/.tmp-5udn3805/lobster_ai-0.4.3.1-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-01-11T20:40:56,001 adding 'lobster/__main__.py' 2026-01-11T20:40:56,002 adding 'lobster/_version.py' 2026-01-11T20:40:56,030 adding 'lobster/cli.py' 2026-01-11T20:40:56,033 adding 'lobster/main.py' 2026-01-11T20:40:56,034 adding 'lobster/version.py' 2026-01-11T20:40:56,036 adding 'lobster/agents/__init__.py' 2026-01-11T20:40:56,043 adding 'lobster/agents/data_expert.py' 2026-01-11T20:40:56,047 adding 'lobster/agents/data_expert_assistant.py' 2026-01-11T20:40:56,049 adding 'lobster/agents/draw_graph.py' 2026-01-11T20:40:56,051 adding 'lobster/agents/graph.py' 2026-01-11T20:40:56,065 adding 'lobster/agents/research_agent.py' 2026-01-11T20:40:56,068 adding 'lobster/agents/state.py' 2026-01-11T20:40:56,073 adding 'lobster/agents/supervisor.py' 2026-01-11T20:40:56,076 adding 'lobster/agents/visualization_expert.py' 2026-01-11T20:40:56,079 adding 'lobster/agents/archive/research_agent_assistant.py' 2026-01-11T20:40:56,081 adding 'lobster/agents/langgraph_supervisor/__init__.py' 2026-01-11T20:40:56,082 adding 'lobster/agents/langgraph_supervisor/agent_name.py' 2026-01-11T20:40:56,084 adding 'lobster/agents/langgraph_supervisor/handoff.py' 2026-01-11T20:40:56,087 adding 'lobster/agents/langgraph_supervisor/supervisor.py' 2026-01-11T20:40:56,089 adding 'lobster/agents/proteomics/__init__.py' 2026-01-11T20:40:56,090 adding 'lobster/agents/proteomics/state.py' 2026-01-11T20:40:56,092 adding 'lobster/agents/transcriptomics/__init__.py' 2026-01-11T20:40:56,096 adding 'lobster/agents/transcriptomics/annotation_expert.py' 2026-01-11T20:40:56,105 adding 'lobster/agents/transcriptomics/de_analysis_expert.py' 2026-01-11T20:40:56,109 adding 'lobster/agents/transcriptomics/shared_tools.py' 2026-01-11T20:40:56,110 adding 'lobster/agents/transcriptomics/state.py' 2026-01-11T20:40:56,116 adding 'lobster/agents/transcriptomics/transcriptomics_expert.py' 2026-01-11T20:40:56,118 adding 'lobster/cli_internal/__init__.py' 2026-01-11T20:40:56,119 adding 'lobster/cli_internal/commands/__init__.py' 2026-01-11T20:40:56,121 adding 'lobster/cli_internal/commands/output_adapter.py' 2026-01-11T20:40:56,123 adding 'lobster/cli_internal/commands/heavy/__init__.py' 2026-01-11T20:40:56,124 adding 'lobster/cli_internal/commands/heavy/data_commands.py' 2026-01-11T20:40:56,127 adding 'lobster/cli_internal/commands/heavy/modality_commands.py' 2026-01-11T20:40:56,129 adding 'lobster/cli_internal/commands/heavy/visualization_commands.py' 2026-01-11T20:40:56,131 adding 'lobster/cli_internal/commands/light/__init__.py' 2026-01-11T20:40:56,133 adding 'lobster/cli_internal/commands/light/config_commands.py' 2026-01-11T20:40:56,136 adding 'lobster/cli_internal/commands/light/file_commands.py' 2026-01-11T20:40:56,139 adding 'lobster/cli_internal/commands/light/metadata_commands.py' 2026-01-11T20:40:56,141 adding 'lobster/cli_internal/commands/light/pipeline_commands.py' 2026-01-11T20:40:56,144 adding 'lobster/cli_internal/commands/light/queue_commands.py' 2026-01-11T20:40:56,148 adding 'lobster/cli_internal/commands/light/workspace_commands.py' 2026-01-11T20:40:56,150 adding 'lobster/cli_internal/utils/__init__.py' 2026-01-11T20:40:56,152 adding 'lobster/cli_internal/utils/path_resolution.py' 2026-01-11T20:40:56,154 adding 'lobster/config/__init__.py' 2026-01-11T20:40:56,156 adding 'lobster/config/agent_capabilities.py' 2026-01-11T20:40:56,159 adding 'lobster/config/agent_config.py' 2026-01-11T20:40:56,161 adding 'lobster/config/agent_registry.py' 2026-01-11T20:40:56,163 adding 'lobster/config/base_config.py' 2026-01-11T20:40:56,165 adding 'lobster/config/config_manager.py' 2026-01-11T20:40:56,166 adding 'lobster/config/constants.py' 2026-01-11T20:40:56,167 adding 'lobster/config/disease_ontology.json' 2026-01-11T20:40:56,169 adding 'lobster/config/global_config.py' 2026-01-11T20:40:56,171 adding 'lobster/config/llm_factory.py' 2026-01-11T20:40:56,172 adding 'lobster/config/model_service.py' 2026-01-11T20:40:56,174 adding 'lobster/config/ollama_service.py' 2026-01-11T20:40:56,176 adding 'lobster/config/provider_setup.py' 2026-01-11T20:40:56,178 adding 'lobster/config/settings.py' 2026-01-11T20:40:56,180 adding 'lobster/config/ssl_setup.py' 2026-01-11T20:40:56,182 adding 'lobster/config/subscription_tiers.py' 2026-01-11T20:40:56,183 adding 'lobster/config/supervisor_config.py' 2026-01-11T20:40:56,185 adding 'lobster/config/version_check.py' 2026-01-11T20:40:56,187 adding 'lobster/config/workspace_config.py' 2026-01-11T20:40:56,188 adding 'lobster/config/providers/__init__.py' 2026-01-11T20:40:56,190 adding 'lobster/config/providers/anthropic_provider.py' 2026-01-11T20:40:56,192 adding 'lobster/config/providers/base_provider.py' 2026-01-11T20:40:56,194 adding 'lobster/config/providers/bedrock_provider.py' 2026-01-11T20:40:56,196 adding 'lobster/config/providers/gemini_provider.py' 2026-01-11T20:40:56,198 adding 'lobster/config/providers/ollama_provider.py' 2026-01-11T20:40:56,200 adding 'lobster/config/providers/registry.py' 2026-01-11T20:40:56,202 adding 'lobster/core/__init__.py' 2026-01-11T20:40:56,204 adding 'lobster/core/analysis_ir.py' 2026-01-11T20:40:56,207 adding 'lobster/core/archive_utils.py' 2026-01-11T20:40:56,217 adding 'lobster/core/client.py' 2026-01-11T20:40:56,219 adding 'lobster/core/component_registry.py' 2026-01-11T20:40:56,222 adding 'lobster/core/config_resolver.py' 2026-01-11T20:40:56,235 adding 'lobster/core/data_manager_v2.py' 2026-01-11T20:40:56,238 adding 'lobster/core/download_queue.py' 2026-01-11T20:40:56,240 adding 'lobster/core/exceptions.py' 2026-01-11T20:40:56,242 adding 'lobster/core/ir_coverage.py' 2026-01-11T20:40:56,245 adding 'lobster/core/license_manager.py' 2026-01-11T20:40:56,247 adding 'lobster/core/notebook_executor.py' 2026-01-11T20:40:56,251 adding 'lobster/core/notebook_exporter.py' 2026-01-11T20:40:56,253 adding 'lobster/core/notebook_validator.py' 2026-01-11T20:40:56,256 adding 'lobster/core/plot_manager.py' 2026-01-11T20:40:56,258 adding 'lobster/core/plugin_loader.py' 2026-01-11T20:40:56,260 adding 'lobster/core/provenance.py' 2026-01-11T20:40:56,263 adding 'lobster/core/publication_queue.py' 2026-01-11T20:40:56,264 adding 'lobster/core/queue_storage.py' 2026-01-11T20:40:56,267 adding 'lobster/core/ris_parser.py' 2026-01-11T20:40:56,268 adding 'lobster/core/workspace.py' 2026-01-11T20:40:56,270 adding 'lobster/core/adapters/__init__.py' 2026-01-11T20:40:56,272 adding 'lobster/core/adapters/base.py' 2026-01-11T20:40:56,275 adding 'lobster/core/adapters/protein_structure_adapter.py' 2026-01-11T20:40:56,278 adding 'lobster/core/adapters/proteomics_adapter.py' 2026-01-11T20:40:56,281 adding 'lobster/core/adapters/pseudobulk_adapter.py' 2026-01-11T20:40:56,284 adding 'lobster/core/adapters/transcriptomics_adapter.py' 2026-01-11T20:40:56,286 adding 'lobster/core/backends/__init__.py' 2026-01-11T20:40:56,288 adding 'lobster/core/backends/base.py' 2026-01-11T20:40:56,291 adding 'lobster/core/backends/h5ad_backend.py' 2026-01-11T20:40:56,294 adding 'lobster/core/backends/mudata_backend.py' 2026-01-11T20:40:56,296 adding 'lobster/core/identifiers/__init__.py' 2026-01-11T20:40:56,298 adding 'lobster/core/identifiers/accession_resolver.py' 2026-01-11T20:40:56,300 adding 'lobster/core/interfaces/__init__.py' 2026-01-11T20:40:56,302 adding 'lobster/core/interfaces/adapter.py' 2026-01-11T20:40:56,303 adding 'lobster/core/interfaces/backend.py' 2026-01-11T20:40:56,305 adding 'lobster/core/interfaces/base_client.py' 2026-01-11T20:40:56,307 adding 'lobster/core/interfaces/download_service.py' 2026-01-11T20:40:56,309 adding 'lobster/core/interfaces/validator.py' 2026-01-11T20:40:56,311 adding 'lobster/core/schemas/__init__.py' 2026-01-11T20:40:56,314 adding 'lobster/core/schemas/database_mappings.py' 2026-01-11T20:40:56,315 adding 'lobster/core/schemas/database_registry.py' 2026-01-11T20:40:56,318 adding 'lobster/core/schemas/download_queue.py' 2026-01-11T20:40:56,320 adding 'lobster/core/schemas/download_urls.py' 2026-01-11T20:40:56,325 adding 'lobster/core/schemas/export_schemas.py' 2026-01-11T20:40:56,329 adding 'lobster/core/schemas/metabolomics.py' 2026-01-11T20:40:56,335 adding 'lobster/core/schemas/metagenomics.py' 2026-01-11T20:40:56,336 adding 'lobster/core/schemas/ontology.py' 2026-01-11T20:40:56,338 adding 'lobster/core/schemas/protein_structure.py' 2026-01-11T20:40:56,342 adding 'lobster/core/schemas/proteomics.py' 2026-01-11T20:40:56,345 adding 'lobster/core/schemas/publication_queue.py' 2026-01-11T20:40:56,349 adding 'lobster/core/schemas/sra.py' 2026-01-11T20:40:56,356 adding 'lobster/core/schemas/transcriptomics.py' 2026-01-11T20:40:56,358 adding 'lobster/core/schemas/validation.py' 2026-01-11T20:40:56,360 adding 'lobster/core/utils/__init__.py' 2026-01-11T20:40:56,362 adding 'lobster/core/utils/h5ad_utils.py' 2026-01-11T20:40:56,364 adding 'lobster/lobster_cloud/__init__.py' 2026-01-11T20:40:56,366 adding 'lobster/lobster_cloud/client.py' 2026-01-11T20:40:56,368 adding 'lobster/services/__init__.py' 2026-01-11T20:40:56,370 adding 'lobster/services/analysis/__init__.py' 2026-01-11T20:40:56,378 adding 'lobster/services/analysis/bulk_rnaseq_service.py' 2026-01-11T20:40:56,387 adding 'lobster/services/analysis/clustering_service.py' 2026-01-11T20:40:56,391 adding 'lobster/services/analysis/differential_formula_service.py' 2026-01-11T20:40:56,397 adding 'lobster/services/analysis/enhanced_singlecell_service.py' 2026-01-11T20:40:56,401 adding 'lobster/services/analysis/pseudobulk_service.py' 2026-01-11T20:40:56,403 adding 'lobster/services/analysis/scvi_embedding_service.py' 2026-01-11T20:40:56,406 adding 'lobster/services/analysis/structure_analysis_service.py' 2026-01-11T20:40:56,408 adding 'lobster/services/data_access/__init__.py' 2026-01-11T20:40:56,416 adding 'lobster/services/data_access/content_access_service.py' 2026-01-11T20:40:56,422 adding 'lobster/services/data_access/docling_service.py' 2026-01-11T20:40:56,425 adding 'lobster/services/data_access/geo_download_service.py' 2026-01-11T20:40:56,428 adding 'lobster/services/data_access/geo_fallback_service.py' 2026-01-11T20:40:56,452 adding 'lobster/services/data_access/geo_service.py' 2026-01-11T20:40:56,456 adding 'lobster/services/data_access/massive_download_service.py' 2026-01-11T20:40:56,458 adding 'lobster/services/data_access/pride_download_service.py' 2026-01-11T20:40:56,461 adding 'lobster/services/data_access/protein_structure_fetch_service.py' 2026-01-11T20:40:56,466 adding 'lobster/services/data_access/sra_download_service.py' 2026-01-11T20:40:56,471 adding 'lobster/services/data_access/workspace_content_service.py' 2026-01-11T20:40:56,473 adding 'lobster/services/data_access/geo/__init__.py' 2026-01-11T20:40:56,474 adding 'lobster/services/data_access/geo/constants.py' 2026-01-11T20:40:56,478 adding 'lobster/services/data_access/geo/downloader.py' 2026-01-11T20:40:56,480 adding 'lobster/services/data_access/geo/facade.py' 2026-01-11T20:40:56,487 adding 'lobster/services/data_access/geo/parser.py' 2026-01-11T20:40:56,490 adding 'lobster/services/data_access/geo/strategy.py' 2026-01-11T20:40:56,492 adding 'lobster/services/data_access/geo/loaders/__init__.py' 2026-01-11T20:40:56,494 adding 'lobster/services/data_access/geo/loaders/tenx.py' 2026-01-11T20:40:56,496 adding 'lobster/services/data_access/geo/metadata/__init__.py' 2026-01-11T20:40:56,498 adding 'lobster/services/data_access/geo/sample/__init__.py' 2026-01-11T20:40:56,499 adding 'lobster/services/data_access/geo/utils/__init__.py' 2026-01-11T20:40:56,501 adding 'lobster/services/data_management/__init__.py' 2026-01-11T20:40:56,506 adding 'lobster/services/data_management/concatenation_service.py' 2026-01-11T20:40:56,509 adding 'lobster/services/data_management/modality_management_service.py' 2026-01-11T20:40:56,510 adding 'lobster/services/execution/__init__.py' 2026-01-11T20:40:56,515 adding 'lobster/services/execution/custom_code_execution_service.py' 2026-01-11T20:40:56,516 adding 'lobster/services/execution/execution_context_builder.py' 2026-01-11T20:40:56,518 adding 'lobster/services/metadata/__init__.py' 2026-01-11T20:40:56,520 adding 'lobster/services/metadata/identifier_provenance_service.py' 2026-01-11T20:40:56,524 adding 'lobster/services/metadata/manual_annotation_service.py' 2026-01-11T20:40:56,527 adding 'lobster/services/metadata/metadata_standardization_service.py' 2026-01-11T20:40:56,530 adding 'lobster/services/metadata/metadata_validation_service.py' 2026-01-11T20:40:56,532 adding 'lobster/services/metadata/sample_grouping_service.py' 2026-01-11T20:40:56,534 adding 'lobster/services/metadata/protocol_extraction/__init__.py' 2026-01-11T20:40:56,536 adding 'lobster/services/metadata/protocol_extraction/base.py' 2026-01-11T20:40:56,537 adding 'lobster/services/metadata/protocol_extraction/amplicon/__init__.py' 2026-01-11T20:40:56,539 adding 'lobster/services/metadata/protocol_extraction/amplicon/details.py' 2026-01-11T20:40:56,542 adding 'lobster/services/metadata/protocol_extraction/amplicon/service.py' 2026-01-11T20:40:56,544 adding 'lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json' 2026-01-11T20:40:56,546 adding 'lobster/services/metadata/protocol_extraction/mass_spec/__init__.py' 2026-01-11T20:40:56,547 adding 'lobster/services/metadata/protocol_extraction/mass_spec/details.py' 2026-01-11T20:40:56,549 adding 'lobster/services/metadata/protocol_extraction/mass_spec/service.py' 2026-01-11T20:40:56,551 adding 'lobster/services/metadata/protocol_extraction/rnaseq/__init__.py' 2026-01-11T20:40:56,552 adding 'lobster/services/metadata/protocol_extraction/rnaseq/details.py' 2026-01-11T20:40:56,553 adding 'lobster/services/metadata/protocol_extraction/rnaseq/service.py' 2026-01-11T20:40:56,555 adding 'lobster/services/ml/__init__.py' 2026-01-11T20:40:56,557 adding 'lobster/services/orchestration/__init__.py' 2026-01-11T20:40:56,565 adding 'lobster/services/orchestration/publication_processing_service.py' 2026-01-11T20:40:56,568 adding 'lobster/services/quality/__init__.py' 2026-01-11T20:40:56,572 adding 'lobster/services/quality/preprocessing_service.py' 2026-01-11T20:40:56,576 adding 'lobster/services/quality/quality_service.py' 2026-01-11T20:40:56,578 adding 'lobster/services/templates/__init__.py' 2026-01-11T20:40:56,583 adding 'lobster/services/templates/annotation_templates.py' 2026-01-11T20:40:56,584 adding 'lobster/services/visualization/__init__.py' 2026-01-11T20:40:56,587 adding 'lobster/services/visualization/bulk_visualization_service.py' 2026-01-11T20:40:56,591 adding 'lobster/services/visualization/pymol_visualization_service.py' 2026-01-11T20:40:56,598 adding 'lobster/services/visualization/visualization_service.py' 2026-01-11T20:40:56,601 adding 'lobster/tools/__init__.py' 2026-01-11T20:40:56,603 adding 'lobster/tools/custom_code_tool.py' 2026-01-11T20:40:56,605 adding 'lobster/tools/download_orchestrator.py' 2026-01-11T20:40:56,608 adding 'lobster/tools/enhanced_handoff_tool.py' 2026-01-11T20:40:56,610 adding 'lobster/tools/expert_handoff_manager.py' 2026-01-11T20:40:56,612 adding 'lobster/tools/expert_handoff_patterns.py' 2026-01-11T20:40:56,613 adding 'lobster/tools/geo_downloader.py' 2026-01-11T20:40:56,615 adding 'lobster/tools/geo_parser.py' 2026-01-11T20:40:56,616 adding 'lobster/tools/gpu_detector.py' 2026-01-11T20:40:56,618 adding 'lobster/tools/handoff_tool.py' 2026-01-11T20:40:56,619 adding 'lobster/tools/pipeline_strategy.py' 2026-01-11T20:40:56,623 adding 'lobster/tools/rate_limiter.py' 2026-01-11T20:40:56,625 adding 'lobster/tools/todo_tools.py' 2026-01-11T20:40:56,626 adding 'lobster/tools/url_transforms.py' 2026-01-11T20:40:56,629 adding 'lobster/tools/workflow_tracker.py' 2026-01-11T20:40:56,641 adding 'lobster/tools/workspace_tool.py' 2026-01-11T20:40:56,646 adding 'lobster/tools/archive/publication_service.py' 2026-01-11T20:40:56,649 adding 'lobster/tools/archive/unified_content_service.py' 2026-01-11T20:40:56,651 adding 'lobster/tools/providers/__init__.py' 2026-01-11T20:40:56,653 adding 'lobster/tools/providers/abstract_provider.py' 2026-01-11T20:40:56,655 adding 'lobster/tools/providers/base_provider.py' 2026-01-11T20:40:56,657 adding 'lobster/tools/providers/biopython_entrez_wrapper.py' 2026-01-11T20:40:56,658 adding 'lobster/tools/providers/biorxiv_medrxiv_config.py' 2026-01-11T20:40:56,664 adding 'lobster/tools/providers/biorxiv_medrxiv_provider.py' 2026-01-11T20:40:56,670 adding 'lobster/tools/providers/geo_provider.py' 2026-01-11T20:40:56,672 adding 'lobster/tools/providers/geo_utils.py' 2026-01-11T20:40:56,675 adding 'lobster/tools/providers/massive_provider.py' 2026-01-11T20:40:56,678 adding 'lobster/tools/providers/ncbi_query_builder.py' 2026-01-11T20:40:56,679 adding 'lobster/tools/providers/organism_enum.py' 2026-01-11T20:40:56,682 adding 'lobster/tools/providers/pdb_provider.py' 2026-01-11T20:40:56,689 adding 'lobster/tools/providers/pmc_provider.py' 2026-01-11T20:40:56,691 adding 'lobster/tools/providers/pride_normalizer.py' 2026-01-11T20:40:56,695 adding 'lobster/tools/providers/pride_provider.py' 2026-01-11T20:40:56,697 adding 'lobster/tools/providers/provider_registry.py' 2026-01-11T20:40:56,700 adding 'lobster/tools/providers/publication_resolver.py' 2026-01-11T20:40:56,709 adding 'lobster/tools/providers/pubmed_provider.py' 2026-01-11T20:40:56,716 adding 'lobster/tools/providers/sra_provider.py' 2026-01-11T20:40:56,718 adding 'lobster/tools/providers/structure_provider.py' 2026-01-11T20:40:56,720 adding 'lobster/tools/providers/webpage_provider.py' 2026-01-11T20:40:56,722 adding 'lobster/ui/__init__.py' 2026-01-11T20:40:56,725 adding 'lobster/ui/commands.py' 2026-01-11T20:40:56,727 adding 'lobster/ui/console_manager.py' 2026-01-11T20:40:56,730 adding 'lobster/ui/live_dashboard.py' 2026-01-11T20:40:56,731 adding 'lobster/ui/os_app.py' 2026-01-11T20:40:56,734 adding 'lobster/ui/progress_manager.py' 2026-01-11T20:40:56,736 adding 'lobster/ui/themes.py' 2026-01-11T20:40:56,738 adding 'lobster/ui/callbacks/__init__.py' 2026-01-11T20:40:56,740 adding 'lobster/ui/callbacks/textual_callback.py' 2026-01-11T20:40:56,742 adding 'lobster/ui/components/__init__.py' 2026-01-11T20:40:56,744 adding 'lobster/ui/components/file_tree.py' 2026-01-11T20:40:56,747 adding 'lobster/ui/components/multi_progress.py' 2026-01-11T20:40:56,749 adding 'lobster/ui/components/parallel_workers_progress.py' 2026-01-11T20:40:56,751 adding 'lobster/ui/components/status_display.py' 2026-01-11T20:40:56,753 adding 'lobster/ui/formatters/__init__.py' 2026-01-11T20:40:56,755 adding 'lobster/ui/screens/__init__.py' 2026-01-11T20:40:56,758 adding 'lobster/ui/screens/analysis_screen.py' 2026-01-11T20:40:56,760 adding 'lobster/ui/services/__init__.py' 2026-01-11T20:40:56,762 adding 'lobster/ui/services/error_service.py' 2026-01-11T20:40:56,763 adding 'lobster/ui/widgets/__init__.py' 2026-01-11T20:40:56,765 adding 'lobster/ui/widgets/activity_log.py' 2026-01-11T20:40:56,767 adding 'lobster/ui/widgets/adapters_panel.py' 2026-01-11T20:40:56,769 adding 'lobster/ui/widgets/agents_panel.py' 2026-01-11T20:40:56,770 adding 'lobster/ui/widgets/chat_message.py' 2026-01-11T20:40:56,772 adding 'lobster/ui/widgets/connections_panel.py' 2026-01-11T20:40:56,775 adding 'lobster/ui/widgets/data_hub.py' 2026-01-11T20:40:56,777 adding 'lobster/ui/widgets/error_modal.py' 2026-01-11T20:40:56,778 adding 'lobster/ui/widgets/modality_list.py' 2026-01-11T20:40:56,780 adding 'lobster/ui/widgets/plot_preview.py' 2026-01-11T20:40:56,781 adding 'lobster/ui/widgets/query_prompt.py' 2026-01-11T20:40:56,782 adding 'lobster/ui/widgets/queue_panel.py' 2026-01-11T20:40:56,784 adding 'lobster/ui/widgets/queue_status_bar.py' 2026-01-11T20:40:56,785 adding 'lobster/ui/widgets/results_display.py' 2026-01-11T20:40:56,787 adding 'lobster/ui/widgets/status_bar.py' 2026-01-11T20:40:56,788 adding 'lobster/ui/widgets/system_info.py' 2026-01-11T20:40:56,789 adding 'lobster/ui/widgets/token_usage_panel.py' 2026-01-11T20:40:56,791 adding 'lobster/utils/__init__.py' 2026-01-11T20:40:56,797 adding 'lobster/utils/callbacks.py' 2026-01-11T20:40:56,798 adding 'lobster/utils/deviance.py' 2026-01-11T20:40:56,802 adding 'lobster/utils/error_handlers.py' 2026-01-11T20:40:56,805 adding 'lobster/utils/file_analyzer.py' 2026-01-11T20:40:56,808 adding 'lobster/utils/file_naming.py' 2026-01-11T20:40:56,809 adding 'lobster/utils/json_extractor.py' 2026-01-11T20:40:56,811 adding 'lobster/utils/logger.py' 2026-01-11T20:40:56,812 adding 'lobster/utils/progress_wrapper.py' 2026-01-11T20:40:56,814 adding 'lobster/utils/ssl_utils.py' 2026-01-11T20:40:56,815 adding 'lobster/utils/system.py' 2026-01-11T20:40:56,822 adding 'lobster_ai-0.4.3.1.dist-info/licenses/LICENSE' 2026-01-11T20:40:56,825 adding 'lobster_ai-0.4.3.1.dist-info/METADATA' 2026-01-11T20:40:56,826 adding 'lobster_ai-0.4.3.1.dist-info/WHEEL' 2026-01-11T20:40:56,827 adding 'lobster_ai-0.4.3.1.dist-info/entry_points.txt' 2026-01-11T20:40:56,828 adding 'lobster_ai-0.4.3.1.dist-info/top_level.txt' 2026-01-11T20:40:56,832 adding 'lobster_ai-0.4.3.1.dist-info/RECORD' 2026-01-11T20:40:56,852 removing build/bdist.linux-armv7l/wheel 2026-01-11T20:40:57,031 Building wheel for lobster-ai (pyproject.toml): finished with status 'done' 2026-01-11T20:40:57,060 Created wheel for lobster-ai: filename=lobster_ai-0.4.3.1-py3-none-any.whl size=1375911 sha256=959b603e58e54b88d9df36539c50557fee9d9335e93af19608099db9d90f5521 2026-01-11T20:40:57,061 Stored in directory: /tmp/pip-ephem-wheel-cache-74nvv3k8/wheels/12/4a/f0/1f95dc6a3b66f97d83adcae71e02e418191e4b275a7dc39ac1 2026-01-11T20:40:57,087 Successfully built lobster-ai 2026-01-11T20:40:57,125 Removed build tracker: '/tmp/pip-build-tracker-az308v6i'