2026-01-11T01:34:16,040 Created temporary directory: /tmp/pip-ephem-wheel-cache-xtjtkmlx 2026-01-11T01:34:16,042 Created temporary directory: /tmp/pip-build-tracker-5ae5dbe4 2026-01-11T01:34:16,043 Initialized build tracking at /tmp/pip-build-tracker-5ae5dbe4 2026-01-11T01:34:16,044 Created build tracker: /tmp/pip-build-tracker-5ae5dbe4 2026-01-11T01:34:16,044 Entered build tracker: /tmp/pip-build-tracker-5ae5dbe4 2026-01-11T01:34:16,045 Created temporary directory: /tmp/pip-wheel-ilp8fjam 2026-01-11T01:34:16,048 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-0.4.1.6-py3-none-any.whl#sha256=522f41d19d851d030ee5dedb95a4b19a4748ea44ee54236888916b5e6518048d (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-11T01:34:16,559 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.5-py3-none-any.whl#sha256=64ab95e8749771e60d7b6869152cd847cc2fbcd49dcfa6325db68e7defad357b (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-11T01:34:16,560 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.4-py3-none-any.whl#sha256=a999a8b38fc5a8e803c713c25ea79bab7d44829ec37405cad04b6f2c9a7b3667 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-11T01:34:16,560 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.3-py3-none-any.whl#sha256=80e2e1901c9acbae8f29a51305af7fc23762871021f86168660c0098154ea64d (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-11T01:34:16,561 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.2-py3-none-any.whl#sha256=7f38e7703c88c0c7fe4811c9c7b04da6469ca264d3e261e794b0a59376ba4d0e (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-11T01:34:16,561 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.1-py3-none-any.whl#sha256=d30d1083ded2235ea62f728b72c55b58d61c4164f9913d1996d68c451dac3c4d (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-11T01:34:16,562 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.0.9-py3-none-any.whl#sha256=48a46075806c2941d705fa7eb0da81c1c162cc4b62b1bc22b578315363b4de75 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-11T01:34:16,563 Skipping link: No binaries permitted for lobster-ai: 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) 2026-01-11T01:34:16,563 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) 2026-01-11T01:34:16,564 Skipping link: not a file: https://www.piwheels.org/simple/lobster-ai/ 2026-01-11T01:34:16,565 Skipping link: not a file: https://pypi.org/simple/lobster-ai/ 2026-01-11T01:34:16,586 Given no hashes to check 1 links for project 'lobster-ai': discarding no candidates 2026-01-11T01:34:16,604 Collecting lobster-ai==0.4.3.0 2026-01-11T01:34:16,606 Created temporary directory: /tmp/pip-unpack-7sq4dz_1 2026-01-11T01:34:16,824 Downloading lobster_ai-0.4.3.0.tar.gz (1.2 MB) 2026-01-11T01:34:17,793 Added lobster-ai==0.4.3.0 from https://files.pythonhosted.org/packages/a9/88/863c48575b76b95ba544e8381572461bc3b95b95b9f07b8482fec3e1d963/lobster_ai-0.4.3.0.tar.gz to build tracker '/tmp/pip-build-tracker-5ae5dbe4' 2026-01-11T01:34:17,802 Created temporary directory: /tmp/pip-build-env-uf0fwau0 2026-01-11T01:34:17,806 Installing build dependencies: started 2026-01-11T01:34:17,808 Running command pip subprocess to install build dependencies 2026-01-11T01:34:18,977 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-01-11T01:34:19,640 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 2026-01-11T01:34:19,663 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-11T01:34:21,376 Collecting setuptools>=65.0 2026-01-11T01:34:21,480 Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB) 2026-01-11T01:34:21,745 Collecting wheel 2026-01-11T01:34:21,761 Using cached https://www.piwheels.org/simple/wheel/wheel-0.45.1-py3-none-any.whl (72 kB) 2026-01-11T01:34:24,743 Installing collected packages: wheel, setuptools 2026-01-11T01:34:24,990 Creating /tmp/pip-build-env-uf0fwau0/overlay/local/bin 2026-01-11T01:34:24,992 changing mode of /tmp/pip-build-env-uf0fwau0/overlay/local/bin/wheel to 755 2026-01-11T01:34:28,679 Successfully installed setuptools-80.9.0 wheel-0.45.1 2026-01-11T01:34:28,954 Installing build dependencies: finished with status 'done' 2026-01-11T01:34:28,960 Getting requirements to build wheel: started 2026-01-11T01:34:28,961 Running command Getting requirements to build wheel 2026-01-11T01:34:29,646 /tmp/pip-build-env-uf0fwau0/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-11T01:34:29,646 corresp(dist, value, root_dir) 2026-01-11T01:34:29,647 /tmp/pip-build-env-uf0fwau0/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-11T01:34:29,648 corresp(dist, value, root_dir) 2026-01-11T01:34:29,648 /tmp/pip-build-env-uf0fwau0/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-11T01:34:29,649 corresp(dist, value, root_dir) 2026-01-11T01:34:29,760 running egg_info 2026-01-11T01:34:29,767 writing lobster_ai.egg-info/PKG-INFO 2026-01-11T01:34:29,797 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-11T01:34:29,799 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-11T01:34:29,818 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-11T01:34:29,820 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-11T01:34:29,969 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-11T01:34:29,986 adding license file 'LICENSE' 2026-01-11T01:34:30,000 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-11T01:34:30,100 Getting requirements to build wheel: finished with status 'done' 2026-01-11T01:34:30,103 Created temporary directory: /tmp/pip-modern-metadata-_rd2ztbe 2026-01-11T01:34:30,106 Preparing metadata (pyproject.toml): started 2026-01-11T01:34:30,107 Running command Preparing metadata (pyproject.toml) 2026-01-11T01:34:30,740 /tmp/pip-build-env-uf0fwau0/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-11T01:34:30,740 corresp(dist, value, root_dir) 2026-01-11T01:34:30,741 /tmp/pip-build-env-uf0fwau0/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-11T01:34:30,741 corresp(dist, value, root_dir) 2026-01-11T01:34:30,742 /tmp/pip-build-env-uf0fwau0/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-11T01:34:30,742 corresp(dist, value, root_dir) 2026-01-11T01:34:30,846 running dist_info 2026-01-11T01:34:30,859 creating /tmp/pip-modern-metadata-_rd2ztbe/lobster_ai.egg-info 2026-01-11T01:34:30,860 writing /tmp/pip-modern-metadata-_rd2ztbe/lobster_ai.egg-info/PKG-INFO 2026-01-11T01:34:30,891 writing dependency_links to /tmp/pip-modern-metadata-_rd2ztbe/lobster_ai.egg-info/dependency_links.txt 2026-01-11T01:34:30,892 writing entry points to /tmp/pip-modern-metadata-_rd2ztbe/lobster_ai.egg-info/entry_points.txt 2026-01-11T01:34:30,912 writing requirements to /tmp/pip-modern-metadata-_rd2ztbe/lobster_ai.egg-info/requires.txt 2026-01-11T01:34:30,913 writing top-level names to /tmp/pip-modern-metadata-_rd2ztbe/lobster_ai.egg-info/top_level.txt 2026-01-11T01:34:30,915 writing manifest file '/tmp/pip-modern-metadata-_rd2ztbe/lobster_ai.egg-info/SOURCES.txt' 2026-01-11T01:34:31,055 reading manifest file '/tmp/pip-modern-metadata-_rd2ztbe/lobster_ai.egg-info/SOURCES.txt' 2026-01-11T01:34:31,057 adding license file 'LICENSE' 2026-01-11T01:34:31,068 writing manifest file '/tmp/pip-modern-metadata-_rd2ztbe/lobster_ai.egg-info/SOURCES.txt' 2026-01-11T01:34:31,070 creating '/tmp/pip-modern-metadata-_rd2ztbe/lobster_ai-0.4.3.0.dist-info' 2026-01-11T01:34:31,198 Preparing metadata (pyproject.toml): finished with status 'done' 2026-01-11T01:34:31,205 Source in /tmp/pip-wheel-ilp8fjam/lobster-ai_18757afd862d4acbadf8d93427554bea has version 0.4.3.0, which satisfies requirement lobster-ai==0.4.3.0 from https://files.pythonhosted.org/packages/a9/88/863c48575b76b95ba544e8381572461bc3b95b95b9f07b8482fec3e1d963/lobster_ai-0.4.3.0.tar.gz 2026-01-11T01:34:31,206 Removed lobster-ai==0.4.3.0 from https://files.pythonhosted.org/packages/a9/88/863c48575b76b95ba544e8381572461bc3b95b95b9f07b8482fec3e1d963/lobster_ai-0.4.3.0.tar.gz from build tracker '/tmp/pip-build-tracker-5ae5dbe4' 2026-01-11T01:34:31,217 Created temporary directory: /tmp/pip-unpack-bbeygk_h 2026-01-11T01:34:31,217 Building wheels for collected packages: lobster-ai 2026-01-11T01:34:31,222 Created temporary directory: /tmp/pip-wheel-91ni23bv 2026-01-11T01:34:31,222 Destination directory: /tmp/pip-wheel-91ni23bv 2026-01-11T01:34:31,224 Building wheel for lobster-ai (pyproject.toml): started 2026-01-11T01:34:31,226 Running command Building wheel for lobster-ai (pyproject.toml) 2026-01-11T01:34:31,840 /tmp/pip-build-env-uf0fwau0/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-11T01:34:31,840 corresp(dist, value, root_dir) 2026-01-11T01:34:31,841 /tmp/pip-build-env-uf0fwau0/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-11T01:34:31,841 corresp(dist, value, root_dir) 2026-01-11T01:34:31,842 /tmp/pip-build-env-uf0fwau0/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-11T01:34:31,843 corresp(dist, value, root_dir) 2026-01-11T01:34:31,935 running bdist_wheel 2026-01-11T01:34:31,956 running build 2026-01-11T01:34:31,956 running build_py 2026-01-11T01:34:31,963 creating build/lib/lobster 2026-01-11T01:34:31,965 copying lobster/__main__.py -> build/lib/lobster 2026-01-11T01:34:31,967 copying lobster/main.py -> build/lib/lobster 2026-01-11T01:34:31,969 copying lobster/_version.py -> build/lib/lobster 2026-01-11T01:34:31,971 copying lobster/version.py -> build/lib/lobster 2026-01-11T01:34:31,973 copying lobster/cli.py -> build/lib/lobster 2026-01-11T01:34:31,980 creating build/lib/lobster/config 2026-01-11T01:34:31,981 copying lobster/config/settings.py -> build/lib/lobster/config 2026-01-11T01:34:31,983 copying lobster/config/subscription_tiers.py -> build/lib/lobster/config 2026-01-11T01:34:31,986 copying lobster/config/__init__.py -> build/lib/lobster/config 2026-01-11T01:34:31,987 copying lobster/config/provider_setup.py -> build/lib/lobster/config 2026-01-11T01:34:31,990 copying lobster/config/agent_config.py -> build/lib/lobster/config 2026-01-11T01:34:31,993 copying lobster/config/constants.py -> build/lib/lobster/config 2026-01-11T01:34:31,994 copying lobster/config/ssl_setup.py -> build/lib/lobster/config 2026-01-11T01:34:31,997 copying lobster/config/version_check.py -> build/lib/lobster/config 2026-01-11T01:34:31,999 copying lobster/config/agent_registry.py -> build/lib/lobster/config 2026-01-11T01:34:32,001 copying lobster/config/ollama_service.py -> build/lib/lobster/config 2026-01-11T01:34:32,004 copying lobster/config/config_manager.py -> build/lib/lobster/config 2026-01-11T01:34:32,007 copying lobster/config/global_config.py -> build/lib/lobster/config 2026-01-11T01:34:32,009 copying lobster/config/workspace_config.py -> build/lib/lobster/config 2026-01-11T01:34:32,011 copying lobster/config/agent_capabilities.py -> build/lib/lobster/config 2026-01-11T01:34:32,014 copying lobster/config/supervisor_config.py -> build/lib/lobster/config 2026-01-11T01:34:32,016 copying lobster/config/model_service.py -> build/lib/lobster/config 2026-01-11T01:34:32,019 copying lobster/config/base_config.py -> build/lib/lobster/config 2026-01-11T01:34:32,021 copying lobster/config/llm_factory.py -> build/lib/lobster/config 2026-01-11T01:34:32,024 creating build/lib/lobster/utils 2026-01-11T01:34:32,025 copying lobster/utils/ssl_utils.py -> build/lib/lobster/utils 2026-01-11T01:34:32,027 copying lobster/utils/file_naming.py -> build/lib/lobster/utils 2026-01-11T01:34:32,029 copying lobster/utils/__init__.py -> build/lib/lobster/utils 2026-01-11T01:34:32,031 copying lobster/utils/error_handlers.py -> build/lib/lobster/utils 2026-01-11T01:34:32,034 copying lobster/utils/progress_wrapper.py -> build/lib/lobster/utils 2026-01-11T01:34:32,037 copying lobster/utils/deviance.py -> build/lib/lobster/utils 2026-01-11T01:34:32,039 copying lobster/utils/system.py -> build/lib/lobster/utils 2026-01-11T01:34:32,041 copying lobster/utils/logger.py -> build/lib/lobster/utils 2026-01-11T01:34:32,043 copying lobster/utils/json_extractor.py -> build/lib/lobster/utils 2026-01-11T01:34:32,045 copying lobster/utils/callbacks.py -> build/lib/lobster/utils 2026-01-11T01:34:32,048 copying lobster/utils/file_analyzer.py -> build/lib/lobster/utils 2026-01-11T01:34:32,052 creating build/lib/lobster/core 2026-01-11T01:34:32,053 copying lobster/core/component_registry.py -> build/lib/lobster/core 2026-01-11T01:34:32,055 copying lobster/core/exceptions.py -> build/lib/lobster/core 2026-01-11T01:34:32,058 copying lobster/core/notebook_exporter.py -> build/lib/lobster/core 2026-01-11T01:34:32,061 copying lobster/core/data_manager_v2.py -> build/lib/lobster/core 2026-01-11T01:34:32,065 copying lobster/core/ris_parser.py -> build/lib/lobster/core 2026-01-11T01:34:32,068 copying lobster/core/__init__.py -> build/lib/lobster/core 2026-01-11T01:34:32,070 copying lobster/core/provenance.py -> build/lib/lobster/core 2026-01-11T01:34:32,072 copying lobster/core/publication_queue.py -> build/lib/lobster/core 2026-01-11T01:34:32,075 copying lobster/core/workspace.py -> build/lib/lobster/core 2026-01-11T01:34:32,077 copying lobster/core/download_queue.py -> build/lib/lobster/core 2026-01-11T01:34:32,079 copying lobster/core/config_resolver.py -> build/lib/lobster/core 2026-01-11T01:34:32,082 copying lobster/core/notebook_executor.py -> build/lib/lobster/core 2026-01-11T01:34:32,084 copying lobster/core/plugin_loader.py -> build/lib/lobster/core 2026-01-11T01:34:32,087 copying lobster/core/client.py -> build/lib/lobster/core 2026-01-11T01:34:32,090 copying lobster/core/archive_utils.py -> build/lib/lobster/core 2026-01-11T01:34:32,093 copying lobster/core/plot_manager.py -> build/lib/lobster/core 2026-01-11T01:34:32,095 copying lobster/core/license_manager.py -> build/lib/lobster/core 2026-01-11T01:34:32,098 copying lobster/core/queue_storage.py -> build/lib/lobster/core 2026-01-11T01:34:32,100 copying lobster/core/notebook_validator.py -> build/lib/lobster/core 2026-01-11T01:34:32,103 copying lobster/core/ir_coverage.py -> build/lib/lobster/core 2026-01-11T01:34:32,105 copying lobster/core/analysis_ir.py -> build/lib/lobster/core 2026-01-11T01:34:32,108 creating build/lib/lobster/lobster_cloud 2026-01-11T01:34:32,109 copying lobster/lobster_cloud/__init__.py -> build/lib/lobster/lobster_cloud 2026-01-11T01:34:32,111 copying lobster/lobster_cloud/client.py -> build/lib/lobster/lobster_cloud 2026-01-11T01:34:32,114 creating build/lib/lobster/services 2026-01-11T01:34:32,115 copying lobster/services/__init__.py -> build/lib/lobster/services 2026-01-11T01:34:32,117 creating build/lib/lobster/agents 2026-01-11T01:34:32,118 copying lobster/agents/__init__.py -> build/lib/lobster/agents 2026-01-11T01:34:32,120 copying lobster/agents/data_expert.py -> build/lib/lobster/agents 2026-01-11T01:34:32,123 copying lobster/agents/draw_graph.py -> build/lib/lobster/agents 2026-01-11T01:34:32,125 copying lobster/agents/visualization_expert.py -> build/lib/lobster/agents 2026-01-11T01:34:32,128 copying lobster/agents/data_expert_assistant.py -> build/lib/lobster/agents 2026-01-11T01:34:32,131 copying lobster/agents/supervisor.py -> build/lib/lobster/agents 2026-01-11T01:34:32,134 copying lobster/agents/graph.py -> build/lib/lobster/agents 2026-01-11T01:34:32,137 copying lobster/agents/state.py -> build/lib/lobster/agents 2026-01-11T01:34:32,139 copying lobster/agents/research_agent.py -> build/lib/lobster/agents 2026-01-11T01:34:32,144 creating build/lib/lobster/cli_internal 2026-01-11T01:34:32,145 copying lobster/cli_internal/__init__.py -> build/lib/lobster/cli_internal 2026-01-11T01:34:32,148 creating build/lib/lobster/ui 2026-01-11T01:34:32,149 copying lobster/ui/commands.py -> build/lib/lobster/ui 2026-01-11T01:34:32,152 copying lobster/ui/__init__.py -> build/lib/lobster/ui 2026-01-11T01:34:32,154 copying lobster/ui/live_dashboard.py -> build/lib/lobster/ui 2026-01-11T01:34:32,156 copying lobster/ui/progress_manager.py -> build/lib/lobster/ui 2026-01-11T01:34:32,159 copying lobster/ui/os_app.py -> build/lib/lobster/ui 2026-01-11T01:34:32,161 copying lobster/ui/console_manager.py -> build/lib/lobster/ui 2026-01-11T01:34:32,164 copying lobster/ui/themes.py -> build/lib/lobster/ui 2026-01-11T01:34:32,167 creating build/lib/lobster/tools 2026-01-11T01:34:32,168 copying lobster/tools/geo_downloader.py -> build/lib/lobster/tools 2026-01-11T01:34:32,170 copying lobster/tools/enhanced_handoff_tool.py -> build/lib/lobster/tools 2026-01-11T01:34:32,173 copying lobster/tools/__init__.py -> build/lib/lobster/tools 2026-01-11T01:34:32,174 copying lobster/tools/workspace_tool.py -> build/lib/lobster/tools 2026-01-11T01:34:32,178 copying lobster/tools/pipeline_strategy.py -> build/lib/lobster/tools 2026-01-11T01:34:32,180 copying lobster/tools/handoff_tool.py -> build/lib/lobster/tools 2026-01-11T01:34:32,183 copying lobster/tools/download_orchestrator.py -> build/lib/lobster/tools 2026-01-11T01:34:32,185 copying lobster/tools/geo_parser.py -> build/lib/lobster/tools 2026-01-11T01:34:32,187 copying lobster/tools/gpu_detector.py -> build/lib/lobster/tools 2026-01-11T01:34:32,189 copying lobster/tools/rate_limiter.py -> build/lib/lobster/tools 2026-01-11T01:34:32,192 copying lobster/tools/todo_tools.py -> build/lib/lobster/tools 2026-01-11T01:34:32,194 copying lobster/tools/url_transforms.py -> build/lib/lobster/tools 2026-01-11T01:34:32,196 copying lobster/tools/expert_handoff_patterns.py -> build/lib/lobster/tools 2026-01-11T01:34:32,198 copying lobster/tools/expert_handoff_manager.py -> build/lib/lobster/tools 2026-01-11T01:34:32,200 copying lobster/tools/workflow_tracker.py -> build/lib/lobster/tools 2026-01-11T01:34:32,203 copying lobster/tools/custom_code_tool.py -> build/lib/lobster/tools 2026-01-11T01:34:32,206 creating build/lib/lobster/config/providers 2026-01-11T01:34:32,207 copying lobster/config/providers/base_provider.py -> build/lib/lobster/config/providers 2026-01-11T01:34:32,209 copying lobster/config/providers/gemini_provider.py -> build/lib/lobster/config/providers 2026-01-11T01:34:32,211 copying lobster/config/providers/__init__.py -> build/lib/lobster/config/providers 2026-01-11T01:34:32,213 copying lobster/config/providers/bedrock_provider.py -> build/lib/lobster/config/providers 2026-01-11T01:34:32,216 copying lobster/config/providers/anthropic_provider.py -> build/lib/lobster/config/providers 2026-01-11T01:34:32,218 copying lobster/config/providers/ollama_provider.py -> build/lib/lobster/config/providers 2026-01-11T01:34:32,220 copying lobster/config/providers/registry.py -> build/lib/lobster/config/providers 2026-01-11T01:34:32,223 creating build/lib/lobster/core/interfaces 2026-01-11T01:34:32,224 copying lobster/core/interfaces/__init__.py -> build/lib/lobster/core/interfaces 2026-01-11T01:34:32,226 copying lobster/core/interfaces/adapter.py -> build/lib/lobster/core/interfaces 2026-01-11T01:34:32,229 copying lobster/core/interfaces/download_service.py -> build/lib/lobster/core/interfaces 2026-01-11T01:34:32,231 copying lobster/core/interfaces/backend.py -> build/lib/lobster/core/interfaces 2026-01-11T01:34:32,233 copying lobster/core/interfaces/base_client.py -> build/lib/lobster/core/interfaces 2026-01-11T01:34:32,236 copying lobster/core/interfaces/validator.py -> build/lib/lobster/core/interfaces 2026-01-11T01:34:32,239 creating build/lib/lobster/core/adapters 2026-01-11T01:34:32,240 copying lobster/core/adapters/base.py -> build/lib/lobster/core/adapters 2026-01-11T01:34:32,242 copying lobster/core/adapters/__init__.py -> build/lib/lobster/core/adapters 2026-01-11T01:34:32,244 copying lobster/core/adapters/transcriptomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-11T01:34:32,247 copying lobster/core/adapters/proteomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-11T01:34:32,250 copying lobster/core/adapters/protein_structure_adapter.py -> build/lib/lobster/core/adapters 2026-01-11T01:34:32,253 copying lobster/core/adapters/pseudobulk_adapter.py -> build/lib/lobster/core/adapters 2026-01-11T01:34:32,256 creating build/lib/lobster/core/utils 2026-01-11T01:34:32,257 copying lobster/core/utils/__init__.py -> build/lib/lobster/core/utils 2026-01-11T01:34:32,259 copying lobster/core/utils/h5ad_utils.py -> build/lib/lobster/core/utils 2026-01-11T01:34:32,262 creating build/lib/lobster/core/backends 2026-01-11T01:34:32,263 copying lobster/core/backends/base.py -> build/lib/lobster/core/backends 2026-01-11T01:34:32,265 copying lobster/core/backends/__init__.py -> build/lib/lobster/core/backends 2026-01-11T01:34:32,267 copying lobster/core/backends/mudata_backend.py -> build/lib/lobster/core/backends 2026-01-11T01:34:32,270 copying lobster/core/backends/h5ad_backend.py -> build/lib/lobster/core/backends 2026-01-11T01:34:32,273 creating build/lib/lobster/core/identifiers 2026-01-11T01:34:32,274 copying lobster/core/identifiers/__init__.py -> build/lib/lobster/core/identifiers 2026-01-11T01:34:32,278 copying lobster/core/identifiers/accession_resolver.py -> build/lib/lobster/core/identifiers 2026-01-11T01:34:32,282 creating build/lib/lobster/core/schemas 2026-01-11T01:34:32,283 copying lobster/core/schemas/database_registry.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,285 copying lobster/core/schemas/sra.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,288 copying lobster/core/schemas/export_schemas.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,291 copying lobster/core/schemas/__init__.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,293 copying lobster/core/schemas/database_mappings.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,296 copying lobster/core/schemas/protein_structure.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,298 copying lobster/core/schemas/publication_queue.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,301 copying lobster/core/schemas/transcriptomics.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,305 copying lobster/core/schemas/proteomics.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,308 copying lobster/core/schemas/download_queue.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,310 copying lobster/core/schemas/ontology.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,312 copying lobster/core/schemas/validation.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,315 copying lobster/core/schemas/metagenomics.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,318 copying lobster/core/schemas/metabolomics.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,321 copying lobster/core/schemas/download_urls.py -> build/lib/lobster/core/schemas 2026-01-11T01:34:32,324 creating build/lib/lobster/services/templates 2026-01-11T01:34:32,325 copying lobster/services/templates/__init__.py -> build/lib/lobster/services/templates 2026-01-11T01:34:32,327 copying lobster/services/templates/annotation_templates.py -> build/lib/lobster/services/templates 2026-01-11T01:34:32,330 creating build/lib/lobster/services/visualization 2026-01-11T01:34:32,331 copying lobster/services/visualization/pymol_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-11T01:34:32,334 copying lobster/services/visualization/visualization_service.py -> build/lib/lobster/services/visualization 2026-01-11T01:34:32,338 copying lobster/services/visualization/__init__.py -> build/lib/lobster/services/visualization 2026-01-11T01:34:32,340 copying lobster/services/visualization/bulk_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-11T01:34:32,343 creating build/lib/lobster/services/metadata 2026-01-11T01:34:32,344 copying lobster/services/metadata/identifier_provenance_service.py -> build/lib/lobster/services/metadata 2026-01-11T01:34:32,347 copying lobster/services/metadata/metadata_validation_service.py -> build/lib/lobster/services/metadata 2026-01-11T01:34:32,350 copying lobster/services/metadata/metadata_standardization_service.py -> build/lib/lobster/services/metadata 2026-01-11T01:34:32,353 copying lobster/services/metadata/__init__.py -> build/lib/lobster/services/metadata 2026-01-11T01:34:32,354 copying lobster/services/metadata/manual_annotation_service.py -> build/lib/lobster/services/metadata 2026-01-11T01:34:32,357 copying lobster/services/metadata/sample_grouping_service.py -> build/lib/lobster/services/metadata 2026-01-11T01:34:32,360 creating build/lib/lobster/services/quality 2026-01-11T01:34:32,361 copying lobster/services/quality/__init__.py -> build/lib/lobster/services/quality 2026-01-11T01:34:32,363 copying lobster/services/quality/preprocessing_service.py -> build/lib/lobster/services/quality 2026-01-11T01:34:32,366 copying lobster/services/quality/quality_service.py -> build/lib/lobster/services/quality 2026-01-11T01:34:32,370 creating build/lib/lobster/services/ml 2026-01-11T01:34:32,371 copying lobster/services/ml/__init__.py -> build/lib/lobster/services/ml 2026-01-11T01:34:32,373 creating build/lib/lobster/services/data_management 2026-01-11T01:34:32,374 copying lobster/services/data_management/concatenation_service.py -> build/lib/lobster/services/data_management 2026-01-11T01:34:32,377 copying lobster/services/data_management/__init__.py -> build/lib/lobster/services/data_management 2026-01-11T01:34:32,379 copying lobster/services/data_management/modality_management_service.py -> build/lib/lobster/services/data_management 2026-01-11T01:34:32,382 creating build/lib/lobster/services/orchestration 2026-01-11T01:34:32,383 copying lobster/services/orchestration/publication_processing_service.py -> build/lib/lobster/services/orchestration 2026-01-11T01:34:32,387 copying lobster/services/orchestration/__init__.py -> build/lib/lobster/services/orchestration 2026-01-11T01:34:32,389 creating build/lib/lobster/services/analysis 2026-01-11T01:34:32,390 copying lobster/services/analysis/structure_analysis_service.py -> build/lib/lobster/services/analysis 2026-01-11T01:34:32,393 copying lobster/services/analysis/pseudobulk_service.py -> build/lib/lobster/services/analysis 2026-01-11T01:34:32,396 copying lobster/services/analysis/enhanced_singlecell_service.py -> build/lib/lobster/services/analysis 2026-01-11T01:34:32,399 copying lobster/services/analysis/__init__.py -> build/lib/lobster/services/analysis 2026-01-11T01:34:32,400 copying lobster/services/analysis/bulk_rnaseq_service.py -> build/lib/lobster/services/analysis 2026-01-11T01:34:32,404 copying lobster/services/analysis/differential_formula_service.py -> build/lib/lobster/services/analysis 2026-01-11T01:34:32,407 copying lobster/services/analysis/scvi_embedding_service.py -> build/lib/lobster/services/analysis 2026-01-11T01:34:32,409 copying lobster/services/analysis/clustering_service.py -> build/lib/lobster/services/analysis 2026-01-11T01:34:32,414 creating build/lib/lobster/services/execution 2026-01-11T01:34:32,415 copying lobster/services/execution/custom_code_execution_service.py -> build/lib/lobster/services/execution 2026-01-11T01:34:32,419 copying lobster/services/execution/__init__.py -> build/lib/lobster/services/execution 2026-01-11T01:34:32,421 copying lobster/services/execution/execution_context_builder.py -> build/lib/lobster/services/execution 2026-01-11T01:34:32,425 creating build/lib/lobster/services/data_access 2026-01-11T01:34:32,426 copying lobster/services/data_access/content_access_service.py -> build/lib/lobster/services/data_access 2026-01-11T01:34:32,432 copying lobster/services/data_access/protein_structure_fetch_service.py -> build/lib/lobster/services/data_access 2026-01-11T01:34:32,435 copying lobster/services/data_access/geo_service.py -> build/lib/lobster/services/data_access 2026-01-11T01:34:32,443 copying lobster/services/data_access/sra_download_service.py -> build/lib/lobster/services/data_access 2026-01-11T01:34:32,447 copying lobster/services/data_access/pride_download_service.py -> build/lib/lobster/services/data_access 2026-01-11T01:34:32,450 copying lobster/services/data_access/geo_fallback_service.py -> build/lib/lobster/services/data_access 2026-01-11T01:34:32,454 copying lobster/services/data_access/__init__.py -> build/lib/lobster/services/data_access 2026-01-11T01:34:32,456 copying lobster/services/data_access/docling_service.py -> build/lib/lobster/services/data_access 2026-01-11T01:34:32,460 copying lobster/services/data_access/workspace_content_service.py -> build/lib/lobster/services/data_access 2026-01-11T01:34:32,464 copying lobster/services/data_access/geo_download_service.py -> build/lib/lobster/services/data_access 2026-01-11T01:34:32,467 copying lobster/services/data_access/massive_download_service.py -> build/lib/lobster/services/data_access 2026-01-11T01:34:32,471 creating build/lib/lobster/services/metadata/protocol_extraction 2026-01-11T01:34:32,472 copying lobster/services/metadata/protocol_extraction/base.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-11T01:34:32,475 copying lobster/services/metadata/protocol_extraction/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-11T01:34:32,478 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T01:34:32,479 copying lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T01:34:32,483 copying lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T01:34:32,485 copying lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T01:34:32,489 creating build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T01:34:32,490 copying lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T01:34:32,492 copying lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T01:34:32,495 copying lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T01:34:32,498 creating build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T01:34:32,499 copying lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T01:34:32,501 copying lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T01:34:32,504 copying lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T01:34:32,507 creating build/lib/lobster/services/data_access/geo 2026-01-11T01:34:32,509 copying lobster/services/data_access/geo/strategy.py -> build/lib/lobster/services/data_access/geo 2026-01-11T01:34:32,512 copying lobster/services/data_access/geo/__init__.py -> build/lib/lobster/services/data_access/geo 2026-01-11T01:34:32,514 copying lobster/services/data_access/geo/facade.py -> build/lib/lobster/services/data_access/geo 2026-01-11T01:34:32,516 copying lobster/services/data_access/geo/downloader.py -> build/lib/lobster/services/data_access/geo 2026-01-11T01:34:32,519 copying lobster/services/data_access/geo/constants.py -> build/lib/lobster/services/data_access/geo 2026-01-11T01:34:32,521 copying lobster/services/data_access/geo/parser.py -> build/lib/lobster/services/data_access/geo 2026-01-11T01:34:32,525 creating build/lib/lobster/services/data_access/geo/metadata 2026-01-11T01:34:32,526 copying lobster/services/data_access/geo/metadata/__init__.py -> build/lib/lobster/services/data_access/geo/metadata 2026-01-11T01:34:32,528 creating build/lib/lobster/services/data_access/geo/sample 2026-01-11T01:34:32,529 copying lobster/services/data_access/geo/sample/__init__.py -> build/lib/lobster/services/data_access/geo/sample 2026-01-11T01:34:32,532 creating build/lib/lobster/services/data_access/geo/utils 2026-01-11T01:34:32,533 copying lobster/services/data_access/geo/utils/__init__.py -> build/lib/lobster/services/data_access/geo/utils 2026-01-11T01:34:32,535 creating build/lib/lobster/services/data_access/geo/loaders 2026-01-11T01:34:32,536 copying lobster/services/data_access/geo/loaders/__init__.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-11T01:34:32,538 copying lobster/services/data_access/geo/loaders/tenx.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-11T01:34:32,541 creating build/lib/lobster/agents/archive 2026-01-11T01:34:32,542 copying lobster/agents/archive/research_agent_assistant.py -> build/lib/lobster/agents/archive 2026-01-11T01:34:32,545 creating build/lib/lobster/agents/proteomics 2026-01-11T01:34:32,546 copying lobster/agents/proteomics/__init__.py -> build/lib/lobster/agents/proteomics 2026-01-11T01:34:32,548 copying lobster/agents/proteomics/state.py -> build/lib/lobster/agents/proteomics 2026-01-11T01:34:32,551 creating build/lib/lobster/agents/transcriptomics 2026-01-11T01:34:32,551 copying lobster/agents/transcriptomics/shared_tools.py -> build/lib/lobster/agents/transcriptomics 2026-01-11T01:34:32,554 copying lobster/agents/transcriptomics/__init__.py -> build/lib/lobster/agents/transcriptomics 2026-01-11T01:34:32,556 copying lobster/agents/transcriptomics/de_analysis_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-11T01:34:32,560 copying lobster/agents/transcriptomics/transcriptomics_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-11T01:34:32,563 copying lobster/agents/transcriptomics/annotation_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-11T01:34:32,566 copying lobster/agents/transcriptomics/state.py -> build/lib/lobster/agents/transcriptomics 2026-01-11T01:34:32,568 creating build/lib/lobster/agents/langgraph_supervisor 2026-01-11T01:34:32,569 copying lobster/agents/langgraph_supervisor/agent_name.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-11T01:34:32,571 copying lobster/agents/langgraph_supervisor/__init__.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-11T01:34:32,573 copying lobster/agents/langgraph_supervisor/handoff.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-11T01:34:32,575 copying lobster/agents/langgraph_supervisor/supervisor.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-11T01:34:32,578 creating build/lib/lobster/cli_internal/utils 2026-01-11T01:34:32,579 copying lobster/cli_internal/utils/__init__.py -> build/lib/lobster/cli_internal/utils 2026-01-11T01:34:32,581 copying lobster/cli_internal/utils/path_resolution.py -> build/lib/lobster/cli_internal/utils 2026-01-11T01:34:32,585 creating build/lib/lobster/cli_internal/commands 2026-01-11T01:34:32,586 copying lobster/cli_internal/commands/__init__.py -> build/lib/lobster/cli_internal/commands 2026-01-11T01:34:32,588 copying lobster/cli_internal/commands/output_adapter.py -> build/lib/lobster/cli_internal/commands 2026-01-11T01:34:32,591 creating build/lib/lobster/cli_internal/commands/light 2026-01-11T01:34:32,592 copying lobster/cli_internal/commands/light/config_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T01:34:32,595 copying lobster/cli_internal/commands/light/__init__.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T01:34:32,596 copying lobster/cli_internal/commands/light/pipeline_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T01:34:32,599 copying lobster/cli_internal/commands/light/workspace_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T01:34:32,602 copying lobster/cli_internal/commands/light/file_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T01:34:32,605 copying lobster/cli_internal/commands/light/queue_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T01:34:32,607 copying lobster/cli_internal/commands/light/metadata_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-11T01:34:32,610 creating build/lib/lobster/cli_internal/commands/heavy 2026-01-11T01:34:32,611 copying lobster/cli_internal/commands/heavy/__init__.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-11T01:34:32,613 copying lobster/cli_internal/commands/heavy/visualization_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-11T01:34:32,615 copying lobster/cli_internal/commands/heavy/modality_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-11T01:34:32,618 copying lobster/cli_internal/commands/heavy/data_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-11T01:34:32,621 creating build/lib/lobster/ui/components 2026-01-11T01:34:32,622 copying lobster/ui/components/__init__.py -> build/lib/lobster/ui/components 2026-01-11T01:34:32,624 copying lobster/ui/components/multi_progress.py -> build/lib/lobster/ui/components 2026-01-11T01:34:32,627 copying lobster/ui/components/status_display.py -> build/lib/lobster/ui/components 2026-01-11T01:34:32,629 copying lobster/ui/components/file_tree.py -> build/lib/lobster/ui/components 2026-01-11T01:34:32,632 copying lobster/ui/components/parallel_workers_progress.py -> build/lib/lobster/ui/components 2026-01-11T01:34:32,634 creating build/lib/lobster/ui/callbacks 2026-01-11T01:34:32,635 copying lobster/ui/callbacks/textual_callback.py -> build/lib/lobster/ui/callbacks 2026-01-11T01:34:32,638 copying lobster/ui/callbacks/__init__.py -> build/lib/lobster/ui/callbacks 2026-01-11T01:34:32,640 creating build/lib/lobster/ui/screens 2026-01-11T01:34:32,641 copying lobster/ui/screens/__init__.py -> build/lib/lobster/ui/screens 2026-01-11T01:34:32,643 copying lobster/ui/screens/analysis_screen.py -> build/lib/lobster/ui/screens 2026-01-11T01:34:32,646 creating build/lib/lobster/ui/formatters 2026-01-11T01:34:32,647 copying lobster/ui/formatters/__init__.py -> build/lib/lobster/ui/formatters 2026-01-11T01:34:32,649 creating build/lib/lobster/ui/services 2026-01-11T01:34:32,651 copying lobster/ui/services/__init__.py -> build/lib/lobster/ui/services 2026-01-11T01:34:32,652 copying lobster/ui/services/error_service.py -> build/lib/lobster/ui/services 2026-01-11T01:34:32,655 creating build/lib/lobster/ui/widgets 2026-01-11T01:34:32,656 copying lobster/ui/widgets/connections_panel.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,659 copying lobster/ui/widgets/error_modal.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,661 copying lobster/ui/widgets/adapters_panel.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,663 copying lobster/ui/widgets/__init__.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,665 copying lobster/ui/widgets/data_hub.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,668 copying lobster/ui/widgets/queue_status_bar.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,670 copying lobster/ui/widgets/chat_message.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,672 copying lobster/ui/widgets/query_prompt.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,674 copying lobster/ui/widgets/token_usage_panel.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,676 copying lobster/ui/widgets/activity_log.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,679 copying lobster/ui/widgets/system_info.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,681 copying lobster/ui/widgets/status_bar.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,683 copying lobster/ui/widgets/agents_panel.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,686 copying lobster/ui/widgets/results_display.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,688 copying lobster/ui/widgets/queue_panel.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,690 copying lobster/ui/widgets/modality_list.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,692 copying lobster/ui/widgets/plot_preview.py -> build/lib/lobster/ui/widgets 2026-01-11T01:34:32,695 creating build/lib/lobster/tools/archive 2026-01-11T01:34:32,696 copying lobster/tools/archive/unified_content_service.py -> build/lib/lobster/tools/archive 2026-01-11T01:34:32,699 copying lobster/tools/archive/publication_service.py -> build/lib/lobster/tools/archive 2026-01-11T01:34:32,702 creating build/lib/lobster/tools/providers 2026-01-11T01:34:32,704 copying lobster/tools/providers/structure_provider.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,707 copying lobster/tools/providers/base_provider.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,710 copying lobster/tools/providers/pmc_provider.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,713 copying lobster/tools/providers/webpage_provider.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,716 copying lobster/tools/providers/__init__.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,718 copying lobster/tools/providers/organism_enum.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,721 copying lobster/tools/providers/abstract_provider.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,724 copying lobster/tools/providers/massive_provider.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,727 copying lobster/tools/providers/provider_registry.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,729 copying lobster/tools/providers/pdb_provider.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,732 copying lobster/tools/providers/pride_provider.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,735 copying lobster/tools/providers/geo_provider.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,739 copying lobster/tools/providers/biorxiv_medrxiv_config.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,741 copying lobster/tools/providers/sra_provider.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,745 copying lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,749 copying lobster/tools/providers/ncbi_query_builder.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,753 copying lobster/tools/providers/publication_resolver.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,756 copying lobster/tools/providers/pubmed_provider.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,760 copying lobster/tools/providers/geo_utils.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,763 copying lobster/tools/providers/pride_normalizer.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,766 copying lobster/tools/providers/biopython_entrez_wrapper.py -> build/lib/lobster/tools/providers 2026-01-11T01:34:32,769 running egg_info 2026-01-11T01:34:32,781 writing lobster_ai.egg-info/PKG-INFO 2026-01-11T01:34:32,811 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-11T01:34:32,813 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-11T01:34:32,833 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-11T01:34:32,835 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-11T01:34:32,955 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-11T01:34:32,971 adding license file 'LICENSE' 2026-01-11T01:34:32,986 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-11T01:34:33,077 copying lobster/config/disease_ontology.json -> build/lib/lobster/config 2026-01-11T01:34:33,080 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-11T01:34:33,082 copying lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-11T01:34:33,120 installing to build/bdist.linux-armv7l/wheel 2026-01-11T01:34:33,121 running install 2026-01-11T01:34:33,145 running install_lib 2026-01-11T01:34:33,152 creating build/bdist.linux-armv7l/wheel 2026-01-11T01:34:33,154 creating build/bdist.linux-armv7l/wheel/lobster 2026-01-11T01:34:33,156 creating build/bdist.linux-armv7l/wheel/lobster/config 2026-01-11T01:34:33,158 copying build/lib/lobster/config/settings.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,161 copying build/lib/lobster/config/subscription_tiers.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,164 copying build/lib/lobster/config/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,166 copying build/lib/lobster/config/provider_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,169 copying build/lib/lobster/config/disease_ontology.json -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,171 copying build/lib/lobster/config/agent_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,174 copying build/lib/lobster/config/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,176 copying build/lib/lobster/config/ssl_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,180 creating build/bdist.linux-armv7l/wheel/lobster/config/providers 2026-01-11T01:34:33,181 copying build/lib/lobster/config/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T01:34:33,184 copying build/lib/lobster/config/providers/gemini_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T01:34:33,187 copying build/lib/lobster/config/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T01:34:33,189 copying build/lib/lobster/config/providers/bedrock_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T01:34:33,192 copying build/lib/lobster/config/providers/anthropic_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T01:34:33,195 copying build/lib/lobster/config/providers/ollama_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T01:34:33,198 copying build/lib/lobster/config/providers/registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-11T01:34:33,200 copying build/lib/lobster/config/version_check.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,203 copying build/lib/lobster/config/agent_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,206 copying build/lib/lobster/config/ollama_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,209 copying build/lib/lobster/config/config_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,211 copying build/lib/lobster/config/global_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,214 copying build/lib/lobster/config/workspace_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,217 copying build/lib/lobster/config/agent_capabilities.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,220 copying build/lib/lobster/config/supervisor_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,223 copying build/lib/lobster/config/model_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,226 copying build/lib/lobster/config/base_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,228 copying build/lib/lobster/config/llm_factory.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-11T01:34:33,231 copying build/lib/lobster/__main__.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-11T01:34:33,233 copying build/lib/lobster/main.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-11T01:34:33,236 creating build/bdist.linux-armv7l/wheel/lobster/utils 2026-01-11T01:34:33,237 copying build/lib/lobster/utils/ssl_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T01:34:33,240 copying build/lib/lobster/utils/file_naming.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T01:34:33,243 copying build/lib/lobster/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T01:34:33,245 copying build/lib/lobster/utils/error_handlers.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T01:34:33,248 copying build/lib/lobster/utils/progress_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T01:34:33,251 copying build/lib/lobster/utils/deviance.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T01:34:33,253 copying build/lib/lobster/utils/system.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T01:34:33,256 copying build/lib/lobster/utils/logger.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T01:34:33,258 copying build/lib/lobster/utils/json_extractor.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T01:34:33,260 copying build/lib/lobster/utils/callbacks.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T01:34:33,264 copying build/lib/lobster/utils/file_analyzer.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-11T01:34:33,267 copying build/lib/lobster/_version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-11T01:34:33,270 creating build/bdist.linux-armv7l/wheel/lobster/core 2026-01-11T01:34:33,272 copying build/lib/lobster/core/component_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,274 copying build/lib/lobster/core/exceptions.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,278 creating build/bdist.linux-armv7l/wheel/lobster/core/interfaces 2026-01-11T01:34:33,279 copying build/lib/lobster/core/interfaces/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-11T01:34:33,281 copying build/lib/lobster/core/interfaces/adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-11T01:34:33,284 copying build/lib/lobster/core/interfaces/download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-11T01:34:33,287 copying build/lib/lobster/core/interfaces/backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-11T01:34:33,289 copying build/lib/lobster/core/interfaces/base_client.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-11T01:34:33,292 copying build/lib/lobster/core/interfaces/validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-11T01:34:33,295 copying build/lib/lobster/core/notebook_exporter.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,298 copying build/lib/lobster/core/data_manager_v2.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,302 copying build/lib/lobster/core/ris_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,305 copying build/lib/lobster/core/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,307 copying build/lib/lobster/core/provenance.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,310 copying build/lib/lobster/core/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,313 copying build/lib/lobster/core/workspace.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,316 creating build/bdist.linux-armv7l/wheel/lobster/core/adapters 2026-01-11T01:34:33,317 copying build/lib/lobster/core/adapters/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-11T01:34:33,320 copying build/lib/lobster/core/adapters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-11T01:34:33,321 copying build/lib/lobster/core/adapters/transcriptomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-11T01:34:33,324 copying build/lib/lobster/core/adapters/proteomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-11T01:34:33,328 copying build/lib/lobster/core/adapters/protein_structure_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-11T01:34:33,330 copying build/lib/lobster/core/adapters/pseudobulk_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-11T01:34:33,333 creating build/bdist.linux-armv7l/wheel/lobster/core/utils 2026-01-11T01:34:33,334 copying build/lib/lobster/core/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-11T01:34:33,336 copying build/lib/lobster/core/utils/h5ad_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-11T01:34:33,339 copying build/lib/lobster/core/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,341 copying build/lib/lobster/core/config_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,345 creating build/bdist.linux-armv7l/wheel/lobster/core/backends 2026-01-11T01:34:33,346 copying build/lib/lobster/core/backends/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-11T01:34:33,348 copying build/lib/lobster/core/backends/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-11T01:34:33,350 copying build/lib/lobster/core/backends/mudata_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-11T01:34:33,352 copying build/lib/lobster/core/backends/h5ad_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-11T01:34:33,355 copying build/lib/lobster/core/notebook_executor.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,358 copying build/lib/lobster/core/plugin_loader.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,360 copying build/lib/lobster/core/client.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,364 creating build/bdist.linux-armv7l/wheel/lobster/core/identifiers 2026-01-11T01:34:33,365 copying build/lib/lobster/core/identifiers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-11T01:34:33,367 copying build/lib/lobster/core/identifiers/accession_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-11T01:34:33,369 copying build/lib/lobster/core/archive_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,372 copying build/lib/lobster/core/plot_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,375 creating build/bdist.linux-armv7l/wheel/lobster/core/schemas 2026-01-11T01:34:33,376 copying build/lib/lobster/core/schemas/database_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,379 copying build/lib/lobster/core/schemas/sra.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,382 copying build/lib/lobster/core/schemas/export_schemas.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,385 copying build/lib/lobster/core/schemas/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,387 copying build/lib/lobster/core/schemas/database_mappings.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,389 copying build/lib/lobster/core/schemas/protein_structure.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,392 copying build/lib/lobster/core/schemas/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,394 copying build/lib/lobster/core/schemas/transcriptomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,398 copying build/lib/lobster/core/schemas/proteomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,401 copying build/lib/lobster/core/schemas/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,403 copying build/lib/lobster/core/schemas/ontology.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,405 copying build/lib/lobster/core/schemas/validation.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,408 copying build/lib/lobster/core/schemas/metagenomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,411 copying build/lib/lobster/core/schemas/metabolomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,414 copying build/lib/lobster/core/schemas/download_urls.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-11T01:34:33,417 copying build/lib/lobster/core/license_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,419 copying build/lib/lobster/core/queue_storage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,421 copying build/lib/lobster/core/notebook_validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,424 copying build/lib/lobster/core/ir_coverage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,426 copying build/lib/lobster/core/analysis_ir.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-11T01:34:33,430 creating build/bdist.linux-armv7l/wheel/lobster/lobster_cloud 2026-01-11T01:34:33,431 copying build/lib/lobster/lobster_cloud/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-11T01:34:33,432 copying build/lib/lobster/lobster_cloud/client.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-11T01:34:33,434 copying build/lib/lobster/version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-11T01:34:33,436 copying build/lib/lobster/cli.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-11T01:34:33,443 creating build/bdist.linux-armv7l/wheel/lobster/services 2026-01-11T01:34:33,444 creating build/bdist.linux-armv7l/wheel/lobster/services/templates 2026-01-11T01:34:33,445 copying build/lib/lobster/services/templates/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-11T01:34:33,447 copying build/lib/lobster/services/templates/annotation_templates.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-11T01:34:33,451 creating build/bdist.linux-armv7l/wheel/lobster/services/visualization 2026-01-11T01:34:33,452 copying build/lib/lobster/services/visualization/pymol_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-11T01:34:33,455 copying build/lib/lobster/services/visualization/visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-11T01:34:33,459 copying build/lib/lobster/services/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-11T01:34:33,460 copying build/lib/lobster/services/visualization/bulk_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-11T01:34:33,464 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata 2026-01-11T01:34:33,465 copying build/lib/lobster/services/metadata/identifier_provenance_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-11T01:34:33,467 copying build/lib/lobster/services/metadata/metadata_validation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-11T01:34:33,470 copying build/lib/lobster/services/metadata/metadata_standardization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-11T01:34:33,473 copying build/lib/lobster/services/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-11T01:34:33,475 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction 2026-01-11T01:34:33,476 copying build/lib/lobster/services/metadata/protocol_extraction/base.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-11T01:34:33,478 copying build/lib/lobster/services/metadata/protocol_extraction/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-11T01:34:33,480 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T01:34:33,481 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T01:34:33,484 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T01:34:33,486 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-11T01:34:33,487 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-11T01:34:33,489 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-11T01:34:33,492 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T01:34:33,493 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T01:34:33,495 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T01:34:33,498 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-11T01:34:33,502 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T01:34:33,503 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T01:34:33,505 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T01:34:33,506 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-11T01:34:33,509 copying build/lib/lobster/services/metadata/manual_annotation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-11T01:34:33,511 copying build/lib/lobster/services/metadata/sample_grouping_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-11T01:34:33,514 copying build/lib/lobster/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services 2026-01-11T01:34:33,516 creating build/bdist.linux-armv7l/wheel/lobster/services/quality 2026-01-11T01:34:33,517 copying build/lib/lobster/services/quality/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-11T01:34:33,518 copying build/lib/lobster/services/quality/preprocessing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-11T01:34:33,521 copying build/lib/lobster/services/quality/quality_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-11T01:34:33,524 creating build/bdist.linux-armv7l/wheel/lobster/services/ml 2026-01-11T01:34:33,525 copying build/lib/lobster/services/ml/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/ml 2026-01-11T01:34:33,528 creating build/bdist.linux-armv7l/wheel/lobster/services/data_management 2026-01-11T01:34:33,529 copying build/lib/lobster/services/data_management/concatenation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-11T01:34:33,533 copying build/lib/lobster/services/data_management/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-11T01:34:33,534 copying build/lib/lobster/services/data_management/modality_management_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-11T01:34:33,537 creating build/bdist.linux-armv7l/wheel/lobster/services/orchestration 2026-01-11T01:34:33,538 copying build/lib/lobster/services/orchestration/publication_processing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-11T01:34:33,760 copying build/lib/lobster/services/orchestration/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-11T01:34:33,762 creating build/bdist.linux-armv7l/wheel/lobster/services/analysis 2026-01-11T01:34:33,763 copying build/lib/lobster/services/analysis/structure_analysis_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T01:34:33,765 copying build/lib/lobster/services/analysis/pseudobulk_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T01:34:33,768 copying build/lib/lobster/services/analysis/enhanced_singlecell_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T01:34:33,771 copying build/lib/lobster/services/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T01:34:33,772 copying build/lib/lobster/services/analysis/bulk_rnaseq_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T01:34:33,776 copying build/lib/lobster/services/analysis/differential_formula_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T01:34:33,779 copying build/lib/lobster/services/analysis/scvi_embedding_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T01:34:33,781 copying build/lib/lobster/services/analysis/clustering_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-11T01:34:33,785 creating build/bdist.linux-armv7l/wheel/lobster/services/execution 2026-01-11T01:34:33,786 copying build/lib/lobster/services/execution/custom_code_execution_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-11T01:34:33,789 copying build/lib/lobster/services/execution/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-11T01:34:33,791 copying build/lib/lobster/services/execution/execution_context_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-11T01:34:33,794 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access 2026-01-11T01:34:33,795 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo 2026-01-11T01:34:33,797 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/metadata 2026-01-11T01:34:33,798 copying build/lib/lobster/services/data_access/geo/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/metadata 2026-01-11T01:34:33,800 copying build/lib/lobster/services/data_access/geo/strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-11T01:34:33,802 copying build/lib/lobster/services/data_access/geo/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-11T01:34:33,804 copying build/lib/lobster/services/data_access/geo/facade.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-11T01:34:33,806 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/sample 2026-01-11T01:34:33,807 copying build/lib/lobster/services/data_access/geo/sample/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/sample 2026-01-11T01:34:33,809 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/utils 2026-01-11T01:34:33,810 copying build/lib/lobster/services/data_access/geo/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/utils 2026-01-11T01:34:33,812 copying build/lib/lobster/services/data_access/geo/downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-11T01:34:33,815 copying build/lib/lobster/services/data_access/geo/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-11T01:34:33,817 copying build/lib/lobster/services/data_access/geo/parser.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-11T01:34:33,821 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/loaders 2026-01-11T01:34:33,822 copying build/lib/lobster/services/data_access/geo/loaders/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-11T01:34:33,824 copying build/lib/lobster/services/data_access/geo/loaders/tenx.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-11T01:34:33,827 copying build/lib/lobster/services/data_access/content_access_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T01:34:33,830 copying build/lib/lobster/services/data_access/protein_structure_fetch_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T01:34:33,832 copying build/lib/lobster/services/data_access/geo_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T01:34:33,838 copying build/lib/lobster/services/data_access/sra_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T01:34:33,841 copying build/lib/lobster/services/data_access/pride_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T01:34:33,843 copying build/lib/lobster/services/data_access/geo_fallback_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T01:34:33,846 copying build/lib/lobster/services/data_access/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T01:34:33,847 copying build/lib/lobster/services/data_access/docling_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T01:34:33,850 copying build/lib/lobster/services/data_access/workspace_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T01:34:33,853 copying build/lib/lobster/services/data_access/geo_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T01:34:33,855 copying build/lib/lobster/services/data_access/massive_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-11T01:34:33,858 creating build/bdist.linux-armv7l/wheel/lobster/agents 2026-01-11T01:34:33,860 creating build/bdist.linux-armv7l/wheel/lobster/agents/archive 2026-01-11T01:34:33,861 copying build/lib/lobster/agents/archive/research_agent_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/archive 2026-01-11T01:34:33,863 copying build/lib/lobster/agents/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T01:34:33,865 copying build/lib/lobster/agents/data_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T01:34:33,868 copying build/lib/lobster/agents/draw_graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T01:34:33,870 creating build/bdist.linux-armv7l/wheel/lobster/agents/proteomics 2026-01-11T01:34:33,871 copying build/lib/lobster/agents/proteomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-11T01:34:33,873 copying build/lib/lobster/agents/proteomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-11T01:34:33,875 creating build/bdist.linux-armv7l/wheel/lobster/agents/transcriptomics 2026-01-11T01:34:33,876 copying build/lib/lobster/agents/transcriptomics/shared_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-11T01:34:33,879 copying build/lib/lobster/agents/transcriptomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-11T01:34:33,881 copying build/lib/lobster/agents/transcriptomics/de_analysis_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-11T01:34:33,884 copying build/lib/lobster/agents/transcriptomics/transcriptomics_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-11T01:34:33,887 copying build/lib/lobster/agents/transcriptomics/annotation_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-11T01:34:33,890 copying build/lib/lobster/agents/transcriptomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-11T01:34:33,892 copying build/lib/lobster/agents/visualization_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T01:34:33,894 copying build/lib/lobster/agents/data_expert_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T01:34:33,897 copying build/lib/lobster/agents/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T01:34:33,900 copying build/lib/lobster/agents/graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T01:34:33,902 copying build/lib/lobster/agents/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T01:34:33,905 creating build/bdist.linux-armv7l/wheel/lobster/agents/langgraph_supervisor 2026-01-11T01:34:33,905 copying build/lib/lobster/agents/langgraph_supervisor/agent_name.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-11T01:34:33,907 copying build/lib/lobster/agents/langgraph_supervisor/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-11T01:34:33,909 copying build/lib/lobster/agents/langgraph_supervisor/handoff.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-11T01:34:33,911 copying build/lib/lobster/agents/langgraph_supervisor/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-11T01:34:33,914 copying build/lib/lobster/agents/research_agent.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-11T01:34:33,918 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal 2026-01-11T01:34:33,919 copying build/lib/lobster/cli_internal/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal 2026-01-11T01:34:33,921 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/utils 2026-01-11T01:34:33,922 copying build/lib/lobster/cli_internal/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-11T01:34:33,924 copying build/lib/lobster/cli_internal/utils/path_resolution.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-11T01:34:33,927 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands 2026-01-11T01:34:33,929 copying build/lib/lobster/cli_internal/commands/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-11T01:34:33,931 copying build/lib/lobster/cli_internal/commands/output_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-11T01:34:33,934 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/light 2026-01-11T01:34:33,936 copying build/lib/lobster/cli_internal/commands/light/config_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T01:34:33,940 copying build/lib/lobster/cli_internal/commands/light/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T01:34:33,942 copying build/lib/lobster/cli_internal/commands/light/pipeline_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T01:34:33,945 copying build/lib/lobster/cli_internal/commands/light/workspace_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T01:34:33,948 copying build/lib/lobster/cli_internal/commands/light/file_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T01:34:33,952 copying build/lib/lobster/cli_internal/commands/light/queue_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T01:34:33,955 copying build/lib/lobster/cli_internal/commands/light/metadata_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-11T01:34:33,959 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/heavy 2026-01-11T01:34:33,960 copying build/lib/lobster/cli_internal/commands/heavy/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-11T01:34:33,963 copying build/lib/lobster/cli_internal/commands/heavy/visualization_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-11T01:34:33,966 copying build/lib/lobster/cli_internal/commands/heavy/modality_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-11T01:34:33,969 copying build/lib/lobster/cli_internal/commands/heavy/data_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-11T01:34:33,972 creating build/bdist.linux-armv7l/wheel/lobster/ui 2026-01-11T01:34:33,973 copying build/lib/lobster/ui/commands.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T01:34:33,978 creating build/bdist.linux-armv7l/wheel/lobster/ui/components 2026-01-11T01:34:33,979 copying build/lib/lobster/ui/components/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-11T01:34:33,981 copying build/lib/lobster/ui/components/multi_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-11T01:34:33,984 copying build/lib/lobster/ui/components/status_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-11T01:34:33,987 copying build/lib/lobster/ui/components/file_tree.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-11T01:34:33,990 copying build/lib/lobster/ui/components/parallel_workers_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-11T01:34:33,993 copying build/lib/lobster/ui/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T01:34:33,995 copying build/lib/lobster/ui/live_dashboard.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T01:34:33,998 copying build/lib/lobster/ui/progress_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T01:34:34,002 creating build/bdist.linux-armv7l/wheel/lobster/ui/callbacks 2026-01-11T01:34:34,003 copying build/lib/lobster/ui/callbacks/textual_callback.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-11T01:34:34,006 copying build/lib/lobster/ui/callbacks/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-11T01:34:34,009 creating build/bdist.linux-armv7l/wheel/lobster/ui/screens 2026-01-11T01:34:34,010 copying build/lib/lobster/ui/screens/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-11T01:34:34,013 copying build/lib/lobster/ui/screens/analysis_screen.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-11T01:34:34,016 creating build/bdist.linux-armv7l/wheel/lobster/ui/formatters 2026-01-11T01:34:34,018 copying build/lib/lobster/ui/formatters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/formatters 2026-01-11T01:34:34,020 creating build/bdist.linux-armv7l/wheel/lobster/ui/services 2026-01-11T01:34:34,022 copying build/lib/lobster/ui/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-11T01:34:34,024 copying build/lib/lobster/ui/services/error_service.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-11T01:34:34,027 copying build/lib/lobster/ui/os_app.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T01:34:34,029 copying build/lib/lobster/ui/console_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T01:34:34,031 copying build/lib/lobster/ui/themes.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-11T01:34:34,034 creating build/bdist.linux-armv7l/wheel/lobster/ui/widgets 2026-01-11T01:34:34,035 copying build/lib/lobster/ui/widgets/connections_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,037 copying build/lib/lobster/ui/widgets/error_modal.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,040 copying build/lib/lobster/ui/widgets/adapters_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,042 copying build/lib/lobster/ui/widgets/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,043 copying build/lib/lobster/ui/widgets/data_hub.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,046 copying build/lib/lobster/ui/widgets/queue_status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,048 copying build/lib/lobster/ui/widgets/chat_message.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,050 copying build/lib/lobster/ui/widgets/query_prompt.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,052 copying build/lib/lobster/ui/widgets/token_usage_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,054 copying build/lib/lobster/ui/widgets/activity_log.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,056 copying build/lib/lobster/ui/widgets/system_info.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,058 copying build/lib/lobster/ui/widgets/status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,060 copying build/lib/lobster/ui/widgets/agents_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,062 copying build/lib/lobster/ui/widgets/results_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,064 copying build/lib/lobster/ui/widgets/queue_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,066 copying build/lib/lobster/ui/widgets/modality_list.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,068 copying build/lib/lobster/ui/widgets/plot_preview.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-11T01:34:34,071 creating build/bdist.linux-armv7l/wheel/lobster/tools 2026-01-11T01:34:34,072 creating build/bdist.linux-armv7l/wheel/lobster/tools/archive 2026-01-11T01:34:34,073 copying build/lib/lobster/tools/archive/unified_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-11T01:34:34,076 copying build/lib/lobster/tools/archive/publication_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-11T01:34:34,079 copying build/lib/lobster/tools/geo_downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,081 copying build/lib/lobster/tools/enhanced_handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,083 copying build/lib/lobster/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,085 copying build/lib/lobster/tools/workspace_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,090 copying build/lib/lobster/tools/pipeline_strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,092 copying build/lib/lobster/tools/handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,094 copying build/lib/lobster/tools/download_orchestrator.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,096 copying build/lib/lobster/tools/geo_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,099 creating build/bdist.linux-armv7l/wheel/lobster/tools/providers 2026-01-11T01:34:34,100 copying build/lib/lobster/tools/providers/structure_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,102 copying build/lib/lobster/tools/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,105 copying build/lib/lobster/tools/providers/pmc_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,108 copying build/lib/lobster/tools/providers/webpage_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,110 copying build/lib/lobster/tools/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,112 copying build/lib/lobster/tools/providers/organism_enum.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,115 copying build/lib/lobster/tools/providers/abstract_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,117 copying build/lib/lobster/tools/providers/massive_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,120 copying build/lib/lobster/tools/providers/provider_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,122 copying build/lib/lobster/tools/providers/pdb_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,125 copying build/lib/lobster/tools/providers/pride_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,128 copying build/lib/lobster/tools/providers/geo_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,131 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_config.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,133 copying build/lib/lobster/tools/providers/sra_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,136 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,139 copying build/lib/lobster/tools/providers/ncbi_query_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,141 copying build/lib/lobster/tools/providers/publication_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,144 copying build/lib/lobster/tools/providers/pubmed_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,148 copying build/lib/lobster/tools/providers/geo_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,150 copying build/lib/lobster/tools/providers/pride_normalizer.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,152 copying build/lib/lobster/tools/providers/biopython_entrez_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-11T01:34:34,155 copying build/lib/lobster/tools/gpu_detector.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,157 copying build/lib/lobster/tools/rate_limiter.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,160 copying build/lib/lobster/tools/todo_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,163 copying build/lib/lobster/tools/url_transforms.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,166 copying build/lib/lobster/tools/expert_handoff_patterns.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,168 copying build/lib/lobster/tools/expert_handoff_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,171 copying build/lib/lobster/tools/workflow_tracker.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,174 copying build/lib/lobster/tools/custom_code_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-11T01:34:34,177 running install_egg_info 2026-01-11T01:34:34,183 Copying lobster_ai.egg-info to build/bdist.linux-armv7l/wheel/./lobster_ai-0.4.3.0-py3.11.egg-info 2026-01-11T01:34:34,196 running install_scripts 2026-01-11T01:34:34,209 creating build/bdist.linux-armv7l/wheel/lobster_ai-0.4.3.0.dist-info/WHEEL 2026-01-11T01:34:34,212 creating '/tmp/pip-wheel-91ni23bv/.tmp-131ofamf/lobster_ai-0.4.3.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-01-11T01:34:34,215 adding 'lobster/__main__.py' 2026-01-11T01:34:34,217 adding 'lobster/_version.py' 2026-01-11T01:34:34,245 adding 'lobster/cli.py' 2026-01-11T01:34:34,249 adding 'lobster/main.py' 2026-01-11T01:34:34,250 adding 'lobster/version.py' 2026-01-11T01:34:34,253 adding 'lobster/agents/__init__.py' 2026-01-11T01:34:34,260 adding 'lobster/agents/data_expert.py' 2026-01-11T01:34:34,265 adding 'lobster/agents/data_expert_assistant.py' 2026-01-11T01:34:34,267 adding 'lobster/agents/draw_graph.py' 2026-01-11T01:34:34,270 adding 'lobster/agents/graph.py' 2026-01-11T01:34:34,284 adding 'lobster/agents/research_agent.py' 2026-01-11T01:34:34,288 adding 'lobster/agents/state.py' 2026-01-11T01:34:34,292 adding 'lobster/agents/supervisor.py' 2026-01-11T01:34:34,296 adding 'lobster/agents/visualization_expert.py' 2026-01-11T01:34:34,299 adding 'lobster/agents/archive/research_agent_assistant.py' 2026-01-11T01:34:34,301 adding 'lobster/agents/langgraph_supervisor/__init__.py' 2026-01-11T01:34:34,303 adding 'lobster/agents/langgraph_supervisor/agent_name.py' 2026-01-11T01:34:34,305 adding 'lobster/agents/langgraph_supervisor/handoff.py' 2026-01-11T01:34:34,308 adding 'lobster/agents/langgraph_supervisor/supervisor.py' 2026-01-11T01:34:34,311 adding 'lobster/agents/proteomics/__init__.py' 2026-01-11T01:34:34,312 adding 'lobster/agents/proteomics/state.py' 2026-01-11T01:34:34,314 adding 'lobster/agents/transcriptomics/__init__.py' 2026-01-11T01:34:34,319 adding 'lobster/agents/transcriptomics/annotation_expert.py' 2026-01-11T01:34:34,328 adding 'lobster/agents/transcriptomics/de_analysis_expert.py' 2026-01-11T01:34:34,333 adding 'lobster/agents/transcriptomics/shared_tools.py' 2026-01-11T01:34:34,335 adding 'lobster/agents/transcriptomics/state.py' 2026-01-11T01:34:34,340 adding 'lobster/agents/transcriptomics/transcriptomics_expert.py' 2026-01-11T01:34:34,343 adding 'lobster/cli_internal/__init__.py' 2026-01-11T01:34:34,345 adding 'lobster/cli_internal/commands/__init__.py' 2026-01-11T01:34:34,347 adding 'lobster/cli_internal/commands/output_adapter.py' 2026-01-11T01:34:34,349 adding 'lobster/cli_internal/commands/heavy/__init__.py' 2026-01-11T01:34:34,351 adding 'lobster/cli_internal/commands/heavy/data_commands.py' 2026-01-11T01:34:34,354 adding 'lobster/cli_internal/commands/heavy/modality_commands.py' 2026-01-11T01:34:34,357 adding 'lobster/cli_internal/commands/heavy/visualization_commands.py' 2026-01-11T01:34:34,359 adding 'lobster/cli_internal/commands/light/__init__.py' 2026-01-11T01:34:34,362 adding 'lobster/cli_internal/commands/light/config_commands.py' 2026-01-11T01:34:34,365 adding 'lobster/cli_internal/commands/light/file_commands.py' 2026-01-11T01:34:34,369 adding 'lobster/cli_internal/commands/light/metadata_commands.py' 2026-01-11T01:34:34,371 adding 'lobster/cli_internal/commands/light/pipeline_commands.py' 2026-01-11T01:34:34,374 adding 'lobster/cli_internal/commands/light/queue_commands.py' 2026-01-11T01:34:34,378 adding 'lobster/cli_internal/commands/light/workspace_commands.py' 2026-01-11T01:34:34,381 adding 'lobster/cli_internal/utils/__init__.py' 2026-01-11T01:34:34,383 adding 'lobster/cli_internal/utils/path_resolution.py' 2026-01-11T01:34:34,385 adding 'lobster/config/__init__.py' 2026-01-11T01:34:34,387 adding 'lobster/config/agent_capabilities.py' 2026-01-11T01:34:34,391 adding 'lobster/config/agent_config.py' 2026-01-11T01:34:34,393 adding 'lobster/config/agent_registry.py' 2026-01-11T01:34:34,395 adding 'lobster/config/base_config.py' 2026-01-11T01:34:34,397 adding 'lobster/config/config_manager.py' 2026-01-11T01:34:34,399 adding 'lobster/config/constants.py' 2026-01-11T01:34:34,401 adding 'lobster/config/disease_ontology.json' 2026-01-11T01:34:34,403 adding 'lobster/config/global_config.py' 2026-01-11T01:34:34,405 adding 'lobster/config/llm_factory.py' 2026-01-11T01:34:34,407 adding 'lobster/config/model_service.py' 2026-01-11T01:34:34,410 adding 'lobster/config/ollama_service.py' 2026-01-11T01:34:34,412 adding 'lobster/config/provider_setup.py' 2026-01-11T01:34:34,414 adding 'lobster/config/settings.py' 2026-01-11T01:34:34,417 adding 'lobster/config/ssl_setup.py' 2026-01-11T01:34:34,419 adding 'lobster/config/subscription_tiers.py' 2026-01-11T01:34:34,421 adding 'lobster/config/supervisor_config.py' 2026-01-11T01:34:34,423 adding 'lobster/config/version_check.py' 2026-01-11T01:34:34,425 adding 'lobster/config/workspace_config.py' 2026-01-11T01:34:34,427 adding 'lobster/config/providers/__init__.py' 2026-01-11T01:34:34,429 adding 'lobster/config/providers/anthropic_provider.py' 2026-01-11T01:34:34,431 adding 'lobster/config/providers/base_provider.py' 2026-01-11T01:34:34,433 adding 'lobster/config/providers/bedrock_provider.py' 2026-01-11T01:34:34,435 adding 'lobster/config/providers/gemini_provider.py' 2026-01-11T01:34:34,438 adding 'lobster/config/providers/ollama_provider.py' 2026-01-11T01:34:34,440 adding 'lobster/config/providers/registry.py' 2026-01-11T01:34:34,442 adding 'lobster/core/__init__.py' 2026-01-11T01:34:34,445 adding 'lobster/core/analysis_ir.py' 2026-01-11T01:34:34,448 adding 'lobster/core/archive_utils.py' 2026-01-11T01:34:34,458 adding 'lobster/core/client.py' 2026-01-11T01:34:34,461 adding 'lobster/core/component_registry.py' 2026-01-11T01:34:34,463 adding 'lobster/core/config_resolver.py' 2026-01-11T01:34:34,477 adding 'lobster/core/data_manager_v2.py' 2026-01-11T01:34:34,480 adding 'lobster/core/download_queue.py' 2026-01-11T01:34:34,482 adding 'lobster/core/exceptions.py' 2026-01-11T01:34:34,485 adding 'lobster/core/ir_coverage.py' 2026-01-11T01:34:34,488 adding 'lobster/core/license_manager.py' 2026-01-11T01:34:34,491 adding 'lobster/core/notebook_executor.py' 2026-01-11T01:34:34,495 adding 'lobster/core/notebook_exporter.py' 2026-01-11T01:34:34,497 adding 'lobster/core/notebook_validator.py' 2026-01-11T01:34:34,501 adding 'lobster/core/plot_manager.py' 2026-01-11T01:34:34,503 adding 'lobster/core/plugin_loader.py' 2026-01-11T01:34:34,506 adding 'lobster/core/provenance.py' 2026-01-11T01:34:34,509 adding 'lobster/core/publication_queue.py' 2026-01-11T01:34:34,510 adding 'lobster/core/queue_storage.py' 2026-01-11T01:34:34,513 adding 'lobster/core/ris_parser.py' 2026-01-11T01:34:34,515 adding 'lobster/core/workspace.py' 2026-01-11T01:34:34,517 adding 'lobster/core/adapters/__init__.py' 2026-01-11T01:34:34,520 adding 'lobster/core/adapters/base.py' 2026-01-11T01:34:34,522 adding 'lobster/core/adapters/protein_structure_adapter.py' 2026-01-11T01:34:34,526 adding 'lobster/core/adapters/proteomics_adapter.py' 2026-01-11T01:34:34,529 adding 'lobster/core/adapters/pseudobulk_adapter.py' 2026-01-11T01:34:34,533 adding 'lobster/core/adapters/transcriptomics_adapter.py' 2026-01-11T01:34:34,535 adding 'lobster/core/backends/__init__.py' 2026-01-11T01:34:34,537 adding 'lobster/core/backends/base.py' 2026-01-11T01:34:34,541 adding 'lobster/core/backends/h5ad_backend.py' 2026-01-11T01:34:34,544 adding 'lobster/core/backends/mudata_backend.py' 2026-01-11T01:34:34,546 adding 'lobster/core/identifiers/__init__.py' 2026-01-11T01:34:34,548 adding 'lobster/core/identifiers/accession_resolver.py' 2026-01-11T01:34:34,550 adding 'lobster/core/interfaces/__init__.py' 2026-01-11T01:34:34,552 adding 'lobster/core/interfaces/adapter.py' 2026-01-11T01:34:34,554 adding 'lobster/core/interfaces/backend.py' 2026-01-11T01:34:34,556 adding 'lobster/core/interfaces/base_client.py' 2026-01-11T01:34:34,559 adding 'lobster/core/interfaces/download_service.py' 2026-01-11T01:34:34,561 adding 'lobster/core/interfaces/validator.py' 2026-01-11T01:34:34,563 adding 'lobster/core/schemas/__init__.py' 2026-01-11T01:34:34,566 adding 'lobster/core/schemas/database_mappings.py' 2026-01-11T01:34:34,568 adding 'lobster/core/schemas/database_registry.py' 2026-01-11T01:34:34,571 adding 'lobster/core/schemas/download_queue.py' 2026-01-11T01:34:34,573 adding 'lobster/core/schemas/download_urls.py' 2026-01-11T01:34:34,579 adding 'lobster/core/schemas/export_schemas.py' 2026-01-11T01:34:34,583 adding 'lobster/core/schemas/metabolomics.py' 2026-01-11T01:34:34,589 adding 'lobster/core/schemas/metagenomics.py' 2026-01-11T01:34:34,591 adding 'lobster/core/schemas/ontology.py' 2026-01-11T01:34:34,594 adding 'lobster/core/schemas/protein_structure.py' 2026-01-11T01:34:34,597 adding 'lobster/core/schemas/proteomics.py' 2026-01-11T01:34:34,601 adding 'lobster/core/schemas/publication_queue.py' 2026-01-11T01:34:34,605 adding 'lobster/core/schemas/sra.py' 2026-01-11T01:34:34,613 adding 'lobster/core/schemas/transcriptomics.py' 2026-01-11T01:34:34,615 adding 'lobster/core/schemas/validation.py' 2026-01-11T01:34:34,618 adding 'lobster/core/utils/__init__.py' 2026-01-11T01:34:34,620 adding 'lobster/core/utils/h5ad_utils.py' 2026-01-11T01:34:34,622 adding 'lobster/lobster_cloud/__init__.py' 2026-01-11T01:34:34,624 adding 'lobster/lobster_cloud/client.py' 2026-01-11T01:34:34,626 adding 'lobster/services/__init__.py' 2026-01-11T01:34:34,628 adding 'lobster/services/analysis/__init__.py' 2026-01-11T01:34:34,636 adding 'lobster/services/analysis/bulk_rnaseq_service.py' 2026-01-11T01:34:34,646 adding 'lobster/services/analysis/clustering_service.py' 2026-01-11T01:34:34,651 adding 'lobster/services/analysis/differential_formula_service.py' 2026-01-11T01:34:34,657 adding 'lobster/services/analysis/enhanced_singlecell_service.py' 2026-01-11T01:34:34,661 adding 'lobster/services/analysis/pseudobulk_service.py' 2026-01-11T01:34:34,664 adding 'lobster/services/analysis/scvi_embedding_service.py' 2026-01-11T01:34:34,667 adding 'lobster/services/analysis/structure_analysis_service.py' 2026-01-11T01:34:34,669 adding 'lobster/services/data_access/__init__.py' 2026-01-11T01:34:34,677 adding 'lobster/services/data_access/content_access_service.py' 2026-01-11T01:34:34,683 adding 'lobster/services/data_access/docling_service.py' 2026-01-11T01:34:34,686 adding 'lobster/services/data_access/geo_download_service.py' 2026-01-11T01:34:34,689 adding 'lobster/services/data_access/geo_fallback_service.py' 2026-01-11T01:34:34,713 adding 'lobster/services/data_access/geo_service.py' 2026-01-11T01:34:34,717 adding 'lobster/services/data_access/massive_download_service.py' 2026-01-11T01:34:34,719 adding 'lobster/services/data_access/pride_download_service.py' 2026-01-11T01:34:34,722 adding 'lobster/services/data_access/protein_structure_fetch_service.py' 2026-01-11T01:34:34,726 adding 'lobster/services/data_access/sra_download_service.py' 2026-01-11T01:34:34,731 adding 'lobster/services/data_access/workspace_content_service.py' 2026-01-11T01:34:34,733 adding 'lobster/services/data_access/geo/__init__.py' 2026-01-11T01:34:34,734 adding 'lobster/services/data_access/geo/constants.py' 2026-01-11T01:34:34,738 adding 'lobster/services/data_access/geo/downloader.py' 2026-01-11T01:34:34,740 adding 'lobster/services/data_access/geo/facade.py' 2026-01-11T01:34:34,747 adding 'lobster/services/data_access/geo/parser.py' 2026-01-11T01:34:34,750 adding 'lobster/services/data_access/geo/strategy.py' 2026-01-11T01:34:34,751 adding 'lobster/services/data_access/geo/loaders/__init__.py' 2026-01-11T01:34:34,754 adding 'lobster/services/data_access/geo/loaders/tenx.py' 2026-01-11T01:34:34,755 adding 'lobster/services/data_access/geo/metadata/__init__.py' 2026-01-11T01:34:34,757 adding 'lobster/services/data_access/geo/sample/__init__.py' 2026-01-11T01:34:34,759 adding 'lobster/services/data_access/geo/utils/__init__.py' 2026-01-11T01:34:34,760 adding 'lobster/services/data_management/__init__.py' 2026-01-11T01:34:34,765 adding 'lobster/services/data_management/concatenation_service.py' 2026-01-11T01:34:34,768 adding 'lobster/services/data_management/modality_management_service.py' 2026-01-11T01:34:34,770 adding 'lobster/services/execution/__init__.py' 2026-01-11T01:34:34,774 adding 'lobster/services/execution/custom_code_execution_service.py' 2026-01-11T01:34:34,776 adding 'lobster/services/execution/execution_context_builder.py' 2026-01-11T01:34:34,778 adding 'lobster/services/metadata/__init__.py' 2026-01-11T01:34:34,780 adding 'lobster/services/metadata/identifier_provenance_service.py' 2026-01-11T01:34:34,784 adding 'lobster/services/metadata/manual_annotation_service.py' 2026-01-11T01:34:34,787 adding 'lobster/services/metadata/metadata_standardization_service.py' 2026-01-11T01:34:34,791 adding 'lobster/services/metadata/metadata_validation_service.py' 2026-01-11T01:34:34,793 adding 'lobster/services/metadata/sample_grouping_service.py' 2026-01-11T01:34:34,795 adding 'lobster/services/metadata/protocol_extraction/__init__.py' 2026-01-11T01:34:34,796 adding 'lobster/services/metadata/protocol_extraction/base.py' 2026-01-11T01:34:34,798 adding 'lobster/services/metadata/protocol_extraction/amplicon/__init__.py' 2026-01-11T01:34:34,800 adding 'lobster/services/metadata/protocol_extraction/amplicon/details.py' 2026-01-11T01:34:34,803 adding 'lobster/services/metadata/protocol_extraction/amplicon/service.py' 2026-01-11T01:34:34,805 adding 'lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json' 2026-01-11T01:34:34,806 adding 'lobster/services/metadata/protocol_extraction/mass_spec/__init__.py' 2026-01-11T01:34:34,808 adding 'lobster/services/metadata/protocol_extraction/mass_spec/details.py' 2026-01-11T01:34:34,809 adding 'lobster/services/metadata/protocol_extraction/mass_spec/service.py' 2026-01-11T01:34:34,811 adding 'lobster/services/metadata/protocol_extraction/rnaseq/__init__.py' 2026-01-11T01:34:34,812 adding 'lobster/services/metadata/protocol_extraction/rnaseq/details.py' 2026-01-11T01:34:34,813 adding 'lobster/services/metadata/protocol_extraction/rnaseq/service.py' 2026-01-11T01:34:34,815 adding 'lobster/services/ml/__init__.py' 2026-01-11T01:34:34,816 adding 'lobster/services/orchestration/__init__.py' 2026-01-11T01:34:34,825 adding 'lobster/services/orchestration/publication_processing_service.py' 2026-01-11T01:34:34,827 adding 'lobster/services/quality/__init__.py' 2026-01-11T01:34:34,832 adding 'lobster/services/quality/preprocessing_service.py' 2026-01-11T01:34:34,836 adding 'lobster/services/quality/quality_service.py' 2026-01-11T01:34:34,837 adding 'lobster/services/templates/__init__.py' 2026-01-11T01:34:34,842 adding 'lobster/services/templates/annotation_templates.py' 2026-01-11T01:34:34,844 adding 'lobster/services/visualization/__init__.py' 2026-01-11T01:34:34,846 adding 'lobster/services/visualization/bulk_visualization_service.py' 2026-01-11T01:34:34,850 adding 'lobster/services/visualization/pymol_visualization_service.py' 2026-01-11T01:34:34,857 adding 'lobster/services/visualization/visualization_service.py' 2026-01-11T01:34:34,860 adding 'lobster/tools/__init__.py' 2026-01-11T01:34:34,862 adding 'lobster/tools/custom_code_tool.py' 2026-01-11T01:34:34,864 adding 'lobster/tools/download_orchestrator.py' 2026-01-11T01:34:34,867 adding 'lobster/tools/enhanced_handoff_tool.py' 2026-01-11T01:34:34,869 adding 'lobster/tools/expert_handoff_manager.py' 2026-01-11T01:34:34,871 adding 'lobster/tools/expert_handoff_patterns.py' 2026-01-11T01:34:34,872 adding 'lobster/tools/geo_downloader.py' 2026-01-11T01:34:34,873 adding 'lobster/tools/geo_parser.py' 2026-01-11T01:34:34,875 adding 'lobster/tools/gpu_detector.py' 2026-01-11T01:34:34,877 adding 'lobster/tools/handoff_tool.py' 2026-01-11T01:34:34,878 adding 'lobster/tools/pipeline_strategy.py' 2026-01-11T01:34:34,882 adding 'lobster/tools/rate_limiter.py' 2026-01-11T01:34:34,884 adding 'lobster/tools/todo_tools.py' 2026-01-11T01:34:34,885 adding 'lobster/tools/url_transforms.py' 2026-01-11T01:34:34,888 adding 'lobster/tools/workflow_tracker.py' 2026-01-11T01:34:34,900 adding 'lobster/tools/workspace_tool.py' 2026-01-11T01:34:34,904 adding 'lobster/tools/archive/publication_service.py' 2026-01-11T01:34:34,907 adding 'lobster/tools/archive/unified_content_service.py' 2026-01-11T01:34:34,909 adding 'lobster/tools/providers/__init__.py' 2026-01-11T01:34:34,911 adding 'lobster/tools/providers/abstract_provider.py' 2026-01-11T01:34:34,913 adding 'lobster/tools/providers/base_provider.py' 2026-01-11T01:34:34,916 adding 'lobster/tools/providers/biopython_entrez_wrapper.py' 2026-01-11T01:34:34,917 adding 'lobster/tools/providers/biorxiv_medrxiv_config.py' 2026-01-11T01:34:34,923 adding 'lobster/tools/providers/biorxiv_medrxiv_provider.py' 2026-01-11T01:34:34,929 adding 'lobster/tools/providers/geo_provider.py' 2026-01-11T01:34:34,930 adding 'lobster/tools/providers/geo_utils.py' 2026-01-11T01:34:34,933 adding 'lobster/tools/providers/massive_provider.py' 2026-01-11T01:34:34,935 adding 'lobster/tools/providers/ncbi_query_builder.py' 2026-01-11T01:34:34,937 adding 'lobster/tools/providers/organism_enum.py' 2026-01-11T01:34:34,940 adding 'lobster/tools/providers/pdb_provider.py' 2026-01-11T01:34:34,946 adding 'lobster/tools/providers/pmc_provider.py' 2026-01-11T01:34:34,949 adding 'lobster/tools/providers/pride_normalizer.py' 2026-01-11T01:34:34,952 adding 'lobster/tools/providers/pride_provider.py' 2026-01-11T01:34:34,954 adding 'lobster/tools/providers/provider_registry.py' 2026-01-11T01:34:34,957 adding 'lobster/tools/providers/publication_resolver.py' 2026-01-11T01:34:34,966 adding 'lobster/tools/providers/pubmed_provider.py' 2026-01-11T01:34:34,973 adding 'lobster/tools/providers/sra_provider.py' 2026-01-11T01:34:34,974 adding 'lobster/tools/providers/structure_provider.py' 2026-01-11T01:34:34,977 adding 'lobster/tools/providers/webpage_provider.py' 2026-01-11T01:34:34,978 adding 'lobster/ui/__init__.py' 2026-01-11T01:34:34,981 adding 'lobster/ui/commands.py' 2026-01-11T01:34:34,983 adding 'lobster/ui/console_manager.py' 2026-01-11T01:34:34,985 adding 'lobster/ui/live_dashboard.py' 2026-01-11T01:34:34,987 adding 'lobster/ui/os_app.py' 2026-01-11T01:34:34,989 adding 'lobster/ui/progress_manager.py' 2026-01-11T01:34:34,991 adding 'lobster/ui/themes.py' 2026-01-11T01:34:34,993 adding 'lobster/ui/callbacks/__init__.py' 2026-01-11T01:34:34,996 adding 'lobster/ui/callbacks/textual_callback.py' 2026-01-11T01:34:34,997 adding 'lobster/ui/components/__init__.py' 2026-01-11T01:34:35,000 adding 'lobster/ui/components/file_tree.py' 2026-01-11T01:34:35,002 adding 'lobster/ui/components/multi_progress.py' 2026-01-11T01:34:35,004 adding 'lobster/ui/components/parallel_workers_progress.py' 2026-01-11T01:34:35,006 adding 'lobster/ui/components/status_display.py' 2026-01-11T01:34:35,008 adding 'lobster/ui/formatters/__init__.py' 2026-01-11T01:34:35,010 adding 'lobster/ui/screens/__init__.py' 2026-01-11T01:34:35,013 adding 'lobster/ui/screens/analysis_screen.py' 2026-01-11T01:34:35,015 adding 'lobster/ui/services/__init__.py' 2026-01-11T01:34:35,017 adding 'lobster/ui/services/error_service.py' 2026-01-11T01:34:35,019 adding 'lobster/ui/widgets/__init__.py' 2026-01-11T01:34:35,021 adding 'lobster/ui/widgets/activity_log.py' 2026-01-11T01:34:35,022 adding 'lobster/ui/widgets/adapters_panel.py' 2026-01-11T01:34:35,024 adding 'lobster/ui/widgets/agents_panel.py' 2026-01-11T01:34:35,025 adding 'lobster/ui/widgets/chat_message.py' 2026-01-11T01:34:35,027 adding 'lobster/ui/widgets/connections_panel.py' 2026-01-11T01:34:35,030 adding 'lobster/ui/widgets/data_hub.py' 2026-01-11T01:34:35,032 adding 'lobster/ui/widgets/error_modal.py' 2026-01-11T01:34:35,033 adding 'lobster/ui/widgets/modality_list.py' 2026-01-11T01:34:35,034 adding 'lobster/ui/widgets/plot_preview.py' 2026-01-11T01:34:35,036 adding 'lobster/ui/widgets/query_prompt.py' 2026-01-11T01:34:35,037 adding 'lobster/ui/widgets/queue_panel.py' 2026-01-11T01:34:35,039 adding 'lobster/ui/widgets/queue_status_bar.py' 2026-01-11T01:34:35,040 adding 'lobster/ui/widgets/results_display.py' 2026-01-11T01:34:35,042 adding 'lobster/ui/widgets/status_bar.py' 2026-01-11T01:34:35,044 adding 'lobster/ui/widgets/system_info.py' 2026-01-11T01:34:35,045 adding 'lobster/ui/widgets/token_usage_panel.py' 2026-01-11T01:34:35,047 adding 'lobster/utils/__init__.py' 2026-01-11T01:34:35,053 adding 'lobster/utils/callbacks.py' 2026-01-11T01:34:35,054 adding 'lobster/utils/deviance.py' 2026-01-11T01:34:35,059 adding 'lobster/utils/error_handlers.py' 2026-01-11T01:34:35,061 adding 'lobster/utils/file_analyzer.py' 2026-01-11T01:34:35,063 adding 'lobster/utils/file_naming.py' 2026-01-11T01:34:35,065 adding 'lobster/utils/json_extractor.py' 2026-01-11T01:34:35,066 adding 'lobster/utils/logger.py' 2026-01-11T01:34:35,068 adding 'lobster/utils/progress_wrapper.py' 2026-01-11T01:34:35,069 adding 'lobster/utils/ssl_utils.py' 2026-01-11T01:34:35,071 adding 'lobster/utils/system.py' 2026-01-11T01:34:35,078 adding 'lobster_ai-0.4.3.0.dist-info/licenses/LICENSE' 2026-01-11T01:34:35,080 adding 'lobster_ai-0.4.3.0.dist-info/METADATA' 2026-01-11T01:34:35,081 adding 'lobster_ai-0.4.3.0.dist-info/WHEEL' 2026-01-11T01:34:35,082 adding 'lobster_ai-0.4.3.0.dist-info/entry_points.txt' 2026-01-11T01:34:35,083 adding 'lobster_ai-0.4.3.0.dist-info/top_level.txt' 2026-01-11T01:34:35,088 adding 'lobster_ai-0.4.3.0.dist-info/RECORD' 2026-01-11T01:34:35,106 removing build/bdist.linux-armv7l/wheel 2026-01-11T01:34:35,309 Building wheel for lobster-ai (pyproject.toml): finished with status 'done' 2026-01-11T01:34:35,328 Created wheel for lobster-ai: filename=lobster_ai-0.4.3.0-py3-none-any.whl size=1374736 sha256=b5e836888122bbd92e9ed8d7951ccf08204df19805d53dc62e79d9df96ff2187 2026-01-11T01:34:35,329 Stored in directory: /tmp/pip-ephem-wheel-cache-mb34npgp/wheels/ee/70/5a/e1f7a3f3d72ab7a5bef6ca897e7683633d3a7ad261fec3be33 2026-01-11T01:34:35,356 Successfully built lobster-ai 2026-01-11T01:34:35,389 Removed build tracker: '/tmp/pip-build-tracker-5ae5dbe4'