2026-01-07T12:33:14,577 Created temporary directory: /tmp/pip-ephem-wheel-cache-amtseu7v 2026-01-07T12:33:14,578 Created temporary directory: /tmp/pip-build-tracker-focnrh07 2026-01-07T12:33:14,579 Initialized build tracking at /tmp/pip-build-tracker-focnrh07 2026-01-07T12:33:14,580 Created build tracker: /tmp/pip-build-tracker-focnrh07 2026-01-07T12:33:14,580 Entered build tracker: /tmp/pip-build-tracker-focnrh07 2026-01-07T12:33:14,581 Created temporary directory: /tmp/pip-wheel-cwts85sq 2026-01-07T12:33:14,584 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 2026-01-07T12:33:14,586 Created temporary directory: /tmp/pip-ephem-wheel-cache-9vjp6mrb 2026-01-07T12:33:14,608 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-07T12:33:14,612 2 location(s) to search for versions of lobster-ai: 2026-01-07T12:33:14,612 * https://pypi.org/simple/lobster-ai/ 2026-01-07T12:33:14,612 * https://www.piwheels.org/simple/lobster-ai/ 2026-01-07T12:33:14,612 Fetching project page and analyzing links: https://pypi.org/simple/lobster-ai/ 2026-01-07T12:33:14,613 Getting page https://pypi.org/simple/lobster-ai/ 2026-01-07T12:33:14,614 Found index url https://pypi.org/simple 2026-01-07T12:33:14,829 Fetched page https://pypi.org/simple/lobster-ai/ as application/vnd.pypi.simple.v1+json 2026-01-07T12:33:14,832 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/25/73/1d1a25243200fd27fb678fc6ba25c4f1675657400551cb051e2f0ba608ec/lobster_ai-0.4.0.6-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T12:33:14,833 Found link https://files.pythonhosted.org/packages/70/bb/d1a5b8fb3972b827f824ed05220013d162bbec24be0d8bffe790e535960b/lobster_ai-0.4.0.6.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.0.6 2026-01-07T12:33:14,834 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/28/50/4706e55b526417192c7d0734f9300f26cbaa6f3404a258dc5e23932755d8/lobster_ai-0.4.0.7-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T12:33:14,834 Found link https://files.pythonhosted.org/packages/a8/80/ed27ba2c77f7614bf149a697b450c4828da9d56fe5c8d3f0090165bf76fc/lobster_ai-0.4.0.7.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.0.7 2026-01-07T12:33:14,835 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/d6/d8/90aa06db1b87347873b4ce21d57d45a24c7c9a7f357128242401dacf90ee/lobster_ai-0.4.0.8-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T12:33:14,836 Found link https://files.pythonhosted.org/packages/69/86/8a4b462df9a8118f3de7e0685672bda6cb876c8345b4434923a5c5e941ff/lobster_ai-0.4.0.8.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.0.8 2026-01-07T12:33:14,837 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/82/31/78340295ff44b67ccc4c5caaa6719063d7474604cd61fa9262fc35d4d956/lobster_ai-0.4.0.9-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T12:33:14,838 Found link https://files.pythonhosted.org/packages/6f/e1/d7ec868a638125f79b3f450e1ecb1b9e75ed7ba1887b51849531a4b362dc/lobster_ai-0.4.0.9.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.0.9 2026-01-07T12:33:14,838 Fetching project page and analyzing links: https://www.piwheels.org/simple/lobster-ai/ 2026-01-07T12:33:14,839 Getting page https://www.piwheels.org/simple/lobster-ai/ 2026-01-07T12:33:14,840 Found index url https://www.piwheels.org/simple 2026-01-07T12:33:14,998 Fetched page https://www.piwheels.org/simple/lobster-ai/ as text/html 2026-01-07T12:33:15,000 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) 2026-01-07T12:33:15,001 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.0.6-py3-none-any.whl#sha256=2d937b84c8a017772656d9ca05d13ea77671ba5c8b1eccb92e4129465a975502 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T12:33:15,001 Skipping link: not a file: https://www.piwheels.org/simple/lobster-ai/ 2026-01-07T12:33:15,002 Skipping link: not a file: https://pypi.org/simple/lobster-ai/ 2026-01-07T12:33:15,021 Given no hashes to check 1 links for project 'lobster-ai': discarding no candidates 2026-01-07T12:33:15,039 Collecting lobster-ai==0.4.0.8 2026-01-07T12:33:15,041 Created temporary directory: /tmp/pip-unpack-9j7itn5c 2026-01-07T12:33:15,258 Downloading lobster_ai-0.4.0.8.tar.gz (1.2 MB) 2026-01-07T12:33:16,226 Added lobster-ai==0.4.0.8 from https://files.pythonhosted.org/packages/69/86/8a4b462df9a8118f3de7e0685672bda6cb876c8345b4434923a5c5e941ff/lobster_ai-0.4.0.8.tar.gz to build tracker '/tmp/pip-build-tracker-focnrh07' 2026-01-07T12:33:16,234 Created temporary directory: /tmp/pip-build-env-avwcggbj 2026-01-07T12:33:16,239 Installing build dependencies: started 2026-01-07T12:33:16,240 Running command pip subprocess to install build dependencies 2026-01-07T12:33:17,380 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-01-07T12:33:18,036 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 2026-01-07T12:33:18,059 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-07T12:33:19,777 Collecting setuptools>=65.0 2026-01-07T12:33:19,863 Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB) 2026-01-07T12:33:20,129 Collecting wheel 2026-01-07T12:33:20,148 Using cached https://www.piwheels.org/simple/wheel/wheel-0.45.1-py3-none-any.whl (72 kB) 2026-01-07T12:33:23,123 Installing collected packages: wheel, setuptools 2026-01-07T12:33:23,363 Creating /tmp/pip-build-env-avwcggbj/overlay/local/bin 2026-01-07T12:33:23,366 changing mode of /tmp/pip-build-env-avwcggbj/overlay/local/bin/wheel to 755 2026-01-07T12:33:27,077 Successfully installed setuptools-80.9.0 wheel-0.45.1 2026-01-07T12:33:27,351 Installing build dependencies: finished with status 'done' 2026-01-07T12:33:27,357 Getting requirements to build wheel: started 2026-01-07T12:33:27,358 Running command Getting requirements to build wheel 2026-01-07T12:33:28,033 /tmp/pip-build-env-avwcggbj/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-07T12:33:28,033 corresp(dist, value, root_dir) 2026-01-07T12:33:28,034 /tmp/pip-build-env-avwcggbj/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-07T12:33:28,034 corresp(dist, value, root_dir) 2026-01-07T12:33:28,035 /tmp/pip-build-env-avwcggbj/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-07T12:33:28,036 corresp(dist, value, root_dir) 2026-01-07T12:33:28,143 running egg_info 2026-01-07T12:33:28,150 writing lobster_ai.egg-info/PKG-INFO 2026-01-07T12:33:28,181 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-07T12:33:28,183 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-07T12:33:28,202 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-07T12:33:28,204 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-07T12:33:28,351 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-07T12:33:28,368 adding license file 'LICENSE' 2026-01-07T12:33:28,382 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-07T12:33:28,481 Getting requirements to build wheel: finished with status 'done' 2026-01-07T12:33:28,485 Created temporary directory: /tmp/pip-modern-metadata-_rscn9ul 2026-01-07T12:33:28,487 Preparing metadata (pyproject.toml): started 2026-01-07T12:33:28,488 Running command Preparing metadata (pyproject.toml) 2026-01-07T12:33:29,134 /tmp/pip-build-env-avwcggbj/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-07T12:33:29,134 corresp(dist, value, root_dir) 2026-01-07T12:33:29,134 /tmp/pip-build-env-avwcggbj/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-07T12:33:29,135 corresp(dist, value, root_dir) 2026-01-07T12:33:29,135 /tmp/pip-build-env-avwcggbj/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-07T12:33:29,136 corresp(dist, value, root_dir) 2026-01-07T12:33:29,237 running dist_info 2026-01-07T12:33:29,249 creating /tmp/pip-modern-metadata-_rscn9ul/lobster_ai.egg-info 2026-01-07T12:33:29,250 writing /tmp/pip-modern-metadata-_rscn9ul/lobster_ai.egg-info/PKG-INFO 2026-01-07T12:33:29,281 writing dependency_links to /tmp/pip-modern-metadata-_rscn9ul/lobster_ai.egg-info/dependency_links.txt 2026-01-07T12:33:29,283 writing entry points to /tmp/pip-modern-metadata-_rscn9ul/lobster_ai.egg-info/entry_points.txt 2026-01-07T12:33:29,302 writing requirements to /tmp/pip-modern-metadata-_rscn9ul/lobster_ai.egg-info/requires.txt 2026-01-07T12:33:29,303 writing top-level names to /tmp/pip-modern-metadata-_rscn9ul/lobster_ai.egg-info/top_level.txt 2026-01-07T12:33:29,305 writing manifest file '/tmp/pip-modern-metadata-_rscn9ul/lobster_ai.egg-info/SOURCES.txt' 2026-01-07T12:33:29,436 reading manifest file '/tmp/pip-modern-metadata-_rscn9ul/lobster_ai.egg-info/SOURCES.txt' 2026-01-07T12:33:29,438 adding license file 'LICENSE' 2026-01-07T12:33:29,448 writing manifest file '/tmp/pip-modern-metadata-_rscn9ul/lobster_ai.egg-info/SOURCES.txt' 2026-01-07T12:33:29,450 creating '/tmp/pip-modern-metadata-_rscn9ul/lobster_ai-0.4.0.8.dist-info' 2026-01-07T12:33:29,580 Preparing metadata (pyproject.toml): finished with status 'done' 2026-01-07T12:33:29,586 Source in /tmp/pip-wheel-cwts85sq/lobster-ai_fb635ee622304e61a0ed1aadabbb0462 has version 0.4.0.8, which satisfies requirement lobster-ai==0.4.0.8 from https://files.pythonhosted.org/packages/69/86/8a4b462df9a8118f3de7e0685672bda6cb876c8345b4434923a5c5e941ff/lobster_ai-0.4.0.8.tar.gz 2026-01-07T12:33:29,587 Removed lobster-ai==0.4.0.8 from https://files.pythonhosted.org/packages/69/86/8a4b462df9a8118f3de7e0685672bda6cb876c8345b4434923a5c5e941ff/lobster_ai-0.4.0.8.tar.gz from build tracker '/tmp/pip-build-tracker-focnrh07' 2026-01-07T12:33:29,598 Created temporary directory: /tmp/pip-unpack-etgd2mi4 2026-01-07T12:33:29,599 Building wheels for collected packages: lobster-ai 2026-01-07T12:33:29,603 Created temporary directory: /tmp/pip-wheel-6rjothv5 2026-01-07T12:33:29,604 Destination directory: /tmp/pip-wheel-6rjothv5 2026-01-07T12:33:29,606 Building wheel for lobster-ai (pyproject.toml): started 2026-01-07T12:33:29,607 Running command Building wheel for lobster-ai (pyproject.toml) 2026-01-07T12:33:30,217 /tmp/pip-build-env-avwcggbj/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-07T12:33:30,218 corresp(dist, value, root_dir) 2026-01-07T12:33:30,218 /tmp/pip-build-env-avwcggbj/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-07T12:33:30,219 corresp(dist, value, root_dir) 2026-01-07T12:33:30,219 /tmp/pip-build-env-avwcggbj/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-07T12:33:30,219 corresp(dist, value, root_dir) 2026-01-07T12:33:30,312 running bdist_wheel 2026-01-07T12:33:30,333 running build 2026-01-07T12:33:30,334 running build_py 2026-01-07T12:33:30,341 creating build/lib/lobster 2026-01-07T12:33:30,344 copying lobster/version.py -> build/lib/lobster 2026-01-07T12:33:30,346 copying lobster/__main__.py -> build/lib/lobster 2026-01-07T12:33:30,348 copying lobster/main.py -> build/lib/lobster 2026-01-07T12:33:30,350 copying lobster/cli.py -> build/lib/lobster 2026-01-07T12:33:30,356 copying lobster/_version.py -> build/lib/lobster 2026-01-07T12:33:30,358 creating build/lib/lobster/lobster_cloud 2026-01-07T12:33:30,359 copying lobster/lobster_cloud/__init__.py -> build/lib/lobster/lobster_cloud 2026-01-07T12:33:30,361 copying lobster/lobster_cloud/client.py -> build/lib/lobster/lobster_cloud 2026-01-07T12:33:30,365 creating build/lib/lobster/agents 2026-01-07T12:33:30,366 copying lobster/agents/supervisor.py -> build/lib/lobster/agents 2026-01-07T12:33:30,369 copying lobster/agents/__init__.py -> build/lib/lobster/agents 2026-01-07T12:33:30,371 copying lobster/agents/draw_graph.py -> build/lib/lobster/agents 2026-01-07T12:33:30,372 copying lobster/agents/visualization_expert.py -> build/lib/lobster/agents 2026-01-07T12:33:30,375 copying lobster/agents/research_agent.py -> build/lib/lobster/agents 2026-01-07T12:33:30,379 copying lobster/agents/state.py -> build/lib/lobster/agents 2026-01-07T12:33:30,382 copying lobster/agents/data_expert.py -> build/lib/lobster/agents 2026-01-07T12:33:30,385 copying lobster/agents/graph.py -> build/lib/lobster/agents 2026-01-07T12:33:30,388 copying lobster/agents/data_expert_assistant.py -> build/lib/lobster/agents 2026-01-07T12:33:30,392 creating build/lib/lobster/core 2026-01-07T12:33:30,393 copying lobster/core/component_registry.py -> build/lib/lobster/core 2026-01-07T12:33:30,396 copying lobster/core/download_queue.py -> build/lib/lobster/core 2026-01-07T12:33:30,399 copying lobster/core/notebook_validator.py -> build/lib/lobster/core 2026-01-07T12:33:30,401 copying lobster/core/plot_manager.py -> build/lib/lobster/core 2026-01-07T12:33:30,404 copying lobster/core/notebook_exporter.py -> build/lib/lobster/core 2026-01-07T12:33:30,408 copying lobster/core/__init__.py -> build/lib/lobster/core 2026-01-07T12:33:30,409 copying lobster/core/archive_utils.py -> build/lib/lobster/core 2026-01-07T12:33:30,412 copying lobster/core/publication_queue.py -> build/lib/lobster/core 2026-01-07T12:33:30,415 copying lobster/core/ris_parser.py -> build/lib/lobster/core 2026-01-07T12:33:30,418 copying lobster/core/notebook_executor.py -> build/lib/lobster/core 2026-01-07T12:33:30,421 copying lobster/core/provenance.py -> build/lib/lobster/core 2026-01-07T12:33:30,423 copying lobster/core/config_resolver.py -> build/lib/lobster/core 2026-01-07T12:33:30,426 copying lobster/core/workspace.py -> build/lib/lobster/core 2026-01-07T12:33:30,428 copying lobster/core/client.py -> build/lib/lobster/core 2026-01-07T12:33:30,433 copying lobster/core/license_manager.py -> build/lib/lobster/core 2026-01-07T12:33:30,436 copying lobster/core/exceptions.py -> build/lib/lobster/core 2026-01-07T12:33:30,439 copying lobster/core/data_manager_v2.py -> build/lib/lobster/core 2026-01-07T12:33:30,444 copying lobster/core/plugin_loader.py -> build/lib/lobster/core 2026-01-07T12:33:30,446 copying lobster/core/queue_storage.py -> build/lib/lobster/core 2026-01-07T12:33:30,448 copying lobster/core/ir_coverage.py -> build/lib/lobster/core 2026-01-07T12:33:30,451 copying lobster/core/analysis_ir.py -> build/lib/lobster/core 2026-01-07T12:33:30,454 creating build/lib/lobster/tools 2026-01-07T12:33:30,455 copying lobster/tools/gpu_detector.py -> build/lib/lobster/tools 2026-01-07T12:33:30,458 copying lobster/tools/geo_parser.py -> build/lib/lobster/tools 2026-01-07T12:33:30,460 copying lobster/tools/custom_code_tool.py -> build/lib/lobster/tools 2026-01-07T12:33:30,463 copying lobster/tools/__init__.py -> build/lib/lobster/tools 2026-01-07T12:33:30,465 copying lobster/tools/enhanced_handoff_tool.py -> build/lib/lobster/tools 2026-01-07T12:33:30,468 copying lobster/tools/expert_handoff_patterns.py -> build/lib/lobster/tools 2026-01-07T12:33:30,471 copying lobster/tools/workspace_tool.py -> build/lib/lobster/tools 2026-01-07T12:33:30,476 copying lobster/tools/todo_tools.py -> build/lib/lobster/tools 2026-01-07T12:33:30,478 copying lobster/tools/workflow_tracker.py -> build/lib/lobster/tools 2026-01-07T12:33:30,481 copying lobster/tools/rate_limiter.py -> build/lib/lobster/tools 2026-01-07T12:33:30,483 copying lobster/tools/geo_downloader.py -> build/lib/lobster/tools 2026-01-07T12:33:30,485 copying lobster/tools/pipeline_strategy.py -> build/lib/lobster/tools 2026-01-07T12:33:30,487 copying lobster/tools/url_transforms.py -> build/lib/lobster/tools 2026-01-07T12:33:30,489 copying lobster/tools/handoff_tool.py -> build/lib/lobster/tools 2026-01-07T12:33:30,491 copying lobster/tools/download_orchestrator.py -> build/lib/lobster/tools 2026-01-07T12:33:30,494 copying lobster/tools/expert_handoff_manager.py -> build/lib/lobster/tools 2026-01-07T12:33:30,498 creating build/lib/lobster/ui 2026-01-07T12:33:30,499 copying lobster/ui/console_manager.py -> build/lib/lobster/ui 2026-01-07T12:33:30,502 copying lobster/ui/__init__.py -> build/lib/lobster/ui 2026-01-07T12:33:30,504 copying lobster/ui/commands.py -> build/lib/lobster/ui 2026-01-07T12:33:30,507 copying lobster/ui/progress_manager.py -> build/lib/lobster/ui 2026-01-07T12:33:30,510 copying lobster/ui/themes.py -> build/lib/lobster/ui 2026-01-07T12:33:30,512 copying lobster/ui/live_dashboard.py -> build/lib/lobster/ui 2026-01-07T12:33:30,515 copying lobster/ui/os_app.py -> build/lib/lobster/ui 2026-01-07T12:33:30,518 creating build/lib/lobster/config 2026-01-07T12:33:30,519 copying lobster/config/llm_factory.py -> build/lib/lobster/config 2026-01-07T12:33:30,522 copying lobster/config/agent_capabilities.py -> build/lib/lobster/config 2026-01-07T12:33:30,524 copying lobster/config/__init__.py -> build/lib/lobster/config 2026-01-07T12:33:30,526 copying lobster/config/subscription_tiers.py -> build/lib/lobster/config 2026-01-07T12:33:30,529 copying lobster/config/workspace_config.py -> build/lib/lobster/config 2026-01-07T12:33:30,531 copying lobster/config/base_config.py -> build/lib/lobster/config 2026-01-07T12:33:30,534 copying lobster/config/constants.py -> build/lib/lobster/config 2026-01-07T12:33:30,536 copying lobster/config/config_manager.py -> build/lib/lobster/config 2026-01-07T12:33:30,539 copying lobster/config/agent_config.py -> build/lib/lobster/config 2026-01-07T12:33:30,542 copying lobster/config/global_config.py -> build/lib/lobster/config 2026-01-07T12:33:30,545 copying lobster/config/model_service.py -> build/lib/lobster/config 2026-01-07T12:33:30,547 copying lobster/config/ollama_service.py -> build/lib/lobster/config 2026-01-07T12:33:30,550 copying lobster/config/supervisor_config.py -> build/lib/lobster/config 2026-01-07T12:33:30,554 copying lobster/config/settings.py -> build/lib/lobster/config 2026-01-07T12:33:30,557 copying lobster/config/provider_setup.py -> build/lib/lobster/config 2026-01-07T12:33:30,559 copying lobster/config/agent_registry.py -> build/lib/lobster/config 2026-01-07T12:33:30,563 creating build/lib/lobster/services 2026-01-07T12:33:30,564 copying lobster/services/__init__.py -> build/lib/lobster/services 2026-01-07T12:33:30,567 creating build/lib/lobster/cli_internal 2026-01-07T12:33:30,568 copying lobster/cli_internal/__init__.py -> build/lib/lobster/cli_internal 2026-01-07T12:33:30,572 creating build/lib/lobster/utils 2026-01-07T12:33:30,573 copying lobster/utils/__init__.py -> build/lib/lobster/utils 2026-01-07T12:33:30,575 copying lobster/utils/deviance.py -> build/lib/lobster/utils 2026-01-07T12:33:30,578 copying lobster/utils/error_handlers.py -> build/lib/lobster/utils 2026-01-07T12:33:30,581 copying lobster/utils/file_analyzer.py -> build/lib/lobster/utils 2026-01-07T12:33:30,584 copying lobster/utils/json_extractor.py -> build/lib/lobster/utils 2026-01-07T12:33:30,586 copying lobster/utils/logger.py -> build/lib/lobster/utils 2026-01-07T12:33:30,589 copying lobster/utils/callbacks.py -> build/lib/lobster/utils 2026-01-07T12:33:30,592 copying lobster/utils/progress_wrapper.py -> build/lib/lobster/utils 2026-01-07T12:33:30,595 copying lobster/utils/ssl_utils.py -> build/lib/lobster/utils 2026-01-07T12:33:30,598 copying lobster/utils/system.py -> build/lib/lobster/utils 2026-01-07T12:33:30,601 copying lobster/utils/file_naming.py -> build/lib/lobster/utils 2026-01-07T12:33:30,605 creating build/lib/lobster/agents/archive 2026-01-07T12:33:30,606 copying lobster/agents/archive/research_agent_assistant.py -> build/lib/lobster/agents/archive 2026-01-07T12:33:30,609 creating build/lib/lobster/agents/proteomics 2026-01-07T12:33:30,611 copying lobster/agents/proteomics/__init__.py -> build/lib/lobster/agents/proteomics 2026-01-07T12:33:30,613 copying lobster/agents/proteomics/state.py -> build/lib/lobster/agents/proteomics 2026-01-07T12:33:30,617 creating build/lib/lobster/agents/transcriptomics 2026-01-07T12:33:30,618 copying lobster/agents/transcriptomics/transcriptomics_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T12:33:30,622 copying lobster/agents/transcriptomics/__init__.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T12:33:30,624 copying lobster/agents/transcriptomics/shared_tools.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T12:33:30,628 copying lobster/agents/transcriptomics/de_analysis_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T12:33:30,633 copying lobster/agents/transcriptomics/state.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T12:33:30,635 copying lobster/agents/transcriptomics/annotation_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T12:33:30,639 creating build/lib/lobster/agents/langgraph_supervisor 2026-01-07T12:33:30,640 copying lobster/agents/langgraph_supervisor/supervisor.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-07T12:33:30,643 copying lobster/agents/langgraph_supervisor/agent_name.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-07T12:33:30,645 copying lobster/agents/langgraph_supervisor/__init__.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-07T12:33:30,647 copying lobster/agents/langgraph_supervisor/handoff.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-07T12:33:30,650 creating build/lib/lobster/core/backends 2026-01-07T12:33:30,651 copying lobster/core/backends/base.py -> build/lib/lobster/core/backends 2026-01-07T12:33:30,654 copying lobster/core/backends/__init__.py -> build/lib/lobster/core/backends 2026-01-07T12:33:30,656 copying lobster/core/backends/h5ad_backend.py -> build/lib/lobster/core/backends 2026-01-07T12:33:30,659 copying lobster/core/backends/mudata_backend.py -> build/lib/lobster/core/backends 2026-01-07T12:33:30,662 creating build/lib/lobster/core/interfaces 2026-01-07T12:33:30,663 copying lobster/core/interfaces/base_client.py -> build/lib/lobster/core/interfaces 2026-01-07T12:33:30,666 copying lobster/core/interfaces/download_service.py -> build/lib/lobster/core/interfaces 2026-01-07T12:33:30,668 copying lobster/core/interfaces/__init__.py -> build/lib/lobster/core/interfaces 2026-01-07T12:33:30,670 copying lobster/core/interfaces/adapter.py -> build/lib/lobster/core/interfaces 2026-01-07T12:33:30,672 copying lobster/core/interfaces/backend.py -> build/lib/lobster/core/interfaces 2026-01-07T12:33:30,675 copying lobster/core/interfaces/validator.py -> build/lib/lobster/core/interfaces 2026-01-07T12:33:30,678 creating build/lib/lobster/core/adapters 2026-01-07T12:33:30,679 copying lobster/core/adapters/base.py -> build/lib/lobster/core/adapters 2026-01-07T12:33:30,681 copying lobster/core/adapters/__init__.py -> build/lib/lobster/core/adapters 2026-01-07T12:33:30,683 copying lobster/core/adapters/transcriptomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-07T12:33:30,686 copying lobster/core/adapters/pseudobulk_adapter.py -> build/lib/lobster/core/adapters 2026-01-07T12:33:30,689 copying lobster/core/adapters/proteomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-07T12:33:30,692 copying lobster/core/adapters/protein_structure_adapter.py -> build/lib/lobster/core/adapters 2026-01-07T12:33:30,695 creating build/lib/lobster/core/utils 2026-01-07T12:33:30,696 copying lobster/core/utils/__init__.py -> build/lib/lobster/core/utils 2026-01-07T12:33:30,698 copying lobster/core/utils/h5ad_utils.py -> build/lib/lobster/core/utils 2026-01-07T12:33:30,701 creating build/lib/lobster/core/identifiers 2026-01-07T12:33:30,702 copying lobster/core/identifiers/accession_resolver.py -> build/lib/lobster/core/identifiers 2026-01-07T12:33:30,705 copying lobster/core/identifiers/__init__.py -> build/lib/lobster/core/identifiers 2026-01-07T12:33:30,708 creating build/lib/lobster/core/schemas 2026-01-07T12:33:30,709 copying lobster/core/schemas/transcriptomics.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,713 copying lobster/core/schemas/download_queue.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,716 copying lobster/core/schemas/validation.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,719 copying lobster/core/schemas/database_registry.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,721 copying lobster/core/schemas/metabolomics.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,724 copying lobster/core/schemas/__init__.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,726 copying lobster/core/schemas/sra.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,729 copying lobster/core/schemas/publication_queue.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,732 copying lobster/core/schemas/proteomics.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,735 copying lobster/core/schemas/metagenomics.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,739 copying lobster/core/schemas/download_urls.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,741 copying lobster/core/schemas/export_schemas.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,744 copying lobster/core/schemas/database_mappings.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,747 copying lobster/core/schemas/protein_structure.py -> build/lib/lobster/core/schemas 2026-01-07T12:33:30,751 creating build/lib/lobster/tools/archive 2026-01-07T12:33:30,752 copying lobster/tools/archive/unified_content_service.py -> build/lib/lobster/tools/archive 2026-01-07T12:33:30,755 copying lobster/tools/archive/publication_service.py -> build/lib/lobster/tools/archive 2026-01-07T12:33:30,758 creating build/lib/lobster/tools/providers 2026-01-07T12:33:30,760 copying lobster/tools/providers/base_provider.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,762 copying lobster/tools/providers/publication_resolver.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,765 copying lobster/tools/providers/__init__.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,767 copying lobster/tools/providers/webpage_provider.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,770 copying lobster/tools/providers/pride_normalizer.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,772 copying lobster/tools/providers/geo_utils.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,775 copying lobster/tools/providers/biorxiv_medrxiv_config.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,777 copying lobster/tools/providers/pubmed_provider.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,781 copying lobster/tools/providers/pdb_provider.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,784 copying lobster/tools/providers/pmc_provider.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,787 copying lobster/tools/providers/organism_enum.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,790 copying lobster/tools/providers/structure_provider.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,792 copying lobster/tools/providers/sra_provider.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,796 copying lobster/tools/providers/abstract_provider.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,798 copying lobster/tools/providers/biopython_entrez_wrapper.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,801 copying lobster/tools/providers/massive_provider.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,804 copying lobster/tools/providers/geo_provider.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,807 copying lobster/tools/providers/provider_registry.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,810 copying lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,813 copying lobster/tools/providers/pride_provider.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,816 copying lobster/tools/providers/ncbi_query_builder.py -> build/lib/lobster/tools/providers 2026-01-07T12:33:30,820 creating build/lib/lobster/ui/callbacks 2026-01-07T12:33:30,821 copying lobster/ui/callbacks/__init__.py -> build/lib/lobster/ui/callbacks 2026-01-07T12:33:30,823 copying lobster/ui/callbacks/textual_callback.py -> build/lib/lobster/ui/callbacks 2026-01-07T12:33:30,827 creating build/lib/lobster/ui/components 2026-01-07T12:33:30,828 copying lobster/ui/components/__init__.py -> build/lib/lobster/ui/components 2026-01-07T12:33:30,830 copying lobster/ui/components/parallel_workers_progress.py -> build/lib/lobster/ui/components 2026-01-07T12:33:30,833 copying lobster/ui/components/multi_progress.py -> build/lib/lobster/ui/components 2026-01-07T12:33:30,836 copying lobster/ui/components/status_display.py -> build/lib/lobster/ui/components 2026-01-07T12:33:30,838 copying lobster/ui/components/file_tree.py -> build/lib/lobster/ui/components 2026-01-07T12:33:30,841 creating build/lib/lobster/ui/formatters 2026-01-07T12:33:30,843 copying lobster/ui/formatters/__init__.py -> build/lib/lobster/ui/formatters 2026-01-07T12:33:30,845 creating build/lib/lobster/ui/screens 2026-01-07T12:33:30,846 copying lobster/ui/screens/analysis_screen.py -> build/lib/lobster/ui/screens 2026-01-07T12:33:30,850 copying lobster/ui/screens/__init__.py -> build/lib/lobster/ui/screens 2026-01-07T12:33:30,852 creating build/lib/lobster/ui/services 2026-01-07T12:33:30,853 copying lobster/ui/services/__init__.py -> build/lib/lobster/ui/services 2026-01-07T12:33:30,856 copying lobster/ui/services/error_service.py -> build/lib/lobster/ui/services 2026-01-07T12:33:30,859 creating build/lib/lobster/ui/widgets 2026-01-07T12:33:30,860 copying lobster/ui/widgets/results_display.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,862 copying lobster/ui/widgets/__init__.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,864 copying lobster/ui/widgets/queue_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,866 copying lobster/ui/widgets/data_hub.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,869 copying lobster/ui/widgets/status_bar.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,872 copying lobster/ui/widgets/connections_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,874 copying lobster/ui/widgets/plot_preview.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,876 copying lobster/ui/widgets/activity_log.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,879 copying lobster/ui/widgets/modality_list.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,881 copying lobster/ui/widgets/agents_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,883 copying lobster/ui/widgets/chat_message.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,885 copying lobster/ui/widgets/query_prompt.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,888 copying lobster/ui/widgets/system_info.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,890 copying lobster/ui/widgets/token_usage_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,892 copying lobster/ui/widgets/queue_status_bar.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,895 copying lobster/ui/widgets/error_modal.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,897 copying lobster/ui/widgets/adapters_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T12:33:30,900 creating build/lib/lobster/config/providers 2026-01-07T12:33:30,901 copying lobster/config/providers/base_provider.py -> build/lib/lobster/config/providers 2026-01-07T12:33:30,904 copying lobster/config/providers/__init__.py -> build/lib/lobster/config/providers 2026-01-07T12:33:30,906 copying lobster/config/providers/gemini_provider.py -> build/lib/lobster/config/providers 2026-01-07T12:33:30,908 copying lobster/config/providers/registry.py -> build/lib/lobster/config/providers 2026-01-07T12:33:30,911 copying lobster/config/providers/anthropic_provider.py -> build/lib/lobster/config/providers 2026-01-07T12:33:30,913 copying lobster/config/providers/ollama_provider.py -> build/lib/lobster/config/providers 2026-01-07T12:33:30,916 copying lobster/config/providers/bedrock_provider.py -> build/lib/lobster/config/providers 2026-01-07T12:33:30,919 creating build/lib/lobster/services/analysis 2026-01-07T12:33:30,920 copying lobster/services/analysis/__init__.py -> build/lib/lobster/services/analysis 2026-01-07T12:33:30,922 copying lobster/services/analysis/differential_formula_service.py -> build/lib/lobster/services/analysis 2026-01-07T12:33:30,925 copying lobster/services/analysis/bulk_rnaseq_service.py -> build/lib/lobster/services/analysis 2026-01-07T12:33:30,930 copying lobster/services/analysis/enhanced_singlecell_service.py -> build/lib/lobster/services/analysis 2026-01-07T12:33:30,933 copying lobster/services/analysis/pseudobulk_service.py -> build/lib/lobster/services/analysis 2026-01-07T12:33:30,937 copying lobster/services/analysis/scvi_embedding_service.py -> build/lib/lobster/services/analysis 2026-01-07T12:33:30,939 copying lobster/services/analysis/clustering_service.py -> build/lib/lobster/services/analysis 2026-01-07T12:33:30,944 copying lobster/services/analysis/structure_analysis_service.py -> build/lib/lobster/services/analysis 2026-01-07T12:33:30,947 creating build/lib/lobster/services/data_access 2026-01-07T12:33:30,948 copying lobster/services/data_access/geo_service.py -> build/lib/lobster/services/data_access 2026-01-07T12:33:30,956 copying lobster/services/data_access/workspace_content_service.py -> build/lib/lobster/services/data_access 2026-01-07T12:33:30,960 copying lobster/services/data_access/pride_download_service.py -> build/lib/lobster/services/data_access 2026-01-07T12:33:30,963 copying lobster/services/data_access/docling_service.py -> build/lib/lobster/services/data_access 2026-01-07T12:33:30,967 copying lobster/services/data_access/__init__.py -> build/lib/lobster/services/data_access 2026-01-07T12:33:30,969 copying lobster/services/data_access/protein_structure_fetch_service.py -> build/lib/lobster/services/data_access 2026-01-07T12:33:30,972 copying lobster/services/data_access/geo_fallback_service.py -> build/lib/lobster/services/data_access 2026-01-07T12:33:30,975 copying lobster/services/data_access/geo_download_service.py -> build/lib/lobster/services/data_access 2026-01-07T12:33:30,978 copying lobster/services/data_access/content_access_service.py -> build/lib/lobster/services/data_access 2026-01-07T12:33:30,981 copying lobster/services/data_access/sra_download_service.py -> build/lib/lobster/services/data_access 2026-01-07T12:33:30,985 copying lobster/services/data_access/massive_download_service.py -> build/lib/lobster/services/data_access 2026-01-07T12:33:30,988 creating build/lib/lobster/services/quality 2026-01-07T12:33:30,989 copying lobster/services/quality/__init__.py -> build/lib/lobster/services/quality 2026-01-07T12:33:30,991 copying lobster/services/quality/preprocessing_service.py -> build/lib/lobster/services/quality 2026-01-07T12:33:30,994 copying lobster/services/quality/quality_service.py -> build/lib/lobster/services/quality 2026-01-07T12:33:30,998 creating build/lib/lobster/services/orchestration 2026-01-07T12:33:30,999 copying lobster/services/orchestration/__init__.py -> build/lib/lobster/services/orchestration 2026-01-07T12:33:31,001 copying lobster/services/orchestration/publication_processing_service.py -> build/lib/lobster/services/orchestration 2026-01-07T12:33:31,005 creating build/lib/lobster/services/execution 2026-01-07T12:33:31,006 copying lobster/services/execution/execution_context_builder.py -> build/lib/lobster/services/execution 2026-01-07T12:33:31,009 copying lobster/services/execution/__init__.py -> build/lib/lobster/services/execution 2026-01-07T12:33:31,011 copying lobster/services/execution/custom_code_execution_service.py -> build/lib/lobster/services/execution 2026-01-07T12:33:31,014 creating build/lib/lobster/services/visualization 2026-01-07T12:33:31,016 copying lobster/services/visualization/__init__.py -> build/lib/lobster/services/visualization 2026-01-07T12:33:31,018 copying lobster/services/visualization/pymol_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-07T12:33:31,021 copying lobster/services/visualization/bulk_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-07T12:33:31,024 copying lobster/services/visualization/visualization_service.py -> build/lib/lobster/services/visualization 2026-01-07T12:33:31,030 creating build/lib/lobster/services/templates 2026-01-07T12:33:31,031 copying lobster/services/templates/__init__.py -> build/lib/lobster/services/templates 2026-01-07T12:33:31,034 copying lobster/services/templates/annotation_templates.py -> build/lib/lobster/services/templates 2026-01-07T12:33:31,039 creating build/lib/lobster/services/data_management 2026-01-07T12:33:31,040 copying lobster/services/data_management/__init__.py -> build/lib/lobster/services/data_management 2026-01-07T12:33:31,043 copying lobster/services/data_management/concatenation_service.py -> build/lib/lobster/services/data_management 2026-01-07T12:33:31,048 copying lobster/services/data_management/modality_management_service.py -> build/lib/lobster/services/data_management 2026-01-07T12:33:31,053 creating build/lib/lobster/services/metadata 2026-01-07T12:33:31,055 copying lobster/services/metadata/__init__.py -> build/lib/lobster/services/metadata 2026-01-07T12:33:31,059 copying lobster/services/metadata/metadata_validation_service.py -> build/lib/lobster/services/metadata 2026-01-07T12:33:31,063 copying lobster/services/metadata/identifier_provenance_service.py -> build/lib/lobster/services/metadata 2026-01-07T12:33:31,067 copying lobster/services/metadata/metadata_standardization_service.py -> build/lib/lobster/services/metadata 2026-01-07T12:33:31,071 copying lobster/services/metadata/manual_annotation_service.py -> build/lib/lobster/services/metadata 2026-01-07T12:33:31,075 copying lobster/services/metadata/sample_grouping_service.py -> build/lib/lobster/services/metadata 2026-01-07T12:33:31,080 creating build/lib/lobster/services/ml 2026-01-07T12:33:31,082 copying lobster/services/ml/__init__.py -> build/lib/lobster/services/ml 2026-01-07T12:33:31,086 creating build/lib/lobster/services/data_access/geo 2026-01-07T12:33:31,088 copying lobster/services/data_access/geo/strategy.py -> build/lib/lobster/services/data_access/geo 2026-01-07T12:33:31,092 copying lobster/services/data_access/geo/parser.py -> build/lib/lobster/services/data_access/geo 2026-01-07T12:33:31,097 copying lobster/services/data_access/geo/__init__.py -> build/lib/lobster/services/data_access/geo 2026-01-07T12:33:31,100 copying lobster/services/data_access/geo/constants.py -> build/lib/lobster/services/data_access/geo 2026-01-07T12:33:31,104 copying lobster/services/data_access/geo/facade.py -> build/lib/lobster/services/data_access/geo 2026-01-07T12:33:31,108 copying lobster/services/data_access/geo/downloader.py -> build/lib/lobster/services/data_access/geo 2026-01-07T12:33:31,113 creating build/lib/lobster/services/data_access/geo/loaders 2026-01-07T12:33:31,115 copying lobster/services/data_access/geo/loaders/__init__.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-07T12:33:31,119 copying lobster/services/data_access/geo/loaders/tenx.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-07T12:33:31,124 creating build/lib/lobster/services/data_access/geo/metadata 2026-01-07T12:33:31,125 copying lobster/services/data_access/geo/metadata/__init__.py -> build/lib/lobster/services/data_access/geo/metadata 2026-01-07T12:33:31,128 creating build/lib/lobster/services/data_access/geo/sample 2026-01-07T12:33:31,129 copying lobster/services/data_access/geo/sample/__init__.py -> build/lib/lobster/services/data_access/geo/sample 2026-01-07T12:33:31,132 creating build/lib/lobster/services/data_access/geo/utils 2026-01-07T12:33:31,133 copying lobster/services/data_access/geo/utils/__init__.py -> build/lib/lobster/services/data_access/geo/utils 2026-01-07T12:33:31,136 creating build/lib/lobster/services/metadata/protocol_extraction 2026-01-07T12:33:31,137 copying lobster/services/metadata/protocol_extraction/base.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-07T12:33:31,140 copying lobster/services/metadata/protocol_extraction/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-07T12:33:31,142 creating build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T12:33:31,143 copying lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T12:33:31,146 copying lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T12:33:31,148 copying lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T12:33:31,151 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T12:33:31,152 copying lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T12:33:31,155 copying lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T12:33:31,157 copying lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T12:33:31,160 creating build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T12:33:31,161 copying lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T12:33:31,164 copying lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T12:33:31,166 copying lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T12:33:31,170 creating build/lib/lobster/cli_internal/utils 2026-01-07T12:33:31,171 copying lobster/cli_internal/utils/__init__.py -> build/lib/lobster/cli_internal/utils 2026-01-07T12:33:31,173 copying lobster/cli_internal/utils/path_resolution.py -> build/lib/lobster/cli_internal/utils 2026-01-07T12:33:31,177 creating build/lib/lobster/cli_internal/commands 2026-01-07T12:33:31,178 copying lobster/cli_internal/commands/__init__.py -> build/lib/lobster/cli_internal/commands 2026-01-07T12:33:31,180 copying lobster/cli_internal/commands/output_adapter.py -> build/lib/lobster/cli_internal/commands 2026-01-07T12:33:31,183 creating build/lib/lobster/cli_internal/commands/light 2026-01-07T12:33:31,184 copying lobster/cli_internal/commands/light/queue_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T12:33:31,187 copying lobster/cli_internal/commands/light/__init__.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T12:33:31,189 copying lobster/cli_internal/commands/light/file_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T12:33:31,192 copying lobster/cli_internal/commands/light/config_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T12:33:31,195 copying lobster/cli_internal/commands/light/metadata_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T12:33:31,198 copying lobster/cli_internal/commands/light/pipeline_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T12:33:31,200 copying lobster/cli_internal/commands/light/workspace_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T12:33:31,204 creating build/lib/lobster/cli_internal/commands/heavy 2026-01-07T12:33:31,205 copying lobster/cli_internal/commands/heavy/__init__.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-07T12:33:31,208 copying lobster/cli_internal/commands/heavy/data_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-07T12:33:31,210 copying lobster/cli_internal/commands/heavy/visualization_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-07T12:33:31,213 copying lobster/cli_internal/commands/heavy/modality_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-07T12:33:31,216 running egg_info 2026-01-07T12:33:31,228 writing lobster_ai.egg-info/PKG-INFO 2026-01-07T12:33:31,258 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-07T12:33:31,260 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-07T12:33:31,280 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-07T12:33:31,281 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-07T12:33:31,427 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-07T12:33:31,444 adding license file 'LICENSE' 2026-01-07T12:33:31,458 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-07T12:33:31,570 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-07T12:33:31,571 copying lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-07T12:33:31,612 installing to build/bdist.linux-armv7l/wheel 2026-01-07T12:33:31,613 running install 2026-01-07T12:33:31,637 running install_lib 2026-01-07T12:33:31,643 creating build/bdist.linux-armv7l/wheel 2026-01-07T12:33:31,646 creating build/bdist.linux-armv7l/wheel/lobster 2026-01-07T12:33:31,648 creating build/bdist.linux-armv7l/wheel/lobster/lobster_cloud 2026-01-07T12:33:31,649 copying build/lib/lobster/lobster_cloud/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-07T12:33:31,652 copying build/lib/lobster/lobster_cloud/client.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-07T12:33:31,655 creating build/bdist.linux-armv7l/wheel/lobster/agents 2026-01-07T12:33:31,657 copying build/lib/lobster/agents/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T12:33:31,660 copying build/lib/lobster/agents/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T12:33:31,661 copying build/lib/lobster/agents/draw_graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T12:33:31,664 creating build/bdist.linux-armv7l/wheel/lobster/agents/archive 2026-01-07T12:33:31,665 copying build/lib/lobster/agents/archive/research_agent_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/archive 2026-01-07T12:33:31,668 copying build/lib/lobster/agents/visualization_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T12:33:31,671 copying build/lib/lobster/agents/research_agent.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T12:33:31,676 copying build/lib/lobster/agents/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T12:33:31,679 creating build/bdist.linux-armv7l/wheel/lobster/agents/proteomics 2026-01-07T12:33:31,681 copying build/lib/lobster/agents/proteomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-07T12:33:31,683 copying build/lib/lobster/agents/proteomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-07T12:33:31,686 copying build/lib/lobster/agents/data_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T12:33:31,689 copying build/lib/lobster/agents/graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T12:33:31,693 creating build/bdist.linux-armv7l/wheel/lobster/agents/transcriptomics 2026-01-07T12:33:31,694 copying build/lib/lobster/agents/transcriptomics/transcriptomics_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T12:33:31,698 copying build/lib/lobster/agents/transcriptomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T12:33:31,701 copying build/lib/lobster/agents/transcriptomics/shared_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T12:33:31,704 copying build/lib/lobster/agents/transcriptomics/de_analysis_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T12:33:31,708 copying build/lib/lobster/agents/transcriptomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T12:33:31,711 copying build/lib/lobster/agents/transcriptomics/annotation_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T12:33:31,714 copying build/lib/lobster/agents/data_expert_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T12:33:31,717 creating build/bdist.linux-armv7l/wheel/lobster/agents/langgraph_supervisor 2026-01-07T12:33:31,718 copying build/lib/lobster/agents/langgraph_supervisor/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-07T12:33:31,721 copying build/lib/lobster/agents/langgraph_supervisor/agent_name.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-07T12:33:31,724 copying build/lib/lobster/agents/langgraph_supervisor/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-07T12:33:31,726 copying build/lib/lobster/agents/langgraph_supervisor/handoff.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-07T12:33:31,728 copying build/lib/lobster/version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T12:33:31,731 creating build/bdist.linux-armv7l/wheel/lobster/core 2026-01-07T12:33:31,733 creating build/bdist.linux-armv7l/wheel/lobster/core/backends 2026-01-07T12:33:31,735 copying build/lib/lobster/core/backends/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-07T12:33:31,738 copying build/lib/lobster/core/backends/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-07T12:33:31,740 copying build/lib/lobster/core/backends/h5ad_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-07T12:33:31,743 copying build/lib/lobster/core/backends/mudata_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-07T12:33:31,746 copying build/lib/lobster/core/component_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,748 copying build/lib/lobster/core/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,751 copying build/lib/lobster/core/notebook_validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,754 copying build/lib/lobster/core/plot_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,757 copying build/lib/lobster/core/notebook_exporter.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,760 copying build/lib/lobster/core/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,762 copying build/lib/lobster/core/archive_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,765 copying build/lib/lobster/core/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,768 copying build/lib/lobster/core/ris_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,770 copying build/lib/lobster/core/notebook_executor.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,773 copying build/lib/lobster/core/provenance.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,776 copying build/lib/lobster/core/config_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,779 creating build/bdist.linux-armv7l/wheel/lobster/core/interfaces 2026-01-07T12:33:31,781 copying build/lib/lobster/core/interfaces/base_client.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T12:33:31,784 copying build/lib/lobster/core/interfaces/download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T12:33:31,787 copying build/lib/lobster/core/interfaces/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T12:33:31,789 copying build/lib/lobster/core/interfaces/adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T12:33:31,792 copying build/lib/lobster/core/interfaces/backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T12:33:31,794 copying build/lib/lobster/core/interfaces/validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T12:33:31,797 copying build/lib/lobster/core/workspace.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,799 copying build/lib/lobster/core/client.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,803 copying build/lib/lobster/core/license_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,806 creating build/bdist.linux-armv7l/wheel/lobster/core/adapters 2026-01-07T12:33:31,807 copying build/lib/lobster/core/adapters/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T12:33:31,810 copying build/lib/lobster/core/adapters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T12:33:31,812 copying build/lib/lobster/core/adapters/transcriptomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T12:33:31,815 copying build/lib/lobster/core/adapters/pseudobulk_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T12:33:31,818 copying build/lib/lobster/core/adapters/proteomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T12:33:31,821 copying build/lib/lobster/core/adapters/protein_structure_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T12:33:31,823 copying build/lib/lobster/core/exceptions.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,826 creating build/bdist.linux-armv7l/wheel/lobster/core/utils 2026-01-07T12:33:31,828 copying build/lib/lobster/core/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-07T12:33:31,830 copying build/lib/lobster/core/utils/h5ad_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-07T12:33:31,833 copying build/lib/lobster/core/data_manager_v2.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,837 copying build/lib/lobster/core/plugin_loader.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,840 creating build/bdist.linux-armv7l/wheel/lobster/core/identifiers 2026-01-07T12:33:31,842 copying build/lib/lobster/core/identifiers/accession_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-07T12:33:31,844 copying build/lib/lobster/core/identifiers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-07T12:33:31,847 copying build/lib/lobster/core/queue_storage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,849 copying build/lib/lobster/core/ir_coverage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,852 copying build/lib/lobster/core/analysis_ir.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T12:33:31,855 creating build/bdist.linux-armv7l/wheel/lobster/core/schemas 2026-01-07T12:33:31,856 copying build/lib/lobster/core/schemas/transcriptomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,860 copying build/lib/lobster/core/schemas/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,863 copying build/lib/lobster/core/schemas/validation.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,866 copying build/lib/lobster/core/schemas/database_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,868 copying build/lib/lobster/core/schemas/metabolomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,871 copying build/lib/lobster/core/schemas/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,873 copying build/lib/lobster/core/schemas/sra.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,877 copying build/lib/lobster/core/schemas/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,879 copying build/lib/lobster/core/schemas/proteomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,883 copying build/lib/lobster/core/schemas/metagenomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,886 copying build/lib/lobster/core/schemas/download_urls.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,889 copying build/lib/lobster/core/schemas/export_schemas.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,892 copying build/lib/lobster/core/schemas/database_mappings.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,895 copying build/lib/lobster/core/schemas/protein_structure.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T12:33:31,899 creating build/bdist.linux-armv7l/wheel/lobster/tools 2026-01-07T12:33:31,900 copying build/lib/lobster/tools/gpu_detector.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,903 copying build/lib/lobster/tools/geo_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,905 copying build/lib/lobster/tools/custom_code_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,908 copying build/lib/lobster/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,910 copying build/lib/lobster/tools/enhanced_handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,914 creating build/bdist.linux-armv7l/wheel/lobster/tools/archive 2026-01-07T12:33:31,915 copying build/lib/lobster/tools/archive/unified_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-07T12:33:31,919 copying build/lib/lobster/tools/archive/publication_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-07T12:33:31,922 copying build/lib/lobster/tools/expert_handoff_patterns.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,924 copying build/lib/lobster/tools/workspace_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,929 copying build/lib/lobster/tools/todo_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,932 copying build/lib/lobster/tools/workflow_tracker.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,934 copying build/lib/lobster/tools/rate_limiter.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,938 copying build/lib/lobster/tools/geo_downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,940 copying build/lib/lobster/tools/pipeline_strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,942 copying build/lib/lobster/tools/url_transforms.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:31,945 creating build/bdist.linux-armv7l/wheel/lobster/tools/providers 2026-01-07T12:33:31,946 copying build/lib/lobster/tools/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,949 copying build/lib/lobster/tools/providers/publication_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,953 copying build/lib/lobster/tools/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,955 copying build/lib/lobster/tools/providers/webpage_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,958 copying build/lib/lobster/tools/providers/pride_normalizer.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,961 copying build/lib/lobster/tools/providers/geo_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,963 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_config.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,965 copying build/lib/lobster/tools/providers/pubmed_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,969 copying build/lib/lobster/tools/providers/pdb_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,972 copying build/lib/lobster/tools/providers/pmc_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,975 copying build/lib/lobster/tools/providers/organism_enum.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,978 copying build/lib/lobster/tools/providers/structure_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,980 copying build/lib/lobster/tools/providers/sra_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,984 copying build/lib/lobster/tools/providers/abstract_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,987 copying build/lib/lobster/tools/providers/biopython_entrez_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,989 copying build/lib/lobster/tools/providers/massive_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,992 copying build/lib/lobster/tools/providers/geo_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,996 copying build/lib/lobster/tools/providers/provider_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:31,999 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:32,002 copying build/lib/lobster/tools/providers/pride_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:32,005 copying build/lib/lobster/tools/providers/ncbi_query_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T12:33:32,008 copying build/lib/lobster/tools/handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:32,011 copying build/lib/lobster/tools/download_orchestrator.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:32,013 copying build/lib/lobster/tools/expert_handoff_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T12:33:32,017 creating build/bdist.linux-armv7l/wheel/lobster/ui 2026-01-07T12:33:32,018 creating build/bdist.linux-armv7l/wheel/lobster/ui/callbacks 2026-01-07T12:33:32,020 copying build/lib/lobster/ui/callbacks/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-07T12:33:32,022 copying build/lib/lobster/ui/callbacks/textual_callback.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-07T12:33:32,025 copying build/lib/lobster/ui/console_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T12:33:32,028 creating build/bdist.linux-armv7l/wheel/lobster/ui/components 2026-01-07T12:33:32,029 copying build/lib/lobster/ui/components/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T12:33:32,032 copying build/lib/lobster/ui/components/parallel_workers_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T12:33:32,034 copying build/lib/lobster/ui/components/multi_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T12:33:32,037 copying build/lib/lobster/ui/components/status_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T12:33:32,040 copying build/lib/lobster/ui/components/file_tree.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T12:33:32,042 copying build/lib/lobster/ui/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T12:33:32,045 creating build/bdist.linux-armv7l/wheel/lobster/ui/formatters 2026-01-07T12:33:32,046 copying build/lib/lobster/ui/formatters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/formatters 2026-01-07T12:33:32,049 copying build/lib/lobster/ui/commands.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T12:33:32,052 creating build/bdist.linux-armv7l/wheel/lobster/ui/screens 2026-01-07T12:33:32,054 copying build/lib/lobster/ui/screens/analysis_screen.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-07T12:33:32,057 copying build/lib/lobster/ui/screens/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-07T12:33:32,059 copying build/lib/lobster/ui/progress_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T12:33:32,062 copying build/lib/lobster/ui/themes.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T12:33:32,065 creating build/bdist.linux-armv7l/wheel/lobster/ui/services 2026-01-07T12:33:32,066 copying build/lib/lobster/ui/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-07T12:33:32,069 copying build/lib/lobster/ui/services/error_service.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-07T12:33:32,071 copying build/lib/lobster/ui/live_dashboard.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T12:33:32,074 copying build/lib/lobster/ui/os_app.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T12:33:32,077 creating build/bdist.linux-armv7l/wheel/lobster/ui/widgets 2026-01-07T12:33:32,078 copying build/lib/lobster/ui/widgets/results_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,080 copying build/lib/lobster/ui/widgets/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,082 copying build/lib/lobster/ui/widgets/queue_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,085 copying build/lib/lobster/ui/widgets/data_hub.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,088 copying build/lib/lobster/ui/widgets/status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,091 copying build/lib/lobster/ui/widgets/connections_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,094 copying build/lib/lobster/ui/widgets/plot_preview.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,096 copying build/lib/lobster/ui/widgets/activity_log.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,098 copying build/lib/lobster/ui/widgets/modality_list.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,100 copying build/lib/lobster/ui/widgets/agents_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,103 copying build/lib/lobster/ui/widgets/chat_message.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,105 copying build/lib/lobster/ui/widgets/query_prompt.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,107 copying build/lib/lobster/ui/widgets/system_info.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,109 copying build/lib/lobster/ui/widgets/token_usage_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,111 copying build/lib/lobster/ui/widgets/queue_status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,114 copying build/lib/lobster/ui/widgets/error_modal.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,116 copying build/lib/lobster/ui/widgets/adapters_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T12:33:32,118 copying build/lib/lobster/__main__.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T12:33:32,120 copying build/lib/lobster/main.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T12:33:32,122 copying build/lib/lobster/cli.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T12:33:32,129 creating build/bdist.linux-armv7l/wheel/lobster/config 2026-01-07T12:33:32,130 copying build/lib/lobster/config/llm_factory.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,133 copying build/lib/lobster/config/agent_capabilities.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,136 copying build/lib/lobster/config/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,138 copying build/lib/lobster/config/subscription_tiers.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,141 copying build/lib/lobster/config/workspace_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,143 copying build/lib/lobster/config/base_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,146 copying build/lib/lobster/config/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,148 copying build/lib/lobster/config/config_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,151 copying build/lib/lobster/config/agent_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,154 copying build/lib/lobster/config/global_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,156 copying build/lib/lobster/config/model_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,160 creating build/bdist.linux-armv7l/wheel/lobster/config/providers 2026-01-07T12:33:32,161 copying build/lib/lobster/config/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T12:33:32,164 copying build/lib/lobster/config/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T12:33:32,166 copying build/lib/lobster/config/providers/gemini_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T12:33:32,168 copying build/lib/lobster/config/providers/registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T12:33:32,171 copying build/lib/lobster/config/providers/anthropic_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T12:33:32,173 copying build/lib/lobster/config/providers/ollama_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T12:33:32,176 copying build/lib/lobster/config/providers/bedrock_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T12:33:32,179 copying build/lib/lobster/config/ollama_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,181 copying build/lib/lobster/config/supervisor_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,184 copying build/lib/lobster/config/settings.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,186 copying build/lib/lobster/config/provider_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,189 copying build/lib/lobster/config/agent_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T12:33:32,192 creating build/bdist.linux-armv7l/wheel/lobster/services 2026-01-07T12:33:32,194 creating build/bdist.linux-armv7l/wheel/lobster/services/analysis 2026-01-07T12:33:32,195 copying build/lib/lobster/services/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T12:33:32,197 copying build/lib/lobster/services/analysis/differential_formula_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T12:33:32,200 copying build/lib/lobster/services/analysis/bulk_rnaseq_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T12:33:32,204 copying build/lib/lobster/services/analysis/enhanced_singlecell_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T12:33:32,208 copying build/lib/lobster/services/analysis/pseudobulk_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T12:33:32,211 copying build/lib/lobster/services/analysis/scvi_embedding_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T12:33:32,214 copying build/lib/lobster/services/analysis/clustering_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T12:33:32,218 copying build/lib/lobster/services/analysis/structure_analysis_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T12:33:32,222 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access 2026-01-07T12:33:32,223 copying build/lib/lobster/services/data_access/geo_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T12:33:32,230 copying build/lib/lobster/services/data_access/workspace_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T12:33:32,233 copying build/lib/lobster/services/data_access/pride_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T12:33:32,236 copying build/lib/lobster/services/data_access/docling_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T12:33:32,239 copying build/lib/lobster/services/data_access/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T12:33:32,241 copying build/lib/lobster/services/data_access/protein_structure_fetch_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T12:33:32,245 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo 2026-01-07T12:33:32,246 copying build/lib/lobster/services/data_access/geo/strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T12:33:32,249 copying build/lib/lobster/services/data_access/geo/parser.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T12:33:32,252 copying build/lib/lobster/services/data_access/geo/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T12:33:32,255 copying build/lib/lobster/services/data_access/geo/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T12:33:32,258 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/loaders 2026-01-07T12:33:32,259 copying build/lib/lobster/services/data_access/geo/loaders/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-07T12:33:32,261 copying build/lib/lobster/services/data_access/geo/loaders/tenx.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-07T12:33:32,264 copying build/lib/lobster/services/data_access/geo/facade.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T12:33:32,266 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/metadata 2026-01-07T12:33:32,268 copying build/lib/lobster/services/data_access/geo/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/metadata 2026-01-07T12:33:32,270 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/sample 2026-01-07T12:33:32,272 copying build/lib/lobster/services/data_access/geo/sample/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/sample 2026-01-07T12:33:32,274 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/utils 2026-01-07T12:33:32,276 copying build/lib/lobster/services/data_access/geo/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/utils 2026-01-07T12:33:32,278 copying build/lib/lobster/services/data_access/geo/downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T12:33:32,281 copying build/lib/lobster/services/data_access/geo_fallback_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T12:33:32,284 copying build/lib/lobster/services/data_access/geo_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T12:33:32,287 copying build/lib/lobster/services/data_access/content_access_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T12:33:32,291 copying build/lib/lobster/services/data_access/sra_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T12:33:32,294 copying build/lib/lobster/services/data_access/massive_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T12:33:32,297 copying build/lib/lobster/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services 2026-01-07T12:33:32,299 creating build/bdist.linux-armv7l/wheel/lobster/services/quality 2026-01-07T12:33:32,300 copying build/lib/lobster/services/quality/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-07T12:33:32,302 copying build/lib/lobster/services/quality/preprocessing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-07T12:33:32,306 copying build/lib/lobster/services/quality/quality_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-07T12:33:32,310 creating build/bdist.linux-armv7l/wheel/lobster/services/orchestration 2026-01-07T12:33:32,311 copying build/lib/lobster/services/orchestration/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-07T12:33:32,313 copying build/lib/lobster/services/orchestration/publication_processing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-07T12:33:32,318 creating build/bdist.linux-armv7l/wheel/lobster/services/execution 2026-01-07T12:33:32,319 copying build/lib/lobster/services/execution/execution_context_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-07T12:33:32,322 copying build/lib/lobster/services/execution/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-07T12:33:32,324 copying build/lib/lobster/services/execution/custom_code_execution_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-07T12:33:32,328 creating build/bdist.linux-armv7l/wheel/lobster/services/visualization 2026-01-07T12:33:32,329 copying build/lib/lobster/services/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-07T12:33:32,331 copying build/lib/lobster/services/visualization/pymol_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-07T12:33:32,334 copying build/lib/lobster/services/visualization/bulk_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-07T12:33:32,337 copying build/lib/lobster/services/visualization/visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-07T12:33:32,341 creating build/bdist.linux-armv7l/wheel/lobster/services/templates 2026-01-07T12:33:32,343 copying build/lib/lobster/services/templates/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-07T12:33:32,345 copying build/lib/lobster/services/templates/annotation_templates.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-07T12:33:32,348 creating build/bdist.linux-armv7l/wheel/lobster/services/data_management 2026-01-07T12:33:32,350 copying build/lib/lobster/services/data_management/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-07T12:33:32,352 copying build/lib/lobster/services/data_management/concatenation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-07T12:33:32,355 copying build/lib/lobster/services/data_management/modality_management_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-07T12:33:32,358 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata 2026-01-07T12:33:32,359 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction 2026-01-07T12:33:32,361 copying build/lib/lobster/services/metadata/protocol_extraction/base.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-07T12:33:32,363 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T12:33:32,364 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T12:33:32,366 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T12:33:32,368 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T12:33:32,370 copying build/lib/lobster/services/metadata/protocol_extraction/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-07T12:33:32,372 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T12:33:32,373 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T12:33:32,376 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T12:33:32,378 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T12:33:32,381 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-07T12:33:32,383 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-07T12:33:32,385 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T12:33:32,387 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T12:33:32,389 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T12:33:32,391 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T12:33:32,393 copying build/lib/lobster/services/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T12:33:32,395 copying build/lib/lobster/services/metadata/metadata_validation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T12:33:32,398 copying build/lib/lobster/services/metadata/identifier_provenance_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T12:33:32,400 copying build/lib/lobster/services/metadata/metadata_standardization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T12:33:32,403 copying build/lib/lobster/services/metadata/manual_annotation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T12:33:32,406 copying build/lib/lobster/services/metadata/sample_grouping_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T12:33:32,409 creating build/bdist.linux-armv7l/wheel/lobster/services/ml 2026-01-07T12:33:32,411 copying build/lib/lobster/services/ml/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/ml 2026-01-07T12:33:32,413 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal 2026-01-07T12:33:32,415 copying build/lib/lobster/cli_internal/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal 2026-01-07T12:33:32,417 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/utils 2026-01-07T12:33:32,419 copying build/lib/lobster/cli_internal/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-07T12:33:32,421 copying build/lib/lobster/cli_internal/utils/path_resolution.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-07T12:33:32,424 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands 2026-01-07T12:33:32,426 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/light 2026-01-07T12:33:32,429 copying build/lib/lobster/cli_internal/commands/light/queue_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T12:33:32,431 copying build/lib/lobster/cli_internal/commands/light/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T12:33:32,434 copying build/lib/lobster/cli_internal/commands/light/file_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T12:33:32,436 copying build/lib/lobster/cli_internal/commands/light/config_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T12:33:32,440 copying build/lib/lobster/cli_internal/commands/light/metadata_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T12:33:32,442 copying build/lib/lobster/cli_internal/commands/light/pipeline_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T12:33:32,444 copying build/lib/lobster/cli_internal/commands/light/workspace_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T12:33:32,447 copying build/lib/lobster/cli_internal/commands/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-07T12:33:32,449 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/heavy 2026-01-07T12:33:32,450 copying build/lib/lobster/cli_internal/commands/heavy/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-07T12:33:32,452 copying build/lib/lobster/cli_internal/commands/heavy/data_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-07T12:33:32,454 copying build/lib/lobster/cli_internal/commands/heavy/visualization_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-07T12:33:32,456 copying build/lib/lobster/cli_internal/commands/heavy/modality_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-07T12:33:32,459 copying build/lib/lobster/cli_internal/commands/output_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-07T12:33:32,461 creating build/bdist.linux-armv7l/wheel/lobster/utils 2026-01-07T12:33:32,463 copying build/lib/lobster/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T12:33:32,464 copying build/lib/lobster/utils/deviance.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T12:33:32,466 copying build/lib/lobster/utils/error_handlers.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T12:33:32,469 copying build/lib/lobster/utils/file_analyzer.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T12:33:32,471 copying build/lib/lobster/utils/json_extractor.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T12:33:32,473 copying build/lib/lobster/utils/logger.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T12:33:32,476 copying build/lib/lobster/utils/callbacks.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T12:33:32,479 copying build/lib/lobster/utils/progress_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T12:33:32,481 copying build/lib/lobster/utils/ssl_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T12:33:32,483 copying build/lib/lobster/utils/system.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T12:33:32,485 copying build/lib/lobster/utils/file_naming.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T12:33:32,487 copying build/lib/lobster/_version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T12:33:32,489 running install_egg_info 2026-01-07T12:33:32,494 Copying lobster_ai.egg-info to build/bdist.linux-armv7l/wheel/./lobster_ai-0.4.0.8-py3.11.egg-info 2026-01-07T12:33:32,506 running install_scripts 2026-01-07T12:33:32,519 creating build/bdist.linux-armv7l/wheel/lobster_ai-0.4.0.8.dist-info/WHEEL 2026-01-07T12:33:32,522 creating '/tmp/pip-wheel-6rjothv5/.tmp-u4wagoq9/lobster_ai-0.4.0.8-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-01-07T12:33:32,524 adding 'lobster/__main__.py' 2026-01-07T12:33:32,526 adding 'lobster/_version.py' 2026-01-07T12:33:32,562 adding 'lobster/cli.py' 2026-01-07T12:33:32,566 adding 'lobster/main.py' 2026-01-07T12:33:32,568 adding 'lobster/version.py' 2026-01-07T12:33:32,570 adding 'lobster/agents/__init__.py' 2026-01-07T12:33:32,582 adding 'lobster/agents/data_expert.py' 2026-01-07T12:33:32,588 adding 'lobster/agents/data_expert_assistant.py' 2026-01-07T12:33:32,590 adding 'lobster/agents/draw_graph.py' 2026-01-07T12:33:32,594 adding 'lobster/agents/graph.py' 2026-01-07T12:33:32,617 adding 'lobster/agents/research_agent.py' 2026-01-07T12:33:32,622 adding 'lobster/agents/state.py' 2026-01-07T12:33:32,629 adding 'lobster/agents/supervisor.py' 2026-01-07T12:33:32,634 adding 'lobster/agents/visualization_expert.py' 2026-01-07T12:33:32,637 adding 'lobster/agents/archive/research_agent_assistant.py' 2026-01-07T12:33:32,639 adding 'lobster/agents/langgraph_supervisor/__init__.py' 2026-01-07T12:33:32,641 adding 'lobster/agents/langgraph_supervisor/agent_name.py' 2026-01-07T12:33:32,642 adding 'lobster/agents/langgraph_supervisor/handoff.py' 2026-01-07T12:33:32,645 adding 'lobster/agents/langgraph_supervisor/supervisor.py' 2026-01-07T12:33:32,647 adding 'lobster/agents/proteomics/__init__.py' 2026-01-07T12:33:32,648 adding 'lobster/agents/proteomics/state.py' 2026-01-07T12:33:32,650 adding 'lobster/agents/transcriptomics/__init__.py' 2026-01-07T12:33:32,654 adding 'lobster/agents/transcriptomics/annotation_expert.py' 2026-01-07T12:33:32,663 adding 'lobster/agents/transcriptomics/de_analysis_expert.py' 2026-01-07T12:33:32,666 adding 'lobster/agents/transcriptomics/shared_tools.py' 2026-01-07T12:33:32,668 adding 'lobster/agents/transcriptomics/state.py' 2026-01-07T12:33:32,673 adding 'lobster/agents/transcriptomics/transcriptomics_expert.py' 2026-01-07T12:33:32,675 adding 'lobster/cli_internal/__init__.py' 2026-01-07T12:33:32,676 adding 'lobster/cli_internal/commands/__init__.py' 2026-01-07T12:33:32,678 adding 'lobster/cli_internal/commands/output_adapter.py' 2026-01-07T12:33:32,680 adding 'lobster/cli_internal/commands/heavy/__init__.py' 2026-01-07T12:33:32,681 adding 'lobster/cli_internal/commands/heavy/data_commands.py' 2026-01-07T12:33:32,684 adding 'lobster/cli_internal/commands/heavy/modality_commands.py' 2026-01-07T12:33:32,686 adding 'lobster/cli_internal/commands/heavy/visualization_commands.py' 2026-01-07T12:33:32,687 adding 'lobster/cli_internal/commands/light/__init__.py' 2026-01-07T12:33:32,690 adding 'lobster/cli_internal/commands/light/config_commands.py' 2026-01-07T12:33:32,693 adding 'lobster/cli_internal/commands/light/file_commands.py' 2026-01-07T12:33:32,695 adding 'lobster/cli_internal/commands/light/metadata_commands.py' 2026-01-07T12:33:32,697 adding 'lobster/cli_internal/commands/light/pipeline_commands.py' 2026-01-07T12:33:32,699 adding 'lobster/cli_internal/commands/light/queue_commands.py' 2026-01-07T12:33:32,702 adding 'lobster/cli_internal/commands/light/workspace_commands.py' 2026-01-07T12:33:32,703 adding 'lobster/cli_internal/utils/__init__.py' 2026-01-07T12:33:32,705 adding 'lobster/cli_internal/utils/path_resolution.py' 2026-01-07T12:33:32,707 adding 'lobster/config/__init__.py' 2026-01-07T12:33:32,709 adding 'lobster/config/agent_capabilities.py' 2026-01-07T12:33:32,712 adding 'lobster/config/agent_config.py' 2026-01-07T12:33:32,714 adding 'lobster/config/agent_registry.py' 2026-01-07T12:33:32,715 adding 'lobster/config/base_config.py' 2026-01-07T12:33:32,717 adding 'lobster/config/config_manager.py' 2026-01-07T12:33:32,719 adding 'lobster/config/constants.py' 2026-01-07T12:33:32,720 adding 'lobster/config/global_config.py' 2026-01-07T12:33:32,722 adding 'lobster/config/llm_factory.py' 2026-01-07T12:33:32,724 adding 'lobster/config/model_service.py' 2026-01-07T12:33:32,726 adding 'lobster/config/ollama_service.py' 2026-01-07T12:33:32,727 adding 'lobster/config/provider_setup.py' 2026-01-07T12:33:32,729 adding 'lobster/config/settings.py' 2026-01-07T12:33:32,731 adding 'lobster/config/subscription_tiers.py' 2026-01-07T12:33:32,733 adding 'lobster/config/supervisor_config.py' 2026-01-07T12:33:32,734 adding 'lobster/config/workspace_config.py' 2026-01-07T12:33:32,736 adding 'lobster/config/providers/__init__.py' 2026-01-07T12:33:32,738 adding 'lobster/config/providers/anthropic_provider.py' 2026-01-07T12:33:32,740 adding 'lobster/config/providers/base_provider.py' 2026-01-07T12:33:32,741 adding 'lobster/config/providers/bedrock_provider.py' 2026-01-07T12:33:32,743 adding 'lobster/config/providers/gemini_provider.py' 2026-01-07T12:33:32,745 adding 'lobster/config/providers/ollama_provider.py' 2026-01-07T12:33:32,747 adding 'lobster/config/providers/registry.py' 2026-01-07T12:33:32,749 adding 'lobster/core/__init__.py' 2026-01-07T12:33:32,752 adding 'lobster/core/analysis_ir.py' 2026-01-07T12:33:32,754 adding 'lobster/core/archive_utils.py' 2026-01-07T12:33:32,764 adding 'lobster/core/client.py' 2026-01-07T12:33:32,766 adding 'lobster/core/component_registry.py' 2026-01-07T12:33:32,768 adding 'lobster/core/config_resolver.py' 2026-01-07T12:33:32,781 adding 'lobster/core/data_manager_v2.py' 2026-01-07T12:33:32,783 adding 'lobster/core/download_queue.py' 2026-01-07T12:33:32,785 adding 'lobster/core/exceptions.py' 2026-01-07T12:33:32,787 adding 'lobster/core/ir_coverage.py' 2026-01-07T12:33:32,790 adding 'lobster/core/license_manager.py' 2026-01-07T12:33:32,792 adding 'lobster/core/notebook_executor.py' 2026-01-07T12:33:32,796 adding 'lobster/core/notebook_exporter.py' 2026-01-07T12:33:32,798 adding 'lobster/core/notebook_validator.py' 2026-01-07T12:33:32,801 adding 'lobster/core/plot_manager.py' 2026-01-07T12:33:32,803 adding 'lobster/core/plugin_loader.py' 2026-01-07T12:33:32,805 adding 'lobster/core/provenance.py' 2026-01-07T12:33:32,807 adding 'lobster/core/publication_queue.py' 2026-01-07T12:33:32,809 adding 'lobster/core/queue_storage.py' 2026-01-07T12:33:32,811 adding 'lobster/core/ris_parser.py' 2026-01-07T12:33:32,813 adding 'lobster/core/workspace.py' 2026-01-07T12:33:32,814 adding 'lobster/core/adapters/__init__.py' 2026-01-07T12:33:32,817 adding 'lobster/core/adapters/base.py' 2026-01-07T12:33:32,819 adding 'lobster/core/adapters/protein_structure_adapter.py' 2026-01-07T12:33:32,822 adding 'lobster/core/adapters/proteomics_adapter.py' 2026-01-07T12:33:32,825 adding 'lobster/core/adapters/pseudobulk_adapter.py' 2026-01-07T12:33:32,828 adding 'lobster/core/adapters/transcriptomics_adapter.py' 2026-01-07T12:33:32,830 adding 'lobster/core/backends/__init__.py' 2026-01-07T12:33:32,832 adding 'lobster/core/backends/base.py' 2026-01-07T12:33:32,836 adding 'lobster/core/backends/h5ad_backend.py' 2026-01-07T12:33:32,838 adding 'lobster/core/backends/mudata_backend.py' 2026-01-07T12:33:32,840 adding 'lobster/core/identifiers/__init__.py' 2026-01-07T12:33:32,842 adding 'lobster/core/identifiers/accession_resolver.py' 2026-01-07T12:33:32,844 adding 'lobster/core/interfaces/__init__.py' 2026-01-07T12:33:32,846 adding 'lobster/core/interfaces/adapter.py' 2026-01-07T12:33:32,847 adding 'lobster/core/interfaces/backend.py' 2026-01-07T12:33:32,849 adding 'lobster/core/interfaces/base_client.py' 2026-01-07T12:33:32,851 adding 'lobster/core/interfaces/download_service.py' 2026-01-07T12:33:32,853 adding 'lobster/core/interfaces/validator.py' 2026-01-07T12:33:32,855 adding 'lobster/core/schemas/__init__.py' 2026-01-07T12:33:32,858 adding 'lobster/core/schemas/database_mappings.py' 2026-01-07T12:33:32,860 adding 'lobster/core/schemas/database_registry.py' 2026-01-07T12:33:32,862 adding 'lobster/core/schemas/download_queue.py' 2026-01-07T12:33:32,864 adding 'lobster/core/schemas/download_urls.py' 2026-01-07T12:33:32,869 adding 'lobster/core/schemas/export_schemas.py' 2026-01-07T12:33:32,873 adding 'lobster/core/schemas/metabolomics.py' 2026-01-07T12:33:32,879 adding 'lobster/core/schemas/metagenomics.py' 2026-01-07T12:33:32,881 adding 'lobster/core/schemas/protein_structure.py' 2026-01-07T12:33:32,885 adding 'lobster/core/schemas/proteomics.py' 2026-01-07T12:33:32,888 adding 'lobster/core/schemas/publication_queue.py' 2026-01-07T12:33:32,892 adding 'lobster/core/schemas/sra.py' 2026-01-07T12:33:32,899 adding 'lobster/core/schemas/transcriptomics.py' 2026-01-07T12:33:32,901 adding 'lobster/core/schemas/validation.py' 2026-01-07T12:33:32,903 adding 'lobster/core/utils/__init__.py' 2026-01-07T12:33:32,906 adding 'lobster/core/utils/h5ad_utils.py' 2026-01-07T12:33:32,907 adding 'lobster/lobster_cloud/__init__.py' 2026-01-07T12:33:32,909 adding 'lobster/lobster_cloud/client.py' 2026-01-07T12:33:32,911 adding 'lobster/services/__init__.py' 2026-01-07T12:33:32,912 adding 'lobster/services/analysis/__init__.py' 2026-01-07T12:33:32,921 adding 'lobster/services/analysis/bulk_rnaseq_service.py' 2026-01-07T12:33:32,930 adding 'lobster/services/analysis/clustering_service.py' 2026-01-07T12:33:32,934 adding 'lobster/services/analysis/differential_formula_service.py' 2026-01-07T12:33:32,940 adding 'lobster/services/analysis/enhanced_singlecell_service.py' 2026-01-07T12:33:32,944 adding 'lobster/services/analysis/pseudobulk_service.py' 2026-01-07T12:33:32,946 adding 'lobster/services/analysis/scvi_embedding_service.py' 2026-01-07T12:33:32,949 adding 'lobster/services/analysis/structure_analysis_service.py' 2026-01-07T12:33:32,950 adding 'lobster/services/data_access/__init__.py' 2026-01-07T12:33:32,959 adding 'lobster/services/data_access/content_access_service.py' 2026-01-07T12:33:32,965 adding 'lobster/services/data_access/docling_service.py' 2026-01-07T12:33:32,968 adding 'lobster/services/data_access/geo_download_service.py' 2026-01-07T12:33:32,971 adding 'lobster/services/data_access/geo_fallback_service.py' 2026-01-07T12:33:32,994 adding 'lobster/services/data_access/geo_service.py' 2026-01-07T12:33:32,999 adding 'lobster/services/data_access/massive_download_service.py' 2026-01-07T12:33:33,001 adding 'lobster/services/data_access/pride_download_service.py' 2026-01-07T12:33:33,004 adding 'lobster/services/data_access/protein_structure_fetch_service.py' 2026-01-07T12:33:33,008 adding 'lobster/services/data_access/sra_download_service.py' 2026-01-07T12:33:33,013 adding 'lobster/services/data_access/workspace_content_service.py' 2026-01-07T12:33:33,015 adding 'lobster/services/data_access/geo/__init__.py' 2026-01-07T12:33:33,016 adding 'lobster/services/data_access/geo/constants.py' 2026-01-07T12:33:33,020 adding 'lobster/services/data_access/geo/downloader.py' 2026-01-07T12:33:33,022 adding 'lobster/services/data_access/geo/facade.py' 2026-01-07T12:33:33,029 adding 'lobster/services/data_access/geo/parser.py' 2026-01-07T12:33:33,032 adding 'lobster/services/data_access/geo/strategy.py' 2026-01-07T12:33:33,033 adding 'lobster/services/data_access/geo/loaders/__init__.py' 2026-01-07T12:33:33,036 adding 'lobster/services/data_access/geo/loaders/tenx.py' 2026-01-07T12:33:33,037 adding 'lobster/services/data_access/geo/metadata/__init__.py' 2026-01-07T12:33:33,039 adding 'lobster/services/data_access/geo/sample/__init__.py' 2026-01-07T12:33:33,041 adding 'lobster/services/data_access/geo/utils/__init__.py' 2026-01-07T12:33:33,042 adding 'lobster/services/data_management/__init__.py' 2026-01-07T12:33:33,047 adding 'lobster/services/data_management/concatenation_service.py' 2026-01-07T12:33:33,050 adding 'lobster/services/data_management/modality_management_service.py' 2026-01-07T12:33:33,052 adding 'lobster/services/execution/__init__.py' 2026-01-07T12:33:33,056 adding 'lobster/services/execution/custom_code_execution_service.py' 2026-01-07T12:33:33,058 adding 'lobster/services/execution/execution_context_builder.py' 2026-01-07T12:33:33,059 adding 'lobster/services/metadata/__init__.py' 2026-01-07T12:33:33,061 adding 'lobster/services/metadata/identifier_provenance_service.py' 2026-01-07T12:33:33,065 adding 'lobster/services/metadata/manual_annotation_service.py' 2026-01-07T12:33:33,069 adding 'lobster/services/metadata/metadata_standardization_service.py' 2026-01-07T12:33:33,072 adding 'lobster/services/metadata/metadata_validation_service.py' 2026-01-07T12:33:33,074 adding 'lobster/services/metadata/sample_grouping_service.py' 2026-01-07T12:33:33,076 adding 'lobster/services/metadata/protocol_extraction/__init__.py' 2026-01-07T12:33:33,077 adding 'lobster/services/metadata/protocol_extraction/base.py' 2026-01-07T12:33:33,079 adding 'lobster/services/metadata/protocol_extraction/amplicon/__init__.py' 2026-01-07T12:33:33,081 adding 'lobster/services/metadata/protocol_extraction/amplicon/details.py' 2026-01-07T12:33:33,083 adding 'lobster/services/metadata/protocol_extraction/amplicon/service.py' 2026-01-07T12:33:33,085 adding 'lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json' 2026-01-07T12:33:33,087 adding 'lobster/services/metadata/protocol_extraction/mass_spec/__init__.py' 2026-01-07T12:33:33,088 adding 'lobster/services/metadata/protocol_extraction/mass_spec/details.py' 2026-01-07T12:33:33,090 adding 'lobster/services/metadata/protocol_extraction/mass_spec/service.py' 2026-01-07T12:33:33,091 adding 'lobster/services/metadata/protocol_extraction/rnaseq/__init__.py' 2026-01-07T12:33:33,093 adding 'lobster/services/metadata/protocol_extraction/rnaseq/details.py' 2026-01-07T12:33:33,094 adding 'lobster/services/metadata/protocol_extraction/rnaseq/service.py' 2026-01-07T12:33:33,096 adding 'lobster/services/ml/__init__.py' 2026-01-07T12:33:33,097 adding 'lobster/services/orchestration/__init__.py' 2026-01-07T12:33:33,106 adding 'lobster/services/orchestration/publication_processing_service.py' 2026-01-07T12:33:33,108 adding 'lobster/services/quality/__init__.py' 2026-01-07T12:33:33,112 adding 'lobster/services/quality/preprocessing_service.py' 2026-01-07T12:33:33,116 adding 'lobster/services/quality/quality_service.py' 2026-01-07T12:33:33,118 adding 'lobster/services/templates/__init__.py' 2026-01-07T12:33:33,122 adding 'lobster/services/templates/annotation_templates.py' 2026-01-07T12:33:33,124 adding 'lobster/services/visualization/__init__.py' 2026-01-07T12:33:33,127 adding 'lobster/services/visualization/bulk_visualization_service.py' 2026-01-07T12:33:33,130 adding 'lobster/services/visualization/pymol_visualization_service.py' 2026-01-07T12:33:33,138 adding 'lobster/services/visualization/visualization_service.py' 2026-01-07T12:33:33,140 adding 'lobster/tools/__init__.py' 2026-01-07T12:33:33,143 adding 'lobster/tools/custom_code_tool.py' 2026-01-07T12:33:33,145 adding 'lobster/tools/download_orchestrator.py' 2026-01-07T12:33:33,148 adding 'lobster/tools/enhanced_handoff_tool.py' 2026-01-07T12:33:33,150 adding 'lobster/tools/expert_handoff_manager.py' 2026-01-07T12:33:33,151 adding 'lobster/tools/expert_handoff_patterns.py' 2026-01-07T12:33:33,153 adding 'lobster/tools/geo_downloader.py' 2026-01-07T12:33:33,154 adding 'lobster/tools/geo_parser.py' 2026-01-07T12:33:33,156 adding 'lobster/tools/gpu_detector.py' 2026-01-07T12:33:33,157 adding 'lobster/tools/handoff_tool.py' 2026-01-07T12:33:33,158 adding 'lobster/tools/pipeline_strategy.py' 2026-01-07T12:33:33,163 adding 'lobster/tools/rate_limiter.py' 2026-01-07T12:33:33,164 adding 'lobster/tools/todo_tools.py' 2026-01-07T12:33:33,166 adding 'lobster/tools/url_transforms.py' 2026-01-07T12:33:33,169 adding 'lobster/tools/workflow_tracker.py' 2026-01-07T12:33:33,181 adding 'lobster/tools/workspace_tool.py' 2026-01-07T12:33:33,185 adding 'lobster/tools/archive/publication_service.py' 2026-01-07T12:33:33,188 adding 'lobster/tools/archive/unified_content_service.py' 2026-01-07T12:33:33,190 adding 'lobster/tools/providers/__init__.py' 2026-01-07T12:33:33,192 adding 'lobster/tools/providers/abstract_provider.py' 2026-01-07T12:33:33,194 adding 'lobster/tools/providers/base_provider.py' 2026-01-07T12:33:33,196 adding 'lobster/tools/providers/biopython_entrez_wrapper.py' 2026-01-07T12:33:33,198 adding 'lobster/tools/providers/biorxiv_medrxiv_config.py' 2026-01-07T12:33:33,203 adding 'lobster/tools/providers/biorxiv_medrxiv_provider.py' 2026-01-07T12:33:33,210 adding 'lobster/tools/providers/geo_provider.py' 2026-01-07T12:33:33,212 adding 'lobster/tools/providers/geo_utils.py' 2026-01-07T12:33:33,214 adding 'lobster/tools/providers/massive_provider.py' 2026-01-07T12:33:33,217 adding 'lobster/tools/providers/ncbi_query_builder.py' 2026-01-07T12:33:33,219 adding 'lobster/tools/providers/organism_enum.py' 2026-01-07T12:33:33,221 adding 'lobster/tools/providers/pdb_provider.py' 2026-01-07T12:33:33,228 adding 'lobster/tools/providers/pmc_provider.py' 2026-01-07T12:33:33,231 adding 'lobster/tools/providers/pride_normalizer.py' 2026-01-07T12:33:33,234 adding 'lobster/tools/providers/pride_provider.py' 2026-01-07T12:33:33,236 adding 'lobster/tools/providers/provider_registry.py' 2026-01-07T12:33:33,239 adding 'lobster/tools/providers/publication_resolver.py' 2026-01-07T12:33:33,248 adding 'lobster/tools/providers/pubmed_provider.py' 2026-01-07T12:33:33,255 adding 'lobster/tools/providers/sra_provider.py' 2026-01-07T12:33:33,257 adding 'lobster/tools/providers/structure_provider.py' 2026-01-07T12:33:33,259 adding 'lobster/tools/providers/webpage_provider.py' 2026-01-07T12:33:33,261 adding 'lobster/ui/__init__.py' 2026-01-07T12:33:33,263 adding 'lobster/ui/commands.py' 2026-01-07T12:33:33,266 adding 'lobster/ui/console_manager.py' 2026-01-07T12:33:33,268 adding 'lobster/ui/live_dashboard.py' 2026-01-07T12:33:33,270 adding 'lobster/ui/os_app.py' 2026-01-07T12:33:33,272 adding 'lobster/ui/progress_manager.py' 2026-01-07T12:33:33,274 adding 'lobster/ui/themes.py' 2026-01-07T12:33:33,276 adding 'lobster/ui/callbacks/__init__.py' 2026-01-07T12:33:33,279 adding 'lobster/ui/callbacks/textual_callback.py' 2026-01-07T12:33:33,280 adding 'lobster/ui/components/__init__.py' 2026-01-07T12:33:33,283 adding 'lobster/ui/components/file_tree.py' 2026-01-07T12:33:33,285 adding 'lobster/ui/components/multi_progress.py' 2026-01-07T12:33:33,287 adding 'lobster/ui/components/parallel_workers_progress.py' 2026-01-07T12:33:33,289 adding 'lobster/ui/components/status_display.py' 2026-01-07T12:33:33,291 adding 'lobster/ui/formatters/__init__.py' 2026-01-07T12:33:33,293 adding 'lobster/ui/screens/__init__.py' 2026-01-07T12:33:33,296 adding 'lobster/ui/screens/analysis_screen.py' 2026-01-07T12:33:33,298 adding 'lobster/ui/services/__init__.py' 2026-01-07T12:33:33,300 adding 'lobster/ui/services/error_service.py' 2026-01-07T12:33:33,302 adding 'lobster/ui/widgets/__init__.py' 2026-01-07T12:33:33,304 adding 'lobster/ui/widgets/activity_log.py' 2026-01-07T12:33:33,305 adding 'lobster/ui/widgets/adapters_panel.py' 2026-01-07T12:33:33,307 adding 'lobster/ui/widgets/agents_panel.py' 2026-01-07T12:33:33,308 adding 'lobster/ui/widgets/chat_message.py' 2026-01-07T12:33:33,310 adding 'lobster/ui/widgets/connections_panel.py' 2026-01-07T12:33:33,313 adding 'lobster/ui/widgets/data_hub.py' 2026-01-07T12:33:33,314 adding 'lobster/ui/widgets/error_modal.py' 2026-01-07T12:33:33,316 adding 'lobster/ui/widgets/modality_list.py' 2026-01-07T12:33:33,317 adding 'lobster/ui/widgets/plot_preview.py' 2026-01-07T12:33:33,319 adding 'lobster/ui/widgets/query_prompt.py' 2026-01-07T12:33:33,320 adding 'lobster/ui/widgets/queue_panel.py' 2026-01-07T12:33:33,322 adding 'lobster/ui/widgets/queue_status_bar.py' 2026-01-07T12:33:33,323 adding 'lobster/ui/widgets/results_display.py' 2026-01-07T12:33:33,325 adding 'lobster/ui/widgets/status_bar.py' 2026-01-07T12:33:33,326 adding 'lobster/ui/widgets/system_info.py' 2026-01-07T12:33:33,328 adding 'lobster/ui/widgets/token_usage_panel.py' 2026-01-07T12:33:33,330 adding 'lobster/utils/__init__.py' 2026-01-07T12:33:33,336 adding 'lobster/utils/callbacks.py' 2026-01-07T12:33:33,337 adding 'lobster/utils/deviance.py' 2026-01-07T12:33:33,339 adding 'lobster/utils/error_handlers.py' 2026-01-07T12:33:33,342 adding 'lobster/utils/file_analyzer.py' 2026-01-07T12:33:33,344 adding 'lobster/utils/file_naming.py' 2026-01-07T12:33:33,346 adding 'lobster/utils/json_extractor.py' 2026-01-07T12:33:33,347 adding 'lobster/utils/logger.py' 2026-01-07T12:33:33,349 adding 'lobster/utils/progress_wrapper.py' 2026-01-07T12:33:33,350 adding 'lobster/utils/ssl_utils.py' 2026-01-07T12:33:33,352 adding 'lobster/utils/system.py' 2026-01-07T12:33:33,359 adding 'lobster_ai-0.4.0.8.dist-info/licenses/LICENSE' 2026-01-07T12:33:33,362 adding 'lobster_ai-0.4.0.8.dist-info/METADATA' 2026-01-07T12:33:33,363 adding 'lobster_ai-0.4.0.8.dist-info/WHEEL' 2026-01-07T12:33:33,364 adding 'lobster_ai-0.4.0.8.dist-info/entry_points.txt' 2026-01-07T12:33:33,365 adding 'lobster_ai-0.4.0.8.dist-info/top_level.txt' 2026-01-07T12:33:33,369 adding 'lobster_ai-0.4.0.8.dist-info/RECORD' 2026-01-07T12:33:33,387 removing build/bdist.linux-armv7l/wheel 2026-01-07T12:33:33,582 Building wheel for lobster-ai (pyproject.toml): finished with status 'done' 2026-01-07T12:33:33,621 Created wheel for lobster-ai: filename=lobster_ai-0.4.0.8-py3-none-any.whl size=1340954 sha256=a66d81b7558824d17ab891c3a592ceb8ee53492f413d9cfdd89bdecd8fd1de85 2026-01-07T12:33:33,623 Stored in directory: /tmp/pip-ephem-wheel-cache-9vjp6mrb/wheels/00/c6/af/11af86bf17a3a3c3208a0827adc2cec328ace7595ae9faf1b7 2026-01-07T12:33:33,659 Successfully built lobster-ai 2026-01-07T12:33:33,702 Removed build tracker: '/tmp/pip-build-tracker-focnrh07'