2026-01-09T17:22:25,800 Created temporary directory: /tmp/pip-ephem-wheel-cache-kdsfra1j 2026-01-09T17:22:25,801 Created temporary directory: /tmp/pip-build-tracker-z94rf6h7 2026-01-09T17:22:25,802 Initialized build tracking at /tmp/pip-build-tracker-z94rf6h7 2026-01-09T17:22:25,802 Created build tracker: /tmp/pip-build-tracker-z94rf6h7 2026-01-09T17:22:25,803 Entered build tracker: /tmp/pip-build-tracker-z94rf6h7 2026-01-09T17:22:25,804 Created temporary directory: /tmp/pip-wheel-2notqeas 2026-01-09T17:22:25,807 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 2026-01-09T17:22:25,809 Created temporary directory: /tmp/pip-ephem-wheel-cache-2j2it03m 2026-01-09T17:22:25,831 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-09T17:22:25,835 2 location(s) to search for versions of lobster-ai: 2026-01-09T17:22:25,835 * https://pypi.org/simple/lobster-ai/ 2026-01-09T17:22:25,835 * https://www.piwheels.org/simple/lobster-ai/ 2026-01-09T17:22:25,836 Fetching project page and analyzing links: https://pypi.org/simple/lobster-ai/ 2026-01-09T17:22:25,836 Getting page https://pypi.org/simple/lobster-ai/ 2026-01-09T17:22:25,838 Found index url https://pypi.org/simple 2026-01-09T17:22:25,975 Fetched page https://pypi.org/simple/lobster-ai/ as application/vnd.pypi.simple.v1+json 2026-01-09T17:22:25,984 Skipping link: No binaries permitted for lobster-ai: 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https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.0.9-py3-none-any.whl#sha256=48a46075806c2941d705fa7eb0da81c1c162cc4b62b1bc22b578315363b4de75 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-09T17:22:26,181 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.0.8-py3-none-any.whl#sha256=a66d81b7558824d17ab891c3a592ceb8ee53492f413d9cfdd89bdecd8fd1de85 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-09T17:22:26,182 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) 2026-01-09T17:22:26,182 Skipping link: not a file: https://www.piwheels.org/simple/lobster-ai/ 2026-01-09T17:22:26,183 Skipping link: not a file: https://pypi.org/simple/lobster-ai/ 2026-01-09T17:22:26,204 Given no hashes to check 1 links for project 'lobster-ai': discarding no candidates 2026-01-09T17:22:26,222 Collecting lobster-ai==0.4.2.8 2026-01-09T17:22:26,224 Created temporary directory: /tmp/pip-unpack-zrogjera 2026-01-09T17:22:26,436 Downloading lobster_ai-0.4.2.8.tar.gz (1.2 MB) 2026-01-09T17:22:27,425 Added lobster-ai==0.4.2.8 from https://files.pythonhosted.org/packages/40/f6/c65b9d365c84019a59aa9148867e20fa9550d570fdcb28783dcb68535ac3/lobster_ai-0.4.2.8.tar.gz to build tracker '/tmp/pip-build-tracker-z94rf6h7' 2026-01-09T17:22:27,434 Created temporary directory: /tmp/pip-build-env-xx5lrzut 2026-01-09T17:22:27,439 Installing build dependencies: started 2026-01-09T17:22:27,440 Running command pip subprocess to install build dependencies 2026-01-09T17:22:28,573 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-01-09T17:22:29,229 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 2026-01-09T17:22:29,252 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-09T17:22:31,000 Collecting setuptools>=65.0 2026-01-09T17:22:31,105 Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB) 2026-01-09T17:22:31,376 Collecting wheel 2026-01-09T17:22:31,393 Using cached https://www.piwheels.org/simple/wheel/wheel-0.45.1-py3-none-any.whl (72 kB) 2026-01-09T17:22:34,402 Installing collected packages: wheel, setuptools 2026-01-09T17:22:34,639 Creating /tmp/pip-build-env-xx5lrzut/overlay/local/bin 2026-01-09T17:22:34,641 changing mode of /tmp/pip-build-env-xx5lrzut/overlay/local/bin/wheel to 755 2026-01-09T17:22:38,243 Successfully installed setuptools-80.9.0 wheel-0.45.1 2026-01-09T17:22:38,519 Installing build dependencies: finished with status 'done' 2026-01-09T17:22:38,525 Getting requirements to build wheel: started 2026-01-09T17:22:38,527 Running command Getting requirements to build wheel 2026-01-09T17:22:39,216 /tmp/pip-build-env-xx5lrzut/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-09T17:22:39,217 corresp(dist, value, root_dir) 2026-01-09T17:22:39,217 /tmp/pip-build-env-xx5lrzut/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-09T17:22:39,218 corresp(dist, value, root_dir) 2026-01-09T17:22:39,218 /tmp/pip-build-env-xx5lrzut/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-09T17:22:39,219 corresp(dist, value, root_dir) 2026-01-09T17:22:39,326 running egg_info 2026-01-09T17:22:39,333 writing lobster_ai.egg-info/PKG-INFO 2026-01-09T17:22:39,363 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-09T17:22:39,365 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-09T17:22:39,385 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-09T17:22:39,386 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-09T17:22:39,529 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-09T17:22:39,546 adding license file 'LICENSE' 2026-01-09T17:22:39,560 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-09T17:22:39,664 Getting requirements to build wheel: finished with status 'done' 2026-01-09T17:22:39,668 Created temporary directory: /tmp/pip-modern-metadata-r7saulwy 2026-01-09T17:22:39,670 Preparing metadata (pyproject.toml): started 2026-01-09T17:22:39,672 Running command Preparing metadata (pyproject.toml) 2026-01-09T17:22:40,295 /tmp/pip-build-env-xx5lrzut/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-09T17:22:40,295 corresp(dist, value, root_dir) 2026-01-09T17:22:40,296 /tmp/pip-build-env-xx5lrzut/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-09T17:22:40,296 corresp(dist, value, root_dir) 2026-01-09T17:22:40,297 /tmp/pip-build-env-xx5lrzut/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-09T17:22:40,297 corresp(dist, value, root_dir) 2026-01-09T17:22:40,400 running dist_info 2026-01-09T17:22:40,412 creating /tmp/pip-modern-metadata-r7saulwy/lobster_ai.egg-info 2026-01-09T17:22:40,414 writing /tmp/pip-modern-metadata-r7saulwy/lobster_ai.egg-info/PKG-INFO 2026-01-09T17:22:40,444 writing dependency_links to /tmp/pip-modern-metadata-r7saulwy/lobster_ai.egg-info/dependency_links.txt 2026-01-09T17:22:40,446 writing entry points to /tmp/pip-modern-metadata-r7saulwy/lobster_ai.egg-info/entry_points.txt 2026-01-09T17:22:40,465 writing requirements to /tmp/pip-modern-metadata-r7saulwy/lobster_ai.egg-info/requires.txt 2026-01-09T17:22:40,466 writing top-level names to /tmp/pip-modern-metadata-r7saulwy/lobster_ai.egg-info/top_level.txt 2026-01-09T17:22:40,468 writing manifest file '/tmp/pip-modern-metadata-r7saulwy/lobster_ai.egg-info/SOURCES.txt' 2026-01-09T17:22:40,602 reading manifest file '/tmp/pip-modern-metadata-r7saulwy/lobster_ai.egg-info/SOURCES.txt' 2026-01-09T17:22:40,604 adding license file 'LICENSE' 2026-01-09T17:22:40,615 writing manifest file '/tmp/pip-modern-metadata-r7saulwy/lobster_ai.egg-info/SOURCES.txt' 2026-01-09T17:22:40,616 creating '/tmp/pip-modern-metadata-r7saulwy/lobster_ai-0.4.2.8.dist-info' 2026-01-09T17:22:40,746 Preparing metadata (pyproject.toml): finished with status 'done' 2026-01-09T17:22:40,753 Source in /tmp/pip-wheel-2notqeas/lobster-ai_19077ca5679a4e53a79c3a1ea04d8478 has version 0.4.2.8, which satisfies requirement lobster-ai==0.4.2.8 from https://files.pythonhosted.org/packages/40/f6/c65b9d365c84019a59aa9148867e20fa9550d570fdcb28783dcb68535ac3/lobster_ai-0.4.2.8.tar.gz 2026-01-09T17:22:40,754 Removed lobster-ai==0.4.2.8 from https://files.pythonhosted.org/packages/40/f6/c65b9d365c84019a59aa9148867e20fa9550d570fdcb28783dcb68535ac3/lobster_ai-0.4.2.8.tar.gz from build tracker '/tmp/pip-build-tracker-z94rf6h7' 2026-01-09T17:22:40,764 Created temporary directory: /tmp/pip-unpack-y7e4sxdi 2026-01-09T17:22:40,765 Building wheels for collected packages: lobster-ai 2026-01-09T17:22:40,770 Created temporary directory: /tmp/pip-wheel-6q3ti_u6 2026-01-09T17:22:40,770 Destination directory: /tmp/pip-wheel-6q3ti_u6 2026-01-09T17:22:40,772 Building wheel for lobster-ai (pyproject.toml): started 2026-01-09T17:22:40,773 Running command Building wheel for lobster-ai (pyproject.toml) 2026-01-09T17:22:41,381 /tmp/pip-build-env-xx5lrzut/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-09T17:22:41,382 corresp(dist, value, root_dir) 2026-01-09T17:22:41,382 /tmp/pip-build-env-xx5lrzut/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-09T17:22:41,383 corresp(dist, value, root_dir) 2026-01-09T17:22:41,383 /tmp/pip-build-env-xx5lrzut/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-09T17:22:41,384 corresp(dist, value, root_dir) 2026-01-09T17:22:41,473 running bdist_wheel 2026-01-09T17:22:41,494 running build 2026-01-09T17:22:41,495 running build_py 2026-01-09T17:22:41,501 creating build/lib/lobster 2026-01-09T17:22:41,504 copying lobster/version.py -> build/lib/lobster 2026-01-09T17:22:41,506 copying lobster/main.py -> build/lib/lobster 2026-01-09T17:22:41,508 copying lobster/__main__.py -> build/lib/lobster 2026-01-09T17:22:41,510 copying lobster/cli.py -> build/lib/lobster 2026-01-09T17:22:41,516 copying lobster/_version.py -> build/lib/lobster 2026-01-09T17:22:41,518 creating build/lib/lobster/cli_internal 2026-01-09T17:22:41,519 copying lobster/cli_internal/__init__.py -> build/lib/lobster/cli_internal 2026-01-09T17:22:41,522 creating build/lib/lobster/ui 2026-01-09T17:22:41,523 copying lobster/ui/__init__.py -> build/lib/lobster/ui 2026-01-09T17:22:41,525 copying lobster/ui/progress_manager.py -> build/lib/lobster/ui 2026-01-09T17:22:41,528 copying lobster/ui/commands.py -> build/lib/lobster/ui 2026-01-09T17:22:41,530 copying lobster/ui/themes.py -> build/lib/lobster/ui 2026-01-09T17:22:41,532 copying lobster/ui/os_app.py -> build/lib/lobster/ui 2026-01-09T17:22:41,534 copying lobster/ui/live_dashboard.py -> build/lib/lobster/ui 2026-01-09T17:22:41,537 copying lobster/ui/console_manager.py -> build/lib/lobster/ui 2026-01-09T17:22:41,540 creating build/lib/lobster/lobster_cloud 2026-01-09T17:22:41,541 copying lobster/lobster_cloud/__init__.py -> build/lib/lobster/lobster_cloud 2026-01-09T17:22:41,543 copying lobster/lobster_cloud/client.py -> build/lib/lobster/lobster_cloud 2026-01-09T17:22:41,546 creating build/lib/lobster/core 2026-01-09T17:22:41,547 copying lobster/core/plot_manager.py -> build/lib/lobster/core 2026-01-09T17:22:41,550 copying lobster/core/notebook_exporter.py -> build/lib/lobster/core 2026-01-09T17:22:41,553 copying lobster/core/publication_queue.py -> build/lib/lobster/core 2026-01-09T17:22:41,555 copying lobster/core/provenance.py -> build/lib/lobster/core 2026-01-09T17:22:41,558 copying lobster/core/plugin_loader.py -> build/lib/lobster/core 2026-01-09T17:22:41,560 copying lobster/core/download_queue.py -> build/lib/lobster/core 2026-01-09T17:22:41,562 copying lobster/core/archive_utils.py -> build/lib/lobster/core 2026-01-09T17:22:41,565 copying lobster/core/__init__.py -> build/lib/lobster/core 2026-01-09T17:22:41,567 copying lobster/core/ris_parser.py -> build/lib/lobster/core 2026-01-09T17:22:41,569 copying lobster/core/config_resolver.py -> build/lib/lobster/core 2026-01-09T17:22:41,572 copying lobster/core/ir_coverage.py -> build/lib/lobster/core 2026-01-09T17:22:41,574 copying lobster/core/notebook_validator.py -> build/lib/lobster/core 2026-01-09T17:22:41,577 copying lobster/core/queue_storage.py -> build/lib/lobster/core 2026-01-09T17:22:41,578 copying lobster/core/analysis_ir.py -> build/lib/lobster/core 2026-01-09T17:22:41,581 copying lobster/core/workspace.py -> build/lib/lobster/core 2026-01-09T17:22:41,583 copying lobster/core/notebook_executor.py -> build/lib/lobster/core 2026-01-09T17:22:41,585 copying lobster/core/exceptions.py -> build/lib/lobster/core 2026-01-09T17:22:41,587 copying lobster/core/client.py -> build/lib/lobster/core 2026-01-09T17:22:41,591 copying lobster/core/data_manager_v2.py -> build/lib/lobster/core 2026-01-09T17:22:41,595 copying lobster/core/component_registry.py -> build/lib/lobster/core 2026-01-09T17:22:41,598 copying lobster/core/license_manager.py -> build/lib/lobster/core 2026-01-09T17:22:41,601 creating build/lib/lobster/utils 2026-01-09T17:22:41,602 copying lobster/utils/file_analyzer.py -> build/lib/lobster/utils 2026-01-09T17:22:41,605 copying lobster/utils/__init__.py -> build/lib/lobster/utils 2026-01-09T17:22:41,606 copying lobster/utils/progress_wrapper.py -> build/lib/lobster/utils 2026-01-09T17:22:41,609 copying lobster/utils/ssl_utils.py -> build/lib/lobster/utils 2026-01-09T17:22:41,611 copying lobster/utils/deviance.py -> build/lib/lobster/utils 2026-01-09T17:22:41,613 copying lobster/utils/error_handlers.py -> build/lib/lobster/utils 2026-01-09T17:22:41,616 copying lobster/utils/system.py -> build/lib/lobster/utils 2026-01-09T17:22:41,618 copying lobster/utils/logger.py -> build/lib/lobster/utils 2026-01-09T17:22:41,620 copying lobster/utils/callbacks.py -> build/lib/lobster/utils 2026-01-09T17:22:41,623 copying lobster/utils/json_extractor.py -> build/lib/lobster/utils 2026-01-09T17:22:41,625 copying lobster/utils/file_naming.py -> build/lib/lobster/utils 2026-01-09T17:22:41,628 creating build/lib/lobster/config 2026-01-09T17:22:41,629 copying lobster/config/llm_factory.py -> build/lib/lobster/config 2026-01-09T17:22:41,631 copying lobster/config/supervisor_config.py -> build/lib/lobster/config 2026-01-09T17:22:41,634 copying lobster/config/constants.py -> build/lib/lobster/config 2026-01-09T17:22:41,636 copying lobster/config/config_manager.py -> build/lib/lobster/config 2026-01-09T17:22:41,638 copying lobster/config/__init__.py -> build/lib/lobster/config 2026-01-09T17:22:41,640 copying lobster/config/workspace_config.py -> build/lib/lobster/config 2026-01-09T17:22:41,642 copying lobster/config/provider_setup.py -> build/lib/lobster/config 2026-01-09T17:22:41,645 copying lobster/config/base_config.py -> build/lib/lobster/config 2026-01-09T17:22:41,647 copying lobster/config/agent_registry.py -> build/lib/lobster/config 2026-01-09T17:22:41,649 copying lobster/config/version_check.py -> build/lib/lobster/config 2026-01-09T17:22:41,651 copying lobster/config/global_config.py -> build/lib/lobster/config 2026-01-09T17:22:41,654 copying lobster/config/model_service.py -> build/lib/lobster/config 2026-01-09T17:22:41,656 copying lobster/config/ssl_setup.py -> build/lib/lobster/config 2026-01-09T17:22:41,658 copying lobster/config/agent_config.py -> build/lib/lobster/config 2026-01-09T17:22:41,661 copying lobster/config/ollama_service.py -> build/lib/lobster/config 2026-01-09T17:22:41,663 copying lobster/config/agent_capabilities.py -> build/lib/lobster/config 2026-01-09T17:22:41,666 copying lobster/config/subscription_tiers.py -> build/lib/lobster/config 2026-01-09T17:22:41,668 copying lobster/config/settings.py -> build/lib/lobster/config 2026-01-09T17:22:41,671 creating build/lib/lobster/tools 2026-01-09T17:22:41,672 copying lobster/tools/__init__.py -> build/lib/lobster/tools 2026-01-09T17:22:41,674 copying lobster/tools/expert_handoff_manager.py -> build/lib/lobster/tools 2026-01-09T17:22:41,676 copying lobster/tools/geo_parser.py -> build/lib/lobster/tools 2026-01-09T17:22:41,678 copying lobster/tools/enhanced_handoff_tool.py -> build/lib/lobster/tools 2026-01-09T17:22:41,681 copying lobster/tools/url_transforms.py -> build/lib/lobster/tools 2026-01-09T17:22:41,683 copying lobster/tools/workspace_tool.py -> build/lib/lobster/tools 2026-01-09T17:22:41,688 copying lobster/tools/gpu_detector.py -> build/lib/lobster/tools 2026-01-09T17:22:41,690 copying lobster/tools/workflow_tracker.py -> build/lib/lobster/tools 2026-01-09T17:22:41,692 copying lobster/tools/handoff_tool.py -> build/lib/lobster/tools 2026-01-09T17:22:41,695 copying lobster/tools/download_orchestrator.py -> build/lib/lobster/tools 2026-01-09T17:22:41,697 copying lobster/tools/todo_tools.py -> build/lib/lobster/tools 2026-01-09T17:22:41,699 copying lobster/tools/custom_code_tool.py -> build/lib/lobster/tools 2026-01-09T17:22:41,702 copying lobster/tools/expert_handoff_patterns.py -> build/lib/lobster/tools 2026-01-09T17:22:41,705 copying lobster/tools/geo_downloader.py -> build/lib/lobster/tools 2026-01-09T17:22:41,707 copying lobster/tools/rate_limiter.py -> build/lib/lobster/tools 2026-01-09T17:22:41,709 copying lobster/tools/pipeline_strategy.py -> build/lib/lobster/tools 2026-01-09T17:22:41,712 creating build/lib/lobster/agents 2026-01-09T17:22:41,713 copying lobster/agents/supervisor.py -> build/lib/lobster/agents 2026-01-09T17:22:41,716 copying lobster/agents/visualization_expert.py -> build/lib/lobster/agents 2026-01-09T17:22:41,719 copying lobster/agents/__init__.py -> build/lib/lobster/agents 2026-01-09T17:22:41,720 copying lobster/agents/draw_graph.py -> build/lib/lobster/agents 2026-01-09T17:22:41,722 copying lobster/agents/data_expert.py -> build/lib/lobster/agents 2026-01-09T17:22:41,726 copying lobster/agents/research_agent.py -> build/lib/lobster/agents 2026-01-09T17:22:41,730 copying lobster/agents/data_expert_assistant.py -> build/lib/lobster/agents 2026-01-09T17:22:41,733 copying lobster/agents/state.py -> build/lib/lobster/agents 2026-01-09T17:22:41,735 copying lobster/agents/graph.py -> build/lib/lobster/agents 2026-01-09T17:22:41,738 creating build/lib/lobster/services 2026-01-09T17:22:41,739 copying lobster/services/__init__.py -> build/lib/lobster/services 2026-01-09T17:22:41,741 creating build/lib/lobster/cli_internal/commands 2026-01-09T17:22:41,742 copying lobster/cli_internal/commands/__init__.py -> build/lib/lobster/cli_internal/commands 2026-01-09T17:22:41,745 copying lobster/cli_internal/commands/output_adapter.py -> build/lib/lobster/cli_internal/commands 2026-01-09T17:22:41,748 creating build/lib/lobster/cli_internal/utils 2026-01-09T17:22:41,749 copying lobster/cli_internal/utils/path_resolution.py -> build/lib/lobster/cli_internal/utils 2026-01-09T17:22:41,752 copying lobster/cli_internal/utils/__init__.py -> build/lib/lobster/cli_internal/utils 2026-01-09T17:22:41,754 creating build/lib/lobster/cli_internal/commands/light 2026-01-09T17:22:41,755 copying lobster/cli_internal/commands/light/pipeline_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-09T17:22:41,758 copying lobster/cli_internal/commands/light/workspace_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-09T17:22:41,761 copying lobster/cli_internal/commands/light/__init__.py -> build/lib/lobster/cli_internal/commands/light 2026-01-09T17:22:41,762 copying lobster/cli_internal/commands/light/config_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-09T17:22:41,765 copying lobster/cli_internal/commands/light/queue_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-09T17:22:41,768 copying lobster/cli_internal/commands/light/file_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-09T17:22:41,770 copying lobster/cli_internal/commands/light/metadata_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-09T17:22:41,774 creating build/lib/lobster/cli_internal/commands/heavy 2026-01-09T17:22:41,775 copying lobster/cli_internal/commands/heavy/data_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-09T17:22:41,777 copying lobster/cli_internal/commands/heavy/__init__.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-09T17:22:41,779 copying lobster/cli_internal/commands/heavy/modality_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-09T17:22:41,781 copying lobster/cli_internal/commands/heavy/visualization_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-09T17:22:41,784 creating build/lib/lobster/ui/components 2026-01-09T17:22:41,785 copying lobster/ui/components/__init__.py -> build/lib/lobster/ui/components 2026-01-09T17:22:41,787 copying lobster/ui/components/parallel_workers_progress.py -> build/lib/lobster/ui/components 2026-01-09T17:22:41,789 copying lobster/ui/components/multi_progress.py -> build/lib/lobster/ui/components 2026-01-09T17:22:41,792 copying lobster/ui/components/file_tree.py -> build/lib/lobster/ui/components 2026-01-09T17:22:41,794 copying lobster/ui/components/status_display.py -> build/lib/lobster/ui/components 2026-01-09T17:22:41,798 creating build/lib/lobster/ui/formatters 2026-01-09T17:22:41,799 copying lobster/ui/formatters/__init__.py -> build/lib/lobster/ui/formatters 2026-01-09T17:22:41,801 creating build/lib/lobster/ui/widgets 2026-01-09T17:22:41,802 copying lobster/ui/widgets/results_display.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,805 copying lobster/ui/widgets/modality_list.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,806 copying lobster/ui/widgets/queue_status_bar.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,809 copying lobster/ui/widgets/data_hub.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,812 copying lobster/ui/widgets/__init__.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,814 copying lobster/ui/widgets/query_prompt.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,816 copying lobster/ui/widgets/activity_log.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,818 copying lobster/ui/widgets/adapters_panel.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,820 copying lobster/ui/widgets/token_usage_panel.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,822 copying lobster/ui/widgets/system_info.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,825 copying lobster/ui/widgets/plot_preview.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,827 copying lobster/ui/widgets/connections_panel.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,829 copying lobster/ui/widgets/status_bar.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,831 copying lobster/ui/widgets/chat_message.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,833 copying lobster/ui/widgets/agents_panel.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,836 copying lobster/ui/widgets/error_modal.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,838 copying lobster/ui/widgets/queue_panel.py -> build/lib/lobster/ui/widgets 2026-01-09T17:22:41,841 creating build/lib/lobster/ui/callbacks 2026-01-09T17:22:41,842 copying lobster/ui/callbacks/textual_callback.py -> build/lib/lobster/ui/callbacks 2026-01-09T17:22:41,845 copying lobster/ui/callbacks/__init__.py -> build/lib/lobster/ui/callbacks 2026-01-09T17:22:41,847 creating build/lib/lobster/ui/services 2026-01-09T17:22:41,848 copying lobster/ui/services/__init__.py -> build/lib/lobster/ui/services 2026-01-09T17:22:41,850 copying lobster/ui/services/error_service.py -> build/lib/lobster/ui/services 2026-01-09T17:22:41,853 creating build/lib/lobster/ui/screens 2026-01-09T17:22:41,854 copying lobster/ui/screens/analysis_screen.py -> build/lib/lobster/ui/screens 2026-01-09T17:22:41,857 copying lobster/ui/screens/__init__.py -> build/lib/lobster/ui/screens 2026-01-09T17:22:41,860 creating build/lib/lobster/core/interfaces 2026-01-09T17:22:41,861 copying lobster/core/interfaces/backend.py -> build/lib/lobster/core/interfaces 2026-01-09T17:22:41,863 copying lobster/core/interfaces/__init__.py -> build/lib/lobster/core/interfaces 2026-01-09T17:22:41,864 copying lobster/core/interfaces/download_service.py -> build/lib/lobster/core/interfaces 2026-01-09T17:22:41,867 copying lobster/core/interfaces/validator.py -> build/lib/lobster/core/interfaces 2026-01-09T17:22:41,870 copying lobster/core/interfaces/base_client.py -> build/lib/lobster/core/interfaces 2026-01-09T17:22:41,872 copying lobster/core/interfaces/adapter.py -> build/lib/lobster/core/interfaces 2026-01-09T17:22:41,875 creating build/lib/lobster/core/identifiers 2026-01-09T17:22:41,876 copying lobster/core/identifiers/accession_resolver.py -> build/lib/lobster/core/identifiers 2026-01-09T17:22:41,878 copying lobster/core/identifiers/__init__.py -> build/lib/lobster/core/identifiers 2026-01-09T17:22:41,880 creating build/lib/lobster/core/utils 2026-01-09T17:22:41,881 copying lobster/core/utils/__init__.py -> build/lib/lobster/core/utils 2026-01-09T17:22:41,883 copying lobster/core/utils/h5ad_utils.py -> build/lib/lobster/core/utils 2026-01-09T17:22:41,887 creating build/lib/lobster/core/backends 2026-01-09T17:22:41,888 copying lobster/core/backends/mudata_backend.py -> build/lib/lobster/core/backends 2026-01-09T17:22:41,891 copying lobster/core/backends/__init__.py -> build/lib/lobster/core/backends 2026-01-09T17:22:41,893 copying lobster/core/backends/h5ad_backend.py -> build/lib/lobster/core/backends 2026-01-09T17:22:41,895 copying lobster/core/backends/base.py -> build/lib/lobster/core/backends 2026-01-09T17:22:41,899 creating build/lib/lobster/core/schemas 2026-01-09T17:22:41,900 copying lobster/core/schemas/metagenomics.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,904 copying lobster/core/schemas/proteomics.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,907 copying lobster/core/schemas/publication_queue.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,910 copying lobster/core/schemas/export_schemas.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,913 copying lobster/core/schemas/download_queue.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,916 copying lobster/core/schemas/__init__.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,917 copying lobster/core/schemas/transcriptomics.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,921 copying lobster/core/schemas/metabolomics.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,924 copying lobster/core/schemas/validation.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,926 copying lobster/core/schemas/database_mappings.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,929 copying lobster/core/schemas/database_registry.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,932 copying lobster/core/schemas/sra.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,935 copying lobster/core/schemas/protein_structure.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,937 copying lobster/core/schemas/download_urls.py -> build/lib/lobster/core/schemas 2026-01-09T17:22:41,941 creating build/lib/lobster/core/adapters 2026-01-09T17:22:41,942 copying lobster/core/adapters/protein_structure_adapter.py -> build/lib/lobster/core/adapters 2026-01-09T17:22:41,944 copying lobster/core/adapters/__init__.py -> build/lib/lobster/core/adapters 2026-01-09T17:22:41,946 copying lobster/core/adapters/proteomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-09T17:22:41,948 copying lobster/core/adapters/transcriptomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-09T17:22:41,951 copying lobster/core/adapters/base.py -> build/lib/lobster/core/adapters 2026-01-09T17:22:41,954 copying lobster/core/adapters/pseudobulk_adapter.py -> build/lib/lobster/core/adapters 2026-01-09T17:22:41,957 creating build/lib/lobster/config/providers 2026-01-09T17:22:41,957 copying lobster/config/providers/__init__.py -> build/lib/lobster/config/providers 2026-01-09T17:22:41,960 copying lobster/config/providers/base_provider.py -> build/lib/lobster/config/providers 2026-01-09T17:22:41,962 copying lobster/config/providers/gemini_provider.py -> build/lib/lobster/config/providers 2026-01-09T17:22:41,964 copying lobster/config/providers/bedrock_provider.py -> build/lib/lobster/config/providers 2026-01-09T17:22:41,967 copying lobster/config/providers/anthropic_provider.py -> build/lib/lobster/config/providers 2026-01-09T17:22:41,969 copying lobster/config/providers/ollama_provider.py -> build/lib/lobster/config/providers 2026-01-09T17:22:41,971 copying lobster/config/providers/registry.py -> build/lib/lobster/config/providers 2026-01-09T17:22:41,974 creating build/lib/lobster/tools/archive 2026-01-09T17:22:41,975 copying lobster/tools/archive/publication_service.py -> build/lib/lobster/tools/archive 2026-01-09T17:22:41,978 copying lobster/tools/archive/unified_content_service.py -> build/lib/lobster/tools/archive 2026-01-09T17:22:41,982 creating build/lib/lobster/tools/providers 2026-01-09T17:22:41,983 copying lobster/tools/providers/pride_provider.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:41,986 copying lobster/tools/providers/geo_utils.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:41,988 copying lobster/tools/providers/pubmed_provider.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:41,993 copying lobster/tools/providers/biopython_entrez_wrapper.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:41,995 copying lobster/tools/providers/__init__.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:41,997 copying lobster/tools/providers/pmc_provider.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,000 copying lobster/tools/providers/base_provider.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,003 copying lobster/tools/providers/provider_registry.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,005 copying lobster/tools/providers/structure_provider.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,008 copying lobster/tools/providers/webpage_provider.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,011 copying lobster/tools/providers/sra_provider.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,014 copying lobster/tools/providers/pride_normalizer.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,017 copying lobster/tools/providers/organism_enum.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,019 copying lobster/tools/providers/massive_provider.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,022 copying lobster/tools/providers/biorxiv_medrxiv_config.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,024 copying lobster/tools/providers/publication_resolver.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,026 copying lobster/tools/providers/geo_provider.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,029 copying lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,033 copying lobster/tools/providers/abstract_provider.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,035 copying lobster/tools/providers/ncbi_query_builder.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,037 copying lobster/tools/providers/pdb_provider.py -> build/lib/lobster/tools/providers 2026-01-09T17:22:42,040 creating build/lib/lobster/agents/archive 2026-01-09T17:22:42,041 copying lobster/agents/archive/research_agent_assistant.py -> build/lib/lobster/agents/archive 2026-01-09T17:22:42,044 creating build/lib/lobster/agents/langgraph_supervisor 2026-01-09T17:22:42,046 copying lobster/agents/langgraph_supervisor/supervisor.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-09T17:22:42,048 copying lobster/agents/langgraph_supervisor/__init__.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-09T17:22:42,051 copying lobster/agents/langgraph_supervisor/agent_name.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-09T17:22:42,053 copying lobster/agents/langgraph_supervisor/handoff.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-09T17:22:42,055 creating build/lib/lobster/agents/transcriptomics 2026-01-09T17:22:42,056 copying lobster/agents/transcriptomics/__init__.py -> build/lib/lobster/agents/transcriptomics 2026-01-09T17:22:42,058 copying lobster/agents/transcriptomics/transcriptomics_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-09T17:22:42,062 copying lobster/agents/transcriptomics/state.py -> build/lib/lobster/agents/transcriptomics 2026-01-09T17:22:42,064 copying lobster/agents/transcriptomics/shared_tools.py -> build/lib/lobster/agents/transcriptomics 2026-01-09T17:22:42,066 copying lobster/agents/transcriptomics/annotation_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-09T17:22:42,069 copying lobster/agents/transcriptomics/de_analysis_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-09T17:22:42,074 creating build/lib/lobster/agents/proteomics 2026-01-09T17:22:42,075 copying lobster/agents/proteomics/__init__.py -> build/lib/lobster/agents/proteomics 2026-01-09T17:22:42,077 copying lobster/agents/proteomics/state.py -> build/lib/lobster/agents/proteomics 2026-01-09T17:22:42,079 creating build/lib/lobster/services/templates 2026-01-09T17:22:42,080 copying lobster/services/templates/__init__.py -> build/lib/lobster/services/templates 2026-01-09T17:22:42,082 copying lobster/services/templates/annotation_templates.py -> build/lib/lobster/services/templates 2026-01-09T17:22:42,085 creating build/lib/lobster/services/execution 2026-01-09T17:22:42,086 copying lobster/services/execution/__init__.py -> build/lib/lobster/services/execution 2026-01-09T17:22:42,088 copying lobster/services/execution/execution_context_builder.py -> build/lib/lobster/services/execution 2026-01-09T17:22:42,090 copying lobster/services/execution/custom_code_execution_service.py -> build/lib/lobster/services/execution 2026-01-09T17:22:42,094 creating build/lib/lobster/services/metadata 2026-01-09T17:22:42,095 copying lobster/services/metadata/manual_annotation_service.py -> build/lib/lobster/services/metadata 2026-01-09T17:22:42,098 copying lobster/services/metadata/__init__.py -> build/lib/lobster/services/metadata 2026-01-09T17:22:42,099 copying lobster/services/metadata/identifier_provenance_service.py -> build/lib/lobster/services/metadata 2026-01-09T17:22:42,102 copying lobster/services/metadata/sample_grouping_service.py -> build/lib/lobster/services/metadata 2026-01-09T17:22:42,104 copying lobster/services/metadata/metadata_standardization_service.py -> build/lib/lobster/services/metadata 2026-01-09T17:22:42,107 copying lobster/services/metadata/metadata_validation_service.py -> build/lib/lobster/services/metadata 2026-01-09T17:22:42,110 creating build/lib/lobster/services/analysis 2026-01-09T17:22:42,111 copying lobster/services/analysis/scvi_embedding_service.py -> build/lib/lobster/services/analysis 2026-01-09T17:22:42,114 copying lobster/services/analysis/__init__.py -> build/lib/lobster/services/analysis 2026-01-09T17:22:42,116 copying lobster/services/analysis/enhanced_singlecell_service.py -> build/lib/lobster/services/analysis 2026-01-09T17:22:42,119 copying lobster/services/analysis/clustering_service.py -> build/lib/lobster/services/analysis 2026-01-09T17:22:42,123 copying lobster/services/analysis/structure_analysis_service.py -> build/lib/lobster/services/analysis 2026-01-09T17:22:42,125 copying lobster/services/analysis/differential_formula_service.py -> build/lib/lobster/services/analysis 2026-01-09T17:22:42,128 copying lobster/services/analysis/bulk_rnaseq_service.py -> build/lib/lobster/services/analysis 2026-01-09T17:22:42,132 copying lobster/services/analysis/pseudobulk_service.py -> build/lib/lobster/services/analysis 2026-01-09T17:22:42,135 creating build/lib/lobster/services/ml 2026-01-09T17:22:42,136 copying lobster/services/ml/__init__.py -> build/lib/lobster/services/ml 2026-01-09T17:22:42,138 creating build/lib/lobster/services/data_management 2026-01-09T17:22:42,140 copying lobster/services/data_management/__init__.py -> build/lib/lobster/services/data_management 2026-01-09T17:22:42,141 copying lobster/services/data_management/modality_management_service.py -> build/lib/lobster/services/data_management 2026-01-09T17:22:42,144 copying lobster/services/data_management/concatenation_service.py -> build/lib/lobster/services/data_management 2026-01-09T17:22:42,148 creating build/lib/lobster/services/quality 2026-01-09T17:22:42,149 copying lobster/services/quality/quality_service.py -> build/lib/lobster/services/quality 2026-01-09T17:22:42,152 copying lobster/services/quality/__init__.py -> build/lib/lobster/services/quality 2026-01-09T17:22:42,154 copying lobster/services/quality/preprocessing_service.py -> build/lib/lobster/services/quality 2026-01-09T17:22:42,158 creating build/lib/lobster/services/data_access 2026-01-09T17:22:42,160 copying lobster/services/data_access/pride_download_service.py -> build/lib/lobster/services/data_access 2026-01-09T17:22:42,163 copying lobster/services/data_access/__init__.py -> build/lib/lobster/services/data_access 2026-01-09T17:22:42,165 copying lobster/services/data_access/sra_download_service.py -> build/lib/lobster/services/data_access 2026-01-09T17:22:42,168 copying lobster/services/data_access/docling_service.py -> build/lib/lobster/services/data_access 2026-01-09T17:22:42,171 copying lobster/services/data_access/massive_download_service.py -> build/lib/lobster/services/data_access 2026-01-09T17:22:42,174 copying lobster/services/data_access/protein_structure_fetch_service.py -> build/lib/lobster/services/data_access 2026-01-09T17:22:42,177 copying lobster/services/data_access/workspace_content_service.py -> build/lib/lobster/services/data_access 2026-01-09T17:22:42,180 copying lobster/services/data_access/geo_download_service.py -> build/lib/lobster/services/data_access 2026-01-09T17:22:42,183 copying lobster/services/data_access/content_access_service.py -> build/lib/lobster/services/data_access 2026-01-09T17:22:42,187 copying lobster/services/data_access/geo_fallback_service.py -> build/lib/lobster/services/data_access 2026-01-09T17:22:42,191 copying lobster/services/data_access/geo_service.py -> build/lib/lobster/services/data_access 2026-01-09T17:22:42,197 creating build/lib/lobster/services/orchestration 2026-01-09T17:22:42,199 copying lobster/services/orchestration/__init__.py -> build/lib/lobster/services/orchestration 2026-01-09T17:22:42,201 copying lobster/services/orchestration/publication_processing_service.py -> build/lib/lobster/services/orchestration 2026-01-09T17:22:42,205 creating build/lib/lobster/services/visualization 2026-01-09T17:22:42,206 copying lobster/services/visualization/bulk_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-09T17:22:42,210 copying lobster/services/visualization/pymol_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-09T17:22:42,213 copying lobster/services/visualization/__init__.py -> build/lib/lobster/services/visualization 2026-01-09T17:22:42,215 copying lobster/services/visualization/visualization_service.py -> build/lib/lobster/services/visualization 2026-01-09T17:22:42,219 creating build/lib/lobster/services/metadata/protocol_extraction 2026-01-09T17:22:42,220 copying lobster/services/metadata/protocol_extraction/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-09T17:22:42,223 copying lobster/services/metadata/protocol_extraction/base.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-09T17:22:42,225 creating build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-09T17:22:42,227 copying lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-09T17:22:42,229 copying lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-09T17:22:42,231 copying lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-09T17:22:42,234 creating build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-09T17:22:42,235 copying lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-09T17:22:42,237 copying lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-09T17:22:42,240 copying lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-09T17:22:42,242 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-09T17:22:42,244 copying lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-09T17:22:42,246 copying lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-09T17:22:42,248 copying lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-09T17:22:42,252 creating build/lib/lobster/services/data_access/geo 2026-01-09T17:22:42,254 copying lobster/services/data_access/geo/constants.py -> build/lib/lobster/services/data_access/geo 2026-01-09T17:22:42,256 copying lobster/services/data_access/geo/downloader.py -> build/lib/lobster/services/data_access/geo 2026-01-09T17:22:42,260 copying lobster/services/data_access/geo/__init__.py -> build/lib/lobster/services/data_access/geo 2026-01-09T17:22:42,262 copying lobster/services/data_access/geo/facade.py -> build/lib/lobster/services/data_access/geo 2026-01-09T17:22:42,265 copying lobster/services/data_access/geo/strategy.py -> build/lib/lobster/services/data_access/geo 2026-01-09T17:22:42,268 copying lobster/services/data_access/geo/parser.py -> build/lib/lobster/services/data_access/geo 2026-01-09T17:22:42,272 creating build/lib/lobster/services/data_access/geo/sample 2026-01-09T17:22:42,273 copying lobster/services/data_access/geo/sample/__init__.py -> build/lib/lobster/services/data_access/geo/sample 2026-01-09T17:22:42,276 creating build/lib/lobster/services/data_access/geo/metadata 2026-01-09T17:22:42,277 copying lobster/services/data_access/geo/metadata/__init__.py -> build/lib/lobster/services/data_access/geo/metadata 2026-01-09T17:22:42,280 creating build/lib/lobster/services/data_access/geo/loaders 2026-01-09T17:22:42,281 copying lobster/services/data_access/geo/loaders/__init__.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-09T17:22:42,283 copying lobster/services/data_access/geo/loaders/tenx.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-09T17:22:42,287 creating build/lib/lobster/services/data_access/geo/utils 2026-01-09T17:22:42,288 copying lobster/services/data_access/geo/utils/__init__.py -> build/lib/lobster/services/data_access/geo/utils 2026-01-09T17:22:42,291 running egg_info 2026-01-09T17:22:42,302 writing lobster_ai.egg-info/PKG-INFO 2026-01-09T17:22:42,333 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-09T17:22:42,334 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-09T17:22:42,354 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-09T17:22:42,355 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-09T17:22:42,476 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-09T17:22:42,492 adding license file 'LICENSE' 2026-01-09T17:22:42,507 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-09T17:22:42,597 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-09T17:22:42,599 copying lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-09T17:22:42,636 installing to build/bdist.linux-armv7l/wheel 2026-01-09T17:22:42,636 running install 2026-01-09T17:22:42,660 running install_lib 2026-01-09T17:22:42,666 creating build/bdist.linux-armv7l/wheel 2026-01-09T17:22:42,669 creating build/bdist.linux-armv7l/wheel/lobster 2026-01-09T17:22:42,671 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal 2026-01-09T17:22:42,672 copying build/lib/lobster/cli_internal/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal 2026-01-09T17:22:42,675 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands 2026-01-09T17:22:42,676 copying build/lib/lobster/cli_internal/commands/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-09T17:22:42,679 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/light 2026-01-09T17:22:42,681 copying build/lib/lobster/cli_internal/commands/light/pipeline_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-09T17:22:42,683 copying build/lib/lobster/cli_internal/commands/light/workspace_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-09T17:22:42,686 copying build/lib/lobster/cli_internal/commands/light/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-09T17:22:42,689 copying build/lib/lobster/cli_internal/commands/light/config_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-09T17:22:42,692 copying build/lib/lobster/cli_internal/commands/light/queue_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-09T17:22:42,695 copying build/lib/lobster/cli_internal/commands/light/file_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-09T17:22:42,698 copying build/lib/lobster/cli_internal/commands/light/metadata_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-09T17:22:42,700 copying build/lib/lobster/cli_internal/commands/output_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-09T17:22:42,704 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/heavy 2026-01-09T17:22:42,705 copying build/lib/lobster/cli_internal/commands/heavy/data_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-09T17:22:42,708 copying build/lib/lobster/cli_internal/commands/heavy/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-09T17:22:42,710 copying build/lib/lobster/cli_internal/commands/heavy/modality_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-09T17:22:42,713 copying build/lib/lobster/cli_internal/commands/heavy/visualization_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-09T17:22:42,716 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/utils 2026-01-09T17:22:42,718 copying build/lib/lobster/cli_internal/utils/path_resolution.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-09T17:22:42,720 copying build/lib/lobster/cli_internal/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-09T17:22:42,722 copying build/lib/lobster/version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-09T17:22:42,725 creating build/bdist.linux-armv7l/wheel/lobster/ui 2026-01-09T17:22:42,726 copying build/lib/lobster/ui/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-09T17:22:42,729 creating build/bdist.linux-armv7l/wheel/lobster/ui/components 2026-01-09T17:22:42,731 copying build/lib/lobster/ui/components/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-09T17:22:42,733 copying build/lib/lobster/ui/components/parallel_workers_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-09T17:22:42,735 copying build/lib/lobster/ui/components/multi_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-09T17:22:42,739 copying build/lib/lobster/ui/components/file_tree.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-09T17:22:42,741 copying build/lib/lobster/ui/components/status_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-09T17:22:42,745 creating build/bdist.linux-armv7l/wheel/lobster/ui/formatters 2026-01-09T17:22:42,746 copying build/lib/lobster/ui/formatters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/formatters 2026-01-09T17:22:42,748 copying build/lib/lobster/ui/progress_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-09T17:22:42,752 creating build/bdist.linux-armv7l/wheel/lobster/ui/widgets 2026-01-09T17:22:42,753 copying build/lib/lobster/ui/widgets/results_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,756 copying build/lib/lobster/ui/widgets/modality_list.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,758 copying build/lib/lobster/ui/widgets/queue_status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,760 copying build/lib/lobster/ui/widgets/data_hub.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,763 copying build/lib/lobster/ui/widgets/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,765 copying build/lib/lobster/ui/widgets/query_prompt.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,767 copying build/lib/lobster/ui/widgets/activity_log.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,769 copying build/lib/lobster/ui/widgets/adapters_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,771 copying build/lib/lobster/ui/widgets/token_usage_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,773 copying build/lib/lobster/ui/widgets/system_info.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,775 copying build/lib/lobster/ui/widgets/plot_preview.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,777 copying build/lib/lobster/ui/widgets/connections_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,779 copying build/lib/lobster/ui/widgets/status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,781 copying build/lib/lobster/ui/widgets/chat_message.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,783 copying build/lib/lobster/ui/widgets/agents_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,785 copying build/lib/lobster/ui/widgets/error_modal.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,788 copying build/lib/lobster/ui/widgets/queue_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-09T17:22:42,790 copying build/lib/lobster/ui/commands.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-09T17:22:42,792 copying build/lib/lobster/ui/themes.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-09T17:22:42,795 copying build/lib/lobster/ui/os_app.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-09T17:22:42,797 creating build/bdist.linux-armv7l/wheel/lobster/ui/callbacks 2026-01-09T17:22:42,798 copying build/lib/lobster/ui/callbacks/textual_callback.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-09T17:22:42,801 copying build/lib/lobster/ui/callbacks/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-09T17:22:42,803 copying build/lib/lobster/ui/live_dashboard.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-09T17:22:42,805 creating build/bdist.linux-armv7l/wheel/lobster/ui/services 2026-01-09T17:22:42,806 copying build/lib/lobster/ui/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-09T17:22:42,808 copying build/lib/lobster/ui/services/error_service.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-09T17:22:42,811 copying build/lib/lobster/ui/console_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-09T17:22:42,814 creating build/bdist.linux-armv7l/wheel/lobster/ui/screens 2026-01-09T17:22:42,815 copying build/lib/lobster/ui/screens/analysis_screen.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-09T17:22:42,818 copying build/lib/lobster/ui/screens/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-09T17:22:42,820 copying build/lib/lobster/main.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-09T17:22:42,822 copying build/lib/lobster/__main__.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-09T17:22:42,823 copying build/lib/lobster/cli.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-09T17:22:42,833 creating build/bdist.linux-armv7l/wheel/lobster/lobster_cloud 2026-01-09T17:22:42,834 copying build/lib/lobster/lobster_cloud/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-09T17:22:42,836 copying build/lib/lobster/lobster_cloud/client.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-09T17:22:42,839 creating build/bdist.linux-armv7l/wheel/lobster/core 2026-01-09T17:22:42,841 copying build/lib/lobster/core/plot_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,843 copying build/lib/lobster/core/notebook_exporter.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,847 copying build/lib/lobster/core/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,849 copying build/lib/lobster/core/provenance.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,852 copying build/lib/lobster/core/plugin_loader.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,855 copying build/lib/lobster/core/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,858 copying build/lib/lobster/core/archive_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,860 copying build/lib/lobster/core/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,863 creating build/bdist.linux-armv7l/wheel/lobster/core/interfaces 2026-01-09T17:22:42,864 copying build/lib/lobster/core/interfaces/backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-09T17:22:42,866 copying build/lib/lobster/core/interfaces/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-09T17:22:42,868 copying build/lib/lobster/core/interfaces/download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-09T17:22:42,871 copying build/lib/lobster/core/interfaces/validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-09T17:22:42,873 copying build/lib/lobster/core/interfaces/base_client.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-09T17:22:42,875 copying build/lib/lobster/core/interfaces/adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-09T17:22:42,877 copying build/lib/lobster/core/ris_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,880 copying build/lib/lobster/core/config_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,883 copying build/lib/lobster/core/ir_coverage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,886 copying build/lib/lobster/core/notebook_validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,889 copying build/lib/lobster/core/queue_storage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,891 copying build/lib/lobster/core/analysis_ir.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,893 copying build/lib/lobster/core/workspace.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,895 copying build/lib/lobster/core/notebook_executor.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,898 creating build/bdist.linux-armv7l/wheel/lobster/core/identifiers 2026-01-09T17:22:42,899 copying build/lib/lobster/core/identifiers/accession_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-09T17:22:42,901 copying build/lib/lobster/core/identifiers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-09T17:22:42,903 copying build/lib/lobster/core/exceptions.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,906 creating build/bdist.linux-armv7l/wheel/lobster/core/utils 2026-01-09T17:22:42,907 copying build/lib/lobster/core/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-09T17:22:42,909 copying build/lib/lobster/core/utils/h5ad_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-09T17:22:42,912 copying build/lib/lobster/core/client.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,915 copying build/lib/lobster/core/data_manager_v2.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,922 creating build/bdist.linux-armv7l/wheel/lobster/core/backends 2026-01-09T17:22:42,923 copying build/lib/lobster/core/backends/mudata_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-09T17:22:42,926 copying build/lib/lobster/core/backends/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-09T17:22:42,928 copying build/lib/lobster/core/backends/h5ad_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-09T17:22:42,931 copying build/lib/lobster/core/backends/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-09T17:22:42,934 creating build/bdist.linux-armv7l/wheel/lobster/core/schemas 2026-01-09T17:22:42,935 copying build/lib/lobster/core/schemas/metagenomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,939 copying build/lib/lobster/core/schemas/proteomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,941 copying build/lib/lobster/core/schemas/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,944 copying build/lib/lobster/core/schemas/export_schemas.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,948 copying build/lib/lobster/core/schemas/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,951 copying build/lib/lobster/core/schemas/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,953 copying build/lib/lobster/core/schemas/transcriptomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,957 copying build/lib/lobster/core/schemas/metabolomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,959 copying build/lib/lobster/core/schemas/validation.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,962 copying build/lib/lobster/core/schemas/database_mappings.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,965 copying build/lib/lobster/core/schemas/database_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,967 copying build/lib/lobster/core/schemas/sra.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,969 copying build/lib/lobster/core/schemas/protein_structure.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,972 copying build/lib/lobster/core/schemas/download_urls.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-09T17:22:42,974 copying build/lib/lobster/core/component_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,977 creating build/bdist.linux-armv7l/wheel/lobster/core/adapters 2026-01-09T17:22:42,978 copying build/lib/lobster/core/adapters/protein_structure_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-09T17:22:42,981 copying build/lib/lobster/core/adapters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-09T17:22:42,983 copying build/lib/lobster/core/adapters/proteomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-09T17:22:42,985 copying build/lib/lobster/core/adapters/transcriptomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-09T17:22:42,988 copying build/lib/lobster/core/adapters/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-09T17:22:42,991 copying build/lib/lobster/core/adapters/pseudobulk_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-09T17:22:42,993 copying build/lib/lobster/core/license_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-09T17:22:42,996 copying build/lib/lobster/_version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-09T17:22:42,998 creating build/bdist.linux-armv7l/wheel/lobster/utils 2026-01-09T17:22:42,999 copying build/lib/lobster/utils/file_analyzer.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-09T17:22:43,002 copying build/lib/lobster/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-09T17:22:43,004 copying build/lib/lobster/utils/progress_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-09T17:22:43,006 copying build/lib/lobster/utils/ssl_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-09T17:22:43,008 copying build/lib/lobster/utils/deviance.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-09T17:22:43,010 copying build/lib/lobster/utils/error_handlers.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-09T17:22:43,012 copying build/lib/lobster/utils/system.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-09T17:22:43,014 copying build/lib/lobster/utils/logger.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-09T17:22:43,016 copying build/lib/lobster/utils/callbacks.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-09T17:22:43,020 copying build/lib/lobster/utils/json_extractor.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-09T17:22:43,022 copying build/lib/lobster/utils/file_naming.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-09T17:22:43,025 creating build/bdist.linux-armv7l/wheel/lobster/config 2026-01-09T17:22:43,026 copying build/lib/lobster/config/llm_factory.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,029 copying build/lib/lobster/config/supervisor_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,031 copying build/lib/lobster/config/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,033 copying build/lib/lobster/config/config_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,035 copying build/lib/lobster/config/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,037 copying build/lib/lobster/config/workspace_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,040 copying build/lib/lobster/config/provider_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,042 copying build/lib/lobster/config/base_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,043 copying build/lib/lobster/config/agent_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,046 copying build/lib/lobster/config/version_check.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,048 copying build/lib/lobster/config/global_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,051 copying build/lib/lobster/config/model_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,054 copying build/lib/lobster/config/ssl_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,056 copying build/lib/lobster/config/agent_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,059 copying build/lib/lobster/config/ollama_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,061 copying build/lib/lobster/config/agent_capabilities.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,064 creating build/bdist.linux-armv7l/wheel/lobster/config/providers 2026-01-09T17:22:43,065 copying build/lib/lobster/config/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-09T17:22:43,067 copying build/lib/lobster/config/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-09T17:22:43,070 copying build/lib/lobster/config/providers/gemini_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-09T17:22:43,072 copying build/lib/lobster/config/providers/bedrock_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-09T17:22:43,074 copying build/lib/lobster/config/providers/anthropic_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-09T17:22:43,077 copying build/lib/lobster/config/providers/ollama_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-09T17:22:43,079 copying build/lib/lobster/config/providers/registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-09T17:22:43,081 copying build/lib/lobster/config/subscription_tiers.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,084 copying build/lib/lobster/config/settings.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-09T17:22:43,087 creating build/bdist.linux-armv7l/wheel/lobster/tools 2026-01-09T17:22:43,088 creating build/bdist.linux-armv7l/wheel/lobster/tools/archive 2026-01-09T17:22:43,090 copying build/lib/lobster/tools/archive/publication_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-09T17:22:43,092 copying build/lib/lobster/tools/archive/unified_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-09T17:22:43,095 copying build/lib/lobster/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,097 copying build/lib/lobster/tools/expert_handoff_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,099 copying build/lib/lobster/tools/geo_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,101 copying build/lib/lobster/tools/enhanced_handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,103 copying build/lib/lobster/tools/url_transforms.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,105 copying build/lib/lobster/tools/workspace_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,109 copying build/lib/lobster/tools/gpu_detector.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,111 copying build/lib/lobster/tools/workflow_tracker.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,114 copying build/lib/lobster/tools/handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,116 copying build/lib/lobster/tools/download_orchestrator.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,118 copying build/lib/lobster/tools/todo_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,120 copying build/lib/lobster/tools/custom_code_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,124 copying build/lib/lobster/tools/expert_handoff_patterns.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,126 copying build/lib/lobster/tools/geo_downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,128 copying build/lib/lobster/tools/rate_limiter.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,131 creating build/bdist.linux-armv7l/wheel/lobster/tools/providers 2026-01-09T17:22:43,132 copying build/lib/lobster/tools/providers/pride_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,135 copying build/lib/lobster/tools/providers/geo_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,137 copying build/lib/lobster/tools/providers/pubmed_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,141 copying build/lib/lobster/tools/providers/biopython_entrez_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,143 copying build/lib/lobster/tools/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,145 copying build/lib/lobster/tools/providers/pmc_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,148 copying build/lib/lobster/tools/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,150 copying build/lib/lobster/tools/providers/provider_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,153 copying build/lib/lobster/tools/providers/structure_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,155 copying build/lib/lobster/tools/providers/webpage_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,158 copying build/lib/lobster/tools/providers/sra_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,161 copying build/lib/lobster/tools/providers/pride_normalizer.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,163 copying build/lib/lobster/tools/providers/organism_enum.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,166 copying build/lib/lobster/tools/providers/massive_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,168 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_config.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,170 copying build/lib/lobster/tools/providers/publication_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,173 copying build/lib/lobster/tools/providers/geo_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,176 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,179 copying build/lib/lobster/tools/providers/abstract_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,182 copying build/lib/lobster/tools/providers/ncbi_query_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,184 copying build/lib/lobster/tools/providers/pdb_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-09T17:22:43,187 copying build/lib/lobster/tools/pipeline_strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-09T17:22:43,190 creating build/bdist.linux-armv7l/wheel/lobster/agents 2026-01-09T17:22:43,191 copying build/lib/lobster/agents/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-09T17:22:43,195 copying build/lib/lobster/agents/visualization_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-09T17:22:43,198 creating build/bdist.linux-armv7l/wheel/lobster/agents/archive 2026-01-09T17:22:43,199 copying build/lib/lobster/agents/archive/research_agent_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/archive 2026-01-09T17:22:43,202 copying build/lib/lobster/agents/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-09T17:22:43,204 copying build/lib/lobster/agents/draw_graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-09T17:22:43,206 copying build/lib/lobster/agents/data_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-09T17:22:43,211 copying build/lib/lobster/agents/research_agent.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-09T17:22:43,219 creating build/bdist.linux-armv7l/wheel/lobster/agents/langgraph_supervisor 2026-01-09T17:22:43,220 copying build/lib/lobster/agents/langgraph_supervisor/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-09T17:22:43,223 copying build/lib/lobster/agents/langgraph_supervisor/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-09T17:22:43,224 copying build/lib/lobster/agents/langgraph_supervisor/agent_name.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-09T17:22:43,227 copying build/lib/lobster/agents/langgraph_supervisor/handoff.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-09T17:22:43,229 copying build/lib/lobster/agents/data_expert_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-09T17:22:43,232 creating build/bdist.linux-armv7l/wheel/lobster/agents/transcriptomics 2026-01-09T17:22:43,233 copying build/lib/lobster/agents/transcriptomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-09T17:22:43,235 copying build/lib/lobster/agents/transcriptomics/transcriptomics_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-09T17:22:43,239 copying build/lib/lobster/agents/transcriptomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-09T17:22:43,241 copying build/lib/lobster/agents/transcriptomics/shared_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-09T17:22:43,243 copying build/lib/lobster/agents/transcriptomics/annotation_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-09T17:22:43,246 copying build/lib/lobster/agents/transcriptomics/de_analysis_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-09T17:22:43,250 copying build/lib/lobster/agents/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-09T17:22:43,253 copying build/lib/lobster/agents/graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-09T17:22:43,256 creating build/bdist.linux-armv7l/wheel/lobster/agents/proteomics 2026-01-09T17:22:43,257 copying build/lib/lobster/agents/proteomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-09T17:22:43,259 copying build/lib/lobster/agents/proteomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-09T17:22:43,261 creating build/bdist.linux-armv7l/wheel/lobster/services 2026-01-09T17:22:43,263 creating build/bdist.linux-armv7l/wheel/lobster/services/templates 2026-01-09T17:22:43,264 copying build/lib/lobster/services/templates/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-09T17:22:43,265 copying build/lib/lobster/services/templates/annotation_templates.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-09T17:22:43,268 copying build/lib/lobster/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services 2026-01-09T17:22:43,270 creating build/bdist.linux-armv7l/wheel/lobster/services/execution 2026-01-09T17:22:43,271 copying build/lib/lobster/services/execution/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-09T17:22:43,273 copying build/lib/lobster/services/execution/execution_context_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-09T17:22:43,275 copying build/lib/lobster/services/execution/custom_code_execution_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-09T17:22:43,278 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata 2026-01-09T17:22:43,279 copying build/lib/lobster/services/metadata/manual_annotation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-09T17:22:43,282 copying build/lib/lobster/services/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-09T17:22:43,284 copying build/lib/lobster/services/metadata/identifier_provenance_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-09T17:22:43,286 copying build/lib/lobster/services/metadata/sample_grouping_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-09T17:22:43,289 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction 2026-01-09T17:22:43,290 copying build/lib/lobster/services/metadata/protocol_extraction/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-09T17:22:43,292 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-09T17:22:43,294 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-09T17:22:43,295 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-09T17:22:43,297 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-09T17:22:43,299 copying build/lib/lobster/services/metadata/protocol_extraction/base.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-09T17:22:43,302 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-09T17:22:43,303 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-09T17:22:43,305 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-09T17:22:43,307 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-09T17:22:43,309 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon 2026-01-09T17:22:43,310 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-09T17:22:43,312 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-09T17:22:43,315 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-09T17:22:43,316 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-09T17:22:43,319 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-09T17:22:43,321 copying build/lib/lobster/services/metadata/metadata_standardization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-09T17:22:43,324 copying build/lib/lobster/services/metadata/metadata_validation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-09T17:22:43,327 creating build/bdist.linux-armv7l/wheel/lobster/services/analysis 2026-01-09T17:22:43,328 copying build/lib/lobster/services/analysis/scvi_embedding_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-09T17:22:43,331 copying build/lib/lobster/services/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-09T17:22:43,332 copying build/lib/lobster/services/analysis/enhanced_singlecell_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-09T17:22:43,336 copying build/lib/lobster/services/analysis/clustering_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-09T17:22:43,342 copying build/lib/lobster/services/analysis/structure_analysis_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-09T17:22:43,345 copying build/lib/lobster/services/analysis/differential_formula_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-09T17:22:43,348 copying build/lib/lobster/services/analysis/bulk_rnaseq_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-09T17:22:43,354 copying build/lib/lobster/services/analysis/pseudobulk_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-09T17:22:43,359 creating build/bdist.linux-armv7l/wheel/lobster/services/ml 2026-01-09T17:22:43,361 copying build/lib/lobster/services/ml/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/ml 2026-01-09T17:22:43,363 creating build/bdist.linux-armv7l/wheel/lobster/services/data_management 2026-01-09T17:22:43,365 copying build/lib/lobster/services/data_management/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-09T17:22:43,367 copying build/lib/lobster/services/data_management/modality_management_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-09T17:22:43,370 copying build/lib/lobster/services/data_management/concatenation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-09T17:22:43,374 creating build/bdist.linux-armv7l/wheel/lobster/services/quality 2026-01-09T17:22:43,376 copying build/lib/lobster/services/quality/quality_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-09T17:22:43,379 copying build/lib/lobster/services/quality/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-09T17:22:43,381 copying build/lib/lobster/services/quality/preprocessing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-09T17:22:43,385 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access 2026-01-09T17:22:43,387 copying build/lib/lobster/services/data_access/pride_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-09T17:22:43,390 copying build/lib/lobster/services/data_access/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-09T17:22:43,392 copying build/lib/lobster/services/data_access/sra_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-09T17:22:43,395 copying build/lib/lobster/services/data_access/docling_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-09T17:22:43,406 copying build/lib/lobster/services/data_access/massive_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-09T17:22:43,409 copying build/lib/lobster/services/data_access/protein_structure_fetch_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-09T17:22:43,412 copying build/lib/lobster/services/data_access/workspace_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-09T17:22:43,416 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo 2026-01-09T17:22:43,417 copying build/lib/lobster/services/data_access/geo/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-09T17:22:43,420 copying build/lib/lobster/services/data_access/geo/downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-09T17:22:43,423 copying build/lib/lobster/services/data_access/geo/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-09T17:22:43,425 copying build/lib/lobster/services/data_access/geo/facade.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-09T17:22:43,427 copying build/lib/lobster/services/data_access/geo/strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-09T17:22:43,430 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/sample 2026-01-09T17:22:43,432 copying build/lib/lobster/services/data_access/geo/sample/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/sample 2026-01-09T17:22:43,435 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/metadata 2026-01-09T17:22:43,436 copying build/lib/lobster/services/data_access/geo/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/metadata 2026-01-09T17:22:43,439 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/loaders 2026-01-09T17:22:43,440 copying build/lib/lobster/services/data_access/geo/loaders/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-09T17:22:43,443 copying build/lib/lobster/services/data_access/geo/loaders/tenx.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-09T17:22:43,446 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/utils 2026-01-09T17:22:43,448 copying build/lib/lobster/services/data_access/geo/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/utils 2026-01-09T17:22:43,450 copying build/lib/lobster/services/data_access/geo/parser.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-09T17:22:43,454 copying build/lib/lobster/services/data_access/geo_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-09T17:22:43,457 copying build/lib/lobster/services/data_access/content_access_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-09T17:22:43,461 copying build/lib/lobster/services/data_access/geo_fallback_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-09T17:22:43,464 copying build/lib/lobster/services/data_access/geo_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-09T17:22:43,473 creating build/bdist.linux-armv7l/wheel/lobster/services/orchestration 2026-01-09T17:22:43,474 copying build/lib/lobster/services/orchestration/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-09T17:22:43,476 copying build/lib/lobster/services/orchestration/publication_processing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-09T17:22:43,481 creating build/bdist.linux-armv7l/wheel/lobster/services/visualization 2026-01-09T17:22:43,483 copying build/lib/lobster/services/visualization/bulk_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-09T17:22:43,485 copying build/lib/lobster/services/visualization/pymol_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-09T17:22:43,489 copying build/lib/lobster/services/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-09T17:22:43,491 copying build/lib/lobster/services/visualization/visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-09T17:22:43,495 running install_egg_info 2026-01-09T17:22:43,501 Copying lobster_ai.egg-info to build/bdist.linux-armv7l/wheel/./lobster_ai-0.4.2.8-py3.11.egg-info 2026-01-09T17:22:43,513 running install_scripts 2026-01-09T17:22:43,526 creating build/bdist.linux-armv7l/wheel/lobster_ai-0.4.2.8.dist-info/WHEEL 2026-01-09T17:22:43,529 creating '/tmp/pip-wheel-6q3ti_u6/.tmp-30y5n7qa/lobster_ai-0.4.2.8-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-01-09T17:22:43,532 adding 'lobster/__main__.py' 2026-01-09T17:22:43,534 adding 'lobster/_version.py' 2026-01-09T17:22:43,562 adding 'lobster/cli.py' 2026-01-09T17:22:43,566 adding 'lobster/main.py' 2026-01-09T17:22:43,567 adding 'lobster/version.py' 2026-01-09T17:22:43,569 adding 'lobster/agents/__init__.py' 2026-01-09T17:22:43,577 adding 'lobster/agents/data_expert.py' 2026-01-09T17:22:43,582 adding 'lobster/agents/data_expert_assistant.py' 2026-01-09T17:22:43,583 adding 'lobster/agents/draw_graph.py' 2026-01-09T17:22:43,587 adding 'lobster/agents/graph.py' 2026-01-09T17:22:43,608 adding 'lobster/agents/research_agent.py' 2026-01-09T17:22:43,613 adding 'lobster/agents/state.py' 2026-01-09T17:22:43,620 adding 'lobster/agents/supervisor.py' 2026-01-09T17:22:43,625 adding 'lobster/agents/visualization_expert.py' 2026-01-09T17:22:43,629 adding 'lobster/agents/archive/research_agent_assistant.py' 2026-01-09T17:22:43,632 adding 'lobster/agents/langgraph_supervisor/__init__.py' 2026-01-09T17:22:43,634 adding 'lobster/agents/langgraph_supervisor/agent_name.py' 2026-01-09T17:22:43,637 adding 'lobster/agents/langgraph_supervisor/handoff.py' 2026-01-09T17:22:43,641 adding 'lobster/agents/langgraph_supervisor/supervisor.py' 2026-01-09T17:22:43,644 adding 'lobster/agents/proteomics/__init__.py' 2026-01-09T17:22:43,647 adding 'lobster/agents/proteomics/state.py' 2026-01-09T17:22:43,649 adding 'lobster/agents/transcriptomics/__init__.py' 2026-01-09T17:22:43,656 adding 'lobster/agents/transcriptomics/annotation_expert.py' 2026-01-09T17:22:43,669 adding 'lobster/agents/transcriptomics/de_analysis_expert.py' 2026-01-09T17:22:43,675 adding 'lobster/agents/transcriptomics/shared_tools.py' 2026-01-09T17:22:43,678 adding 'lobster/agents/transcriptomics/state.py' 2026-01-09T17:22:43,686 adding 'lobster/agents/transcriptomics/transcriptomics_expert.py' 2026-01-09T17:22:43,688 adding 'lobster/cli_internal/__init__.py' 2026-01-09T17:22:43,690 adding 'lobster/cli_internal/commands/__init__.py' 2026-01-09T17:22:43,692 adding 'lobster/cli_internal/commands/output_adapter.py' 2026-01-09T17:22:43,694 adding 'lobster/cli_internal/commands/heavy/__init__.py' 2026-01-09T17:22:43,696 adding 'lobster/cli_internal/commands/heavy/data_commands.py' 2026-01-09T17:22:43,698 adding 'lobster/cli_internal/commands/heavy/modality_commands.py' 2026-01-09T17:22:43,700 adding 'lobster/cli_internal/commands/heavy/visualization_commands.py' 2026-01-09T17:22:43,702 adding 'lobster/cli_internal/commands/light/__init__.py' 2026-01-09T17:22:43,704 adding 'lobster/cli_internal/commands/light/config_commands.py' 2026-01-09T17:22:43,707 adding 'lobster/cli_internal/commands/light/file_commands.py' 2026-01-09T17:22:43,710 adding 'lobster/cli_internal/commands/light/metadata_commands.py' 2026-01-09T17:22:43,712 adding 'lobster/cli_internal/commands/light/pipeline_commands.py' 2026-01-09T17:22:43,715 adding 'lobster/cli_internal/commands/light/queue_commands.py' 2026-01-09T17:22:43,718 adding 'lobster/cli_internal/commands/light/workspace_commands.py' 2026-01-09T17:22:43,720 adding 'lobster/cli_internal/utils/__init__.py' 2026-01-09T17:22:43,722 adding 'lobster/cli_internal/utils/path_resolution.py' 2026-01-09T17:22:43,724 adding 'lobster/config/__init__.py' 2026-01-09T17:22:43,726 adding 'lobster/config/agent_capabilities.py' 2026-01-09T17:22:43,729 adding 'lobster/config/agent_config.py' 2026-01-09T17:22:43,731 adding 'lobster/config/agent_registry.py' 2026-01-09T17:22:43,732 adding 'lobster/config/base_config.py' 2026-01-09T17:22:43,734 adding 'lobster/config/config_manager.py' 2026-01-09T17:22:43,736 adding 'lobster/config/constants.py' 2026-01-09T17:22:43,738 adding 'lobster/config/global_config.py' 2026-01-09T17:22:43,739 adding 'lobster/config/llm_factory.py' 2026-01-09T17:22:43,741 adding 'lobster/config/model_service.py' 2026-01-09T17:22:43,743 adding 'lobster/config/ollama_service.py' 2026-01-09T17:22:43,745 adding 'lobster/config/provider_setup.py' 2026-01-09T17:22:43,747 adding 'lobster/config/settings.py' 2026-01-09T17:22:43,749 adding 'lobster/config/ssl_setup.py' 2026-01-09T17:22:43,750 adding 'lobster/config/subscription_tiers.py' 2026-01-09T17:22:43,752 adding 'lobster/config/supervisor_config.py' 2026-01-09T17:22:43,754 adding 'lobster/config/version_check.py' 2026-01-09T17:22:43,755 adding 'lobster/config/workspace_config.py' 2026-01-09T17:22:43,757 adding 'lobster/config/providers/__init__.py' 2026-01-09T17:22:43,759 adding 'lobster/config/providers/anthropic_provider.py' 2026-01-09T17:22:43,760 adding 'lobster/config/providers/base_provider.py' 2026-01-09T17:22:43,762 adding 'lobster/config/providers/bedrock_provider.py' 2026-01-09T17:22:43,764 adding 'lobster/config/providers/gemini_provider.py' 2026-01-09T17:22:43,767 adding 'lobster/config/providers/ollama_provider.py' 2026-01-09T17:22:43,768 adding 'lobster/config/providers/registry.py' 2026-01-09T17:22:43,770 adding 'lobster/core/__init__.py' 2026-01-09T17:22:43,773 adding 'lobster/core/analysis_ir.py' 2026-01-09T17:22:43,776 adding 'lobster/core/archive_utils.py' 2026-01-09T17:22:43,785 adding 'lobster/core/client.py' 2026-01-09T17:22:43,787 adding 'lobster/core/component_registry.py' 2026-01-09T17:22:43,790 adding 'lobster/core/config_resolver.py' 2026-01-09T17:22:43,803 adding 'lobster/core/data_manager_v2.py' 2026-01-09T17:22:43,806 adding 'lobster/core/download_queue.py' 2026-01-09T17:22:43,808 adding 'lobster/core/exceptions.py' 2026-01-09T17:22:43,810 adding 'lobster/core/ir_coverage.py' 2026-01-09T17:22:43,813 adding 'lobster/core/license_manager.py' 2026-01-09T17:22:43,815 adding 'lobster/core/notebook_executor.py' 2026-01-09T17:22:43,819 adding 'lobster/core/notebook_exporter.py' 2026-01-09T17:22:43,821 adding 'lobster/core/notebook_validator.py' 2026-01-09T17:22:43,824 adding 'lobster/core/plot_manager.py' 2026-01-09T17:22:43,826 adding 'lobster/core/plugin_loader.py' 2026-01-09T17:22:43,828 adding 'lobster/core/provenance.py' 2026-01-09T17:22:43,831 adding 'lobster/core/publication_queue.py' 2026-01-09T17:22:43,833 adding 'lobster/core/queue_storage.py' 2026-01-09T17:22:43,835 adding 'lobster/core/ris_parser.py' 2026-01-09T17:22:43,837 adding 'lobster/core/workspace.py' 2026-01-09T17:22:43,838 adding 'lobster/core/adapters/__init__.py' 2026-01-09T17:22:43,841 adding 'lobster/core/adapters/base.py' 2026-01-09T17:22:43,843 adding 'lobster/core/adapters/protein_structure_adapter.py' 2026-01-09T17:22:43,846 adding 'lobster/core/adapters/proteomics_adapter.py' 2026-01-09T17:22:43,849 adding 'lobster/core/adapters/pseudobulk_adapter.py' 2026-01-09T17:22:43,852 adding 'lobster/core/adapters/transcriptomics_adapter.py' 2026-01-09T17:22:43,854 adding 'lobster/core/backends/__init__.py' 2026-01-09T17:22:43,855 adding 'lobster/core/backends/base.py' 2026-01-09T17:22:43,859 adding 'lobster/core/backends/h5ad_backend.py' 2026-01-09T17:22:43,861 adding 'lobster/core/backends/mudata_backend.py' 2026-01-09T17:22:43,863 adding 'lobster/core/identifiers/__init__.py' 2026-01-09T17:22:43,865 adding 'lobster/core/identifiers/accession_resolver.py' 2026-01-09T17:22:43,867 adding 'lobster/core/interfaces/__init__.py' 2026-01-09T17:22:43,869 adding 'lobster/core/interfaces/adapter.py' 2026-01-09T17:22:43,870 adding 'lobster/core/interfaces/backend.py' 2026-01-09T17:22:43,872 adding 'lobster/core/interfaces/base_client.py' 2026-01-09T17:22:43,874 adding 'lobster/core/interfaces/download_service.py' 2026-01-09T17:22:43,876 adding 'lobster/core/interfaces/validator.py' 2026-01-09T17:22:43,878 adding 'lobster/core/schemas/__init__.py' 2026-01-09T17:22:43,880 adding 'lobster/core/schemas/database_mappings.py' 2026-01-09T17:22:43,882 adding 'lobster/core/schemas/database_registry.py' 2026-01-09T17:22:43,884 adding 'lobster/core/schemas/download_queue.py' 2026-01-09T17:22:43,886 adding 'lobster/core/schemas/download_urls.py' 2026-01-09T17:22:43,891 adding 'lobster/core/schemas/export_schemas.py' 2026-01-09T17:22:43,896 adding 'lobster/core/schemas/metabolomics.py' 2026-01-09T17:22:43,901 adding 'lobster/core/schemas/metagenomics.py' 2026-01-09T17:22:43,903 adding 'lobster/core/schemas/protein_structure.py' 2026-01-09T17:22:43,907 adding 'lobster/core/schemas/proteomics.py' 2026-01-09T17:22:43,910 adding 'lobster/core/schemas/publication_queue.py' 2026-01-09T17:22:43,914 adding 'lobster/core/schemas/sra.py' 2026-01-09T17:22:43,921 adding 'lobster/core/schemas/transcriptomics.py' 2026-01-09T17:22:43,923 adding 'lobster/core/schemas/validation.py' 2026-01-09T17:22:43,925 adding 'lobster/core/utils/__init__.py' 2026-01-09T17:22:43,927 adding 'lobster/core/utils/h5ad_utils.py' 2026-01-09T17:22:43,929 adding 'lobster/lobster_cloud/__init__.py' 2026-01-09T17:22:43,931 adding 'lobster/lobster_cloud/client.py' 2026-01-09T17:22:43,933 adding 'lobster/services/__init__.py' 2026-01-09T17:22:43,934 adding 'lobster/services/analysis/__init__.py' 2026-01-09T17:22:43,942 adding 'lobster/services/analysis/bulk_rnaseq_service.py' 2026-01-09T17:22:43,952 adding 'lobster/services/analysis/clustering_service.py' 2026-01-09T17:22:43,956 adding 'lobster/services/analysis/differential_formula_service.py' 2026-01-09T17:22:43,962 adding 'lobster/services/analysis/enhanced_singlecell_service.py' 2026-01-09T17:22:43,965 adding 'lobster/services/analysis/pseudobulk_service.py' 2026-01-09T17:22:43,967 adding 'lobster/services/analysis/scvi_embedding_service.py' 2026-01-09T17:22:43,970 adding 'lobster/services/analysis/structure_analysis_service.py' 2026-01-09T17:22:43,972 adding 'lobster/services/data_access/__init__.py' 2026-01-09T17:22:43,980 adding 'lobster/services/data_access/content_access_service.py' 2026-01-09T17:22:43,986 adding 'lobster/services/data_access/docling_service.py' 2026-01-09T17:22:43,989 adding 'lobster/services/data_access/geo_download_service.py' 2026-01-09T17:22:43,993 adding 'lobster/services/data_access/geo_fallback_service.py' 2026-01-09T17:22:44,017 adding 'lobster/services/data_access/geo_service.py' 2026-01-09T17:22:44,021 adding 'lobster/services/data_access/massive_download_service.py' 2026-01-09T17:22:44,023 adding 'lobster/services/data_access/pride_download_service.py' 2026-01-09T17:22:44,026 adding 'lobster/services/data_access/protein_structure_fetch_service.py' 2026-01-09T17:22:44,031 adding 'lobster/services/data_access/sra_download_service.py' 2026-01-09T17:22:44,036 adding 'lobster/services/data_access/workspace_content_service.py' 2026-01-09T17:22:44,038 adding 'lobster/services/data_access/geo/__init__.py' 2026-01-09T17:22:44,039 adding 'lobster/services/data_access/geo/constants.py' 2026-01-09T17:22:44,043 adding 'lobster/services/data_access/geo/downloader.py' 2026-01-09T17:22:44,044 adding 'lobster/services/data_access/geo/facade.py' 2026-01-09T17:22:44,052 adding 'lobster/services/data_access/geo/parser.py' 2026-01-09T17:22:44,054 adding 'lobster/services/data_access/geo/strategy.py' 2026-01-09T17:22:44,056 adding 'lobster/services/data_access/geo/loaders/__init__.py' 2026-01-09T17:22:44,058 adding 'lobster/services/data_access/geo/loaders/tenx.py' 2026-01-09T17:22:44,060 adding 'lobster/services/data_access/geo/metadata/__init__.py' 2026-01-09T17:22:44,061 adding 'lobster/services/data_access/geo/sample/__init__.py' 2026-01-09T17:22:44,062 adding 'lobster/services/data_access/geo/utils/__init__.py' 2026-01-09T17:22:44,064 adding 'lobster/services/data_management/__init__.py' 2026-01-09T17:22:44,069 adding 'lobster/services/data_management/concatenation_service.py' 2026-01-09T17:22:44,072 adding 'lobster/services/data_management/modality_management_service.py' 2026-01-09T17:22:44,074 adding 'lobster/services/execution/__init__.py' 2026-01-09T17:22:44,078 adding 'lobster/services/execution/custom_code_execution_service.py' 2026-01-09T17:22:44,079 adding 'lobster/services/execution/execution_context_builder.py' 2026-01-09T17:22:44,081 adding 'lobster/services/metadata/__init__.py' 2026-01-09T17:22:44,083 adding 'lobster/services/metadata/identifier_provenance_service.py' 2026-01-09T17:22:44,087 adding 'lobster/services/metadata/manual_annotation_service.py' 2026-01-09T17:22:44,090 adding 'lobster/services/metadata/metadata_standardization_service.py' 2026-01-09T17:22:44,093 adding 'lobster/services/metadata/metadata_validation_service.py' 2026-01-09T17:22:44,095 adding 'lobster/services/metadata/sample_grouping_service.py' 2026-01-09T17:22:44,097 adding 'lobster/services/metadata/protocol_extraction/__init__.py' 2026-01-09T17:22:44,099 adding 'lobster/services/metadata/protocol_extraction/base.py' 2026-01-09T17:22:44,100 adding 'lobster/services/metadata/protocol_extraction/amplicon/__init__.py' 2026-01-09T17:22:44,102 adding 'lobster/services/metadata/protocol_extraction/amplicon/details.py' 2026-01-09T17:22:44,105 adding 'lobster/services/metadata/protocol_extraction/amplicon/service.py' 2026-01-09T17:22:44,109 adding 'lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json' 2026-01-09T17:22:44,111 adding 'lobster/services/metadata/protocol_extraction/mass_spec/__init__.py' 2026-01-09T17:22:44,113 adding 'lobster/services/metadata/protocol_extraction/mass_spec/details.py' 2026-01-09T17:22:44,114 adding 'lobster/services/metadata/protocol_extraction/mass_spec/service.py' 2026-01-09T17:22:44,116 adding 'lobster/services/metadata/protocol_extraction/rnaseq/__init__.py' 2026-01-09T17:22:44,117 adding 'lobster/services/metadata/protocol_extraction/rnaseq/details.py' 2026-01-09T17:22:44,119 adding 'lobster/services/metadata/protocol_extraction/rnaseq/service.py' 2026-01-09T17:22:44,120 adding 'lobster/services/ml/__init__.py' 2026-01-09T17:22:44,122 adding 'lobster/services/orchestration/__init__.py' 2026-01-09T17:22:44,130 adding 'lobster/services/orchestration/publication_processing_service.py' 2026-01-09T17:22:44,132 adding 'lobster/services/quality/__init__.py' 2026-01-09T17:22:44,137 adding 'lobster/services/quality/preprocessing_service.py' 2026-01-09T17:22:44,141 adding 'lobster/services/quality/quality_service.py' 2026-01-09T17:22:44,143 adding 'lobster/services/templates/__init__.py' 2026-01-09T17:22:44,147 adding 'lobster/services/templates/annotation_templates.py' 2026-01-09T17:22:44,149 adding 'lobster/services/visualization/__init__.py' 2026-01-09T17:22:44,152 adding 'lobster/services/visualization/bulk_visualization_service.py' 2026-01-09T17:22:44,156 adding 'lobster/services/visualization/pymol_visualization_service.py' 2026-01-09T17:22:44,163 adding 'lobster/services/visualization/visualization_service.py' 2026-01-09T17:22:44,165 adding 'lobster/tools/__init__.py' 2026-01-09T17:22:44,168 adding 'lobster/tools/custom_code_tool.py' 2026-01-09T17:22:44,170 adding 'lobster/tools/download_orchestrator.py' 2026-01-09T17:22:44,172 adding 'lobster/tools/enhanced_handoff_tool.py' 2026-01-09T17:22:44,174 adding 'lobster/tools/expert_handoff_manager.py' 2026-01-09T17:22:44,176 adding 'lobster/tools/expert_handoff_patterns.py' 2026-01-09T17:22:44,177 adding 'lobster/tools/geo_downloader.py' 2026-01-09T17:22:44,179 adding 'lobster/tools/geo_parser.py' 2026-01-09T17:22:44,180 adding 'lobster/tools/gpu_detector.py' 2026-01-09T17:22:44,182 adding 'lobster/tools/handoff_tool.py' 2026-01-09T17:22:44,183 adding 'lobster/tools/pipeline_strategy.py' 2026-01-09T17:22:44,187 adding 'lobster/tools/rate_limiter.py' 2026-01-09T17:22:44,188 adding 'lobster/tools/todo_tools.py' 2026-01-09T17:22:44,190 adding 'lobster/tools/url_transforms.py' 2026-01-09T17:22:44,193 adding 'lobster/tools/workflow_tracker.py' 2026-01-09T17:22:44,205 adding 'lobster/tools/workspace_tool.py' 2026-01-09T17:22:44,208 adding 'lobster/tools/archive/publication_service.py' 2026-01-09T17:22:44,211 adding 'lobster/tools/archive/unified_content_service.py' 2026-01-09T17:22:44,213 adding 'lobster/tools/providers/__init__.py' 2026-01-09T17:22:44,215 adding 'lobster/tools/providers/abstract_provider.py' 2026-01-09T17:22:44,217 adding 'lobster/tools/providers/base_provider.py' 2026-01-09T17:22:44,220 adding 'lobster/tools/providers/biopython_entrez_wrapper.py' 2026-01-09T17:22:44,221 adding 'lobster/tools/providers/biorxiv_medrxiv_config.py' 2026-01-09T17:22:44,226 adding 'lobster/tools/providers/biorxiv_medrxiv_provider.py' 2026-01-09T17:22:44,233 adding 'lobster/tools/providers/geo_provider.py' 2026-01-09T17:22:44,234 adding 'lobster/tools/providers/geo_utils.py' 2026-01-09T17:22:44,237 adding 'lobster/tools/providers/massive_provider.py' 2026-01-09T17:22:44,240 adding 'lobster/tools/providers/ncbi_query_builder.py' 2026-01-09T17:22:44,241 adding 'lobster/tools/providers/organism_enum.py' 2026-01-09T17:22:44,244 adding 'lobster/tools/providers/pdb_provider.py' 2026-01-09T17:22:44,250 adding 'lobster/tools/providers/pmc_provider.py' 2026-01-09T17:22:44,253 adding 'lobster/tools/providers/pride_normalizer.py' 2026-01-09T17:22:44,256 adding 'lobster/tools/providers/pride_provider.py' 2026-01-09T17:22:44,258 adding 'lobster/tools/providers/provider_registry.py' 2026-01-09T17:22:44,262 adding 'lobster/tools/providers/publication_resolver.py' 2026-01-09T17:22:44,271 adding 'lobster/tools/providers/pubmed_provider.py' 2026-01-09T17:22:44,277 adding 'lobster/tools/providers/sra_provider.py' 2026-01-09T17:22:44,279 adding 'lobster/tools/providers/structure_provider.py' 2026-01-09T17:22:44,281 adding 'lobster/tools/providers/webpage_provider.py' 2026-01-09T17:22:44,283 adding 'lobster/ui/__init__.py' 2026-01-09T17:22:44,286 adding 'lobster/ui/commands.py' 2026-01-09T17:22:44,288 adding 'lobster/ui/console_manager.py' 2026-01-09T17:22:44,291 adding 'lobster/ui/live_dashboard.py' 2026-01-09T17:22:44,292 adding 'lobster/ui/os_app.py' 2026-01-09T17:22:44,295 adding 'lobster/ui/progress_manager.py' 2026-01-09T17:22:44,297 adding 'lobster/ui/themes.py' 2026-01-09T17:22:44,298 adding 'lobster/ui/callbacks/__init__.py' 2026-01-09T17:22:44,301 adding 'lobster/ui/callbacks/textual_callback.py' 2026-01-09T17:22:44,303 adding 'lobster/ui/components/__init__.py' 2026-01-09T17:22:44,305 adding 'lobster/ui/components/file_tree.py' 2026-01-09T17:22:44,308 adding 'lobster/ui/components/multi_progress.py' 2026-01-09T17:22:44,309 adding 'lobster/ui/components/parallel_workers_progress.py' 2026-01-09T17:22:44,312 adding 'lobster/ui/components/status_display.py' 2026-01-09T17:22:44,314 adding 'lobster/ui/formatters/__init__.py' 2026-01-09T17:22:44,315 adding 'lobster/ui/screens/__init__.py' 2026-01-09T17:22:44,319 adding 'lobster/ui/screens/analysis_screen.py' 2026-01-09T17:22:44,320 adding 'lobster/ui/services/__init__.py' 2026-01-09T17:22:44,322 adding 'lobster/ui/services/error_service.py' 2026-01-09T17:22:44,324 adding 'lobster/ui/widgets/__init__.py' 2026-01-09T17:22:44,325 adding 'lobster/ui/widgets/activity_log.py' 2026-01-09T17:22:44,327 adding 'lobster/ui/widgets/adapters_panel.py' 2026-01-09T17:22:44,329 adding 'lobster/ui/widgets/agents_panel.py' 2026-01-09T17:22:44,330 adding 'lobster/ui/widgets/chat_message.py' 2026-01-09T17:22:44,331 adding 'lobster/ui/widgets/connections_panel.py' 2026-01-09T17:22:44,335 adding 'lobster/ui/widgets/data_hub.py' 2026-01-09T17:22:44,336 adding 'lobster/ui/widgets/error_modal.py' 2026-01-09T17:22:44,338 adding 'lobster/ui/widgets/modality_list.py' 2026-01-09T17:22:44,339 adding 'lobster/ui/widgets/plot_preview.py' 2026-01-09T17:22:44,341 adding 'lobster/ui/widgets/query_prompt.py' 2026-01-09T17:22:44,342 adding 'lobster/ui/widgets/queue_panel.py' 2026-01-09T17:22:44,344 adding 'lobster/ui/widgets/queue_status_bar.py' 2026-01-09T17:22:44,345 adding 'lobster/ui/widgets/results_display.py' 2026-01-09T17:22:44,347 adding 'lobster/ui/widgets/status_bar.py' 2026-01-09T17:22:44,348 adding 'lobster/ui/widgets/system_info.py' 2026-01-09T17:22:44,350 adding 'lobster/ui/widgets/token_usage_panel.py' 2026-01-09T17:22:44,352 adding 'lobster/utils/__init__.py' 2026-01-09T17:22:44,358 adding 'lobster/utils/callbacks.py' 2026-01-09T17:22:44,359 adding 'lobster/utils/deviance.py' 2026-01-09T17:22:44,362 adding 'lobster/utils/error_handlers.py' 2026-01-09T17:22:44,364 adding 'lobster/utils/file_analyzer.py' 2026-01-09T17:22:44,366 adding 'lobster/utils/file_naming.py' 2026-01-09T17:22:44,368 adding 'lobster/utils/json_extractor.py' 2026-01-09T17:22:44,370 adding 'lobster/utils/logger.py' 2026-01-09T17:22:44,371 adding 'lobster/utils/progress_wrapper.py' 2026-01-09T17:22:44,373 adding 'lobster/utils/ssl_utils.py' 2026-01-09T17:22:44,374 adding 'lobster/utils/system.py' 2026-01-09T17:22:44,382 adding 'lobster_ai-0.4.2.8.dist-info/licenses/LICENSE' 2026-01-09T17:22:44,384 adding 'lobster_ai-0.4.2.8.dist-info/METADATA' 2026-01-09T17:22:44,386 adding 'lobster_ai-0.4.2.8.dist-info/WHEEL' 2026-01-09T17:22:44,387 adding 'lobster_ai-0.4.2.8.dist-info/entry_points.txt' 2026-01-09T17:22:44,387 adding 'lobster_ai-0.4.2.8.dist-info/top_level.txt' 2026-01-09T17:22:44,392 adding 'lobster_ai-0.4.2.8.dist-info/RECORD' 2026-01-09T17:22:44,413 removing build/bdist.linux-armv7l/wheel 2026-01-09T17:22:44,589 Building wheel for lobster-ai (pyproject.toml): finished with status 'done' 2026-01-09T17:22:44,631 Created wheel for lobster-ai: filename=lobster_ai-0.4.2.8-py3-none-any.whl size=1367223 sha256=4e70ce958b4ab6f439a643cff47047d6d221aec8ef0ed576703d5ebe59d4679f 2026-01-09T17:22:44,633 Stored in directory: /tmp/pip-ephem-wheel-cache-2j2it03m/wheels/59/4f/35/29812aed220db4e239379cb11c1d8d20708a31ef7ba2a636b0 2026-01-09T17:22:44,659 Successfully built lobster-ai 2026-01-09T17:22:44,705 Removed build tracker: '/tmp/pip-build-tracker-z94rf6h7'