2026-01-07T22:36:45,954 Created temporary directory: /tmp/pip-ephem-wheel-cache-pc8elw37 2026-01-07T22:36:45,955 Created temporary directory: /tmp/pip-build-tracker-wx0okf9l 2026-01-07T22:36:45,956 Initialized build tracking at /tmp/pip-build-tracker-wx0okf9l 2026-01-07T22:36:45,957 Created build tracker: /tmp/pip-build-tracker-wx0okf9l 2026-01-07T22:36:45,957 Entered build tracker: /tmp/pip-build-tracker-wx0okf9l 2026-01-07T22:36:45,958 Created temporary directory: /tmp/pip-wheel-crlqoedi 2026-01-07T22:36:45,961 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 2026-01-07T22:36:45,963 Created temporary directory: /tmp/pip-ephem-wheel-cache-pv_qgec8 2026-01-07T22:36:45,988 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-07T22:36:45,992 2 location(s) to search for versions of lobster-ai: 2026-01-07T22:36:45,992 * https://pypi.org/simple/lobster-ai/ 2026-01-07T22:36:45,992 * https://www.piwheels.org/simple/lobster-ai/ 2026-01-07T22:36:45,992 Fetching project page and analyzing links: https://pypi.org/simple/lobster-ai/ 2026-01-07T22:36:45,993 Getting page https://pypi.org/simple/lobster-ai/ 2026-01-07T22:36:45,995 Found index url https://pypi.org/simple 2026-01-07T22:36:46,211 Fetched page https://pypi.org/simple/lobster-ai/ as application/vnd.pypi.simple.v1+json 2026-01-07T22:36:46,216 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/25/73/1d1a25243200fd27fb678fc6ba25c4f1675657400551cb051e2f0ba608ec/lobster_ai-0.4.0.6-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,217 Found link https://files.pythonhosted.org/packages/70/bb/d1a5b8fb3972b827f824ed05220013d162bbec24be0d8bffe790e535960b/lobster_ai-0.4.0.6.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.0.6 2026-01-07T22:36:46,218 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/28/50/4706e55b526417192c7d0734f9300f26cbaa6f3404a258dc5e23932755d8/lobster_ai-0.4.0.7-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,219 Found link https://files.pythonhosted.org/packages/a8/80/ed27ba2c77f7614bf149a697b450c4828da9d56fe5c8d3f0090165bf76fc/lobster_ai-0.4.0.7.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.0.7 2026-01-07T22:36:46,220 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/d6/d8/90aa06db1b87347873b4ce21d57d45a24c7c9a7f357128242401dacf90ee/lobster_ai-0.4.0.8-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,221 Found link https://files.pythonhosted.org/packages/69/86/8a4b462df9a8118f3de7e0685672bda6cb876c8345b4434923a5c5e941ff/lobster_ai-0.4.0.8.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.0.8 2026-01-07T22:36:46,222 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/82/31/78340295ff44b67ccc4c5caaa6719063d7474604cd61fa9262fc35d4d956/lobster_ai-0.4.0.9-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,223 Found link 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https://files.pythonhosted.org/packages/bf/b4/ac38db54d1442ddba719f431bb2b6a2396b696617b6701cb8326dc81b8f6/lobster_ai-0.4.1.4-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,229 Found link https://files.pythonhosted.org/packages/25/76/dd6e0450e6ba1cae1eeb0956576d5d07bd08b40d7005b9c768b756af7484/lobster_ai-0.4.1.4.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.1.4 2026-01-07T22:36:46,230 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/fa/c6/d61c31b8779125e2a9cfbffc20fcdb7c3790c8bf64ecb3c74a9571cf1b9a/lobster_ai-0.4.1.5-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,231 Found link https://files.pythonhosted.org/packages/e1/fb/4535dc1c984840956291d1d24e03b91a321639f5a209aa1529becd12d0af/lobster_ai-0.4.1.5.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.1.5 2026-01-07T22:36:46,231 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/ca/97/988cbb274eec6f1beb4865d431331d0881a1bff32e9c973b18331edd98ff/lobster_ai-0.4.1.6-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,233 Found link https://files.pythonhosted.org/packages/42/de/54943a601e8ecc810ab58b7d5a37b5bac1c4f3670d3ebd4004961ef0d28d/lobster_ai-0.4.1.6.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.1.6 2026-01-07T22:36:46,233 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/7a/d2/8b0612b230d6fd156dfcf783b97bc98b6ca4b91e3d9620d1f3ee4d29b43c/lobster_ai-0.4.1.7-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,234 Found link https://files.pythonhosted.org/packages/7d/14/b48f0f96ccf7745c5199ce1ef21ca76ad5ab79bc7edf7e6d470d0a68db26/lobster_ai-0.4.1.7.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.1.7 2026-01-07T22:36:46,235 Fetching project page and analyzing links: https://www.piwheels.org/simple/lobster-ai/ 2026-01-07T22:36:46,236 Getting page https://www.piwheels.org/simple/lobster-ai/ 2026-01-07T22:36:46,237 Found index url https://www.piwheels.org/simple 2026-01-07T22:36:46,393 Fetched page https://www.piwheels.org/simple/lobster-ai/ as text/html 2026-01-07T22:36:46,397 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.6-py3-none-any.whl#sha256=522f41d19d851d030ee5dedb95a4b19a4748ea44ee54236888916b5e6518048d (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,398 Skipping link: No binaries permitted for lobster-ai: 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https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.2-py3-none-any.whl#sha256=7f38e7703c88c0c7fe4811c9c7b04da6469ca264d3e261e794b0a59376ba4d0e (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,400 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.1-py3-none-any.whl#sha256=d30d1083ded2235ea62f728b72c55b58d61c4164f9913d1996d68c451dac3c4d (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,401 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.0.9-py3-none-any.whl#sha256=48a46075806c2941d705fa7eb0da81c1c162cc4b62b1bc22b578315363b4de75 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,401 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) 2026-01-07T22:36:46,402 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) 2026-01-07T22:36:46,402 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.0.6-py3-none-any.whl#sha256=2d937b84c8a017772656d9ca05d13ea77671ba5c8b1eccb92e4129465a975502 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T22:36:46,403 Skipping link: not a file: https://www.piwheels.org/simple/lobster-ai/ 2026-01-07T22:36:46,404 Skipping link: not a file: https://pypi.org/simple/lobster-ai/ 2026-01-07T22:36:46,424 Given no hashes to check 1 links for project 'lobster-ai': discarding no candidates 2026-01-07T22:36:46,442 Collecting lobster-ai==0.4.1.7 2026-01-07T22:36:46,444 Created temporary directory: /tmp/pip-unpack-udk9ctdm 2026-01-07T22:36:46,660 Downloading lobster_ai-0.4.1.7.tar.gz (1.2 MB) 2026-01-07T22:36:47,675 Added lobster-ai==0.4.1.7 from https://files.pythonhosted.org/packages/7d/14/b48f0f96ccf7745c5199ce1ef21ca76ad5ab79bc7edf7e6d470d0a68db26/lobster_ai-0.4.1.7.tar.gz to build tracker '/tmp/pip-build-tracker-wx0okf9l' 2026-01-07T22:36:47,684 Created temporary directory: /tmp/pip-build-env-b6f88905 2026-01-07T22:36:47,688 Installing build dependencies: started 2026-01-07T22:36:47,690 Running command pip subprocess to install build dependencies 2026-01-07T22:36:48,829 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-01-07T22:36:49,495 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 2026-01-07T22:36:49,518 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-07T22:36:51,245 Collecting setuptools>=65.0 2026-01-07T22:36:51,342 Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB) 2026-01-07T22:36:51,618 Collecting wheel 2026-01-07T22:36:51,634 Using cached https://www.piwheels.org/simple/wheel/wheel-0.45.1-py3-none-any.whl (72 kB) 2026-01-07T22:36:54,661 Installing collected packages: wheel, setuptools 2026-01-07T22:36:54,897 Creating /tmp/pip-build-env-b6f88905/overlay/local/bin 2026-01-07T22:36:54,899 changing mode of /tmp/pip-build-env-b6f88905/overlay/local/bin/wheel to 755 2026-01-07T22:36:58,545 Successfully installed setuptools-80.9.0 wheel-0.45.1 2026-01-07T22:36:58,818 Installing build dependencies: finished with status 'done' 2026-01-07T22:36:58,825 Getting requirements to build wheel: started 2026-01-07T22:36:58,827 Running command Getting requirements to build wheel 2026-01-07T22:36:59,507 /tmp/pip-build-env-b6f88905/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-07T22:36:59,507 corresp(dist, value, root_dir) 2026-01-07T22:36:59,508 /tmp/pip-build-env-b6f88905/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-07T22:36:59,508 corresp(dist, value, root_dir) 2026-01-07T22:36:59,509 /tmp/pip-build-env-b6f88905/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-07T22:36:59,509 corresp(dist, value, root_dir) 2026-01-07T22:36:59,616 running egg_info 2026-01-07T22:36:59,623 writing lobster_ai.egg-info/PKG-INFO 2026-01-07T22:36:59,653 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-07T22:36:59,655 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-07T22:36:59,675 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-07T22:36:59,676 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-07T22:36:59,823 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-07T22:36:59,840 adding license file 'LICENSE' 2026-01-07T22:36:59,854 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-07T22:36:59,954 Getting requirements to build wheel: finished with status 'done' 2026-01-07T22:36:59,957 Created temporary directory: /tmp/pip-modern-metadata-h7jwd92t 2026-01-07T22:36:59,959 Preparing metadata (pyproject.toml): started 2026-01-07T22:36:59,961 Running command Preparing metadata (pyproject.toml) 2026-01-07T22:37:00,582 /tmp/pip-build-env-b6f88905/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-07T22:37:00,582 corresp(dist, value, root_dir) 2026-01-07T22:37:00,583 /tmp/pip-build-env-b6f88905/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-07T22:37:00,584 corresp(dist, value, root_dir) 2026-01-07T22:37:00,584 /tmp/pip-build-env-b6f88905/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-07T22:37:00,585 corresp(dist, value, root_dir) 2026-01-07T22:37:00,687 running dist_info 2026-01-07T22:37:00,700 creating /tmp/pip-modern-metadata-h7jwd92t/lobster_ai.egg-info 2026-01-07T22:37:00,701 writing /tmp/pip-modern-metadata-h7jwd92t/lobster_ai.egg-info/PKG-INFO 2026-01-07T22:37:00,732 writing dependency_links to /tmp/pip-modern-metadata-h7jwd92t/lobster_ai.egg-info/dependency_links.txt 2026-01-07T22:37:00,733 writing entry points to /tmp/pip-modern-metadata-h7jwd92t/lobster_ai.egg-info/entry_points.txt 2026-01-07T22:37:00,753 writing requirements to /tmp/pip-modern-metadata-h7jwd92t/lobster_ai.egg-info/requires.txt 2026-01-07T22:37:00,754 writing top-level names to /tmp/pip-modern-metadata-h7jwd92t/lobster_ai.egg-info/top_level.txt 2026-01-07T22:37:00,756 writing manifest file '/tmp/pip-modern-metadata-h7jwd92t/lobster_ai.egg-info/SOURCES.txt' 2026-01-07T22:37:00,892 reading manifest file '/tmp/pip-modern-metadata-h7jwd92t/lobster_ai.egg-info/SOURCES.txt' 2026-01-07T22:37:00,895 adding license file 'LICENSE' 2026-01-07T22:37:00,906 writing manifest file '/tmp/pip-modern-metadata-h7jwd92t/lobster_ai.egg-info/SOURCES.txt' 2026-01-07T22:37:00,907 creating '/tmp/pip-modern-metadata-h7jwd92t/lobster_ai-0.4.1.7.dist-info' 2026-01-07T22:37:01,037 Preparing metadata (pyproject.toml): finished with status 'done' 2026-01-07T22:37:01,044 Source in /tmp/pip-wheel-crlqoedi/lobster-ai_33595797e45a44f09fbc3b8d57802cbb has version 0.4.1.7, which satisfies requirement lobster-ai==0.4.1.7 from https://files.pythonhosted.org/packages/7d/14/b48f0f96ccf7745c5199ce1ef21ca76ad5ab79bc7edf7e6d470d0a68db26/lobster_ai-0.4.1.7.tar.gz 2026-01-07T22:37:01,045 Removed lobster-ai==0.4.1.7 from https://files.pythonhosted.org/packages/7d/14/b48f0f96ccf7745c5199ce1ef21ca76ad5ab79bc7edf7e6d470d0a68db26/lobster_ai-0.4.1.7.tar.gz from build tracker '/tmp/pip-build-tracker-wx0okf9l' 2026-01-07T22:37:01,055 Created temporary directory: /tmp/pip-unpack-h1np9lub 2026-01-07T22:37:01,055 Building wheels for collected packages: lobster-ai 2026-01-07T22:37:01,060 Created temporary directory: /tmp/pip-wheel-xkm7462g 2026-01-07T22:37:01,061 Destination directory: /tmp/pip-wheel-xkm7462g 2026-01-07T22:37:01,063 Building wheel for lobster-ai (pyproject.toml): started 2026-01-07T22:37:01,064 Running command Building wheel for lobster-ai (pyproject.toml) 2026-01-07T22:37:01,674 /tmp/pip-build-env-b6f88905/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-07T22:37:01,675 corresp(dist, value, root_dir) 2026-01-07T22:37:01,675 /tmp/pip-build-env-b6f88905/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-07T22:37:01,676 corresp(dist, value, root_dir) 2026-01-07T22:37:01,676 /tmp/pip-build-env-b6f88905/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-07T22:37:01,677 corresp(dist, value, root_dir) 2026-01-07T22:37:01,770 running bdist_wheel 2026-01-07T22:37:01,791 running build 2026-01-07T22:37:01,792 running build_py 2026-01-07T22:37:01,798 creating build/lib/lobster 2026-01-07T22:37:01,801 copying lobster/__main__.py -> build/lib/lobster 2026-01-07T22:37:01,803 copying lobster/main.py -> build/lib/lobster 2026-01-07T22:37:01,804 copying lobster/_version.py -> build/lib/lobster 2026-01-07T22:37:01,806 copying lobster/version.py -> build/lib/lobster 2026-01-07T22:37:01,808 copying lobster/cli.py -> build/lib/lobster 2026-01-07T22:37:01,817 creating build/lib/lobster/config 2026-01-07T22:37:01,818 copying lobster/config/settings.py -> build/lib/lobster/config 2026-01-07T22:37:01,821 copying lobster/config/subscription_tiers.py -> build/lib/lobster/config 2026-01-07T22:37:01,823 copying lobster/config/__init__.py -> build/lib/lobster/config 2026-01-07T22:37:01,825 copying lobster/config/provider_setup.py -> build/lib/lobster/config 2026-01-07T22:37:01,828 copying lobster/config/agent_config.py -> build/lib/lobster/config 2026-01-07T22:37:01,830 copying lobster/config/constants.py -> build/lib/lobster/config 2026-01-07T22:37:01,832 copying lobster/config/agent_registry.py -> build/lib/lobster/config 2026-01-07T22:37:01,834 copying lobster/config/ollama_service.py -> build/lib/lobster/config 2026-01-07T22:37:01,837 copying lobster/config/config_manager.py -> build/lib/lobster/config 2026-01-07T22:37:01,839 copying lobster/config/global_config.py -> build/lib/lobster/config 2026-01-07T22:37:01,841 copying lobster/config/workspace_config.py -> build/lib/lobster/config 2026-01-07T22:37:01,844 copying lobster/config/agent_capabilities.py -> build/lib/lobster/config 2026-01-07T22:37:01,847 copying lobster/config/supervisor_config.py -> build/lib/lobster/config 2026-01-07T22:37:01,849 copying lobster/config/model_service.py -> build/lib/lobster/config 2026-01-07T22:37:01,851 copying lobster/config/base_config.py -> build/lib/lobster/config 2026-01-07T22:37:01,853 copying lobster/config/llm_factory.py -> build/lib/lobster/config 2026-01-07T22:37:01,856 creating build/lib/lobster/utils 2026-01-07T22:37:01,857 copying lobster/utils/ssl_utils.py -> build/lib/lobster/utils 2026-01-07T22:37:01,860 copying lobster/utils/file_naming.py -> build/lib/lobster/utils 2026-01-07T22:37:01,862 copying lobster/utils/__init__.py -> build/lib/lobster/utils 2026-01-07T22:37:01,864 copying lobster/utils/error_handlers.py -> build/lib/lobster/utils 2026-01-07T22:37:01,866 copying lobster/utils/progress_wrapper.py -> build/lib/lobster/utils 2026-01-07T22:37:01,869 copying lobster/utils/deviance.py -> build/lib/lobster/utils 2026-01-07T22:37:01,871 copying lobster/utils/system.py -> build/lib/lobster/utils 2026-01-07T22:37:01,873 copying lobster/utils/logger.py -> build/lib/lobster/utils 2026-01-07T22:37:01,875 copying lobster/utils/json_extractor.py -> build/lib/lobster/utils 2026-01-07T22:37:01,877 copying lobster/utils/callbacks.py -> build/lib/lobster/utils 2026-01-07T22:37:01,880 copying lobster/utils/file_analyzer.py -> build/lib/lobster/utils 2026-01-07T22:37:01,884 creating build/lib/lobster/core 2026-01-07T22:37:01,885 copying lobster/core/component_registry.py -> build/lib/lobster/core 2026-01-07T22:37:01,887 copying lobster/core/exceptions.py -> build/lib/lobster/core 2026-01-07T22:37:01,889 copying lobster/core/notebook_exporter.py -> build/lib/lobster/core 2026-01-07T22:37:01,892 copying lobster/core/data_manager_v2.py -> build/lib/lobster/core 2026-01-07T22:37:01,897 copying lobster/core/ris_parser.py -> build/lib/lobster/core 2026-01-07T22:37:01,899 copying lobster/core/__init__.py -> build/lib/lobster/core 2026-01-07T22:37:01,901 copying lobster/core/provenance.py -> build/lib/lobster/core 2026-01-07T22:37:01,904 copying lobster/core/publication_queue.py -> build/lib/lobster/core 2026-01-07T22:37:01,907 copying lobster/core/workspace.py -> build/lib/lobster/core 2026-01-07T22:37:01,909 copying lobster/core/download_queue.py -> build/lib/lobster/core 2026-01-07T22:37:01,911 copying lobster/core/config_resolver.py -> build/lib/lobster/core 2026-01-07T22:37:01,913 copying lobster/core/notebook_executor.py -> build/lib/lobster/core 2026-01-07T22:37:01,916 copying lobster/core/plugin_loader.py -> build/lib/lobster/core 2026-01-07T22:37:01,918 copying lobster/core/client.py -> build/lib/lobster/core 2026-01-07T22:37:01,922 copying lobster/core/archive_utils.py -> build/lib/lobster/core 2026-01-07T22:37:01,925 copying lobster/core/plot_manager.py -> build/lib/lobster/core 2026-01-07T22:37:01,928 copying lobster/core/license_manager.py -> build/lib/lobster/core 2026-01-07T22:37:01,931 copying lobster/core/queue_storage.py -> build/lib/lobster/core 2026-01-07T22:37:01,932 copying lobster/core/notebook_validator.py -> build/lib/lobster/core 2026-01-07T22:37:01,935 copying lobster/core/ir_coverage.py -> build/lib/lobster/core 2026-01-07T22:37:01,938 copying lobster/core/analysis_ir.py -> build/lib/lobster/core 2026-01-07T22:37:01,941 creating build/lib/lobster/lobster_cloud 2026-01-07T22:37:01,942 copying lobster/lobster_cloud/__init__.py -> build/lib/lobster/lobster_cloud 2026-01-07T22:37:01,944 copying lobster/lobster_cloud/client.py -> build/lib/lobster/lobster_cloud 2026-01-07T22:37:01,947 creating build/lib/lobster/services 2026-01-07T22:37:01,948 copying lobster/services/__init__.py -> build/lib/lobster/services 2026-01-07T22:37:01,951 creating build/lib/lobster/agents 2026-01-07T22:37:01,952 copying lobster/agents/__init__.py -> build/lib/lobster/agents 2026-01-07T22:37:01,954 copying lobster/agents/data_expert.py -> build/lib/lobster/agents 2026-01-07T22:37:01,958 copying lobster/agents/draw_graph.py -> build/lib/lobster/agents 2026-01-07T22:37:01,960 copying lobster/agents/visualization_expert.py -> build/lib/lobster/agents 2026-01-07T22:37:01,963 copying lobster/agents/data_expert_assistant.py -> build/lib/lobster/agents 2026-01-07T22:37:01,966 copying lobster/agents/supervisor.py -> build/lib/lobster/agents 2026-01-07T22:37:01,970 copying lobster/agents/graph.py -> build/lib/lobster/agents 2026-01-07T22:37:01,972 copying lobster/agents/state.py -> build/lib/lobster/agents 2026-01-07T22:37:01,975 copying lobster/agents/research_agent.py -> build/lib/lobster/agents 2026-01-07T22:37:01,980 creating build/lib/lobster/cli_internal 2026-01-07T22:37:01,981 copying lobster/cli_internal/__init__.py -> build/lib/lobster/cli_internal 2026-01-07T22:37:01,984 creating build/lib/lobster/ui 2026-01-07T22:37:01,985 copying lobster/ui/commands.py -> build/lib/lobster/ui 2026-01-07T22:37:01,988 copying lobster/ui/__init__.py -> build/lib/lobster/ui 2026-01-07T22:37:01,990 copying lobster/ui/live_dashboard.py -> build/lib/lobster/ui 2026-01-07T22:37:01,993 copying lobster/ui/progress_manager.py -> build/lib/lobster/ui 2026-01-07T22:37:01,996 copying lobster/ui/os_app.py -> build/lib/lobster/ui 2026-01-07T22:37:01,998 copying lobster/ui/console_manager.py -> build/lib/lobster/ui 2026-01-07T22:37:02,001 copying lobster/ui/themes.py -> build/lib/lobster/ui 2026-01-07T22:37:02,005 creating build/lib/lobster/tools 2026-01-07T22:37:02,006 copying lobster/tools/geo_downloader.py -> build/lib/lobster/tools 2026-01-07T22:37:02,008 copying lobster/tools/enhanced_handoff_tool.py -> build/lib/lobster/tools 2026-01-07T22:37:02,011 copying lobster/tools/__init__.py -> build/lib/lobster/tools 2026-01-07T22:37:02,013 copying lobster/tools/workspace_tool.py -> build/lib/lobster/tools 2026-01-07T22:37:02,018 copying lobster/tools/pipeline_strategy.py -> build/lib/lobster/tools 2026-01-07T22:37:02,021 copying lobster/tools/handoff_tool.py -> build/lib/lobster/tools 2026-01-07T22:37:02,023 copying lobster/tools/download_orchestrator.py -> build/lib/lobster/tools 2026-01-07T22:37:02,026 copying lobster/tools/geo_parser.py -> build/lib/lobster/tools 2026-01-07T22:37:02,028 copying lobster/tools/gpu_detector.py -> build/lib/lobster/tools 2026-01-07T22:37:02,031 copying lobster/tools/rate_limiter.py -> build/lib/lobster/tools 2026-01-07T22:37:02,035 copying lobster/tools/todo_tools.py -> build/lib/lobster/tools 2026-01-07T22:37:02,038 copying lobster/tools/url_transforms.py -> build/lib/lobster/tools 2026-01-07T22:37:02,040 copying lobster/tools/expert_handoff_patterns.py -> build/lib/lobster/tools 2026-01-07T22:37:02,043 copying lobster/tools/expert_handoff_manager.py -> build/lib/lobster/tools 2026-01-07T22:37:02,046 copying lobster/tools/workflow_tracker.py -> build/lib/lobster/tools 2026-01-07T22:37:02,049 copying lobster/tools/custom_code_tool.py -> build/lib/lobster/tools 2026-01-07T22:37:02,052 creating build/lib/lobster/config/providers 2026-01-07T22:37:02,054 copying lobster/config/providers/base_provider.py -> build/lib/lobster/config/providers 2026-01-07T22:37:02,056 copying lobster/config/providers/gemini_provider.py -> build/lib/lobster/config/providers 2026-01-07T22:37:02,059 copying lobster/config/providers/__init__.py -> build/lib/lobster/config/providers 2026-01-07T22:37:02,061 copying lobster/config/providers/bedrock_provider.py -> build/lib/lobster/config/providers 2026-01-07T22:37:02,064 copying lobster/config/providers/anthropic_provider.py -> build/lib/lobster/config/providers 2026-01-07T22:37:02,067 copying lobster/config/providers/ollama_provider.py -> build/lib/lobster/config/providers 2026-01-07T22:37:02,070 copying lobster/config/providers/registry.py -> build/lib/lobster/config/providers 2026-01-07T22:37:02,073 creating build/lib/lobster/core/interfaces 2026-01-07T22:37:02,074 copying lobster/core/interfaces/__init__.py -> build/lib/lobster/core/interfaces 2026-01-07T22:37:02,076 copying lobster/core/interfaces/adapter.py -> build/lib/lobster/core/interfaces 2026-01-07T22:37:02,078 copying lobster/core/interfaces/download_service.py -> build/lib/lobster/core/interfaces 2026-01-07T22:37:02,082 copying lobster/core/interfaces/backend.py -> build/lib/lobster/core/interfaces 2026-01-07T22:37:02,084 copying lobster/core/interfaces/base_client.py -> build/lib/lobster/core/interfaces 2026-01-07T22:37:02,087 copying lobster/core/interfaces/validator.py -> build/lib/lobster/core/interfaces 2026-01-07T22:37:02,090 creating build/lib/lobster/core/adapters 2026-01-07T22:37:02,091 copying lobster/core/adapters/base.py -> build/lib/lobster/core/adapters 2026-01-07T22:37:02,094 copying lobster/core/adapters/__init__.py -> build/lib/lobster/core/adapters 2026-01-07T22:37:02,096 copying lobster/core/adapters/transcriptomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-07T22:37:02,099 copying lobster/core/adapters/proteomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-07T22:37:02,102 copying lobster/core/adapters/protein_structure_adapter.py -> build/lib/lobster/core/adapters 2026-01-07T22:37:02,105 copying lobster/core/adapters/pseudobulk_adapter.py -> build/lib/lobster/core/adapters 2026-01-07T22:37:02,108 creating build/lib/lobster/core/utils 2026-01-07T22:37:02,110 copying lobster/core/utils/__init__.py -> build/lib/lobster/core/utils 2026-01-07T22:37:02,112 copying lobster/core/utils/h5ad_utils.py -> build/lib/lobster/core/utils 2026-01-07T22:37:02,115 creating build/lib/lobster/core/backends 2026-01-07T22:37:02,116 copying lobster/core/backends/base.py -> build/lib/lobster/core/backends 2026-01-07T22:37:02,119 copying lobster/core/backends/__init__.py -> build/lib/lobster/core/backends 2026-01-07T22:37:02,121 copying lobster/core/backends/mudata_backend.py -> build/lib/lobster/core/backends 2026-01-07T22:37:02,124 copying lobster/core/backends/h5ad_backend.py -> build/lib/lobster/core/backends 2026-01-07T22:37:02,128 creating build/lib/lobster/core/identifiers 2026-01-07T22:37:02,129 copying lobster/core/identifiers/__init__.py -> build/lib/lobster/core/identifiers 2026-01-07T22:37:02,131 copying lobster/core/identifiers/accession_resolver.py -> build/lib/lobster/core/identifiers 2026-01-07T22:37:02,135 creating build/lib/lobster/core/schemas 2026-01-07T22:37:02,136 copying lobster/core/schemas/database_registry.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,139 copying lobster/core/schemas/sra.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,142 copying lobster/core/schemas/export_schemas.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,146 copying lobster/core/schemas/__init__.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,148 copying lobster/core/schemas/database_mappings.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,151 copying lobster/core/schemas/protein_structure.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,154 copying lobster/core/schemas/publication_queue.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,157 copying lobster/core/schemas/transcriptomics.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,161 copying lobster/core/schemas/proteomics.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,164 copying lobster/core/schemas/download_queue.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,167 copying lobster/core/schemas/validation.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,170 copying lobster/core/schemas/metagenomics.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,174 copying lobster/core/schemas/metabolomics.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,177 copying lobster/core/schemas/download_urls.py -> build/lib/lobster/core/schemas 2026-01-07T22:37:02,180 creating build/lib/lobster/services/templates 2026-01-07T22:37:02,181 copying lobster/services/templates/__init__.py -> build/lib/lobster/services/templates 2026-01-07T22:37:02,183 copying lobster/services/templates/annotation_templates.py -> build/lib/lobster/services/templates 2026-01-07T22:37:02,187 creating build/lib/lobster/services/visualization 2026-01-07T22:37:02,188 copying lobster/services/visualization/pymol_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-07T22:37:02,192 copying lobster/services/visualization/visualization_service.py -> build/lib/lobster/services/visualization 2026-01-07T22:37:02,196 copying lobster/services/visualization/__init__.py -> build/lib/lobster/services/visualization 2026-01-07T22:37:02,198 copying lobster/services/visualization/bulk_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-07T22:37:02,202 creating build/lib/lobster/services/metadata 2026-01-07T22:37:02,203 copying lobster/services/metadata/identifier_provenance_service.py -> build/lib/lobster/services/metadata 2026-01-07T22:37:02,206 copying lobster/services/metadata/metadata_validation_service.py -> build/lib/lobster/services/metadata 2026-01-07T22:37:02,209 copying lobster/services/metadata/metadata_standardization_service.py -> build/lib/lobster/services/metadata 2026-01-07T22:37:02,212 copying lobster/services/metadata/__init__.py -> build/lib/lobster/services/metadata 2026-01-07T22:37:02,214 copying lobster/services/metadata/manual_annotation_service.py -> build/lib/lobster/services/metadata 2026-01-07T22:37:02,217 copying lobster/services/metadata/sample_grouping_service.py -> build/lib/lobster/services/metadata 2026-01-07T22:37:02,220 creating build/lib/lobster/services/quality 2026-01-07T22:37:02,221 copying lobster/services/quality/__init__.py -> build/lib/lobster/services/quality 2026-01-07T22:37:02,222 copying lobster/services/quality/preprocessing_service.py -> build/lib/lobster/services/quality 2026-01-07T22:37:02,226 copying lobster/services/quality/quality_service.py -> build/lib/lobster/services/quality 2026-01-07T22:37:02,229 creating build/lib/lobster/services/ml 2026-01-07T22:37:02,230 copying lobster/services/ml/__init__.py -> build/lib/lobster/services/ml 2026-01-07T22:37:02,232 creating build/lib/lobster/services/data_management 2026-01-07T22:37:02,233 copying lobster/services/data_management/concatenation_service.py -> build/lib/lobster/services/data_management 2026-01-07T22:37:02,236 copying lobster/services/data_management/__init__.py -> build/lib/lobster/services/data_management 2026-01-07T22:37:02,238 copying lobster/services/data_management/modality_management_service.py -> build/lib/lobster/services/data_management 2026-01-07T22:37:02,241 creating build/lib/lobster/services/orchestration 2026-01-07T22:37:02,243 copying lobster/services/orchestration/publication_processing_service.py -> build/lib/lobster/services/orchestration 2026-01-07T22:37:02,247 copying lobster/services/orchestration/__init__.py -> build/lib/lobster/services/orchestration 2026-01-07T22:37:02,249 creating build/lib/lobster/services/analysis 2026-01-07T22:37:02,250 copying lobster/services/analysis/structure_analysis_service.py -> build/lib/lobster/services/analysis 2026-01-07T22:37:02,253 copying lobster/services/analysis/pseudobulk_service.py -> build/lib/lobster/services/analysis 2026-01-07T22:37:02,256 copying lobster/services/analysis/enhanced_singlecell_service.py -> build/lib/lobster/services/analysis 2026-01-07T22:37:02,259 copying lobster/services/analysis/__init__.py -> build/lib/lobster/services/analysis 2026-01-07T22:37:02,261 copying lobster/services/analysis/bulk_rnaseq_service.py -> build/lib/lobster/services/analysis 2026-01-07T22:37:02,264 copying lobster/services/analysis/differential_formula_service.py -> build/lib/lobster/services/analysis 2026-01-07T22:37:02,267 copying lobster/services/analysis/scvi_embedding_service.py -> build/lib/lobster/services/analysis 2026-01-07T22:37:02,269 copying lobster/services/analysis/clustering_service.py -> build/lib/lobster/services/analysis 2026-01-07T22:37:02,274 creating build/lib/lobster/services/execution 2026-01-07T22:37:02,275 copying lobster/services/execution/custom_code_execution_service.py -> build/lib/lobster/services/execution 2026-01-07T22:37:02,278 copying lobster/services/execution/__init__.py -> build/lib/lobster/services/execution 2026-01-07T22:37:02,280 copying lobster/services/execution/execution_context_builder.py -> build/lib/lobster/services/execution 2026-01-07T22:37:02,283 creating build/lib/lobster/services/data_access 2026-01-07T22:37:02,284 copying lobster/services/data_access/content_access_service.py -> build/lib/lobster/services/data_access 2026-01-07T22:37:02,288 copying lobster/services/data_access/protein_structure_fetch_service.py -> build/lib/lobster/services/data_access 2026-01-07T22:37:02,291 copying lobster/services/data_access/geo_service.py -> build/lib/lobster/services/data_access 2026-01-07T22:37:02,298 copying lobster/services/data_access/sra_download_service.py -> build/lib/lobster/services/data_access 2026-01-07T22:37:02,301 copying lobster/services/data_access/pride_download_service.py -> build/lib/lobster/services/data_access 2026-01-07T22:37:02,303 copying lobster/services/data_access/geo_fallback_service.py -> build/lib/lobster/services/data_access 2026-01-07T22:37:02,306 copying lobster/services/data_access/__init__.py -> build/lib/lobster/services/data_access 2026-01-07T22:37:02,308 copying lobster/services/data_access/docling_service.py -> build/lib/lobster/services/data_access 2026-01-07T22:37:02,311 copying lobster/services/data_access/workspace_content_service.py -> build/lib/lobster/services/data_access 2026-01-07T22:37:02,313 copying lobster/services/data_access/geo_download_service.py -> build/lib/lobster/services/data_access 2026-01-07T22:37:02,316 copying lobster/services/data_access/massive_download_service.py -> build/lib/lobster/services/data_access 2026-01-07T22:37:02,319 creating build/lib/lobster/services/metadata/protocol_extraction 2026-01-07T22:37:02,320 copying lobster/services/metadata/protocol_extraction/base.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-07T22:37:02,322 copying lobster/services/metadata/protocol_extraction/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-07T22:37:02,325 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T22:37:02,326 copying lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T22:37:02,329 copying lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T22:37:02,330 copying lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T22:37:02,333 creating build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T22:37:02,334 copying lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T22:37:02,336 copying lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T22:37:02,338 copying lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T22:37:02,340 creating build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T22:37:02,341 copying lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T22:37:02,343 copying lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T22:37:02,345 copying lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T22:37:02,348 creating build/lib/lobster/services/data_access/geo 2026-01-07T22:37:02,349 copying lobster/services/data_access/geo/strategy.py -> build/lib/lobster/services/data_access/geo 2026-01-07T22:37:02,351 copying lobster/services/data_access/geo/__init__.py -> build/lib/lobster/services/data_access/geo 2026-01-07T22:37:02,353 copying lobster/services/data_access/geo/facade.py -> build/lib/lobster/services/data_access/geo 2026-01-07T22:37:02,355 copying lobster/services/data_access/geo/downloader.py -> build/lib/lobster/services/data_access/geo 2026-01-07T22:37:02,357 copying lobster/services/data_access/geo/constants.py -> build/lib/lobster/services/data_access/geo 2026-01-07T22:37:02,359 copying lobster/services/data_access/geo/parser.py -> build/lib/lobster/services/data_access/geo 2026-01-07T22:37:02,363 creating build/lib/lobster/services/data_access/geo/metadata 2026-01-07T22:37:02,364 copying lobster/services/data_access/geo/metadata/__init__.py -> build/lib/lobster/services/data_access/geo/metadata 2026-01-07T22:37:02,366 creating build/lib/lobster/services/data_access/geo/sample 2026-01-07T22:37:02,367 copying lobster/services/data_access/geo/sample/__init__.py -> build/lib/lobster/services/data_access/geo/sample 2026-01-07T22:37:02,370 creating build/lib/lobster/services/data_access/geo/utils 2026-01-07T22:37:02,371 copying lobster/services/data_access/geo/utils/__init__.py -> build/lib/lobster/services/data_access/geo/utils 2026-01-07T22:37:02,373 creating build/lib/lobster/services/data_access/geo/loaders 2026-01-07T22:37:02,374 copying lobster/services/data_access/geo/loaders/__init__.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-07T22:37:02,376 copying lobster/services/data_access/geo/loaders/tenx.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-07T22:37:02,379 creating build/lib/lobster/agents/archive 2026-01-07T22:37:02,380 copying lobster/agents/archive/research_agent_assistant.py -> build/lib/lobster/agents/archive 2026-01-07T22:37:02,383 creating build/lib/lobster/agents/proteomics 2026-01-07T22:37:02,384 copying lobster/agents/proteomics/__init__.py -> build/lib/lobster/agents/proteomics 2026-01-07T22:37:02,386 copying lobster/agents/proteomics/state.py -> build/lib/lobster/agents/proteomics 2026-01-07T22:37:02,388 creating build/lib/lobster/agents/transcriptomics 2026-01-07T22:37:02,389 copying lobster/agents/transcriptomics/shared_tools.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T22:37:02,392 copying lobster/agents/transcriptomics/__init__.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T22:37:02,394 copying lobster/agents/transcriptomics/de_analysis_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T22:37:02,398 copying lobster/agents/transcriptomics/transcriptomics_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T22:37:02,401 copying lobster/agents/transcriptomics/annotation_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T22:37:02,404 copying lobster/agents/transcriptomics/state.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T22:37:02,407 creating build/lib/lobster/agents/langgraph_supervisor 2026-01-07T22:37:02,408 copying lobster/agents/langgraph_supervisor/agent_name.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-07T22:37:02,410 copying lobster/agents/langgraph_supervisor/__init__.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-07T22:37:02,412 copying lobster/agents/langgraph_supervisor/handoff.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-07T22:37:02,415 copying lobster/agents/langgraph_supervisor/supervisor.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-07T22:37:02,418 creating build/lib/lobster/cli_internal/utils 2026-01-07T22:37:02,419 copying lobster/cli_internal/utils/__init__.py -> build/lib/lobster/cli_internal/utils 2026-01-07T22:37:02,421 copying lobster/cli_internal/utils/path_resolution.py -> build/lib/lobster/cli_internal/utils 2026-01-07T22:37:02,423 creating build/lib/lobster/cli_internal/commands 2026-01-07T22:37:02,424 copying lobster/cli_internal/commands/__init__.py -> build/lib/lobster/cli_internal/commands 2026-01-07T22:37:02,426 copying lobster/cli_internal/commands/output_adapter.py -> build/lib/lobster/cli_internal/commands 2026-01-07T22:37:02,429 creating build/lib/lobster/cli_internal/commands/light 2026-01-07T22:37:02,430 copying lobster/cli_internal/commands/light/config_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T22:37:02,433 copying lobster/cli_internal/commands/light/__init__.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T22:37:02,434 copying lobster/cli_internal/commands/light/pipeline_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T22:37:02,437 copying lobster/cli_internal/commands/light/workspace_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T22:37:02,439 copying lobster/cli_internal/commands/light/file_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T22:37:02,442 copying lobster/cli_internal/commands/light/queue_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T22:37:02,445 copying lobster/cli_internal/commands/light/metadata_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T22:37:02,447 creating build/lib/lobster/cli_internal/commands/heavy 2026-01-07T22:37:02,448 copying lobster/cli_internal/commands/heavy/__init__.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-07T22:37:02,450 copying lobster/cli_internal/commands/heavy/visualization_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-07T22:37:02,452 copying lobster/cli_internal/commands/heavy/modality_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-07T22:37:02,455 copying lobster/cli_internal/commands/heavy/data_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-07T22:37:02,457 creating build/lib/lobster/ui/components 2026-01-07T22:37:02,458 copying lobster/ui/components/__init__.py -> build/lib/lobster/ui/components 2026-01-07T22:37:02,460 copying lobster/ui/components/multi_progress.py -> build/lib/lobster/ui/components 2026-01-07T22:37:02,463 copying lobster/ui/components/status_display.py -> build/lib/lobster/ui/components 2026-01-07T22:37:02,466 copying lobster/ui/components/file_tree.py -> build/lib/lobster/ui/components 2026-01-07T22:37:02,468 copying lobster/ui/components/parallel_workers_progress.py -> build/lib/lobster/ui/components 2026-01-07T22:37:02,471 creating build/lib/lobster/ui/callbacks 2026-01-07T22:37:02,472 copying lobster/ui/callbacks/textual_callback.py -> build/lib/lobster/ui/callbacks 2026-01-07T22:37:02,475 copying lobster/ui/callbacks/__init__.py -> build/lib/lobster/ui/callbacks 2026-01-07T22:37:02,477 creating build/lib/lobster/ui/screens 2026-01-07T22:37:02,478 copying lobster/ui/screens/__init__.py -> build/lib/lobster/ui/screens 2026-01-07T22:37:02,480 copying lobster/ui/screens/analysis_screen.py -> build/lib/lobster/ui/screens 2026-01-07T22:37:02,483 creating build/lib/lobster/ui/formatters 2026-01-07T22:37:02,484 copying lobster/ui/formatters/__init__.py -> build/lib/lobster/ui/formatters 2026-01-07T22:37:02,486 creating build/lib/lobster/ui/services 2026-01-07T22:37:02,487 copying lobster/ui/services/__init__.py -> build/lib/lobster/ui/services 2026-01-07T22:37:02,489 copying lobster/ui/services/error_service.py -> build/lib/lobster/ui/services 2026-01-07T22:37:02,492 creating build/lib/lobster/ui/widgets 2026-01-07T22:37:02,493 copying lobster/ui/widgets/connections_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,495 copying lobster/ui/widgets/error_modal.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,497 copying lobster/ui/widgets/adapters_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,499 copying lobster/ui/widgets/__init__.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,501 copying lobster/ui/widgets/data_hub.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,504 copying lobster/ui/widgets/queue_status_bar.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,506 copying lobster/ui/widgets/chat_message.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,508 copying lobster/ui/widgets/query_prompt.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,509 copying lobster/ui/widgets/token_usage_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,511 copying lobster/ui/widgets/activity_log.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,514 copying lobster/ui/widgets/system_info.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,516 copying lobster/ui/widgets/status_bar.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,518 copying lobster/ui/widgets/agents_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,520 copying lobster/ui/widgets/results_display.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,522 copying lobster/ui/widgets/queue_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,524 copying lobster/ui/widgets/modality_list.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,526 copying lobster/ui/widgets/plot_preview.py -> build/lib/lobster/ui/widgets 2026-01-07T22:37:02,528 creating build/lib/lobster/tools/archive 2026-01-07T22:37:02,529 copying lobster/tools/archive/unified_content_service.py -> build/lib/lobster/tools/archive 2026-01-07T22:37:02,532 copying lobster/tools/archive/publication_service.py -> build/lib/lobster/tools/archive 2026-01-07T22:37:02,535 creating build/lib/lobster/tools/providers 2026-01-07T22:37:02,536 copying lobster/tools/providers/structure_provider.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,539 copying lobster/tools/providers/base_provider.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,541 copying lobster/tools/providers/pmc_provider.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,545 copying lobster/tools/providers/webpage_provider.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,547 copying lobster/tools/providers/__init__.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,549 copying lobster/tools/providers/organism_enum.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,552 copying lobster/tools/providers/abstract_provider.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,554 copying lobster/tools/providers/massive_provider.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,557 copying lobster/tools/providers/provider_registry.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,559 copying lobster/tools/providers/pdb_provider.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,561 copying lobster/tools/providers/pride_provider.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,564 copying lobster/tools/providers/geo_provider.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,567 copying lobster/tools/providers/biorxiv_medrxiv_config.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,569 copying lobster/tools/providers/sra_provider.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,573 copying lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,576 copying lobster/tools/providers/ncbi_query_builder.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,578 copying lobster/tools/providers/publication_resolver.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,581 copying lobster/tools/providers/pubmed_provider.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,584 copying lobster/tools/providers/geo_utils.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,587 copying lobster/tools/providers/pride_normalizer.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,589 copying lobster/tools/providers/biopython_entrez_wrapper.py -> build/lib/lobster/tools/providers 2026-01-07T22:37:02,592 running egg_info 2026-01-07T22:37:02,603 writing lobster_ai.egg-info/PKG-INFO 2026-01-07T22:37:02,636 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-07T22:37:02,638 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-07T22:37:02,666 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-07T22:37:02,668 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-07T22:37:02,796 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-07T22:37:02,812 adding license file 'LICENSE' 2026-01-07T22:37:02,826 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-07T22:37:02,916 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-07T22:37:02,917 copying lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-07T22:37:02,955 installing to build/bdist.linux-armv7l/wheel 2026-01-07T22:37:02,956 running install 2026-01-07T22:37:02,981 running install_lib 2026-01-07T22:37:02,987 creating build/bdist.linux-armv7l/wheel 2026-01-07T22:37:02,989 creating build/bdist.linux-armv7l/wheel/lobster 2026-01-07T22:37:02,991 creating build/bdist.linux-armv7l/wheel/lobster/config 2026-01-07T22:37:02,992 copying build/lib/lobster/config/settings.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:02,995 copying build/lib/lobster/config/subscription_tiers.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:02,997 copying build/lib/lobster/config/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:02,999 copying build/lib/lobster/config/provider_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,001 copying build/lib/lobster/config/agent_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,004 copying build/lib/lobster/config/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,006 creating build/bdist.linux-armv7l/wheel/lobster/config/providers 2026-01-07T22:37:03,007 copying build/lib/lobster/config/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T22:37:03,009 copying build/lib/lobster/config/providers/gemini_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T22:37:03,011 copying build/lib/lobster/config/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T22:37:03,013 copying build/lib/lobster/config/providers/bedrock_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T22:37:03,016 copying build/lib/lobster/config/providers/anthropic_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T22:37:03,018 copying build/lib/lobster/config/providers/ollama_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T22:37:03,020 copying build/lib/lobster/config/providers/registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T22:37:03,023 copying build/lib/lobster/config/agent_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,025 copying build/lib/lobster/config/ollama_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,027 copying build/lib/lobster/config/config_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,030 copying build/lib/lobster/config/global_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,032 copying build/lib/lobster/config/workspace_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,034 copying build/lib/lobster/config/agent_capabilities.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,037 copying build/lib/lobster/config/supervisor_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,039 copying build/lib/lobster/config/model_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,041 copying build/lib/lobster/config/base_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,043 copying build/lib/lobster/config/llm_factory.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T22:37:03,045 copying build/lib/lobster/__main__.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T22:37:03,047 copying build/lib/lobster/main.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T22:37:03,049 creating build/bdist.linux-armv7l/wheel/lobster/utils 2026-01-07T22:37:03,050 copying build/lib/lobster/utils/ssl_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T22:37:03,053 copying build/lib/lobster/utils/file_naming.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T22:37:03,055 copying build/lib/lobster/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T22:37:03,057 copying build/lib/lobster/utils/error_handlers.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T22:37:03,060 copying build/lib/lobster/utils/progress_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T22:37:03,062 copying build/lib/lobster/utils/deviance.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T22:37:03,064 copying build/lib/lobster/utils/system.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T22:37:03,066 copying build/lib/lobster/utils/logger.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T22:37:03,068 copying build/lib/lobster/utils/json_extractor.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T22:37:03,070 copying build/lib/lobster/utils/callbacks.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T22:37:03,074 copying build/lib/lobster/utils/file_analyzer.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T22:37:03,076 copying build/lib/lobster/_version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T22:37:03,079 creating build/bdist.linux-armv7l/wheel/lobster/core 2026-01-07T22:37:03,080 copying build/lib/lobster/core/component_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,083 copying build/lib/lobster/core/exceptions.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,086 creating build/bdist.linux-armv7l/wheel/lobster/core/interfaces 2026-01-07T22:37:03,087 copying build/lib/lobster/core/interfaces/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T22:37:03,089 copying build/lib/lobster/core/interfaces/adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T22:37:03,091 copying build/lib/lobster/core/interfaces/download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T22:37:03,094 copying build/lib/lobster/core/interfaces/backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T22:37:03,096 copying build/lib/lobster/core/interfaces/base_client.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T22:37:03,098 copying build/lib/lobster/core/interfaces/validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T22:37:03,101 copying build/lib/lobster/core/notebook_exporter.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,103 copying build/lib/lobster/core/data_manager_v2.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,108 copying build/lib/lobster/core/ris_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,110 copying build/lib/lobster/core/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,112 copying build/lib/lobster/core/provenance.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,115 copying build/lib/lobster/core/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,117 copying build/lib/lobster/core/workspace.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,120 creating build/bdist.linux-armv7l/wheel/lobster/core/adapters 2026-01-07T22:37:03,121 copying build/lib/lobster/core/adapters/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T22:37:03,124 copying build/lib/lobster/core/adapters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T22:37:03,125 copying build/lib/lobster/core/adapters/transcriptomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T22:37:03,128 copying build/lib/lobster/core/adapters/proteomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T22:37:03,131 copying build/lib/lobster/core/adapters/protein_structure_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T22:37:03,133 copying build/lib/lobster/core/adapters/pseudobulk_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T22:37:03,137 creating build/bdist.linux-armv7l/wheel/lobster/core/utils 2026-01-07T22:37:03,138 copying build/lib/lobster/core/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-07T22:37:03,140 copying build/lib/lobster/core/utils/h5ad_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-07T22:37:03,142 copying build/lib/lobster/core/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,145 copying build/lib/lobster/core/config_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,148 creating build/bdist.linux-armv7l/wheel/lobster/core/backends 2026-01-07T22:37:03,149 copying build/lib/lobster/core/backends/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-07T22:37:03,152 copying build/lib/lobster/core/backends/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-07T22:37:03,153 copying build/lib/lobster/core/backends/mudata_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-07T22:37:03,156 copying build/lib/lobster/core/backends/h5ad_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-07T22:37:03,159 copying build/lib/lobster/core/notebook_executor.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,162 copying build/lib/lobster/core/plugin_loader.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,164 copying build/lib/lobster/core/client.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,169 creating build/bdist.linux-armv7l/wheel/lobster/core/identifiers 2026-01-07T22:37:03,170 copying build/lib/lobster/core/identifiers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-07T22:37:03,172 copying build/lib/lobster/core/identifiers/accession_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-07T22:37:03,175 copying build/lib/lobster/core/archive_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,178 copying build/lib/lobster/core/plot_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,182 creating build/bdist.linux-armv7l/wheel/lobster/core/schemas 2026-01-07T22:37:03,183 copying build/lib/lobster/core/schemas/database_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,185 copying build/lib/lobster/core/schemas/sra.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,188 copying build/lib/lobster/core/schemas/export_schemas.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,191 copying build/lib/lobster/core/schemas/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,193 copying build/lib/lobster/core/schemas/database_mappings.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,196 copying build/lib/lobster/core/schemas/protein_structure.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,198 copying build/lib/lobster/core/schemas/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,201 copying build/lib/lobster/core/schemas/transcriptomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,204 copying build/lib/lobster/core/schemas/proteomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,207 copying build/lib/lobster/core/schemas/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,210 copying build/lib/lobster/core/schemas/validation.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,212 copying build/lib/lobster/core/schemas/metagenomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,216 copying build/lib/lobster/core/schemas/metabolomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,219 copying build/lib/lobster/core/schemas/download_urls.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T22:37:03,221 copying build/lib/lobster/core/license_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,224 copying build/lib/lobster/core/queue_storage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,226 copying build/lib/lobster/core/notebook_validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,229 copying build/lib/lobster/core/ir_coverage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,231 copying build/lib/lobster/core/analysis_ir.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T22:37:03,235 creating build/bdist.linux-armv7l/wheel/lobster/lobster_cloud 2026-01-07T22:37:03,236 copying build/lib/lobster/lobster_cloud/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-07T22:37:03,238 copying build/lib/lobster/lobster_cloud/client.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-07T22:37:03,240 copying build/lib/lobster/version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T22:37:03,245 copying build/lib/lobster/cli.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T22:37:03,253 creating build/bdist.linux-armv7l/wheel/lobster/services 2026-01-07T22:37:03,255 creating build/bdist.linux-armv7l/wheel/lobster/services/templates 2026-01-07T22:37:03,256 copying build/lib/lobster/services/templates/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-07T22:37:03,258 copying build/lib/lobster/services/templates/annotation_templates.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-07T22:37:03,262 creating build/bdist.linux-armv7l/wheel/lobster/services/visualization 2026-01-07T22:37:03,263 copying build/lib/lobster/services/visualization/pymol_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-07T22:37:03,266 copying build/lib/lobster/services/visualization/visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-07T22:37:03,270 copying build/lib/lobster/services/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-07T22:37:03,272 copying build/lib/lobster/services/visualization/bulk_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-07T22:37:03,275 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata 2026-01-07T22:37:03,276 copying build/lib/lobster/services/metadata/identifier_provenance_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T22:37:03,278 copying build/lib/lobster/services/metadata/metadata_validation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T22:37:03,281 copying build/lib/lobster/services/metadata/metadata_standardization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T22:37:03,283 copying build/lib/lobster/services/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T22:37:03,285 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction 2026-01-07T22:37:03,286 copying build/lib/lobster/services/metadata/protocol_extraction/base.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-07T22:37:03,288 copying build/lib/lobster/services/metadata/protocol_extraction/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-07T22:37:03,291 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T22:37:03,292 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T22:37:03,295 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T22:37:03,297 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-07T22:37:03,298 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-07T22:37:03,301 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T22:37:03,303 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T22:37:03,304 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T22:37:03,306 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T22:37:03,308 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T22:37:03,310 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T22:37:03,311 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T22:37:03,313 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T22:37:03,315 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T22:37:03,317 copying build/lib/lobster/services/metadata/manual_annotation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T22:37:03,320 copying build/lib/lobster/services/metadata/sample_grouping_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T22:37:03,322 copying build/lib/lobster/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services 2026-01-07T22:37:03,324 creating build/bdist.linux-armv7l/wheel/lobster/services/quality 2026-01-07T22:37:03,325 copying build/lib/lobster/services/quality/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-07T22:37:03,326 copying build/lib/lobster/services/quality/preprocessing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-07T22:37:03,330 copying build/lib/lobster/services/quality/quality_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-07T22:37:03,333 creating build/bdist.linux-armv7l/wheel/lobster/services/ml 2026-01-07T22:37:03,334 copying build/lib/lobster/services/ml/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/ml 2026-01-07T22:37:03,336 creating build/bdist.linux-armv7l/wheel/lobster/services/data_management 2026-01-07T22:37:03,337 copying build/lib/lobster/services/data_management/concatenation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-07T22:37:03,340 copying build/lib/lobster/services/data_management/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-07T22:37:03,342 copying build/lib/lobster/services/data_management/modality_management_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-07T22:37:03,345 creating build/bdist.linux-armv7l/wheel/lobster/services/orchestration 2026-01-07T22:37:03,346 copying build/lib/lobster/services/orchestration/publication_processing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-07T22:37:03,349 copying build/lib/lobster/services/orchestration/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-07T22:37:03,351 creating build/bdist.linux-armv7l/wheel/lobster/services/analysis 2026-01-07T22:37:03,352 copying build/lib/lobster/services/analysis/structure_analysis_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T22:37:03,355 copying build/lib/lobster/services/analysis/pseudobulk_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T22:37:03,357 copying build/lib/lobster/services/analysis/enhanced_singlecell_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T22:37:03,360 copying build/lib/lobster/services/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T22:37:03,362 copying build/lib/lobster/services/analysis/bulk_rnaseq_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T22:37:03,365 copying build/lib/lobster/services/analysis/differential_formula_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T22:37:03,368 copying build/lib/lobster/services/analysis/scvi_embedding_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T22:37:03,370 copying build/lib/lobster/services/analysis/clustering_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T22:37:03,375 creating build/bdist.linux-armv7l/wheel/lobster/services/execution 2026-01-07T22:37:03,375 copying build/lib/lobster/services/execution/custom_code_execution_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-07T22:37:03,378 copying build/lib/lobster/services/execution/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-07T22:37:03,380 copying build/lib/lobster/services/execution/execution_context_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-07T22:37:03,383 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access 2026-01-07T22:37:03,384 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo 2026-01-07T22:37:03,386 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/metadata 2026-01-07T22:37:03,387 copying build/lib/lobster/services/data_access/geo/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/metadata 2026-01-07T22:37:03,389 copying build/lib/lobster/services/data_access/geo/strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T22:37:03,391 copying build/lib/lobster/services/data_access/geo/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T22:37:03,393 copying build/lib/lobster/services/data_access/geo/facade.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T22:37:03,395 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/sample 2026-01-07T22:37:03,396 copying build/lib/lobster/services/data_access/geo/sample/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/sample 2026-01-07T22:37:03,399 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/utils 2026-01-07T22:37:03,400 copying build/lib/lobster/services/data_access/geo/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/utils 2026-01-07T22:37:03,402 copying build/lib/lobster/services/data_access/geo/downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T22:37:03,405 copying build/lib/lobster/services/data_access/geo/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T22:37:03,407 copying build/lib/lobster/services/data_access/geo/parser.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T22:37:03,412 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/loaders 2026-01-07T22:37:03,413 copying build/lib/lobster/services/data_access/geo/loaders/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-07T22:37:03,415 copying build/lib/lobster/services/data_access/geo/loaders/tenx.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-07T22:37:03,418 copying build/lib/lobster/services/data_access/content_access_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T22:37:03,422 copying build/lib/lobster/services/data_access/protein_structure_fetch_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T22:37:03,425 copying build/lib/lobster/services/data_access/geo_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T22:37:03,433 copying build/lib/lobster/services/data_access/sra_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T22:37:03,436 copying build/lib/lobster/services/data_access/pride_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T22:37:03,439 copying build/lib/lobster/services/data_access/geo_fallback_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T22:37:03,442 copying build/lib/lobster/services/data_access/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T22:37:03,444 copying build/lib/lobster/services/data_access/docling_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T22:37:03,447 copying build/lib/lobster/services/data_access/workspace_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T22:37:03,450 copying build/lib/lobster/services/data_access/geo_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T22:37:03,453 copying build/lib/lobster/services/data_access/massive_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T22:37:03,456 creating build/bdist.linux-armv7l/wheel/lobster/agents 2026-01-07T22:37:03,458 creating build/bdist.linux-armv7l/wheel/lobster/agents/archive 2026-01-07T22:37:03,459 copying build/lib/lobster/agents/archive/research_agent_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/archive 2026-01-07T22:37:03,462 copying build/lib/lobster/agents/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T22:37:03,463 copying build/lib/lobster/agents/data_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T22:37:03,467 copying build/lib/lobster/agents/draw_graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T22:37:03,469 creating build/bdist.linux-armv7l/wheel/lobster/agents/proteomics 2026-01-07T22:37:03,470 copying build/lib/lobster/agents/proteomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-07T22:37:03,473 copying build/lib/lobster/agents/proteomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-07T22:37:03,475 creating build/bdist.linux-armv7l/wheel/lobster/agents/transcriptomics 2026-01-07T22:37:03,476 copying build/lib/lobster/agents/transcriptomics/shared_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T22:37:03,479 copying build/lib/lobster/agents/transcriptomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T22:37:03,481 copying build/lib/lobster/agents/transcriptomics/de_analysis_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T22:37:03,485 copying build/lib/lobster/agents/transcriptomics/transcriptomics_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T22:37:03,488 copying build/lib/lobster/agents/transcriptomics/annotation_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T22:37:03,491 copying build/lib/lobster/agents/transcriptomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T22:37:03,493 copying build/lib/lobster/agents/visualization_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T22:37:03,496 copying build/lib/lobster/agents/data_expert_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T22:37:03,499 copying build/lib/lobster/agents/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T22:37:03,502 copying build/lib/lobster/agents/graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T22:37:03,505 copying build/lib/lobster/agents/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T22:37:03,508 creating build/bdist.linux-armv7l/wheel/lobster/agents/langgraph_supervisor 2026-01-07T22:37:03,509 copying build/lib/lobster/agents/langgraph_supervisor/agent_name.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-07T22:37:03,511 copying build/lib/lobster/agents/langgraph_supervisor/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-07T22:37:03,513 copying build/lib/lobster/agents/langgraph_supervisor/handoff.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-07T22:37:03,515 copying build/lib/lobster/agents/langgraph_supervisor/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-07T22:37:03,518 copying build/lib/lobster/agents/research_agent.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T22:37:03,523 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal 2026-01-07T22:37:03,524 copying build/lib/lobster/cli_internal/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal 2026-01-07T22:37:03,526 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/utils 2026-01-07T22:37:03,528 copying build/lib/lobster/cli_internal/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-07T22:37:03,530 copying build/lib/lobster/cli_internal/utils/path_resolution.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-07T22:37:03,533 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands 2026-01-07T22:37:03,534 copying build/lib/lobster/cli_internal/commands/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-07T22:37:03,537 copying build/lib/lobster/cli_internal/commands/output_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-07T22:37:03,540 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/light 2026-01-07T22:37:03,541 copying build/lib/lobster/cli_internal/commands/light/config_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T22:37:03,543 copying build/lib/lobster/cli_internal/commands/light/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T22:37:03,545 copying build/lib/lobster/cli_internal/commands/light/pipeline_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T22:37:03,548 copying build/lib/lobster/cli_internal/commands/light/workspace_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T22:37:03,551 copying build/lib/lobster/cli_internal/commands/light/file_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T22:37:03,553 copying build/lib/lobster/cli_internal/commands/light/queue_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T22:37:03,556 copying build/lib/lobster/cli_internal/commands/light/metadata_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T22:37:03,559 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/heavy 2026-01-07T22:37:03,560 copying build/lib/lobster/cli_internal/commands/heavy/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-07T22:37:03,562 copying build/lib/lobster/cli_internal/commands/heavy/visualization_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-07T22:37:03,564 copying build/lib/lobster/cli_internal/commands/heavy/modality_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-07T22:37:03,567 copying build/lib/lobster/cli_internal/commands/heavy/data_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-07T22:37:03,570 creating build/bdist.linux-armv7l/wheel/lobster/ui 2026-01-07T22:37:03,571 copying build/lib/lobster/ui/commands.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T22:37:03,574 creating build/bdist.linux-armv7l/wheel/lobster/ui/components 2026-01-07T22:37:03,575 copying build/lib/lobster/ui/components/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T22:37:03,577 copying build/lib/lobster/ui/components/multi_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T22:37:03,580 copying build/lib/lobster/ui/components/status_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T22:37:03,583 copying build/lib/lobster/ui/components/file_tree.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T22:37:03,585 copying build/lib/lobster/ui/components/parallel_workers_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T22:37:03,588 copying build/lib/lobster/ui/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T22:37:03,590 copying build/lib/lobster/ui/live_dashboard.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T22:37:03,592 copying build/lib/lobster/ui/progress_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T22:37:03,595 creating build/bdist.linux-armv7l/wheel/lobster/ui/callbacks 2026-01-07T22:37:03,596 copying build/lib/lobster/ui/callbacks/textual_callback.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-07T22:37:03,599 copying build/lib/lobster/ui/callbacks/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-07T22:37:03,601 creating build/bdist.linux-armv7l/wheel/lobster/ui/screens 2026-01-07T22:37:03,602 copying build/lib/lobster/ui/screens/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-07T22:37:03,604 copying build/lib/lobster/ui/screens/analysis_screen.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-07T22:37:03,607 creating build/bdist.linux-armv7l/wheel/lobster/ui/formatters 2026-01-07T22:37:03,608 copying build/lib/lobster/ui/formatters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/formatters 2026-01-07T22:37:03,610 creating build/bdist.linux-armv7l/wheel/lobster/ui/services 2026-01-07T22:37:03,611 copying build/lib/lobster/ui/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-07T22:37:03,613 copying build/lib/lobster/ui/services/error_service.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-07T22:37:03,615 copying build/lib/lobster/ui/os_app.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T22:37:03,618 copying build/lib/lobster/ui/console_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T22:37:03,620 copying build/lib/lobster/ui/themes.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T22:37:03,624 creating build/bdist.linux-armv7l/wheel/lobster/ui/widgets 2026-01-07T22:37:03,625 copying build/lib/lobster/ui/widgets/connections_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,627 copying build/lib/lobster/ui/widgets/error_modal.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,629 copying build/lib/lobster/ui/widgets/adapters_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,631 copying build/lib/lobster/ui/widgets/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,633 copying build/lib/lobster/ui/widgets/data_hub.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,636 copying build/lib/lobster/ui/widgets/queue_status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,638 copying build/lib/lobster/ui/widgets/chat_message.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,640 copying build/lib/lobster/ui/widgets/query_prompt.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,642 copying build/lib/lobster/ui/widgets/token_usage_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,644 copying build/lib/lobster/ui/widgets/activity_log.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,647 copying build/lib/lobster/ui/widgets/system_info.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,649 copying build/lib/lobster/ui/widgets/status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,652 copying build/lib/lobster/ui/widgets/agents_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,654 copying build/lib/lobster/ui/widgets/results_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,656 copying build/lib/lobster/ui/widgets/queue_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,658 copying build/lib/lobster/ui/widgets/modality_list.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,660 copying build/lib/lobster/ui/widgets/plot_preview.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T22:37:03,663 creating build/bdist.linux-armv7l/wheel/lobster/tools 2026-01-07T22:37:03,665 creating build/bdist.linux-armv7l/wheel/lobster/tools/archive 2026-01-07T22:37:03,666 copying build/lib/lobster/tools/archive/unified_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-07T22:37:03,669 copying build/lib/lobster/tools/archive/publication_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-07T22:37:03,672 copying build/lib/lobster/tools/geo_downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,673 copying build/lib/lobster/tools/enhanced_handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,676 copying build/lib/lobster/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,678 copying build/lib/lobster/tools/workspace_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,682 copying build/lib/lobster/tools/pipeline_strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,683 copying build/lib/lobster/tools/handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,685 copying build/lib/lobster/tools/download_orchestrator.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,688 copying build/lib/lobster/tools/geo_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,690 creating build/bdist.linux-armv7l/wheel/lobster/tools/providers 2026-01-07T22:37:03,691 copying build/lib/lobster/tools/providers/structure_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,693 copying build/lib/lobster/tools/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,696 copying build/lib/lobster/tools/providers/pmc_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,699 copying build/lib/lobster/tools/providers/webpage_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,702 copying build/lib/lobster/tools/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,704 copying build/lib/lobster/tools/providers/organism_enum.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,706 copying build/lib/lobster/tools/providers/abstract_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,709 copying build/lib/lobster/tools/providers/massive_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,711 copying build/lib/lobster/tools/providers/provider_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,713 copying build/lib/lobster/tools/providers/pdb_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,716 copying build/lib/lobster/tools/providers/pride_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,719 copying build/lib/lobster/tools/providers/geo_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,722 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_config.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,724 copying build/lib/lobster/tools/providers/sra_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,727 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,730 copying build/lib/lobster/tools/providers/ncbi_query_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,733 copying build/lib/lobster/tools/providers/publication_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,736 copying build/lib/lobster/tools/providers/pubmed_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,741 copying build/lib/lobster/tools/providers/geo_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,743 copying build/lib/lobster/tools/providers/pride_normalizer.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,746 copying build/lib/lobster/tools/providers/biopython_entrez_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T22:37:03,748 copying build/lib/lobster/tools/gpu_detector.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,750 copying build/lib/lobster/tools/rate_limiter.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,753 copying build/lib/lobster/tools/todo_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,756 copying build/lib/lobster/tools/url_transforms.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,757 copying build/lib/lobster/tools/expert_handoff_patterns.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,760 copying build/lib/lobster/tools/expert_handoff_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,762 copying build/lib/lobster/tools/workflow_tracker.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,765 copying build/lib/lobster/tools/custom_code_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T22:37:03,767 running install_egg_info 2026-01-07T22:37:03,773 Copying lobster_ai.egg-info to build/bdist.linux-armv7l/wheel/./lobster_ai-0.4.1.7-py3.11.egg-info 2026-01-07T22:37:03,787 running install_scripts 2026-01-07T22:37:03,800 creating build/bdist.linux-armv7l/wheel/lobster_ai-0.4.1.7.dist-info/WHEEL 2026-01-07T22:37:03,803 creating '/tmp/pip-wheel-xkm7462g/.tmp-22wl6y83/lobster_ai-0.4.1.7-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-01-07T22:37:03,805 adding 'lobster/__main__.py' 2026-01-07T22:37:03,807 adding 'lobster/_version.py' 2026-01-07T22:37:03,833 adding 'lobster/cli.py' 2026-01-07T22:37:03,836 adding 'lobster/main.py' 2026-01-07T22:37:03,838 adding 'lobster/version.py' 2026-01-07T22:37:03,839 adding 'lobster/agents/__init__.py' 2026-01-07T22:37:03,846 adding 'lobster/agents/data_expert.py' 2026-01-07T22:37:03,851 adding 'lobster/agents/data_expert_assistant.py' 2026-01-07T22:37:03,852 adding 'lobster/agents/draw_graph.py' 2026-01-07T22:37:03,855 adding 'lobster/agents/graph.py' 2026-01-07T22:37:03,869 adding 'lobster/agents/research_agent.py' 2026-01-07T22:37:03,872 adding 'lobster/agents/state.py' 2026-01-07T22:37:03,876 adding 'lobster/agents/supervisor.py' 2026-01-07T22:37:03,879 adding 'lobster/agents/visualization_expert.py' 2026-01-07T22:37:03,882 adding 'lobster/agents/archive/research_agent_assistant.py' 2026-01-07T22:37:03,884 adding 'lobster/agents/langgraph_supervisor/__init__.py' 2026-01-07T22:37:03,886 adding 'lobster/agents/langgraph_supervisor/agent_name.py' 2026-01-07T22:37:03,887 adding 'lobster/agents/langgraph_supervisor/handoff.py' 2026-01-07T22:37:03,890 adding 'lobster/agents/langgraph_supervisor/supervisor.py' 2026-01-07T22:37:03,892 adding 'lobster/agents/proteomics/__init__.py' 2026-01-07T22:37:03,893 adding 'lobster/agents/proteomics/state.py' 2026-01-07T22:37:03,895 adding 'lobster/agents/transcriptomics/__init__.py' 2026-01-07T22:37:03,900 adding 'lobster/agents/transcriptomics/annotation_expert.py' 2026-01-07T22:37:03,908 adding 'lobster/agents/transcriptomics/de_analysis_expert.py' 2026-01-07T22:37:03,912 adding 'lobster/agents/transcriptomics/shared_tools.py' 2026-01-07T22:37:03,914 adding 'lobster/agents/transcriptomics/state.py' 2026-01-07T22:37:03,919 adding 'lobster/agents/transcriptomics/transcriptomics_expert.py' 2026-01-07T22:37:03,921 adding 'lobster/cli_internal/__init__.py' 2026-01-07T22:37:03,923 adding 'lobster/cli_internal/commands/__init__.py' 2026-01-07T22:37:03,925 adding 'lobster/cli_internal/commands/output_adapter.py' 2026-01-07T22:37:03,926 adding 'lobster/cli_internal/commands/heavy/__init__.py' 2026-01-07T22:37:03,928 adding 'lobster/cli_internal/commands/heavy/data_commands.py' 2026-01-07T22:37:03,931 adding 'lobster/cli_internal/commands/heavy/modality_commands.py' 2026-01-07T22:37:03,933 adding 'lobster/cli_internal/commands/heavy/visualization_commands.py' 2026-01-07T22:37:03,935 adding 'lobster/cli_internal/commands/light/__init__.py' 2026-01-07T22:37:03,937 adding 'lobster/cli_internal/commands/light/config_commands.py' 2026-01-07T22:37:03,941 adding 'lobster/cli_internal/commands/light/file_commands.py' 2026-01-07T22:37:03,942 adding 'lobster/cli_internal/commands/light/metadata_commands.py' 2026-01-07T22:37:03,944 adding 'lobster/cli_internal/commands/light/pipeline_commands.py' 2026-01-07T22:37:03,947 adding 'lobster/cli_internal/commands/light/queue_commands.py' 2026-01-07T22:37:03,950 adding 'lobster/cli_internal/commands/light/workspace_commands.py' 2026-01-07T22:37:03,952 adding 'lobster/cli_internal/utils/__init__.py' 2026-01-07T22:37:03,954 adding 'lobster/cli_internal/utils/path_resolution.py' 2026-01-07T22:37:03,956 adding 'lobster/config/__init__.py' 2026-01-07T22:37:03,958 adding 'lobster/config/agent_capabilities.py' 2026-01-07T22:37:03,961 adding 'lobster/config/agent_config.py' 2026-01-07T22:37:03,963 adding 'lobster/config/agent_registry.py' 2026-01-07T22:37:03,964 adding 'lobster/config/base_config.py' 2026-01-07T22:37:03,966 adding 'lobster/config/config_manager.py' 2026-01-07T22:37:03,967 adding 'lobster/config/constants.py' 2026-01-07T22:37:03,969 adding 'lobster/config/global_config.py' 2026-01-07T22:37:03,970 adding 'lobster/config/llm_factory.py' 2026-01-07T22:37:03,972 adding 'lobster/config/model_service.py' 2026-01-07T22:37:03,974 adding 'lobster/config/ollama_service.py' 2026-01-07T22:37:03,976 adding 'lobster/config/provider_setup.py' 2026-01-07T22:37:03,978 adding 'lobster/config/settings.py' 2026-01-07T22:37:03,979 adding 'lobster/config/subscription_tiers.py' 2026-01-07T22:37:03,981 adding 'lobster/config/supervisor_config.py' 2026-01-07T22:37:03,983 adding 'lobster/config/workspace_config.py' 2026-01-07T22:37:03,985 adding 'lobster/config/providers/__init__.py' 2026-01-07T22:37:03,986 adding 'lobster/config/providers/anthropic_provider.py' 2026-01-07T22:37:03,988 adding 'lobster/config/providers/base_provider.py' 2026-01-07T22:37:03,990 adding 'lobster/config/providers/bedrock_provider.py' 2026-01-07T22:37:03,992 adding 'lobster/config/providers/gemini_provider.py' 2026-01-07T22:37:03,994 adding 'lobster/config/providers/ollama_provider.py' 2026-01-07T22:37:03,996 adding 'lobster/config/providers/registry.py' 2026-01-07T22:37:03,998 adding 'lobster/core/__init__.py' 2026-01-07T22:37:04,001 adding 'lobster/core/analysis_ir.py' 2026-01-07T22:37:04,004 adding 'lobster/core/archive_utils.py' 2026-01-07T22:37:04,013 adding 'lobster/core/client.py' 2026-01-07T22:37:04,016 adding 'lobster/core/component_registry.py' 2026-01-07T22:37:04,018 adding 'lobster/core/config_resolver.py' 2026-01-07T22:37:04,032 adding 'lobster/core/data_manager_v2.py' 2026-01-07T22:37:04,034 adding 'lobster/core/download_queue.py' 2026-01-07T22:37:04,036 adding 'lobster/core/exceptions.py' 2026-01-07T22:37:04,039 adding 'lobster/core/ir_coverage.py' 2026-01-07T22:37:04,042 adding 'lobster/core/license_manager.py' 2026-01-07T22:37:04,044 adding 'lobster/core/notebook_executor.py' 2026-01-07T22:37:04,048 adding 'lobster/core/notebook_exporter.py' 2026-01-07T22:37:04,050 adding 'lobster/core/notebook_validator.py' 2026-01-07T22:37:04,053 adding 'lobster/core/plot_manager.py' 2026-01-07T22:37:04,055 adding 'lobster/core/plugin_loader.py' 2026-01-07T22:37:04,058 adding 'lobster/core/provenance.py' 2026-01-07T22:37:04,060 adding 'lobster/core/publication_queue.py' 2026-01-07T22:37:04,062 adding 'lobster/core/queue_storage.py' 2026-01-07T22:37:04,064 adding 'lobster/core/ris_parser.py' 2026-01-07T22:37:04,066 adding 'lobster/core/workspace.py' 2026-01-07T22:37:04,068 adding 'lobster/core/adapters/__init__.py' 2026-01-07T22:37:04,071 adding 'lobster/core/adapters/base.py' 2026-01-07T22:37:04,073 adding 'lobster/core/adapters/protein_structure_adapter.py' 2026-01-07T22:37:04,076 adding 'lobster/core/adapters/proteomics_adapter.py' 2026-01-07T22:37:04,079 adding 'lobster/core/adapters/pseudobulk_adapter.py' 2026-01-07T22:37:04,083 adding 'lobster/core/adapters/transcriptomics_adapter.py' 2026-01-07T22:37:04,085 adding 'lobster/core/backends/__init__.py' 2026-01-07T22:37:04,087 adding 'lobster/core/backends/base.py' 2026-01-07T22:37:04,091 adding 'lobster/core/backends/h5ad_backend.py' 2026-01-07T22:37:04,093 adding 'lobster/core/backends/mudata_backend.py' 2026-01-07T22:37:04,095 adding 'lobster/core/identifiers/__init__.py' 2026-01-07T22:37:04,097 adding 'lobster/core/identifiers/accession_resolver.py' 2026-01-07T22:37:04,099 adding 'lobster/core/interfaces/__init__.py' 2026-01-07T22:37:04,101 adding 'lobster/core/interfaces/adapter.py' 2026-01-07T22:37:04,102 adding 'lobster/core/interfaces/backend.py' 2026-01-07T22:37:04,104 adding 'lobster/core/interfaces/base_client.py' 2026-01-07T22:37:04,107 adding 'lobster/core/interfaces/download_service.py' 2026-01-07T22:37:04,109 adding 'lobster/core/interfaces/validator.py' 2026-01-07T22:37:04,110 adding 'lobster/core/schemas/__init__.py' 2026-01-07T22:37:04,113 adding 'lobster/core/schemas/database_mappings.py' 2026-01-07T22:37:04,115 adding 'lobster/core/schemas/database_registry.py' 2026-01-07T22:37:04,117 adding 'lobster/core/schemas/download_queue.py' 2026-01-07T22:37:04,119 adding 'lobster/core/schemas/download_urls.py' 2026-01-07T22:37:04,125 adding 'lobster/core/schemas/export_schemas.py' 2026-01-07T22:37:04,130 adding 'lobster/core/schemas/metabolomics.py' 2026-01-07T22:37:04,135 adding 'lobster/core/schemas/metagenomics.py' 2026-01-07T22:37:04,138 adding 'lobster/core/schemas/protein_structure.py' 2026-01-07T22:37:04,141 adding 'lobster/core/schemas/proteomics.py' 2026-01-07T22:37:04,144 adding 'lobster/core/schemas/publication_queue.py' 2026-01-07T22:37:04,148 adding 'lobster/core/schemas/sra.py' 2026-01-07T22:37:04,155 adding 'lobster/core/schemas/transcriptomics.py' 2026-01-07T22:37:04,158 adding 'lobster/core/schemas/validation.py' 2026-01-07T22:37:04,159 adding 'lobster/core/utils/__init__.py' 2026-01-07T22:37:04,162 adding 'lobster/core/utils/h5ad_utils.py' 2026-01-07T22:37:04,164 adding 'lobster/lobster_cloud/__init__.py' 2026-01-07T22:37:04,166 adding 'lobster/lobster_cloud/client.py' 2026-01-07T22:37:04,168 adding 'lobster/services/__init__.py' 2026-01-07T22:37:04,170 adding 'lobster/services/analysis/__init__.py' 2026-01-07T22:37:04,179 adding 'lobster/services/analysis/bulk_rnaseq_service.py' 2026-01-07T22:37:04,188 adding 'lobster/services/analysis/clustering_service.py' 2026-01-07T22:37:04,192 adding 'lobster/services/analysis/differential_formula_service.py' 2026-01-07T22:37:04,198 adding 'lobster/services/analysis/enhanced_singlecell_service.py' 2026-01-07T22:37:04,202 adding 'lobster/services/analysis/pseudobulk_service.py' 2026-01-07T22:37:04,204 adding 'lobster/services/analysis/scvi_embedding_service.py' 2026-01-07T22:37:04,207 adding 'lobster/services/analysis/structure_analysis_service.py' 2026-01-07T22:37:04,209 adding 'lobster/services/data_access/__init__.py' 2026-01-07T22:37:04,217 adding 'lobster/services/data_access/content_access_service.py' 2026-01-07T22:37:04,223 adding 'lobster/services/data_access/docling_service.py' 2026-01-07T22:37:04,226 adding 'lobster/services/data_access/geo_download_service.py' 2026-01-07T22:37:04,229 adding 'lobster/services/data_access/geo_fallback_service.py' 2026-01-07T22:37:04,253 adding 'lobster/services/data_access/geo_service.py' 2026-01-07T22:37:04,257 adding 'lobster/services/data_access/massive_download_service.py' 2026-01-07T22:37:04,260 adding 'lobster/services/data_access/pride_download_service.py' 2026-01-07T22:37:04,262 adding 'lobster/services/data_access/protein_structure_fetch_service.py' 2026-01-07T22:37:04,267 adding 'lobster/services/data_access/sra_download_service.py' 2026-01-07T22:37:04,272 adding 'lobster/services/data_access/workspace_content_service.py' 2026-01-07T22:37:04,274 adding 'lobster/services/data_access/geo/__init__.py' 2026-01-07T22:37:04,276 adding 'lobster/services/data_access/geo/constants.py' 2026-01-07T22:37:04,279 adding 'lobster/services/data_access/geo/downloader.py' 2026-01-07T22:37:04,281 adding 'lobster/services/data_access/geo/facade.py' 2026-01-07T22:37:04,288 adding 'lobster/services/data_access/geo/parser.py' 2026-01-07T22:37:04,291 adding 'lobster/services/data_access/geo/strategy.py' 2026-01-07T22:37:04,292 adding 'lobster/services/data_access/geo/loaders/__init__.py' 2026-01-07T22:37:04,295 adding 'lobster/services/data_access/geo/loaders/tenx.py' 2026-01-07T22:37:04,296 adding 'lobster/services/data_access/geo/metadata/__init__.py' 2026-01-07T22:37:04,298 adding 'lobster/services/data_access/geo/sample/__init__.py' 2026-01-07T22:37:04,300 adding 'lobster/services/data_access/geo/utils/__init__.py' 2026-01-07T22:37:04,301 adding 'lobster/services/data_management/__init__.py' 2026-01-07T22:37:04,306 adding 'lobster/services/data_management/concatenation_service.py' 2026-01-07T22:37:04,309 adding 'lobster/services/data_management/modality_management_service.py' 2026-01-07T22:37:04,311 adding 'lobster/services/execution/__init__.py' 2026-01-07T22:37:04,315 adding 'lobster/services/execution/custom_code_execution_service.py' 2026-01-07T22:37:04,317 adding 'lobster/services/execution/execution_context_builder.py' 2026-01-07T22:37:04,318 adding 'lobster/services/metadata/__init__.py' 2026-01-07T22:37:04,320 adding 'lobster/services/metadata/identifier_provenance_service.py' 2026-01-07T22:37:04,324 adding 'lobster/services/metadata/manual_annotation_service.py' 2026-01-07T22:37:04,327 adding 'lobster/services/metadata/metadata_standardization_service.py' 2026-01-07T22:37:04,330 adding 'lobster/services/metadata/metadata_validation_service.py' 2026-01-07T22:37:04,332 adding 'lobster/services/metadata/sample_grouping_service.py' 2026-01-07T22:37:04,335 adding 'lobster/services/metadata/protocol_extraction/__init__.py' 2026-01-07T22:37:04,336 adding 'lobster/services/metadata/protocol_extraction/base.py' 2026-01-07T22:37:04,338 adding 'lobster/services/metadata/protocol_extraction/amplicon/__init__.py' 2026-01-07T22:37:04,340 adding 'lobster/services/metadata/protocol_extraction/amplicon/details.py' 2026-01-07T22:37:04,343 adding 'lobster/services/metadata/protocol_extraction/amplicon/service.py' 2026-01-07T22:37:04,345 adding 'lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json' 2026-01-07T22:37:04,346 adding 'lobster/services/metadata/protocol_extraction/mass_spec/__init__.py' 2026-01-07T22:37:04,348 adding 'lobster/services/metadata/protocol_extraction/mass_spec/details.py' 2026-01-07T22:37:04,349 adding 'lobster/services/metadata/protocol_extraction/mass_spec/service.py' 2026-01-07T22:37:04,351 adding 'lobster/services/metadata/protocol_extraction/rnaseq/__init__.py' 2026-01-07T22:37:04,352 adding 'lobster/services/metadata/protocol_extraction/rnaseq/details.py' 2026-01-07T22:37:04,354 adding 'lobster/services/metadata/protocol_extraction/rnaseq/service.py' 2026-01-07T22:37:04,356 adding 'lobster/services/ml/__init__.py' 2026-01-07T22:37:04,358 adding 'lobster/services/orchestration/__init__.py' 2026-01-07T22:37:04,366 adding 'lobster/services/orchestration/publication_processing_service.py' 2026-01-07T22:37:04,368 adding 'lobster/services/quality/__init__.py' 2026-01-07T22:37:04,373 adding 'lobster/services/quality/preprocessing_service.py' 2026-01-07T22:37:04,377 adding 'lobster/services/quality/quality_service.py' 2026-01-07T22:37:04,379 adding 'lobster/services/templates/__init__.py' 2026-01-07T22:37:04,383 adding 'lobster/services/templates/annotation_templates.py' 2026-01-07T22:37:04,385 adding 'lobster/services/visualization/__init__.py' 2026-01-07T22:37:04,388 adding 'lobster/services/visualization/bulk_visualization_service.py' 2026-01-07T22:37:04,392 adding 'lobster/services/visualization/pymol_visualization_service.py' 2026-01-07T22:37:04,399 adding 'lobster/services/visualization/visualization_service.py' 2026-01-07T22:37:04,401 adding 'lobster/tools/__init__.py' 2026-01-07T22:37:04,404 adding 'lobster/tools/custom_code_tool.py' 2026-01-07T22:37:04,406 adding 'lobster/tools/download_orchestrator.py' 2026-01-07T22:37:04,408 adding 'lobster/tools/enhanced_handoff_tool.py' 2026-01-07T22:37:04,411 adding 'lobster/tools/expert_handoff_manager.py' 2026-01-07T22:37:04,413 adding 'lobster/tools/expert_handoff_patterns.py' 2026-01-07T22:37:04,414 adding 'lobster/tools/geo_downloader.py' 2026-01-07T22:37:04,415 adding 'lobster/tools/geo_parser.py' 2026-01-07T22:37:04,417 adding 'lobster/tools/gpu_detector.py' 2026-01-07T22:37:04,418 adding 'lobster/tools/handoff_tool.py' 2026-01-07T22:37:04,420 adding 'lobster/tools/pipeline_strategy.py' 2026-01-07T22:37:04,424 adding 'lobster/tools/rate_limiter.py' 2026-01-07T22:37:04,426 adding 'lobster/tools/todo_tools.py' 2026-01-07T22:37:04,427 adding 'lobster/tools/url_transforms.py' 2026-01-07T22:37:04,430 adding 'lobster/tools/workflow_tracker.py' 2026-01-07T22:37:04,442 adding 'lobster/tools/workspace_tool.py' 2026-01-07T22:37:04,446 adding 'lobster/tools/archive/publication_service.py' 2026-01-07T22:37:04,449 adding 'lobster/tools/archive/unified_content_service.py' 2026-01-07T22:37:04,451 adding 'lobster/tools/providers/__init__.py' 2026-01-07T22:37:04,453 adding 'lobster/tools/providers/abstract_provider.py' 2026-01-07T22:37:04,455 adding 'lobster/tools/providers/base_provider.py' 2026-01-07T22:37:04,457 adding 'lobster/tools/providers/biopython_entrez_wrapper.py' 2026-01-07T22:37:04,459 adding 'lobster/tools/providers/biorxiv_medrxiv_config.py' 2026-01-07T22:37:04,464 adding 'lobster/tools/providers/biorxiv_medrxiv_provider.py' 2026-01-07T22:37:04,470 adding 'lobster/tools/providers/geo_provider.py' 2026-01-07T22:37:04,472 adding 'lobster/tools/providers/geo_utils.py' 2026-01-07T22:37:04,475 adding 'lobster/tools/providers/massive_provider.py' 2026-01-07T22:37:04,477 adding 'lobster/tools/providers/ncbi_query_builder.py' 2026-01-07T22:37:04,479 adding 'lobster/tools/providers/organism_enum.py' 2026-01-07T22:37:04,482 adding 'lobster/tools/providers/pdb_provider.py' 2026-01-07T22:37:04,488 adding 'lobster/tools/providers/pmc_provider.py' 2026-01-07T22:37:04,491 adding 'lobster/tools/providers/pride_normalizer.py' 2026-01-07T22:37:04,494 adding 'lobster/tools/providers/pride_provider.py' 2026-01-07T22:37:04,496 adding 'lobster/tools/providers/provider_registry.py' 2026-01-07T22:37:04,499 adding 'lobster/tools/providers/publication_resolver.py' 2026-01-07T22:37:04,508 adding 'lobster/tools/providers/pubmed_provider.py' 2026-01-07T22:37:04,515 adding 'lobster/tools/providers/sra_provider.py' 2026-01-07T22:37:04,517 adding 'lobster/tools/providers/structure_provider.py' 2026-01-07T22:37:04,519 adding 'lobster/tools/providers/webpage_provider.py' 2026-01-07T22:37:04,521 adding 'lobster/ui/__init__.py' 2026-01-07T22:37:04,524 adding 'lobster/ui/commands.py' 2026-01-07T22:37:04,526 adding 'lobster/ui/console_manager.py' 2026-01-07T22:37:04,529 adding 'lobster/ui/live_dashboard.py' 2026-01-07T22:37:04,530 adding 'lobster/ui/os_app.py' 2026-01-07T22:37:04,533 adding 'lobster/ui/progress_manager.py' 2026-01-07T22:37:04,535 adding 'lobster/ui/themes.py' 2026-01-07T22:37:04,537 adding 'lobster/ui/callbacks/__init__.py' 2026-01-07T22:37:04,540 adding 'lobster/ui/callbacks/textual_callback.py' 2026-01-07T22:37:04,542 adding 'lobster/ui/components/__init__.py' 2026-01-07T22:37:04,544 adding 'lobster/ui/components/file_tree.py' 2026-01-07T22:37:04,546 adding 'lobster/ui/components/multi_progress.py' 2026-01-07T22:37:04,548 adding 'lobster/ui/components/parallel_workers_progress.py' 2026-01-07T22:37:04,551 adding 'lobster/ui/components/status_display.py' 2026-01-07T22:37:04,553 adding 'lobster/ui/formatters/__init__.py' 2026-01-07T22:37:04,555 adding 'lobster/ui/screens/__init__.py' 2026-01-07T22:37:04,558 adding 'lobster/ui/screens/analysis_screen.py' 2026-01-07T22:37:04,560 adding 'lobster/ui/services/__init__.py' 2026-01-07T22:37:04,562 adding 'lobster/ui/services/error_service.py' 2026-01-07T22:37:04,564 adding 'lobster/ui/widgets/__init__.py' 2026-01-07T22:37:04,565 adding 'lobster/ui/widgets/activity_log.py' 2026-01-07T22:37:04,567 adding 'lobster/ui/widgets/adapters_panel.py' 2026-01-07T22:37:04,568 adding 'lobster/ui/widgets/agents_panel.py' 2026-01-07T22:37:04,570 adding 'lobster/ui/widgets/chat_message.py' 2026-01-07T22:37:04,571 adding 'lobster/ui/widgets/connections_panel.py' 2026-01-07T22:37:04,574 adding 'lobster/ui/widgets/data_hub.py' 2026-01-07T22:37:04,576 adding 'lobster/ui/widgets/error_modal.py' 2026-01-07T22:37:04,577 adding 'lobster/ui/widgets/modality_list.py' 2026-01-07T22:37:04,579 adding 'lobster/ui/widgets/plot_preview.py' 2026-01-07T22:37:04,580 adding 'lobster/ui/widgets/query_prompt.py' 2026-01-07T22:37:04,582 adding 'lobster/ui/widgets/queue_panel.py' 2026-01-07T22:37:04,583 adding 'lobster/ui/widgets/queue_status_bar.py' 2026-01-07T22:37:04,585 adding 'lobster/ui/widgets/results_display.py' 2026-01-07T22:37:04,587 adding 'lobster/ui/widgets/status_bar.py' 2026-01-07T22:37:04,588 adding 'lobster/ui/widgets/system_info.py' 2026-01-07T22:37:04,590 adding 'lobster/ui/widgets/token_usage_panel.py' 2026-01-07T22:37:04,592 adding 'lobster/utils/__init__.py' 2026-01-07T22:37:04,597 adding 'lobster/utils/callbacks.py' 2026-01-07T22:37:04,599 adding 'lobster/utils/deviance.py' 2026-01-07T22:37:04,601 adding 'lobster/utils/error_handlers.py' 2026-01-07T22:37:04,604 adding 'lobster/utils/file_analyzer.py' 2026-01-07T22:37:04,606 adding 'lobster/utils/file_naming.py' 2026-01-07T22:37:04,608 adding 'lobster/utils/json_extractor.py' 2026-01-07T22:37:04,609 adding 'lobster/utils/logger.py' 2026-01-07T22:37:04,611 adding 'lobster/utils/progress_wrapper.py' 2026-01-07T22:37:04,612 adding 'lobster/utils/ssl_utils.py' 2026-01-07T22:37:04,614 adding 'lobster/utils/system.py' 2026-01-07T22:37:04,621 adding 'lobster_ai-0.4.1.7.dist-info/licenses/LICENSE' 2026-01-07T22:37:04,624 adding 'lobster_ai-0.4.1.7.dist-info/METADATA' 2026-01-07T22:37:04,625 adding 'lobster_ai-0.4.1.7.dist-info/WHEEL' 2026-01-07T22:37:04,626 adding 'lobster_ai-0.4.1.7.dist-info/entry_points.txt' 2026-01-07T22:37:04,627 adding 'lobster_ai-0.4.1.7.dist-info/top_level.txt' 2026-01-07T22:37:04,632 adding 'lobster_ai-0.4.1.7.dist-info/RECORD' 2026-01-07T22:37:04,650 removing build/bdist.linux-armv7l/wheel 2026-01-07T22:37:04,838 Building wheel for lobster-ai (pyproject.toml): finished with status 'done' 2026-01-07T22:37:04,867 Created wheel for lobster-ai: filename=lobster_ai-0.4.1.7-py3-none-any.whl size=1350236 sha256=d5f73a88102ab83530aad98fd331daffe50e5c213851d3140995b8e8ab2c76c2 2026-01-07T22:37:04,868 Stored in directory: /tmp/pip-ephem-wheel-cache-pv_qgec8/wheels/a6/a7/99/3703031f70189e0aca120b5f0d902cd38aedfc8847386dcfc2 2026-01-07T22:37:04,894 Successfully built lobster-ai 2026-01-07T22:37:04,941 Removed build tracker: '/tmp/pip-build-tracker-wx0okf9l'