2026-01-08T14:34:26,985 Created temporary directory: /tmp/pip-ephem-wheel-cache-5beh7gnw 2026-01-08T14:34:26,986 Created temporary directory: /tmp/pip-build-tracker-uz6b5ae7 2026-01-08T14:34:26,987 Initialized build tracking at /tmp/pip-build-tracker-uz6b5ae7 2026-01-08T14:34:26,988 Created build tracker: /tmp/pip-build-tracker-uz6b5ae7 2026-01-08T14:34:26,988 Entered build tracker: /tmp/pip-build-tracker-uz6b5ae7 2026-01-08T14:34:26,989 Created temporary directory: /tmp/pip-wheel-xzdcklzq 2026-01-08T14:34:26,992 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 2026-01-08T14:34:26,994 Created temporary directory: /tmp/pip-ephem-wheel-cache-bnchq6al 2026-01-08T14:34:27,016 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-08T14:34:27,020 2 location(s) to search for versions of lobster-ai: 2026-01-08T14:34:27,020 * https://pypi.org/simple/lobster-ai/ 2026-01-08T14:34:27,020 * https://www.piwheels.org/simple/lobster-ai/ 2026-01-08T14:34:27,021 Fetching project page and analyzing links: https://pypi.org/simple/lobster-ai/ 2026-01-08T14:34:27,021 Getting page https://pypi.org/simple/lobster-ai/ 2026-01-08T14:34:27,023 Found index url https://pypi.org/simple 2026-01-08T14:34:27,244 Fetched page https://pypi.org/simple/lobster-ai/ as application/vnd.pypi.simple.v1+json 2026-01-08T14:34:27,250 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) 2026-01-08T14:34:27,251 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 2026-01-08T14:34:27,252 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) 2026-01-08T14:34:27,253 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 2026-01-08T14:34:27,253 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) 2026-01-08T14:34:27,254 Found link https://files.pythonhosted.org/packages/6f/e1/d7ec868a638125f79b3f450e1ecb1b9e75ed7ba1887b51849531a4b362dc/lobster_ai-0.4.0.9.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.0.9 2026-01-08T14:34:27,255 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/34/e3/df793c9c964fd14f0e798a2b126653fe41689d96f69c0f667eaeaec3b87e/lobster_ai-0.4.1.1-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-08T14:34:27,256 Found link 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https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-08T14:34:27,260 Found link https://files.pythonhosted.org/packages/bf/27/ee3a39812b4ef948a1c918a961b3226551f295303cc9ba81958d83917238/lobster_ai-0.4.1.3.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.1.3 2026-01-08T14:34:27,261 Skipping link: No binaries permitted for lobster-ai: 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) 2026-01-08T14:34:27,261 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 2026-01-08T14:34:27,262 Skipping link: No binaries permitted for lobster-ai: 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0.4.1.6 2026-01-08T14:34:27,265 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) 2026-01-08T14:34:27,266 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 2026-01-08T14:34:27,267 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/b1/a3/71ed9d870a6ae1bb3edfe7422e227456174b287a2cc1d03332b78c27e6bf/lobster_ai-0.4.1.9-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-08T14:34:27,268 Found link 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https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-08T14:34:27,271 Found link https://files.pythonhosted.org/packages/36/bc/3640189e266c68748b26bfdba01e65eb03e89c86a4dbabed94bc159e63cf/lobster_ai-0.4.2.1.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.2.1 2026-01-08T14:34:27,272 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/86/bd/e93850124a89cacb990f22fe196c6075620b92c44abc2721d5926391226c/lobster_ai-0.4.2.2-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-08T14:34:27,273 Found link https://files.pythonhosted.org/packages/c0/7d/86cb92b08a6128321786ba6b7310a47150919ab0eaac8aa27d2fbb07ee0b/lobster_ai-0.4.2.2.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.2.2 2026-01-08T14:34:27,273 Fetching project page and analyzing links: https://www.piwheels.org/simple/lobster-ai/ 2026-01-08T14:34:27,274 Getting page https://www.piwheels.org/simple/lobster-ai/ 2026-01-08T14:34:27,275 Found index url https://www.piwheels.org/simple 2026-01-08T14:34:27,446 Fetched page https://www.piwheels.org/simple/lobster-ai/ as text/html 2026-01-08T14:34:27,451 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.2.1-py3-none-any.whl#sha256=f40da141654e6ba176852a9d7091ec6008895f331121efb4dcd83b107556c66a (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-08T14:34:27,452 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.2.0-py3-none-any.whl#sha256=8b528935140ed2a0892bdb40f7b66fd20543c14b105e7ff0a3553082014d6290 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-08T14:34:27,452 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.9-py3-none-any.whl#sha256=605905694283a743acdfc0bfb13340760d68edb2a17215bc609736da1f423979 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-08T14:34:27,453 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.7-py3-none-any.whl#sha256=d5f73a88102ab83530aad98fd331daffe50e5c213851d3140995b8e8ab2c76c2 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-08T14:34:27,453 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) 2026-01-08T14:34:27,454 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) 2026-01-08T14:34:27,456 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) 2026-01-08T14:34:27,457 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) 2026-01-08T14:34:27,457 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) 2026-01-08T14:34:27,458 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) 2026-01-08T14:34:27,459 Skipping link: not a file: https://www.piwheels.org/simple/lobster-ai/ 2026-01-08T14:34:27,459 Skipping link: not a file: https://pypi.org/simple/lobster-ai/ 2026-01-08T14:34:27,479 Given no hashes to check 1 links for project 'lobster-ai': discarding no candidates 2026-01-08T14:34:27,497 Collecting lobster-ai==0.4.2.2 2026-01-08T14:34:27,499 Created temporary directory: /tmp/pip-unpack-7d8vkv6a 2026-01-08T14:34:27,719 Downloading lobster_ai-0.4.2.2.tar.gz (1.2 MB) 2026-01-08T14:34:28,754 Added lobster-ai==0.4.2.2 from https://files.pythonhosted.org/packages/c0/7d/86cb92b08a6128321786ba6b7310a47150919ab0eaac8aa27d2fbb07ee0b/lobster_ai-0.4.2.2.tar.gz to build tracker '/tmp/pip-build-tracker-uz6b5ae7' 2026-01-08T14:34:28,763 Created temporary directory: /tmp/pip-build-env-swqnbqjp 2026-01-08T14:34:28,768 Installing build dependencies: started 2026-01-08T14:34:28,769 Running command pip subprocess to install build dependencies 2026-01-08T14:34:29,910 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-01-08T14:34:30,578 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 2026-01-08T14:34:30,602 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-08T14:34:32,317 Collecting setuptools>=65.0 2026-01-08T14:34:32,419 Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB) 2026-01-08T14:34:32,685 Collecting wheel 2026-01-08T14:34:32,703 Using cached https://www.piwheels.org/simple/wheel/wheel-0.45.1-py3-none-any.whl (72 kB) 2026-01-08T14:34:35,696 Installing collected packages: wheel, setuptools 2026-01-08T14:34:35,935 Creating /tmp/pip-build-env-swqnbqjp/overlay/local/bin 2026-01-08T14:34:35,938 changing mode of /tmp/pip-build-env-swqnbqjp/overlay/local/bin/wheel to 755 2026-01-08T14:34:39,681 Successfully installed setuptools-80.9.0 wheel-0.45.1 2026-01-08T14:34:39,954 Installing build dependencies: finished with status 'done' 2026-01-08T14:34:39,961 Getting requirements to build wheel: started 2026-01-08T14:34:39,962 Running command Getting requirements to build wheel 2026-01-08T14:34:40,658 /tmp/pip-build-env-swqnbqjp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-08T14:34:40,658 corresp(dist, value, root_dir) 2026-01-08T14:34:40,659 /tmp/pip-build-env-swqnbqjp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-08T14:34:40,660 corresp(dist, value, root_dir) 2026-01-08T14:34:40,660 /tmp/pip-build-env-swqnbqjp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-08T14:34:40,661 corresp(dist, value, root_dir) 2026-01-08T14:34:40,767 running egg_info 2026-01-08T14:34:40,774 writing lobster_ai.egg-info/PKG-INFO 2026-01-08T14:34:40,804 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-08T14:34:40,806 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-08T14:34:40,826 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-08T14:34:40,827 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-08T14:34:40,975 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-08T14:34:40,992 adding license file 'LICENSE' 2026-01-08T14:34:41,006 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-08T14:34:41,105 Getting requirements to build wheel: finished with status 'done' 2026-01-08T14:34:41,108 Created temporary directory: /tmp/pip-modern-metadata-jxn1u3dh 2026-01-08T14:34:41,111 Preparing metadata (pyproject.toml): started 2026-01-08T14:34:41,112 Running command Preparing metadata (pyproject.toml) 2026-01-08T14:34:41,733 /tmp/pip-build-env-swqnbqjp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-08T14:34:41,734 corresp(dist, value, root_dir) 2026-01-08T14:34:41,734 /tmp/pip-build-env-swqnbqjp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-08T14:34:41,735 corresp(dist, value, root_dir) 2026-01-08T14:34:41,735 /tmp/pip-build-env-swqnbqjp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-08T14:34:41,736 corresp(dist, value, root_dir) 2026-01-08T14:34:41,837 running dist_info 2026-01-08T14:34:41,849 creating /tmp/pip-modern-metadata-jxn1u3dh/lobster_ai.egg-info 2026-01-08T14:34:41,850 writing /tmp/pip-modern-metadata-jxn1u3dh/lobster_ai.egg-info/PKG-INFO 2026-01-08T14:34:41,880 writing dependency_links to /tmp/pip-modern-metadata-jxn1u3dh/lobster_ai.egg-info/dependency_links.txt 2026-01-08T14:34:41,882 writing entry points to /tmp/pip-modern-metadata-jxn1u3dh/lobster_ai.egg-info/entry_points.txt 2026-01-08T14:34:41,901 writing requirements to /tmp/pip-modern-metadata-jxn1u3dh/lobster_ai.egg-info/requires.txt 2026-01-08T14:34:41,902 writing top-level names to /tmp/pip-modern-metadata-jxn1u3dh/lobster_ai.egg-info/top_level.txt 2026-01-08T14:34:41,904 writing manifest file '/tmp/pip-modern-metadata-jxn1u3dh/lobster_ai.egg-info/SOURCES.txt' 2026-01-08T14:34:42,038 reading manifest file '/tmp/pip-modern-metadata-jxn1u3dh/lobster_ai.egg-info/SOURCES.txt' 2026-01-08T14:34:42,040 adding license file 'LICENSE' 2026-01-08T14:34:42,051 writing manifest file '/tmp/pip-modern-metadata-jxn1u3dh/lobster_ai.egg-info/SOURCES.txt' 2026-01-08T14:34:42,052 creating '/tmp/pip-modern-metadata-jxn1u3dh/lobster_ai-0.4.2.2.dist-info' 2026-01-08T14:34:42,182 Preparing metadata (pyproject.toml): finished with status 'done' 2026-01-08T14:34:42,188 Source in /tmp/pip-wheel-xzdcklzq/lobster-ai_0c5a8baf595e4c59a9eb8bb56b8ab233 has version 0.4.2.2, which satisfies requirement lobster-ai==0.4.2.2 from https://files.pythonhosted.org/packages/c0/7d/86cb92b08a6128321786ba6b7310a47150919ab0eaac8aa27d2fbb07ee0b/lobster_ai-0.4.2.2.tar.gz 2026-01-08T14:34:42,190 Removed lobster-ai==0.4.2.2 from https://files.pythonhosted.org/packages/c0/7d/86cb92b08a6128321786ba6b7310a47150919ab0eaac8aa27d2fbb07ee0b/lobster_ai-0.4.2.2.tar.gz from build tracker '/tmp/pip-build-tracker-uz6b5ae7' 2026-01-08T14:34:42,200 Created temporary directory: /tmp/pip-unpack-m5ekm_jk 2026-01-08T14:34:42,201 Building wheels for collected packages: lobster-ai 2026-01-08T14:34:42,206 Created temporary directory: /tmp/pip-wheel-iho0s_dd 2026-01-08T14:34:42,207 Destination directory: /tmp/pip-wheel-iho0s_dd 2026-01-08T14:34:42,209 Building wheel for lobster-ai (pyproject.toml): started 2026-01-08T14:34:42,210 Running command Building wheel for lobster-ai (pyproject.toml) 2026-01-08T14:34:42,825 /tmp/pip-build-env-swqnbqjp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-08T14:34:42,825 corresp(dist, value, root_dir) 2026-01-08T14:34:42,826 /tmp/pip-build-env-swqnbqjp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-08T14:34:42,826 corresp(dist, value, root_dir) 2026-01-08T14:34:42,827 /tmp/pip-build-env-swqnbqjp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-08T14:34:42,827 corresp(dist, value, root_dir) 2026-01-08T14:34:42,921 running bdist_wheel 2026-01-08T14:34:42,942 running build 2026-01-08T14:34:42,942 running build_py 2026-01-08T14:34:42,949 creating build/lib/lobster 2026-01-08T14:34:42,952 copying lobster/version.py -> build/lib/lobster 2026-01-08T14:34:42,954 copying lobster/_version.py -> build/lib/lobster 2026-01-08T14:34:42,956 copying lobster/__main__.py -> build/lib/lobster 2026-01-08T14:34:42,958 copying lobster/cli.py -> build/lib/lobster 2026-01-08T14:34:42,964 copying lobster/main.py -> build/lib/lobster 2026-01-08T14:34:42,967 creating build/lib/lobster/config 2026-01-08T14:34:42,968 copying lobster/config/supervisor_config.py -> build/lib/lobster/config 2026-01-08T14:34:42,970 copying lobster/config/agent_config.py -> build/lib/lobster/config 2026-01-08T14:34:42,973 copying lobster/config/ollama_service.py -> build/lib/lobster/config 2026-01-08T14:34:42,976 copying lobster/config/workspace_config.py -> build/lib/lobster/config 2026-01-08T14:34:42,978 copying lobster/config/base_config.py -> build/lib/lobster/config 2026-01-08T14:34:42,980 copying lobster/config/ssl_setup.py -> build/lib/lobster/config 2026-01-08T14:34:42,982 copying lobster/config/llm_factory.py -> build/lib/lobster/config 2026-01-08T14:34:42,985 copying lobster/config/global_config.py -> build/lib/lobster/config 2026-01-08T14:34:42,987 copying lobster/config/provider_setup.py -> build/lib/lobster/config 2026-01-08T14:34:42,990 copying lobster/config/config_manager.py -> build/lib/lobster/config 2026-01-08T14:34:42,993 copying lobster/config/agent_registry.py -> build/lib/lobster/config 2026-01-08T14:34:42,995 copying lobster/config/model_service.py -> build/lib/lobster/config 2026-01-08T14:34:42,997 copying lobster/config/__init__.py -> build/lib/lobster/config 2026-01-08T14:34:42,999 copying lobster/config/settings.py -> build/lib/lobster/config 2026-01-08T14:34:43,002 copying lobster/config/agent_capabilities.py -> build/lib/lobster/config 2026-01-08T14:34:43,005 copying lobster/config/subscription_tiers.py -> build/lib/lobster/config 2026-01-08T14:34:43,007 copying lobster/config/constants.py -> build/lib/lobster/config 2026-01-08T14:34:43,010 creating build/lib/lobster/utils 2026-01-08T14:34:43,011 copying lobster/utils/system.py -> build/lib/lobster/utils 2026-01-08T14:34:43,013 copying lobster/utils/callbacks.py -> build/lib/lobster/utils 2026-01-08T14:34:43,016 copying lobster/utils/json_extractor.py -> build/lib/lobster/utils 2026-01-08T14:34:43,019 copying lobster/utils/file_analyzer.py -> build/lib/lobster/utils 2026-01-08T14:34:43,022 copying lobster/utils/__init__.py -> build/lib/lobster/utils 2026-01-08T14:34:43,024 copying lobster/utils/ssl_utils.py -> build/lib/lobster/utils 2026-01-08T14:34:43,026 copying lobster/utils/error_handlers.py -> build/lib/lobster/utils 2026-01-08T14:34:43,029 copying lobster/utils/file_naming.py -> build/lib/lobster/utils 2026-01-08T14:34:43,031 copying lobster/utils/logger.py -> build/lib/lobster/utils 2026-01-08T14:34:43,033 copying lobster/utils/deviance.py -> build/lib/lobster/utils 2026-01-08T14:34:43,035 copying lobster/utils/progress_wrapper.py -> build/lib/lobster/utils 2026-01-08T14:34:43,037 creating build/lib/lobster/cli_internal 2026-01-08T14:34:43,038 copying lobster/cli_internal/__init__.py -> build/lib/lobster/cli_internal 2026-01-08T14:34:43,040 creating build/lib/lobster/lobster_cloud 2026-01-08T14:34:43,041 copying lobster/lobster_cloud/client.py -> build/lib/lobster/lobster_cloud 2026-01-08T14:34:43,044 copying lobster/lobster_cloud/__init__.py -> build/lib/lobster/lobster_cloud 2026-01-08T14:34:43,047 creating build/lib/lobster/tools 2026-01-08T14:34:43,048 copying lobster/tools/expert_handoff_manager.py -> build/lib/lobster/tools 2026-01-08T14:34:43,051 copying lobster/tools/gpu_detector.py -> build/lib/lobster/tools 2026-01-08T14:34:43,053 copying lobster/tools/geo_parser.py -> build/lib/lobster/tools 2026-01-08T14:34:43,055 copying lobster/tools/download_orchestrator.py -> build/lib/lobster/tools 2026-01-08T14:34:43,058 copying lobster/tools/workflow_tracker.py -> build/lib/lobster/tools 2026-01-08T14:34:43,061 copying lobster/tools/todo_tools.py -> build/lib/lobster/tools 2026-01-08T14:34:43,063 copying lobster/tools/custom_code_tool.py -> build/lib/lobster/tools 2026-01-08T14:34:43,066 copying lobster/tools/rate_limiter.py -> build/lib/lobster/tools 2026-01-08T14:34:43,069 copying lobster/tools/expert_handoff_patterns.py -> build/lib/lobster/tools 2026-01-08T14:34:43,071 copying lobster/tools/pipeline_strategy.py -> build/lib/lobster/tools 2026-01-08T14:34:43,073 copying lobster/tools/geo_downloader.py -> build/lib/lobster/tools 2026-01-08T14:34:43,075 copying lobster/tools/__init__.py -> build/lib/lobster/tools 2026-01-08T14:34:43,077 copying lobster/tools/enhanced_handoff_tool.py -> build/lib/lobster/tools 2026-01-08T14:34:43,080 copying lobster/tools/handoff_tool.py -> build/lib/lobster/tools 2026-01-08T14:34:43,082 copying lobster/tools/url_transforms.py -> build/lib/lobster/tools 2026-01-08T14:34:43,084 copying lobster/tools/workspace_tool.py -> build/lib/lobster/tools 2026-01-08T14:34:43,090 creating build/lib/lobster/core 2026-01-08T14:34:43,091 copying lobster/core/notebook_validator.py -> build/lib/lobster/core 2026-01-08T14:34:43,094 copying lobster/core/ir_coverage.py -> build/lib/lobster/core 2026-01-08T14:34:43,096 copying lobster/core/exceptions.py -> build/lib/lobster/core 2026-01-08T14:34:43,098 copying lobster/core/plugin_loader.py -> build/lib/lobster/core 2026-01-08T14:34:43,101 copying lobster/core/provenance.py -> build/lib/lobster/core 2026-01-08T14:34:43,103 copying lobster/core/client.py -> build/lib/lobster/core 2026-01-08T14:34:43,107 copying lobster/core/data_manager_v2.py -> build/lib/lobster/core 2026-01-08T14:34:43,111 copying lobster/core/publication_queue.py -> build/lib/lobster/core 2026-01-08T14:34:43,114 copying lobster/core/plot_manager.py -> build/lib/lobster/core 2026-01-08T14:34:43,117 copying lobster/core/archive_utils.py -> build/lib/lobster/core 2026-01-08T14:34:43,120 copying lobster/core/__init__.py -> build/lib/lobster/core 2026-01-08T14:34:43,122 copying lobster/core/analysis_ir.py -> build/lib/lobster/core 2026-01-08T14:34:43,125 copying lobster/core/config_resolver.py -> build/lib/lobster/core 2026-01-08T14:34:43,129 copying lobster/core/notebook_exporter.py -> build/lib/lobster/core 2026-01-08T14:34:43,132 copying lobster/core/license_manager.py -> build/lib/lobster/core 2026-01-08T14:34:43,135 copying lobster/core/component_registry.py -> build/lib/lobster/core 2026-01-08T14:34:43,138 copying lobster/core/notebook_executor.py -> build/lib/lobster/core 2026-01-08T14:34:43,141 copying lobster/core/download_queue.py -> build/lib/lobster/core 2026-01-08T14:34:43,144 copying lobster/core/queue_storage.py -> build/lib/lobster/core 2026-01-08T14:34:43,146 copying lobster/core/ris_parser.py -> build/lib/lobster/core 2026-01-08T14:34:43,149 copying lobster/core/workspace.py -> build/lib/lobster/core 2026-01-08T14:34:43,152 creating build/lib/lobster/ui 2026-01-08T14:34:43,153 copying lobster/ui/console_manager.py -> build/lib/lobster/ui 2026-01-08T14:34:43,156 copying lobster/ui/progress_manager.py -> build/lib/lobster/ui 2026-01-08T14:34:43,159 copying lobster/ui/live_dashboard.py -> build/lib/lobster/ui 2026-01-08T14:34:43,163 copying lobster/ui/themes.py -> build/lib/lobster/ui 2026-01-08T14:34:43,166 copying lobster/ui/os_app.py -> build/lib/lobster/ui 2026-01-08T14:34:43,168 copying lobster/ui/__init__.py -> build/lib/lobster/ui 2026-01-08T14:34:43,171 copying lobster/ui/commands.py -> build/lib/lobster/ui 2026-01-08T14:34:43,174 creating build/lib/lobster/services 2026-01-08T14:34:43,176 copying lobster/services/__init__.py -> build/lib/lobster/services 2026-01-08T14:34:43,179 creating build/lib/lobster/agents 2026-01-08T14:34:43,180 copying lobster/agents/draw_graph.py -> build/lib/lobster/agents 2026-01-08T14:34:43,183 copying lobster/agents/graph.py -> build/lib/lobster/agents 2026-01-08T14:34:43,186 copying lobster/agents/data_expert_assistant.py -> build/lib/lobster/agents 2026-01-08T14:34:43,189 copying lobster/agents/data_expert.py -> build/lib/lobster/agents 2026-01-08T14:34:43,193 copying lobster/agents/state.py -> build/lib/lobster/agents 2026-01-08T14:34:43,196 copying lobster/agents/__init__.py -> build/lib/lobster/agents 2026-01-08T14:34:43,198 copying lobster/agents/research_agent.py -> build/lib/lobster/agents 2026-01-08T14:34:43,204 copying lobster/agents/visualization_expert.py -> build/lib/lobster/agents 2026-01-08T14:34:43,207 copying lobster/agents/supervisor.py -> build/lib/lobster/agents 2026-01-08T14:34:43,211 creating build/lib/lobster/config/providers 2026-01-08T14:34:43,213 copying lobster/config/providers/ollama_provider.py -> build/lib/lobster/config/providers 2026-01-08T14:34:43,216 copying lobster/config/providers/bedrock_provider.py -> build/lib/lobster/config/providers 2026-01-08T14:34:43,219 copying lobster/config/providers/__init__.py -> build/lib/lobster/config/providers 2026-01-08T14:34:43,221 copying lobster/config/providers/registry.py -> build/lib/lobster/config/providers 2026-01-08T14:34:43,224 copying lobster/config/providers/gemini_provider.py -> build/lib/lobster/config/providers 2026-01-08T14:34:43,227 copying lobster/config/providers/base_provider.py -> build/lib/lobster/config/providers 2026-01-08T14:34:43,230 copying lobster/config/providers/anthropic_provider.py -> build/lib/lobster/config/providers 2026-01-08T14:34:43,232 creating build/lib/lobster/cli_internal/utils 2026-01-08T14:34:43,233 copying lobster/cli_internal/utils/path_resolution.py -> build/lib/lobster/cli_internal/utils 2026-01-08T14:34:43,236 copying lobster/cli_internal/utils/__init__.py -> build/lib/lobster/cli_internal/utils 2026-01-08T14:34:43,238 creating build/lib/lobster/cli_internal/commands 2026-01-08T14:34:43,239 copying lobster/cli_internal/commands/output_adapter.py -> build/lib/lobster/cli_internal/commands 2026-01-08T14:34:43,242 copying lobster/cli_internal/commands/__init__.py -> build/lib/lobster/cli_internal/commands 2026-01-08T14:34:43,245 creating build/lib/lobster/cli_internal/commands/heavy 2026-01-08T14:34:43,246 copying lobster/cli_internal/commands/heavy/visualization_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-08T14:34:43,249 copying lobster/cli_internal/commands/heavy/__init__.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-08T14:34:43,251 copying lobster/cli_internal/commands/heavy/modality_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-08T14:34:43,254 copying lobster/cli_internal/commands/heavy/data_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-08T14:34:43,256 creating build/lib/lobster/cli_internal/commands/light 2026-01-08T14:34:43,258 copying lobster/cli_internal/commands/light/workspace_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-08T14:34:43,261 copying lobster/cli_internal/commands/light/__init__.py -> build/lib/lobster/cli_internal/commands/light 2026-01-08T14:34:43,263 copying lobster/cli_internal/commands/light/pipeline_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-08T14:34:43,265 copying lobster/cli_internal/commands/light/queue_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-08T14:34:43,268 copying lobster/cli_internal/commands/light/config_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-08T14:34:43,271 copying lobster/cli_internal/commands/light/metadata_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-08T14:34:43,273 copying lobster/cli_internal/commands/light/file_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-08T14:34:43,277 creating build/lib/lobster/tools/providers 2026-01-08T14:34:43,278 copying lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,281 copying lobster/tools/providers/geo_provider.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,284 copying lobster/tools/providers/biorxiv_medrxiv_config.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,286 copying lobster/tools/providers/organism_enum.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,289 copying lobster/tools/providers/publication_resolver.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,291 copying lobster/tools/providers/pride_provider.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,294 copying lobster/tools/providers/webpage_provider.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,297 copying lobster/tools/providers/massive_provider.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,300 copying lobster/tools/providers/ncbi_query_builder.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,302 copying lobster/tools/providers/__init__.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,304 copying lobster/tools/providers/pdb_provider.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,307 copying lobster/tools/providers/pmc_provider.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,310 copying lobster/tools/providers/biopython_entrez_wrapper.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,313 copying lobster/tools/providers/abstract_provider.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,315 copying lobster/tools/providers/pride_normalizer.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,318 copying lobster/tools/providers/geo_utils.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,320 copying lobster/tools/providers/structure_provider.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,323 copying lobster/tools/providers/base_provider.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,325 copying lobster/tools/providers/pubmed_provider.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,329 copying lobster/tools/providers/provider_registry.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,331 copying lobster/tools/providers/sra_provider.py -> build/lib/lobster/tools/providers 2026-01-08T14:34:43,335 creating build/lib/lobster/tools/archive 2026-01-08T14:34:43,336 copying lobster/tools/archive/unified_content_service.py -> build/lib/lobster/tools/archive 2026-01-08T14:34:43,339 copying lobster/tools/archive/publication_service.py -> build/lib/lobster/tools/archive 2026-01-08T14:34:43,343 creating build/lib/lobster/core/identifiers 2026-01-08T14:34:43,344 copying lobster/core/identifiers/accession_resolver.py -> build/lib/lobster/core/identifiers 2026-01-08T14:34:43,346 copying lobster/core/identifiers/__init__.py -> build/lib/lobster/core/identifiers 2026-01-08T14:34:43,349 creating build/lib/lobster/core/backends 2026-01-08T14:34:43,350 copying lobster/core/backends/base.py -> build/lib/lobster/core/backends 2026-01-08T14:34:43,352 copying lobster/core/backends/h5ad_backend.py -> build/lib/lobster/core/backends 2026-01-08T14:34:43,355 copying lobster/core/backends/__init__.py -> build/lib/lobster/core/backends 2026-01-08T14:34:43,357 copying lobster/core/backends/mudata_backend.py -> build/lib/lobster/core/backends 2026-01-08T14:34:43,360 creating build/lib/lobster/core/adapters 2026-01-08T14:34:43,361 copying lobster/core/adapters/base.py -> build/lib/lobster/core/adapters 2026-01-08T14:34:43,364 copying lobster/core/adapters/pseudobulk_adapter.py -> build/lib/lobster/core/adapters 2026-01-08T14:34:43,367 copying lobster/core/adapters/proteomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-08T14:34:43,369 copying lobster/core/adapters/__init__.py -> build/lib/lobster/core/adapters 2026-01-08T14:34:43,371 copying lobster/core/adapters/protein_structure_adapter.py -> build/lib/lobster/core/adapters 2026-01-08T14:34:43,373 copying lobster/core/adapters/transcriptomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-08T14:34:43,377 creating build/lib/lobster/core/schemas 2026-01-08T14:34:43,378 copying lobster/core/schemas/database_registry.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,380 copying lobster/core/schemas/export_schemas.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,384 copying lobster/core/schemas/validation.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,386 copying lobster/core/schemas/transcriptomics.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,390 copying lobster/core/schemas/metagenomics.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,393 copying lobster/core/schemas/metabolomics.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,396 copying lobster/core/schemas/publication_queue.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,398 copying lobster/core/schemas/protein_structure.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,401 copying lobster/core/schemas/download_urls.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,404 copying lobster/core/schemas/__init__.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,406 copying lobster/core/schemas/sra.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,409 copying lobster/core/schemas/database_mappings.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,412 copying lobster/core/schemas/download_queue.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,414 copying lobster/core/schemas/proteomics.py -> build/lib/lobster/core/schemas 2026-01-08T14:34:43,418 creating build/lib/lobster/core/utils 2026-01-08T14:34:43,419 copying lobster/core/utils/h5ad_utils.py -> build/lib/lobster/core/utils 2026-01-08T14:34:43,422 copying lobster/core/utils/__init__.py -> build/lib/lobster/core/utils 2026-01-08T14:34:43,424 creating build/lib/lobster/core/interfaces 2026-01-08T14:34:43,425 copying lobster/core/interfaces/adapter.py -> build/lib/lobster/core/interfaces 2026-01-08T14:34:43,428 copying lobster/core/interfaces/validator.py -> build/lib/lobster/core/interfaces 2026-01-08T14:34:43,430 copying lobster/core/interfaces/base_client.py -> build/lib/lobster/core/interfaces 2026-01-08T14:34:43,433 copying lobster/core/interfaces/backend.py -> build/lib/lobster/core/interfaces 2026-01-08T14:34:43,435 copying lobster/core/interfaces/__init__.py -> build/lib/lobster/core/interfaces 2026-01-08T14:34:43,437 copying lobster/core/interfaces/download_service.py -> build/lib/lobster/core/interfaces 2026-01-08T14:34:43,440 creating build/lib/lobster/ui/widgets 2026-01-08T14:34:43,441 copying lobster/ui/widgets/query_prompt.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,444 copying lobster/ui/widgets/error_modal.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,446 copying lobster/ui/widgets/chat_message.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,448 copying lobster/ui/widgets/queue_status_bar.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,450 copying lobster/ui/widgets/activity_log.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,452 copying lobster/ui/widgets/results_display.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,454 copying lobster/ui/widgets/connections_panel.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,456 copying lobster/ui/widgets/data_hub.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,459 copying lobster/ui/widgets/token_usage_panel.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,461 copying lobster/ui/widgets/__init__.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,462 copying lobster/ui/widgets/agents_panel.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,465 copying lobster/ui/widgets/adapters_panel.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,467 copying lobster/ui/widgets/plot_preview.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,469 copying lobster/ui/widgets/queue_panel.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,472 copying lobster/ui/widgets/system_info.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,474 copying lobster/ui/widgets/modality_list.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,476 copying lobster/ui/widgets/status_bar.py -> build/lib/lobster/ui/widgets 2026-01-08T14:34:43,479 creating build/lib/lobster/ui/callbacks 2026-01-08T14:34:43,480 copying lobster/ui/callbacks/__init__.py -> build/lib/lobster/ui/callbacks 2026-01-08T14:34:43,482 copying lobster/ui/callbacks/textual_callback.py -> build/lib/lobster/ui/callbacks 2026-01-08T14:34:43,485 creating build/lib/lobster/ui/screens 2026-01-08T14:34:43,486 copying lobster/ui/screens/analysis_screen.py -> build/lib/lobster/ui/screens 2026-01-08T14:34:43,489 copying lobster/ui/screens/__init__.py -> build/lib/lobster/ui/screens 2026-01-08T14:34:43,492 creating build/lib/lobster/ui/formatters 2026-01-08T14:34:43,493 copying lobster/ui/formatters/__init__.py -> build/lib/lobster/ui/formatters 2026-01-08T14:34:43,495 creating build/lib/lobster/ui/services 2026-01-08T14:34:43,496 copying lobster/ui/services/__init__.py -> build/lib/lobster/ui/services 2026-01-08T14:34:43,498 copying lobster/ui/services/error_service.py -> build/lib/lobster/ui/services 2026-01-08T14:34:43,501 creating build/lib/lobster/ui/components 2026-01-08T14:34:43,502 copying lobster/ui/components/status_display.py -> build/lib/lobster/ui/components 2026-01-08T14:34:43,505 copying lobster/ui/components/multi_progress.py -> build/lib/lobster/ui/components 2026-01-08T14:34:43,508 copying lobster/ui/components/file_tree.py -> build/lib/lobster/ui/components 2026-01-08T14:34:43,511 copying lobster/ui/components/parallel_workers_progress.py -> build/lib/lobster/ui/components 2026-01-08T14:34:43,513 copying lobster/ui/components/__init__.py -> build/lib/lobster/ui/components 2026-01-08T14:34:43,516 creating build/lib/lobster/services/data_management 2026-01-08T14:34:43,517 copying lobster/services/data_management/concatenation_service.py -> build/lib/lobster/services/data_management 2026-01-08T14:34:43,520 copying lobster/services/data_management/__init__.py -> build/lib/lobster/services/data_management 2026-01-08T14:34:43,522 copying lobster/services/data_management/modality_management_service.py -> build/lib/lobster/services/data_management 2026-01-08T14:34:43,525 creating build/lib/lobster/services/metadata 2026-01-08T14:34:43,527 copying lobster/services/metadata/manual_annotation_service.py -> build/lib/lobster/services/metadata 2026-01-08T14:34:43,530 copying lobster/services/metadata/metadata_validation_service.py -> build/lib/lobster/services/metadata 2026-01-08T14:34:43,533 copying lobster/services/metadata/__init__.py -> build/lib/lobster/services/metadata 2026-01-08T14:34:43,534 copying lobster/services/metadata/identifier_provenance_service.py -> build/lib/lobster/services/metadata 2026-01-08T14:34:43,537 copying lobster/services/metadata/sample_grouping_service.py -> build/lib/lobster/services/metadata 2026-01-08T14:34:43,539 copying lobster/services/metadata/metadata_standardization_service.py -> build/lib/lobster/services/metadata 2026-01-08T14:34:43,543 creating build/lib/lobster/services/orchestration 2026-01-08T14:34:43,544 copying lobster/services/orchestration/__init__.py -> build/lib/lobster/services/orchestration 2026-01-08T14:34:43,545 copying lobster/services/orchestration/publication_processing_service.py -> build/lib/lobster/services/orchestration 2026-01-08T14:34:43,549 creating build/lib/lobster/services/ml 2026-01-08T14:34:43,551 copying lobster/services/ml/__init__.py -> build/lib/lobster/services/ml 2026-01-08T14:34:43,553 creating build/lib/lobster/services/analysis 2026-01-08T14:34:43,554 copying lobster/services/analysis/enhanced_singlecell_service.py -> build/lib/lobster/services/analysis 2026-01-08T14:34:43,558 copying lobster/services/analysis/scvi_embedding_service.py -> build/lib/lobster/services/analysis 2026-01-08T14:34:43,561 copying lobster/services/analysis/differential_formula_service.py -> build/lib/lobster/services/analysis 2026-01-08T14:34:43,564 copying lobster/services/analysis/structure_analysis_service.py -> build/lib/lobster/services/analysis 2026-01-08T14:34:43,567 copying lobster/services/analysis/bulk_rnaseq_service.py -> build/lib/lobster/services/analysis 2026-01-08T14:34:43,571 copying lobster/services/analysis/clustering_service.py -> build/lib/lobster/services/analysis 2026-01-08T14:34:43,577 copying lobster/services/analysis/__init__.py -> build/lib/lobster/services/analysis 2026-01-08T14:34:43,579 copying lobster/services/analysis/pseudobulk_service.py -> build/lib/lobster/services/analysis 2026-01-08T14:34:43,584 creating build/lib/lobster/services/visualization 2026-01-08T14:34:43,586 copying lobster/services/visualization/visualization_service.py -> build/lib/lobster/services/visualization 2026-01-08T14:34:43,591 copying lobster/services/visualization/pymol_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-08T14:34:43,596 copying lobster/services/visualization/__init__.py -> build/lib/lobster/services/visualization 2026-01-08T14:34:43,598 copying lobster/services/visualization/bulk_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-08T14:34:43,603 creating build/lib/lobster/services/quality 2026-01-08T14:34:43,605 copying lobster/services/quality/quality_service.py -> build/lib/lobster/services/quality 2026-01-08T14:34:43,610 copying lobster/services/quality/preprocessing_service.py -> build/lib/lobster/services/quality 2026-01-08T14:34:43,614 copying lobster/services/quality/__init__.py -> build/lib/lobster/services/quality 2026-01-08T14:34:43,617 creating build/lib/lobster/services/data_access 2026-01-08T14:34:43,619 copying lobster/services/data_access/pride_download_service.py -> build/lib/lobster/services/data_access 2026-01-08T14:34:43,622 copying lobster/services/data_access/geo_fallback_service.py -> build/lib/lobster/services/data_access 2026-01-08T14:34:43,626 copying lobster/services/data_access/massive_download_service.py -> build/lib/lobster/services/data_access 2026-01-08T14:34:43,630 copying lobster/services/data_access/docling_service.py -> build/lib/lobster/services/data_access 2026-01-08T14:34:43,634 copying lobster/services/data_access/__init__.py -> build/lib/lobster/services/data_access 2026-01-08T14:34:43,637 copying lobster/services/data_access/content_access_service.py -> build/lib/lobster/services/data_access 2026-01-08T14:34:43,642 copying lobster/services/data_access/geo_download_service.py -> build/lib/lobster/services/data_access 2026-01-08T14:34:43,646 copying lobster/services/data_access/workspace_content_service.py -> build/lib/lobster/services/data_access 2026-01-08T14:34:43,651 copying lobster/services/data_access/protein_structure_fetch_service.py -> build/lib/lobster/services/data_access 2026-01-08T14:34:43,654 copying lobster/services/data_access/sra_download_service.py -> build/lib/lobster/services/data_access 2026-01-08T14:34:43,658 copying lobster/services/data_access/geo_service.py -> build/lib/lobster/services/data_access 2026-01-08T14:34:43,667 creating build/lib/lobster/services/templates 2026-01-08T14:34:43,669 copying lobster/services/templates/annotation_templates.py -> build/lib/lobster/services/templates 2026-01-08T14:34:43,673 copying lobster/services/templates/__init__.py -> build/lib/lobster/services/templates 2026-01-08T14:34:43,675 creating build/lib/lobster/services/execution 2026-01-08T14:34:43,676 copying lobster/services/execution/execution_context_builder.py -> build/lib/lobster/services/execution 2026-01-08T14:34:43,678 copying lobster/services/execution/custom_code_execution_service.py -> build/lib/lobster/services/execution 2026-01-08T14:34:43,681 copying lobster/services/execution/__init__.py -> build/lib/lobster/services/execution 2026-01-08T14:34:43,684 creating build/lib/lobster/services/metadata/protocol_extraction 2026-01-08T14:34:43,685 copying lobster/services/metadata/protocol_extraction/base.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-08T14:34:43,687 copying lobster/services/metadata/protocol_extraction/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-08T14:34:43,689 creating build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-08T14:34:43,690 copying lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-08T14:34:43,693 copying lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-08T14:34:43,695 copying lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-08T14:34:43,697 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-08T14:34:43,698 copying lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-08T14:34:43,702 copying lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-08T14:34:43,704 copying lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-08T14:34:43,707 creating build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-08T14:34:43,708 copying lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-08T14:34:43,710 copying lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-08T14:34:43,712 copying lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-08T14:34:43,715 creating build/lib/lobster/services/data_access/geo 2026-01-08T14:34:43,716 copying lobster/services/data_access/geo/parser.py -> build/lib/lobster/services/data_access/geo 2026-01-08T14:34:43,721 copying lobster/services/data_access/geo/facade.py -> build/lib/lobster/services/data_access/geo 2026-01-08T14:34:43,723 copying lobster/services/data_access/geo/__init__.py -> build/lib/lobster/services/data_access/geo 2026-01-08T14:34:43,725 copying lobster/services/data_access/geo/downloader.py -> build/lib/lobster/services/data_access/geo 2026-01-08T14:34:43,728 copying lobster/services/data_access/geo/strategy.py -> build/lib/lobster/services/data_access/geo 2026-01-08T14:34:43,731 copying lobster/services/data_access/geo/constants.py -> build/lib/lobster/services/data_access/geo 2026-01-08T14:34:43,734 creating build/lib/lobster/services/data_access/geo/metadata 2026-01-08T14:34:43,735 copying lobster/services/data_access/geo/metadata/__init__.py -> build/lib/lobster/services/data_access/geo/metadata 2026-01-08T14:34:43,738 creating build/lib/lobster/services/data_access/geo/utils 2026-01-08T14:34:43,739 copying lobster/services/data_access/geo/utils/__init__.py -> build/lib/lobster/services/data_access/geo/utils 2026-01-08T14:34:43,741 creating build/lib/lobster/services/data_access/geo/sample 2026-01-08T14:34:43,742 copying lobster/services/data_access/geo/sample/__init__.py -> build/lib/lobster/services/data_access/geo/sample 2026-01-08T14:34:43,745 creating build/lib/lobster/services/data_access/geo/loaders 2026-01-08T14:34:43,746 copying lobster/services/data_access/geo/loaders/__init__.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-08T14:34:43,748 copying lobster/services/data_access/geo/loaders/tenx.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-08T14:34:43,751 creating build/lib/lobster/agents/proteomics 2026-01-08T14:34:43,752 copying lobster/agents/proteomics/state.py -> build/lib/lobster/agents/proteomics 2026-01-08T14:34:43,754 copying lobster/agents/proteomics/__init__.py -> build/lib/lobster/agents/proteomics 2026-01-08T14:34:43,756 creating build/lib/lobster/agents/transcriptomics 2026-01-08T14:34:43,758 copying lobster/agents/transcriptomics/transcriptomics_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-08T14:34:43,761 copying lobster/agents/transcriptomics/de_analysis_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-08T14:34:43,765 copying lobster/agents/transcriptomics/shared_tools.py -> build/lib/lobster/agents/transcriptomics 2026-01-08T14:34:43,768 copying lobster/agents/transcriptomics/state.py -> build/lib/lobster/agents/transcriptomics 2026-01-08T14:34:43,770 copying lobster/agents/transcriptomics/__init__.py -> build/lib/lobster/agents/transcriptomics 2026-01-08T14:34:43,772 copying lobster/agents/transcriptomics/annotation_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-08T14:34:43,775 creating build/lib/lobster/agents/archive 2026-01-08T14:34:43,776 copying lobster/agents/archive/research_agent_assistant.py -> build/lib/lobster/agents/archive 2026-01-08T14:34:43,779 creating build/lib/lobster/agents/langgraph_supervisor 2026-01-08T14:34:43,781 copying lobster/agents/langgraph_supervisor/handoff.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-08T14:34:43,783 copying lobster/agents/langgraph_supervisor/agent_name.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-08T14:34:43,785 copying lobster/agents/langgraph_supervisor/__init__.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-08T14:34:43,787 copying lobster/agents/langgraph_supervisor/supervisor.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-08T14:34:43,790 running egg_info 2026-01-08T14:34:43,802 writing lobster_ai.egg-info/PKG-INFO 2026-01-08T14:34:43,832 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-08T14:34:43,833 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-08T14:34:43,852 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-08T14:34:43,853 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-08T14:34:43,977 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-08T14:34:43,993 adding license file 'LICENSE' 2026-01-08T14:34:44,006 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-08T14:34:44,098 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-08T14:34:44,099 copying lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-08T14:34:44,138 installing to build/bdist.linux-armv7l/wheel 2026-01-08T14:34:44,139 running install 2026-01-08T14:34:44,161 running install_lib 2026-01-08T14:34:44,168 creating build/bdist.linux-armv7l/wheel 2026-01-08T14:34:44,170 creating build/bdist.linux-armv7l/wheel/lobster 2026-01-08T14:34:44,172 creating build/bdist.linux-armv7l/wheel/lobster/config 2026-01-08T14:34:44,174 creating build/bdist.linux-armv7l/wheel/lobster/config/providers 2026-01-08T14:34:44,175 copying build/lib/lobster/config/providers/ollama_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-08T14:34:44,178 copying build/lib/lobster/config/providers/bedrock_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-08T14:34:44,181 copying build/lib/lobster/config/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-08T14:34:44,183 copying build/lib/lobster/config/providers/registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-08T14:34:44,186 copying build/lib/lobster/config/providers/gemini_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-08T14:34:44,188 copying build/lib/lobster/config/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-08T14:34:44,190 copying build/lib/lobster/config/providers/anthropic_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-08T14:34:44,193 copying build/lib/lobster/config/supervisor_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,195 copying build/lib/lobster/config/agent_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,198 copying build/lib/lobster/config/ollama_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,200 copying build/lib/lobster/config/workspace_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,204 copying build/lib/lobster/config/base_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,207 copying build/lib/lobster/config/ssl_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,209 copying build/lib/lobster/config/llm_factory.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,212 copying build/lib/lobster/config/global_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,214 copying build/lib/lobster/config/provider_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,217 copying build/lib/lobster/config/config_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,220 copying build/lib/lobster/config/agent_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,223 copying build/lib/lobster/config/model_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,225 copying build/lib/lobster/config/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,227 copying build/lib/lobster/config/settings.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,230 copying build/lib/lobster/config/agent_capabilities.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,233 copying build/lib/lobster/config/subscription_tiers.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,235 copying build/lib/lobster/config/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-08T14:34:44,237 copying build/lib/lobster/version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-08T14:34:44,242 creating build/bdist.linux-armv7l/wheel/lobster/utils 2026-01-08T14:34:44,245 copying build/lib/lobster/utils/system.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-08T14:34:44,247 copying build/lib/lobster/utils/callbacks.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-08T14:34:44,251 copying build/lib/lobster/utils/json_extractor.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-08T14:34:44,254 copying build/lib/lobster/utils/file_analyzer.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-08T14:34:44,258 copying build/lib/lobster/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-08T14:34:44,261 copying build/lib/lobster/utils/ssl_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-08T14:34:44,264 copying build/lib/lobster/utils/error_handlers.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-08T14:34:44,268 copying build/lib/lobster/utils/file_naming.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-08T14:34:44,272 copying build/lib/lobster/utils/logger.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-08T14:34:44,274 copying build/lib/lobster/utils/deviance.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-08T14:34:44,276 copying build/lib/lobster/utils/progress_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-08T14:34:44,280 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal 2026-01-08T14:34:44,282 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/utils 2026-01-08T14:34:44,283 copying build/lib/lobster/cli_internal/utils/path_resolution.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-08T14:34:44,286 copying build/lib/lobster/cli_internal/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-08T14:34:44,289 copying build/lib/lobster/cli_internal/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal 2026-01-08T14:34:44,292 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands 2026-01-08T14:34:44,293 copying build/lib/lobster/cli_internal/commands/output_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-08T14:34:44,297 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/heavy 2026-01-08T14:34:44,298 copying build/lib/lobster/cli_internal/commands/heavy/visualization_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-08T14:34:44,302 copying build/lib/lobster/cli_internal/commands/heavy/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-08T14:34:44,304 copying build/lib/lobster/cli_internal/commands/heavy/modality_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-08T14:34:44,307 copying build/lib/lobster/cli_internal/commands/heavy/data_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-08T14:34:44,310 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/light 2026-01-08T14:34:44,311 copying build/lib/lobster/cli_internal/commands/light/workspace_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-08T14:34:44,314 copying build/lib/lobster/cli_internal/commands/light/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-08T14:34:44,316 copying build/lib/lobster/cli_internal/commands/light/pipeline_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-08T14:34:44,319 copying build/lib/lobster/cli_internal/commands/light/queue_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-08T14:34:44,321 copying build/lib/lobster/cli_internal/commands/light/config_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-08T14:34:44,324 copying build/lib/lobster/cli_internal/commands/light/metadata_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-08T14:34:44,326 copying build/lib/lobster/cli_internal/commands/light/file_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-08T14:34:44,329 copying build/lib/lobster/cli_internal/commands/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-08T14:34:44,332 copying build/lib/lobster/_version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-08T14:34:44,334 copying build/lib/lobster/__main__.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-08T14:34:44,336 creating build/bdist.linux-armv7l/wheel/lobster/lobster_cloud 2026-01-08T14:34:44,337 copying build/lib/lobster/lobster_cloud/client.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-08T14:34:44,339 copying build/lib/lobster/lobster_cloud/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-08T14:34:44,341 copying build/lib/lobster/cli.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-08T14:34:44,348 creating build/bdist.linux-armv7l/wheel/lobster/tools 2026-01-08T14:34:44,350 creating build/bdist.linux-armv7l/wheel/lobster/tools/providers 2026-01-08T14:34:44,351 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,354 copying build/lib/lobster/tools/providers/geo_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,358 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_config.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,359 copying build/lib/lobster/tools/providers/organism_enum.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,362 copying build/lib/lobster/tools/providers/publication_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,364 copying build/lib/lobster/tools/providers/pride_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,367 copying build/lib/lobster/tools/providers/webpage_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,370 copying build/lib/lobster/tools/providers/massive_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,372 copying build/lib/lobster/tools/providers/ncbi_query_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,375 copying build/lib/lobster/tools/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,377 copying build/lib/lobster/tools/providers/pdb_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,380 copying build/lib/lobster/tools/providers/pmc_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,383 copying build/lib/lobster/tools/providers/biopython_entrez_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,386 copying build/lib/lobster/tools/providers/abstract_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,388 copying build/lib/lobster/tools/providers/pride_normalizer.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,391 copying build/lib/lobster/tools/providers/geo_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,393 copying build/lib/lobster/tools/providers/structure_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,396 copying build/lib/lobster/tools/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,398 copying build/lib/lobster/tools/providers/pubmed_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,402 copying build/lib/lobster/tools/providers/provider_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,404 copying build/lib/lobster/tools/providers/sra_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-08T14:34:44,408 copying build/lib/lobster/tools/expert_handoff_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,410 copying build/lib/lobster/tools/gpu_detector.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,413 copying build/lib/lobster/tools/geo_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,414 copying build/lib/lobster/tools/download_orchestrator.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,417 copying build/lib/lobster/tools/workflow_tracker.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,420 copying build/lib/lobster/tools/todo_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,422 copying build/lib/lobster/tools/custom_code_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,425 copying build/lib/lobster/tools/rate_limiter.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,427 copying build/lib/lobster/tools/expert_handoff_patterns.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,430 copying build/lib/lobster/tools/pipeline_strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,432 copying build/lib/lobster/tools/geo_downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,434 copying build/lib/lobster/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,435 copying build/lib/lobster/tools/enhanced_handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,438 copying build/lib/lobster/tools/handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,441 creating build/bdist.linux-armv7l/wheel/lobster/tools/archive 2026-01-08T14:34:44,442 copying build/lib/lobster/tools/archive/unified_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-08T14:34:44,445 copying build/lib/lobster/tools/archive/publication_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-08T14:34:44,448 copying build/lib/lobster/tools/url_transforms.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,449 copying build/lib/lobster/tools/workspace_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-08T14:34:44,455 creating build/bdist.linux-armv7l/wheel/lobster/core 2026-01-08T14:34:44,456 copying build/lib/lobster/core/notebook_validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,460 creating build/bdist.linux-armv7l/wheel/lobster/core/identifiers 2026-01-08T14:34:44,461 copying build/lib/lobster/core/identifiers/accession_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-08T14:34:44,464 copying build/lib/lobster/core/identifiers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-08T14:34:44,466 copying build/lib/lobster/core/ir_coverage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,469 copying build/lib/lobster/core/exceptions.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,471 copying build/lib/lobster/core/plugin_loader.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,473 copying build/lib/lobster/core/provenance.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,476 copying build/lib/lobster/core/client.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,481 creating build/bdist.linux-armv7l/wheel/lobster/core/backends 2026-01-08T14:34:44,482 copying build/lib/lobster/core/backends/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-08T14:34:44,485 copying build/lib/lobster/core/backends/h5ad_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-08T14:34:44,488 copying build/lib/lobster/core/backends/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-08T14:34:44,489 copying build/lib/lobster/core/backends/mudata_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-08T14:34:44,493 creating build/bdist.linux-armv7l/wheel/lobster/core/adapters 2026-01-08T14:34:44,494 copying build/lib/lobster/core/adapters/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-08T14:34:44,497 copying build/lib/lobster/core/adapters/pseudobulk_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-08T14:34:44,499 copying build/lib/lobster/core/adapters/proteomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-08T14:34:44,502 copying build/lib/lobster/core/adapters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-08T14:34:44,504 copying build/lib/lobster/core/adapters/protein_structure_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-08T14:34:44,506 copying build/lib/lobster/core/adapters/transcriptomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-08T14:34:44,510 creating build/bdist.linux-armv7l/wheel/lobster/core/schemas 2026-01-08T14:34:44,511 copying build/lib/lobster/core/schemas/database_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,513 copying build/lib/lobster/core/schemas/export_schemas.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,517 copying build/lib/lobster/core/schemas/validation.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,519 copying build/lib/lobster/core/schemas/transcriptomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,523 copying build/lib/lobster/core/schemas/metagenomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,526 copying build/lib/lobster/core/schemas/metabolomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,530 copying build/lib/lobster/core/schemas/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,532 copying build/lib/lobster/core/schemas/protein_structure.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,535 copying build/lib/lobster/core/schemas/download_urls.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,538 copying build/lib/lobster/core/schemas/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,540 copying build/lib/lobster/core/schemas/sra.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,543 copying build/lib/lobster/core/schemas/database_mappings.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,546 copying build/lib/lobster/core/schemas/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,549 copying build/lib/lobster/core/schemas/proteomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-08T14:34:44,552 copying build/lib/lobster/core/data_manager_v2.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,557 copying build/lib/lobster/core/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,560 creating build/bdist.linux-armv7l/wheel/lobster/core/utils 2026-01-08T14:34:44,561 copying build/lib/lobster/core/utils/h5ad_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-08T14:34:44,564 copying build/lib/lobster/core/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-08T14:34:44,566 copying build/lib/lobster/core/plot_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,569 copying build/lib/lobster/core/archive_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,571 copying build/lib/lobster/core/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,573 copying build/lib/lobster/core/analysis_ir.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,577 creating build/bdist.linux-armv7l/wheel/lobster/core/interfaces 2026-01-08T14:34:44,578 copying build/lib/lobster/core/interfaces/adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-08T14:34:44,580 copying build/lib/lobster/core/interfaces/validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-08T14:34:44,583 copying build/lib/lobster/core/interfaces/base_client.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-08T14:34:44,585 copying build/lib/lobster/core/interfaces/backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-08T14:34:44,587 copying build/lib/lobster/core/interfaces/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-08T14:34:44,589 copying build/lib/lobster/core/interfaces/download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-08T14:34:44,592 copying build/lib/lobster/core/config_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,594 copying build/lib/lobster/core/notebook_exporter.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,597 copying build/lib/lobster/core/license_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,600 copying build/lib/lobster/core/component_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,602 copying build/lib/lobster/core/notebook_executor.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,605 copying build/lib/lobster/core/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,607 copying build/lib/lobster/core/queue_storage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,609 copying build/lib/lobster/core/ris_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,612 copying build/lib/lobster/core/workspace.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-08T14:34:44,615 creating build/bdist.linux-armv7l/wheel/lobster/ui 2026-01-08T14:34:44,616 copying build/lib/lobster/ui/console_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-08T14:34:44,622 creating build/bdist.linux-armv7l/wheel/lobster/ui/widgets 2026-01-08T14:34:44,623 copying build/lib/lobster/ui/widgets/query_prompt.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,625 copying build/lib/lobster/ui/widgets/error_modal.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,628 copying build/lib/lobster/ui/widgets/chat_message.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,630 copying build/lib/lobster/ui/widgets/queue_status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,632 copying build/lib/lobster/ui/widgets/activity_log.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,634 copying build/lib/lobster/ui/widgets/results_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,636 copying build/lib/lobster/ui/widgets/connections_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,638 copying build/lib/lobster/ui/widgets/data_hub.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,641 copying build/lib/lobster/ui/widgets/token_usage_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,644 copying build/lib/lobster/ui/widgets/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,646 copying build/lib/lobster/ui/widgets/agents_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,648 copying build/lib/lobster/ui/widgets/adapters_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,650 copying build/lib/lobster/ui/widgets/plot_preview.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,653 copying build/lib/lobster/ui/widgets/queue_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,655 copying build/lib/lobster/ui/widgets/system_info.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,657 copying build/lib/lobster/ui/widgets/modality_list.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,658 copying build/lib/lobster/ui/widgets/status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-08T14:34:44,661 copying build/lib/lobster/ui/progress_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-08T14:34:44,663 copying build/lib/lobster/ui/live_dashboard.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-08T14:34:44,666 creating build/bdist.linux-armv7l/wheel/lobster/ui/callbacks 2026-01-08T14:34:44,668 copying build/lib/lobster/ui/callbacks/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-08T14:34:44,670 copying build/lib/lobster/ui/callbacks/textual_callback.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-08T14:34:44,672 copying build/lib/lobster/ui/themes.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-08T14:34:44,675 copying build/lib/lobster/ui/os_app.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-08T14:34:44,677 creating build/bdist.linux-armv7l/wheel/lobster/ui/screens 2026-01-08T14:34:44,678 copying build/lib/lobster/ui/screens/analysis_screen.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-08T14:34:44,681 copying build/lib/lobster/ui/screens/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-08T14:34:44,683 copying build/lib/lobster/ui/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-08T14:34:44,685 copying build/lib/lobster/ui/commands.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-08T14:34:44,688 creating build/bdist.linux-armv7l/wheel/lobster/ui/formatters 2026-01-08T14:34:44,689 copying build/lib/lobster/ui/formatters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/formatters 2026-01-08T14:34:44,692 creating build/bdist.linux-armv7l/wheel/lobster/ui/services 2026-01-08T14:34:44,693 copying build/lib/lobster/ui/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-08T14:34:44,695 copying build/lib/lobster/ui/services/error_service.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-08T14:34:44,698 creating build/bdist.linux-armv7l/wheel/lobster/ui/components 2026-01-08T14:34:44,699 copying build/lib/lobster/ui/components/status_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-08T14:34:44,702 copying build/lib/lobster/ui/components/multi_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-08T14:34:44,705 copying build/lib/lobster/ui/components/file_tree.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-08T14:34:44,708 copying build/lib/lobster/ui/components/parallel_workers_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-08T14:34:44,710 copying build/lib/lobster/ui/components/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-08T14:34:44,712 copying build/lib/lobster/main.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-08T14:34:44,715 creating build/bdist.linux-armv7l/wheel/lobster/services 2026-01-08T14:34:44,717 creating build/bdist.linux-armv7l/wheel/lobster/services/data_management 2026-01-08T14:34:44,718 copying build/lib/lobster/services/data_management/concatenation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-08T14:34:44,722 copying build/lib/lobster/services/data_management/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-08T14:34:44,723 copying build/lib/lobster/services/data_management/modality_management_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-08T14:34:44,727 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata 2026-01-08T14:34:44,728 copying build/lib/lobster/services/metadata/manual_annotation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-08T14:34:44,731 copying build/lib/lobster/services/metadata/metadata_validation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-08T14:34:44,734 copying build/lib/lobster/services/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-08T14:34:44,736 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction 2026-01-08T14:34:44,737 copying build/lib/lobster/services/metadata/protocol_extraction/base.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-08T14:34:44,740 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-08T14:34:44,741 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-08T14:34:44,743 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-08T14:34:44,745 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-08T14:34:44,748 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon 2026-01-08T14:34:44,749 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-08T14:34:44,750 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-08T14:34:44,753 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-08T14:34:44,755 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-08T14:34:44,757 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-08T14:34:44,760 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-08T14:34:44,761 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-08T14:34:44,764 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-08T14:34:44,766 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-08T14:34:44,768 copying build/lib/lobster/services/metadata/protocol_extraction/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-08T14:34:44,770 copying build/lib/lobster/services/metadata/identifier_provenance_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-08T14:34:44,773 copying build/lib/lobster/services/metadata/sample_grouping_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-08T14:34:44,775 copying build/lib/lobster/services/metadata/metadata_standardization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-08T14:34:44,779 creating build/bdist.linux-armv7l/wheel/lobster/services/orchestration 2026-01-08T14:34:44,780 copying build/lib/lobster/services/orchestration/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-08T14:34:44,782 copying build/lib/lobster/services/orchestration/publication_processing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-08T14:34:44,786 creating build/bdist.linux-armv7l/wheel/lobster/services/ml 2026-01-08T14:34:44,787 copying build/lib/lobster/services/ml/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/ml 2026-01-08T14:34:44,789 copying build/lib/lobster/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services 2026-01-08T14:34:44,791 creating build/bdist.linux-armv7l/wheel/lobster/services/analysis 2026-01-08T14:34:44,792 copying build/lib/lobster/services/analysis/enhanced_singlecell_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-08T14:34:44,796 copying build/lib/lobster/services/analysis/scvi_embedding_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-08T14:34:44,798 copying build/lib/lobster/services/analysis/differential_formula_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-08T14:34:44,801 copying build/lib/lobster/services/analysis/structure_analysis_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-08T14:34:44,804 copying build/lib/lobster/services/analysis/bulk_rnaseq_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-08T14:34:44,808 copying build/lib/lobster/services/analysis/clustering_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-08T14:34:44,812 copying build/lib/lobster/services/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-08T14:34:44,813 copying build/lib/lobster/services/analysis/pseudobulk_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-08T14:34:44,816 creating build/bdist.linux-armv7l/wheel/lobster/services/visualization 2026-01-08T14:34:44,818 copying build/lib/lobster/services/visualization/visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-08T14:34:44,822 copying build/lib/lobster/services/visualization/pymol_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-08T14:34:44,824 copying build/lib/lobster/services/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-08T14:34:44,826 copying build/lib/lobster/services/visualization/bulk_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-08T14:34:44,829 creating build/bdist.linux-armv7l/wheel/lobster/services/quality 2026-01-08T14:34:44,830 copying build/lib/lobster/services/quality/quality_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-08T14:34:44,833 copying build/lib/lobster/services/quality/preprocessing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-08T14:34:44,837 copying build/lib/lobster/services/quality/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-08T14:34:44,839 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access 2026-01-08T14:34:44,840 copying build/lib/lobster/services/data_access/pride_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-08T14:34:44,843 copying build/lib/lobster/services/data_access/geo_fallback_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-08T14:34:44,846 copying build/lib/lobster/services/data_access/massive_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-08T14:34:44,849 copying build/lib/lobster/services/data_access/docling_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-08T14:34:44,853 copying build/lib/lobster/services/data_access/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-08T14:34:44,855 copying build/lib/lobster/services/data_access/content_access_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-08T14:34:44,859 copying build/lib/lobster/services/data_access/geo_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-08T14:34:44,861 copying build/lib/lobster/services/data_access/workspace_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-08T14:34:44,864 copying build/lib/lobster/services/data_access/protein_structure_fetch_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-08T14:34:44,868 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo 2026-01-08T14:34:44,870 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/metadata 2026-01-08T14:34:44,871 copying build/lib/lobster/services/data_access/geo/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/metadata 2026-01-08T14:34:44,874 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/utils 2026-01-08T14:34:44,875 copying build/lib/lobster/services/data_access/geo/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/utils 2026-01-08T14:34:44,877 copying build/lib/lobster/services/data_access/geo/parser.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-08T14:34:44,881 copying build/lib/lobster/services/data_access/geo/facade.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-08T14:34:44,883 copying build/lib/lobster/services/data_access/geo/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-08T14:34:44,886 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/sample 2026-01-08T14:34:44,887 copying build/lib/lobster/services/data_access/geo/sample/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/sample 2026-01-08T14:34:44,889 copying build/lib/lobster/services/data_access/geo/downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-08T14:34:44,892 copying build/lib/lobster/services/data_access/geo/strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-08T14:34:44,896 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/loaders 2026-01-08T14:34:44,897 copying build/lib/lobster/services/data_access/geo/loaders/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-08T14:34:44,899 copying build/lib/lobster/services/data_access/geo/loaders/tenx.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-08T14:34:44,902 copying build/lib/lobster/services/data_access/geo/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-08T14:34:44,904 copying build/lib/lobster/services/data_access/sra_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-08T14:34:44,908 copying build/lib/lobster/services/data_access/geo_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-08T14:34:44,914 creating build/bdist.linux-armv7l/wheel/lobster/services/templates 2026-01-08T14:34:44,915 copying build/lib/lobster/services/templates/annotation_templates.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-08T14:34:44,919 copying build/lib/lobster/services/templates/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-08T14:34:44,921 creating build/bdist.linux-armv7l/wheel/lobster/services/execution 2026-01-08T14:34:44,922 copying build/lib/lobster/services/execution/execution_context_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-08T14:34:44,925 copying build/lib/lobster/services/execution/custom_code_execution_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-08T14:34:44,928 copying build/lib/lobster/services/execution/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-08T14:34:44,930 creating build/bdist.linux-armv7l/wheel/lobster/agents 2026-01-08T14:34:44,931 copying build/lib/lobster/agents/draw_graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-08T14:34:44,933 copying build/lib/lobster/agents/graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-08T14:34:44,936 copying build/lib/lobster/agents/data_expert_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-08T14:34:44,939 copying build/lib/lobster/agents/data_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-08T14:34:44,942 copying build/lib/lobster/agents/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-08T14:34:44,945 copying build/lib/lobster/agents/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-08T14:34:44,946 copying build/lib/lobster/agents/research_agent.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-08T14:34:44,951 creating build/bdist.linux-armv7l/wheel/lobster/agents/proteomics 2026-01-08T14:34:44,952 copying build/lib/lobster/agents/proteomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-08T14:34:44,954 copying build/lib/lobster/agents/proteomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-08T14:34:44,956 copying build/lib/lobster/agents/visualization_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-08T14:34:44,960 creating build/bdist.linux-armv7l/wheel/lobster/agents/transcriptomics 2026-01-08T14:34:44,961 copying build/lib/lobster/agents/transcriptomics/transcriptomics_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-08T14:34:44,965 copying build/lib/lobster/agents/transcriptomics/de_analysis_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-08T14:34:44,970 copying build/lib/lobster/agents/transcriptomics/shared_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-08T14:34:44,973 copying build/lib/lobster/agents/transcriptomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-08T14:34:44,975 copying build/lib/lobster/agents/transcriptomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-08T14:34:44,977 copying build/lib/lobster/agents/transcriptomics/annotation_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-08T14:34:44,981 creating build/bdist.linux-armv7l/wheel/lobster/agents/archive 2026-01-08T14:34:44,982 copying build/lib/lobster/agents/archive/research_agent_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/archive 2026-01-08T14:34:44,984 copying build/lib/lobster/agents/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-08T14:34:44,988 creating build/bdist.linux-armv7l/wheel/lobster/agents/langgraph_supervisor 2026-01-08T14:34:44,989 copying build/lib/lobster/agents/langgraph_supervisor/handoff.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-08T14:34:44,991 copying build/lib/lobster/agents/langgraph_supervisor/agent_name.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-08T14:34:44,993 copying build/lib/lobster/agents/langgraph_supervisor/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-08T14:34:44,995 copying build/lib/lobster/agents/langgraph_supervisor/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-08T14:34:44,998 running install_egg_info 2026-01-08T14:34:45,004 Copying lobster_ai.egg-info to build/bdist.linux-armv7l/wheel/./lobster_ai-0.4.2.2-py3.11.egg-info 2026-01-08T14:34:45,018 running install_scripts 2026-01-08T14:34:45,032 creating build/bdist.linux-armv7l/wheel/lobster_ai-0.4.2.2.dist-info/WHEEL 2026-01-08T14:34:45,035 creating '/tmp/pip-wheel-iho0s_dd/.tmp-ycury3v3/lobster_ai-0.4.2.2-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-01-08T14:34:45,038 adding 'lobster/__main__.py' 2026-01-08T14:34:45,039 adding 'lobster/_version.py' 2026-01-08T14:34:45,067 adding 'lobster/cli.py' 2026-01-08T14:34:45,070 adding 'lobster/main.py' 2026-01-08T14:34:45,071 adding 'lobster/version.py' 2026-01-08T14:34:45,073 adding 'lobster/agents/__init__.py' 2026-01-08T14:34:45,080 adding 'lobster/agents/data_expert.py' 2026-01-08T14:34:45,086 adding 'lobster/agents/data_expert_assistant.py' 2026-01-08T14:34:45,089 adding 'lobster/agents/draw_graph.py' 2026-01-08T14:34:45,092 adding 'lobster/agents/graph.py' 2026-01-08T14:34:45,115 adding 'lobster/agents/research_agent.py' 2026-01-08T14:34:45,119 adding 'lobster/agents/state.py' 2026-01-08T14:34:45,127 adding 'lobster/agents/supervisor.py' 2026-01-08T14:34:45,132 adding 'lobster/agents/visualization_expert.py' 2026-01-08T14:34:45,136 adding 'lobster/agents/archive/research_agent_assistant.py' 2026-01-08T14:34:45,138 adding 'lobster/agents/langgraph_supervisor/__init__.py' 2026-01-08T14:34:45,140 adding 'lobster/agents/langgraph_supervisor/agent_name.py' 2026-01-08T14:34:45,143 adding 'lobster/agents/langgraph_supervisor/handoff.py' 2026-01-08T14:34:45,147 adding 'lobster/agents/langgraph_supervisor/supervisor.py' 2026-01-08T14:34:45,149 adding 'lobster/agents/proteomics/__init__.py' 2026-01-08T14:34:45,151 adding 'lobster/agents/proteomics/state.py' 2026-01-08T14:34:45,154 adding 'lobster/agents/transcriptomics/__init__.py' 2026-01-08T14:34:45,161 adding 'lobster/agents/transcriptomics/annotation_expert.py' 2026-01-08T14:34:45,175 adding 'lobster/agents/transcriptomics/de_analysis_expert.py' 2026-01-08T14:34:45,182 adding 'lobster/agents/transcriptomics/shared_tools.py' 2026-01-08T14:34:45,184 adding 'lobster/agents/transcriptomics/state.py' 2026-01-08T14:34:45,189 adding 'lobster/agents/transcriptomics/transcriptomics_expert.py' 2026-01-08T14:34:45,191 adding 'lobster/cli_internal/__init__.py' 2026-01-08T14:34:45,193 adding 'lobster/cli_internal/commands/__init__.py' 2026-01-08T14:34:45,195 adding 'lobster/cli_internal/commands/output_adapter.py' 2026-01-08T14:34:45,197 adding 'lobster/cli_internal/commands/heavy/__init__.py' 2026-01-08T14:34:45,199 adding 'lobster/cli_internal/commands/heavy/data_commands.py' 2026-01-08T14:34:45,201 adding 'lobster/cli_internal/commands/heavy/modality_commands.py' 2026-01-08T14:34:45,203 adding 'lobster/cli_internal/commands/heavy/visualization_commands.py' 2026-01-08T14:34:45,205 adding 'lobster/cli_internal/commands/light/__init__.py' 2026-01-08T14:34:45,208 adding 'lobster/cli_internal/commands/light/config_commands.py' 2026-01-08T14:34:45,211 adding 'lobster/cli_internal/commands/light/file_commands.py' 2026-01-08T14:34:45,213 adding 'lobster/cli_internal/commands/light/metadata_commands.py' 2026-01-08T14:34:45,215 adding 'lobster/cli_internal/commands/light/pipeline_commands.py' 2026-01-08T14:34:45,219 adding 'lobster/cli_internal/commands/light/queue_commands.py' 2026-01-08T14:34:45,222 adding 'lobster/cli_internal/commands/light/workspace_commands.py' 2026-01-08T14:34:45,224 adding 'lobster/cli_internal/utils/__init__.py' 2026-01-08T14:34:45,226 adding 'lobster/cli_internal/utils/path_resolution.py' 2026-01-08T14:34:45,228 adding 'lobster/config/__init__.py' 2026-01-08T14:34:45,230 adding 'lobster/config/agent_capabilities.py' 2026-01-08T14:34:45,234 adding 'lobster/config/agent_config.py' 2026-01-08T14:34:45,236 adding 'lobster/config/agent_registry.py' 2026-01-08T14:34:45,238 adding 'lobster/config/base_config.py' 2026-01-08T14:34:45,240 adding 'lobster/config/config_manager.py' 2026-01-08T14:34:45,241 adding 'lobster/config/constants.py' 2026-01-08T14:34:45,243 adding 'lobster/config/global_config.py' 2026-01-08T14:34:45,245 adding 'lobster/config/llm_factory.py' 2026-01-08T14:34:45,246 adding 'lobster/config/model_service.py' 2026-01-08T14:34:45,248 adding 'lobster/config/ollama_service.py' 2026-01-08T14:34:45,250 adding 'lobster/config/provider_setup.py' 2026-01-08T14:34:45,253 adding 'lobster/config/settings.py' 2026-01-08T14:34:45,255 adding 'lobster/config/ssl_setup.py' 2026-01-08T14:34:45,256 adding 'lobster/config/subscription_tiers.py' 2026-01-08T14:34:45,258 adding 'lobster/config/supervisor_config.py' 2026-01-08T14:34:45,260 adding 'lobster/config/workspace_config.py' 2026-01-08T14:34:45,262 adding 'lobster/config/providers/__init__.py' 2026-01-08T14:34:45,263 adding 'lobster/config/providers/anthropic_provider.py' 2026-01-08T14:34:45,265 adding 'lobster/config/providers/base_provider.py' 2026-01-08T14:34:45,267 adding 'lobster/config/providers/bedrock_provider.py' 2026-01-08T14:34:45,269 adding 'lobster/config/providers/gemini_provider.py' 2026-01-08T14:34:45,272 adding 'lobster/config/providers/ollama_provider.py' 2026-01-08T14:34:45,273 adding 'lobster/config/providers/registry.py' 2026-01-08T14:34:45,275 adding 'lobster/core/__init__.py' 2026-01-08T14:34:45,278 adding 'lobster/core/analysis_ir.py' 2026-01-08T14:34:45,281 adding 'lobster/core/archive_utils.py' 2026-01-08T14:34:45,290 adding 'lobster/core/client.py' 2026-01-08T14:34:45,292 adding 'lobster/core/component_registry.py' 2026-01-08T14:34:45,295 adding 'lobster/core/config_resolver.py' 2026-01-08T14:34:45,308 adding 'lobster/core/data_manager_v2.py' 2026-01-08T14:34:45,311 adding 'lobster/core/download_queue.py' 2026-01-08T14:34:45,312 adding 'lobster/core/exceptions.py' 2026-01-08T14:34:45,314 adding 'lobster/core/ir_coverage.py' 2026-01-08T14:34:45,318 adding 'lobster/core/license_manager.py' 2026-01-08T14:34:45,320 adding 'lobster/core/notebook_executor.py' 2026-01-08T14:34:45,324 adding 'lobster/core/notebook_exporter.py' 2026-01-08T14:34:45,326 adding 'lobster/core/notebook_validator.py' 2026-01-08T14:34:45,329 adding 'lobster/core/plot_manager.py' 2026-01-08T14:34:45,331 adding 'lobster/core/plugin_loader.py' 2026-01-08T14:34:45,333 adding 'lobster/core/provenance.py' 2026-01-08T14:34:45,335 adding 'lobster/core/publication_queue.py' 2026-01-08T14:34:45,337 adding 'lobster/core/queue_storage.py' 2026-01-08T14:34:45,339 adding 'lobster/core/ris_parser.py' 2026-01-08T14:34:45,341 adding 'lobster/core/workspace.py' 2026-01-08T14:34:45,343 adding 'lobster/core/adapters/__init__.py' 2026-01-08T14:34:45,345 adding 'lobster/core/adapters/base.py' 2026-01-08T14:34:45,348 adding 'lobster/core/adapters/protein_structure_adapter.py' 2026-01-08T14:34:45,351 adding 'lobster/core/adapters/proteomics_adapter.py' 2026-01-08T14:34:45,353 adding 'lobster/core/adapters/pseudobulk_adapter.py' 2026-01-08T14:34:45,357 adding 'lobster/core/adapters/transcriptomics_adapter.py' 2026-01-08T14:34:45,359 adding 'lobster/core/backends/__init__.py' 2026-01-08T14:34:45,361 adding 'lobster/core/backends/base.py' 2026-01-08T14:34:45,365 adding 'lobster/core/backends/h5ad_backend.py' 2026-01-08T14:34:45,368 adding 'lobster/core/backends/mudata_backend.py' 2026-01-08T14:34:45,369 adding 'lobster/core/identifiers/__init__.py' 2026-01-08T14:34:45,372 adding 'lobster/core/identifiers/accession_resolver.py' 2026-01-08T14:34:45,374 adding 'lobster/core/interfaces/__init__.py' 2026-01-08T14:34:45,375 adding 'lobster/core/interfaces/adapter.py' 2026-01-08T14:34:45,377 adding 'lobster/core/interfaces/backend.py' 2026-01-08T14:34:45,379 adding 'lobster/core/interfaces/base_client.py' 2026-01-08T14:34:45,381 adding 'lobster/core/interfaces/download_service.py' 2026-01-08T14:34:45,383 adding 'lobster/core/interfaces/validator.py' 2026-01-08T14:34:45,385 adding 'lobster/core/schemas/__init__.py' 2026-01-08T14:34:45,388 adding 'lobster/core/schemas/database_mappings.py' 2026-01-08T14:34:45,389 adding 'lobster/core/schemas/database_registry.py' 2026-01-08T14:34:45,391 adding 'lobster/core/schemas/download_queue.py' 2026-01-08T14:34:45,394 adding 'lobster/core/schemas/download_urls.py' 2026-01-08T14:34:45,399 adding 'lobster/core/schemas/export_schemas.py' 2026-01-08T14:34:45,403 adding 'lobster/core/schemas/metabolomics.py' 2026-01-08T14:34:45,408 adding 'lobster/core/schemas/metagenomics.py' 2026-01-08T14:34:45,411 adding 'lobster/core/schemas/protein_structure.py' 2026-01-08T14:34:45,414 adding 'lobster/core/schemas/proteomics.py' 2026-01-08T14:34:45,417 adding 'lobster/core/schemas/publication_queue.py' 2026-01-08T14:34:45,422 adding 'lobster/core/schemas/sra.py' 2026-01-08T14:34:45,429 adding 'lobster/core/schemas/transcriptomics.py' 2026-01-08T14:34:45,431 adding 'lobster/core/schemas/validation.py' 2026-01-08T14:34:45,433 adding 'lobster/core/utils/__init__.py' 2026-01-08T14:34:45,435 adding 'lobster/core/utils/h5ad_utils.py' 2026-01-08T14:34:45,437 adding 'lobster/lobster_cloud/__init__.py' 2026-01-08T14:34:45,439 adding 'lobster/lobster_cloud/client.py' 2026-01-08T14:34:45,441 adding 'lobster/services/__init__.py' 2026-01-08T14:34:45,442 adding 'lobster/services/analysis/__init__.py' 2026-01-08T14:34:45,450 adding 'lobster/services/analysis/bulk_rnaseq_service.py' 2026-01-08T14:34:45,460 adding 'lobster/services/analysis/clustering_service.py' 2026-01-08T14:34:45,464 adding 'lobster/services/analysis/differential_formula_service.py' 2026-01-08T14:34:45,470 adding 'lobster/services/analysis/enhanced_singlecell_service.py' 2026-01-08T14:34:45,474 adding 'lobster/services/analysis/pseudobulk_service.py' 2026-01-08T14:34:45,476 adding 'lobster/services/analysis/scvi_embedding_service.py' 2026-01-08T14:34:45,479 adding 'lobster/services/analysis/structure_analysis_service.py' 2026-01-08T14:34:45,481 adding 'lobster/services/data_access/__init__.py' 2026-01-08T14:34:45,489 adding 'lobster/services/data_access/content_access_service.py' 2026-01-08T14:34:45,496 adding 'lobster/services/data_access/docling_service.py' 2026-01-08T14:34:45,499 adding 'lobster/services/data_access/geo_download_service.py' 2026-01-08T14:34:45,502 adding 'lobster/services/data_access/geo_fallback_service.py' 2026-01-08T14:34:45,526 adding 'lobster/services/data_access/geo_service.py' 2026-01-08T14:34:45,531 adding 'lobster/services/data_access/massive_download_service.py' 2026-01-08T14:34:45,533 adding 'lobster/services/data_access/pride_download_service.py' 2026-01-08T14:34:45,536 adding 'lobster/services/data_access/protein_structure_fetch_service.py' 2026-01-08T14:34:45,541 adding 'lobster/services/data_access/sra_download_service.py' 2026-01-08T14:34:45,546 adding 'lobster/services/data_access/workspace_content_service.py' 2026-01-08T14:34:45,548 adding 'lobster/services/data_access/geo/__init__.py' 2026-01-08T14:34:45,549 adding 'lobster/services/data_access/geo/constants.py' 2026-01-08T14:34:45,554 adding 'lobster/services/data_access/geo/downloader.py' 2026-01-08T14:34:45,555 adding 'lobster/services/data_access/geo/facade.py' 2026-01-08T14:34:45,563 adding 'lobster/services/data_access/geo/parser.py' 2026-01-08T14:34:45,566 adding 'lobster/services/data_access/geo/strategy.py' 2026-01-08T14:34:45,567 adding 'lobster/services/data_access/geo/loaders/__init__.py' 2026-01-08T14:34:45,570 adding 'lobster/services/data_access/geo/loaders/tenx.py' 2026-01-08T14:34:45,572 adding 'lobster/services/data_access/geo/metadata/__init__.py' 2026-01-08T14:34:45,573 adding 'lobster/services/data_access/geo/sample/__init__.py' 2026-01-08T14:34:45,575 adding 'lobster/services/data_access/geo/utils/__init__.py' 2026-01-08T14:34:45,577 adding 'lobster/services/data_management/__init__.py' 2026-01-08T14:34:45,582 adding 'lobster/services/data_management/concatenation_service.py' 2026-01-08T14:34:45,585 adding 'lobster/services/data_management/modality_management_service.py' 2026-01-08T14:34:45,587 adding 'lobster/services/execution/__init__.py' 2026-01-08T14:34:45,591 adding 'lobster/services/execution/custom_code_execution_service.py' 2026-01-08T14:34:45,593 adding 'lobster/services/execution/execution_context_builder.py' 2026-01-08T14:34:45,595 adding 'lobster/services/metadata/__init__.py' 2026-01-08T14:34:45,597 adding 'lobster/services/metadata/identifier_provenance_service.py' 2026-01-08T14:34:45,601 adding 'lobster/services/metadata/manual_annotation_service.py' 2026-01-08T14:34:45,605 adding 'lobster/services/metadata/metadata_standardization_service.py' 2026-01-08T14:34:45,608 adding 'lobster/services/metadata/metadata_validation_service.py' 2026-01-08T14:34:45,610 adding 'lobster/services/metadata/sample_grouping_service.py' 2026-01-08T14:34:45,612 adding 'lobster/services/metadata/protocol_extraction/__init__.py' 2026-01-08T14:34:45,613 adding 'lobster/services/metadata/protocol_extraction/base.py' 2026-01-08T14:34:45,615 adding 'lobster/services/metadata/protocol_extraction/amplicon/__init__.py' 2026-01-08T14:34:45,617 adding 'lobster/services/metadata/protocol_extraction/amplicon/details.py' 2026-01-08T14:34:45,620 adding 'lobster/services/metadata/protocol_extraction/amplicon/service.py' 2026-01-08T14:34:45,622 adding 'lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json' 2026-01-08T14:34:45,624 adding 'lobster/services/metadata/protocol_extraction/mass_spec/__init__.py' 2026-01-08T14:34:45,625 adding 'lobster/services/metadata/protocol_extraction/mass_spec/details.py' 2026-01-08T14:34:45,626 adding 'lobster/services/metadata/protocol_extraction/mass_spec/service.py' 2026-01-08T14:34:45,628 adding 'lobster/services/metadata/protocol_extraction/rnaseq/__init__.py' 2026-01-08T14:34:45,630 adding 'lobster/services/metadata/protocol_extraction/rnaseq/details.py' 2026-01-08T14:34:45,631 adding 'lobster/services/metadata/protocol_extraction/rnaseq/service.py' 2026-01-08T14:34:45,633 adding 'lobster/services/ml/__init__.py' 2026-01-08T14:34:45,634 adding 'lobster/services/orchestration/__init__.py' 2026-01-08T14:34:45,643 adding 'lobster/services/orchestration/publication_processing_service.py' 2026-01-08T14:34:45,645 adding 'lobster/services/quality/__init__.py' 2026-01-08T14:34:45,650 adding 'lobster/services/quality/preprocessing_service.py' 2026-01-08T14:34:45,654 adding 'lobster/services/quality/quality_service.py' 2026-01-08T14:34:45,656 adding 'lobster/services/templates/__init__.py' 2026-01-08T14:34:45,660 adding 'lobster/services/templates/annotation_templates.py' 2026-01-08T14:34:45,662 adding 'lobster/services/visualization/__init__.py' 2026-01-08T14:34:45,665 adding 'lobster/services/visualization/bulk_visualization_service.py' 2026-01-08T14:34:45,669 adding 'lobster/services/visualization/pymol_visualization_service.py' 2026-01-08T14:34:45,676 adding 'lobster/services/visualization/visualization_service.py' 2026-01-08T14:34:45,679 adding 'lobster/tools/__init__.py' 2026-01-08T14:34:45,681 adding 'lobster/tools/custom_code_tool.py' 2026-01-08T14:34:45,683 adding 'lobster/tools/download_orchestrator.py' 2026-01-08T14:34:45,686 adding 'lobster/tools/enhanced_handoff_tool.py' 2026-01-08T14:34:45,688 adding 'lobster/tools/expert_handoff_manager.py' 2026-01-08T14:34:45,690 adding 'lobster/tools/expert_handoff_patterns.py' 2026-01-08T14:34:45,691 adding 'lobster/tools/geo_downloader.py' 2026-01-08T14:34:45,693 adding 'lobster/tools/geo_parser.py' 2026-01-08T14:34:45,694 adding 'lobster/tools/gpu_detector.py' 2026-01-08T14:34:45,696 adding 'lobster/tools/handoff_tool.py' 2026-01-08T14:34:45,697 adding 'lobster/tools/pipeline_strategy.py' 2026-01-08T14:34:45,701 adding 'lobster/tools/rate_limiter.py' 2026-01-08T14:34:45,703 adding 'lobster/tools/todo_tools.py' 2026-01-08T14:34:45,705 adding 'lobster/tools/url_transforms.py' 2026-01-08T14:34:45,708 adding 'lobster/tools/workflow_tracker.py' 2026-01-08T14:34:45,720 adding 'lobster/tools/workspace_tool.py' 2026-01-08T14:34:45,724 adding 'lobster/tools/archive/publication_service.py' 2026-01-08T14:34:45,727 adding 'lobster/tools/archive/unified_content_service.py' 2026-01-08T14:34:45,729 adding 'lobster/tools/providers/__init__.py' 2026-01-08T14:34:45,731 adding 'lobster/tools/providers/abstract_provider.py' 2026-01-08T14:34:45,733 adding 'lobster/tools/providers/base_provider.py' 2026-01-08T14:34:45,735 adding 'lobster/tools/providers/biopython_entrez_wrapper.py' 2026-01-08T14:34:45,737 adding 'lobster/tools/providers/biorxiv_medrxiv_config.py' 2026-01-08T14:34:45,742 adding 'lobster/tools/providers/biorxiv_medrxiv_provider.py' 2026-01-08T14:34:45,749 adding 'lobster/tools/providers/geo_provider.py' 2026-01-08T14:34:45,750 adding 'lobster/tools/providers/geo_utils.py' 2026-01-08T14:34:45,753 adding 'lobster/tools/providers/massive_provider.py' 2026-01-08T14:34:45,756 adding 'lobster/tools/providers/ncbi_query_builder.py' 2026-01-08T14:34:45,757 adding 'lobster/tools/providers/organism_enum.py' 2026-01-08T14:34:45,760 adding 'lobster/tools/providers/pdb_provider.py' 2026-01-08T14:34:45,766 adding 'lobster/tools/providers/pmc_provider.py' 2026-01-08T14:34:45,769 adding 'lobster/tools/providers/pride_normalizer.py' 2026-01-08T14:34:45,772 adding 'lobster/tools/providers/pride_provider.py' 2026-01-08T14:34:45,774 adding 'lobster/tools/providers/provider_registry.py' 2026-01-08T14:34:45,777 adding 'lobster/tools/providers/publication_resolver.py' 2026-01-08T14:34:45,786 adding 'lobster/tools/providers/pubmed_provider.py' 2026-01-08T14:34:45,793 adding 'lobster/tools/providers/sra_provider.py' 2026-01-08T14:34:45,795 adding 'lobster/tools/providers/structure_provider.py' 2026-01-08T14:34:45,797 adding 'lobster/tools/providers/webpage_provider.py' 2026-01-08T14:34:45,799 adding 'lobster/ui/__init__.py' 2026-01-08T14:34:45,802 adding 'lobster/ui/commands.py' 2026-01-08T14:34:45,804 adding 'lobster/ui/console_manager.py' 2026-01-08T14:34:45,806 adding 'lobster/ui/live_dashboard.py' 2026-01-08T14:34:45,808 adding 'lobster/ui/os_app.py' 2026-01-08T14:34:45,811 adding 'lobster/ui/progress_manager.py' 2026-01-08T14:34:45,812 adding 'lobster/ui/themes.py' 2026-01-08T14:34:45,814 adding 'lobster/ui/callbacks/__init__.py' 2026-01-08T14:34:45,817 adding 'lobster/ui/callbacks/textual_callback.py' 2026-01-08T14:34:45,819 adding 'lobster/ui/components/__init__.py' 2026-01-08T14:34:45,821 adding 'lobster/ui/components/file_tree.py' 2026-01-08T14:34:45,824 adding 'lobster/ui/components/multi_progress.py' 2026-01-08T14:34:45,825 adding 'lobster/ui/components/parallel_workers_progress.py' 2026-01-08T14:34:45,828 adding 'lobster/ui/components/status_display.py' 2026-01-08T14:34:45,830 adding 'lobster/ui/formatters/__init__.py' 2026-01-08T14:34:45,832 adding 'lobster/ui/screens/__init__.py' 2026-01-08T14:34:45,835 adding 'lobster/ui/screens/analysis_screen.py' 2026-01-08T14:34:45,837 adding 'lobster/ui/services/__init__.py' 2026-01-08T14:34:45,839 adding 'lobster/ui/services/error_service.py' 2026-01-08T14:34:45,841 adding 'lobster/ui/widgets/__init__.py' 2026-01-08T14:34:45,843 adding 'lobster/ui/widgets/activity_log.py' 2026-01-08T14:34:45,844 adding 'lobster/ui/widgets/adapters_panel.py' 2026-01-08T14:34:45,846 adding 'lobster/ui/widgets/agents_panel.py' 2026-01-08T14:34:45,847 adding 'lobster/ui/widgets/chat_message.py' 2026-01-08T14:34:45,849 adding 'lobster/ui/widgets/connections_panel.py' 2026-01-08T14:34:45,852 adding 'lobster/ui/widgets/data_hub.py' 2026-01-08T14:34:45,854 adding 'lobster/ui/widgets/error_modal.py' 2026-01-08T14:34:45,855 adding 'lobster/ui/widgets/modality_list.py' 2026-01-08T14:34:45,857 adding 'lobster/ui/widgets/plot_preview.py' 2026-01-08T14:34:45,858 adding 'lobster/ui/widgets/query_prompt.py' 2026-01-08T14:34:45,860 adding 'lobster/ui/widgets/queue_panel.py' 2026-01-08T14:34:45,861 adding 'lobster/ui/widgets/queue_status_bar.py' 2026-01-08T14:34:45,863 adding 'lobster/ui/widgets/results_display.py' 2026-01-08T14:34:45,864 adding 'lobster/ui/widgets/status_bar.py' 2026-01-08T14:34:45,866 adding 'lobster/ui/widgets/system_info.py' 2026-01-08T14:34:45,867 adding 'lobster/ui/widgets/token_usage_panel.py' 2026-01-08T14:34:45,869 adding 'lobster/utils/__init__.py' 2026-01-08T14:34:45,875 adding 'lobster/utils/callbacks.py' 2026-01-08T14:34:45,877 adding 'lobster/utils/deviance.py' 2026-01-08T14:34:45,879 adding 'lobster/utils/error_handlers.py' 2026-01-08T14:34:45,882 adding 'lobster/utils/file_analyzer.py' 2026-01-08T14:34:45,884 adding 'lobster/utils/file_naming.py' 2026-01-08T14:34:45,885 adding 'lobster/utils/json_extractor.py' 2026-01-08T14:34:45,887 adding 'lobster/utils/logger.py' 2026-01-08T14:34:45,888 adding 'lobster/utils/progress_wrapper.py' 2026-01-08T14:34:45,890 adding 'lobster/utils/ssl_utils.py' 2026-01-08T14:34:45,891 adding 'lobster/utils/system.py' 2026-01-08T14:34:45,899 adding 'lobster_ai-0.4.2.2.dist-info/licenses/LICENSE' 2026-01-08T14:34:45,901 adding 'lobster_ai-0.4.2.2.dist-info/METADATA' 2026-01-08T14:34:45,902 adding 'lobster_ai-0.4.2.2.dist-info/WHEEL' 2026-01-08T14:34:45,903 adding 'lobster_ai-0.4.2.2.dist-info/entry_points.txt' 2026-01-08T14:34:45,904 adding 'lobster_ai-0.4.2.2.dist-info/top_level.txt' 2026-01-08T14:34:45,909 adding 'lobster_ai-0.4.2.2.dist-info/RECORD' 2026-01-08T14:34:45,927 removing build/bdist.linux-armv7l/wheel 2026-01-08T14:34:46,111 Building wheel for lobster-ai (pyproject.toml): finished with status 'done' 2026-01-08T14:34:46,140 Created wheel for lobster-ai: filename=lobster_ai-0.4.2.2-py3-none-any.whl size=1362113 sha256=06f534495f7a47f94123bd0570184d14b3158e456e83f11128aef44c1830f319 2026-01-08T14:34:46,141 Stored in directory: /tmp/pip-ephem-wheel-cache-bnchq6al/wheels/09/b5/ab/2b56111910c64cd1ecd2e65fae34c4e61af8fbaa4542732d5b 2026-01-08T14:34:46,167 Successfully built lobster-ai 2026-01-08T14:34:46,217 Removed build tracker: '/tmp/pip-build-tracker-uz6b5ae7'