2026-01-07T23:48:08,944 Created temporary directory: /tmp/pip-ephem-wheel-cache-z0rjqlhg 2026-01-07T23:48:08,946 Created temporary directory: /tmp/pip-build-tracker-2gty86rz 2026-01-07T23:48:08,947 Initialized build tracking at /tmp/pip-build-tracker-2gty86rz 2026-01-07T23:48:08,947 Created build tracker: /tmp/pip-build-tracker-2gty86rz 2026-01-07T23:48:08,948 Entered build tracker: /tmp/pip-build-tracker-2gty86rz 2026-01-07T23:48:08,949 Created temporary directory: /tmp/pip-wheel-bahzdvzd 2026-01-07T23:48:08,951 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 2026-01-07T23:48:08,954 Created temporary directory: /tmp/pip-ephem-wheel-cache-inu_cmr8 2026-01-07T23:48:08,976 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-07T23:48:08,980 2 location(s) to search for versions of lobster-ai: 2026-01-07T23:48:08,980 * https://pypi.org/simple/lobster-ai/ 2026-01-07T23:48:08,980 * https://www.piwheels.org/simple/lobster-ai/ 2026-01-07T23:48:08,981 Fetching project page and analyzing links: https://pypi.org/simple/lobster-ai/ 2026-01-07T23:48:08,981 Getting page https://pypi.org/simple/lobster-ai/ 2026-01-07T23:48:08,983 Found index url https://pypi.org/simple 2026-01-07T23:48:09,194 Fetched page https://pypi.org/simple/lobster-ai/ as application/vnd.pypi.simple.v1+json 2026-01-07T23:48:09,199 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) 2026-01-07T23:48:09,200 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 2026-01-07T23:48:09,201 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) 2026-01-07T23:48:09,202 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 2026-01-07T23:48:09,202 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) 2026-01-07T23:48:09,203 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 2026-01-07T23:48:09,204 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) 2026-01-07T23:48:09,205 Found link 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https://files.pythonhosted.org/packages/fa/c6/d61c31b8779125e2a9cfbffc20fcdb7c3790c8bf64ecb3c74a9571cf1b9a/lobster_ai-0.4.1.5-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T23:48:09,211 Found link https://files.pythonhosted.org/packages/e1/fb/4535dc1c984840956291d1d24e03b91a321639f5a209aa1529becd12d0af/lobster_ai-0.4.1.5.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.1.5 2026-01-07T23:48:09,212 Skipping link: No binaries permitted for lobster-ai: https://files.pythonhosted.org/packages/ca/97/988cbb274eec6f1beb4865d431331d0881a1bff32e9c973b18331edd98ff/lobster_ai-0.4.1.6-py3-none-any.whl (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T23:48:09,213 Found link https://files.pythonhosted.org/packages/42/de/54943a601e8ecc810ab58b7d5a37b5bac1c4f3670d3ebd4004961ef0d28d/lobster_ai-0.4.1.6.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.1.6 2026-01-07T23:48:09,214 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) 2026-01-07T23:48:09,215 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 2026-01-07T23:48:09,216 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) 2026-01-07T23:48:09,217 Found link https://files.pythonhosted.org/packages/93/ab/e2ab297f8e067b57f90da724b7588bbb039f45193fa1d7c46ca06cf65d7e/lobster_ai-0.4.1.9.tar.gz (from https://pypi.org/simple/lobster-ai/) (requires-python:>=3.11), version: 0.4.1.9 2026-01-07T23:48:09,217 Fetching project page and analyzing links: https://www.piwheels.org/simple/lobster-ai/ 2026-01-07T23:48:09,218 Getting page https://www.piwheels.org/simple/lobster-ai/ 2026-01-07T23:48:09,220 Found index url https://www.piwheels.org/simple 2026-01-07T23:48:09,541 Fetched page https://www.piwheels.org/simple/lobster-ai/ as text/html 2026-01-07T23:48:09,545 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) 2026-01-07T23:48:09,546 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) 2026-01-07T23:48:09,547 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.5-py3-none-any.whl#sha256=64ab95e8749771e60d7b6869152cd847cc2fbcd49dcfa6325db68e7defad357b (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T23:48:09,548 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.4-py3-none-any.whl#sha256=a999a8b38fc5a8e803c713c25ea79bab7d44829ec37405cad04b6f2c9a7b3667 (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T23:48:09,548 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.3-py3-none-any.whl#sha256=80e2e1901c9acbae8f29a51305af7fc23762871021f86168660c0098154ea64d (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T23:48:09,548 Skipping link: No binaries permitted for lobster-ai: https://www.piwheels.org/simple/lobster-ai/lobster_ai-0.4.1.2-py3-none-any.whl#sha256=7f38e7703c88c0c7fe4811c9c7b04da6469ca264d3e261e794b0a59376ba4d0e (from https://www.piwheels.org/simple/lobster-ai/) (requires-python:>=3.11) 2026-01-07T23:48:09,549 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) 2026-01-07T23:48:09,549 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) 2026-01-07T23:48:09,550 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) 2026-01-07T23:48:09,551 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) 2026-01-07T23:48:09,551 Skipping link: not a file: https://www.piwheels.org/simple/lobster-ai/ 2026-01-07T23:48:09,552 Skipping link: not a file: https://pypi.org/simple/lobster-ai/ 2026-01-07T23:48:09,572 Given no hashes to check 1 links for project 'lobster-ai': discarding no candidates 2026-01-07T23:48:09,590 Collecting lobster-ai==0.4.1.9 2026-01-07T23:48:09,592 Created temporary directory: /tmp/pip-unpack-3fj_og8p 2026-01-07T23:48:09,804 Downloading lobster_ai-0.4.1.9.tar.gz (1.2 MB) 2026-01-07T23:48:10,927 Added lobster-ai==0.4.1.9 from https://files.pythonhosted.org/packages/93/ab/e2ab297f8e067b57f90da724b7588bbb039f45193fa1d7c46ca06cf65d7e/lobster_ai-0.4.1.9.tar.gz to build tracker '/tmp/pip-build-tracker-2gty86rz' 2026-01-07T23:48:10,936 Created temporary directory: /tmp/pip-build-env-ttrk5y2c 2026-01-07T23:48:10,940 Installing build dependencies: started 2026-01-07T23:48:10,941 Running command pip subprocess to install build dependencies 2026-01-07T23:48:12,087 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-01-07T23:48:12,678 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 2026-01-07T23:48:12,702 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-07T23:48:14,462 Collecting setuptools>=65.0 2026-01-07T23:48:14,557 Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB) 2026-01-07T23:48:14,826 Collecting wheel 2026-01-07T23:48:14,845 Using cached https://www.piwheels.org/simple/wheel/wheel-0.45.1-py3-none-any.whl (72 kB) 2026-01-07T23:48:17,840 Installing collected packages: wheel, setuptools 2026-01-07T23:48:18,086 Creating /tmp/pip-build-env-ttrk5y2c/overlay/local/bin 2026-01-07T23:48:18,089 changing mode of /tmp/pip-build-env-ttrk5y2c/overlay/local/bin/wheel to 755 2026-01-07T23:48:21,756 Successfully installed setuptools-80.9.0 wheel-0.45.1 2026-01-07T23:48:22,029 Installing build dependencies: finished with status 'done' 2026-01-07T23:48:22,035 Getting requirements to build wheel: started 2026-01-07T23:48:22,036 Running command Getting requirements to build wheel 2026-01-07T23:48:22,722 /tmp/pip-build-env-ttrk5y2c/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-07T23:48:22,722 corresp(dist, value, root_dir) 2026-01-07T23:48:22,723 /tmp/pip-build-env-ttrk5y2c/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-07T23:48:22,723 corresp(dist, value, root_dir) 2026-01-07T23:48:22,724 /tmp/pip-build-env-ttrk5y2c/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-07T23:48:22,724 corresp(dist, value, root_dir) 2026-01-07T23:48:22,834 running egg_info 2026-01-07T23:48:22,841 writing lobster_ai.egg-info/PKG-INFO 2026-01-07T23:48:22,872 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-07T23:48:22,874 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-07T23:48:22,893 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-07T23:48:22,895 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-07T23:48:23,050 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-07T23:48:23,067 adding license file 'LICENSE' 2026-01-07T23:48:23,083 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-07T23:48:23,182 Getting requirements to build wheel: finished with status 'done' 2026-01-07T23:48:23,185 Created temporary directory: /tmp/pip-modern-metadata-6oai020v 2026-01-07T23:48:23,188 Preparing metadata (pyproject.toml): started 2026-01-07T23:48:23,189 Running command Preparing metadata (pyproject.toml) 2026-01-07T23:48:23,850 /tmp/pip-build-env-ttrk5y2c/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-07T23:48:23,850 corresp(dist, value, root_dir) 2026-01-07T23:48:23,851 /tmp/pip-build-env-ttrk5y2c/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-07T23:48:23,851 corresp(dist, value, root_dir) 2026-01-07T23:48:23,852 /tmp/pip-build-env-ttrk5y2c/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-07T23:48:23,853 corresp(dist, value, root_dir) 2026-01-07T23:48:23,956 running dist_info 2026-01-07T23:48:23,968 creating /tmp/pip-modern-metadata-6oai020v/lobster_ai.egg-info 2026-01-07T23:48:23,969 writing /tmp/pip-modern-metadata-6oai020v/lobster_ai.egg-info/PKG-INFO 2026-01-07T23:48:24,000 writing dependency_links to /tmp/pip-modern-metadata-6oai020v/lobster_ai.egg-info/dependency_links.txt 2026-01-07T23:48:24,001 writing entry points to /tmp/pip-modern-metadata-6oai020v/lobster_ai.egg-info/entry_points.txt 2026-01-07T23:48:24,021 writing requirements to /tmp/pip-modern-metadata-6oai020v/lobster_ai.egg-info/requires.txt 2026-01-07T23:48:24,022 writing top-level names to /tmp/pip-modern-metadata-6oai020v/lobster_ai.egg-info/top_level.txt 2026-01-07T23:48:24,023 writing manifest file '/tmp/pip-modern-metadata-6oai020v/lobster_ai.egg-info/SOURCES.txt' 2026-01-07T23:48:24,162 reading manifest file '/tmp/pip-modern-metadata-6oai020v/lobster_ai.egg-info/SOURCES.txt' 2026-01-07T23:48:24,165 adding license file 'LICENSE' 2026-01-07T23:48:24,175 writing manifest file '/tmp/pip-modern-metadata-6oai020v/lobster_ai.egg-info/SOURCES.txt' 2026-01-07T23:48:24,177 creating '/tmp/pip-modern-metadata-6oai020v/lobster_ai-0.4.1.9.dist-info' 2026-01-07T23:48:24,309 Preparing metadata (pyproject.toml): finished with status 'done' 2026-01-07T23:48:24,316 Source in /tmp/pip-wheel-bahzdvzd/lobster-ai_c50c7ba19f4547658e16cc136249470d has version 0.4.1.9, which satisfies requirement lobster-ai==0.4.1.9 from https://files.pythonhosted.org/packages/93/ab/e2ab297f8e067b57f90da724b7588bbb039f45193fa1d7c46ca06cf65d7e/lobster_ai-0.4.1.9.tar.gz 2026-01-07T23:48:24,317 Removed lobster-ai==0.4.1.9 from https://files.pythonhosted.org/packages/93/ab/e2ab297f8e067b57f90da724b7588bbb039f45193fa1d7c46ca06cf65d7e/lobster_ai-0.4.1.9.tar.gz from build tracker '/tmp/pip-build-tracker-2gty86rz' 2026-01-07T23:48:24,327 Created temporary directory: /tmp/pip-unpack-uokgiyxq 2026-01-07T23:48:24,328 Building wheels for collected packages: lobster-ai 2026-01-07T23:48:24,333 Created temporary directory: /tmp/pip-wheel-wabddm2g 2026-01-07T23:48:24,333 Destination directory: /tmp/pip-wheel-wabddm2g 2026-01-07T23:48:24,336 Building wheel for lobster-ai (pyproject.toml): started 2026-01-07T23:48:24,337 Running command Building wheel for lobster-ai (pyproject.toml) 2026-01-07T23:48:24,948 /tmp/pip-build-env-ttrk5y2c/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `license` overwritten by `pyproject.toml` 2026-01-07T23:48:24,948 corresp(dist, value, root_dir) 2026-01-07T23:48:24,949 /tmp/pip-build-env-ttrk5y2c/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2026-01-07T23:48:24,950 corresp(dist, value, root_dir) 2026-01-07T23:48:24,950 /tmp/pip-build-env-ttrk5y2c/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsWarning: `extras_require` overwritten in `pyproject.toml` (optional-dependencies) 2026-01-07T23:48:24,951 corresp(dist, value, root_dir) 2026-01-07T23:48:25,041 running bdist_wheel 2026-01-07T23:48:25,062 running build 2026-01-07T23:48:25,063 running build_py 2026-01-07T23:48:25,070 creating build/lib/lobster 2026-01-07T23:48:25,073 copying lobster/version.py -> build/lib/lobster 2026-01-07T23:48:25,075 copying lobster/cli.py -> build/lib/lobster 2026-01-07T23:48:25,083 copying lobster/main.py -> build/lib/lobster 2026-01-07T23:48:25,086 copying lobster/__main__.py -> build/lib/lobster 2026-01-07T23:48:25,088 copying lobster/_version.py -> build/lib/lobster 2026-01-07T23:48:25,090 creating build/lib/lobster/ui 2026-01-07T23:48:25,091 copying lobster/ui/__init__.py -> build/lib/lobster/ui 2026-01-07T23:48:25,093 copying lobster/ui/commands.py -> build/lib/lobster/ui 2026-01-07T23:48:25,096 copying lobster/ui/console_manager.py -> build/lib/lobster/ui 2026-01-07T23:48:25,099 copying lobster/ui/live_dashboard.py -> build/lib/lobster/ui 2026-01-07T23:48:25,101 copying lobster/ui/os_app.py -> build/lib/lobster/ui 2026-01-07T23:48:25,104 copying lobster/ui/progress_manager.py -> build/lib/lobster/ui 2026-01-07T23:48:25,106 copying lobster/ui/themes.py -> build/lib/lobster/ui 2026-01-07T23:48:25,109 creating build/lib/lobster/services 2026-01-07T23:48:25,110 copying lobster/services/__init__.py -> build/lib/lobster/services 2026-01-07T23:48:25,113 creating build/lib/lobster/config 2026-01-07T23:48:25,113 copying lobster/config/ollama_service.py -> build/lib/lobster/config 2026-01-07T23:48:25,116 copying lobster/config/model_service.py -> build/lib/lobster/config 2026-01-07T23:48:25,118 copying lobster/config/llm_factory.py -> build/lib/lobster/config 2026-01-07T23:48:25,121 copying lobster/config/provider_setup.py -> build/lib/lobster/config 2026-01-07T23:48:25,123 copying lobster/config/__init__.py -> build/lib/lobster/config 2026-01-07T23:48:25,125 copying lobster/config/global_config.py -> build/lib/lobster/config 2026-01-07T23:48:25,127 copying lobster/config/subscription_tiers.py -> build/lib/lobster/config 2026-01-07T23:48:25,129 copying lobster/config/constants.py -> build/lib/lobster/config 2026-01-07T23:48:25,132 copying lobster/config/settings.py -> build/lib/lobster/config 2026-01-07T23:48:25,134 copying lobster/config/agent_config.py -> build/lib/lobster/config 2026-01-07T23:48:25,137 copying lobster/config/config_manager.py -> build/lib/lobster/config 2026-01-07T23:48:25,140 copying lobster/config/workspace_config.py -> build/lib/lobster/config 2026-01-07T23:48:25,142 copying lobster/config/supervisor_config.py -> build/lib/lobster/config 2026-01-07T23:48:25,144 copying lobster/config/base_config.py -> build/lib/lobster/config 2026-01-07T23:48:25,146 copying lobster/config/agent_registry.py -> build/lib/lobster/config 2026-01-07T23:48:25,149 copying lobster/config/agent_capabilities.py -> build/lib/lobster/config 2026-01-07T23:48:25,152 creating build/lib/lobster/cli_internal 2026-01-07T23:48:25,153 copying lobster/cli_internal/__init__.py -> build/lib/lobster/cli_internal 2026-01-07T23:48:25,155 creating build/lib/lobster/tools 2026-01-07T23:48:25,156 copying lobster/tools/workspace_tool.py -> build/lib/lobster/tools 2026-01-07T23:48:25,161 copying lobster/tools/todo_tools.py -> build/lib/lobster/tools 2026-01-07T23:48:25,163 copying lobster/tools/__init__.py -> build/lib/lobster/tools 2026-01-07T23:48:25,165 copying lobster/tools/handoff_tool.py -> build/lib/lobster/tools 2026-01-07T23:48:25,168 copying lobster/tools/enhanced_handoff_tool.py -> build/lib/lobster/tools 2026-01-07T23:48:25,170 copying lobster/tools/geo_parser.py -> build/lib/lobster/tools 2026-01-07T23:48:25,172 copying lobster/tools/custom_code_tool.py -> build/lib/lobster/tools 2026-01-07T23:48:25,175 copying lobster/tools/gpu_detector.py -> build/lib/lobster/tools 2026-01-07T23:48:25,177 copying lobster/tools/workflow_tracker.py -> build/lib/lobster/tools 2026-01-07T23:48:25,180 copying lobster/tools/download_orchestrator.py -> build/lib/lobster/tools 2026-01-07T23:48:25,183 copying lobster/tools/expert_handoff_patterns.py -> build/lib/lobster/tools 2026-01-07T23:48:25,186 copying lobster/tools/geo_downloader.py -> build/lib/lobster/tools 2026-01-07T23:48:25,188 copying lobster/tools/rate_limiter.py -> build/lib/lobster/tools 2026-01-07T23:48:25,191 copying lobster/tools/expert_handoff_manager.py -> build/lib/lobster/tools 2026-01-07T23:48:25,193 copying lobster/tools/pipeline_strategy.py -> build/lib/lobster/tools 2026-01-07T23:48:25,195 copying lobster/tools/url_transforms.py -> build/lib/lobster/tools 2026-01-07T23:48:25,198 creating build/lib/lobster/utils 2026-01-07T23:48:25,199 copying lobster/utils/system.py -> build/lib/lobster/utils 2026-01-07T23:48:25,202 copying lobster/utils/callbacks.py -> build/lib/lobster/utils 2026-01-07T23:48:25,205 copying lobster/utils/__init__.py -> build/lib/lobster/utils 2026-01-07T23:48:25,207 copying lobster/utils/error_handlers.py -> build/lib/lobster/utils 2026-01-07T23:48:25,210 copying lobster/utils/progress_wrapper.py -> build/lib/lobster/utils 2026-01-07T23:48:25,212 copying lobster/utils/deviance.py -> build/lib/lobster/utils 2026-01-07T23:48:25,214 copying lobster/utils/ssl_utils.py -> build/lib/lobster/utils 2026-01-07T23:48:25,216 copying lobster/utils/json_extractor.py -> build/lib/lobster/utils 2026-01-07T23:48:25,218 copying lobster/utils/file_analyzer.py -> build/lib/lobster/utils 2026-01-07T23:48:25,221 copying lobster/utils/file_naming.py -> build/lib/lobster/utils 2026-01-07T23:48:25,223 copying lobster/utils/logger.py -> build/lib/lobster/utils 2026-01-07T23:48:25,226 creating build/lib/lobster/core 2026-01-07T23:48:25,227 copying lobster/core/provenance.py -> build/lib/lobster/core 2026-01-07T23:48:25,230 copying lobster/core/plot_manager.py -> build/lib/lobster/core 2026-01-07T23:48:25,232 copying lobster/core/publication_queue.py -> build/lib/lobster/core 2026-01-07T23:48:25,235 copying lobster/core/__init__.py -> build/lib/lobster/core 2026-01-07T23:48:25,237 copying lobster/core/client.py -> build/lib/lobster/core 2026-01-07T23:48:25,242 copying lobster/core/license_manager.py -> build/lib/lobster/core 2026-01-07T23:48:25,244 copying lobster/core/exceptions.py -> build/lib/lobster/core 2026-01-07T23:48:25,247 copying lobster/core/queue_storage.py -> build/lib/lobster/core 2026-01-07T23:48:25,249 copying lobster/core/ris_parser.py -> build/lib/lobster/core 2026-01-07T23:48:25,251 copying lobster/core/notebook_validator.py -> build/lib/lobster/core 2026-01-07T23:48:25,254 copying lobster/core/data_manager_v2.py -> build/lib/lobster/core 2026-01-07T23:48:25,259 copying lobster/core/archive_utils.py -> build/lib/lobster/core 2026-01-07T23:48:25,262 copying lobster/core/workspace.py -> build/lib/lobster/core 2026-01-07T23:48:25,263 copying lobster/core/download_queue.py -> build/lib/lobster/core 2026-01-07T23:48:25,266 copying lobster/core/notebook_exporter.py -> build/lib/lobster/core 2026-01-07T23:48:25,269 copying lobster/core/ir_coverage.py -> build/lib/lobster/core 2026-01-07T23:48:25,271 copying lobster/core/plugin_loader.py -> build/lib/lobster/core 2026-01-07T23:48:25,274 copying lobster/core/analysis_ir.py -> build/lib/lobster/core 2026-01-07T23:48:25,276 copying lobster/core/config_resolver.py -> build/lib/lobster/core 2026-01-07T23:48:25,279 copying lobster/core/notebook_executor.py -> build/lib/lobster/core 2026-01-07T23:48:25,281 copying lobster/core/component_registry.py -> build/lib/lobster/core 2026-01-07T23:48:25,284 creating build/lib/lobster/lobster_cloud 2026-01-07T23:48:25,285 copying lobster/lobster_cloud/__init__.py -> build/lib/lobster/lobster_cloud 2026-01-07T23:48:25,287 copying lobster/lobster_cloud/client.py -> build/lib/lobster/lobster_cloud 2026-01-07T23:48:25,290 creating build/lib/lobster/agents 2026-01-07T23:48:25,291 copying lobster/agents/visualization_expert.py -> build/lib/lobster/agents 2026-01-07T23:48:25,294 copying lobster/agents/state.py -> build/lib/lobster/agents 2026-01-07T23:48:25,297 copying lobster/agents/research_agent.py -> build/lib/lobster/agents 2026-01-07T23:48:25,302 copying lobster/agents/__init__.py -> build/lib/lobster/agents 2026-01-07T23:48:25,304 copying lobster/agents/draw_graph.py -> build/lib/lobster/agents 2026-01-07T23:48:25,306 copying lobster/agents/data_expert_assistant.py -> build/lib/lobster/agents 2026-01-07T23:48:25,309 copying lobster/agents/supervisor.py -> build/lib/lobster/agents 2026-01-07T23:48:25,312 copying lobster/agents/graph.py -> build/lib/lobster/agents 2026-01-07T23:48:25,314 copying lobster/agents/data_expert.py -> build/lib/lobster/agents 2026-01-07T23:48:25,319 creating build/lib/lobster/ui/formatters 2026-01-07T23:48:25,320 copying lobster/ui/formatters/__init__.py -> build/lib/lobster/ui/formatters 2026-01-07T23:48:25,322 creating build/lib/lobster/ui/services 2026-01-07T23:48:25,323 copying lobster/ui/services/error_service.py -> build/lib/lobster/ui/services 2026-01-07T23:48:25,326 copying lobster/ui/services/__init__.py -> build/lib/lobster/ui/services 2026-01-07T23:48:25,328 creating build/lib/lobster/ui/callbacks 2026-01-07T23:48:25,329 copying lobster/ui/callbacks/__init__.py -> build/lib/lobster/ui/callbacks 2026-01-07T23:48:25,331 copying lobster/ui/callbacks/textual_callback.py -> build/lib/lobster/ui/callbacks 2026-01-07T23:48:25,335 creating build/lib/lobster/ui/widgets 2026-01-07T23:48:25,336 copying lobster/ui/widgets/chat_message.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,338 copying lobster/ui/widgets/data_hub.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,341 copying lobster/ui/widgets/activity_log.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,343 copying lobster/ui/widgets/plot_preview.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,346 copying lobster/ui/widgets/system_info.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,348 copying lobster/ui/widgets/agents_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,350 copying lobster/ui/widgets/queue_status_bar.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,353 copying lobster/ui/widgets/__init__.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,354 copying lobster/ui/widgets/connections_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,356 copying lobster/ui/widgets/error_modal.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,359 copying lobster/ui/widgets/queue_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,361 copying lobster/ui/widgets/results_display.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,363 copying lobster/ui/widgets/status_bar.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,365 copying lobster/ui/widgets/token_usage_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,367 copying lobster/ui/widgets/adapters_panel.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,370 copying lobster/ui/widgets/modality_list.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,372 copying lobster/ui/widgets/query_prompt.py -> build/lib/lobster/ui/widgets 2026-01-07T23:48:25,374 creating build/lib/lobster/ui/components 2026-01-07T23:48:25,375 copying lobster/ui/components/status_display.py -> build/lib/lobster/ui/components 2026-01-07T23:48:25,378 copying lobster/ui/components/multi_progress.py -> build/lib/lobster/ui/components 2026-01-07T23:48:25,381 copying lobster/ui/components/__init__.py -> build/lib/lobster/ui/components 2026-01-07T23:48:25,382 copying lobster/ui/components/file_tree.py -> build/lib/lobster/ui/components 2026-01-07T23:48:25,385 copying lobster/ui/components/parallel_workers_progress.py -> build/lib/lobster/ui/components 2026-01-07T23:48:25,388 creating build/lib/lobster/ui/screens 2026-01-07T23:48:25,389 copying lobster/ui/screens/__init__.py -> build/lib/lobster/ui/screens 2026-01-07T23:48:25,391 copying lobster/ui/screens/analysis_screen.py -> build/lib/lobster/ui/screens 2026-01-07T23:48:25,394 creating build/lib/lobster/services/visualization 2026-01-07T23:48:25,395 copying lobster/services/visualization/__init__.py -> build/lib/lobster/services/visualization 2026-01-07T23:48:25,397 copying lobster/services/visualization/pymol_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-07T23:48:25,400 copying lobster/services/visualization/bulk_visualization_service.py -> build/lib/lobster/services/visualization 2026-01-07T23:48:25,403 copying lobster/services/visualization/visualization_service.py -> build/lib/lobster/services/visualization 2026-01-07T23:48:25,407 creating build/lib/lobster/services/templates 2026-01-07T23:48:25,408 copying lobster/services/templates/__init__.py -> build/lib/lobster/services/templates 2026-01-07T23:48:25,410 copying lobster/services/templates/annotation_templates.py -> build/lib/lobster/services/templates 2026-01-07T23:48:25,414 creating build/lib/lobster/services/data_access 2026-01-07T23:48:25,415 copying lobster/services/data_access/geo_service.py -> build/lib/lobster/services/data_access 2026-01-07T23:48:25,422 copying lobster/services/data_access/sra_download_service.py -> build/lib/lobster/services/data_access 2026-01-07T23:48:25,425 copying lobster/services/data_access/content_access_service.py -> build/lib/lobster/services/data_access 2026-01-07T23:48:25,429 copying lobster/services/data_access/__init__.py -> build/lib/lobster/services/data_access 2026-01-07T23:48:25,431 copying lobster/services/data_access/protein_structure_fetch_service.py -> build/lib/lobster/services/data_access 2026-01-07T23:48:25,433 copying lobster/services/data_access/pride_download_service.py -> build/lib/lobster/services/data_access 2026-01-07T23:48:25,436 copying lobster/services/data_access/geo_fallback_service.py -> build/lib/lobster/services/data_access 2026-01-07T23:48:25,439 copying lobster/services/data_access/massive_download_service.py -> build/lib/lobster/services/data_access 2026-01-07T23:48:25,441 copying lobster/services/data_access/workspace_content_service.py -> build/lib/lobster/services/data_access 2026-01-07T23:48:25,445 copying lobster/services/data_access/docling_service.py -> build/lib/lobster/services/data_access 2026-01-07T23:48:25,449 copying lobster/services/data_access/geo_download_service.py -> build/lib/lobster/services/data_access 2026-01-07T23:48:25,452 creating build/lib/lobster/services/analysis 2026-01-07T23:48:25,453 copying lobster/services/analysis/pseudobulk_service.py -> build/lib/lobster/services/analysis 2026-01-07T23:48:25,456 copying lobster/services/analysis/__init__.py -> build/lib/lobster/services/analysis 2026-01-07T23:48:25,458 copying lobster/services/analysis/differential_formula_service.py -> build/lib/lobster/services/analysis 2026-01-07T23:48:25,461 copying lobster/services/analysis/enhanced_singlecell_service.py -> build/lib/lobster/services/analysis 2026-01-07T23:48:25,464 copying lobster/services/analysis/scvi_embedding_service.py -> build/lib/lobster/services/analysis 2026-01-07T23:48:25,467 copying lobster/services/analysis/structure_analysis_service.py -> build/lib/lobster/services/analysis 2026-01-07T23:48:25,470 copying lobster/services/analysis/clustering_service.py -> build/lib/lobster/services/analysis 2026-01-07T23:48:25,474 copying lobster/services/analysis/bulk_rnaseq_service.py -> build/lib/lobster/services/analysis 2026-01-07T23:48:25,479 creating build/lib/lobster/services/execution 2026-01-07T23:48:25,480 copying lobster/services/execution/__init__.py -> build/lib/lobster/services/execution 2026-01-07T23:48:25,482 copying lobster/services/execution/execution_context_builder.py -> build/lib/lobster/services/execution 2026-01-07T23:48:25,484 copying lobster/services/execution/custom_code_execution_service.py -> build/lib/lobster/services/execution 2026-01-07T23:48:25,488 creating build/lib/lobster/services/orchestration 2026-01-07T23:48:25,489 copying lobster/services/orchestration/__init__.py -> build/lib/lobster/services/orchestration 2026-01-07T23:48:25,491 copying lobster/services/orchestration/publication_processing_service.py -> build/lib/lobster/services/orchestration 2026-01-07T23:48:25,496 creating build/lib/lobster/services/data_management 2026-01-07T23:48:25,497 copying lobster/services/data_management/modality_management_service.py -> build/lib/lobster/services/data_management 2026-01-07T23:48:25,500 copying lobster/services/data_management/__init__.py -> build/lib/lobster/services/data_management 2026-01-07T23:48:25,502 copying lobster/services/data_management/concatenation_service.py -> build/lib/lobster/services/data_management 2026-01-07T23:48:25,506 creating build/lib/lobster/services/quality 2026-01-07T23:48:25,507 copying lobster/services/quality/preprocessing_service.py -> build/lib/lobster/services/quality 2026-01-07T23:48:25,510 copying lobster/services/quality/quality_service.py -> build/lib/lobster/services/quality 2026-01-07T23:48:25,513 copying lobster/services/quality/__init__.py -> build/lib/lobster/services/quality 2026-01-07T23:48:25,515 creating build/lib/lobster/services/ml 2026-01-07T23:48:25,516 copying lobster/services/ml/__init__.py -> build/lib/lobster/services/ml 2026-01-07T23:48:25,519 creating build/lib/lobster/services/metadata 2026-01-07T23:48:25,520 copying lobster/services/metadata/manual_annotation_service.py -> build/lib/lobster/services/metadata 2026-01-07T23:48:25,523 copying lobster/services/metadata/__init__.py -> build/lib/lobster/services/metadata 2026-01-07T23:48:25,525 copying lobster/services/metadata/metadata_standardization_service.py -> build/lib/lobster/services/metadata 2026-01-07T23:48:25,527 copying lobster/services/metadata/identifier_provenance_service.py -> build/lib/lobster/services/metadata 2026-01-07T23:48:25,530 copying lobster/services/metadata/sample_grouping_service.py -> build/lib/lobster/services/metadata 2026-01-07T23:48:25,532 copying lobster/services/metadata/metadata_validation_service.py -> build/lib/lobster/services/metadata 2026-01-07T23:48:25,535 creating build/lib/lobster/services/data_access/geo 2026-01-07T23:48:25,536 copying lobster/services/data_access/geo/strategy.py -> build/lib/lobster/services/data_access/geo 2026-01-07T23:48:25,539 copying lobster/services/data_access/geo/parser.py -> build/lib/lobster/services/data_access/geo 2026-01-07T23:48:25,543 copying lobster/services/data_access/geo/__init__.py -> build/lib/lobster/services/data_access/geo 2026-01-07T23:48:25,545 copying lobster/services/data_access/geo/constants.py -> build/lib/lobster/services/data_access/geo 2026-01-07T23:48:25,547 copying lobster/services/data_access/geo/facade.py -> build/lib/lobster/services/data_access/geo 2026-01-07T23:48:25,549 copying lobster/services/data_access/geo/downloader.py -> build/lib/lobster/services/data_access/geo 2026-01-07T23:48:25,553 creating build/lib/lobster/services/data_access/geo/loaders 2026-01-07T23:48:25,554 copying lobster/services/data_access/geo/loaders/__init__.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-07T23:48:25,556 copying lobster/services/data_access/geo/loaders/tenx.py -> build/lib/lobster/services/data_access/geo/loaders 2026-01-07T23:48:25,559 creating build/lib/lobster/services/data_access/geo/utils 2026-01-07T23:48:25,560 copying lobster/services/data_access/geo/utils/__init__.py -> build/lib/lobster/services/data_access/geo/utils 2026-01-07T23:48:25,562 creating build/lib/lobster/services/data_access/geo/sample 2026-01-07T23:48:25,563 copying lobster/services/data_access/geo/sample/__init__.py -> build/lib/lobster/services/data_access/geo/sample 2026-01-07T23:48:25,565 creating build/lib/lobster/services/data_access/geo/metadata 2026-01-07T23:48:25,566 copying lobster/services/data_access/geo/metadata/__init__.py -> build/lib/lobster/services/data_access/geo/metadata 2026-01-07T23:48:25,569 creating build/lib/lobster/services/metadata/protocol_extraction 2026-01-07T23:48:25,570 copying lobster/services/metadata/protocol_extraction/base.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-07T23:48:25,572 copying lobster/services/metadata/protocol_extraction/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction 2026-01-07T23:48:25,574 creating build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T23:48:25,575 copying lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T23:48:25,578 copying lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T23:48:25,580 copying lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/lib/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T23:48:25,582 creating build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T23:48:25,583 copying lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T23:48:25,585 copying lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T23:48:25,587 copying lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/lib/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T23:48:25,590 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T23:48:25,591 copying lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T23:48:25,593 copying lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T23:48:25,596 copying lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/lib/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T23:48:25,600 creating build/lib/lobster/config/providers 2026-01-07T23:48:25,601 copying lobster/config/providers/base_provider.py -> build/lib/lobster/config/providers 2026-01-07T23:48:25,604 copying lobster/config/providers/__init__.py -> build/lib/lobster/config/providers 2026-01-07T23:48:25,606 copying lobster/config/providers/anthropic_provider.py -> build/lib/lobster/config/providers 2026-01-07T23:48:25,609 copying lobster/config/providers/ollama_provider.py -> build/lib/lobster/config/providers 2026-01-07T23:48:25,612 copying lobster/config/providers/bedrock_provider.py -> build/lib/lobster/config/providers 2026-01-07T23:48:25,615 copying lobster/config/providers/registry.py -> build/lib/lobster/config/providers 2026-01-07T23:48:25,617 copying lobster/config/providers/gemini_provider.py -> build/lib/lobster/config/providers 2026-01-07T23:48:25,621 creating build/lib/lobster/cli_internal/utils 2026-01-07T23:48:25,622 copying lobster/cli_internal/utils/__init__.py -> build/lib/lobster/cli_internal/utils 2026-01-07T23:48:25,623 copying lobster/cli_internal/utils/path_resolution.py -> build/lib/lobster/cli_internal/utils 2026-01-07T23:48:25,626 creating build/lib/lobster/cli_internal/commands 2026-01-07T23:48:25,627 copying lobster/cli_internal/commands/__init__.py -> build/lib/lobster/cli_internal/commands 2026-01-07T23:48:25,631 copying lobster/cli_internal/commands/output_adapter.py -> build/lib/lobster/cli_internal/commands 2026-01-07T23:48:25,634 creating build/lib/lobster/cli_internal/commands/heavy 2026-01-07T23:48:25,635 copying lobster/cli_internal/commands/heavy/modality_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-07T23:48:25,638 copying lobster/cli_internal/commands/heavy/__init__.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-07T23:48:25,641 copying lobster/cli_internal/commands/heavy/visualization_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-07T23:48:25,644 copying lobster/cli_internal/commands/heavy/data_commands.py -> build/lib/lobster/cli_internal/commands/heavy 2026-01-07T23:48:25,647 creating build/lib/lobster/cli_internal/commands/light 2026-01-07T23:48:25,648 copying lobster/cli_internal/commands/light/config_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T23:48:25,651 copying lobster/cli_internal/commands/light/__init__.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T23:48:25,653 copying lobster/cli_internal/commands/light/file_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T23:48:25,656 copying lobster/cli_internal/commands/light/queue_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T23:48:25,659 copying lobster/cli_internal/commands/light/pipeline_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T23:48:25,662 copying lobster/cli_internal/commands/light/workspace_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T23:48:25,665 copying lobster/cli_internal/commands/light/metadata_commands.py -> build/lib/lobster/cli_internal/commands/light 2026-01-07T23:48:25,669 creating build/lib/lobster/tools/providers 2026-01-07T23:48:25,670 copying lobster/tools/providers/geo_provider.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,674 copying lobster/tools/providers/pride_provider.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,676 copying lobster/tools/providers/pdb_provider.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,679 copying lobster/tools/providers/pride_normalizer.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,682 copying lobster/tools/providers/ncbi_query_builder.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,685 copying lobster/tools/providers/base_provider.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,687 copying lobster/tools/providers/webpage_provider.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,690 copying lobster/tools/providers/provider_registry.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,693 copying lobster/tools/providers/__init__.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,695 copying lobster/tools/providers/massive_provider.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,698 copying lobster/tools/providers/pubmed_provider.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,703 copying lobster/tools/providers/structure_provider.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,705 copying lobster/tools/providers/organism_enum.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,708 copying lobster/tools/providers/biorxiv_medrxiv_config.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,710 copying lobster/tools/providers/publication_resolver.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,713 copying lobster/tools/providers/sra_provider.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,717 copying lobster/tools/providers/biopython_entrez_wrapper.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,719 copying lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,724 copying lobster/tools/providers/geo_utils.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,727 copying lobster/tools/providers/abstract_provider.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,730 copying lobster/tools/providers/pmc_provider.py -> build/lib/lobster/tools/providers 2026-01-07T23:48:25,736 creating build/lib/lobster/tools/archive 2026-01-07T23:48:25,737 copying lobster/tools/archive/publication_service.py -> build/lib/lobster/tools/archive 2026-01-07T23:48:25,741 copying lobster/tools/archive/unified_content_service.py -> build/lib/lobster/tools/archive 2026-01-07T23:48:25,746 creating build/lib/lobster/core/adapters 2026-01-07T23:48:25,747 copying lobster/core/adapters/base.py -> build/lib/lobster/core/adapters 2026-01-07T23:48:25,750 copying lobster/core/adapters/__init__.py -> build/lib/lobster/core/adapters 2026-01-07T23:48:25,752 copying lobster/core/adapters/transcriptomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-07T23:48:25,756 copying lobster/core/adapters/pseudobulk_adapter.py -> build/lib/lobster/core/adapters 2026-01-07T23:48:25,759 copying lobster/core/adapters/protein_structure_adapter.py -> build/lib/lobster/core/adapters 2026-01-07T23:48:25,762 copying lobster/core/adapters/proteomics_adapter.py -> build/lib/lobster/core/adapters 2026-01-07T23:48:25,766 creating build/lib/lobster/core/backends 2026-01-07T23:48:25,767 copying lobster/core/backends/mudata_backend.py -> build/lib/lobster/core/backends 2026-01-07T23:48:25,771 copying lobster/core/backends/base.py -> build/lib/lobster/core/backends 2026-01-07T23:48:25,773 copying lobster/core/backends/__init__.py -> build/lib/lobster/core/backends 2026-01-07T23:48:25,776 copying lobster/core/backends/h5ad_backend.py -> build/lib/lobster/core/backends 2026-01-07T23:48:25,780 creating build/lib/lobster/core/interfaces 2026-01-07T23:48:25,781 copying lobster/core/interfaces/backend.py -> build/lib/lobster/core/interfaces 2026-01-07T23:48:25,784 copying lobster/core/interfaces/adapter.py -> build/lib/lobster/core/interfaces 2026-01-07T23:48:25,787 copying lobster/core/interfaces/__init__.py -> build/lib/lobster/core/interfaces 2026-01-07T23:48:25,789 copying lobster/core/interfaces/download_service.py -> build/lib/lobster/core/interfaces 2026-01-07T23:48:25,792 copying lobster/core/interfaces/validator.py -> build/lib/lobster/core/interfaces 2026-01-07T23:48:25,794 copying lobster/core/interfaces/base_client.py -> build/lib/lobster/core/interfaces 2026-01-07T23:48:25,798 creating build/lib/lobster/core/utils 2026-01-07T23:48:25,799 copying lobster/core/utils/__init__.py -> build/lib/lobster/core/utils 2026-01-07T23:48:25,801 copying lobster/core/utils/h5ad_utils.py -> build/lib/lobster/core/utils 2026-01-07T23:48:25,805 creating build/lib/lobster/core/identifiers 2026-01-07T23:48:25,806 copying lobster/core/identifiers/__init__.py -> build/lib/lobster/core/identifiers 2026-01-07T23:48:25,808 copying lobster/core/identifiers/accession_resolver.py -> build/lib/lobster/core/identifiers 2026-01-07T23:48:25,812 creating build/lib/lobster/core/schemas 2026-01-07T23:48:25,814 copying lobster/core/schemas/download_urls.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,818 copying lobster/core/schemas/database_mappings.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,821 copying lobster/core/schemas/publication_queue.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,824 copying lobster/core/schemas/__init__.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,826 copying lobster/core/schemas/metagenomics.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,829 copying lobster/core/schemas/transcriptomics.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,832 copying lobster/core/schemas/database_registry.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,834 copying lobster/core/schemas/validation.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,837 copying lobster/core/schemas/sra.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,840 copying lobster/core/schemas/protein_structure.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,842 copying lobster/core/schemas/download_queue.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,845 copying lobster/core/schemas/metabolomics.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,848 copying lobster/core/schemas/proteomics.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,850 copying lobster/core/schemas/export_schemas.py -> build/lib/lobster/core/schemas 2026-01-07T23:48:25,854 creating build/lib/lobster/agents/transcriptomics 2026-01-07T23:48:25,855 copying lobster/agents/transcriptomics/annotation_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T23:48:25,858 copying lobster/agents/transcriptomics/state.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T23:48:25,860 copying lobster/agents/transcriptomics/de_analysis_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T23:48:25,864 copying lobster/agents/transcriptomics/shared_tools.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T23:48:25,867 copying lobster/agents/transcriptomics/__init__.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T23:48:25,869 copying lobster/agents/transcriptomics/transcriptomics_expert.py -> build/lib/lobster/agents/transcriptomics 2026-01-07T23:48:25,872 creating build/lib/lobster/agents/proteomics 2026-01-07T23:48:25,873 copying lobster/agents/proteomics/state.py -> build/lib/lobster/agents/proteomics 2026-01-07T23:48:25,875 copying lobster/agents/proteomics/__init__.py -> build/lib/lobster/agents/proteomics 2026-01-07T23:48:25,877 creating build/lib/lobster/agents/archive 2026-01-07T23:48:25,878 copying lobster/agents/archive/research_agent_assistant.py -> build/lib/lobster/agents/archive 2026-01-07T23:48:25,881 creating build/lib/lobster/agents/langgraph_supervisor 2026-01-07T23:48:25,882 copying lobster/agents/langgraph_supervisor/handoff.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-07T23:48:25,885 copying lobster/agents/langgraph_supervisor/__init__.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-07T23:48:25,886 copying lobster/agents/langgraph_supervisor/supervisor.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-07T23:48:25,889 copying lobster/agents/langgraph_supervisor/agent_name.py -> build/lib/lobster/agents/langgraph_supervisor 2026-01-07T23:48:25,891 running egg_info 2026-01-07T23:48:25,903 writing lobster_ai.egg-info/PKG-INFO 2026-01-07T23:48:25,933 writing dependency_links to lobster_ai.egg-info/dependency_links.txt 2026-01-07T23:48:25,934 writing entry points to lobster_ai.egg-info/entry_points.txt 2026-01-07T23:48:25,953 writing requirements to lobster_ai.egg-info/requires.txt 2026-01-07T23:48:25,954 writing top-level names to lobster_ai.egg-info/top_level.txt 2026-01-07T23:48:26,075 reading manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-07T23:48:26,091 adding license file 'LICENSE' 2026-01-07T23:48:26,105 writing manifest file 'lobster_ai.egg-info/SOURCES.txt' 2026-01-07T23:48:26,191 creating build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-07T23:48:26,192 copying lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-07T23:48:26,228 installing to build/bdist.linux-armv7l/wheel 2026-01-07T23:48:26,229 running install 2026-01-07T23:48:26,252 running install_lib 2026-01-07T23:48:26,258 creating build/bdist.linux-armv7l/wheel 2026-01-07T23:48:26,260 creating build/bdist.linux-armv7l/wheel/lobster 2026-01-07T23:48:26,261 copying build/lib/lobster/version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T23:48:26,263 copying build/lib/lobster/cli.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T23:48:26,270 creating build/bdist.linux-armv7l/wheel/lobster/ui 2026-01-07T23:48:26,272 creating build/bdist.linux-armv7l/wheel/lobster/ui/formatters 2026-01-07T23:48:26,273 copying build/lib/lobster/ui/formatters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/formatters 2026-01-07T23:48:26,275 copying build/lib/lobster/ui/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T23:48:26,276 copying build/lib/lobster/ui/commands.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T23:48:26,279 copying build/lib/lobster/ui/console_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T23:48:26,282 creating build/bdist.linux-armv7l/wheel/lobster/ui/services 2026-01-07T23:48:26,283 copying build/lib/lobster/ui/services/error_service.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-07T23:48:26,285 copying build/lib/lobster/ui/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/services 2026-01-07T23:48:26,287 copying build/lib/lobster/ui/live_dashboard.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T23:48:26,290 creating build/bdist.linux-armv7l/wheel/lobster/ui/callbacks 2026-01-07T23:48:26,291 copying build/lib/lobster/ui/callbacks/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-07T23:48:26,294 copying build/lib/lobster/ui/callbacks/textual_callback.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/callbacks 2026-01-07T23:48:26,296 copying build/lib/lobster/ui/os_app.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T23:48:26,299 creating build/bdist.linux-armv7l/wheel/lobster/ui/widgets 2026-01-07T23:48:26,300 copying build/lib/lobster/ui/widgets/chat_message.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,302 copying build/lib/lobster/ui/widgets/data_hub.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,304 copying build/lib/lobster/ui/widgets/activity_log.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,306 copying build/lib/lobster/ui/widgets/plot_preview.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,309 copying build/lib/lobster/ui/widgets/system_info.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,311 copying build/lib/lobster/ui/widgets/agents_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,313 copying build/lib/lobster/ui/widgets/queue_status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,315 copying build/lib/lobster/ui/widgets/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,317 copying build/lib/lobster/ui/widgets/connections_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,319 copying build/lib/lobster/ui/widgets/error_modal.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,321 copying build/lib/lobster/ui/widgets/queue_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,323 copying build/lib/lobster/ui/widgets/results_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,324 copying build/lib/lobster/ui/widgets/status_bar.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,327 copying build/lib/lobster/ui/widgets/token_usage_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,329 copying build/lib/lobster/ui/widgets/adapters_panel.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,331 copying build/lib/lobster/ui/widgets/modality_list.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,333 copying build/lib/lobster/ui/widgets/query_prompt.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/widgets 2026-01-07T23:48:26,335 creating build/bdist.linux-armv7l/wheel/lobster/ui/components 2026-01-07T23:48:26,336 copying build/lib/lobster/ui/components/status_display.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T23:48:26,339 copying build/lib/lobster/ui/components/multi_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T23:48:26,341 copying build/lib/lobster/ui/components/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T23:48:26,343 copying build/lib/lobster/ui/components/file_tree.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T23:48:26,346 copying build/lib/lobster/ui/components/parallel_workers_progress.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/components 2026-01-07T23:48:26,349 creating build/bdist.linux-armv7l/wheel/lobster/ui/screens 2026-01-07T23:48:26,350 copying build/lib/lobster/ui/screens/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-07T23:48:26,352 copying build/lib/lobster/ui/screens/analysis_screen.py -> build/bdist.linux-armv7l/wheel/./lobster/ui/screens 2026-01-07T23:48:26,354 copying build/lib/lobster/ui/progress_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T23:48:26,357 copying build/lib/lobster/ui/themes.py -> build/bdist.linux-armv7l/wheel/./lobster/ui 2026-01-07T23:48:26,360 creating build/bdist.linux-armv7l/wheel/lobster/services 2026-01-07T23:48:26,361 creating build/bdist.linux-armv7l/wheel/lobster/services/visualization 2026-01-07T23:48:26,362 copying build/lib/lobster/services/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-07T23:48:26,364 copying build/lib/lobster/services/visualization/pymol_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-07T23:48:26,367 copying build/lib/lobster/services/visualization/bulk_visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-07T23:48:26,370 copying build/lib/lobster/services/visualization/visualization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/visualization 2026-01-07T23:48:26,373 copying build/lib/lobster/services/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services 2026-01-07T23:48:26,375 creating build/bdist.linux-armv7l/wheel/lobster/services/templates 2026-01-07T23:48:26,376 copying build/lib/lobster/services/templates/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-07T23:48:26,378 copying build/lib/lobster/services/templates/annotation_templates.py -> build/bdist.linux-armv7l/wheel/./lobster/services/templates 2026-01-07T23:48:26,381 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access 2026-01-07T23:48:26,382 copying build/lib/lobster/services/data_access/geo_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T23:48:26,389 copying build/lib/lobster/services/data_access/sra_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T23:48:26,392 copying build/lib/lobster/services/data_access/content_access_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T23:48:26,396 copying build/lib/lobster/services/data_access/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T23:48:26,397 copying build/lib/lobster/services/data_access/protein_structure_fetch_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T23:48:26,400 copying build/lib/lobster/services/data_access/pride_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T23:48:26,402 copying build/lib/lobster/services/data_access/geo_fallback_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T23:48:26,405 copying build/lib/lobster/services/data_access/massive_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T23:48:26,407 copying build/lib/lobster/services/data_access/workspace_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T23:48:26,411 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo 2026-01-07T23:48:26,412 copying build/lib/lobster/services/data_access/geo/strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T23:48:26,414 copying build/lib/lobster/services/data_access/geo/parser.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T23:48:26,418 copying build/lib/lobster/services/data_access/geo/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T23:48:26,420 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/loaders 2026-01-07T23:48:26,421 copying build/lib/lobster/services/data_access/geo/loaders/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-07T23:48:26,423 copying build/lib/lobster/services/data_access/geo/loaders/tenx.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/loaders 2026-01-07T23:48:26,426 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/utils 2026-01-07T23:48:26,427 copying build/lib/lobster/services/data_access/geo/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/utils 2026-01-07T23:48:26,429 copying build/lib/lobster/services/data_access/geo/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T23:48:26,431 copying build/lib/lobster/services/data_access/geo/facade.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T23:48:26,433 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/sample 2026-01-07T23:48:26,434 copying build/lib/lobster/services/data_access/geo/sample/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/sample 2026-01-07T23:48:26,437 creating build/bdist.linux-armv7l/wheel/lobster/services/data_access/geo/metadata 2026-01-07T23:48:26,438 copying build/lib/lobster/services/data_access/geo/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo/metadata 2026-01-07T23:48:26,440 copying build/lib/lobster/services/data_access/geo/downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access/geo 2026-01-07T23:48:26,443 copying build/lib/lobster/services/data_access/docling_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T23:48:26,446 copying build/lib/lobster/services/data_access/geo_download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_access 2026-01-07T23:48:26,449 creating build/bdist.linux-armv7l/wheel/lobster/services/analysis 2026-01-07T23:48:26,450 copying build/lib/lobster/services/analysis/pseudobulk_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T23:48:26,452 copying build/lib/lobster/services/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T23:48:26,454 copying build/lib/lobster/services/analysis/differential_formula_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T23:48:26,457 copying build/lib/lobster/services/analysis/enhanced_singlecell_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T23:48:26,460 copying build/lib/lobster/services/analysis/scvi_embedding_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T23:48:26,462 copying build/lib/lobster/services/analysis/structure_analysis_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T23:48:26,465 copying build/lib/lobster/services/analysis/clustering_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T23:48:26,468 copying build/lib/lobster/services/analysis/bulk_rnaseq_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/analysis 2026-01-07T23:48:26,473 creating build/bdist.linux-armv7l/wheel/lobster/services/execution 2026-01-07T23:48:26,474 copying build/lib/lobster/services/execution/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-07T23:48:26,476 copying build/lib/lobster/services/execution/execution_context_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-07T23:48:26,479 copying build/lib/lobster/services/execution/custom_code_execution_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/execution 2026-01-07T23:48:26,483 creating build/bdist.linux-armv7l/wheel/lobster/services/orchestration 2026-01-07T23:48:26,484 copying build/lib/lobster/services/orchestration/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-07T23:48:26,486 copying build/lib/lobster/services/orchestration/publication_processing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/orchestration 2026-01-07T23:48:26,491 creating build/bdist.linux-armv7l/wheel/lobster/services/data_management 2026-01-07T23:48:26,492 copying build/lib/lobster/services/data_management/modality_management_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-07T23:48:26,496 copying build/lib/lobster/services/data_management/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-07T23:48:26,498 copying build/lib/lobster/services/data_management/concatenation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/data_management 2026-01-07T23:48:26,502 creating build/bdist.linux-armv7l/wheel/lobster/services/quality 2026-01-07T23:48:26,503 copying build/lib/lobster/services/quality/preprocessing_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-07T23:48:26,507 copying build/lib/lobster/services/quality/quality_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-07T23:48:26,511 copying build/lib/lobster/services/quality/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/quality 2026-01-07T23:48:26,514 creating build/bdist.linux-armv7l/wheel/lobster/services/ml 2026-01-07T23:48:26,515 copying build/lib/lobster/services/ml/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/ml 2026-01-07T23:48:26,518 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata 2026-01-07T23:48:26,520 copying build/lib/lobster/services/metadata/manual_annotation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T23:48:26,523 copying build/lib/lobster/services/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T23:48:26,526 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction 2026-01-07T23:48:26,527 copying build/lib/lobster/services/metadata/protocol_extraction/base.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-07T23:48:26,530 copying build/lib/lobster/services/metadata/protocol_extraction/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction 2026-01-07T23:48:26,533 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T23:48:26,534 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T23:48:26,536 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T23:48:26,538 copying build/lib/lobster/services/metadata/protocol_extraction/rnaseq/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/rnaseq 2026-01-07T23:48:26,542 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T23:48:26,543 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T23:48:26,545 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T23:48:26,548 copying build/lib/lobster/services/metadata/protocol_extraction/mass_spec/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/mass_spec 2026-01-07T23:48:26,550 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T23:48:26,552 creating build/bdist.linux-armv7l/wheel/lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-07T23:48:26,554 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon/resources 2026-01-07T23:48:26,557 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T23:48:26,559 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T23:48:26,562 copying build/lib/lobster/services/metadata/protocol_extraction/amplicon/details.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata/protocol_extraction/amplicon 2026-01-07T23:48:26,565 copying build/lib/lobster/services/metadata/metadata_standardization_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T23:48:26,568 copying build/lib/lobster/services/metadata/identifier_provenance_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T23:48:26,570 copying build/lib/lobster/services/metadata/sample_grouping_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T23:48:26,573 copying build/lib/lobster/services/metadata/metadata_validation_service.py -> build/bdist.linux-armv7l/wheel/./lobster/services/metadata 2026-01-07T23:48:26,577 creating build/bdist.linux-armv7l/wheel/lobster/config 2026-01-07T23:48:26,578 copying build/lib/lobster/config/ollama_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,580 copying build/lib/lobster/config/model_service.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,583 copying build/lib/lobster/config/llm_factory.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,586 copying build/lib/lobster/config/provider_setup.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,589 copying build/lib/lobster/config/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,591 copying build/lib/lobster/config/global_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,594 creating build/bdist.linux-armv7l/wheel/lobster/config/providers 2026-01-07T23:48:26,596 copying build/lib/lobster/config/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T23:48:26,598 copying build/lib/lobster/config/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T23:48:26,600 copying build/lib/lobster/config/providers/anthropic_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T23:48:26,603 copying build/lib/lobster/config/providers/ollama_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T23:48:26,606 copying build/lib/lobster/config/providers/bedrock_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T23:48:26,609 copying build/lib/lobster/config/providers/registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T23:48:26,612 copying build/lib/lobster/config/providers/gemini_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/config/providers 2026-01-07T23:48:26,614 copying build/lib/lobster/config/subscription_tiers.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,617 copying build/lib/lobster/config/constants.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,619 copying build/lib/lobster/config/settings.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,622 copying build/lib/lobster/config/agent_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,625 copying build/lib/lobster/config/config_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,628 copying build/lib/lobster/config/workspace_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,631 copying build/lib/lobster/config/supervisor_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,634 copying build/lib/lobster/config/base_config.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,636 copying build/lib/lobster/config/agent_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,639 copying build/lib/lobster/config/agent_capabilities.py -> build/bdist.linux-armv7l/wheel/./lobster/config 2026-01-07T23:48:26,642 copying build/lib/lobster/main.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T23:48:26,644 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal 2026-01-07T23:48:26,646 copying build/lib/lobster/cli_internal/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal 2026-01-07T23:48:26,649 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/utils 2026-01-07T23:48:26,650 copying build/lib/lobster/cli_internal/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-07T23:48:26,652 copying build/lib/lobster/cli_internal/utils/path_resolution.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/utils 2026-01-07T23:48:26,656 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands 2026-01-07T23:48:26,657 copying build/lib/lobster/cli_internal/commands/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-07T23:48:26,661 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/heavy 2026-01-07T23:48:26,662 copying build/lib/lobster/cli_internal/commands/heavy/modality_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-07T23:48:26,665 copying build/lib/lobster/cli_internal/commands/heavy/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-07T23:48:26,667 copying build/lib/lobster/cli_internal/commands/heavy/visualization_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-07T23:48:26,670 copying build/lib/lobster/cli_internal/commands/heavy/data_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/heavy 2026-01-07T23:48:26,673 creating build/bdist.linux-armv7l/wheel/lobster/cli_internal/commands/light 2026-01-07T23:48:26,674 copying build/lib/lobster/cli_internal/commands/light/config_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T23:48:26,678 copying build/lib/lobster/cli_internal/commands/light/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T23:48:26,680 copying build/lib/lobster/cli_internal/commands/light/file_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T23:48:26,683 copying build/lib/lobster/cli_internal/commands/light/queue_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T23:48:26,686 copying build/lib/lobster/cli_internal/commands/light/pipeline_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T23:48:26,688 copying build/lib/lobster/cli_internal/commands/light/workspace_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T23:48:26,691 copying build/lib/lobster/cli_internal/commands/light/metadata_commands.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands/light 2026-01-07T23:48:26,694 copying build/lib/lobster/cli_internal/commands/output_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/cli_internal/commands 2026-01-07T23:48:26,697 creating build/bdist.linux-armv7l/wheel/lobster/tools 2026-01-07T23:48:26,699 copying build/lib/lobster/tools/workspace_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,703 copying build/lib/lobster/tools/todo_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,706 copying build/lib/lobster/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,708 copying build/lib/lobster/tools/handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,710 copying build/lib/lobster/tools/enhanced_handoff_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,714 creating build/bdist.linux-armv7l/wheel/lobster/tools/providers 2026-01-07T23:48:26,716 copying build/lib/lobster/tools/providers/geo_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,719 copying build/lib/lobster/tools/providers/pride_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,722 copying build/lib/lobster/tools/providers/pdb_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,725 copying build/lib/lobster/tools/providers/pride_normalizer.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,728 copying build/lib/lobster/tools/providers/ncbi_query_builder.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,731 copying build/lib/lobster/tools/providers/base_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,734 copying build/lib/lobster/tools/providers/webpage_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,737 copying build/lib/lobster/tools/providers/provider_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,739 copying build/lib/lobster/tools/providers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,741 copying build/lib/lobster/tools/providers/massive_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,743 copying build/lib/lobster/tools/providers/pubmed_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,747 copying build/lib/lobster/tools/providers/structure_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,749 copying build/lib/lobster/tools/providers/organism_enum.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,752 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_config.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,753 copying build/lib/lobster/tools/providers/publication_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,756 copying build/lib/lobster/tools/providers/sra_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,759 copying build/lib/lobster/tools/providers/biopython_entrez_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,762 copying build/lib/lobster/tools/providers/biorxiv_medrxiv_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,765 copying build/lib/lobster/tools/providers/geo_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,767 copying build/lib/lobster/tools/providers/abstract_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,770 copying build/lib/lobster/tools/providers/pmc_provider.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/providers 2026-01-07T23:48:26,773 copying build/lib/lobster/tools/geo_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,775 copying build/lib/lobster/tools/custom_code_tool.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,778 copying build/lib/lobster/tools/gpu_detector.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,780 copying build/lib/lobster/tools/workflow_tracker.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,783 copying build/lib/lobster/tools/download_orchestrator.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,786 copying build/lib/lobster/tools/expert_handoff_patterns.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,789 copying build/lib/lobster/tools/geo_downloader.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,791 copying build/lib/lobster/tools/rate_limiter.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,794 copying build/lib/lobster/tools/expert_handoff_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,798 creating build/bdist.linux-armv7l/wheel/lobster/tools/archive 2026-01-07T23:48:26,799 copying build/lib/lobster/tools/archive/publication_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-07T23:48:26,802 copying build/lib/lobster/tools/archive/unified_content_service.py -> build/bdist.linux-armv7l/wheel/./lobster/tools/archive 2026-01-07T23:48:26,805 copying build/lib/lobster/tools/pipeline_strategy.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,807 copying build/lib/lobster/tools/url_transforms.py -> build/bdist.linux-armv7l/wheel/./lobster/tools 2026-01-07T23:48:26,809 creating build/bdist.linux-armv7l/wheel/lobster/utils 2026-01-07T23:48:26,810 copying build/lib/lobster/utils/system.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T23:48:26,813 copying build/lib/lobster/utils/callbacks.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T23:48:26,816 copying build/lib/lobster/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T23:48:26,818 copying build/lib/lobster/utils/error_handlers.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T23:48:26,821 copying build/lib/lobster/utils/progress_wrapper.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T23:48:26,824 copying build/lib/lobster/utils/deviance.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T23:48:26,826 copying build/lib/lobster/utils/ssl_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T23:48:26,828 copying build/lib/lobster/utils/json_extractor.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T23:48:26,831 copying build/lib/lobster/utils/file_analyzer.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T23:48:26,834 copying build/lib/lobster/utils/file_naming.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T23:48:26,836 copying build/lib/lobster/utils/logger.py -> build/bdist.linux-armv7l/wheel/./lobster/utils 2026-01-07T23:48:26,839 creating build/bdist.linux-armv7l/wheel/lobster/core 2026-01-07T23:48:26,840 copying build/lib/lobster/core/provenance.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,843 creating build/bdist.linux-armv7l/wheel/lobster/core/adapters 2026-01-07T23:48:26,845 copying build/lib/lobster/core/adapters/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T23:48:26,848 copying build/lib/lobster/core/adapters/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T23:48:26,849 copying build/lib/lobster/core/adapters/transcriptomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T23:48:26,852 copying build/lib/lobster/core/adapters/pseudobulk_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T23:48:26,855 copying build/lib/lobster/core/adapters/protein_structure_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T23:48:26,857 copying build/lib/lobster/core/adapters/proteomics_adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/adapters 2026-01-07T23:48:26,860 copying build/lib/lobster/core/plot_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,863 copying build/lib/lobster/core/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,865 copying build/lib/lobster/core/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,867 copying build/lib/lobster/core/client.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,872 copying build/lib/lobster/core/license_manager.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,875 copying build/lib/lobster/core/exceptions.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,877 copying build/lib/lobster/core/queue_storage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,879 copying build/lib/lobster/core/ris_parser.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,881 copying build/lib/lobster/core/notebook_validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,884 copying build/lib/lobster/core/data_manager_v2.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,888 copying build/lib/lobster/core/archive_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,891 creating build/bdist.linux-armv7l/wheel/lobster/core/backends 2026-01-07T23:48:26,892 copying build/lib/lobster/core/backends/mudata_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-07T23:48:26,895 copying build/lib/lobster/core/backends/base.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-07T23:48:26,897 copying build/lib/lobster/core/backends/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-07T23:48:26,899 copying build/lib/lobster/core/backends/h5ad_backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/backends 2026-01-07T23:48:26,902 creating build/bdist.linux-armv7l/wheel/lobster/core/interfaces 2026-01-07T23:48:26,903 copying build/lib/lobster/core/interfaces/backend.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T23:48:26,905 copying build/lib/lobster/core/interfaces/adapter.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T23:48:26,908 copying build/lib/lobster/core/interfaces/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T23:48:26,910 copying build/lib/lobster/core/interfaces/download_service.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T23:48:26,912 copying build/lib/lobster/core/interfaces/validator.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T23:48:26,914 copying build/lib/lobster/core/interfaces/base_client.py -> build/bdist.linux-armv7l/wheel/./lobster/core/interfaces 2026-01-07T23:48:26,917 creating build/bdist.linux-armv7l/wheel/lobster/core/utils 2026-01-07T23:48:26,918 copying build/lib/lobster/core/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-07T23:48:26,920 copying build/lib/lobster/core/utils/h5ad_utils.py -> build/bdist.linux-armv7l/wheel/./lobster/core/utils 2026-01-07T23:48:26,923 creating build/bdist.linux-armv7l/wheel/lobster/core/identifiers 2026-01-07T23:48:26,924 copying build/lib/lobster/core/identifiers/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-07T23:48:26,926 copying build/lib/lobster/core/identifiers/accession_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core/identifiers 2026-01-07T23:48:26,929 copying build/lib/lobster/core/workspace.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,931 copying build/lib/lobster/core/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,933 copying build/lib/lobster/core/notebook_exporter.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,936 copying build/lib/lobster/core/ir_coverage.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,938 copying build/lib/lobster/core/plugin_loader.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,941 copying build/lib/lobster/core/analysis_ir.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,943 copying build/lib/lobster/core/config_resolver.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,946 copying build/lib/lobster/core/notebook_executor.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,949 creating build/bdist.linux-armv7l/wheel/lobster/core/schemas 2026-01-07T23:48:26,950 copying build/lib/lobster/core/schemas/download_urls.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,952 copying build/lib/lobster/core/schemas/database_mappings.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,955 copying build/lib/lobster/core/schemas/publication_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,958 copying build/lib/lobster/core/schemas/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,959 copying build/lib/lobster/core/schemas/metagenomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,962 copying build/lib/lobster/core/schemas/transcriptomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,966 copying build/lib/lobster/core/schemas/database_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,968 copying build/lib/lobster/core/schemas/validation.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,971 copying build/lib/lobster/core/schemas/sra.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,974 copying build/lib/lobster/core/schemas/protein_structure.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,976 copying build/lib/lobster/core/schemas/download_queue.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,979 copying build/lib/lobster/core/schemas/metabolomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,981 copying build/lib/lobster/core/schemas/proteomics.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,984 copying build/lib/lobster/core/schemas/export_schemas.py -> build/bdist.linux-armv7l/wheel/./lobster/core/schemas 2026-01-07T23:48:26,987 copying build/lib/lobster/core/component_registry.py -> build/bdist.linux-armv7l/wheel/./lobster/core 2026-01-07T23:48:26,990 creating build/bdist.linux-armv7l/wheel/lobster/lobster_cloud 2026-01-07T23:48:26,991 copying build/lib/lobster/lobster_cloud/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-07T23:48:26,993 copying build/lib/lobster/lobster_cloud/client.py -> build/bdist.linux-armv7l/wheel/./lobster/lobster_cloud 2026-01-07T23:48:26,995 copying build/lib/lobster/__main__.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T23:48:26,997 copying build/lib/lobster/_version.py -> build/bdist.linux-armv7l/wheel/./lobster 2026-01-07T23:48:26,999 creating build/bdist.linux-armv7l/wheel/lobster/agents 2026-01-07T23:48:27,000 copying build/lib/lobster/agents/visualization_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T23:48:27,003 copying build/lib/lobster/agents/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T23:48:27,006 copying build/lib/lobster/agents/research_agent.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T23:48:27,011 copying build/lib/lobster/agents/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T23:48:27,013 creating build/bdist.linux-armv7l/wheel/lobster/agents/transcriptomics 2026-01-07T23:48:27,014 copying build/lib/lobster/agents/transcriptomics/annotation_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T23:48:27,017 copying build/lib/lobster/agents/transcriptomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T23:48:27,019 copying build/lib/lobster/agents/transcriptomics/de_analysis_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T23:48:27,023 copying build/lib/lobster/agents/transcriptomics/shared_tools.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T23:48:27,026 copying build/lib/lobster/agents/transcriptomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T23:48:27,028 copying build/lib/lobster/agents/transcriptomics/transcriptomics_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/transcriptomics 2026-01-07T23:48:27,032 copying build/lib/lobster/agents/draw_graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T23:48:27,034 copying build/lib/lobster/agents/data_expert_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T23:48:27,038 copying build/lib/lobster/agents/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T23:48:27,041 copying build/lib/lobster/agents/graph.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T23:48:27,044 creating build/bdist.linux-armv7l/wheel/lobster/agents/proteomics 2026-01-07T23:48:27,045 copying build/lib/lobster/agents/proteomics/state.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-07T23:48:27,047 copying build/lib/lobster/agents/proteomics/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/proteomics 2026-01-07T23:48:27,049 copying build/lib/lobster/agents/data_expert.py -> build/bdist.linux-armv7l/wheel/./lobster/agents 2026-01-07T23:48:27,053 creating build/bdist.linux-armv7l/wheel/lobster/agents/archive 2026-01-07T23:48:27,054 copying build/lib/lobster/agents/archive/research_agent_assistant.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/archive 2026-01-07T23:48:27,057 creating build/bdist.linux-armv7l/wheel/lobster/agents/langgraph_supervisor 2026-01-07T23:48:27,058 copying build/lib/lobster/agents/langgraph_supervisor/handoff.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-07T23:48:27,061 copying build/lib/lobster/agents/langgraph_supervisor/__init__.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-07T23:48:27,063 copying build/lib/lobster/agents/langgraph_supervisor/supervisor.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-07T23:48:27,065 copying build/lib/lobster/agents/langgraph_supervisor/agent_name.py -> build/bdist.linux-armv7l/wheel/./lobster/agents/langgraph_supervisor 2026-01-07T23:48:27,067 running install_egg_info 2026-01-07T23:48:27,073 Copying lobster_ai.egg-info to build/bdist.linux-armv7l/wheel/./lobster_ai-0.4.1.9-py3.11.egg-info 2026-01-07T23:48:27,087 running install_scripts 2026-01-07T23:48:27,102 creating build/bdist.linux-armv7l/wheel/lobster_ai-0.4.1.9.dist-info/WHEEL 2026-01-07T23:48:27,104 creating '/tmp/pip-wheel-wabddm2g/.tmp-rov0ywhj/lobster_ai-0.4.1.9-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-01-07T23:48:27,107 adding 'lobster/__main__.py' 2026-01-07T23:48:27,108 adding 'lobster/_version.py' 2026-01-07T23:48:27,136 adding 'lobster/cli.py' 2026-01-07T23:48:27,139 adding 'lobster/main.py' 2026-01-07T23:48:27,140 adding 'lobster/version.py' 2026-01-07T23:48:27,142 adding 'lobster/agents/__init__.py' 2026-01-07T23:48:27,150 adding 'lobster/agents/data_expert.py' 2026-01-07T23:48:27,155 adding 'lobster/agents/data_expert_assistant.py' 2026-01-07T23:48:27,157 adding 'lobster/agents/draw_graph.py' 2026-01-07T23:48:27,160 adding 'lobster/agents/graph.py' 2026-01-07T23:48:27,174 adding 'lobster/agents/research_agent.py' 2026-01-07T23:48:27,177 adding 'lobster/agents/state.py' 2026-01-07T23:48:27,182 adding 'lobster/agents/supervisor.py' 2026-01-07T23:48:27,186 adding 'lobster/agents/visualization_expert.py' 2026-01-07T23:48:27,188 adding 'lobster/agents/archive/research_agent_assistant.py' 2026-01-07T23:48:27,191 adding 'lobster/agents/langgraph_supervisor/__init__.py' 2026-01-07T23:48:27,192 adding 'lobster/agents/langgraph_supervisor/agent_name.py' 2026-01-07T23:48:27,195 adding 'lobster/agents/langgraph_supervisor/handoff.py' 2026-01-07T23:48:27,198 adding 'lobster/agents/langgraph_supervisor/supervisor.py' 2026-01-07T23:48:27,201 adding 'lobster/agents/proteomics/__init__.py' 2026-01-07T23:48:27,202 adding 'lobster/agents/proteomics/state.py' 2026-01-07T23:48:27,204 adding 'lobster/agents/transcriptomics/__init__.py' 2026-01-07T23:48:27,209 adding 'lobster/agents/transcriptomics/annotation_expert.py' 2026-01-07T23:48:27,218 adding 'lobster/agents/transcriptomics/de_analysis_expert.py' 2026-01-07T23:48:27,222 adding 'lobster/agents/transcriptomics/shared_tools.py' 2026-01-07T23:48:27,223 adding 'lobster/agents/transcriptomics/state.py' 2026-01-07T23:48:27,229 adding 'lobster/agents/transcriptomics/transcriptomics_expert.py' 2026-01-07T23:48:27,231 adding 'lobster/cli_internal/__init__.py' 2026-01-07T23:48:27,235 adding 'lobster/cli_internal/commands/__init__.py' 2026-01-07T23:48:27,238 adding 'lobster/cli_internal/commands/output_adapter.py' 2026-01-07T23:48:27,241 adding 'lobster/cli_internal/commands/heavy/__init__.py' 2026-01-07T23:48:27,243 adding 'lobster/cli_internal/commands/heavy/data_commands.py' 2026-01-07T23:48:27,247 adding 'lobster/cli_internal/commands/heavy/modality_commands.py' 2026-01-07T23:48:27,250 adding 'lobster/cli_internal/commands/heavy/visualization_commands.py' 2026-01-07T23:48:27,253 adding 'lobster/cli_internal/commands/light/__init__.py' 2026-01-07T23:48:27,257 adding 'lobster/cli_internal/commands/light/config_commands.py' 2026-01-07T23:48:27,262 adding 'lobster/cli_internal/commands/light/file_commands.py' 2026-01-07T23:48:27,265 adding 'lobster/cli_internal/commands/light/metadata_commands.py' 2026-01-07T23:48:27,267 adding 'lobster/cli_internal/commands/light/pipeline_commands.py' 2026-01-07T23:48:27,272 adding 'lobster/cli_internal/commands/light/queue_commands.py' 2026-01-07T23:48:27,277 adding 'lobster/cli_internal/commands/light/workspace_commands.py' 2026-01-07T23:48:27,280 adding 'lobster/cli_internal/utils/__init__.py' 2026-01-07T23:48:27,283 adding 'lobster/cli_internal/utils/path_resolution.py' 2026-01-07T23:48:27,285 adding 'lobster/config/__init__.py' 2026-01-07T23:48:27,288 adding 'lobster/config/agent_capabilities.py' 2026-01-07T23:48:27,292 adding 'lobster/config/agent_config.py' 2026-01-07T23:48:27,296 adding 'lobster/config/agent_registry.py' 2026-01-07T23:48:27,298 adding 'lobster/config/base_config.py' 2026-01-07T23:48:27,301 adding 'lobster/config/config_manager.py' 2026-01-07T23:48:27,303 adding 'lobster/config/constants.py' 2026-01-07T23:48:27,305 adding 'lobster/config/global_config.py' 2026-01-07T23:48:27,308 adding 'lobster/config/llm_factory.py' 2026-01-07T23:48:27,311 adding 'lobster/config/model_service.py' 2026-01-07T23:48:27,314 adding 'lobster/config/ollama_service.py' 2026-01-07T23:48:27,316 adding 'lobster/config/provider_setup.py' 2026-01-07T23:48:27,319 adding 'lobster/config/settings.py' 2026-01-07T23:48:27,322 adding 'lobster/config/subscription_tiers.py' 2026-01-07T23:48:27,324 adding 'lobster/config/supervisor_config.py' 2026-01-07T23:48:27,326 adding 'lobster/config/workspace_config.py' 2026-01-07T23:48:27,329 adding 'lobster/config/providers/__init__.py' 2026-01-07T23:48:27,332 adding 'lobster/config/providers/anthropic_provider.py' 2026-01-07T23:48:27,334 adding 'lobster/config/providers/base_provider.py' 2026-01-07T23:48:27,336 adding 'lobster/config/providers/bedrock_provider.py' 2026-01-07T23:48:27,337 adding 'lobster/config/providers/gemini_provider.py' 2026-01-07T23:48:27,340 adding 'lobster/config/providers/ollama_provider.py' 2026-01-07T23:48:27,342 adding 'lobster/config/providers/registry.py' 2026-01-07T23:48:27,344 adding 'lobster/core/__init__.py' 2026-01-07T23:48:27,347 adding 'lobster/core/analysis_ir.py' 2026-01-07T23:48:27,349 adding 'lobster/core/archive_utils.py' 2026-01-07T23:48:27,359 adding 'lobster/core/client.py' 2026-01-07T23:48:27,362 adding 'lobster/core/component_registry.py' 2026-01-07T23:48:27,364 adding 'lobster/core/config_resolver.py' 2026-01-07T23:48:27,378 adding 'lobster/core/data_manager_v2.py' 2026-01-07T23:48:27,381 adding 'lobster/core/download_queue.py' 2026-01-07T23:48:27,382 adding 'lobster/core/exceptions.py' 2026-01-07T23:48:27,385 adding 'lobster/core/ir_coverage.py' 2026-01-07T23:48:27,388 adding 'lobster/core/license_manager.py' 2026-01-07T23:48:27,390 adding 'lobster/core/notebook_executor.py' 2026-01-07T23:48:27,394 adding 'lobster/core/notebook_exporter.py' 2026-01-07T23:48:27,396 adding 'lobster/core/notebook_validator.py' 2026-01-07T23:48:27,399 adding 'lobster/core/plot_manager.py' 2026-01-07T23:48:27,401 adding 'lobster/core/plugin_loader.py' 2026-01-07T23:48:27,404 adding 'lobster/core/provenance.py' 2026-01-07T23:48:27,406 adding 'lobster/core/publication_queue.py' 2026-01-07T23:48:27,407 adding 'lobster/core/queue_storage.py' 2026-01-07T23:48:27,410 adding 'lobster/core/ris_parser.py' 2026-01-07T23:48:27,411 adding 'lobster/core/workspace.py' 2026-01-07T23:48:27,413 adding 'lobster/core/adapters/__init__.py' 2026-01-07T23:48:27,416 adding 'lobster/core/adapters/base.py' 2026-01-07T23:48:27,418 adding 'lobster/core/adapters/protein_structure_adapter.py' 2026-01-07T23:48:27,422 adding 'lobster/core/adapters/proteomics_adapter.py' 2026-01-07T23:48:27,424 adding 'lobster/core/adapters/pseudobulk_adapter.py' 2026-01-07T23:48:27,428 adding 'lobster/core/adapters/transcriptomics_adapter.py' 2026-01-07T23:48:27,430 adding 'lobster/core/backends/__init__.py' 2026-01-07T23:48:27,431 adding 'lobster/core/backends/base.py' 2026-01-07T23:48:27,435 adding 'lobster/core/backends/h5ad_backend.py' 2026-01-07T23:48:27,438 adding 'lobster/core/backends/mudata_backend.py' 2026-01-07T23:48:27,440 adding 'lobster/core/identifiers/__init__.py' 2026-01-07T23:48:27,442 adding 'lobster/core/identifiers/accession_resolver.py' 2026-01-07T23:48:27,444 adding 'lobster/core/interfaces/__init__.py' 2026-01-07T23:48:27,445 adding 'lobster/core/interfaces/adapter.py' 2026-01-07T23:48:27,447 adding 'lobster/core/interfaces/backend.py' 2026-01-07T23:48:27,448 adding 'lobster/core/interfaces/base_client.py' 2026-01-07T23:48:27,451 adding 'lobster/core/interfaces/download_service.py' 2026-01-07T23:48:27,453 adding 'lobster/core/interfaces/validator.py' 2026-01-07T23:48:27,454 adding 'lobster/core/schemas/__init__.py' 2026-01-07T23:48:27,457 adding 'lobster/core/schemas/database_mappings.py' 2026-01-07T23:48:27,459 adding 'lobster/core/schemas/database_registry.py' 2026-01-07T23:48:27,461 adding 'lobster/core/schemas/download_queue.py' 2026-01-07T23:48:27,463 adding 'lobster/core/schemas/download_urls.py' 2026-01-07T23:48:27,468 adding 'lobster/core/schemas/export_schemas.py' 2026-01-07T23:48:27,472 adding 'lobster/core/schemas/metabolomics.py' 2026-01-07T23:48:27,478 adding 'lobster/core/schemas/metagenomics.py' 2026-01-07T23:48:27,480 adding 'lobster/core/schemas/protein_structure.py' 2026-01-07T23:48:27,485 adding 'lobster/core/schemas/proteomics.py' 2026-01-07T23:48:27,488 adding 'lobster/core/schemas/publication_queue.py' 2026-01-07T23:48:27,492 adding 'lobster/core/schemas/sra.py' 2026-01-07T23:48:27,499 adding 'lobster/core/schemas/transcriptomics.py' 2026-01-07T23:48:27,502 adding 'lobster/core/schemas/validation.py' 2026-01-07T23:48:27,503 adding 'lobster/core/utils/__init__.py' 2026-01-07T23:48:27,506 adding 'lobster/core/utils/h5ad_utils.py' 2026-01-07T23:48:27,508 adding 'lobster/lobster_cloud/__init__.py' 2026-01-07T23:48:27,509 adding 'lobster/lobster_cloud/client.py' 2026-01-07T23:48:27,511 adding 'lobster/services/__init__.py' 2026-01-07T23:48:27,513 adding 'lobster/services/analysis/__init__.py' 2026-01-07T23:48:27,521 adding 'lobster/services/analysis/bulk_rnaseq_service.py' 2026-01-07T23:48:27,530 adding 'lobster/services/analysis/clustering_service.py' 2026-01-07T23:48:27,535 adding 'lobster/services/analysis/differential_formula_service.py' 2026-01-07T23:48:27,541 adding 'lobster/services/analysis/enhanced_singlecell_service.py' 2026-01-07T23:48:27,544 adding 'lobster/services/analysis/pseudobulk_service.py' 2026-01-07T23:48:27,546 adding 'lobster/services/analysis/scvi_embedding_service.py' 2026-01-07T23:48:27,549 adding 'lobster/services/analysis/structure_analysis_service.py' 2026-01-07T23:48:27,551 adding 'lobster/services/data_access/__init__.py' 2026-01-07T23:48:27,559 adding 'lobster/services/data_access/content_access_service.py' 2026-01-07T23:48:27,566 adding 'lobster/services/data_access/docling_service.py' 2026-01-07T23:48:27,569 adding 'lobster/services/data_access/geo_download_service.py' 2026-01-07T23:48:27,572 adding 'lobster/services/data_access/geo_fallback_service.py' 2026-01-07T23:48:27,596 adding 'lobster/services/data_access/geo_service.py' 2026-01-07T23:48:27,600 adding 'lobster/services/data_access/massive_download_service.py' 2026-01-07T23:48:27,602 adding 'lobster/services/data_access/pride_download_service.py' 2026-01-07T23:48:27,605 adding 'lobster/services/data_access/protein_structure_fetch_service.py' 2026-01-07T23:48:27,610 adding 'lobster/services/data_access/sra_download_service.py' 2026-01-07T23:48:27,615 adding 'lobster/services/data_access/workspace_content_service.py' 2026-01-07T23:48:27,617 adding 'lobster/services/data_access/geo/__init__.py' 2026-01-07T23:48:27,618 adding 'lobster/services/data_access/geo/constants.py' 2026-01-07T23:48:27,622 adding 'lobster/services/data_access/geo/downloader.py' 2026-01-07T23:48:27,624 adding 'lobster/services/data_access/geo/facade.py' 2026-01-07T23:48:27,632 adding 'lobster/services/data_access/geo/parser.py' 2026-01-07T23:48:27,634 adding 'lobster/services/data_access/geo/strategy.py' 2026-01-07T23:48:27,636 adding 'lobster/services/data_access/geo/loaders/__init__.py' 2026-01-07T23:48:27,638 adding 'lobster/services/data_access/geo/loaders/tenx.py' 2026-01-07T23:48:27,640 adding 'lobster/services/data_access/geo/metadata/__init__.py' 2026-01-07T23:48:27,642 adding 'lobster/services/data_access/geo/sample/__init__.py' 2026-01-07T23:48:27,643 adding 'lobster/services/data_access/geo/utils/__init__.py' 2026-01-07T23:48:27,645 adding 'lobster/services/data_management/__init__.py' 2026-01-07T23:48:27,650 adding 'lobster/services/data_management/concatenation_service.py' 2026-01-07T23:48:27,653 adding 'lobster/services/data_management/modality_management_service.py' 2026-01-07T23:48:27,655 adding 'lobster/services/execution/__init__.py' 2026-01-07T23:48:27,659 adding 'lobster/services/execution/custom_code_execution_service.py' 2026-01-07T23:48:27,660 adding 'lobster/services/execution/execution_context_builder.py' 2026-01-07T23:48:27,662 adding 'lobster/services/metadata/__init__.py' 2026-01-07T23:48:27,664 adding 'lobster/services/metadata/identifier_provenance_service.py' 2026-01-07T23:48:27,668 adding 'lobster/services/metadata/manual_annotation_service.py' 2026-01-07T23:48:27,672 adding 'lobster/services/metadata/metadata_standardization_service.py' 2026-01-07T23:48:27,675 adding 'lobster/services/metadata/metadata_validation_service.py' 2026-01-07T23:48:27,677 adding 'lobster/services/metadata/sample_grouping_service.py' 2026-01-07T23:48:27,679 adding 'lobster/services/metadata/protocol_extraction/__init__.py' 2026-01-07T23:48:27,680 adding 'lobster/services/metadata/protocol_extraction/base.py' 2026-01-07T23:48:27,682 adding 'lobster/services/metadata/protocol_extraction/amplicon/__init__.py' 2026-01-07T23:48:27,684 adding 'lobster/services/metadata/protocol_extraction/amplicon/details.py' 2026-01-07T23:48:27,687 adding 'lobster/services/metadata/protocol_extraction/amplicon/service.py' 2026-01-07T23:48:27,689 adding 'lobster/services/metadata/protocol_extraction/amplicon/resources/primers.json' 2026-01-07T23:48:27,691 adding 'lobster/services/metadata/protocol_extraction/mass_spec/__init__.py' 2026-01-07T23:48:27,693 adding 'lobster/services/metadata/protocol_extraction/mass_spec/details.py' 2026-01-07T23:48:27,694 adding 'lobster/services/metadata/protocol_extraction/mass_spec/service.py' 2026-01-07T23:48:27,696 adding 'lobster/services/metadata/protocol_extraction/rnaseq/__init__.py' 2026-01-07T23:48:27,697 adding 'lobster/services/metadata/protocol_extraction/rnaseq/details.py' 2026-01-07T23:48:27,699 adding 'lobster/services/metadata/protocol_extraction/rnaseq/service.py' 2026-01-07T23:48:27,701 adding 'lobster/services/ml/__init__.py' 2026-01-07T23:48:27,702 adding 'lobster/services/orchestration/__init__.py' 2026-01-07T23:48:27,711 adding 'lobster/services/orchestration/publication_processing_service.py' 2026-01-07T23:48:27,713 adding 'lobster/services/quality/__init__.py' 2026-01-07T23:48:27,718 adding 'lobster/services/quality/preprocessing_service.py' 2026-01-07T23:48:27,722 adding 'lobster/services/quality/quality_service.py' 2026-01-07T23:48:27,724 adding 'lobster/services/templates/__init__.py' 2026-01-07T23:48:27,728 adding 'lobster/services/templates/annotation_templates.py' 2026-01-07T23:48:27,730 adding 'lobster/services/visualization/__init__.py' 2026-01-07T23:48:27,733 adding 'lobster/services/visualization/bulk_visualization_service.py' 2026-01-07T23:48:27,737 adding 'lobster/services/visualization/pymol_visualization_service.py' 2026-01-07T23:48:27,744 adding 'lobster/services/visualization/visualization_service.py' 2026-01-07T23:48:27,747 adding 'lobster/tools/__init__.py' 2026-01-07T23:48:27,749 adding 'lobster/tools/custom_code_tool.py' 2026-01-07T23:48:27,751 adding 'lobster/tools/download_orchestrator.py' 2026-01-07T23:48:27,754 adding 'lobster/tools/enhanced_handoff_tool.py' 2026-01-07T23:48:27,756 adding 'lobster/tools/expert_handoff_manager.py' 2026-01-07T23:48:27,757 adding 'lobster/tools/expert_handoff_patterns.py' 2026-01-07T23:48:27,759 adding 'lobster/tools/geo_downloader.py' 2026-01-07T23:48:27,760 adding 'lobster/tools/geo_parser.py' 2026-01-07T23:48:27,761 adding 'lobster/tools/gpu_detector.py' 2026-01-07T23:48:27,763 adding 'lobster/tools/handoff_tool.py' 2026-01-07T23:48:27,764 adding 'lobster/tools/pipeline_strategy.py' 2026-01-07T23:48:27,768 adding 'lobster/tools/rate_limiter.py' 2026-01-07T23:48:27,770 adding 'lobster/tools/todo_tools.py' 2026-01-07T23:48:27,771 adding 'lobster/tools/url_transforms.py' 2026-01-07T23:48:27,775 adding 'lobster/tools/workflow_tracker.py' 2026-01-07T23:48:27,787 adding 'lobster/tools/workspace_tool.py' 2026-01-07T23:48:27,791 adding 'lobster/tools/archive/publication_service.py' 2026-01-07T23:48:27,793 adding 'lobster/tools/archive/unified_content_service.py' 2026-01-07T23:48:27,796 adding 'lobster/tools/providers/__init__.py' 2026-01-07T23:48:27,797 adding 'lobster/tools/providers/abstract_provider.py' 2026-01-07T23:48:27,799 adding 'lobster/tools/providers/base_provider.py' 2026-01-07T23:48:27,802 adding 'lobster/tools/providers/biopython_entrez_wrapper.py' 2026-01-07T23:48:27,803 adding 'lobster/tools/providers/biorxiv_medrxiv_config.py' 2026-01-07T23:48:27,809 adding 'lobster/tools/providers/biorxiv_medrxiv_provider.py' 2026-01-07T23:48:27,815 adding 'lobster/tools/providers/geo_provider.py' 2026-01-07T23:48:27,817 adding 'lobster/tools/providers/geo_utils.py' 2026-01-07T23:48:27,819 adding 'lobster/tools/providers/massive_provider.py' 2026-01-07T23:48:27,822 adding 'lobster/tools/providers/ncbi_query_builder.py' 2026-01-07T23:48:27,824 adding 'lobster/tools/providers/organism_enum.py' 2026-01-07T23:48:27,826 adding 'lobster/tools/providers/pdb_provider.py' 2026-01-07T23:48:27,833 adding 'lobster/tools/providers/pmc_provider.py' 2026-01-07T23:48:27,835 adding 'lobster/tools/providers/pride_normalizer.py' 2026-01-07T23:48:27,839 adding 'lobster/tools/providers/pride_provider.py' 2026-01-07T23:48:27,841 adding 'lobster/tools/providers/provider_registry.py' 2026-01-07T23:48:27,844 adding 'lobster/tools/providers/publication_resolver.py' 2026-01-07T23:48:27,853 adding 'lobster/tools/providers/pubmed_provider.py' 2026-01-07T23:48:27,860 adding 'lobster/tools/providers/sra_provider.py' 2026-01-07T23:48:27,862 adding 'lobster/tools/providers/structure_provider.py' 2026-01-07T23:48:27,865 adding 'lobster/tools/providers/webpage_provider.py' 2026-01-07T23:48:27,867 adding 'lobster/ui/__init__.py' 2026-01-07T23:48:27,869 adding 'lobster/ui/commands.py' 2026-01-07T23:48:27,872 adding 'lobster/ui/console_manager.py' 2026-01-07T23:48:27,874 adding 'lobster/ui/live_dashboard.py' 2026-01-07T23:48:27,876 adding 'lobster/ui/os_app.py' 2026-01-07T23:48:27,878 adding 'lobster/ui/progress_manager.py' 2026-01-07T23:48:27,880 adding 'lobster/ui/themes.py' 2026-01-07T23:48:27,882 adding 'lobster/ui/callbacks/__init__.py' 2026-01-07T23:48:27,885 adding 'lobster/ui/callbacks/textual_callback.py' 2026-01-07T23:48:27,887 adding 'lobster/ui/components/__init__.py' 2026-01-07T23:48:27,889 adding 'lobster/ui/components/file_tree.py' 2026-01-07T23:48:27,891 adding 'lobster/ui/components/multi_progress.py' 2026-01-07T23:48:27,894 adding 'lobster/ui/components/parallel_workers_progress.py' 2026-01-07T23:48:27,896 adding 'lobster/ui/components/status_display.py' 2026-01-07T23:48:27,898 adding 'lobster/ui/formatters/__init__.py' 2026-01-07T23:48:27,900 adding 'lobster/ui/screens/__init__.py' 2026-01-07T23:48:27,903 adding 'lobster/ui/screens/analysis_screen.py' 2026-01-07T23:48:27,905 adding 'lobster/ui/services/__init__.py' 2026-01-07T23:48:27,907 adding 'lobster/ui/services/error_service.py' 2026-01-07T23:48:27,909 adding 'lobster/ui/widgets/__init__.py' 2026-01-07T23:48:27,911 adding 'lobster/ui/widgets/activity_log.py' 2026-01-07T23:48:27,912 adding 'lobster/ui/widgets/adapters_panel.py' 2026-01-07T23:48:27,914 adding 'lobster/ui/widgets/agents_panel.py' 2026-01-07T23:48:27,915 adding 'lobster/ui/widgets/chat_message.py' 2026-01-07T23:48:27,916 adding 'lobster/ui/widgets/connections_panel.py' 2026-01-07T23:48:27,919 adding 'lobster/ui/widgets/data_hub.py' 2026-01-07T23:48:27,921 adding 'lobster/ui/widgets/error_modal.py' 2026-01-07T23:48:27,922 adding 'lobster/ui/widgets/modality_list.py' 2026-01-07T23:48:27,924 adding 'lobster/ui/widgets/plot_preview.py' 2026-01-07T23:48:27,925 adding 'lobster/ui/widgets/query_prompt.py' 2026-01-07T23:48:27,927 adding 'lobster/ui/widgets/queue_panel.py' 2026-01-07T23:48:27,929 adding 'lobster/ui/widgets/queue_status_bar.py' 2026-01-07T23:48:27,930 adding 'lobster/ui/widgets/results_display.py' 2026-01-07T23:48:27,932 adding 'lobster/ui/widgets/status_bar.py' 2026-01-07T23:48:27,933 adding 'lobster/ui/widgets/system_info.py' 2026-01-07T23:48:27,935 adding 'lobster/ui/widgets/token_usage_panel.py' 2026-01-07T23:48:27,937 adding 'lobster/utils/__init__.py' 2026-01-07T23:48:27,942 adding 'lobster/utils/callbacks.py' 2026-01-07T23:48:27,944 adding 'lobster/utils/deviance.py' 2026-01-07T23:48:27,946 adding 'lobster/utils/error_handlers.py' 2026-01-07T23:48:27,949 adding 'lobster/utils/file_analyzer.py' 2026-01-07T23:48:27,951 adding 'lobster/utils/file_naming.py' 2026-01-07T23:48:27,953 adding 'lobster/utils/json_extractor.py' 2026-01-07T23:48:27,954 adding 'lobster/utils/logger.py' 2026-01-07T23:48:27,956 adding 'lobster/utils/progress_wrapper.py' 2026-01-07T23:48:27,957 adding 'lobster/utils/ssl_utils.py' 2026-01-07T23:48:27,959 adding 'lobster/utils/system.py' 2026-01-07T23:48:27,966 adding 'lobster_ai-0.4.1.9.dist-info/licenses/LICENSE' 2026-01-07T23:48:27,969 adding 'lobster_ai-0.4.1.9.dist-info/METADATA' 2026-01-07T23:48:27,970 adding 'lobster_ai-0.4.1.9.dist-info/WHEEL' 2026-01-07T23:48:27,971 adding 'lobster_ai-0.4.1.9.dist-info/entry_points.txt' 2026-01-07T23:48:27,972 adding 'lobster_ai-0.4.1.9.dist-info/top_level.txt' 2026-01-07T23:48:27,976 adding 'lobster_ai-0.4.1.9.dist-info/RECORD' 2026-01-07T23:48:28,000 removing build/bdist.linux-armv7l/wheel 2026-01-07T23:48:28,179 Building wheel for lobster-ai (pyproject.toml): finished with status 'done' 2026-01-07T23:48:28,213 Created wheel for lobster-ai: filename=lobster_ai-0.4.1.9-py3-none-any.whl size=1351966 sha256=605905694283a743acdfc0bfb13340760d68edb2a17215bc609736da1f423979 2026-01-07T23:48:28,214 Stored in directory: /tmp/pip-ephem-wheel-cache-inu_cmr8/wheels/3b/bf/9c/0f770386b16396fcb4cf267d83782bb8dcd3041d3317dd4118 2026-01-07T23:48:28,240 Successfully built lobster-ai 2026-01-07T23:48:28,277 Removed build tracker: '/tmp/pip-build-tracker-2gty86rz'