2025-11-18T17:08:06,421 Created temporary directory: /tmp/pip-ephem-wheel-cache-4a48sv5q
2025-11-18T17:08:06,423 Created temporary directory: /tmp/pip-build-tracker-v0uvikhd
2025-11-18T17:08:06,423 Initialized build tracking at /tmp/pip-build-tracker-v0uvikhd
2025-11-18T17:08:06,424 Created build tracker: /tmp/pip-build-tracker-v0uvikhd
2025-11-18T17:08:06,424 Entered build tracker: /tmp/pip-build-tracker-v0uvikhd
2025-11-18T17:08:06,425 Created temporary directory: /tmp/pip-wheel-ee9400uf
2025-11-18T17:08:06,428 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
2025-11-18T17:08:06,430 Created temporary directory: /tmp/pip-ephem-wheel-cache-3401veir
2025-11-18T17:08:06,452 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-11-18T17:08:06,455 2 location(s) to search for versions of boltzgen:
2025-11-18T17:08:06,455 * https://pypi.org/simple/boltzgen/
2025-11-18T17:08:06,455 * https://www.piwheels.org/simple/boltzgen/
2025-11-18T17:08:06,456 Fetching project page and analyzing links: https://pypi.org/simple/boltzgen/
2025-11-18T17:08:06,457 Getting page https://pypi.org/simple/boltzgen/
2025-11-18T17:08:06,458 Found index url https://pypi.org/simple
2025-11-18T17:08:06,670 Fetched page https://pypi.org/simple/boltzgen/ as application/vnd.pypi.simple.v1+json
2025-11-18T17:08:06,673   Skipping link: No binaries permitted for boltzgen: https://files.pythonhosted.org/packages/63/90/abce182b30c62f13029523927c04820cfa69e03635c4ab7f2ca01aa64fc8/boltzgen-0.1.0-py3-none-any.whl (from https://pypi.org/simple/boltzgen/) (requires-python:>=3.9)
2025-11-18T17:08:06,674   Found link https://files.pythonhosted.org/packages/19/6d/3259f594bdc5688261f220b0280facea3a2e497e34609c1d358c40ff26df/boltzgen-0.1.0.tar.gz (from https://pypi.org/simple/boltzgen/) (requires-python:>=3.9), version: 0.1.0
2025-11-18T17:08:06,675   Skipping link: No binaries permitted for boltzgen: https://files.pythonhosted.org/packages/b9/e1/bea73eb825594a48e824a59ea2484c0748020a9713c5b2503d7cfe033c2b/boltzgen-0.1.1-py3-none-any.whl (from https://pypi.org/simple/boltzgen/) (requires-python:>=3.9)
2025-11-18T17:08:06,676   Found link https://files.pythonhosted.org/packages/78/94/91e0892caf7d08ad1ee432f2d64d07f0bb4cc5fa53a010b2995db7a90dbf/boltzgen-0.1.1.tar.gz (from https://pypi.org/simple/boltzgen/) (requires-python:>=3.9), version: 0.1.1
2025-11-18T17:08:06,677   Skipping link: No binaries permitted for boltzgen: https://files.pythonhosted.org/packages/74/06/6834e94921b9a5c978a3b6014e20db1dc528e5b67d0dcad0f8f47836908c/boltzgen-0.1.2-py3-none-any.whl (from https://pypi.org/simple/boltzgen/) (requires-python:>=3.9)
2025-11-18T17:08:06,678   Found link https://files.pythonhosted.org/packages/20/02/6579821c7da06745452f2ecb95605dce1b8de1658d1dd4be5c6c3b970208/boltzgen-0.1.2.tar.gz (from https://pypi.org/simple/boltzgen/) (requires-python:>=3.9), version: 0.1.2
2025-11-18T17:08:06,679   Skipping link: No binaries permitted for boltzgen: https://files.pythonhosted.org/packages/c0/a0/332273a340fe1736c69fb400c653794e3aa0f8ecc8dbe7b3b5eef1cd1511/boltzgen-0.1.3-py3-none-any.whl (from https://pypi.org/simple/boltzgen/) (requires-python:>=3.9)
2025-11-18T17:08:06,680   Found link https://files.pythonhosted.org/packages/d1/ff/ffc1886142c710039ef8c9ec9e9646efe78e79371d51375b76787023d925/boltzgen-0.1.3.tar.gz (from https://pypi.org/simple/boltzgen/) (requires-python:>=3.9), version: 0.1.3
2025-11-18T17:08:06,680   Skipping link: No binaries permitted for boltzgen: https://files.pythonhosted.org/packages/ab/9c/41583212ccc836d5832e0c7a6def8bb4e34c09ec29fee569e8c823ee6388/boltzgen-0.1.4-py3-none-any.whl (from https://pypi.org/simple/boltzgen/) (requires-python:>=3.9)
2025-11-18T17:08:06,681   Found link https://files.pythonhosted.org/packages/39/5c/0c5cb924934b1ec2436e7fa2620ea8729035ca89b6272caa97e2ce443d30/boltzgen-0.1.4.tar.gz (from https://pypi.org/simple/boltzgen/) (requires-python:>=3.9), version: 0.1.4
2025-11-18T17:08:06,682 Fetching project page and analyzing links: https://www.piwheels.org/simple/boltzgen/
2025-11-18T17:08:06,683 Getting page https://www.piwheels.org/simple/boltzgen/
2025-11-18T17:08:06,685 Found index url https://www.piwheels.org/simple
2025-11-18T17:08:06,882 Fetched page https://www.piwheels.org/simple/boltzgen/ as text/html
2025-11-18T17:08:06,884   Skipping link: No binaries permitted for boltzgen: https://www.piwheels.org/simple/boltzgen/boltzgen-0.1.3-py3-none-any.whl#sha256=1029da6f74a8b125d8c6c34beb6b0a7f71a3d57461631c4dc6f788b573c10247 (from https://www.piwheels.org/simple/boltzgen/) (requires-python:>=3.9)
2025-11-18T17:08:06,885   Skipping link: No binaries permitted for boltzgen: https://archive1.piwheels.org/simple/boltzgen/boltzgen-0.1.2-py3-none-any.whl#sha256=540dfba80316dc74e1622a369e825b5debdf02aa7cb197ebbb311186113017c4 (from https://www.piwheels.org/simple/boltzgen/) (requires-python:>=3.9)
2025-11-18T17:08:06,886   Skipping link: No binaries permitted for boltzgen: https://archive1.piwheels.org/simple/boltzgen/boltzgen-0.1.1-py3-none-any.whl#sha256=ba441ae54add47197ca07443c4bb7468bb6e30ae1e94224c21360afb80fd6215 (from https://www.piwheels.org/simple/boltzgen/) (requires-python:>=3.9)
2025-11-18T17:08:06,886   Skipping link: No binaries permitted for boltzgen: https://archive1.piwheels.org/simple/boltzgen/boltzgen-0.1.0-py3-none-any.whl#sha256=4c742030a0a07bb98c68ee543aad9b9d01c4a673e62ba78cab124ed43a91b644 (from https://www.piwheels.org/simple/boltzgen/) (requires-python:>=3.9)
2025-11-18T17:08:06,887 Skipping link: not a file: https://www.piwheels.org/simple/boltzgen/
2025-11-18T17:08:06,887 Skipping link: not a file: https://pypi.org/simple/boltzgen/
2025-11-18T17:08:06,906 Given no hashes to check 1 links for project 'boltzgen': discarding no candidates
2025-11-18T17:08:06,924 Collecting boltzgen==0.1.4
2025-11-18T17:08:06,927   Created temporary directory: /tmp/pip-unpack-uy95mxoz
2025-11-18T17:08:07,061   Downloading boltzgen-0.1.4.tar.gz (307 kB)
2025-11-18T17:08:07,460   Added boltzgen==0.1.4 from https://files.pythonhosted.org/packages/39/5c/0c5cb924934b1ec2436e7fa2620ea8729035ca89b6272caa97e2ce443d30/boltzgen-0.1.4.tar.gz to build tracker '/tmp/pip-build-tracker-v0uvikhd'
2025-11-18T17:08:07,466   Created temporary directory: /tmp/pip-build-env-o_fkn5ce
2025-11-18T17:08:07,470   Installing build dependencies: started
2025-11-18T17:08:07,472   Running command pip subprocess to install build dependencies
2025-11-18T17:08:08,591   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2025-11-18T17:08:09,205   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
2025-11-18T17:08:09,227   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-11-18T17:08:10,973   Collecting setuptools>=61
2025-11-18T17:08:11,060     Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB)
2025-11-18T17:08:13,984   Installing collected packages: setuptools
2025-11-18T17:08:17,541   Successfully installed setuptools-80.9.0
2025-11-18T17:08:17,804   Installing build dependencies: finished with status 'done'
2025-11-18T17:08:17,810   Getting requirements to build wheel: started
2025-11-18T17:08:17,811   Running command Getting requirements to build wheel
2025-11-18T17:08:18,522   running egg_info
2025-11-18T17:08:18,528   writing src/boltzgen.egg-info/PKG-INFO
2025-11-18T17:08:18,536   writing dependency_links to src/boltzgen.egg-info/dependency_links.txt
2025-11-18T17:08:18,538   writing entry points to src/boltzgen.egg-info/entry_points.txt
2025-11-18T17:08:18,542   writing requirements to src/boltzgen.egg-info/requires.txt
2025-11-18T17:08:18,543   writing top-level names to src/boltzgen.egg-info/top_level.txt
2025-11-18T17:08:18,601   reading manifest file 'src/boltzgen.egg-info/SOURCES.txt'
2025-11-18T17:08:18,610   adding license file 'LICENSE'
2025-11-18T17:08:18,618   writing manifest file 'src/boltzgen.egg-info/SOURCES.txt'
2025-11-18T17:08:18,716   Getting requirements to build wheel: finished with status 'done'
2025-11-18T17:08:18,719   Created temporary directory: /tmp/pip-modern-metadata-bgbl4cuu
2025-11-18T17:08:18,721   Preparing metadata (pyproject.toml): started
2025-11-18T17:08:18,723   Running command Preparing metadata (pyproject.toml)
2025-11-18T17:08:19,388   running dist_info
2025-11-18T17:08:19,400   creating /tmp/pip-modern-metadata-bgbl4cuu/boltzgen.egg-info
2025-11-18T17:08:19,401   writing /tmp/pip-modern-metadata-bgbl4cuu/boltzgen.egg-info/PKG-INFO
2025-11-18T17:08:19,408   writing dependency_links to /tmp/pip-modern-metadata-bgbl4cuu/boltzgen.egg-info/dependency_links.txt
2025-11-18T17:08:19,410   writing entry points to /tmp/pip-modern-metadata-bgbl4cuu/boltzgen.egg-info/entry_points.txt
2025-11-18T17:08:19,414   writing requirements to /tmp/pip-modern-metadata-bgbl4cuu/boltzgen.egg-info/requires.txt
2025-11-18T17:08:19,415   writing top-level names to /tmp/pip-modern-metadata-bgbl4cuu/boltzgen.egg-info/top_level.txt
2025-11-18T17:08:19,417   writing manifest file '/tmp/pip-modern-metadata-bgbl4cuu/boltzgen.egg-info/SOURCES.txt'
2025-11-18T17:08:19,467   reading manifest file '/tmp/pip-modern-metadata-bgbl4cuu/boltzgen.egg-info/SOURCES.txt'
2025-11-18T17:08:19,469   adding license file 'LICENSE'
2025-11-18T17:08:19,475   writing manifest file '/tmp/pip-modern-metadata-bgbl4cuu/boltzgen.egg-info/SOURCES.txt'
2025-11-18T17:08:19,477   creating '/tmp/pip-modern-metadata-bgbl4cuu/boltzgen-0.1.4.dist-info'
2025-11-18T17:08:19,603   Preparing metadata (pyproject.toml): finished with status 'done'
2025-11-18T17:08:19,610   Source in /tmp/pip-wheel-ee9400uf/boltzgen_4f8d2878e1404472b4ccb52c85bf90d3 has version 0.1.4, which satisfies requirement boltzgen==0.1.4 from https://files.pythonhosted.org/packages/39/5c/0c5cb924934b1ec2436e7fa2620ea8729035ca89b6272caa97e2ce443d30/boltzgen-0.1.4.tar.gz
2025-11-18T17:08:19,611   Removed boltzgen==0.1.4 from https://files.pythonhosted.org/packages/39/5c/0c5cb924934b1ec2436e7fa2620ea8729035ca89b6272caa97e2ce443d30/boltzgen-0.1.4.tar.gz from build tracker '/tmp/pip-build-tracker-v0uvikhd'
2025-11-18T17:08:19,620 Created temporary directory: /tmp/pip-unpack-r7fm5ge7
2025-11-18T17:08:19,620 Building wheels for collected packages: boltzgen
2025-11-18T17:08:19,625   Created temporary directory: /tmp/pip-wheel-ms89dk7z
2025-11-18T17:08:19,625   Destination directory: /tmp/pip-wheel-ms89dk7z
2025-11-18T17:08:19,627   Building wheel for boltzgen (pyproject.toml): started
2025-11-18T17:08:19,629   Running command Building wheel for boltzgen (pyproject.toml)
2025-11-18T17:08:20,266   running bdist_wheel
2025-11-18T17:08:20,287   running build
2025-11-18T17:08:20,288   running build_py
2025-11-18T17:08:20,294   creating build/lib/boltzgen
2025-11-18T17:08:20,297   copying src/boltzgen/__init__.py -> build/lib/boltzgen
2025-11-18T17:08:20,299   creating build/lib/boltzgen/resources
2025-11-18T17:08:20,300   copying src/boltzgen/resources/main.py -> build/lib/boltzgen/resources
2025-11-18T17:08:20,303   creating build/lib/boltzgen/data
2025-11-18T17:08:20,304   copying src/boltzgen/data/rmsd_computation.py -> build/lib/boltzgen/data
2025-11-18T17:08:20,307   copying src/boltzgen/data/const.py -> build/lib/boltzgen/data
2025-11-18T17:08:20,310   copying src/boltzgen/data/data.py -> build/lib/boltzgen/data
2025-11-18T17:08:20,314   copying src/boltzgen/data/mol.py -> build/lib/boltzgen/data
2025-11-18T17:08:20,317   copying src/boltzgen/data/__init__.py -> build/lib/boltzgen/data
2025-11-18T17:08:20,319   copying src/boltzgen/data/pad.py -> build/lib/boltzgen/data
2025-11-18T17:08:20,321   creating build/lib/boltzgen/cli
2025-11-18T17:08:20,322   copying src/boltzgen/cli/__init__.py -> build/lib/boltzgen/cli
2025-11-18T17:08:20,324   copying src/boltzgen/cli/boltzgen.py -> build/lib/boltzgen/cli
2025-11-18T17:08:20,327   creating build/lib/boltzgen/utils
2025-11-18T17:08:20,328   copying src/boltzgen/utils/pipeline_progress_bar.py -> build/lib/boltzgen/utils
2025-11-18T17:08:20,331   copying src/boltzgen/utils/__init__.py -> build/lib/boltzgen/utils
2025-11-18T17:08:20,332   copying src/boltzgen/utils/quiet.py -> build/lib/boltzgen/utils
2025-11-18T17:08:20,334   creating build/lib/boltzgen/model
2025-11-18T17:08:20,335   copying src/boltzgen/model/__init__.py -> build/lib/boltzgen/model
2025-11-18T17:08:20,337   creating build/lib/boltzgen/task
2025-11-18T17:08:20,338   copying src/boltzgen/task/__init__.py -> build/lib/boltzgen/task
2025-11-18T17:08:20,340   copying src/boltzgen/task/task.py -> build/lib/boltzgen/task
2025-11-18T17:08:20,344   creating build/lib/boltzgen/data/sample
2025-11-18T17:08:20,345   copying src/boltzgen/data/sample/sampler.py -> build/lib/boltzgen/data/sample
2025-11-18T17:08:20,347   copying src/boltzgen/data/sample/__init__.py -> build/lib/boltzgen/data/sample
2025-11-18T17:08:20,348   copying src/boltzgen/data/sample/cluster.py -> build/lib/boltzgen/data/sample
2025-11-18T17:08:20,351   creating build/lib/boltzgen/data/template
2025-11-18T17:08:20,352   copying src/boltzgen/data/template/features.py -> build/lib/boltzgen/data/template
2025-11-18T17:08:20,354   copying src/boltzgen/data/template/__init__.py -> build/lib/boltzgen/data/template
2025-11-18T17:08:20,356   creating build/lib/boltzgen/data/feature
2025-11-18T17:08:20,357   copying src/boltzgen/data/feature/featurizer.py -> build/lib/boltzgen/data/feature
2025-11-18T17:08:20,361   copying src/boltzgen/data/feature/__init__.py -> build/lib/boltzgen/data/feature
2025-11-18T17:08:20,363   creating build/lib/boltzgen/data/write
2025-11-18T17:08:20,364   copying src/boltzgen/data/write/pdb.py -> build/lib/boltzgen/data/write
2025-11-18T17:08:20,366   copying src/boltzgen/data/write/mmcif.py -> build/lib/boltzgen/data/write
2025-11-18T17:08:20,369   copying src/boltzgen/data/write/__init__.py -> build/lib/boltzgen/data/write
2025-11-18T17:08:20,371   creating build/lib/boltzgen/data/tokenize
2025-11-18T17:08:20,372   copying src/boltzgen/data/tokenize/__init__.py -> build/lib/boltzgen/data/tokenize
2025-11-18T17:08:20,374   copying src/boltzgen/data/tokenize/tokenizer.py -> build/lib/boltzgen/data/tokenize
2025-11-18T17:08:20,377   creating build/lib/boltzgen/data/select
2025-11-18T17:08:20,378   copying src/boltzgen/data/select/selector.py -> build/lib/boltzgen/data/select
2025-11-18T17:08:20,380   copying src/boltzgen/data/select/__init__.py -> build/lib/boltzgen/data/select
2025-11-18T17:08:20,382   copying src/boltzgen/data/select/protein.py -> build/lib/boltzgen/data/select
2025-11-18T17:08:20,385   creating build/lib/boltzgen/data/filter
2025-11-18T17:08:20,386   copying src/boltzgen/data/filter/__init__.py -> build/lib/boltzgen/data/filter
2025-11-18T17:08:20,388   creating build/lib/boltzgen/data/crop
2025-11-18T17:08:20,389   copying src/boltzgen/data/crop/multimer.py -> build/lib/boltzgen/data/crop
2025-11-18T17:08:20,392   copying src/boltzgen/data/crop/__init__.py -> build/lib/boltzgen/data/crop
2025-11-18T17:08:20,394   copying src/boltzgen/data/crop/cropper.py -> build/lib/boltzgen/data/crop
2025-11-18T17:08:20,396   creating build/lib/boltzgen/data/parse
2025-11-18T17:08:20,398   copying src/boltzgen/data/parse/schema.py -> build/lib/boltzgen/data/parse
2025-11-18T17:08:20,401   copying src/boltzgen/data/parse/a3m.py -> build/lib/boltzgen/data/parse
2025-11-18T17:08:20,404   copying src/boltzgen/data/parse/mmcif.py -> build/lib/boltzgen/data/parse
2025-11-18T17:08:20,407   copying src/boltzgen/data/parse/__init__.py -> build/lib/boltzgen/data/parse
2025-11-18T17:08:20,408   copying src/boltzgen/data/parse/pdb_parser.py -> build/lib/boltzgen/data/parse
2025-11-18T17:08:20,411   creating build/lib/boltzgen/data/filter/dynamic
2025-11-18T17:08:20,413   copying src/boltzgen/data/filter/dynamic/error.py -> build/lib/boltzgen/data/filter/dynamic
2025-11-18T17:08:20,415   copying src/boltzgen/data/filter/dynamic/pdb_id_txtfile.py -> build/lib/boltzgen/data/filter/dynamic
2025-11-18T17:08:20,416   copying src/boltzgen/data/filter/dynamic/filter.py -> build/lib/boltzgen/data/filter/dynamic
2025-11-18T17:08:20,418   copying src/boltzgen/data/filter/dynamic/min_protein_residues.py -> build/lib/boltzgen/data/filter/dynamic
2025-11-18T17:08:20,420   copying src/boltzgen/data/filter/dynamic/resolution.py -> build/lib/boltzgen/data/filter/dynamic
2025-11-18T17:08:20,422   copying src/boltzgen/data/filter/dynamic/__init__.py -> build/lib/boltzgen/data/filter/dynamic
2025-11-18T17:08:20,423   copying src/boltzgen/data/filter/dynamic/max_residues.py -> build/lib/boltzgen/data/filter/dynamic
2025-11-18T17:08:20,425   copying src/boltzgen/data/filter/dynamic/date.py -> build/lib/boltzgen/data/filter/dynamic
2025-11-18T17:08:20,427   copying src/boltzgen/data/filter/dynamic/size.py -> build/lib/boltzgen/data/filter/dynamic
2025-11-18T17:08:20,429   copying src/boltzgen/data/filter/dynamic/confidence.py -> build/lib/boltzgen/data/filter/dynamic
2025-11-18T17:08:20,431   creating build/lib/boltzgen/data/filter/static
2025-11-18T17:08:20,433   copying src/boltzgen/data/filter/static/ligand.py -> build/lib/boltzgen/data/filter/static
2025-11-18T17:08:20,435   copying src/boltzgen/data/filter/static/filter.py -> build/lib/boltzgen/data/filter/static
2025-11-18T17:08:20,437   copying src/boltzgen/data/filter/static/polymer.py -> build/lib/boltzgen/data/filter/static
2025-11-18T17:08:20,439   copying src/boltzgen/data/filter/static/__init__.py -> build/lib/boltzgen/data/filter/static
2025-11-18T17:08:20,441   creating build/lib/boltzgen/model/validation
2025-11-18T17:08:20,442   copying src/boltzgen/model/validation/rcsb.py -> build/lib/boltzgen/model/validation
2025-11-18T17:08:20,444   copying src/boltzgen/model/validation/refolding.py -> build/lib/boltzgen/model/validation
2025-11-18T17:08:20,446   copying src/boltzgen/model/validation/validator.py -> build/lib/boltzgen/model/validation
2025-11-18T17:08:20,449   copying src/boltzgen/model/validation/design.py -> build/lib/boltzgen/model/validation
2025-11-18T17:08:20,452   creating build/lib/boltzgen/model/loss
2025-11-18T17:08:20,453   copying src/boltzgen/model/loss/__init__.py -> build/lib/boltzgen/model/loss
2025-11-18T17:08:20,455   copying src/boltzgen/model/loss/res_type.py -> build/lib/boltzgen/model/loss
2025-11-18T17:08:20,457   copying src/boltzgen/model/loss/bfactor.py -> build/lib/boltzgen/model/loss
2025-11-18T17:08:20,459   copying src/boltzgen/model/loss/diffusion.py -> build/lib/boltzgen/model/loss
2025-11-18T17:08:20,461   copying src/boltzgen/model/loss/validation.py -> build/lib/boltzgen/model/loss
2025-11-18T17:08:20,465   copying src/boltzgen/model/loss/distogram.py -> build/lib/boltzgen/model/loss
2025-11-18T17:08:20,468   copying src/boltzgen/model/loss/confidence.py -> build/lib/boltzgen/model/loss
2025-11-18T17:08:20,472   creating build/lib/boltzgen/model/layers
2025-11-18T17:08:20,473   copying src/boltzgen/model/layers/pair_averaging.py -> build/lib/boltzgen/model/layers
2025-11-18T17:08:20,475   copying src/boltzgen/model/layers/miniformer.py -> build/lib/boltzgen/model/layers
2025-11-18T17:08:20,478   copying src/boltzgen/model/layers/confidence_utils.py -> build/lib/boltzgen/model/layers
2025-11-18T17:08:20,480   copying src/boltzgen/model/layers/initialize.py -> build/lib/boltzgen/model/layers
2025-11-18T17:08:20,482   copying src/boltzgen/model/layers/pairformer.py -> build/lib/boltzgen/model/layers
2025-11-18T17:08:20,485   copying src/boltzgen/model/layers/outer_product_mean.py -> build/lib/boltzgen/model/layers
2025-11-18T17:08:20,487   copying src/boltzgen/model/layers/transition.py -> build/lib/boltzgen/model/layers
2025-11-18T17:08:20,489   copying src/boltzgen/model/layers/relative.py -> build/lib/boltzgen/model/layers
2025-11-18T17:08:20,491   copying src/boltzgen/model/layers/__init__.py -> build/lib/boltzgen/model/layers
2025-11-18T17:08:20,493   copying src/boltzgen/model/layers/dropout.py -> build/lib/boltzgen/model/layers
2025-11-18T17:08:20,495   copying src/boltzgen/model/layers/attention.py -> build/lib/boltzgen/model/layers
2025-11-18T17:08:20,497   copying src/boltzgen/model/layers/triangular.py -> build/lib/boltzgen/model/layers
2025-11-18T17:08:20,499   creating build/lib/boltzgen/model/models
2025-11-18T17:08:20,501   copying src/boltzgen/model/models/boltz.py -> build/lib/boltzgen/model/models
2025-11-18T17:08:20,504   copying src/boltzgen/model/models/__init__.py -> build/lib/boltzgen/model/models
2025-11-18T17:08:20,506   creating build/lib/boltzgen/model/optim
2025-11-18T17:08:20,507   copying src/boltzgen/model/optim/__init__.py -> build/lib/boltzgen/model/optim
2025-11-18T17:08:20,509   copying src/boltzgen/model/optim/ema.py -> build/lib/boltzgen/model/optim
2025-11-18T17:08:20,513   copying src/boltzgen/model/optim/scheduler.py -> build/lib/boltzgen/model/optim
2025-11-18T17:08:20,516   creating build/lib/boltzgen/model/modules
2025-11-18T17:08:20,517   copying src/boltzgen/model/modules/transformers.py -> build/lib/boltzgen/model/modules
2025-11-18T17:08:20,519   copying src/boltzgen/model/modules/affinity.py -> build/lib/boltzgen/model/modules
2025-11-18T17:08:20,522   copying src/boltzgen/model/modules/inverse_fold.py -> build/lib/boltzgen/model/modules
2025-11-18T17:08:20,525   copying src/boltzgen/model/modules/masker.py -> build/lib/boltzgen/model/modules
2025-11-18T17:08:20,527   copying src/boltzgen/model/modules/diffusion_conditioning.py -> build/lib/boltzgen/model/modules
2025-11-18T17:08:20,529   copying src/boltzgen/model/modules/__init__.py -> build/lib/boltzgen/model/modules
2025-11-18T17:08:20,531   copying src/boltzgen/model/modules/utils.py -> build/lib/boltzgen/model/modules
2025-11-18T17:08:20,534   copying src/boltzgen/model/modules/encoders.py -> build/lib/boltzgen/model/modules
2025-11-18T17:08:20,536   copying src/boltzgen/model/modules/scatter_utils.py -> build/lib/boltzgen/model/modules
2025-11-18T17:08:20,539   copying src/boltzgen/model/modules/diffusion.py -> build/lib/boltzgen/model/modules
2025-11-18T17:08:20,542   copying src/boltzgen/model/modules/trunk.py -> build/lib/boltzgen/model/modules
2025-11-18T17:08:20,545   copying src/boltzgen/model/modules/confidence.py -> build/lib/boltzgen/model/modules
2025-11-18T17:08:20,548   creating build/lib/boltzgen/model/layers/triangular_attention
2025-11-18T17:08:20,549   copying src/boltzgen/model/layers/triangular_attention/__init__.py -> build/lib/boltzgen/model/layers/triangular_attention
2025-11-18T17:08:20,551   copying src/boltzgen/model/layers/triangular_attention/utils.py -> build/lib/boltzgen/model/layers/triangular_attention
2025-11-18T17:08:20,554   copying src/boltzgen/model/layers/triangular_attention/attention.py -> build/lib/boltzgen/model/layers/triangular_attention
2025-11-18T17:08:20,557   copying src/boltzgen/model/layers/triangular_attention/primitives.py -> build/lib/boltzgen/model/layers/triangular_attention
2025-11-18T17:08:20,561   creating build/lib/boltzgen/task/predict
2025-11-18T17:08:20,562   copying src/boltzgen/task/predict/data_ligands.py -> build/lib/boltzgen/task/predict
2025-11-18T17:08:20,565   copying src/boltzgen/task/predict/data_from_generated.py -> build/lib/boltzgen/task/predict
2025-11-18T17:08:20,568   copying src/boltzgen/task/predict/predict.py -> build/lib/boltzgen/task/predict
2025-11-18T17:08:20,570   copying src/boltzgen/task/predict/loading_utils.py -> build/lib/boltzgen/task/predict
2025-11-18T17:08:20,572   copying src/boltzgen/task/predict/__init__.py -> build/lib/boltzgen/task/predict
2025-11-18T17:08:20,574   copying src/boltzgen/task/predict/data_protein_binder.py -> build/lib/boltzgen/task/predict
2025-11-18T17:08:20,576   copying src/boltzgen/task/predict/data_from_yaml.py -> build/lib/boltzgen/task/predict
2025-11-18T17:08:20,579   copying src/boltzgen/task/predict/writer.py -> build/lib/boltzgen/task/predict
2025-11-18T17:08:20,582   creating build/lib/boltzgen/task/analyze
2025-11-18T17:08:20,583   copying src/boltzgen/task/analyze/analyze.py -> build/lib/boltzgen/task/analyze
2025-11-18T17:08:20,587   copying src/boltzgen/task/analyze/analyze_utils.py -> build/lib/boltzgen/task/analyze
2025-11-18T17:08:20,590   creating build/lib/boltzgen/task/filter
2025-11-18T17:08:20,591   copying src/boltzgen/task/filter/seqplot_utils.py -> build/lib/boltzgen/task/filter
2025-11-18T17:08:20,594   copying src/boltzgen/task/filter/filter.py -> build/lib/boltzgen/task/filter
2025-11-18T17:08:20,598   copying src/boltzgen/task/filter/__init__.py -> build/lib/boltzgen/task/filter
2025-11-18T17:08:20,600   creating build/lib/boltzgen/task/train
2025-11-18T17:08:20,601   copying src/boltzgen/task/train/train.py -> build/lib/boltzgen/task/train
2025-11-18T17:08:20,603   copying src/boltzgen/task/train/data.py -> build/lib/boltzgen/task/train
2025-11-18T17:08:20,606   copying src/boltzgen/task/train/__init__.py -> build/lib/boltzgen/task/train
2025-11-18T17:08:20,608   running egg_info
2025-11-18T17:08:20,619   writing src/boltzgen.egg-info/PKG-INFO
2025-11-18T17:08:20,627   writing dependency_links to src/boltzgen.egg-info/dependency_links.txt
2025-11-18T17:08:20,628   writing entry points to src/boltzgen.egg-info/entry_points.txt
2025-11-18T17:08:20,632   writing requirements to src/boltzgen.egg-info/requires.txt
2025-11-18T17:08:20,633   writing top-level names to src/boltzgen.egg-info/top_level.txt
2025-11-18T17:08:20,671   reading manifest file 'src/boltzgen.egg-info/SOURCES.txt'
2025-11-18T17:08:20,680   adding license file 'LICENSE'
2025-11-18T17:08:20,688   writing manifest file 'src/boltzgen.egg-info/SOURCES.txt'
2025-11-18T17:08:20,707   creating build/lib/boltzgen/resources/config
2025-11-18T17:08:20,708   copying src/boltzgen/resources/config/analysis.yaml -> build/lib/boltzgen/resources/config
2025-11-18T17:08:20,710   copying src/boltzgen/resources/config/inverse_fold_only.yaml -> build/lib/boltzgen/resources/config
2025-11-18T17:08:20,713   copying src/boltzgen/resources/config/fold.yaml -> build/lib/boltzgen/resources/config
2025-11-18T17:08:20,715   copying src/boltzgen/resources/config/filtering.yaml -> build/lib/boltzgen/resources/config
2025-11-18T17:08:20,717   copying src/boltzgen/resources/config/inverse_fold.yaml -> build/lib/boltzgen/resources/config
2025-11-18T17:08:20,720   copying src/boltzgen/resources/config/design.yaml -> build/lib/boltzgen/resources/config
2025-11-18T17:08:20,722   copying src/boltzgen/resources/config/affinity.yaml -> build/lib/boltzgen/resources/config
2025-11-18T17:08:20,724   creating build/lib/boltzgen/resources/config/train
2025-11-18T17:08:20,725   copying src/boltzgen/resources/config/train/boltzgen.yaml -> build/lib/boltzgen/resources/config/train
2025-11-18T17:08:20,729   copying src/boltzgen/resources/config/train/inverse_folding.yaml -> build/lib/boltzgen/resources/config/train
2025-11-18T17:08:20,731   copying src/boltzgen/resources/config/train/boltzgen_small.yaml -> build/lib/boltzgen/resources/config/train
2025-11-18T17:08:20,763   installing to build/bdist.linux-armv7l/wheel
2025-11-18T17:08:20,763   running install
2025-11-18T17:08:20,786   running install_lib
2025-11-18T17:08:20,792   creating build/bdist.linux-armv7l/wheel
2025-11-18T17:08:20,795   creating build/bdist.linux-armv7l/wheel/boltzgen
2025-11-18T17:08:20,797   creating build/bdist.linux-armv7l/wheel/boltzgen/resources
2025-11-18T17:08:20,799   creating build/bdist.linux-armv7l/wheel/boltzgen/resources/config
2025-11-18T17:08:20,800   copying build/lib/boltzgen/resources/config/analysis.yaml -> build/bdist.linux-armv7l/wheel/./boltzgen/resources/config
2025-11-18T17:08:20,802   copying build/lib/boltzgen/resources/config/inverse_fold_only.yaml -> build/bdist.linux-armv7l/wheel/./boltzgen/resources/config
2025-11-18T17:08:20,804   copying build/lib/boltzgen/resources/config/fold.yaml -> build/bdist.linux-armv7l/wheel/./boltzgen/resources/config
2025-11-18T17:08:20,806   copying build/lib/boltzgen/resources/config/filtering.yaml -> build/bdist.linux-armv7l/wheel/./boltzgen/resources/config
2025-11-18T17:08:20,809   copying build/lib/boltzgen/resources/config/inverse_fold.yaml -> build/bdist.linux-armv7l/wheel/./boltzgen/resources/config
2025-11-18T17:08:20,811   copying build/lib/boltzgen/resources/config/design.yaml -> build/bdist.linux-armv7l/wheel/./boltzgen/resources/config
2025-11-18T17:08:20,813   copying build/lib/boltzgen/resources/config/affinity.yaml -> build/bdist.linux-armv7l/wheel/./boltzgen/resources/config
2025-11-18T17:08:20,815   creating build/bdist.linux-armv7l/wheel/boltzgen/resources/config/train
2025-11-18T17:08:20,816   copying build/lib/boltzgen/resources/config/train/boltzgen.yaml -> build/bdist.linux-armv7l/wheel/./boltzgen/resources/config/train
2025-11-18T17:08:20,819   copying build/lib/boltzgen/resources/config/train/inverse_folding.yaml -> build/bdist.linux-armv7l/wheel/./boltzgen/resources/config/train
2025-11-18T17:08:20,822   copying build/lib/boltzgen/resources/config/train/boltzgen_small.yaml -> build/bdist.linux-armv7l/wheel/./boltzgen/resources/config/train
2025-11-18T17:08:20,824   copying build/lib/boltzgen/resources/main.py -> build/bdist.linux-armv7l/wheel/./boltzgen/resources
2025-11-18T17:08:20,826   copying build/lib/boltzgen/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen
2025-11-18T17:08:20,829   creating build/bdist.linux-armv7l/wheel/boltzgen/data
2025-11-18T17:08:20,830   copying build/lib/boltzgen/data/rmsd_computation.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data
2025-11-18T17:08:20,833   creating build/bdist.linux-armv7l/wheel/boltzgen/data/sample
2025-11-18T17:08:20,834   copying build/lib/boltzgen/data/sample/sampler.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/sample
2025-11-18T17:08:20,836   copying build/lib/boltzgen/data/sample/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/sample
2025-11-18T17:08:20,837   copying build/lib/boltzgen/data/sample/cluster.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/sample
2025-11-18T17:08:20,840   copying build/lib/boltzgen/data/const.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data
2025-11-18T17:08:20,846   copying build/lib/boltzgen/data/data.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data
2025-11-18T17:08:20,851   copying build/lib/boltzgen/data/mol.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data
2025-11-18T17:08:20,855   creating build/bdist.linux-armv7l/wheel/boltzgen/data/template
2025-11-18T17:08:20,856   copying build/lib/boltzgen/data/template/features.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/template
2025-11-18T17:08:20,858   copying build/lib/boltzgen/data/template/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/template
2025-11-18T17:08:20,860   copying build/lib/boltzgen/data/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data
2025-11-18T17:08:20,862   creating build/bdist.linux-armv7l/wheel/boltzgen/data/feature
2025-11-18T17:08:20,863   copying build/lib/boltzgen/data/feature/featurizer.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/feature
2025-11-18T17:08:20,867   copying build/lib/boltzgen/data/feature/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/feature
2025-11-18T17:08:20,869   creating build/bdist.linux-armv7l/wheel/boltzgen/data/write
2025-11-18T17:08:20,870   copying build/lib/boltzgen/data/write/pdb.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/write
2025-11-18T17:08:20,873   copying build/lib/boltzgen/data/write/mmcif.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/write
2025-11-18T17:08:20,875   copying build/lib/boltzgen/data/write/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/write
2025-11-18T17:08:20,877   creating build/bdist.linux-armv7l/wheel/boltzgen/data/tokenize
2025-11-18T17:08:20,878   copying build/lib/boltzgen/data/tokenize/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/tokenize
2025-11-18T17:08:20,880   copying build/lib/boltzgen/data/tokenize/tokenizer.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/tokenize
2025-11-18T17:08:20,884   creating build/bdist.linux-armv7l/wheel/boltzgen/data/select
2025-11-18T17:08:20,885   copying build/lib/boltzgen/data/select/selector.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/select
2025-11-18T17:08:20,887   copying build/lib/boltzgen/data/select/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/select
2025-11-18T17:08:20,888   copying build/lib/boltzgen/data/select/protein.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/select
2025-11-18T17:08:20,892   creating build/bdist.linux-armv7l/wheel/boltzgen/data/filter
2025-11-18T17:08:20,894   creating build/bdist.linux-armv7l/wheel/boltzgen/data/filter/dynamic
2025-11-18T17:08:20,895   copying build/lib/boltzgen/data/filter/dynamic/error.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/dynamic
2025-11-18T17:08:20,897   copying build/lib/boltzgen/data/filter/dynamic/pdb_id_txtfile.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/dynamic
2025-11-18T17:08:20,899   copying build/lib/boltzgen/data/filter/dynamic/filter.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/dynamic
2025-11-18T17:08:20,901   copying build/lib/boltzgen/data/filter/dynamic/min_protein_residues.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/dynamic
2025-11-18T17:08:20,903   copying build/lib/boltzgen/data/filter/dynamic/resolution.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/dynamic
2025-11-18T17:08:20,905   copying build/lib/boltzgen/data/filter/dynamic/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/dynamic
2025-11-18T17:08:20,906   copying build/lib/boltzgen/data/filter/dynamic/max_residues.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/dynamic
2025-11-18T17:08:20,908   copying build/lib/boltzgen/data/filter/dynamic/date.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/dynamic
2025-11-18T17:08:20,910   copying build/lib/boltzgen/data/filter/dynamic/size.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/dynamic
2025-11-18T17:08:20,912   copying build/lib/boltzgen/data/filter/dynamic/confidence.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/dynamic
2025-11-18T17:08:20,914   copying build/lib/boltzgen/data/filter/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter
2025-11-18T17:08:20,917   creating build/bdist.linux-armv7l/wheel/boltzgen/data/filter/static
2025-11-18T17:08:20,918   copying build/lib/boltzgen/data/filter/static/ligand.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/static
2025-11-18T17:08:20,920   copying build/lib/boltzgen/data/filter/static/filter.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/static
2025-11-18T17:08:20,922   copying build/lib/boltzgen/data/filter/static/polymer.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/static
2025-11-18T17:08:20,924   copying build/lib/boltzgen/data/filter/static/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/filter/static
2025-11-18T17:08:20,927   creating build/bdist.linux-armv7l/wheel/boltzgen/data/crop
2025-11-18T17:08:20,928   copying build/lib/boltzgen/data/crop/multimer.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/crop
2025-11-18T17:08:20,931   copying build/lib/boltzgen/data/crop/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/crop
2025-11-18T17:08:20,932   copying build/lib/boltzgen/data/crop/cropper.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/crop
2025-11-18T17:08:20,934   copying build/lib/boltzgen/data/pad.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data
2025-11-18T17:08:20,937   creating build/bdist.linux-armv7l/wheel/boltzgen/data/parse
2025-11-18T17:08:20,938   copying build/lib/boltzgen/data/parse/schema.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/parse
2025-11-18T17:08:20,942   copying build/lib/boltzgen/data/parse/a3m.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/parse
2025-11-18T17:08:20,944   copying build/lib/boltzgen/data/parse/mmcif.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/parse
2025-11-18T17:08:20,947   copying build/lib/boltzgen/data/parse/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/parse
2025-11-18T17:08:20,949   copying build/lib/boltzgen/data/parse/pdb_parser.py -> build/bdist.linux-armv7l/wheel/./boltzgen/data/parse
2025-11-18T17:08:20,952   creating build/bdist.linux-armv7l/wheel/boltzgen/cli
2025-11-18T17:08:20,953   copying build/lib/boltzgen/cli/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/cli
2025-11-18T17:08:20,954   copying build/lib/boltzgen/cli/boltzgen.py -> build/bdist.linux-armv7l/wheel/./boltzgen/cli
2025-11-18T17:08:20,958   creating build/bdist.linux-armv7l/wheel/boltzgen/utils
2025-11-18T17:08:20,959   copying build/lib/boltzgen/utils/pipeline_progress_bar.py -> build/bdist.linux-armv7l/wheel/./boltzgen/utils
2025-11-18T17:08:20,962   copying build/lib/boltzgen/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/utils
2025-11-18T17:08:20,963   copying build/lib/boltzgen/utils/quiet.py -> build/bdist.linux-armv7l/wheel/./boltzgen/utils
2025-11-18T17:08:20,965   creating build/bdist.linux-armv7l/wheel/boltzgen/model
2025-11-18T17:08:20,967   creating build/bdist.linux-armv7l/wheel/boltzgen/model/validation
2025-11-18T17:08:20,968   copying build/lib/boltzgen/model/validation/rcsb.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/validation
2025-11-18T17:08:20,970   copying build/lib/boltzgen/model/validation/refolding.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/validation
2025-11-18T17:08:20,973   copying build/lib/boltzgen/model/validation/validator.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/validation
2025-11-18T17:08:20,976   copying build/lib/boltzgen/model/validation/design.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/validation
2025-11-18T17:08:20,979   creating build/bdist.linux-armv7l/wheel/boltzgen/model/loss
2025-11-18T17:08:20,980   copying build/lib/boltzgen/model/loss/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/loss
2025-11-18T17:08:20,982   copying build/lib/boltzgen/model/loss/res_type.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/loss
2025-11-18T17:08:20,984   copying build/lib/boltzgen/model/loss/bfactor.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/loss
2025-11-18T17:08:20,986   copying build/lib/boltzgen/model/loss/diffusion.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/loss
2025-11-18T17:08:20,988   copying build/lib/boltzgen/model/loss/validation.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/loss
2025-11-18T17:08:20,991   copying build/lib/boltzgen/model/loss/distogram.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/loss
2025-11-18T17:08:20,993   copying build/lib/boltzgen/model/loss/confidence.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/loss
2025-11-18T17:08:20,997   creating build/bdist.linux-armv7l/wheel/boltzgen/model/layers
2025-11-18T17:08:20,998   copying build/lib/boltzgen/model/layers/pair_averaging.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers
2025-11-18T17:08:21,001   creating build/bdist.linux-armv7l/wheel/boltzgen/model/layers/triangular_attention
2025-11-18T17:08:21,002   copying build/lib/boltzgen/model/layers/triangular_attention/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers/triangular_attention
2025-11-18T17:08:21,003   copying build/lib/boltzgen/model/layers/triangular_attention/utils.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers/triangular_attention
2025-11-18T17:08:21,006   copying build/lib/boltzgen/model/layers/triangular_attention/attention.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers/triangular_attention
2025-11-18T17:08:21,009   copying build/lib/boltzgen/model/layers/triangular_attention/primitives.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers/triangular_attention
2025-11-18T17:08:21,011   copying build/lib/boltzgen/model/layers/miniformer.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers
2025-11-18T17:08:21,014   copying build/lib/boltzgen/model/layers/confidence_utils.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers
2025-11-18T17:08:21,016   copying build/lib/boltzgen/model/layers/initialize.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers
2025-11-18T17:08:21,019   copying build/lib/boltzgen/model/layers/pairformer.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers
2025-11-18T17:08:21,021   copying build/lib/boltzgen/model/layers/outer_product_mean.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers
2025-11-18T17:08:21,023   copying build/lib/boltzgen/model/layers/transition.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers
2025-11-18T17:08:21,025   copying build/lib/boltzgen/model/layers/relative.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers
2025-11-18T17:08:21,027   copying build/lib/boltzgen/model/layers/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers
2025-11-18T17:08:21,028   copying build/lib/boltzgen/model/layers/dropout.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers
2025-11-18T17:08:21,030   copying build/lib/boltzgen/model/layers/attention.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers
2025-11-18T17:08:21,032   copying build/lib/boltzgen/model/layers/triangular.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/layers
2025-11-18T17:08:21,035   copying build/lib/boltzgen/model/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model
2025-11-18T17:08:21,037   creating build/bdist.linux-armv7l/wheel/boltzgen/model/models
2025-11-18T17:08:21,038   copying build/lib/boltzgen/model/models/boltz.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/models
2025-11-18T17:08:21,042   copying build/lib/boltzgen/model/models/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/models
2025-11-18T17:08:21,044   creating build/bdist.linux-armv7l/wheel/boltzgen/model/optim
2025-11-18T17:08:21,045   copying build/lib/boltzgen/model/optim/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/optim
2025-11-18T17:08:21,047   copying build/lib/boltzgen/model/optim/ema.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/optim
2025-11-18T17:08:21,049   copying build/lib/boltzgen/model/optim/scheduler.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/optim
2025-11-18T17:08:21,052   creating build/bdist.linux-armv7l/wheel/boltzgen/model/modules
2025-11-18T17:08:21,053   copying build/lib/boltzgen/model/modules/transformers.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/modules
2025-11-18T17:08:21,056   copying build/lib/boltzgen/model/modules/affinity.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/modules
2025-11-18T17:08:21,058   copying build/lib/boltzgen/model/modules/inverse_fold.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/modules
2025-11-18T17:08:21,061   copying build/lib/boltzgen/model/modules/masker.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/modules
2025-11-18T17:08:21,064   copying build/lib/boltzgen/model/modules/diffusion_conditioning.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/modules
2025-11-18T17:08:21,066   copying build/lib/boltzgen/model/modules/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/modules
2025-11-18T17:08:21,067   copying build/lib/boltzgen/model/modules/utils.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/modules
2025-11-18T17:08:21,070   copying build/lib/boltzgen/model/modules/encoders.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/modules
2025-11-18T17:08:21,073   copying build/lib/boltzgen/model/modules/scatter_utils.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/modules
2025-11-18T17:08:21,076   copying build/lib/boltzgen/model/modules/diffusion.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/modules
2025-11-18T17:08:21,079   copying build/lib/boltzgen/model/modules/trunk.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/modules
2025-11-18T17:08:21,081   copying build/lib/boltzgen/model/modules/confidence.py -> build/bdist.linux-armv7l/wheel/./boltzgen/model/modules
2025-11-18T17:08:21,085   creating build/bdist.linux-armv7l/wheel/boltzgen/task
2025-11-18T17:08:21,087   creating build/bdist.linux-armv7l/wheel/boltzgen/task/predict
2025-11-18T17:08:21,088   copying build/lib/boltzgen/task/predict/data_ligands.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/predict
2025-11-18T17:08:21,091   copying build/lib/boltzgen/task/predict/data_from_generated.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/predict
2025-11-18T17:08:21,093   copying build/lib/boltzgen/task/predict/predict.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/predict
2025-11-18T17:08:21,096   copying build/lib/boltzgen/task/predict/loading_utils.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/predict
2025-11-18T17:08:21,098   copying build/lib/boltzgen/task/predict/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/predict
2025-11-18T17:08:21,099   copying build/lib/boltzgen/task/predict/data_protein_binder.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/predict
2025-11-18T17:08:21,102   copying build/lib/boltzgen/task/predict/data_from_yaml.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/predict
2025-11-18T17:08:21,104   copying build/lib/boltzgen/task/predict/writer.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/predict
2025-11-18T17:08:21,108   creating build/bdist.linux-armv7l/wheel/boltzgen/task/analyze
2025-11-18T17:08:21,109   copying build/lib/boltzgen/task/analyze/analyze.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/analyze
2025-11-18T17:08:21,112   copying build/lib/boltzgen/task/analyze/analyze_utils.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/analyze
2025-11-18T17:08:21,115   copying build/lib/boltzgen/task/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task
2025-11-18T17:08:21,117   copying build/lib/boltzgen/task/task.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task
2025-11-18T17:08:21,119   creating build/bdist.linux-armv7l/wheel/boltzgen/task/filter
2025-11-18T17:08:21,120   copying build/lib/boltzgen/task/filter/seqplot_utils.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/filter
2025-11-18T17:08:21,123   copying build/lib/boltzgen/task/filter/filter.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/filter
2025-11-18T17:08:21,126   copying build/lib/boltzgen/task/filter/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/filter
2025-11-18T17:08:21,128   creating build/bdist.linux-armv7l/wheel/boltzgen/task/train
2025-11-18T17:08:21,129   copying build/lib/boltzgen/task/train/train.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/train
2025-11-18T17:08:21,132   copying build/lib/boltzgen/task/train/data.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/train
2025-11-18T17:08:21,135   copying build/lib/boltzgen/task/train/__init__.py -> build/bdist.linux-armv7l/wheel/./boltzgen/task/train
2025-11-18T17:08:21,137   running install_egg_info
2025-11-18T17:08:21,143   Copying src/boltzgen.egg-info to build/bdist.linux-armv7l/wheel/./boltzgen-0.1.4-py3.11.egg-info
2025-11-18T17:08:21,156   running install_scripts
2025-11-18T17:08:21,170   creating build/bdist.linux-armv7l/wheel/boltzgen-0.1.4.dist-info/WHEEL
2025-11-18T17:08:21,173   creating '/tmp/pip-wheel-ms89dk7z/.tmp-331obqj3/boltzgen-0.1.4-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2025-11-18T17:08:21,175   adding 'boltzgen/__init__.py'
2025-11-18T17:08:21,177   adding 'boltzgen/cli/__init__.py'
2025-11-18T17:08:21,183   adding 'boltzgen/cli/boltzgen.py'
2025-11-18T17:08:21,186   adding 'boltzgen/data/__init__.py'
2025-11-18T17:08:21,194   adding 'boltzgen/data/const.py'
2025-11-18T17:08:21,202   adding 'boltzgen/data/data.py'
2025-11-18T17:08:21,207   adding 'boltzgen/data/mol.py'
2025-11-18T17:08:21,208   adding 'boltzgen/data/pad.py'
2025-11-18T17:08:21,210   adding 'boltzgen/data/rmsd_computation.py'
2025-11-18T17:08:21,212   adding 'boltzgen/data/crop/__init__.py'
2025-11-18T17:08:21,213   adding 'boltzgen/data/crop/cropper.py'
2025-11-18T17:08:21,215   adding 'boltzgen/data/crop/multimer.py'
2025-11-18T17:08:21,217   adding 'boltzgen/data/feature/__init__.py'
2025-11-18T17:08:21,226   adding 'boltzgen/data/feature/featurizer.py'
2025-11-18T17:08:21,229   adding 'boltzgen/data/filter/__init__.py'
2025-11-18T17:08:21,230   adding 'boltzgen/data/filter/dynamic/__init__.py'
2025-11-18T17:08:21,232   adding 'boltzgen/data/filter/dynamic/confidence.py'
2025-11-18T17:08:21,233   adding 'boltzgen/data/filter/dynamic/date.py'
2025-11-18T17:08:21,234   adding 'boltzgen/data/filter/dynamic/error.py'
2025-11-18T17:08:21,235   adding 'boltzgen/data/filter/dynamic/filter.py'
2025-11-18T17:08:21,236   adding 'boltzgen/data/filter/dynamic/max_residues.py'
2025-11-18T17:08:21,237   adding 'boltzgen/data/filter/dynamic/min_protein_residues.py'
2025-11-18T17:08:21,239   adding 'boltzgen/data/filter/dynamic/pdb_id_txtfile.py'
2025-11-18T17:08:21,240   adding 'boltzgen/data/filter/dynamic/resolution.py'
2025-11-18T17:08:21,241   adding 'boltzgen/data/filter/dynamic/size.py'
2025-11-18T17:08:21,243   adding 'boltzgen/data/filter/static/__init__.py'
2025-11-18T17:08:21,244   adding 'boltzgen/data/filter/static/filter.py'
2025-11-18T17:08:21,245   adding 'boltzgen/data/filter/static/ligand.py'
2025-11-18T17:08:21,246   adding 'boltzgen/data/filter/static/polymer.py'
2025-11-18T17:08:21,248   adding 'boltzgen/data/parse/__init__.py'
2025-11-18T17:08:21,249   adding 'boltzgen/data/parse/a3m.py'
2025-11-18T17:08:21,255   adding 'boltzgen/data/parse/mmcif.py'
2025-11-18T17:08:21,257   adding 'boltzgen/data/parse/pdb_parser.py'
2025-11-18T17:08:21,265   adding 'boltzgen/data/parse/schema.py'
2025-11-18T17:08:21,267   adding 'boltzgen/data/sample/__init__.py'
2025-11-18T17:08:21,268   adding 'boltzgen/data/sample/cluster.py'
2025-11-18T17:08:21,270   adding 'boltzgen/data/sample/sampler.py'
2025-11-18T17:08:21,271   adding 'boltzgen/data/select/__init__.py'
2025-11-18T17:08:21,274   adding 'boltzgen/data/select/protein.py'
2025-11-18T17:08:21,276   adding 'boltzgen/data/select/selector.py'
2025-11-18T17:08:21,277   adding 'boltzgen/data/template/__init__.py'
2025-11-18T17:08:21,279   adding 'boltzgen/data/template/features.py'
2025-11-18T17:08:21,280   adding 'boltzgen/data/tokenize/__init__.py'
2025-11-18T17:08:21,282   adding 'boltzgen/data/tokenize/tokenizer.py'
2025-11-18T17:08:21,284   adding 'boltzgen/data/write/__init__.py'
2025-11-18T17:08:21,286   adding 'boltzgen/data/write/mmcif.py'
2025-11-18T17:08:21,288   adding 'boltzgen/data/write/pdb.py'
2025-11-18T17:08:21,289   adding 'boltzgen/model/__init__.py'
2025-11-18T17:08:21,291   adding 'boltzgen/model/layers/__init__.py'
2025-11-18T17:08:21,292   adding 'boltzgen/model/layers/attention.py'
2025-11-18T17:08:21,294   adding 'boltzgen/model/layers/confidence_utils.py'
2025-11-18T17:08:21,296   adding 'boltzgen/model/layers/dropout.py'
2025-11-18T17:08:21,297   adding 'boltzgen/model/layers/initialize.py'
2025-11-18T17:08:21,298   adding 'boltzgen/model/layers/miniformer.py'
2025-11-18T17:08:21,300   adding 'boltzgen/model/layers/outer_product_mean.py'
2025-11-18T17:08:21,301   adding 'boltzgen/model/layers/pair_averaging.py'
2025-11-18T17:08:21,303   adding 'boltzgen/model/layers/pairformer.py'
2025-11-18T17:08:21,304   adding 'boltzgen/model/layers/relative.py'
2025-11-18T17:08:21,305   adding 'boltzgen/model/layers/transition.py'
2025-11-18T17:08:21,307   adding 'boltzgen/model/layers/triangular.py'
2025-11-18T17:08:21,308   adding 'boltzgen/model/layers/triangular_attention/__init__.py'
2025-11-18T17:08:21,310   adding 'boltzgen/model/layers/triangular_attention/attention.py'
2025-11-18T17:08:21,312   adding 'boltzgen/model/layers/triangular_attention/primitives.py'
2025-11-18T17:08:21,314   adding 'boltzgen/model/layers/triangular_attention/utils.py'
2025-11-18T17:08:21,316   adding 'boltzgen/model/loss/__init__.py'
2025-11-18T17:08:21,317   adding 'boltzgen/model/loss/bfactor.py'
2025-11-18T17:08:21,320   adding 'boltzgen/model/loss/confidence.py'
2025-11-18T17:08:21,322   adding 'boltzgen/model/loss/diffusion.py'
2025-11-18T17:08:21,324   adding 'boltzgen/model/loss/distogram.py'
2025-11-18T17:08:21,325   adding 'boltzgen/model/loss/res_type.py'
2025-11-18T17:08:21,330   adding 'boltzgen/model/loss/validation.py'
2025-11-18T17:08:21,333   adding 'boltzgen/model/models/__init__.py'
2025-11-18T17:08:21,338   adding 'boltzgen/model/models/boltz.py'
2025-11-18T17:08:21,340   adding 'boltzgen/model/modules/__init__.py'
2025-11-18T17:08:21,342   adding 'boltzgen/model/modules/affinity.py'
2025-11-18T17:08:21,344   adding 'boltzgen/model/modules/confidence.py'
2025-11-18T17:08:21,348   adding 'boltzgen/model/modules/diffusion.py'
2025-11-18T17:08:21,349   adding 'boltzgen/model/modules/diffusion_conditioning.py'
2025-11-18T17:08:21,352   adding 'boltzgen/model/modules/encoders.py'
2025-11-18T17:08:21,355   adding 'boltzgen/model/modules/inverse_fold.py'
2025-11-18T17:08:21,356   adding 'boltzgen/model/modules/masker.py'
2025-11-18T17:08:21,358   adding 'boltzgen/model/modules/scatter_utils.py'
2025-11-18T17:08:21,359   adding 'boltzgen/model/modules/transformers.py'
2025-11-18T17:08:21,362   adding 'boltzgen/model/modules/trunk.py'
2025-11-18T17:08:21,364   adding 'boltzgen/model/modules/utils.py'
2025-11-18T17:08:21,365   adding 'boltzgen/model/optim/__init__.py'
2025-11-18T17:08:21,368   adding 'boltzgen/model/optim/ema.py'
2025-11-18T17:08:21,369   adding 'boltzgen/model/optim/scheduler.py'
2025-11-18T17:08:21,373   adding 'boltzgen/model/validation/design.py'
2025-11-18T17:08:21,374   adding 'boltzgen/model/validation/rcsb.py'
2025-11-18T17:08:21,377   adding 'boltzgen/model/validation/refolding.py'
2025-11-18T17:08:21,381   adding 'boltzgen/model/validation/validator.py'
2025-11-18T17:08:21,383   adding 'boltzgen/resources/main.py'
2025-11-18T17:08:21,385   adding 'boltzgen/resources/config/affinity.yaml'
2025-11-18T17:08:21,387   adding 'boltzgen/resources/config/analysis.yaml'
2025-11-18T17:08:21,388   adding 'boltzgen/resources/config/design.yaml'
2025-11-18T17:08:21,390   adding 'boltzgen/resources/config/filtering.yaml'
2025-11-18T17:08:21,391   adding 'boltzgen/resources/config/fold.yaml'
2025-11-18T17:08:21,393   adding 'boltzgen/resources/config/inverse_fold.yaml'
2025-11-18T17:08:21,394   adding 'boltzgen/resources/config/inverse_fold_only.yaml'
2025-11-18T17:08:21,398   adding 'boltzgen/resources/config/train/boltzgen.yaml'
2025-11-18T17:08:21,401   adding 'boltzgen/resources/config/train/boltzgen_small.yaml'
2025-11-18T17:08:21,403   adding 'boltzgen/resources/config/train/inverse_folding.yaml'
2025-11-18T17:08:21,405   adding 'boltzgen/task/__init__.py'
2025-11-18T17:08:21,407   adding 'boltzgen/task/task.py'
2025-11-18T17:08:21,416   adding 'boltzgen/task/analyze/analyze.py'
2025-11-18T17:08:21,423   adding 'boltzgen/task/analyze/analyze_utils.py'
2025-11-18T17:08:21,425   adding 'boltzgen/task/filter/__init__.py'
2025-11-18T17:08:21,433   adding 'boltzgen/task/filter/filter.py'
2025-11-18T17:08:21,437   adding 'boltzgen/task/filter/seqplot_utils.py'
2025-11-18T17:08:21,439   adding 'boltzgen/task/predict/__init__.py'
2025-11-18T17:08:21,444   adding 'boltzgen/task/predict/data_from_generated.py'
2025-11-18T17:08:21,447   adding 'boltzgen/task/predict/data_from_yaml.py'
2025-11-18T17:08:21,450   adding 'boltzgen/task/predict/data_ligands.py'
2025-11-18T17:08:21,454   adding 'boltzgen/task/predict/data_protein_binder.py'
2025-11-18T17:08:21,456   adding 'boltzgen/task/predict/loading_utils.py'
2025-11-18T17:08:21,458   adding 'boltzgen/task/predict/predict.py'
2025-11-18T17:08:21,461   adding 'boltzgen/task/predict/writer.py'
2025-11-18T17:08:21,463   adding 'boltzgen/task/train/__init__.py'
2025-11-18T17:08:21,467   adding 'boltzgen/task/train/data.py'
2025-11-18T17:08:21,469   adding 'boltzgen/task/train/train.py'
2025-11-18T17:08:21,471   adding 'boltzgen/utils/__init__.py'
2025-11-18T17:08:21,472   adding 'boltzgen/utils/pipeline_progress_bar.py'
2025-11-18T17:08:21,474   adding 'boltzgen/utils/quiet.py'
2025-11-18T17:08:21,476   adding 'boltzgen-0.1.4.dist-info/licenses/LICENSE'
2025-11-18T17:08:21,480   adding 'boltzgen-0.1.4.dist-info/METADATA'
2025-11-18T17:08:21,481   adding 'boltzgen-0.1.4.dist-info/WHEEL'
2025-11-18T17:08:21,482   adding 'boltzgen-0.1.4.dist-info/entry_points.txt'
2025-11-18T17:08:21,483   adding 'boltzgen-0.1.4.dist-info/top_level.txt'
2025-11-18T17:08:21,485   adding 'boltzgen-0.1.4.dist-info/RECORD'
2025-11-18T17:08:21,491   removing build/bdist.linux-armv7l/wheel
2025-11-18T17:08:21,627   Building wheel for boltzgen (pyproject.toml): finished with status 'done'
2025-11-18T17:08:21,639   Created wheel for boltzgen: filename=boltzgen-0.1.4-py3-none-any.whl size=352282 sha256=3af2f20f1a3611f969104650791392db2e145fc24fb035a6ca66e716637576dc
2025-11-18T17:08:21,640   Stored in directory: /tmp/pip-ephem-wheel-cache-3401veir/wheels/d9/7a/67/68df335b2cf0a5e6a29d70ff510401e14816a200c50bf87d73
2025-11-18T17:08:21,661 Successfully built boltzgen
2025-11-18T17:08:21,673 Removed build tracker: '/tmp/pip-build-tracker-v0uvikhd'