2026-05-24T18:39:12,996 Created temporary directory: /tmp/pip-ephem-wheel-cache-ijqa55hf
2026-05-24T18:39:12,998 Created temporary directory: /tmp/pip-build-tracker-iyg46fk0
2026-05-24T18:39:12,999 Initialized build tracking at /tmp/pip-build-tracker-iyg46fk0
2026-05-24T18:39:12,999 Created build tracker: /tmp/pip-build-tracker-iyg46fk0
2026-05-24T18:39:13,000 Entered build tracker: /tmp/pip-build-tracker-iyg46fk0
2026-05-24T18:39:13,001 Created temporary directory: /tmp/pip-wheel-qmqeru03
2026-05-24T18:39:13,003 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
2026-05-24T18:39:13,006 Created temporary directory: /tmp/pip-ephem-wheel-cache-s9nvuzww
2026-05-24T18:39:13,028 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-05-24T18:39:13,031 2 location(s) to search for versions of torchref:
2026-05-24T18:39:13,031 * https://pypi.org/simple/torchref/
2026-05-24T18:39:13,031 * https://www.piwheels.org/simple/torchref/
2026-05-24T18:39:13,032 Fetching project page and analyzing links: https://pypi.org/simple/torchref/
2026-05-24T18:39:13,033 Getting page https://pypi.org/simple/torchref/
2026-05-24T18:39:13,034 Found index url https://pypi.org/simple
2026-05-24T18:39:13,264 Fetched page https://pypi.org/simple/torchref/ as application/vnd.pypi.simple.v1+json
2026-05-24T18:39:13,270   Skipping link: No binaries permitted for torchref: https://files.pythonhosted.org/packages/64/ac/2604e364cc5df69ccdc7f3c9f0cdccaf9c51e96c4d622e64b508ed42d102/torchref-0.3.0-py3-none-any.whl (from https://pypi.org/simple/torchref/) (requires-python:>=3.9)
2026-05-24T18:39:13,271   Found link https://files.pythonhosted.org/packages/73/7f/9c1e4112b5dd16c6712d7a8542a20f84bfd290f42c79dbcc4124a4df4ec9/torchref-0.3.0.tar.gz (from https://pypi.org/simple/torchref/) (requires-python:>=3.9), version: 0.3.0
2026-05-24T18:39:13,271   Skipping link: No binaries permitted for torchref: https://files.pythonhosted.org/packages/2c/60/fa60e785ed08bc2e5a786869b7143e31881874cf9e87a83b7602322bb6e5/torchref-0.3.1-py3-none-any.whl (from https://pypi.org/simple/torchref/) (requires-python:>=3.9)
2026-05-24T18:39:13,272   Found link https://files.pythonhosted.org/packages/70/0e/584b23bda864347754d7b0c9fcced9ee05dc5f7d3424d8cfd74717b6bb2f/torchref-0.3.1.tar.gz (from https://pypi.org/simple/torchref/) (requires-python:>=3.9), version: 0.3.1
2026-05-24T18:39:13,273   Skipping link: No binaries permitted for torchref: https://files.pythonhosted.org/packages/e8/b3/f063b38c335c7b0c625fd7306e6b594e5ff453ab41b33317decaa6feadc3/torchref-0.3.2-py3-none-any.whl (from https://pypi.org/simple/torchref/) (requires-python:>=3.9)
2026-05-24T18:39:13,274   Found link https://files.pythonhosted.org/packages/da/78/277f71170bd394e88380562379e2fe3b292acd3eb6d95ce110671da4ef59/torchref-0.3.2.tar.gz (from https://pypi.org/simple/torchref/) (requires-python:>=3.9), version: 0.3.2
2026-05-24T18:39:13,275   Skipping link: No binaries permitted for torchref: https://files.pythonhosted.org/packages/fb/01/2471acb3667c71a9a0d2a93bdfdb998c35e85eea6487641b27ab99b7d0f0/torchref-0.4.1-py3-none-any.whl (from https://pypi.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,275   Found link https://files.pythonhosted.org/packages/16/bd/cfbdc266a4fe7c8868b100eda000f82419609e89158bda8524efa51748be/torchref-0.4.1.tar.gz (from https://pypi.org/simple/torchref/) (requires-python:>=3.10), version: 0.4.1
2026-05-24T18:39:13,276   Skipping link: No binaries permitted for torchref: https://files.pythonhosted.org/packages/15/37/ed32c8184a2173783ba9429a9a0b2932172539ba3cb7b23f3ca26dfba1fd/torchref-0.4.2-py3-none-any.whl (from https://pypi.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,277   Found link https://files.pythonhosted.org/packages/ae/0d/52864d8146269e718c1cb7b47a20f899e4035f19e0ccb7e5d59315f65bb4/torchref-0.4.2.tar.gz (from https://pypi.org/simple/torchref/) (requires-python:>=3.10), version: 0.4.2
2026-05-24T18:39:13,278   Skipping link: No binaries permitted for torchref: https://files.pythonhosted.org/packages/a7/3a/847415e01c63f1d7d71316d541be7464628096ed37f5fc9020d147463263/torchref-0.4.3-py3-none-any.whl (from https://pypi.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,279   Found link https://files.pythonhosted.org/packages/cc/11/709f9abb6ad3da0752480f1a77de7d3c311393d6193f89d6ce18cc7d5099/torchref-0.4.3.tar.gz (from https://pypi.org/simple/torchref/) (requires-python:>=3.10), version: 0.4.3
2026-05-24T18:39:13,279   Skipping link: No binaries permitted for torchref: https://files.pythonhosted.org/packages/1b/b8/36df377748164e20a46356722963af74331445792bdbf08a0cdf1dbdbbdd/torchref-0.5.0-py3-none-any.whl (from https://pypi.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,280   Found link https://files.pythonhosted.org/packages/25/f4/c18b875b712da914d708badea4ed1c2312935dc84d561b799c337185cf6e/torchref-0.5.0.tar.gz (from https://pypi.org/simple/torchref/) (requires-python:>=3.10), version: 0.5.0
2026-05-24T18:39:13,280   Skipping link: No binaries permitted for torchref: https://files.pythonhosted.org/packages/26/a0/7aceb00564e0dabc8d2cf6412cf7dba08013709a3ec915d33e40eabf72e0/torchref-0.5.1-py3-none-any.whl (from https://pypi.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,281   Found link https://files.pythonhosted.org/packages/c8/0e/388f73407fc7bfe62c48f8e6983fd0b167b0739c260c2e08953ecaaac1bb/torchref-0.5.1.tar.gz (from https://pypi.org/simple/torchref/) (requires-python:>=3.10), version: 0.5.1
2026-05-24T18:39:13,282   Skipping link: No binaries permitted for torchref: https://files.pythonhosted.org/packages/3b/ad/f555bfcd4d9fdf1e3d542b593b2bebadf467e161cf643ff0c263db2cfcc3/torchref-0.5.2-py3-none-any.whl (from https://pypi.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,283   Found link https://files.pythonhosted.org/packages/4d/d1/961979d80eaa39ceac37b9b8b641c3e2b4076705b775b3bcdcb1054f3642/torchref-0.5.2.tar.gz (from https://pypi.org/simple/torchref/) (requires-python:>=3.10), version: 0.5.2
2026-05-24T18:39:13,284   Skipping link: No binaries permitted for torchref: https://files.pythonhosted.org/packages/89/f8/40a59b5f087446e5b723954f28d67000cacc83cee4d0c6f22923641ffbbc/torchref-0.5.3-py3-none-any.whl (from https://pypi.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,284   Found link https://files.pythonhosted.org/packages/b2/d6/db2c7811699816ae29d052b1a38f04ac57bb15b612ee962cfa4563e372cb/torchref-0.5.3.tar.gz (from https://pypi.org/simple/torchref/) (requires-python:>=3.10), version: 0.5.3
2026-05-24T18:39:13,285   Skipping link: No binaries permitted for torchref: https://files.pythonhosted.org/packages/05/8e/af744824d6f0bbcb480a1f40240f8d63417e2458910f63195f02b915fc51/torchref-0.5.3.1-py3-none-any.whl (from https://pypi.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,286   Found link https://files.pythonhosted.org/packages/7e/7d/a3cbaa3b7e0c5d56fca55123e6729a0af5b6cc2fefb6a74398757ff572f0/torchref-0.5.3.1.tar.gz (from https://pypi.org/simple/torchref/) (requires-python:>=3.10), version: 0.5.3.1
2026-05-24T18:39:13,287   Skipping link: No binaries permitted for torchref: https://files.pythonhosted.org/packages/e4/20/7da0fcbc3788ee87b0ff5e677bcd071ce7a8a7e2e783d8ad7ed728e14438/torchref-0.5.3.2-py3-none-any.whl (from https://pypi.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,287   Found link https://files.pythonhosted.org/packages/98/f6/2a93f5b259a424ff00311144782900be99214ed4902a24d8f7c4c515f731/torchref-0.5.3.2.tar.gz (from https://pypi.org/simple/torchref/) (requires-python:>=3.10), version: 0.5.3.2
2026-05-24T18:39:13,288 Fetching project page and analyzing links: https://www.piwheels.org/simple/torchref/
2026-05-24T18:39:13,289 Getting page https://www.piwheels.org/simple/torchref/
2026-05-24T18:39:13,290 Found index url https://www.piwheels.org/simple
2026-05-24T18:39:13,702 Fetched page https://www.piwheels.org/simple/torchref/ as text/html
2026-05-24T18:39:13,708   Skipping link: No binaries permitted for torchref: https://www.piwheels.org/simple/torchref/torchref-0.5.3.1-py3-none-any.whl#sha256=8df9f53b64172b5f1fe161b3c065938954fa302a7ce17fe795f1d667463632e8 (from https://www.piwheels.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,709   Skipping link: No binaries permitted for torchref: https://www.piwheels.org/simple/torchref/torchref-0.5.3-py3-none-any.whl#sha256=46e6766130f0e3c77ae9734e25a717a2ca237cf1f3e3bb23a12a528ddd0b0848 (from https://www.piwheels.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,710   Skipping link: No binaries permitted for torchref: https://www.piwheels.org/simple/torchref/torchref-0.5.2-py3-none-any.whl#sha256=243d4c01af453def03a1e0667e20d3a8dc738f6af546aa60605b8a99369e41e3 (from https://www.piwheels.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,710   Skipping link: No binaries permitted for torchref: https://www.piwheels.org/simple/torchref/torchref-0.5.1-py3-none-any.whl#sha256=c9b0bd6e0eba9eb14b81da89125965a0bb458251fd153ba4216811b24c993227 (from https://www.piwheels.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,711   Skipping link: No binaries permitted for torchref: https://archive1.piwheels.org/simple/torchref/torchref-0.5.0-py3-none-any.whl#sha256=81412a83cb1884393fe067281c4c70763169b28f13a642e80110fdc7eb65b9d2 (from https://www.piwheels.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,711   Skipping link: No binaries permitted for torchref: https://archive1.piwheels.org/simple/torchref/torchref-0.4.3-py3-none-any.whl#sha256=3224a4185d64c6f2b269ee377bc5c0f6dacf3a13898fd11e73a727a462a2d878 (from https://www.piwheels.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,712   Skipping link: No binaries permitted for torchref: https://archive1.piwheels.org/simple/torchref/torchref-0.4.2-py3-none-any.whl#sha256=c4c77a7e34aad8245da2d04a76477bdf30f94ca67cd531f721e4bf47ee67114a (from https://www.piwheels.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,713   Skipping link: No binaries permitted for torchref: https://archive1.piwheels.org/simple/torchref/torchref-0.4.1-py3-none-any.whl#sha256=51e933f2f0edf7f44aa74d08f32f7530006300c4b6def2437f9257d02b3e175e (from https://www.piwheels.org/simple/torchref/) (requires-python:>=3.10)
2026-05-24T18:39:13,713   Skipping link: No binaries permitted for torchref: https://archive1.piwheels.org/simple/torchref/torchref-0.3.2-py3-none-any.whl#sha256=30e0c5727c1872459a9dcff4416e224ff7486dea2f43a6c20dab66a307492093 (from https://www.piwheels.org/simple/torchref/) (requires-python:>=3.9)
2026-05-24T18:39:13,714   Skipping link: No binaries permitted for torchref: https://archive1.piwheels.org/simple/torchref/torchref-0.3.1-py3-none-any.whl#sha256=25deb48a634dda8c799c2d7c32d9749bf327e976900dbd2a5fedf435ee5e921f (from https://www.piwheels.org/simple/torchref/) (requires-python:>=3.9)
2026-05-24T18:39:13,715   Skipping link: No binaries permitted for torchref: https://archive1.piwheels.org/simple/torchref/torchref-0.3.0-py3-none-any.whl#sha256=3032f506e2c816e7e7638e151ed6e70bf0f6b0213e92f8f790dce96c53c0d65f (from https://www.piwheels.org/simple/torchref/) (requires-python:>=3.9)
2026-05-24T18:39:13,715 Skipping link: not a file: https://www.piwheels.org/simple/torchref/
2026-05-24T18:39:13,716 Skipping link: not a file: https://pypi.org/simple/torchref/
2026-05-24T18:39:13,746 Given no hashes to check 1 links for project 'torchref': discarding no candidates
2026-05-24T18:39:13,772 Collecting torchref==0.5.3.2
2026-05-24T18:39:13,775   Created temporary directory: /tmp/pip-unpack-0jy2muig
2026-05-24T18:39:14,036   Downloading torchref-0.5.3.2.tar.gz (3.0 MB)
2026-05-24T18:39:15,342   Added torchref==0.5.3.2 from https://files.pythonhosted.org/packages/98/f6/2a93f5b259a424ff00311144782900be99214ed4902a24d8f7c4c515f731/torchref-0.5.3.2.tar.gz to build tracker '/tmp/pip-build-tracker-iyg46fk0'
2026-05-24T18:39:15,348   Created temporary directory: /tmp/pip-build-env-tmdy3uyl
2026-05-24T18:39:15,353   Installing build dependencies: started
2026-05-24T18:39:15,354   Running command pip subprocess to install build dependencies
2026-05-24T18:39:16,488   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2026-05-24T18:39:16,929   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
2026-05-24T18:39:16,952   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-05-24T18:39:18,816   Collecting setuptools>=42
2026-05-24T18:39:18,817     Obtaining dependency information for setuptools>=42 from https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata
2026-05-24T18:39:18,834     Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
2026-05-24T18:39:19,072   Collecting wheel
2026-05-24T18:39:19,073     Obtaining dependency information for wheel from https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata
2026-05-24T18:39:19,087     Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
2026-05-24T18:39:19,274   Collecting packaging>=24.0
2026-05-24T18:39:19,275     Obtaining dependency information for packaging>=24.0 from https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata
2026-05-24T18:39:19,289     Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
2026-05-24T18:39:19,480   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-05-24T18:39:19,505   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-05-24T18:39:19,598   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-05-24T18:39:19,631   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-05-24T18:39:19,658   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-05-24T18:39:19,747   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-05-24T18:39:22,472   Installing collected packages: setuptools, packaging, wheel
2026-05-24T18:39:26,016     Creating /tmp/pip-build-env-tmdy3uyl/overlay/local/bin
2026-05-24T18:39:26,019     changing mode of /tmp/pip-build-env-tmdy3uyl/overlay/local/bin/wheel to 755
2026-05-24T18:39:26,040   Successfully installed packaging-26.2 setuptools-82.0.1 wheel-0.47.0
2026-05-24T18:39:26,326   Installing build dependencies: finished with status 'done'
2026-05-24T18:39:26,332   Getting requirements to build wheel: started
2026-05-24T18:39:26,334   Running command Getting requirements to build wheel
2026-05-24T18:39:27,049   running egg_info
2026-05-24T18:39:27,055   writing torchref.egg-info/PKG-INFO
2026-05-24T18:39:27,064   writing dependency_links to torchref.egg-info/dependency_links.txt
2026-05-24T18:39:27,066   writing entry points to torchref.egg-info/entry_points.txt
2026-05-24T18:39:27,071   writing requirements to torchref.egg-info/requires.txt
2026-05-24T18:39:27,072   writing top-level names to torchref.egg-info/top_level.txt
2026-05-24T18:39:27,156   reading manifest file 'torchref.egg-info/SOURCES.txt'
2026-05-24T18:39:27,172   adding license file 'LICENSE'
2026-05-24T18:39:27,186   writing manifest file 'torchref.egg-info/SOURCES.txt'
2026-05-24T18:39:27,284   Getting requirements to build wheel: finished with status 'done'
2026-05-24T18:39:27,287   Created temporary directory: /tmp/pip-modern-metadata-34tas_zl
2026-05-24T18:39:27,290   Preparing metadata (pyproject.toml): started
2026-05-24T18:39:27,291   Running command Preparing metadata (pyproject.toml)
2026-05-24T18:39:27,953   running dist_info
2026-05-24T18:39:27,963   creating /tmp/pip-modern-metadata-34tas_zl/torchref.egg-info
2026-05-24T18:39:27,965   writing /tmp/pip-modern-metadata-34tas_zl/torchref.egg-info/PKG-INFO
2026-05-24T18:39:27,973   writing dependency_links to /tmp/pip-modern-metadata-34tas_zl/torchref.egg-info/dependency_links.txt
2026-05-24T18:39:27,975   writing entry points to /tmp/pip-modern-metadata-34tas_zl/torchref.egg-info/entry_points.txt
2026-05-24T18:39:27,979   writing requirements to /tmp/pip-modern-metadata-34tas_zl/torchref.egg-info/requires.txt
2026-05-24T18:39:27,980   writing top-level names to /tmp/pip-modern-metadata-34tas_zl/torchref.egg-info/top_level.txt
2026-05-24T18:39:27,981   writing manifest file '/tmp/pip-modern-metadata-34tas_zl/torchref.egg-info/SOURCES.txt'
2026-05-24T18:39:28,054   reading manifest file '/tmp/pip-modern-metadata-34tas_zl/torchref.egg-info/SOURCES.txt'
2026-05-24T18:39:28,055   adding license file 'LICENSE'
2026-05-24T18:39:28,065   writing manifest file '/tmp/pip-modern-metadata-34tas_zl/torchref.egg-info/SOURCES.txt'
2026-05-24T18:39:28,067   creating '/tmp/pip-modern-metadata-34tas_zl/torchref-0.5.3.2.dist-info'
2026-05-24T18:39:28,193   Preparing metadata (pyproject.toml): finished with status 'done'
2026-05-24T18:39:28,198   Source in /tmp/pip-wheel-qmqeru03/torchref_899750df52dd4fb1924f405304980832 has version 0.5.3.2, which satisfies requirement torchref==0.5.3.2 from https://files.pythonhosted.org/packages/98/f6/2a93f5b259a424ff00311144782900be99214ed4902a24d8f7c4c515f731/torchref-0.5.3.2.tar.gz
2026-05-24T18:39:28,199   Removed torchref==0.5.3.2 from https://files.pythonhosted.org/packages/98/f6/2a93f5b259a424ff00311144782900be99214ed4902a24d8f7c4c515f731/torchref-0.5.3.2.tar.gz from build tracker '/tmp/pip-build-tracker-iyg46fk0'
2026-05-24T18:39:28,205 Created temporary directory: /tmp/pip-unpack-k8ghu8ho
2026-05-24T18:39:28,206 Building wheels for collected packages: torchref
2026-05-24T18:39:28,211   Created temporary directory: /tmp/pip-wheel-q4zj8shx
2026-05-24T18:39:28,211   Destination directory: /tmp/pip-wheel-q4zj8shx
2026-05-24T18:39:28,213   Building wheel for torchref (pyproject.toml): started
2026-05-24T18:39:28,215   Running command Building wheel for torchref (pyproject.toml)
2026-05-24T18:39:28,855   running bdist_wheel
2026-05-24T18:39:28,872   running build
2026-05-24T18:39:28,873   running build_py
2026-05-24T18:39:28,879   creating build/lib/torchref
2026-05-24T18:39:28,881   copying torchref/config.py -> build/lib/torchref
2026-05-24T18:39:28,883   copying torchref/__init__.py -> build/lib/torchref
2026-05-24T18:39:28,886   copying torchref/_bootstrap.py -> build/lib/torchref
2026-05-24T18:39:28,888   creating build/lib/torchref/refinement
2026-05-24T18:39:28,889   copying torchref/refinement/loss_state.py -> build/lib/torchref/refinement
2026-05-24T18:39:28,892   copying torchref/refinement/base_refinement.py -> build/lib/torchref/refinement
2026-05-24T18:39:28,895   copying torchref/refinement/__init__.py -> build/lib/torchref/refinement
2026-05-24T18:39:28,897   copying torchref/refinement/logger.py -> build/lib/torchref/refinement
2026-05-24T18:39:28,899   copying torchref/refinement/lbfgs_refinement.py -> build/lib/torchref/refinement
2026-05-24T18:39:28,902   creating build/lib/torchref/symmetry
2026-05-24T18:39:28,904   copying torchref/symmetry/map_symmetry_interpolation.py -> build/lib/torchref/symmetry
2026-05-24T18:39:28,906   copying torchref/symmetry/symmetry.py -> build/lib/torchref/symmetry
2026-05-24T18:39:28,908   copying torchref/symmetry/reciprocal_symmetry.py -> build/lib/torchref/symmetry
2026-05-24T18:39:28,911   copying torchref/symmetry/grid_utils.py -> build/lib/torchref/symmetry
2026-05-24T18:39:28,913   copying torchref/symmetry/map_symmetry.py -> build/lib/torchref/symmetry
2026-05-24T18:39:28,916   copying torchref/symmetry/__init__.py -> build/lib/torchref/symmetry
2026-05-24T18:39:28,918   copying torchref/symmetry/spacegroup.py -> build/lib/torchref/symmetry
2026-05-24T18:39:28,920   copying torchref/symmetry/cell.py -> build/lib/torchref/symmetry
2026-05-24T18:39:28,924   creating build/lib/torchref/utils
2026-05-24T18:39:28,925   copying torchref/utils/utils.py -> build/lib/torchref/utils
2026-05-24T18:39:28,927   copying torchref/utils/hyperparameters.py -> build/lib/torchref/utils
2026-05-24T18:39:28,930   copying torchref/utils/serialization.py -> build/lib/torchref/utils
2026-05-24T18:39:28,931   copying torchref/utils/debug_utils.py -> build/lib/torchref/utils
2026-05-24T18:39:28,934   copying torchref/utils/caching.py -> build/lib/torchref/utils
2026-05-24T18:39:28,936   copying torchref/utils/autograd_ops.py -> build/lib/torchref/utils
2026-05-24T18:39:28,938   copying torchref/utils/stats.py -> build/lib/torchref/utils
2026-05-24T18:39:28,940   copying torchref/utils/gradnorm.py -> build/lib/torchref/utils
2026-05-24T18:39:28,942   copying torchref/utils/device_resolution.py -> build/lib/torchref/utils
2026-05-24T18:39:28,944   copying torchref/utils/loss_validation.py -> build/lib/torchref/utils
2026-05-24T18:39:28,946   copying torchref/utils/timing.py -> build/lib/torchref/utils
2026-05-24T18:39:28,948   copying torchref/utils/__init__.py -> build/lib/torchref/utils
2026-05-24T18:39:28,949   copying torchref/utils/device_mixin.py -> build/lib/torchref/utils
2026-05-24T18:39:28,952   copying torchref/utils/pse.py -> build/lib/torchref/utils
2026-05-24T18:39:28,954   copying torchref/utils/autograd_introspection.py -> build/lib/torchref/utils
2026-05-24T18:39:28,956   creating build/lib/torchref/scripts
2026-05-24T18:39:28,957   copying torchref/scripts/generate_scattering_table.py -> build/lib/torchref/scripts
2026-05-24T18:39:28,959   copying torchref/scripts/__init__.py -> build/lib/torchref/scripts
2026-05-24T18:39:28,962   creating build/lib/torchref/model
2026-05-24T18:39:28,963   copying torchref/model/parameter_wrappers.py -> build/lib/torchref/model
2026-05-24T18:39:28,966   copying torchref/model/model_ft.py -> build/lib/torchref/model
2026-05-24T18:39:28,970   copying torchref/model/model.py -> build/lib/torchref/model
2026-05-24T18:39:28,974   copying torchref/model/mixed_model.py -> build/lib/torchref/model
2026-05-24T18:39:28,976   copying torchref/model/__init__.py -> build/lib/torchref/model
2026-05-24T18:39:28,978   copying torchref/model/sf_ds.py -> build/lib/torchref/model
2026-05-24T18:39:28,981   copying torchref/model/sf_fft.py -> build/lib/torchref/model
2026-05-24T18:39:28,983   copying torchref/model/model_collection.py -> build/lib/torchref/model
2026-05-24T18:39:28,986   copying torchref/model/segmented_internal_coordinates.py -> build/lib/torchref/model
2026-05-24T18:39:28,989   copying torchref/model/internal_coordinates.py -> build/lib/torchref/model
2026-05-24T18:39:28,992   copying torchref/model/closed_segmented_internal_coordinates.py -> build/lib/torchref/model
2026-05-24T18:39:28,997   creating build/lib/torchref/alignment
2026-05-24T18:39:28,998   copying torchref/alignment/sampling.py -> build/lib/torchref/alignment
2026-05-24T18:39:29,000   copying torchref/alignment/transform.py -> build/lib/torchref/alignment
2026-05-24T18:39:29,003   copying torchref/alignment/jax_subpixel_peaks.py -> build/lib/torchref/alignment
2026-05-24T18:39:29,005   copying torchref/alignment/pipeline.py -> build/lib/torchref/alignment
2026-05-24T18:39:29,007   copying torchref/alignment/ball_transform.py -> build/lib/torchref/alignment
2026-05-24T18:39:29,010   copying torchref/alignment/rigid_body.py -> build/lib/torchref/alignment
2026-05-24T18:39:29,013   copying torchref/alignment/__init__.py -> build/lib/torchref/alignment
2026-05-24T18:39:29,015   copying torchref/alignment/distributions.py -> build/lib/torchref/alignment
2026-05-24T18:39:29,017   copying torchref/alignment/clashscore.py -> build/lib/torchref/alignment
2026-05-24T18:39:29,020   copying torchref/alignment/translation.py -> build/lib/torchref/alignment
2026-05-24T18:39:29,023   creating build/lib/torchref/restraints
2026-05-24T18:39:29,024   copying torchref/restraints/library.py -> build/lib/torchref/restraints
2026-05-24T18:39:29,026   copying torchref/restraints/builders_numba.py -> build/lib/torchref/restraints
2026-05-24T18:39:29,028   copying torchref/restraints/ramachandran.py -> build/lib/torchref/restraints
2026-05-24T18:39:29,030   copying torchref/restraints/builders_fast.py -> build/lib/torchref/restraints
2026-05-24T18:39:29,034   copying torchref/restraints/restraints.py -> build/lib/torchref/restraints
2026-05-24T18:39:29,038   copying torchref/restraints/neighbor_search.py -> build/lib/torchref/restraints
2026-05-24T18:39:29,041   copying torchref/restraints/__init__.py -> build/lib/torchref/restraints
2026-05-24T18:39:29,043   copying torchref/restraints/hydrogen_topology.py -> build/lib/torchref/restraints
2026-05-24T18:39:29,045   copying torchref/restraints/restraints_helper.py -> build/lib/torchref/restraints
2026-05-24T18:39:29,048   copying torchref/restraints/builders.py -> build/lib/torchref/restraints
2026-05-24T18:39:29,051   creating build/lib/torchref/maps
2026-05-24T18:39:29,052   copying torchref/maps/map.py -> build/lib/torchref/maps
2026-05-24T18:39:29,054   copying torchref/maps/difference_map.py -> build/lib/torchref/maps
2026-05-24T18:39:29,057   copying torchref/maps/__init__.py -> build/lib/torchref/maps
2026-05-24T18:39:29,059   creating build/lib/torchref/scaling
2026-05-24T18:39:29,060   copying torchref/scaling/collection_scaler.py -> build/lib/torchref/scaling
2026-05-24T18:39:29,062   copying torchref/scaling/scaler_base.py -> build/lib/torchref/scaling
2026-05-24T18:39:29,065   copying torchref/scaling/scaler.py -> build/lib/torchref/scaling
2026-05-24T18:39:29,068   copying torchref/scaling/__init__.py -> build/lib/torchref/scaling
2026-05-24T18:39:29,070   copying torchref/scaling/solvent.py -> build/lib/torchref/scaling
2026-05-24T18:39:29,074   creating build/lib/torchref/io
2026-05-24T18:39:29,075   copying torchref/io/pdb.py -> build/lib/torchref/io
2026-05-24T18:39:29,078   copying torchref/io/mtz.py -> build/lib/torchref/io
2026-05-24T18:39:29,080   copying torchref/io/data_router.py -> build/lib/torchref/io
2026-05-24T18:39:29,083   copying torchref/io/ihm_mapping.py -> build/lib/torchref/io
2026-05-24T18:39:29,086   copying torchref/io/ihm.py -> build/lib/torchref/io
2026-05-24T18:39:29,089   copying torchref/io/__init__.py -> build/lib/torchref/io
2026-05-24T18:39:29,091   copying torchref/io/cif_readers.py -> build/lib/torchref/io
2026-05-24T18:39:29,095   copying torchref/io/metadata.py -> build/lib/torchref/io
2026-05-24T18:39:29,098   copying torchref/io/cif.py -> build/lib/torchref/io
2026-05-24T18:39:29,101   creating build/lib/torchref/base
2026-05-24T18:39:29,103   copying torchref/base/CCTBX_related.py -> build/lib/torchref/base
2026-05-24T18:39:29,105   copying torchref/base/__init__.py -> build/lib/torchref/base
2026-05-24T18:39:29,107   copying torchref/base/math_torch.py -> build/lib/torchref/base
2026-05-24T18:39:29,110   copying torchref/base/get_scattering_factor_torch.py -> build/lib/torchref/base
2026-05-24T18:39:29,112   copying torchref/base/french_wilson.py -> build/lib/torchref/base
2026-05-24T18:39:29,115   copying torchref/base/math_numpy.py -> build/lib/torchref/base
2026-05-24T18:39:29,118   creating build/lib/torchref/cli
2026-05-24T18:39:29,119   copying torchref/cli/refine.py -> build/lib/torchref/cli
2026-05-24T18:39:29,122   copying torchref/cli/_common.py -> build/lib/torchref/cli
2026-05-24T18:39:29,125   copying torchref/cli/mtz2map.py -> build/lib/torchref/cli
2026-05-24T18:39:29,127   copying torchref/cli/phased_difference_map.py -> build/lib/torchref/cli
2026-05-24T18:39:29,130   copying torchref/cli/add_metadata.py -> build/lib/torchref/cli
2026-05-24T18:39:29,132   copying torchref/cli/__init__.py -> build/lib/torchref/cli
2026-05-24T18:39:29,134   copying torchref/cli/validate_ded.py -> build/lib/torchref/cli
2026-05-24T18:39:29,137   copying torchref/cli/strip_altlocs.py -> build/lib/torchref/cli
2026-05-24T18:39:29,139   copying torchref/cli/collection_difference_refine.py -> build/lib/torchref/cli
2026-05-24T18:39:29,142   creating build/lib/torchref/kinetic
2026-05-24T18:39:29,143   copying torchref/kinetic/targets.py -> build/lib/torchref/kinetic
2026-05-24T18:39:29,146   copying torchref/kinetic/occupancies.py -> build/lib/torchref/kinetic
2026-05-24T18:39:29,149   copying torchref/kinetic/__init__.py -> build/lib/torchref/kinetic
2026-05-24T18:39:29,150   copying torchref/kinetic/kinetics.py -> build/lib/torchref/kinetic
2026-05-24T18:39:29,153   copying torchref/kinetic/refinement.py -> build/lib/torchref/kinetic
2026-05-24T18:39:29,156   creating build/lib/torchref/refinement/targets
2026-05-24T18:39:29,157   copying torchref/refinement/targets/occupancy_floor_diagnostic.py -> build/lib/torchref/refinement/targets
2026-05-24T18:39:29,160   copying torchref/refinement/targets/similarity.py -> build/lib/torchref/refinement/targets
2026-05-24T18:39:29,162   copying torchref/refinement/targets/realspace.py -> build/lib/torchref/refinement/targets
2026-05-24T18:39:29,165   copying torchref/refinement/targets/difference.py -> build/lib/torchref/refinement/targets
2026-05-24T18:39:29,168   copying torchref/refinement/targets/__init__.py -> build/lib/torchref/refinement/targets
2026-05-24T18:39:29,170   copying torchref/refinement/targets/combined.py -> build/lib/torchref/refinement/targets
2026-05-24T18:39:29,172   copying torchref/refinement/targets/base.py -> build/lib/torchref/refinement/targets
2026-05-24T18:39:29,175   copying torchref/refinement/targets/amber_target.py -> build/lib/torchref/refinement/targets
2026-05-24T18:39:29,178   copying torchref/refinement/targets/sampled_ml_phase_target.py -> build/lib/torchref/refinement/targets
2026-05-24T18:39:29,181   copying torchref/refinement/targets/forcefield_target.py -> build/lib/torchref/refinement/targets
2026-05-24T18:39:29,184   creating build/lib/torchref/refinement/optimizers
2026-05-24T18:39:29,185   copying torchref/refinement/optimizers/internal_coord_sa.py -> build/lib/torchref/refinement/optimizers
2026-05-24T18:39:29,188   copying torchref/refinement/optimizers/simulated_annealing.py -> build/lib/torchref/refinement/optimizers
2026-05-24T18:39:29,190   copying torchref/refinement/optimizers/langevin_sa.py -> build/lib/torchref/refinement/optimizers
2026-05-24T18:39:29,192   copying torchref/refinement/optimizers/exploratory_lbfgs.py -> build/lib/torchref/refinement/optimizers
2026-05-24T18:39:29,195   copying torchref/refinement/optimizers/adam_noise.py -> build/lib/torchref/refinement/optimizers
2026-05-24T18:39:29,197   copying torchref/refinement/optimizers/__init__.py -> build/lib/torchref/refinement/optimizers
2026-05-24T18:39:29,199   copying torchref/refinement/optimizers/momentum_sa.py -> build/lib/torchref/refinement/optimizers
2026-05-24T18:39:29,202   creating build/lib/torchref/refinement/weighting
2026-05-24T18:39:29,203   copying torchref/refinement/weighting/random_weighting.py -> build/lib/torchref/refinement/weighting
2026-05-24T18:39:29,206   copying torchref/refinement/weighting/es_policy_training.py -> build/lib/torchref/refinement/weighting
2026-05-24T18:39:29,208   copying torchref/refinement/weighting/policy_weighting.py -> build/lib/torchref/refinement/weighting
2026-05-24T18:39:29,211   copying torchref/refinement/weighting/component_weighting.py -> build/lib/torchref/refinement/weighting
2026-05-24T18:39:29,213   copying torchref/refinement/weighting/__init__.py -> build/lib/torchref/refinement/weighting
2026-05-24T18:39:29,215   copying torchref/refinement/weighting/base_weighting.py -> build/lib/torchref/refinement/weighting
2026-05-24T18:39:29,217   creating build/lib/torchref/refinement/targets/xray
2026-05-24T18:39:29,219   copying torchref/refinement/targets/xray/least_squares.py -> build/lib/torchref/refinement/targets/xray
2026-05-24T18:39:29,221   copying torchref/refinement/targets/xray/maximum_likelihood.py -> build/lib/torchref/refinement/targets/xray
2026-05-24T18:39:29,223   copying torchref/refinement/targets/xray/__init__.py -> build/lib/torchref/refinement/targets/xray
2026-05-24T18:39:29,225   copying torchref/refinement/targets/xray/base.py -> build/lib/torchref/refinement/targets/xray
2026-05-24T18:39:29,227   copying torchref/refinement/targets/xray/gaussian.py -> build/lib/torchref/refinement/targets/xray
2026-05-24T18:39:29,229   copying torchref/refinement/targets/xray/bhattacharyya.py -> build/lib/torchref/refinement/targets/xray
2026-05-24T18:39:29,232   creating build/lib/torchref/refinement/targets/adp
2026-05-24T18:39:29,233   copying torchref/refinement/targets/adp/rigid_bond.py -> build/lib/torchref/refinement/targets/adp
2026-05-24T18:39:29,235   copying torchref/refinement/targets/adp/entropy.py -> build/lib/torchref/refinement/targets/adp
2026-05-24T18:39:29,237   copying torchref/refinement/targets/adp/similarity.py -> build/lib/torchref/refinement/targets/adp
2026-05-24T18:39:29,239   copying torchref/refinement/targets/adp/scaler_log_scale.py -> build/lib/torchref/refinement/targets/adp
2026-05-24T18:39:29,241   copying torchref/refinement/targets/adp/__init__.py -> build/lib/torchref/refinement/targets/adp
2026-05-24T18:39:29,243   copying torchref/refinement/targets/adp/base.py -> build/lib/torchref/refinement/targets/adp
2026-05-24T18:39:29,245   copying torchref/refinement/targets/adp/scaler_u.py -> build/lib/torchref/refinement/targets/adp
2026-05-24T18:39:29,247   copying torchref/refinement/targets/adp/locality.py -> build/lib/torchref/refinement/targets/adp
2026-05-24T18:39:29,250   creating build/lib/torchref/refinement/targets/geometry
2026-05-24T18:39:29,251   copying torchref/refinement/targets/geometry/ramachandran.py -> build/lib/torchref/refinement/targets/geometry
2026-05-24T18:39:29,253   copying torchref/refinement/targets/geometry/non_bonded.py -> build/lib/torchref/refinement/targets/geometry
2026-05-24T18:39:29,256   copying torchref/refinement/targets/geometry/planarity.py -> build/lib/torchref/refinement/targets/geometry
2026-05-24T18:39:29,258   copying torchref/refinement/targets/geometry/non_bonded_h.py -> build/lib/torchref/refinement/targets/geometry
2026-05-24T18:39:29,261   copying torchref/refinement/targets/geometry/bonds.py -> build/lib/torchref/refinement/targets/geometry
2026-05-24T18:39:29,262   copying torchref/refinement/targets/geometry/torsions.py -> build/lib/torchref/refinement/targets/geometry
2026-05-24T18:39:29,265   copying torchref/refinement/targets/geometry/__init__.py -> build/lib/torchref/refinement/targets/geometry
2026-05-24T18:39:29,267   copying torchref/refinement/targets/geometry/angles.py -> build/lib/torchref/refinement/targets/geometry
2026-05-24T18:39:29,269   copying torchref/refinement/targets/geometry/chiral.py -> build/lib/torchref/refinement/targets/geometry
2026-05-24T18:39:29,271   copying torchref/refinement/targets/geometry/base.py -> build/lib/torchref/refinement/targets/geometry
2026-05-24T18:39:29,273   creating build/lib/torchref/io/datasets
2026-05-24T18:39:29,274   copying torchref/io/datasets/reflection_data.py -> build/lib/torchref/io/datasets
2026-05-24T18:39:29,279   copying torchref/io/datasets/fcalc_data.py -> build/lib/torchref/io/datasets
2026-05-24T18:39:29,281   copying torchref/io/datasets/__init__.py -> build/lib/torchref/io/datasets
2026-05-24T18:39:29,283   copying torchref/io/datasets/base.py -> build/lib/torchref/io/datasets
2026-05-24T18:39:29,286   copying torchref/io/datasets/collection.py -> build/lib/torchref/io/datasets
2026-05-24T18:39:29,293   creating build/lib/torchref/base/metrics
2026-05-24T18:39:29,294   copying torchref/base/metrics/loss.py -> build/lib/torchref/base/metrics
2026-05-24T18:39:29,297   copying torchref/base/metrics/__init__.py -> build/lib/torchref/base/metrics
2026-05-24T18:39:29,299   copying torchref/base/metrics/rfactor.py -> build/lib/torchref/base/metrics
2026-05-24T18:39:29,301   creating build/lib/torchref/base/fourier
2026-05-24T18:39:29,302   copying torchref/base/fourier/grid.py -> build/lib/torchref/base/fourier
2026-05-24T18:39:29,308   copying torchref/base/fourier/fft.py -> build/lib/torchref/base/fourier
2026-05-24T18:39:29,310   copying torchref/base/fourier/__init__.py -> build/lib/torchref/base/fourier
2026-05-24T18:39:29,312   creating build/lib/torchref/base/targets
2026-05-24T18:39:29,313   copying torchref/base/targets/xray_gaussian.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,315   copying torchref/base/targets/angle.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,317   copying torchref/base/targets/ramachandran.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,319   copying torchref/base/targets/bond.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,320   copying torchref/base/targets/xray_ls.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,322   copying torchref/base/targets/_common.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,324   copying torchref/base/targets/xray_bhattacharyya.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,326   copying torchref/base/targets/planarity.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,328   copying torchref/base/targets/nonbonded.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,330   copying torchref/base/targets/__init__.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,332   copying torchref/base/targets/adp.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,334   copying torchref/base/targets/chiral.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,335   copying torchref/base/targets/torsion.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,337   copying torchref/base/targets/_dispatch.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,339   copying torchref/base/targets/xray_ml.py -> build/lib/torchref/base/targets
2026-05-24T18:39:29,341   creating build/lib/torchref/base/electron_density
2026-05-24T18:39:29,342   copying torchref/base/electron_density/voxel_utils.py -> build/lib/torchref/base/electron_density
2026-05-24T18:39:29,345   copying torchref/base/electron_density/__init__.py -> build/lib/torchref/base/electron_density
2026-05-24T18:39:29,347   copying torchref/base/electron_density/map_building.py -> build/lib/torchref/base/electron_density
2026-05-24T18:39:29,349   copying torchref/base/electron_density/main.py -> build/lib/torchref/base/electron_density
2026-05-24T18:39:29,352   copying torchref/base/electron_density/solvent_mask.py -> build/lib/torchref/base/electron_density
2026-05-24T18:39:29,355   creating build/lib/torchref/base/alignment
2026-05-24T18:39:29,356   copying torchref/base/alignment/superposition.py -> build/lib/torchref/base/alignment
2026-05-24T18:39:29,359   copying torchref/base/alignment/rotation.py -> build/lib/torchref/base/alignment
2026-05-24T18:39:29,362   copying torchref/base/alignment/normalization.py -> build/lib/torchref/base/alignment
2026-05-24T18:39:29,364   copying torchref/base/alignment/scoring.py -> build/lib/torchref/base/alignment
2026-05-24T18:39:29,366   copying torchref/base/alignment/__init__.py -> build/lib/torchref/base/alignment
2026-05-24T18:39:29,368   creating build/lib/torchref/base/coordinates
2026-05-24T18:39:29,370   copying torchref/base/coordinates/periodic_boundary.py -> build/lib/torchref/base/coordinates
2026-05-24T18:39:29,372   copying torchref/base/coordinates/__init__.py -> build/lib/torchref/base/coordinates
2026-05-24T18:39:29,374   copying torchref/base/coordinates/transforms_numpy.py -> build/lib/torchref/base/coordinates
2026-05-24T18:39:29,376   copying torchref/base/coordinates/transforms_torch.py -> build/lib/torchref/base/coordinates
2026-05-24T18:39:29,378   creating build/lib/torchref/base/scattering
2026-05-24T18:39:29,379   copying torchref/base/scattering/scattering_table.py -> build/lib/torchref/base/scattering
2026-05-24T18:39:29,381   copying torchref/base/scattering/itc92.py -> build/lib/torchref/base/scattering
2026-05-24T18:39:29,384   copying torchref/base/scattering/__init__.py -> build/lib/torchref/base/scattering
2026-05-24T18:39:29,386   copying torchref/base/scattering/anomalous_table.py -> build/lib/torchref/base/scattering
2026-05-24T18:39:29,388   creating build/lib/torchref/base/direct_summation
2026-05-24T18:39:29,389   copying torchref/base/direct_summation/anisotropic.py -> build/lib/torchref/base/direct_summation
2026-05-24T18:39:29,392   copying torchref/base/direct_summation/corrections.py -> build/lib/torchref/base/direct_summation
2026-05-24T18:39:29,394   copying torchref/base/direct_summation/__init__.py -> build/lib/torchref/base/direct_summation
2026-05-24T18:39:29,396   copying torchref/base/direct_summation/isotropic.py -> build/lib/torchref/base/direct_summation
2026-05-24T18:39:29,398   creating build/lib/torchref/base/chain_closure
2026-05-24T18:39:29,399   copying torchref/base/chain_closure/backbone_utils.py -> build/lib/torchref/base/chain_closure
2026-05-24T18:39:29,402   copying torchref/base/chain_closure/__init__.py -> build/lib/torchref/base/chain_closure
2026-05-24T18:39:29,403   copying torchref/base/chain_closure/closure.py -> build/lib/torchref/base/chain_closure
2026-05-24T18:39:29,406   creating build/lib/torchref/base/kernels
2026-05-24T18:39:29,408   copying torchref/base/kernels/optimized_ops.py -> build/lib/torchref/base/kernels
2026-05-24T18:39:29,410   copying torchref/base/kernels/triton_kernel.py -> build/lib/torchref/base/kernels
2026-05-24T18:39:29,413   copying torchref/base/kernels/separable_triton_kernel.py -> build/lib/torchref/base/kernels
2026-05-24T18:39:29,416   copying torchref/base/kernels/__init__.py -> build/lib/torchref/base/kernels
2026-05-24T18:39:29,418   copying torchref/base/kernels/jit_kernel_vectorized_add_to_map.py -> build/lib/torchref/base/kernels
2026-05-24T18:39:29,420   copying torchref/base/kernels/cpu_scatter.py -> build/lib/torchref/base/kernels
2026-05-24T18:39:29,423   creating build/lib/torchref/base/reciprocal
2026-05-24T18:39:29,424   copying torchref/base/reciprocal/symmetry.py -> build/lib/torchref/base/reciprocal
2026-05-24T18:39:29,427   copying torchref/base/reciprocal/hkl.py -> build/lib/torchref/base/reciprocal
2026-05-24T18:39:29,429   copying torchref/base/reciprocal/basis.py -> build/lib/torchref/base/reciprocal
2026-05-24T18:39:29,431   copying torchref/base/reciprocal/__init__.py -> build/lib/torchref/base/reciprocal
2026-05-24T18:39:29,433   copying torchref/base/reciprocal/grid_operations.py -> build/lib/torchref/base/reciprocal
2026-05-24T18:39:29,435   copying torchref/base/reciprocal/interpolation.py -> build/lib/torchref/base/reciprocal
2026-05-24T18:39:29,438   creating build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,439   copying torchref/base/targets/triton/xray_gaussian.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,441   copying torchref/base/targets/triton/angle.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,444   copying torchref/base/targets/triton/ramachandran.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,446   copying torchref/base/targets/triton/bond.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,448   copying torchref/base/targets/triton/xray_ls.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,450   copying torchref/base/targets/triton/place_hydrogens.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,453   copying torchref/base/targets/triton/xray_bhattacharyya.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,455   copying torchref/base/targets/triton/planarity.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,458   copying torchref/base/targets/triton/nonbonded.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,461   copying torchref/base/targets/triton/__init__.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,463   copying torchref/base/targets/triton/adp_simu.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,465   copying torchref/base/targets/triton/chiral.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,467   copying torchref/base/targets/triton/torsion.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,470   copying torchref/base/targets/triton/xray_ml.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,473   copying torchref/base/targets/triton/_dihedral.py -> build/lib/torchref/base/targets/triton
2026-05-24T18:39:29,475   running egg_info
2026-05-24T18:39:29,484   writing torchref.egg-info/PKG-INFO
2026-05-24T18:39:29,492   writing dependency_links to torchref.egg-info/dependency_links.txt
2026-05-24T18:39:29,494   writing entry points to torchref.egg-info/entry_points.txt
2026-05-24T18:39:29,497   writing requirements to torchref.egg-info/requires.txt
2026-05-24T18:39:29,499   writing top-level names to torchref.egg-info/top_level.txt
2026-05-24T18:39:29,560   reading manifest file 'torchref.egg-info/SOURCES.txt'
2026-05-24T18:39:29,575   adding license file 'LICENSE'
2026-05-24T18:39:29,588   writing manifest file 'torchref.egg-info/SOURCES.txt'
2026-05-24T18:39:29,631   creating build/lib/torchref/data
2026-05-24T18:39:29,632   copying torchref/data/atomic_vdw_radii.csv -> build/lib/torchref/data
2026-05-24T18:39:29,636   copying torchref/data/itc92_scattering_factors.pt -> build/lib/torchref/data
2026-05-24T18:39:29,639   copying torchref/data/rama_nll_surfaces.pt -> build/lib/torchref/data
2026-05-24T18:39:29,714   creating build/lib/torchref/data/monomer_library/l
2026-05-24T18:39:29,715   copying torchref/data/monomer_library/l/LYS.cif -> build/lib/torchref/data/monomer_library/l
2026-05-24T18:39:29,718   copying torchref/data/monomer_library/l/LEU.cif -> build/lib/torchref/data/monomer_library/l
2026-05-24T18:39:29,721   creating build/lib/torchref/data/monomer_library/m
2026-05-24T18:39:29,722   copying torchref/data/monomer_library/m/MET.cif -> build/lib/torchref/data/monomer_library/m
2026-05-24T18:39:29,725   copying torchref/data/monomer_library/m/MSE.cif -> build/lib/torchref/data/monomer_library/m
2026-05-24T18:39:29,727   creating build/lib/torchref/data/monomer_library/t
2026-05-24T18:39:29,729   copying torchref/data/monomer_library/t/TPO.cif -> build/lib/torchref/data/monomer_library/t
2026-05-24T18:39:29,731   copying torchref/data/monomer_library/t/THR.cif -> build/lib/torchref/data/monomer_library/t
2026-05-24T18:39:29,734   copying torchref/data/monomer_library/t/TRP.cif -> build/lib/torchref/data/monomer_library/t
2026-05-24T18:39:29,737   copying torchref/data/monomer_library/t/TYR.cif -> build/lib/torchref/data/monomer_library/t
2026-05-24T18:39:29,739   creating build/lib/torchref/data/monomer_library/v
2026-05-24T18:39:29,740   copying torchref/data/monomer_library/v/VAL.cif -> build/lib/torchref/data/monomer_library/v
2026-05-24T18:39:29,743   creating build/lib/torchref/data/monomer_library/g
2026-05-24T18:39:29,744   copying torchref/data/monomer_library/g/GLN.cif -> build/lib/torchref/data/monomer_library/g
2026-05-24T18:39:29,747   copying torchref/data/monomer_library/g/GLU.cif -> build/lib/torchref/data/monomer_library/g
2026-05-24T18:39:29,749   copying torchref/data/monomer_library/g/GLY.cif -> build/lib/torchref/data/monomer_library/g
2026-05-24T18:39:29,752   copying torchref/data/monomer_library/g/G.cif -> build/lib/torchref/data/monomer_library/g
2026-05-24T18:39:29,755   creating build/lib/torchref/data/monomer_library/u
2026-05-24T18:39:29,756   copying torchref/data/monomer_library/u/U.cif -> build/lib/torchref/data/monomer_library/u
2026-05-24T18:39:29,759   creating build/lib/torchref/data/monomer_library/list
2026-05-24T18:39:29,760   copying torchref/data/monomer_library/list/mon_lib_list.cif -> build/lib/torchref/data/monomer_library/list
2026-05-24T18:39:29,831   creating build/lib/torchref/data/monomer_library/d
2026-05-24T18:39:29,832   copying torchref/data/monomer_library/d/DT.cif -> build/lib/torchref/data/monomer_library/d
2026-05-24T18:39:29,835   copying torchref/data/monomer_library/d/DG.cif -> build/lib/torchref/data/monomer_library/d
2026-05-24T18:39:29,838   copying torchref/data/monomer_library/d/DC.cif -> build/lib/torchref/data/monomer_library/d
2026-05-24T18:39:29,841   copying torchref/data/monomer_library/d/DA.cif -> build/lib/torchref/data/monomer_library/d
2026-05-24T18:39:29,844   creating build/lib/torchref/data/monomer_library/s
2026-05-24T18:39:29,845   copying torchref/data/monomer_library/s/SEP.cif -> build/lib/torchref/data/monomer_library/s
2026-05-24T18:39:29,848   copying torchref/data/monomer_library/s/SER.cif -> build/lib/torchref/data/monomer_library/s
2026-05-24T18:39:29,850   creating build/lib/torchref/data/monomer_library/p
2026-05-24T18:39:29,851   copying torchref/data/monomer_library/p/PHE.cif -> build/lib/torchref/data/monomer_library/p
2026-05-24T18:39:29,854   copying torchref/data/monomer_library/p/PRO.cif -> build/lib/torchref/data/monomer_library/p
2026-05-24T18:39:29,856   copying torchref/data/monomer_library/p/PTR.cif -> build/lib/torchref/data/monomer_library/p
2026-05-24T18:39:29,859   creating build/lib/torchref/data/monomer_library/h
2026-05-24T18:39:29,860   copying torchref/data/monomer_library/h/HYP.cif -> build/lib/torchref/data/monomer_library/h
2026-05-24T18:39:29,862   copying torchref/data/monomer_library/h/HOH.cif -> build/lib/torchref/data/monomer_library/h
2026-05-24T18:39:29,865   copying torchref/data/monomer_library/h/HIS.cif -> build/lib/torchref/data/monomer_library/h
2026-05-24T18:39:29,867   creating build/lib/torchref/data/monomer_library/i
2026-05-24T18:39:29,868   copying torchref/data/monomer_library/i/ILE.cif -> build/lib/torchref/data/monomer_library/i
2026-05-24T18:39:29,871   creating build/lib/torchref/data/monomer_library/a
2026-05-24T18:39:29,872   copying torchref/data/monomer_library/a/ARG.cif -> build/lib/torchref/data/monomer_library/a
2026-05-24T18:39:29,874   copying torchref/data/monomer_library/a/ASN.cif -> build/lib/torchref/data/monomer_library/a
2026-05-24T18:39:29,877   copying torchref/data/monomer_library/a/ALA.cif -> build/lib/torchref/data/monomer_library/a
2026-05-24T18:39:29,879   copying torchref/data/monomer_library/a/A.cif -> build/lib/torchref/data/monomer_library/a
2026-05-24T18:39:29,882   copying torchref/data/monomer_library/a/ASP.cif -> build/lib/torchref/data/monomer_library/a
2026-05-24T18:39:29,884   creating build/lib/torchref/data/monomer_library/c
2026-05-24T18:39:29,885   copying torchref/data/monomer_library/c/CYS.cif -> build/lib/torchref/data/monomer_library/c
2026-05-24T18:39:29,888   copying torchref/data/monomer_library/c/C.cif -> build/lib/torchref/data/monomer_library/c
2026-05-24T18:39:29,936   installing to build/bdist.linux-armv7l/wheel
2026-05-24T18:39:29,937   running install
2026-05-24T18:39:29,959   running install_lib
2026-05-24T18:39:29,964   creating build/bdist.linux-armv7l/wheel
2026-05-24T18:39:29,966   creating build/bdist.linux-armv7l/wheel/torchref
2026-05-24T18:39:29,968   creating build/bdist.linux-armv7l/wheel/torchref/refinement
2026-05-24T18:39:29,970   creating build/bdist.linux-armv7l/wheel/torchref/refinement/targets
2026-05-24T18:39:29,971   copying build/lib/torchref/refinement/targets/occupancy_floor_diagnostic.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets
2026-05-24T18:39:29,974   copying build/lib/torchref/refinement/targets/similarity.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets
2026-05-24T18:39:29,977   creating build/bdist.linux-armv7l/wheel/torchref/refinement/targets/xray
2026-05-24T18:39:29,978   copying build/lib/torchref/refinement/targets/xray/least_squares.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/xray
2026-05-24T18:39:29,980   copying build/lib/torchref/refinement/targets/xray/maximum_likelihood.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/xray
2026-05-24T18:39:29,982   copying build/lib/torchref/refinement/targets/xray/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/xray
2026-05-24T18:39:29,984   copying build/lib/torchref/refinement/targets/xray/base.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/xray
2026-05-24T18:39:29,986   copying build/lib/torchref/refinement/targets/xray/gaussian.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/xray
2026-05-24T18:39:29,988   copying build/lib/torchref/refinement/targets/xray/bhattacharyya.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/xray
2026-05-24T18:39:29,991   copying build/lib/torchref/refinement/targets/realspace.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets
2026-05-24T18:39:29,993   copying build/lib/torchref/refinement/targets/difference.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets
2026-05-24T18:39:29,997   creating build/bdist.linux-armv7l/wheel/torchref/refinement/targets/adp
2026-05-24T18:39:29,998   copying build/lib/torchref/refinement/targets/adp/rigid_bond.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/adp
2026-05-24T18:39:30,001   copying build/lib/torchref/refinement/targets/adp/entropy.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/adp
2026-05-24T18:39:30,002   copying build/lib/torchref/refinement/targets/adp/similarity.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/adp
2026-05-24T18:39:30,005   copying build/lib/torchref/refinement/targets/adp/scaler_log_scale.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/adp
2026-05-24T18:39:30,006   copying build/lib/torchref/refinement/targets/adp/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/adp
2026-05-24T18:39:30,008   copying build/lib/torchref/refinement/targets/adp/base.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/adp
2026-05-24T18:39:30,010   copying build/lib/torchref/refinement/targets/adp/scaler_u.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/adp
2026-05-24T18:39:30,012   copying build/lib/torchref/refinement/targets/adp/locality.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/adp
2026-05-24T18:39:30,014   copying build/lib/torchref/refinement/targets/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets
2026-05-24T18:39:30,016   copying build/lib/torchref/refinement/targets/combined.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets
2026-05-24T18:39:30,019   copying build/lib/torchref/refinement/targets/base.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets
2026-05-24T18:39:30,021   copying build/lib/torchref/refinement/targets/amber_target.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets
2026-05-24T18:39:30,025   creating build/bdist.linux-armv7l/wheel/torchref/refinement/targets/geometry
2026-05-24T18:39:30,026   copying build/lib/torchref/refinement/targets/geometry/ramachandran.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/geometry
2026-05-24T18:39:30,028   copying build/lib/torchref/refinement/targets/geometry/non_bonded.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/geometry
2026-05-24T18:39:30,030   copying build/lib/torchref/refinement/targets/geometry/planarity.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/geometry
2026-05-24T18:39:30,033   copying build/lib/torchref/refinement/targets/geometry/non_bonded_h.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/geometry
2026-05-24T18:39:30,035   copying build/lib/torchref/refinement/targets/geometry/bonds.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/geometry
2026-05-24T18:39:30,037   copying build/lib/torchref/refinement/targets/geometry/torsions.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/geometry
2026-05-24T18:39:30,039   copying build/lib/torchref/refinement/targets/geometry/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/geometry
2026-05-24T18:39:30,041   copying build/lib/torchref/refinement/targets/geometry/angles.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/geometry
2026-05-24T18:39:30,043   copying build/lib/torchref/refinement/targets/geometry/chiral.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/geometry
2026-05-24T18:39:30,045   copying build/lib/torchref/refinement/targets/geometry/base.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets/geometry
2026-05-24T18:39:30,047   copying build/lib/torchref/refinement/targets/sampled_ml_phase_target.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets
2026-05-24T18:39:30,050   copying build/lib/torchref/refinement/targets/forcefield_target.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/targets
2026-05-24T18:39:30,053   creating build/bdist.linux-armv7l/wheel/torchref/refinement/optimizers
2026-05-24T18:39:30,054   copying build/lib/torchref/refinement/optimizers/internal_coord_sa.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/optimizers
2026-05-24T18:39:30,056   copying build/lib/torchref/refinement/optimizers/simulated_annealing.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/optimizers
2026-05-24T18:39:30,059   copying build/lib/torchref/refinement/optimizers/langevin_sa.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/optimizers
2026-05-24T18:39:30,061   copying build/lib/torchref/refinement/optimizers/exploratory_lbfgs.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/optimizers
2026-05-24T18:39:30,064   copying build/lib/torchref/refinement/optimizers/adam_noise.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/optimizers
2026-05-24T18:39:30,066   copying build/lib/torchref/refinement/optimizers/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/optimizers
2026-05-24T18:39:30,068   copying build/lib/torchref/refinement/optimizers/momentum_sa.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/optimizers
2026-05-24T18:39:30,070   copying build/lib/torchref/refinement/loss_state.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement
2026-05-24T18:39:30,073   copying build/lib/torchref/refinement/base_refinement.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement
2026-05-24T18:39:30,076   creating build/bdist.linux-armv7l/wheel/torchref/refinement/weighting
2026-05-24T18:39:30,077   copying build/lib/torchref/refinement/weighting/random_weighting.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/weighting
2026-05-24T18:39:30,080   copying build/lib/torchref/refinement/weighting/es_policy_training.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/weighting
2026-05-24T18:39:30,083   copying build/lib/torchref/refinement/weighting/policy_weighting.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/weighting
2026-05-24T18:39:30,086   copying build/lib/torchref/refinement/weighting/component_weighting.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/weighting
2026-05-24T18:39:30,088   copying build/lib/torchref/refinement/weighting/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/weighting
2026-05-24T18:39:30,090   copying build/lib/torchref/refinement/weighting/base_weighting.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement/weighting
2026-05-24T18:39:30,092   copying build/lib/torchref/refinement/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement
2026-05-24T18:39:30,094   copying build/lib/torchref/refinement/logger.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement
2026-05-24T18:39:30,097   copying build/lib/torchref/refinement/lbfgs_refinement.py -> build/bdist.linux-armv7l/wheel/./torchref/refinement
2026-05-24T18:39:30,099   copying build/lib/torchref/config.py -> build/bdist.linux-armv7l/wheel/./torchref
2026-05-24T18:39:30,102   creating build/bdist.linux-armv7l/wheel/torchref/symmetry
2026-05-24T18:39:30,103   copying build/lib/torchref/symmetry/map_symmetry_interpolation.py -> build/bdist.linux-armv7l/wheel/./torchref/symmetry
2026-05-24T18:39:30,106   copying build/lib/torchref/symmetry/symmetry.py -> build/bdist.linux-armv7l/wheel/./torchref/symmetry
2026-05-24T18:39:30,108   copying build/lib/torchref/symmetry/reciprocal_symmetry.py -> build/bdist.linux-armv7l/wheel/./torchref/symmetry
2026-05-24T18:39:30,111   copying build/lib/torchref/symmetry/grid_utils.py -> build/bdist.linux-armv7l/wheel/./torchref/symmetry
2026-05-24T18:39:30,113   copying build/lib/torchref/symmetry/map_symmetry.py -> build/bdist.linux-armv7l/wheel/./torchref/symmetry
2026-05-24T18:39:30,116   copying build/lib/torchref/symmetry/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/symmetry
2026-05-24T18:39:30,118   copying build/lib/torchref/symmetry/spacegroup.py -> build/bdist.linux-armv7l/wheel/./torchref/symmetry
2026-05-24T18:39:30,121   copying build/lib/torchref/symmetry/cell.py -> build/bdist.linux-armv7l/wheel/./torchref/symmetry
2026-05-24T18:39:30,124   creating build/bdist.linux-armv7l/wheel/torchref/utils
2026-05-24T18:39:30,125   copying build/lib/torchref/utils/utils.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,128   copying build/lib/torchref/utils/hyperparameters.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,130   copying build/lib/torchref/utils/serialization.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,132   copying build/lib/torchref/utils/debug_utils.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,134   copying build/lib/torchref/utils/caching.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,137   copying build/lib/torchref/utils/autograd_ops.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,139   copying build/lib/torchref/utils/stats.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,141   copying build/lib/torchref/utils/gradnorm.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,143   copying build/lib/torchref/utils/device_resolution.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,145   copying build/lib/torchref/utils/loss_validation.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,147   copying build/lib/torchref/utils/timing.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,149   copying build/lib/torchref/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,151   copying build/lib/torchref/utils/device_mixin.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,153   copying build/lib/torchref/utils/pse.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,155   copying build/lib/torchref/utils/autograd_introspection.py -> build/bdist.linux-armv7l/wheel/./torchref/utils
2026-05-24T18:39:30,158   creating build/bdist.linux-armv7l/wheel/torchref/scripts
2026-05-24T18:39:30,159   copying build/lib/torchref/scripts/generate_scattering_table.py -> build/bdist.linux-armv7l/wheel/./torchref/scripts
2026-05-24T18:39:30,161   copying build/lib/torchref/scripts/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/scripts
2026-05-24T18:39:30,164   creating build/bdist.linux-armv7l/wheel/torchref/model
2026-05-24T18:39:30,165   copying build/lib/torchref/model/parameter_wrappers.py -> build/bdist.linux-armv7l/wheel/./torchref/model
2026-05-24T18:39:30,169   copying build/lib/torchref/model/model_ft.py -> build/bdist.linux-armv7l/wheel/./torchref/model
2026-05-24T18:39:30,172   copying build/lib/torchref/model/model.py -> build/bdist.linux-armv7l/wheel/./torchref/model
2026-05-24T18:39:30,176   copying build/lib/torchref/model/mixed_model.py -> build/bdist.linux-armv7l/wheel/./torchref/model
2026-05-24T18:39:30,179   copying build/lib/torchref/model/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/model
2026-05-24T18:39:30,181   copying build/lib/torchref/model/sf_ds.py -> build/bdist.linux-armv7l/wheel/./torchref/model
2026-05-24T18:39:30,184   copying build/lib/torchref/model/sf_fft.py -> build/bdist.linux-armv7l/wheel/./torchref/model
2026-05-24T18:39:30,186   copying build/lib/torchref/model/model_collection.py -> build/bdist.linux-armv7l/wheel/./torchref/model
2026-05-24T18:39:30,189   copying build/lib/torchref/model/segmented_internal_coordinates.py -> build/bdist.linux-armv7l/wheel/./torchref/model
2026-05-24T18:39:30,192   copying build/lib/torchref/model/internal_coordinates.py -> build/bdist.linux-armv7l/wheel/./torchref/model
2026-05-24T18:39:30,196   copying build/lib/torchref/model/closed_segmented_internal_coordinates.py -> build/bdist.linux-armv7l/wheel/./torchref/model
2026-05-24T18:39:30,200   creating build/bdist.linux-armv7l/wheel/torchref/alignment
2026-05-24T18:39:30,201   copying build/lib/torchref/alignment/sampling.py -> build/bdist.linux-armv7l/wheel/./torchref/alignment
2026-05-24T18:39:30,203   copying build/lib/torchref/alignment/transform.py -> build/bdist.linux-armv7l/wheel/./torchref/alignment
2026-05-24T18:39:30,206   copying build/lib/torchref/alignment/jax_subpixel_peaks.py -> build/bdist.linux-armv7l/wheel/./torchref/alignment
2026-05-24T18:39:30,207   copying build/lib/torchref/alignment/pipeline.py -> build/bdist.linux-armv7l/wheel/./torchref/alignment
2026-05-24T18:39:30,210   copying build/lib/torchref/alignment/ball_transform.py -> build/bdist.linux-armv7l/wheel/./torchref/alignment
2026-05-24T18:39:30,213   copying build/lib/torchref/alignment/rigid_body.py -> build/bdist.linux-armv7l/wheel/./torchref/alignment
2026-05-24T18:39:30,215   copying build/lib/torchref/alignment/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/alignment
2026-05-24T18:39:30,218   copying build/lib/torchref/alignment/distributions.py -> build/bdist.linux-armv7l/wheel/./torchref/alignment
2026-05-24T18:39:30,220   copying build/lib/torchref/alignment/clashscore.py -> build/bdist.linux-armv7l/wheel/./torchref/alignment
2026-05-24T18:39:30,222   copying build/lib/torchref/alignment/translation.py -> build/bdist.linux-armv7l/wheel/./torchref/alignment
2026-05-24T18:39:30,225   creating build/bdist.linux-armv7l/wheel/torchref/restraints
2026-05-24T18:39:30,226   copying build/lib/torchref/restraints/library.py -> build/bdist.linux-armv7l/wheel/./torchref/restraints
2026-05-24T18:39:30,229   copying build/lib/torchref/restraints/builders_numba.py -> build/bdist.linux-armv7l/wheel/./torchref/restraints
2026-05-24T18:39:30,231   copying build/lib/torchref/restraints/ramachandran.py -> build/bdist.linux-armv7l/wheel/./torchref/restraints
2026-05-24T18:39:30,233   copying build/lib/torchref/restraints/builders_fast.py -> build/bdist.linux-armv7l/wheel/./torchref/restraints
2026-05-24T18:39:30,237   copying build/lib/torchref/restraints/restraints.py -> build/bdist.linux-armv7l/wheel/./torchref/restraints
2026-05-24T18:39:30,240   copying build/lib/torchref/restraints/neighbor_search.py -> build/bdist.linux-armv7l/wheel/./torchref/restraints
2026-05-24T18:39:30,243   copying build/lib/torchref/restraints/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/restraints
2026-05-24T18:39:30,245   copying build/lib/torchref/restraints/hydrogen_topology.py -> build/bdist.linux-armv7l/wheel/./torchref/restraints
2026-05-24T18:39:30,248   copying build/lib/torchref/restraints/restraints_helper.py -> build/bdist.linux-armv7l/wheel/./torchref/restraints
2026-05-24T18:39:30,251   copying build/lib/torchref/restraints/builders.py -> build/bdist.linux-armv7l/wheel/./torchref/restraints
2026-05-24T18:39:30,254   creating build/bdist.linux-armv7l/wheel/torchref/maps
2026-05-24T18:39:30,255   copying build/lib/torchref/maps/map.py -> build/bdist.linux-armv7l/wheel/./torchref/maps
2026-05-24T18:39:30,258   copying build/lib/torchref/maps/difference_map.py -> build/bdist.linux-armv7l/wheel/./torchref/maps
2026-05-24T18:39:30,260   copying build/lib/torchref/maps/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/maps
2026-05-24T18:39:30,262   creating build/bdist.linux-armv7l/wheel/torchref/scaling
2026-05-24T18:39:30,263   copying build/lib/torchref/scaling/collection_scaler.py -> build/bdist.linux-armv7l/wheel/./torchref/scaling
2026-05-24T18:39:30,266   copying build/lib/torchref/scaling/scaler_base.py -> build/bdist.linux-armv7l/wheel/./torchref/scaling
2026-05-24T18:39:30,269   copying build/lib/torchref/scaling/scaler.py -> build/bdist.linux-armv7l/wheel/./torchref/scaling
2026-05-24T18:39:30,272   copying build/lib/torchref/scaling/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/scaling
2026-05-24T18:39:30,274   copying build/lib/torchref/scaling/solvent.py -> build/bdist.linux-armv7l/wheel/./torchref/scaling
2026-05-24T18:39:30,277   creating build/bdist.linux-armv7l/wheel/torchref/io
2026-05-24T18:39:30,278   copying build/lib/torchref/io/pdb.py -> build/bdist.linux-armv7l/wheel/./torchref/io
2026-05-24T18:39:30,281   copying build/lib/torchref/io/mtz.py -> build/bdist.linux-armv7l/wheel/./torchref/io
2026-05-24T18:39:30,284   copying build/lib/torchref/io/data_router.py -> build/bdist.linux-armv7l/wheel/./torchref/io
2026-05-24T18:39:30,287   copying build/lib/torchref/io/ihm_mapping.py -> build/bdist.linux-armv7l/wheel/./torchref/io
2026-05-24T18:39:30,289   copying build/lib/torchref/io/ihm.py -> build/bdist.linux-armv7l/wheel/./torchref/io
2026-05-24T18:39:30,292   copying build/lib/torchref/io/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/io
2026-05-24T18:39:30,294   copying build/lib/torchref/io/cif_readers.py -> build/bdist.linux-armv7l/wheel/./torchref/io
2026-05-24T18:39:30,298   copying build/lib/torchref/io/metadata.py -> build/bdist.linux-armv7l/wheel/./torchref/io
2026-05-24T18:39:30,301   copying build/lib/torchref/io/cif.py -> build/bdist.linux-armv7l/wheel/./torchref/io
2026-05-24T18:39:30,304   creating build/bdist.linux-armv7l/wheel/torchref/io/datasets
2026-05-24T18:39:30,305   copying build/lib/torchref/io/datasets/reflection_data.py -> build/bdist.linux-armv7l/wheel/./torchref/io/datasets
2026-05-24T18:39:30,310   copying build/lib/torchref/io/datasets/fcalc_data.py -> build/bdist.linux-armv7l/wheel/./torchref/io/datasets
2026-05-24T18:39:30,312   copying build/lib/torchref/io/datasets/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/io/datasets
2026-05-24T18:39:30,315   copying build/lib/torchref/io/datasets/base.py -> build/bdist.linux-armv7l/wheel/./torchref/io/datasets
2026-05-24T18:39:30,317   copying build/lib/torchref/io/datasets/collection.py -> build/bdist.linux-armv7l/wheel/./torchref/io/datasets
2026-05-24T18:39:30,320   copying build/lib/torchref/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref
2026-05-24T18:39:30,323   creating build/bdist.linux-armv7l/wheel/torchref/data
2026-05-24T18:39:30,325   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library
2026-05-24T18:39:30,326   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/l
2026-05-24T18:39:30,328   copying build/lib/torchref/data/monomer_library/l/LYS.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/l
2026-05-24T18:39:30,331   copying build/lib/torchref/data/monomer_library/l/LEU.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/l
2026-05-24T18:39:30,333   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/m
2026-05-24T18:39:30,335   copying build/lib/torchref/data/monomer_library/m/MET.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/m
2026-05-24T18:39:30,337   copying build/lib/torchref/data/monomer_library/m/MSE.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/m
2026-05-24T18:39:30,340   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/t
2026-05-24T18:39:30,342   copying build/lib/torchref/data/monomer_library/t/TPO.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/t
2026-05-24T18:39:30,345   copying build/lib/torchref/data/monomer_library/t/THR.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/t
2026-05-24T18:39:30,347   copying build/lib/torchref/data/monomer_library/t/TRP.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/t
2026-05-24T18:39:30,349   copying build/lib/torchref/data/monomer_library/t/TYR.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/t
2026-05-24T18:39:30,352   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/v
2026-05-24T18:39:30,354   copying build/lib/torchref/data/monomer_library/v/VAL.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/v
2026-05-24T18:39:30,357   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/g
2026-05-24T18:39:30,359   copying build/lib/torchref/data/monomer_library/g/GLN.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/g
2026-05-24T18:39:30,361   copying build/lib/torchref/data/monomer_library/g/GLU.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/g
2026-05-24T18:39:30,363   copying build/lib/torchref/data/monomer_library/g/GLY.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/g
2026-05-24T18:39:30,366   copying build/lib/torchref/data/monomer_library/g/G.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/g
2026-05-24T18:39:30,369   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/u
2026-05-24T18:39:30,370   copying build/lib/torchref/data/monomer_library/u/U.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/u
2026-05-24T18:39:30,374   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/list
2026-05-24T18:39:30,375   copying build/lib/torchref/data/monomer_library/list/mon_lib_list.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/list
2026-05-24T18:39:30,442   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/d
2026-05-24T18:39:30,444   copying build/lib/torchref/data/monomer_library/d/DT.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/d
2026-05-24T18:39:30,447   copying build/lib/torchref/data/monomer_library/d/DG.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/d
2026-05-24T18:39:30,451   copying build/lib/torchref/data/monomer_library/d/DC.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/d
2026-05-24T18:39:30,454   copying build/lib/torchref/data/monomer_library/d/DA.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/d
2026-05-24T18:39:30,457   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/s
2026-05-24T18:39:30,459   copying build/lib/torchref/data/monomer_library/s/SEP.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/s
2026-05-24T18:39:30,462   copying build/lib/torchref/data/monomer_library/s/SER.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/s
2026-05-24T18:39:30,465   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/p
2026-05-24T18:39:30,467   copying build/lib/torchref/data/monomer_library/p/PHE.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/p
2026-05-24T18:39:30,470   copying build/lib/torchref/data/monomer_library/p/PRO.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/p
2026-05-24T18:39:30,473   copying build/lib/torchref/data/monomer_library/p/PTR.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/p
2026-05-24T18:39:30,476   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/h
2026-05-24T18:39:30,478   copying build/lib/torchref/data/monomer_library/h/HYP.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/h
2026-05-24T18:39:30,481   copying build/lib/torchref/data/monomer_library/h/HOH.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/h
2026-05-24T18:39:30,483   copying build/lib/torchref/data/monomer_library/h/HIS.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/h
2026-05-24T18:39:30,487   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/i
2026-05-24T18:39:30,488   copying build/lib/torchref/data/monomer_library/i/ILE.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/i
2026-05-24T18:39:30,492   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/a
2026-05-24T18:39:30,494   copying build/lib/torchref/data/monomer_library/a/ARG.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/a
2026-05-24T18:39:30,497   copying build/lib/torchref/data/monomer_library/a/ASN.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/a
2026-05-24T18:39:30,499   copying build/lib/torchref/data/monomer_library/a/ALA.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/a
2026-05-24T18:39:30,502   copying build/lib/torchref/data/monomer_library/a/A.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/a
2026-05-24T18:39:30,506   copying build/lib/torchref/data/monomer_library/a/ASP.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/a
2026-05-24T18:39:30,509   creating build/bdist.linux-armv7l/wheel/torchref/data/monomer_library/c
2026-05-24T18:39:30,510   copying build/lib/torchref/data/monomer_library/c/CYS.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/c
2026-05-24T18:39:30,513   copying build/lib/torchref/data/monomer_library/c/C.cif -> build/bdist.linux-armv7l/wheel/./torchref/data/monomer_library/c
2026-05-24T18:39:30,516   copying build/lib/torchref/data/itc92_scattering_factors.pt -> build/bdist.linux-armv7l/wheel/./torchref/data
2026-05-24T18:39:30,519   copying build/lib/torchref/data/atomic_vdw_radii.csv -> build/bdist.linux-armv7l/wheel/./torchref/data
2026-05-24T18:39:30,520   copying build/lib/torchref/data/rama_nll_surfaces.pt -> build/bdist.linux-armv7l/wheel/./torchref/data
2026-05-24T18:39:30,568   creating build/bdist.linux-armv7l/wheel/torchref/base
2026-05-24T18:39:30,569   creating build/bdist.linux-armv7l/wheel/torchref/base/metrics
2026-05-24T18:39:30,570   copying build/lib/torchref/base/metrics/loss.py -> build/bdist.linux-armv7l/wheel/./torchref/base/metrics
2026-05-24T18:39:30,573   copying build/lib/torchref/base/metrics/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base/metrics
2026-05-24T18:39:30,574   copying build/lib/torchref/base/metrics/rfactor.py -> build/bdist.linux-armv7l/wheel/./torchref/base/metrics
2026-05-24T18:39:30,577   creating build/bdist.linux-armv7l/wheel/torchref/base/fourier
2026-05-24T18:39:30,579   copying build/lib/torchref/base/fourier/grid.py -> build/bdist.linux-armv7l/wheel/./torchref/base/fourier
2026-05-24T18:39:30,581   copying build/lib/torchref/base/fourier/fft.py -> build/bdist.linux-armv7l/wheel/./torchref/base/fourier
2026-05-24T18:39:30,584   copying build/lib/torchref/base/fourier/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base/fourier
2026-05-24T18:39:30,587   creating build/bdist.linux-armv7l/wheel/torchref/base/targets
2026-05-24T18:39:30,588   copying build/lib/torchref/base/targets/xray_gaussian.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,591   copying build/lib/torchref/base/targets/angle.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,593   copying build/lib/torchref/base/targets/ramachandran.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,595   copying build/lib/torchref/base/targets/bond.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,597   copying build/lib/torchref/base/targets/xray_ls.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,599   copying build/lib/torchref/base/targets/_common.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,601   copying build/lib/torchref/base/targets/xray_bhattacharyya.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,604   copying build/lib/torchref/base/targets/planarity.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,606   copying build/lib/torchref/base/targets/nonbonded.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,609   copying build/lib/torchref/base/targets/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,611   copying build/lib/torchref/base/targets/adp.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,613   copying build/lib/torchref/base/targets/chiral.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,615   copying build/lib/torchref/base/targets/torsion.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,617   copying build/lib/torchref/base/targets/_dispatch.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,619   copying build/lib/torchref/base/targets/xray_ml.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets
2026-05-24T18:39:30,621   creating build/bdist.linux-armv7l/wheel/torchref/base/targets/triton
2026-05-24T18:39:30,622   copying build/lib/torchref/base/targets/triton/xray_gaussian.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,624   copying build/lib/torchref/base/targets/triton/angle.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,626   copying build/lib/torchref/base/targets/triton/ramachandran.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,629   copying build/lib/torchref/base/targets/triton/bond.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,631   copying build/lib/torchref/base/targets/triton/xray_ls.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,633   copying build/lib/torchref/base/targets/triton/place_hydrogens.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,636   copying build/lib/torchref/base/targets/triton/xray_bhattacharyya.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,638   copying build/lib/torchref/base/targets/triton/planarity.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,640   copying build/lib/torchref/base/targets/triton/nonbonded.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,643   copying build/lib/torchref/base/targets/triton/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,644   copying build/lib/torchref/base/targets/triton/adp_simu.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,646   copying build/lib/torchref/base/targets/triton/chiral.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,649   copying build/lib/torchref/base/targets/triton/torsion.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,651   copying build/lib/torchref/base/targets/triton/xray_ml.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,653   copying build/lib/torchref/base/targets/triton/_dihedral.py -> build/bdist.linux-armv7l/wheel/./torchref/base/targets/triton
2026-05-24T18:39:30,656   creating build/bdist.linux-armv7l/wheel/torchref/base/electron_density
2026-05-24T18:39:30,657   copying build/lib/torchref/base/electron_density/voxel_utils.py -> build/bdist.linux-armv7l/wheel/./torchref/base/electron_density
2026-05-24T18:39:30,659   copying build/lib/torchref/base/electron_density/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base/electron_density
2026-05-24T18:39:30,661   copying build/lib/torchref/base/electron_density/map_building.py -> build/bdist.linux-armv7l/wheel/./torchref/base/electron_density
2026-05-24T18:39:30,664   copying build/lib/torchref/base/electron_density/main.py -> build/bdist.linux-armv7l/wheel/./torchref/base/electron_density
2026-05-24T18:39:30,667   copying build/lib/torchref/base/electron_density/solvent_mask.py -> build/bdist.linux-armv7l/wheel/./torchref/base/electron_density
2026-05-24T18:39:30,669   copying build/lib/torchref/base/CCTBX_related.py -> build/bdist.linux-armv7l/wheel/./torchref/base
2026-05-24T18:39:30,672   creating build/bdist.linux-armv7l/wheel/torchref/base/alignment
2026-05-24T18:39:30,673   copying build/lib/torchref/base/alignment/superposition.py -> build/bdist.linux-armv7l/wheel/./torchref/base/alignment
2026-05-24T18:39:30,676   copying build/lib/torchref/base/alignment/rotation.py -> build/bdist.linux-armv7l/wheel/./torchref/base/alignment
2026-05-24T18:39:30,678   copying build/lib/torchref/base/alignment/normalization.py -> build/bdist.linux-armv7l/wheel/./torchref/base/alignment
2026-05-24T18:39:30,680   copying build/lib/torchref/base/alignment/scoring.py -> build/bdist.linux-armv7l/wheel/./torchref/base/alignment
2026-05-24T18:39:30,682   copying build/lib/torchref/base/alignment/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base/alignment
2026-05-24T18:39:30,684   creating build/bdist.linux-armv7l/wheel/torchref/base/coordinates
2026-05-24T18:39:30,685   copying build/lib/torchref/base/coordinates/periodic_boundary.py -> build/bdist.linux-armv7l/wheel/./torchref/base/coordinates
2026-05-24T18:39:30,687   copying build/lib/torchref/base/coordinates/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base/coordinates
2026-05-24T18:39:30,689   copying build/lib/torchref/base/coordinates/transforms_numpy.py -> build/bdist.linux-armv7l/wheel/./torchref/base/coordinates
2026-05-24T18:39:30,691   copying build/lib/torchref/base/coordinates/transforms_torch.py -> build/bdist.linux-armv7l/wheel/./torchref/base/coordinates
2026-05-24T18:39:30,693   creating build/bdist.linux-armv7l/wheel/torchref/base/scattering
2026-05-24T18:39:30,694   copying build/lib/torchref/base/scattering/scattering_table.py -> build/bdist.linux-armv7l/wheel/./torchref/base/scattering
2026-05-24T18:39:30,697   copying build/lib/torchref/base/scattering/itc92.py -> build/bdist.linux-armv7l/wheel/./torchref/base/scattering
2026-05-24T18:39:30,699   copying build/lib/torchref/base/scattering/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base/scattering
2026-05-24T18:39:30,701   copying build/lib/torchref/base/scattering/anomalous_table.py -> build/bdist.linux-armv7l/wheel/./torchref/base/scattering
2026-05-24T18:39:30,704   creating build/bdist.linux-armv7l/wheel/torchref/base/direct_summation
2026-05-24T18:39:30,705   copying build/lib/torchref/base/direct_summation/anisotropic.py -> build/bdist.linux-armv7l/wheel/./torchref/base/direct_summation
2026-05-24T18:39:30,707   copying build/lib/torchref/base/direct_summation/corrections.py -> build/bdist.linux-armv7l/wheel/./torchref/base/direct_summation
2026-05-24T18:39:30,709   copying build/lib/torchref/base/direct_summation/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base/direct_summation
2026-05-24T18:39:30,711   copying build/lib/torchref/base/direct_summation/isotropic.py -> build/bdist.linux-armv7l/wheel/./torchref/base/direct_summation
2026-05-24T18:39:30,713   copying build/lib/torchref/base/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base
2026-05-24T18:39:30,716   copying build/lib/torchref/base/math_torch.py -> build/bdist.linux-armv7l/wheel/./torchref/base
2026-05-24T18:39:30,718   copying build/lib/torchref/base/get_scattering_factor_torch.py -> build/bdist.linux-armv7l/wheel/./torchref/base
2026-05-24T18:39:30,720   copying build/lib/torchref/base/french_wilson.py -> build/bdist.linux-armv7l/wheel/./torchref/base
2026-05-24T18:39:30,723   creating build/bdist.linux-armv7l/wheel/torchref/base/chain_closure
2026-05-24T18:39:30,724   copying build/lib/torchref/base/chain_closure/backbone_utils.py -> build/bdist.linux-armv7l/wheel/./torchref/base/chain_closure
2026-05-24T18:39:30,727   copying build/lib/torchref/base/chain_closure/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base/chain_closure
2026-05-24T18:39:30,729   copying build/lib/torchref/base/chain_closure/closure.py -> build/bdist.linux-armv7l/wheel/./torchref/base/chain_closure
2026-05-24T18:39:30,731   copying build/lib/torchref/base/math_numpy.py -> build/bdist.linux-armv7l/wheel/./torchref/base
2026-05-24T18:39:30,735   creating build/bdist.linux-armv7l/wheel/torchref/base/kernels
2026-05-24T18:39:30,736   copying build/lib/torchref/base/kernels/optimized_ops.py -> build/bdist.linux-armv7l/wheel/./torchref/base/kernels
2026-05-24T18:39:30,738   copying build/lib/torchref/base/kernels/triton_kernel.py -> build/bdist.linux-armv7l/wheel/./torchref/base/kernels
2026-05-24T18:39:30,741   copying build/lib/torchref/base/kernels/separable_triton_kernel.py -> build/bdist.linux-armv7l/wheel/./torchref/base/kernels
2026-05-24T18:39:30,744   copying build/lib/torchref/base/kernels/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base/kernels
2026-05-24T18:39:30,746   copying build/lib/torchref/base/kernels/jit_kernel_vectorized_add_to_map.py -> build/bdist.linux-armv7l/wheel/./torchref/base/kernels
2026-05-24T18:39:30,748   copying build/lib/torchref/base/kernels/cpu_scatter.py -> build/bdist.linux-armv7l/wheel/./torchref/base/kernels
2026-05-24T18:39:30,751   creating build/bdist.linux-armv7l/wheel/torchref/base/reciprocal
2026-05-24T18:39:30,752   copying build/lib/torchref/base/reciprocal/symmetry.py -> build/bdist.linux-armv7l/wheel/./torchref/base/reciprocal
2026-05-24T18:39:30,755   copying build/lib/torchref/base/reciprocal/hkl.py -> build/bdist.linux-armv7l/wheel/./torchref/base/reciprocal
2026-05-24T18:39:30,756   copying build/lib/torchref/base/reciprocal/basis.py -> build/bdist.linux-armv7l/wheel/./torchref/base/reciprocal
2026-05-24T18:39:30,759   copying build/lib/torchref/base/reciprocal/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/base/reciprocal
2026-05-24T18:39:30,760   copying build/lib/torchref/base/reciprocal/grid_operations.py -> build/bdist.linux-armv7l/wheel/./torchref/base/reciprocal
2026-05-24T18:39:30,763   copying build/lib/torchref/base/reciprocal/interpolation.py -> build/bdist.linux-armv7l/wheel/./torchref/base/reciprocal
2026-05-24T18:39:30,766   creating build/bdist.linux-armv7l/wheel/torchref/cli
2026-05-24T18:39:30,766   copying build/lib/torchref/cli/refine.py -> build/bdist.linux-armv7l/wheel/./torchref/cli
2026-05-24T18:39:30,769   copying build/lib/torchref/cli/_common.py -> build/bdist.linux-armv7l/wheel/./torchref/cli
2026-05-24T18:39:30,771   copying build/lib/torchref/cli/mtz2map.py -> build/bdist.linux-armv7l/wheel/./torchref/cli
2026-05-24T18:39:30,773   copying build/lib/torchref/cli/phased_difference_map.py -> build/bdist.linux-armv7l/wheel/./torchref/cli
2026-05-24T18:39:30,776   copying build/lib/torchref/cli/add_metadata.py -> build/bdist.linux-armv7l/wheel/./torchref/cli
2026-05-24T18:39:30,778   copying build/lib/torchref/cli/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/cli
2026-05-24T18:39:30,779   copying build/lib/torchref/cli/validate_ded.py -> build/bdist.linux-armv7l/wheel/./torchref/cli
2026-05-24T18:39:30,782   copying build/lib/torchref/cli/strip_altlocs.py -> build/bdist.linux-armv7l/wheel/./torchref/cli
2026-05-24T18:39:30,784   copying build/lib/torchref/cli/collection_difference_refine.py -> build/bdist.linux-armv7l/wheel/./torchref/cli
2026-05-24T18:39:30,787   copying build/lib/torchref/_bootstrap.py -> build/bdist.linux-armv7l/wheel/./torchref
2026-05-24T18:39:30,789   creating build/bdist.linux-armv7l/wheel/torchref/kinetic
2026-05-24T18:39:30,790   copying build/lib/torchref/kinetic/targets.py -> build/bdist.linux-armv7l/wheel/./torchref/kinetic
2026-05-24T18:39:30,793   copying build/lib/torchref/kinetic/occupancies.py -> build/bdist.linux-armv7l/wheel/./torchref/kinetic
2026-05-24T18:39:30,795   copying build/lib/torchref/kinetic/__init__.py -> build/bdist.linux-armv7l/wheel/./torchref/kinetic
2026-05-24T18:39:30,797   copying build/lib/torchref/kinetic/kinetics.py -> build/bdist.linux-armv7l/wheel/./torchref/kinetic
2026-05-24T18:39:30,800   copying build/lib/torchref/kinetic/refinement.py -> build/bdist.linux-armv7l/wheel/./torchref/kinetic
2026-05-24T18:39:30,802   running install_egg_info
2026-05-24T18:39:30,807   Copying torchref.egg-info to build/bdist.linux-armv7l/wheel/./torchref-0.5.3.2-py3.11.egg-info
2026-05-24T18:39:30,820   running install_scripts
2026-05-24T18:39:30,832   creating build/bdist.linux-armv7l/wheel/torchref-0.5.3.2.dist-info/WHEEL
2026-05-24T18:39:30,834   creating '/tmp/pip-wheel-q4zj8shx/.tmp-wlc0iq2u/torchref-0.5.3.2-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2026-05-24T18:39:30,837   adding 'torchref/__init__.py'
2026-05-24T18:39:30,839   adding 'torchref/_bootstrap.py'
2026-05-24T18:39:30,841   adding 'torchref/config.py'
2026-05-24T18:39:30,844   adding 'torchref/alignment/__init__.py'
2026-05-24T18:39:30,851   adding 'torchref/alignment/ball_transform.py'
2026-05-24T18:39:30,853   adding 'torchref/alignment/clashscore.py'
2026-05-24T18:39:30,855   adding 'torchref/alignment/distributions.py'
2026-05-24T18:39:30,856   adding 'torchref/alignment/jax_subpixel_peaks.py'
2026-05-24T18:39:30,859   adding 'torchref/alignment/pipeline.py'
2026-05-24T18:39:30,861   adding 'torchref/alignment/rigid_body.py'
2026-05-24T18:39:30,863   adding 'torchref/alignment/sampling.py'
2026-05-24T18:39:30,866   adding 'torchref/alignment/transform.py'
2026-05-24T18:39:30,868   adding 'torchref/alignment/translation.py'
2026-05-24T18:39:30,870   adding 'torchref/base/CCTBX_related.py'
2026-05-24T18:39:30,872   adding 'torchref/base/__init__.py'
2026-05-24T18:39:30,876   adding 'torchref/base/french_wilson.py'
2026-05-24T18:39:30,877   adding 'torchref/base/get_scattering_factor_torch.py'
2026-05-24T18:39:30,880   adding 'torchref/base/math_numpy.py'
2026-05-24T18:39:30,882   adding 'torchref/base/math_torch.py'
2026-05-24T18:39:30,884   adding 'torchref/base/alignment/__init__.py'
2026-05-24T18:39:30,886   adding 'torchref/base/alignment/normalization.py'
2026-05-24T18:39:30,888   adding 'torchref/base/alignment/rotation.py'
2026-05-24T18:39:30,889   adding 'torchref/base/alignment/scoring.py'
2026-05-24T18:39:30,891   adding 'torchref/base/alignment/superposition.py'
2026-05-24T18:39:30,893   adding 'torchref/base/chain_closure/__init__.py'
2026-05-24T18:39:30,895   adding 'torchref/base/chain_closure/backbone_utils.py'
2026-05-24T18:39:30,898   adding 'torchref/base/chain_closure/closure.py'
2026-05-24T18:39:30,899   adding 'torchref/base/coordinates/__init__.py'
2026-05-24T18:39:30,901   adding 'torchref/base/coordinates/periodic_boundary.py'
2026-05-24T18:39:30,902   adding 'torchref/base/coordinates/transforms_numpy.py'
2026-05-24T18:39:30,904   adding 'torchref/base/coordinates/transforms_torch.py'
2026-05-24T18:39:30,905   adding 'torchref/base/direct_summation/__init__.py'
2026-05-24T18:39:30,907   adding 'torchref/base/direct_summation/anisotropic.py'
2026-05-24T18:39:30,909   adding 'torchref/base/direct_summation/corrections.py'
2026-05-24T18:39:30,910   adding 'torchref/base/direct_summation/isotropic.py'
2026-05-24T18:39:30,912   adding 'torchref/base/electron_density/__init__.py'
2026-05-24T18:39:30,916   adding 'torchref/base/electron_density/main.py'
2026-05-24T18:39:30,918   adding 'torchref/base/electron_density/map_building.py'
2026-05-24T18:39:30,920   adding 'torchref/base/electron_density/solvent_mask.py'
2026-05-24T18:39:30,922   adding 'torchref/base/electron_density/voxel_utils.py'
2026-05-24T18:39:30,924   adding 'torchref/base/fourier/__init__.py'
2026-05-24T18:39:30,925   adding 'torchref/base/fourier/fft.py'
2026-05-24T18:39:30,927   adding 'torchref/base/fourier/grid.py'
2026-05-24T18:39:30,929   adding 'torchref/base/kernels/__init__.py'
2026-05-24T18:39:30,932   adding 'torchref/base/kernels/cpu_scatter.py'
2026-05-24T18:39:30,934   adding 'torchref/base/kernels/jit_kernel_vectorized_add_to_map.py'
2026-05-24T18:39:30,936   adding 'torchref/base/kernels/optimized_ops.py'
2026-05-24T18:39:30,941   adding 'torchref/base/kernels/separable_triton_kernel.py'
2026-05-24T18:39:30,944   adding 'torchref/base/kernels/triton_kernel.py'
2026-05-24T18:39:30,946   adding 'torchref/base/metrics/__init__.py'
2026-05-24T18:39:30,948   adding 'torchref/base/metrics/loss.py'
2026-05-24T18:39:30,950   adding 'torchref/base/metrics/rfactor.py'
2026-05-24T18:39:30,952   adding 'torchref/base/reciprocal/__init__.py'
2026-05-24T18:39:30,953   adding 'torchref/base/reciprocal/basis.py'
2026-05-24T18:39:30,954   adding 'torchref/base/reciprocal/grid_operations.py'
2026-05-24T18:39:30,956   adding 'torchref/base/reciprocal/hkl.py'
2026-05-24T18:39:30,958   adding 'torchref/base/reciprocal/interpolation.py'
2026-05-24T18:39:30,961   adding 'torchref/base/reciprocal/symmetry.py'
2026-05-24T18:39:30,963   adding 'torchref/base/scattering/__init__.py'
2026-05-24T18:39:30,964   adding 'torchref/base/scattering/anomalous_table.py'
2026-05-24T18:39:30,966   adding 'torchref/base/scattering/itc92.py'
2026-05-24T18:39:30,968   adding 'torchref/base/scattering/scattering_table.py'
2026-05-24T18:39:30,969   adding 'torchref/base/targets/__init__.py'
2026-05-24T18:39:30,971   adding 'torchref/base/targets/_common.py'
2026-05-24T18:39:30,972   adding 'torchref/base/targets/_dispatch.py'
2026-05-24T18:39:30,973   adding 'torchref/base/targets/adp.py'
2026-05-24T18:39:30,974   adding 'torchref/base/targets/angle.py'
2026-05-24T18:39:30,975   adding 'torchref/base/targets/bond.py'
2026-05-24T18:39:30,977   adding 'torchref/base/targets/chiral.py'
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2026-05-24T18:39:30,979   adding 'torchref/base/targets/planarity.py'
2026-05-24T18:39:30,980   adding 'torchref/base/targets/ramachandran.py'
2026-05-24T18:39:30,982   adding 'torchref/base/targets/torsion.py'
2026-05-24T18:39:30,983   adding 'torchref/base/targets/xray_bhattacharyya.py'
2026-05-24T18:39:30,984   adding 'torchref/base/targets/xray_gaussian.py'
2026-05-24T18:39:30,985   adding 'torchref/base/targets/xray_ls.py'
2026-05-24T18:39:30,987   adding 'torchref/base/targets/xray_ml.py'
2026-05-24T18:39:30,989   adding 'torchref/base/targets/triton/__init__.py'
2026-05-24T18:39:30,990   adding 'torchref/base/targets/triton/_dihedral.py'
2026-05-24T18:39:30,991   adding 'torchref/base/targets/triton/adp_simu.py'
2026-05-24T18:39:30,993   adding 'torchref/base/targets/triton/angle.py'
2026-05-24T18:39:30,994   adding 'torchref/base/targets/triton/bond.py'
2026-05-24T18:39:30,996   adding 'torchref/base/targets/triton/chiral.py'
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2026-05-24T18:39:31,000   adding 'torchref/base/targets/triton/place_hydrogens.py'
2026-05-24T18:39:31,002   adding 'torchref/base/targets/triton/planarity.py'
2026-05-24T18:39:31,004   adding 'torchref/base/targets/triton/ramachandran.py'
2026-05-24T18:39:31,006   adding 'torchref/base/targets/triton/torsion.py'
2026-05-24T18:39:31,008   adding 'torchref/base/targets/triton/xray_bhattacharyya.py'
2026-05-24T18:39:31,009   adding 'torchref/base/targets/triton/xray_gaussian.py'
2026-05-24T18:39:31,011   adding 'torchref/base/targets/triton/xray_ls.py'
2026-05-24T18:39:31,013   adding 'torchref/base/targets/triton/xray_ml.py'
2026-05-24T18:39:31,014   adding 'torchref/cli/__init__.py'
2026-05-24T18:39:31,017   adding 'torchref/cli/_common.py'
2026-05-24T18:39:31,019   adding 'torchref/cli/add_metadata.py'
2026-05-24T18:39:31,024   adding 'torchref/cli/collection_difference_refine.py'
2026-05-24T18:39:31,026   adding 'torchref/cli/mtz2map.py'
2026-05-24T18:39:31,028   adding 'torchref/cli/phased_difference_map.py'
2026-05-24T18:39:31,029   adding 'torchref/cli/refine.py'
2026-05-24T18:39:31,031   adding 'torchref/cli/strip_altlocs.py'
2026-05-24T18:39:31,034   adding 'torchref/cli/validate_ded.py'
2026-05-24T18:39:31,036   adding 'torchref/data/atomic_vdw_radii.csv'
2026-05-24T18:39:31,038   adding 'torchref/data/itc92_scattering_factors.pt'
2026-05-24T18:39:31,272   adding 'torchref/data/rama_nll_surfaces.pt'
2026-05-24T18:39:31,295   adding 'torchref/data/monomer_library/a/A.cif'
2026-05-24T18:39:31,297   adding 'torchref/data/monomer_library/a/ALA.cif'
2026-05-24T18:39:31,298   adding 'torchref/data/monomer_library/a/ARG.cif'
2026-05-24T18:39:31,300   adding 'torchref/data/monomer_library/a/ASN.cif'
2026-05-24T18:39:31,301   adding 'torchref/data/monomer_library/a/ASP.cif'
2026-05-24T18:39:31,304   adding 'torchref/data/monomer_library/c/C.cif'
2026-05-24T18:39:31,306   adding 'torchref/data/monomer_library/c/CYS.cif'
2026-05-24T18:39:31,309   adding 'torchref/data/monomer_library/d/DA.cif'
2026-05-24T18:39:31,311   adding 'torchref/data/monomer_library/d/DC.cif'
2026-05-24T18:39:31,313   adding 'torchref/data/monomer_library/d/DG.cif'
2026-05-24T18:39:31,316   adding 'torchref/data/monomer_library/d/DT.cif'
2026-05-24T18:39:31,318   adding 'torchref/data/monomer_library/g/G.cif'
2026-05-24T18:39:31,320   adding 'torchref/data/monomer_library/g/GLN.cif'
2026-05-24T18:39:31,322   adding 'torchref/data/monomer_library/g/GLU.cif'
2026-05-24T18:39:31,323   adding 'torchref/data/monomer_library/g/GLY.cif'
2026-05-24T18:39:31,325   adding 'torchref/data/monomer_library/h/HIS.cif'
2026-05-24T18:39:31,326   adding 'torchref/data/monomer_library/h/HOH.cif'
2026-05-24T18:39:31,328   adding 'torchref/data/monomer_library/h/HYP.cif'
2026-05-24T18:39:31,330   adding 'torchref/data/monomer_library/i/ILE.cif'
2026-05-24T18:39:31,332   adding 'torchref/data/monomer_library/l/LEU.cif'
2026-05-24T18:39:31,334   adding 'torchref/data/monomer_library/l/LYS.cif'
2026-05-24T18:39:31,877   adding 'torchref/data/monomer_library/list/mon_lib_list.cif'
2026-05-24T18:39:31,904   adding 'torchref/data/monomer_library/m/MET.cif'
2026-05-24T18:39:31,905   adding 'torchref/data/monomer_library/m/MSE.cif'
2026-05-24T18:39:31,908   adding 'torchref/data/monomer_library/p/PHE.cif'
2026-05-24T18:39:31,909   adding 'torchref/data/monomer_library/p/PRO.cif'
2026-05-24T18:39:31,911   adding 'torchref/data/monomer_library/p/PTR.cif'
2026-05-24T18:39:31,913   adding 'torchref/data/monomer_library/s/SEP.cif'
2026-05-24T18:39:31,914   adding 'torchref/data/monomer_library/s/SER.cif'
2026-05-24T18:39:31,916   adding 'torchref/data/monomer_library/t/THR.cif'
2026-05-24T18:39:31,918   adding 'torchref/data/monomer_library/t/TPO.cif'
2026-05-24T18:39:31,920   adding 'torchref/data/monomer_library/t/TRP.cif'
2026-05-24T18:39:31,921   adding 'torchref/data/monomer_library/t/TYR.cif'
2026-05-24T18:39:31,924   adding 'torchref/data/monomer_library/u/U.cif'
2026-05-24T18:39:31,926   adding 'torchref/data/monomer_library/v/VAL.cif'
2026-05-24T18:39:31,928   adding 'torchref/io/__init__.py'
2026-05-24T18:39:31,930   adding 'torchref/io/cif.py'
2026-05-24T18:39:31,937   adding 'torchref/io/cif_readers.py'
2026-05-24T18:39:31,940   adding 'torchref/io/data_router.py'
2026-05-24T18:39:31,944   adding 'torchref/io/ihm.py'
2026-05-24T18:39:31,946   adding 'torchref/io/ihm_mapping.py'
2026-05-24T18:39:31,949   adding 'torchref/io/metadata.py'
2026-05-24T18:39:31,951   adding 'torchref/io/mtz.py'
2026-05-24T18:39:31,954   adding 'torchref/io/pdb.py'
2026-05-24T18:39:31,956   adding 'torchref/io/datasets/__init__.py'
2026-05-24T18:39:31,958   adding 'torchref/io/datasets/base.py'
2026-05-24T18:39:31,960   adding 'torchref/io/datasets/collection.py'
2026-05-24T18:39:31,962   adding 'torchref/io/datasets/fcalc_data.py'
2026-05-24T18:39:31,975   adding 'torchref/io/datasets/reflection_data.py'
2026-05-24T18:39:31,977   adding 'torchref/kinetic/__init__.py'
2026-05-24T18:39:31,982   adding 'torchref/kinetic/kinetics.py'
2026-05-24T18:39:31,985   adding 'torchref/kinetic/occupancies.py'
2026-05-24T18:39:31,987   adding 'torchref/kinetic/refinement.py'
2026-05-24T18:39:31,990   adding 'torchref/kinetic/targets.py'
2026-05-24T18:39:31,992   adding 'torchref/maps/__init__.py'
2026-05-24T18:39:31,993   adding 'torchref/maps/difference_map.py'
2026-05-24T18:39:31,995   adding 'torchref/maps/map.py'
2026-05-24T18:39:31,997   adding 'torchref/model/__init__.py'
2026-05-24T18:39:32,006   adding 'torchref/model/closed_segmented_internal_coordinates.py'
2026-05-24T18:39:32,015   adding 'torchref/model/internal_coordinates.py'
2026-05-24T18:39:32,017   adding 'torchref/model/mixed_model.py'
2026-05-24T18:39:32,032   adding 'torchref/model/model.py'
2026-05-24T18:39:32,035   adding 'torchref/model/model_collection.py'
2026-05-24T18:39:32,040   adding 'torchref/model/model_ft.py'
2026-05-24T18:39:32,049   adding 'torchref/model/parameter_wrappers.py'
2026-05-24T18:39:32,057   adding 'torchref/model/segmented_internal_coordinates.py'
2026-05-24T18:39:32,059   adding 'torchref/model/sf_ds.py'
2026-05-24T18:39:32,062   adding 'torchref/model/sf_fft.py'
2026-05-24T18:39:32,064   adding 'torchref/refinement/__init__.py'
2026-05-24T18:39:32,069   adding 'torchref/refinement/base_refinement.py'
2026-05-24T18:39:32,072   adding 'torchref/refinement/lbfgs_refinement.py'
2026-05-24T18:39:32,074   adding 'torchref/refinement/logger.py'
2026-05-24T18:39:32,079   adding 'torchref/refinement/loss_state.py'
2026-05-24T18:39:32,081   adding 'torchref/refinement/optimizers/__init__.py'
2026-05-24T18:39:32,082   adding 'torchref/refinement/optimizers/adam_noise.py'
2026-05-24T18:39:32,086   adding 'torchref/refinement/optimizers/exploratory_lbfgs.py'
2026-05-24T18:39:32,089   adding 'torchref/refinement/optimizers/internal_coord_sa.py'
2026-05-24T18:39:32,091   adding 'torchref/refinement/optimizers/langevin_sa.py'
2026-05-24T18:39:32,092   adding 'torchref/refinement/optimizers/momentum_sa.py'
2026-05-24T18:39:32,094   adding 'torchref/refinement/optimizers/simulated_annealing.py'
2026-05-24T18:39:32,096   adding 'torchref/refinement/targets/__init__.py'
2026-05-24T18:39:32,101   adding 'torchref/refinement/targets/amber_target.py'
2026-05-24T18:39:32,104   adding 'torchref/refinement/targets/base.py'
2026-05-24T18:39:32,106   adding 'torchref/refinement/targets/combined.py'
2026-05-24T18:39:32,112   adding 'torchref/refinement/targets/difference.py'
2026-05-24T18:39:32,114   adding 'torchref/refinement/targets/forcefield_target.py'
2026-05-24T18:39:32,116   adding 'torchref/refinement/targets/occupancy_floor_diagnostic.py'
2026-05-24T18:39:32,119   adding 'torchref/refinement/targets/realspace.py'
2026-05-24T18:39:32,122   adding 'torchref/refinement/targets/sampled_ml_phase_target.py'
2026-05-24T18:39:32,124   adding 'torchref/refinement/targets/similarity.py'
2026-05-24T18:39:32,126   adding 'torchref/refinement/targets/adp/__init__.py'
2026-05-24T18:39:32,127   adding 'torchref/refinement/targets/adp/base.py'
2026-05-24T18:39:32,129   adding 'torchref/refinement/targets/adp/entropy.py'
2026-05-24T18:39:32,130   adding 'torchref/refinement/targets/adp/locality.py'
2026-05-24T18:39:32,132   adding 'torchref/refinement/targets/adp/rigid_bond.py'
2026-05-24T18:39:32,134   adding 'torchref/refinement/targets/adp/scaler_log_scale.py'
2026-05-24T18:39:32,135   adding 'torchref/refinement/targets/adp/scaler_u.py'
2026-05-24T18:39:32,136   adding 'torchref/refinement/targets/adp/similarity.py'
2026-05-24T18:39:32,138   adding 'torchref/refinement/targets/geometry/__init__.py'
2026-05-24T18:39:32,139   adding 'torchref/refinement/targets/geometry/angles.py'
2026-05-24T18:39:32,141   adding 'torchref/refinement/targets/geometry/base.py'
2026-05-24T18:39:32,142   adding 'torchref/refinement/targets/geometry/bonds.py'
2026-05-24T18:39:32,144   adding 'torchref/refinement/targets/geometry/chiral.py'
2026-05-24T18:39:32,146   adding 'torchref/refinement/targets/geometry/non_bonded.py'
2026-05-24T18:39:32,148   adding 'torchref/refinement/targets/geometry/non_bonded_h.py'
2026-05-24T18:39:32,150   adding 'torchref/refinement/targets/geometry/planarity.py'
2026-05-24T18:39:32,151   adding 'torchref/refinement/targets/geometry/ramachandran.py'
2026-05-24T18:39:32,153   adding 'torchref/refinement/targets/geometry/torsions.py'
2026-05-24T18:39:32,155   adding 'torchref/refinement/targets/xray/__init__.py'
2026-05-24T18:39:32,157   adding 'torchref/refinement/targets/xray/base.py'
2026-05-24T18:39:32,159   adding 'torchref/refinement/targets/xray/bhattacharyya.py'
2026-05-24T18:39:32,161   adding 'torchref/refinement/targets/xray/gaussian.py'
2026-05-24T18:39:32,162   adding 'torchref/refinement/targets/xray/least_squares.py'
2026-05-24T18:39:32,163   adding 'torchref/refinement/targets/xray/maximum_likelihood.py'
2026-05-24T18:39:32,166   adding 'torchref/refinement/weighting/__init__.py'
2026-05-24T18:39:32,167   adding 'torchref/refinement/weighting/base_weighting.py'
2026-05-24T18:39:32,169   adding 'torchref/refinement/weighting/component_weighting.py'
2026-05-24T18:39:32,171   adding 'torchref/refinement/weighting/es_policy_training.py'
2026-05-24T18:39:32,175   adding 'torchref/refinement/weighting/policy_weighting.py'
2026-05-24T18:39:32,177   adding 'torchref/refinement/weighting/random_weighting.py'
2026-05-24T18:39:32,179   adding 'torchref/restraints/__init__.py'
2026-05-24T18:39:32,184   adding 'torchref/restraints/builders.py'
2026-05-24T18:39:32,191   adding 'torchref/restraints/builders_fast.py'
2026-05-24T18:39:32,195   adding 'torchref/restraints/builders_numba.py'
2026-05-24T18:39:32,200   adding 'torchref/restraints/hydrogen_topology.py'
2026-05-24T18:39:32,201   adding 'torchref/restraints/library.py'
2026-05-24T18:39:32,207   adding 'torchref/restraints/neighbor_search.py'
2026-05-24T18:39:32,208   adding 'torchref/restraints/ramachandran.py'
2026-05-24T18:39:32,218   adding 'torchref/restraints/restraints.py'
2026-05-24T18:39:32,222   adding 'torchref/restraints/restraints_helper.py'
2026-05-24T18:39:32,224   adding 'torchref/scaling/__init__.py'
2026-05-24T18:39:32,226   adding 'torchref/scaling/collection_scaler.py'
2026-05-24T18:39:32,229   adding 'torchref/scaling/scaler.py'
2026-05-24T18:39:32,234   adding 'torchref/scaling/scaler_base.py'
2026-05-24T18:39:32,237   adding 'torchref/scaling/solvent.py'
2026-05-24T18:39:32,239   adding 'torchref/scripts/__init__.py'
2026-05-24T18:39:32,240   adding 'torchref/scripts/generate_scattering_table.py'
2026-05-24T18:39:32,242   adding 'torchref/symmetry/__init__.py'
2026-05-24T18:39:32,244   adding 'torchref/symmetry/cell.py'
2026-05-24T18:39:32,246   adding 'torchref/symmetry/grid_utils.py'
2026-05-24T18:39:32,247   adding 'torchref/symmetry/map_symmetry.py'
2026-05-24T18:39:32,249   adding 'torchref/symmetry/map_symmetry_interpolation.py'
2026-05-24T18:39:32,256   adding 'torchref/symmetry/reciprocal_symmetry.py'
2026-05-24T18:39:32,260   adding 'torchref/symmetry/spacegroup.py'
2026-05-24T18:39:32,261   adding 'torchref/symmetry/symmetry.py'
2026-05-24T18:39:32,263   adding 'torchref/utils/__init__.py'
2026-05-24T18:39:32,264   adding 'torchref/utils/autograd_introspection.py'
2026-05-24T18:39:32,266   adding 'torchref/utils/autograd_ops.py'
2026-05-24T18:39:32,267   adding 'torchref/utils/caching.py'
2026-05-24T18:39:32,269   adding 'torchref/utils/debug_utils.py'
2026-05-24T18:39:32,271   adding 'torchref/utils/device_mixin.py'
2026-05-24T18:39:32,273   adding 'torchref/utils/device_resolution.py'
2026-05-24T18:39:32,274   adding 'torchref/utils/gradnorm.py'
2026-05-24T18:39:32,276   adding 'torchref/utils/hyperparameters.py'
2026-05-24T18:39:32,278   adding 'torchref/utils/loss_validation.py'
2026-05-24T18:39:32,280   adding 'torchref/utils/pse.py'
2026-05-24T18:39:32,281   adding 'torchref/utils/serialization.py'
2026-05-24T18:39:32,282   adding 'torchref/utils/stats.py'
2026-05-24T18:39:32,284   adding 'torchref/utils/timing.py'
2026-05-24T18:39:32,289   adding 'torchref/utils/utils.py'
2026-05-24T18:39:32,292   adding 'torchref-0.5.3.2.dist-info/licenses/LICENSE'
2026-05-24T18:39:32,294   adding 'torchref-0.5.3.2.dist-info/METADATA'
2026-05-24T18:39:32,295   adding 'torchref-0.5.3.2.dist-info/WHEEL'
2026-05-24T18:39:32,296   adding 'torchref-0.5.3.2.dist-info/entry_points.txt'
2026-05-24T18:39:32,297   adding 'torchref-0.5.3.2.dist-info/top_level.txt'
2026-05-24T18:39:32,301   adding 'torchref-0.5.3.2.dist-info/RECORD'
2026-05-24T18:39:32,338   removing build/bdist.linux-armv7l/wheel
2026-05-24T18:39:32,509   Building wheel for torchref (pyproject.toml): finished with status 'done'
2026-05-24T18:39:32,593   Created wheel for torchref: filename=torchref-0.5.3.2-py3-none-any.whl size=3132677 sha256=0ced7789b04fcace85e8cffbffd713aab0052b002471e2a844b408ddece45e45
2026-05-24T18:39:32,594   Stored in directory: /tmp/pip-ephem-wheel-cache-s9nvuzww/wheels/d0/6d/52/45015ab96e8c588e5a032d661a452aa58dafd5987573ca5d7e
2026-05-24T18:39:32,615 Successfully built torchref
2026-05-24T18:39:32,696 Removed build tracker: '/tmp/pip-build-tracker-iyg46fk0'