2025-12-18T15:52:48,304 Created temporary directory: /tmp/pip-build-tracker-04290ft3 2025-12-18T15:52:48,305 Initialized build tracking at /tmp/pip-build-tracker-04290ft3 2025-12-18T15:52:48,305 Created build tracker: /tmp/pip-build-tracker-04290ft3 2025-12-18T15:52:48,305 Entered build tracker: /tmp/pip-build-tracker-04290ft3 2025-12-18T15:52:48,305 Created temporary directory: /tmp/pip-wheel-szuy_x3d 2025-12-18T15:52:48,308 Created temporary directory: /tmp/pip-ephem-wheel-cache-8er_uwve 2025-12-18T15:52:48,370 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-12-18T15:52:48,373 2 location(s) to search for versions of pmx-biobb: 2025-12-18T15:52:48,373 * https://pypi.org/simple/pmx-biobb/ 2025-12-18T15:52:48,373 * https://www.piwheels.org/simple/pmx-biobb/ 2025-12-18T15:52:48,373 Fetching project page and analyzing links: https://pypi.org/simple/pmx-biobb/ 2025-12-18T15:52:48,373 Getting page https://pypi.org/simple/pmx-biobb/ 2025-12-18T15:52:48,374 Found index url https://pypi.org/simple/ 2025-12-18T15:52:48,444 Fetched page https://pypi.org/simple/pmx-biobb/ as application/vnd.pypi.simple.v1+json 2025-12-18T15:52:48,448 Skipping link: No binaries permitted for pmx-biobb: https://files.pythonhosted.org/packages/ea/0e/652070bd7d0ca56047ee9da48bdce6ad248973b822b5fe7d931c07a93625/pmx_biobb-1.0.0-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pmx-biobb/) (requires-python:==3.7.*) 2025-12-18T15:52:48,448 Link requires a different Python (3.13.5 not in: '==3.7.*'): https://files.pythonhosted.org/packages/c3/e5/f2e9751452ed944cd072d3cde0ec9523f4b3bfbde758a1b325d3d0ee42cf/pmx_biobb-1.0.0.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:==3.7.*) 2025-12-18T15:52:48,449 Skipping link: 1.0.0 Requires-Python ==3.7.*: https://files.pythonhosted.org/packages/c3/e5/f2e9751452ed944cd072d3cde0ec9523f4b3bfbde758a1b325d3d0ee42cf/pmx_biobb-1.0.0.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:==3.7.*) 2025-12-18T15:52:48,449 Skipping link: No binaries permitted for pmx-biobb: https://files.pythonhosted.org/packages/88/5b/2f2f6e34ed256b51485f1313f89aeb9647a2df056fad635dc6c69354a142/pmx_biobb-1.0.1-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pmx-biobb/) (requires-python:==3.7.*) 2025-12-18T15:52:48,449 Link requires a different Python (3.13.5 not in: '==3.7.*'): https://files.pythonhosted.org/packages/44/5e/69dc9d443dcb657ec4849d483f4e759b6e40192def9d15d46fb85f2e8ba2/pmx_biobb-1.0.1.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:==3.7.*) 2025-12-18T15:52:48,449 Skipping link: 1.0.1 Requires-Python ==3.7.*: https://files.pythonhosted.org/packages/44/5e/69dc9d443dcb657ec4849d483f4e759b6e40192def9d15d46fb85f2e8ba2/pmx_biobb-1.0.1.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:==3.7.*) 2025-12-18T15:52:48,449 Skipping link: No binaries permitted for pmx-biobb: https://files.pythonhosted.org/packages/dc/26/88efc470b39ed04650850696ca8d4c1777e1f1788960a41b063c4f9f64cc/pmx_biobb-2.0.0-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,450 Found link https://files.pythonhosted.org/packages/32/7c/dd656cd2d785a7b9815e0ca54fb9bec35c258cdc058d9450726e65bc201c/pmx_biobb-2.0.0.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7), version: 2.0.0 2025-12-18T15:52:48,450 Skipping link: No binaries permitted for pmx-biobb: https://files.pythonhosted.org/packages/73/a2/51564515b8b81b725a8aa81b962e040e66d59ce4637be894cf02315fc403/pmx_biobb-3.0.0-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,450 Skipping link: No binaries permitted for pmx-biobb: https://files.pythonhosted.org/packages/e7/93/4fac73a6fe156e0940953662d457f0424e847a9546db1c10a7bbad5d3642/pmx_biobb-3.0.1-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,450 Found link https://files.pythonhosted.org/packages/3c/b8/7dcc8b482f02b8ff26aa1a9819fd389f9cc01087954d968e156a073ea4ac/pmx_biobb-3.0.1.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7), version: 3.0.1 2025-12-18T15:52:48,450 Skipping link: No binaries permitted for pmx-biobb: https://files.pythonhosted.org/packages/c4/2a/c00053a2535945c6900b99621be5c40437e939c64f36ea7d14e3bb5febbe/pmx_biobb-3.0.2-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,451 Found link https://files.pythonhosted.org/packages/8a/0b/e7b469ecf2b337e713cafe136f826f79709c9940a4d3a1eb00a669657af0/pmx_biobb-3.0.2.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7), version: 3.0.2 2025-12-18T15:52:48,451 Skipping link: No binaries permitted for pmx-biobb: https://files.pythonhosted.org/packages/8a/70/3744fd3fd4d13d0fcd04c50740aa9584ba6c5b7eb43e1a4dd65a7c223cf2/pmx_biobb-3.0.3-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,451 Found link https://files.pythonhosted.org/packages/6f/b2/61607c93aa5d3c34838e44ed7df748137d3b266a06a32b6d521a19ddedb4/pmx_biobb-3.0.3.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7), version: 3.0.3 2025-12-18T15:52:48,451 Skipping link: No binaries permitted for pmx-biobb: https://files.pythonhosted.org/packages/34/3e/e0a91c21ec82ca2108ec1f20c6f9fb0feb3e83b1d9277b2b521b43e77067/pmx_biobb-4.0.0-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,451 Found link https://files.pythonhosted.org/packages/d3/ee/61a98e8a9a4a1d5ab8ea32a2712cc1dfb3d7326a8404fcbd3347b28fab4d/pmx_biobb-4.0.0.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7), version: 4.0.0 2025-12-18T15:52:48,451 Skipping link: No binaries permitted for pmx-biobb: https://files.pythonhosted.org/packages/cf/d3/2cac189bd5b21c71cb79a57bf2f38121a2ecc930294758e3565302de7d21/pmx_biobb-4.0.1-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,452 Found link https://files.pythonhosted.org/packages/b9/64/0a7b31944dfae299db2a1da0949f82c4843cbc8ee4abb2f2b3f716d38640/pmx_biobb-4.0.1.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7), version: 4.0.1 2025-12-18T15:52:48,452 Skipping link: No binaries permitted for pmx-biobb: https://files.pythonhosted.org/packages/88/6d/c32f57cf60dce3b6835df798488a8e6980ca6e2865723f9e1c9551a8bff3/pmx_biobb-4.0.2-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,452 Found link https://files.pythonhosted.org/packages/1e/f1/377ebcaabe3ae496f4e58c434464cc6899d7a1a6287abea0ac19c9a84f38/pmx_biobb-4.0.2.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7), version: 4.0.2 2025-12-18T15:52:48,452 Skipping link: No binaries permitted for pmx-biobb: https://files.pythonhosted.org/packages/21/d8/92f5da41c0ccee7807122989b44711b075159e3129707c40a469a5333825/pmx_biobb-4.1.2-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,452 Found link https://files.pythonhosted.org/packages/de/e6/7e0419f8305191fb52c09e3f36db33fa8e37e029e6e2d0c361cb384cfefa/pmx_biobb-4.1.2.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7), version: 4.1.2 2025-12-18T15:52:48,452 Skipping link: No binaries permitted for pmx-biobb: https://files.pythonhosted.org/packages/8f/b7/67894a846ff237417e009dd532d744eff5fd675e98ccb50e27fda4c145e1/pmx_biobb-4.1.3-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,453 Found link https://files.pythonhosted.org/packages/ff/3a/d6a0cec96cc00189a683995a26e729c9d09e503129b35192923c46bd93ed/pmx_biobb-4.1.3.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.7), version: 4.1.3 2025-12-18T15:52:48,453 Found link https://files.pythonhosted.org/packages/a8/4e/25bd821ca79c5cf26558617be7b519e15d7a160d0bb3d9b9d6e5e826975e/pmx_biobb-5.2.0.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.10), version: 5.2.0 2025-12-18T15:52:48,453 Found link https://files.pythonhosted.org/packages/ba/96/4bd005ce3d4c0c715be9a91cb98c0af6f871d0303415cdd3a5a79e27946f/pmx_biobb-5.2.1.tar.gz (from https://pypi.org/simple/pmx-biobb/) (requires-python:>=3.10), version: 5.2.1 2025-12-18T15:52:48,454 Fetching project page and analyzing links: https://www.piwheels.org/simple/pmx-biobb/ 2025-12-18T15:52:48,454 Getting page https://www.piwheels.org/simple/pmx-biobb/ 2025-12-18T15:52:48,455 Found index url https://www.piwheels.org/simple/ 2025-12-18T15:52:48,541 Fetched page https://www.piwheels.org/simple/pmx-biobb/ as text/html 2025-12-18T15:52:48,554 Skipping link: No binaries permitted for pmx-biobb: https://www.piwheels.org/simple/pmx-biobb/pmx_biobb-5.2.1-cp311-cp311-linux_armv6l.whl#sha256=2a0d3dadcb1b00cce1cf39fe332a083a145f0c142d06c67b49cb5f0ae09e0cac (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.10) 2025-12-18T15:52:48,554 Skipping link: No binaries permitted for pmx-biobb: https://www.piwheels.org/simple/pmx-biobb/pmx_biobb-5.2.1-cp311-cp311-linux_armv7l.whl#sha256=2a0d3dadcb1b00cce1cf39fe332a083a145f0c142d06c67b49cb5f0ae09e0cac (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.10) 2025-12-18T15:52:48,554 Skipping link: No binaries permitted for pmx-biobb: https://www.piwheels.org/simple/pmx-biobb/pmx_biobb-5.2.0-cp311-cp311-linux_armv6l.whl#sha256=674c314199bb33edcf62c2e5acef5e2852ac4be5aa1d93b4aa13b6db7b4c6674 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.10) 2025-12-18T15:52:48,554 Skipping link: No binaries permitted for pmx-biobb: https://www.piwheels.org/simple/pmx-biobb/pmx_biobb-5.2.0-cp311-cp311-linux_armv7l.whl#sha256=674c314199bb33edcf62c2e5acef5e2852ac4be5aa1d93b4aa13b6db7b4c6674 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.10) 2025-12-18T15:52:48,554 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.1.3-cp37-cp37m-linux_armv6l.whl#sha256=49e6d6e858b81a9cb06fd1e8dfb1a6813af3e81f6f471e1473a782a4063ca3eb (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,555 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.1.3-cp37-cp37m-linux_armv7l.whl#sha256=49e6d6e858b81a9cb06fd1e8dfb1a6813af3e81f6f471e1473a782a4063ca3eb (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,555 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.1.3-cp39-cp39-linux_armv6l.whl#sha256=53bd7ffc22fe4dae9200c2f72b9650e77d4ab7809ecb0219685e7429222e7b43 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,555 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.1.3-cp39-cp39-linux_armv7l.whl#sha256=53bd7ffc22fe4dae9200c2f72b9650e77d4ab7809ecb0219685e7429222e7b43 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,555 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.1.3-cp311-cp311-linux_armv6l.whl#sha256=c8756d69d71e4ca7d72f84df02cf29e97e8b7ed8f41949404774e3ba7accb428 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,555 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.1.3-cp311-cp311-linux_armv7l.whl#sha256=c8756d69d71e4ca7d72f84df02cf29e97e8b7ed8f41949404774e3ba7accb428 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,555 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.1.2-cp37-cp37m-linux_armv6l.whl#sha256=c9442c9129d171b9470330209ab7822af7bdaeaaae306c2c891597b1267bfec5 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,556 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.1.2-cp37-cp37m-linux_armv7l.whl#sha256=c9442c9129d171b9470330209ab7822af7bdaeaaae306c2c891597b1267bfec5 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,556 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.1.2-cp39-cp39-linux_armv6l.whl#sha256=5cfda4f30e6f90d0f14fdd9d401fec01a00d3b528b9cd88614bc3161a158087a (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,556 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.1.2-cp39-cp39-linux_armv7l.whl#sha256=5cfda4f30e6f90d0f14fdd9d401fec01a00d3b528b9cd88614bc3161a158087a (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,556 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.2-cp37-cp37m-linux_armv6l.whl#sha256=dff92724f2cf8b25319328fe3e99d42581794b289ae551733a6615c659395b84 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,556 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.2-cp37-cp37m-linux_armv7l.whl#sha256=dff92724f2cf8b25319328fe3e99d42581794b289ae551733a6615c659395b84 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,556 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.2-cp39-cp39-linux_armv6l.whl#sha256=47ab27371c794d3c80f75be7a95551af23c6e6a52f55acc0bf15aca71c443d0b (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,556 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.2-cp39-cp39-linux_armv7l.whl#sha256=47ab27371c794d3c80f75be7a95551af23c6e6a52f55acc0bf15aca71c443d0b (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,557 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.1-cp37-cp37m-linux_armv6l.whl#sha256=4cba66df7056ed44e240f4e96c0a53a26e29aed4edb814b23de779fbc2de2b6e (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,557 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.1-cp37-cp37m-linux_armv7l.whl#sha256=4cba66df7056ed44e240f4e96c0a53a26e29aed4edb814b23de779fbc2de2b6e (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,557 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.1-cp39-cp39-linux_armv6l.whl#sha256=bd751f2807a45f17c0e9676ccda12b6edbbebf475c170e3ec27044838f1d5b82 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,557 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.1-cp39-cp39-linux_armv7l.whl#sha256=bd751f2807a45f17c0e9676ccda12b6edbbebf475c170e3ec27044838f1d5b82 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,557 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.1-cp311-cp311-linux_armv6l.whl#sha256=b0398fae5229f8915a467bfa70ecf4855a9df4be5b25b6846c503634fd819011 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,557 Skipping link: No binaries permitted for pmx-biobb: 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https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.0-cp39-cp39-linux_armv6l.whl#sha256=62a965b247bcd5d3d8de872fe3c431c183e1e627d6e3103ae0fde87ff9df3ca3 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,558 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.0-cp39-cp39-linux_armv7l.whl#sha256=62a965b247bcd5d3d8de872fe3c431c183e1e627d6e3103ae0fde87ff9df3ca3 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,558 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.0-cp311-cp311-linux_armv6l.whl#sha256=bef6e7259c029c9892522e445c7f1205d39811f71f9a90bf16770566dea86f31 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,558 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.0-cp311-cp311-linux_armv7l.whl#sha256=bef6e7259c029c9892522e445c7f1205d39811f71f9a90bf16770566dea86f31 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,558 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.3-cp37-cp37m-linux_armv6l.whl#sha256=fc8fbd57b0cb8610bb25bffb894b86ccd8e7585d21e9449ddd6574a630f9b239 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,558 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.3-cp37-cp37m-linux_armv7l.whl#sha256=fc8fbd57b0cb8610bb25bffb894b86ccd8e7585d21e9449ddd6574a630f9b239 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,559 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.3-cp39-cp39-linux_armv6l.whl#sha256=40a70608dd4bf4f418963f9f6cea5d67ebf81a1a19341a6326b8df270f390f13 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,559 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.3-cp39-cp39-linux_armv7l.whl#sha256=40a70608dd4bf4f418963f9f6cea5d67ebf81a1a19341a6326b8df270f390f13 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,559 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.3-cp311-cp311-linux_armv6l.whl#sha256=7e73de5f2261d43b7ce076f78698fe893948d8d7cc9c88c7ee3def9a035a4e68 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,559 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.3-cp311-cp311-linux_armv7l.whl#sha256=7e73de5f2261d43b7ce076f78698fe893948d8d7cc9c88c7ee3def9a035a4e68 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,559 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.2-cp37-cp37m-linux_armv6l.whl#sha256=d9a0e387d6642853c6a15e0775ee01c0d16b83bc10043722ce37d48e97775ea0 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,559 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.2-cp37-cp37m-linux_armv7l.whl#sha256=d9a0e387d6642853c6a15e0775ee01c0d16b83bc10043722ce37d48e97775ea0 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,560 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.2-cp39-cp39-linux_armv6l.whl#sha256=74fd458e035071ba11d9e1399e02fc5bb4eb6423558ebf830a74400b03b09d21 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,560 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.2-cp39-cp39-linux_armv7l.whl#sha256=74fd458e035071ba11d9e1399e02fc5bb4eb6423558ebf830a74400b03b09d21 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,560 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.1-cp37-cp37m-linux_armv6l.whl#sha256=07b4c88db1007c2b4048164c399202c430d8a7a8cc06ba72b508c989771d479d (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,560 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.1-cp37-cp37m-linux_armv7l.whl#sha256=07b4c88db1007c2b4048164c399202c430d8a7a8cc06ba72b508c989771d479d (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,560 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.1-cp39-cp39-linux_armv6l.whl#sha256=ee00c4200b2d58c9f38a7fd4e90bf138cd1a944485cce1bdbcb00cff45c8a842 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,560 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.1-cp39-cp39-linux_armv7l.whl#sha256=ee00c4200b2d58c9f38a7fd4e90bf138cd1a944485cce1bdbcb00cff45c8a842 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,560 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.1-cp311-cp311-linux_armv6l.whl#sha256=c2f9b6cb2cb584c68d74d0ee760d79c627644692dc8371d1189026b09a9dc068 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,561 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-3.0.1-cp311-cp311-linux_armv7l.whl#sha256=c2f9b6cb2cb584c68d74d0ee760d79c627644692dc8371d1189026b09a9dc068 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,561 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-2.0.0-cp37-cp37m-linux_armv6l.whl#sha256=7ed553f6de880f8fb39de2e8b4d6ea35ed8208bf52b08e62d1bcabe12bce2581 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,561 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-2.0.0-cp37-cp37m-linux_armv7l.whl#sha256=7ed553f6de880f8fb39de2e8b4d6ea35ed8208bf52b08e62d1bcabe12bce2581 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,561 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-2.0.0-cp39-cp39-linux_armv6l.whl#sha256=49cc38d8b7531ef391784e7e40fe37f1e923ef8df1e325feb77291ce2ebbf2f9 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,561 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-2.0.0-cp39-cp39-linux_armv7l.whl#sha256=49cc38d8b7531ef391784e7e40fe37f1e923ef8df1e325feb77291ce2ebbf2f9 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T15:52:48,561 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-1.0.1-cp37-cp37m-linux_armv6l.whl#sha256=06669bc75e212029d4eb66faec74a5eea1198968e9440e0b77c050a0ae585625 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:==3.7.*) 2025-12-18T15:52:48,561 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-1.0.1-cp37-cp37m-linux_armv7l.whl#sha256=06669bc75e212029d4eb66faec74a5eea1198968e9440e0b77c050a0ae585625 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:==3.7.*) 2025-12-18T15:52:48,562 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-1.0.0-cp37-cp37m-linux_armv6l.whl#sha256=6658576cd352d7f064666a210bfcbbf197410e312cbbdba101d4f6e4f6e9f868 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:==3.7.*) 2025-12-18T15:52:48,562 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-1.0.0-cp37-cp37m-linux_armv7l.whl#sha256=6658576cd352d7f064666a210bfcbbf197410e312cbbdba101d4f6e4f6e9f868 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:==3.7.*) 2025-12-18T15:52:48,562 Skipping link: not a file: https://www.piwheels.org/simple/pmx-biobb/ 2025-12-18T15:52:48,562 Skipping link: not a file: https://pypi.org/simple/pmx-biobb/ 2025-12-18T15:52:48,589 Given no hashes to check 1 links for project 'pmx-biobb': discarding no candidates 2025-12-18T15:52:48,590 Collecting pmx-biobb==5.2.1 2025-12-18T15:52:48,591 Created temporary directory: /tmp/pip-unpack-57ke4fnt 2025-12-18T15:52:48,651 Downloading pmx_biobb-5.2.1.tar.gz (5.2 MB) 2025-12-18T15:52:49,956 Added pmx-biobb==5.2.1 from https://files.pythonhosted.org/packages/ba/96/4bd005ce3d4c0c715be9a91cb98c0af6f871d0303415cdd3a5a79e27946f/pmx_biobb-5.2.1.tar.gz to build tracker '/tmp/pip-build-tracker-04290ft3' 2025-12-18T15:52:49,958 Running setup.py (path:/tmp/pip-wheel-szuy_x3d/pmx-biobb_f25bc2b694a445a1977075028eeb893a/setup.py) egg_info for package pmx-biobb 2025-12-18T15:52:49,958 Created temporary directory: /tmp/pip-pip-egg-info-7sbm0os3 2025-12-18T15:52:49,958 Preparing metadata (setup.py): started 2025-12-18T15:52:49,959 Running command python setup.py egg_info 2025-12-18T15:52:50,496 /tmp/pip-wheel-szuy_x3d/pmx-biobb_f25bc2b694a445a1977075028eeb893a/versioneer.py:564: SyntaxWarning: invalid escape sequence '\s' 2025-12-18T15:52:50,496 mo = re.search(r'=\s*"(.*)"', line) 2025-12-18T15:52:50,699 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'tests_require' 2025-12-18T15:52:50,699 warnings.warn(msg) 2025-12-18T15:52:51,188 running egg_info 2025-12-18T15:52:51,261 creating /tmp/pip-pip-egg-info-7sbm0os3/pmx_biobb.egg-info 2025-12-18T15:52:51,262 writing /tmp/pip-pip-egg-info-7sbm0os3/pmx_biobb.egg-info/PKG-INFO 2025-12-18T15:52:51,263 writing dependency_links to /tmp/pip-pip-egg-info-7sbm0os3/pmx_biobb.egg-info/dependency_links.txt 2025-12-18T15:52:51,264 writing entry points to /tmp/pip-pip-egg-info-7sbm0os3/pmx_biobb.egg-info/entry_points.txt 2025-12-18T15:52:51,264 writing requirements to /tmp/pip-pip-egg-info-7sbm0os3/pmx_biobb.egg-info/requires.txt 2025-12-18T15:52:51,264 writing top-level names to /tmp/pip-pip-egg-info-7sbm0os3/pmx_biobb.egg-info/top_level.txt 2025-12-18T15:52:51,265 writing manifest file '/tmp/pip-pip-egg-info-7sbm0os3/pmx_biobb.egg-info/SOURCES.txt' 2025-12-18T15:52:51,484 reading manifest file '/tmp/pip-pip-egg-info-7sbm0os3/pmx_biobb.egg-info/SOURCES.txt' 2025-12-18T15:52:51,485 reading manifest template 'MANIFEST.in' 2025-12-18T15:52:51,496 adding license file 'LICENSE' 2025-12-18T15:52:51,507 writing manifest file '/tmp/pip-pip-egg-info-7sbm0os3/pmx_biobb.egg-info/SOURCES.txt' 2025-12-18T15:52:51,622 Preparing metadata (setup.py): finished with status 'done' 2025-12-18T15:52:51,627 Source in /tmp/pip-wheel-szuy_x3d/pmx-biobb_f25bc2b694a445a1977075028eeb893a has version 5.2.1, which satisfies requirement pmx-biobb==5.2.1 from https://files.pythonhosted.org/packages/ba/96/4bd005ce3d4c0c715be9a91cb98c0af6f871d0303415cdd3a5a79e27946f/pmx_biobb-5.2.1.tar.gz 2025-12-18T15:52:51,627 Removed pmx-biobb==5.2.1 from https://files.pythonhosted.org/packages/ba/96/4bd005ce3d4c0c715be9a91cb98c0af6f871d0303415cdd3a5a79e27946f/pmx_biobb-5.2.1.tar.gz from build tracker '/tmp/pip-build-tracker-04290ft3' 2025-12-18T15:52:51,632 Created temporary directory: /tmp/pip-unpack-zsqp4kox 2025-12-18T15:52:51,633 Created temporary directory: /tmp/pip-unpack-xd05l7yu 2025-12-18T15:52:51,633 Building wheels for collected packages: pmx-biobb 2025-12-18T15:52:51,635 Created temporary directory: /tmp/pip-wheel-a2logf2p 2025-12-18T15:52:51,635 DEPRECATION: Building 'pmx-biobb' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'pmx-biobb'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-12-18T15:52:51,636 Building wheel for pmx-biobb (setup.py): started 2025-12-18T15:52:51,637 Destination directory: /tmp/pip-wheel-a2logf2p 2025-12-18T15:52:51,637 Running command python setup.py bdist_wheel 2025-12-18T15:52:52,340 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'tests_require' 2025-12-18T15:52:52,340 warnings.warn(msg) 2025-12-18T15:52:52,736 running bdist_wheel 2025-12-18T15:52:53,101 running build 2025-12-18T15:52:53,101 running build_py 2025-12-18T15:52:53,104 creating build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,105 copying src/pmx/xtc.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,105 copying src/pmx/xdrfile.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,106 copying src/pmx/utils.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,106 copying src/pmx/summary.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,107 copying src/pmx/rotamer.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,108 copying src/pmx/rosetta_analyze.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,108 copying src/pmx/rosetta.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,109 copying src/pmx/resselection.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,109 copying src/pmx/parser.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,110 copying src/pmx/options.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,111 copying src/pmx/ndx.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,111 copying src/pmx/mutdb.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,112 copying src/pmx/molecule.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,112 copying src/pmx/model.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,113 copying src/pmx/ligand_alchemy.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,114 copying src/pmx/library.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,115 copying src/pmx/jobscript.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,116 copying src/pmx/gmx.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,116 copying src/pmx/geometry.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,117 copying src/pmx/forcefield.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,118 copying src/pmx/ffparser.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,118 copying src/pmx/estimators.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,119 copying src/pmx/chain.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,120 copying src/pmx/builder.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,120 copying src/pmx/atomselection.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,121 copying src/pmx/atom.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,121 copying src/pmx/analysis.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,122 copying src/pmx/alchemy.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,123 copying src/pmx/_version.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,123 copying src/pmx/__init__.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,124 copying src/pmx/AbsRestraints.py -> build/lib.linux-armv7l-cpython-313/pmx 2025-12-18T15:52:53,124 running egg_info 2025-12-18T15:52:53,198 writing src/pmx_biobb.egg-info/PKG-INFO 2025-12-18T15:52:53,199 writing dependency_links to src/pmx_biobb.egg-info/dependency_links.txt 2025-12-18T15:52:53,200 writing entry points to src/pmx_biobb.egg-info/entry_points.txt 2025-12-18T15:52:53,200 writing requirements to src/pmx_biobb.egg-info/requires.txt 2025-12-18T15:52:53,201 writing top-level names to src/pmx_biobb.egg-info/top_level.txt 2025-12-18T15:52:53,278 reading manifest file 'src/pmx_biobb.egg-info/SOURCES.txt' 2025-12-18T15:52:53,296 reading manifest template 'MANIFEST.in' 2025-12-18T15:52:53,306 adding license file 'LICENSE' 2025-12-18T15:52:53,321 writing manifest file 'src/pmx_biobb.egg-info/SOURCES.txt' 2025-12-18T15:52:53,322 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.data' is absent from the `packages` configuration. 2025-12-18T15:52:53,323 !! 2025-12-18T15:52:53,323 ******************************************************************************** 2025-12-18T15:52:53,323 ############################ 2025-12-18T15:52:53,323 # Package would be ignored # 2025-12-18T15:52:53,323 ############################ 2025-12-18T15:52:53,323 Python recognizes 'pmx.data' as an importable package[^1], 2025-12-18T15:52:53,323 but it is absent from setuptools' `packages` configuration. 2025-12-18T15:52:53,323 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T15:52:53,323 package, please make sure that 'pmx.data' is explicitly added 2025-12-18T15:52:53,324 to the `packages` configuration field. 2025-12-18T15:52:53,324 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T15:52:53,324 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T15:52:53,324 instead of `find_packages(...)`/`find:`). 2025-12-18T15:52:53,324 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T15:52:53,324 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T15:52:53,324 If you don't want 'pmx.data' to be distributed and are 2025-12-18T15:52:53,324 already explicitly excluding 'pmx.data' via 2025-12-18T15:52:53,325 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T15:52:53,325 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T15:52:53,325 combination with a more fine grained `package-data` configuration. 2025-12-18T15:52:53,325 You can read more about "package data files" on setuptools documentation page: 2025-12-18T15:52:53,325 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T15:52:53,325 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T15:52:53,325 even if it does not contain any `.py` files. 2025-12-18T15:52:53,325 On the other hand, currently there is no concept of package data 2025-12-18T15:52:53,326 directory, all directories are treated like packages. 2025-12-18T15:52:53,326 ******************************************************************************** 2025-12-18T15:52:53,326 !! 2025-12-18T15:52:53,326 check.warn(importable) 2025-12-18T15:52:53,326 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.data.mutff' is absent from the `packages` configuration. 2025-12-18T15:52:53,326 !! 2025-12-18T15:52:53,326 ******************************************************************************** 2025-12-18T15:52:53,326 ############################ 2025-12-18T15:52:53,326 # Package would be ignored # 2025-12-18T15:52:53,327 ############################ 2025-12-18T15:52:53,327 Python recognizes 'pmx.data.mutff' as an importable package[^1], 2025-12-18T15:52:53,327 but it is absent from setuptools' `packages` configuration. 2025-12-18T15:52:53,327 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T15:52:53,327 package, please make sure that 'pmx.data.mutff' is explicitly added 2025-12-18T15:52:53,327 to the `packages` configuration field. 2025-12-18T15:52:53,327 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T15:52:53,327 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T15:52:53,327 instead of `find_packages(...)`/`find:`). 2025-12-18T15:52:53,328 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T15:52:53,328 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T15:52:53,328 If you don't want 'pmx.data.mutff' to be distributed and are 2025-12-18T15:52:53,328 already explicitly excluding 'pmx.data.mutff' via 2025-12-18T15:52:53,328 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T15:52:53,328 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T15:52:53,328 combination with a more fine grained `package-data` configuration. 2025-12-18T15:52:53,328 You can read more about "package data files" on setuptools documentation page: 2025-12-18T15:52:53,329 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T15:52:53,329 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T15:52:53,329 even if it does not contain any `.py` files. 2025-12-18T15:52:53,329 On the other hand, currently there is no concept of package data 2025-12-18T15:52:53,329 directory, all directories are treated like packages. 2025-12-18T15:52:53,329 ******************************************************************************** 2025-12-18T15:52:53,329 !! 2025-12-18T15:52:53,329 check.warn(importable) 2025-12-18T15:52:53,339 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.extensions.pmx' is absent from the `packages` configuration. 2025-12-18T15:52:53,339 !! 2025-12-18T15:52:53,339 ******************************************************************************** 2025-12-18T15:52:53,339 ############################ 2025-12-18T15:52:53,339 # Package would be ignored # 2025-12-18T15:52:53,339 ############################ 2025-12-18T15:52:53,339 Python recognizes 'pmx.extensions.pmx' as an importable package[^1], 2025-12-18T15:52:53,339 but it is absent from setuptools' `packages` configuration. 2025-12-18T15:52:53,340 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T15:52:53,340 package, please make sure that 'pmx.extensions.pmx' is explicitly added 2025-12-18T15:52:53,340 to the `packages` configuration field. 2025-12-18T15:52:53,340 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T15:52:53,340 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T15:52:53,340 instead of `find_packages(...)`/`find:`). 2025-12-18T15:52:53,340 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T15:52:53,340 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T15:52:53,341 If you don't want 'pmx.extensions.pmx' to be distributed and are 2025-12-18T15:52:53,341 already explicitly excluding 'pmx.extensions.pmx' via 2025-12-18T15:52:53,341 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T15:52:53,341 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T15:52:53,341 combination with a more fine grained `package-data` configuration. 2025-12-18T15:52:53,341 You can read more about "package data files" on setuptools documentation page: 2025-12-18T15:52:53,341 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T15:52:53,342 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T15:52:53,342 even if it does not contain any `.py` files. 2025-12-18T15:52:53,342 On the other hand, currently there is no concept of package data 2025-12-18T15:52:53,342 directory, all directories are treated like packages. 2025-12-18T15:52:53,342 ******************************************************************************** 2025-12-18T15:52:53,342 !! 2025-12-18T15:52:53,342 check.warn(importable) 2025-12-18T15:52:53,342 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.extensions.xdr' is absent from the `packages` configuration. 2025-12-18T15:52:53,342 !! 2025-12-18T15:52:53,343 ******************************************************************************** 2025-12-18T15:52:53,343 ############################ 2025-12-18T15:52:53,343 # Package would be ignored # 2025-12-18T15:52:53,343 ############################ 2025-12-18T15:52:53,343 Python recognizes 'pmx.extensions.xdr' as an importable package[^1], 2025-12-18T15:52:53,343 but it is absent from setuptools' `packages` configuration. 2025-12-18T15:52:53,343 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T15:52:53,343 package, please make sure that 'pmx.extensions.xdr' is explicitly added 2025-12-18T15:52:53,343 to the `packages` configuration field. 2025-12-18T15:52:53,343 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T15:52:53,344 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T15:52:53,344 instead of `find_packages(...)`/`find:`). 2025-12-18T15:52:53,344 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T15:52:53,344 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T15:52:53,344 If you don't want 'pmx.extensions.xdr' to be distributed and are 2025-12-18T15:52:53,344 already explicitly excluding 'pmx.extensions.xdr' via 2025-12-18T15:52:53,344 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T15:52:53,344 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T15:52:53,344 combination with a more fine grained `package-data` configuration. 2025-12-18T15:52:53,345 You can read more about "package data files" on setuptools documentation page: 2025-12-18T15:52:53,345 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T15:52:53,345 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T15:52:53,345 even if it does not contain any `.py` files. 2025-12-18T15:52:53,345 On the other hand, currently there is no concept of package data 2025-12-18T15:52:53,345 directory, all directories are treated like packages. 2025-12-18T15:52:53,345 ******************************************************************************** 2025-12-18T15:52:53,346 !! 2025-12-18T15:52:53,346 check.warn(importable) 2025-12-18T15:52:53,346 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.rosetta_example' is absent from the `packages` configuration. 2025-12-18T15:52:53,346 !! 2025-12-18T15:52:53,346 ******************************************************************************** 2025-12-18T15:52:53,346 ############################ 2025-12-18T15:52:53,346 # Package would be ignored # 2025-12-18T15:52:53,346 ############################ 2025-12-18T15:52:53,346 Python recognizes 'pmx.rosetta_example' as an importable package[^1], 2025-12-18T15:52:53,346 but it is absent from setuptools' `packages` configuration. 2025-12-18T15:52:53,347 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T15:52:53,347 package, please make sure that 'pmx.rosetta_example' is explicitly added 2025-12-18T15:52:53,347 to the `packages` configuration field. 2025-12-18T15:52:53,347 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T15:52:53,347 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T15:52:53,347 instead of `find_packages(...)`/`find:`). 2025-12-18T15:52:53,347 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T15:52:53,347 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T15:52:53,348 If you don't want 'pmx.rosetta_example' to be distributed and are 2025-12-18T15:52:53,348 already explicitly excluding 'pmx.rosetta_example' via 2025-12-18T15:52:53,348 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T15:52:53,348 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T15:52:53,348 combination with a more fine grained `package-data` configuration. 2025-12-18T15:52:53,348 You can read more about "package data files" on setuptools documentation page: 2025-12-18T15:52:53,348 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T15:52:53,348 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T15:52:53,349 even if it does not contain any `.py` files. 2025-12-18T15:52:53,349 On the other hand, currently there is no concept of package data 2025-12-18T15:52:53,349 directory, all directories are treated like packages. 2025-12-18T15:52:53,349 ******************************************************************************** 2025-12-18T15:52:53,349 !! 2025-12-18T15:52:53,349 check.warn(importable) 2025-12-18T15:52:53,349 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.scripts' is absent from the `packages` configuration. 2025-12-18T15:52:53,349 !! 2025-12-18T15:52:53,349 ******************************************************************************** 2025-12-18T15:52:53,349 ############################ 2025-12-18T15:52:53,350 # Package would be ignored # 2025-12-18T15:52:53,350 ############################ 2025-12-18T15:52:53,350 Python recognizes 'pmx.scripts' as an importable package[^1], 2025-12-18T15:52:53,350 but it is absent from setuptools' `packages` configuration. 2025-12-18T15:52:53,350 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T15:52:53,350 package, please make sure that 'pmx.scripts' is explicitly added 2025-12-18T15:52:53,350 to the `packages` configuration field. 2025-12-18T15:52:53,350 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T15:52:53,350 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T15:52:53,351 instead of `find_packages(...)`/`find:`). 2025-12-18T15:52:53,351 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T15:52:53,351 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T15:52:53,351 If you don't want 'pmx.scripts' to be distributed and are 2025-12-18T15:52:53,351 already explicitly excluding 'pmx.scripts' via 2025-12-18T15:52:53,351 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T15:52:53,351 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T15:52:53,351 combination with a more fine grained `package-data` configuration. 2025-12-18T15:52:53,352 You can read more about "package data files" on setuptools documentation page: 2025-12-18T15:52:53,352 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T15:52:53,352 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T15:52:53,352 even if it does not contain any `.py` files. 2025-12-18T15:52:53,352 On the other hand, currently there is no concept of package data 2025-12-18T15:52:53,352 directory, all directories are treated like packages. 2025-12-18T15:52:53,352 ******************************************************************************** 2025-12-18T15:52:53,353 !! 2025-12-18T15:52:53,353 check.warn(importable) 2025-12-18T15:52:53,353 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.scripts.icolos_entrypoints' is absent from the `packages` configuration. 2025-12-18T15:52:53,353 !! 2025-12-18T15:52:53,353 ******************************************************************************** 2025-12-18T15:52:53,353 ############################ 2025-12-18T15:52:53,353 # Package would be ignored # 2025-12-18T15:52:53,353 ############################ 2025-12-18T15:52:53,353 Python recognizes 'pmx.scripts.icolos_entrypoints' as an importable package[^1], 2025-12-18T15:52:53,353 but it is absent from setuptools' `packages` configuration. 2025-12-18T15:52:53,354 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T15:52:53,354 package, please make sure that 'pmx.scripts.icolos_entrypoints' is explicitly added 2025-12-18T15:52:53,354 to the `packages` configuration field. 2025-12-18T15:52:53,354 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T15:52:53,354 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T15:52:53,354 instead of `find_packages(...)`/`find:`). 2025-12-18T15:52:53,354 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T15:52:53,354 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T15:52:53,355 If you don't want 'pmx.scripts.icolos_entrypoints' to be distributed and are 2025-12-18T15:52:53,355 already explicitly excluding 'pmx.scripts.icolos_entrypoints' via 2025-12-18T15:52:53,355 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T15:52:53,355 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T15:52:53,355 combination with a more fine grained `package-data` configuration. 2025-12-18T15:52:53,355 You can read more about "package data files" on setuptools documentation page: 2025-12-18T15:52:53,355 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T15:52:53,356 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T15:52:53,356 even if it does not contain any `.py` files. 2025-12-18T15:52:53,356 On the other hand, currently there is no concept of package data 2025-12-18T15:52:53,356 directory, all directories are treated like packages. 2025-12-18T15:52:53,356 ******************************************************************************** 2025-12-18T15:52:53,356 !! 2025-12-18T15:52:53,356 check.warn(importable) 2025-12-18T15:52:53,356 creating build/lib.linux-armv7l-cpython-313/pmx/data 2025-12-18T15:52:53,356 copying src/pmx/data/aminoacids.pkl -> build/lib.linux-armv7l-cpython-313/pmx/data 2025-12-18T15:52:53,356 copying src/pmx/data/bbdep.pkl -> build/lib.linux-armv7l-cpython-313/pmx/data 2025-12-18T15:52:53,416 copying src/pmx/data/blosum62_new.mat -> build/lib.linux-armv7l-cpython-313/pmx/data 2025-12-18T15:52:53,416 copying src/pmx/data/bp.pkl -> build/lib.linux-armv7l-cpython-313/pmx/data 2025-12-18T15:52:53,417 copying src/pmx/data/bp_amber.pkl -> build/lib.linux-armv7l-cpython-313/pmx/data 2025-12-18T15:52:53,418 copying src/pmx/data/bp_charmm.pkl -> build/lib.linux-armv7l-cpython-313/pmx/data 2025-12-18T15:52:53,420 copying src/pmx/data/rna.pkl -> build/lib.linux-armv7l-cpython-313/pmx/data 2025-12-18T15:52:53,420 creating build/lib.linux-armv7l-cpython-313/pmx/data/mutff 2025-12-18T15:52:53,421 copying src/pmx/data/mutff/atommass.dat -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff 2025-12-18T15:52:53,421 copying src/pmx/data/mutff/elements.dat -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff 2025-12-18T15:52:53,422 copying src/pmx/data/mutff/residuetypes.dat -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff 2025-12-18T15:52:53,422 copying src/pmx/data/mutff/spc216.gro -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff 2025-12-18T15:52:53,423 copying src/pmx/data/mutff/specbond.dat -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff 2025-12-18T15:52:53,424 copying src/pmx/data/mutff/vdwradii.dat -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff 2025-12-18T15:52:53,424 copying src/pmx/data/mutff/xlateat.dat -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff 2025-12-18T15:52:53,425 creating build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,425 copying src/pmx/data/mutff/amber14sbmut.ff/Makefile.am -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,425 copying src/pmx/data/mutff/amber14sbmut.ff/Makefile.in -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,426 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,426 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,427 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,428 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,428 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,429 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,429 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,430 copying src/pmx/data/mutff/amber14sbmut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,431 copying src/pmx/data/mutff/amber14sbmut.ff/dna.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,431 copying src/pmx/data/mutff/amber14sbmut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,432 copying src/pmx/data/mutff/amber14sbmut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,432 copying src/pmx/data/mutff/amber14sbmut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,433 copying src/pmx/data/mutff/amber14sbmut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,434 copying src/pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,434 copying src/pmx/data/mutff/amber14sbmut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,435 copying src/pmx/data/mutff/amber14sbmut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,435 copying src/pmx/data/mutff/amber14sbmut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,436 copying src/pmx/data/mutff/amber14sbmut.ff/ions.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,436 copying src/pmx/data/mutff/amber14sbmut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,448 copying src/pmx/data/mutff/amber14sbmut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,453 copying src/pmx/data/mutff/amber14sbmut.ff/rna.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,454 copying src/pmx/data/mutff/amber14sbmut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,454 copying src/pmx/data/mutff/amber14sbmut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,455 copying src/pmx/data/mutff/amber14sbmut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,455 copying src/pmx/data/mutff/amber14sbmut.ff/spc.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,456 copying src/pmx/data/mutff/amber14sbmut.ff/spce.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,456 copying src/pmx/data/mutff/amber14sbmut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,457 copying src/pmx/data/mutff/amber14sbmut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,457 copying src/pmx/data/mutff/amber14sbmut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,458 copying src/pmx/data/mutff/amber14sbmut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,459 copying src/pmx/data/mutff/amber14sbmut.ff/urea.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,459 copying src/pmx/data/mutff/amber14sbmut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:52:53,459 creating build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,460 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,460 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn_backup -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,461 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,462 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,462 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,463 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,463 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,464 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,465 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,465 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_ffbonded_for_ildn_test.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,466 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_mutres -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,471 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/correct_ffbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,471 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,472 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,472 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,473 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,474 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffberger.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,474 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,475 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,476 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,476 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,477 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,477 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,478 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,479 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,480 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,481 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer_posre.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,482 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,482 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,483 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,483 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,484 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,484 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,485 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,485 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,486 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,487 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,487 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/urea.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,488 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:52:53,488 creating build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,488 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,489 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,489 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,490 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,490 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,491 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,492 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,492 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,493 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_ffbonded_for_ildn_test.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,494 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_mutres -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,499 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/correct_ffbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,499 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,500 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,501 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,501 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,502 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffberger.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,502 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,503 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,504 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,504 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,505 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,505 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,506 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,507 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,509 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,509 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer_posre.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,510 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,510 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,511 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,511 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,512 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,513 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,513 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,514 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,514 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,515 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,515 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/urea.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,516 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:52:53,516 creating build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,516 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,517 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,518 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,518 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,519 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,519 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,520 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,521 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,521 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,522 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,522 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,523 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,524 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,524 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,525 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,525 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,526 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,526 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,527 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,539 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,545 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,545 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,546 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,547 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,547 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,548 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,548 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,549 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,549 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,550 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,550 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/urea.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,551 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:52:53,552 creating build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,552 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,552 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,553 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,553 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,554 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,554 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,555 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,556 copying src/pmx/data/mutff/charmm22star-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,556 copying src/pmx/data/mutff/charmm22star-mut.ff/cmap.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,557 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,557 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.c.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,558 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,559 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.n.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,559 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,560 copying src/pmx/data/mutff/charmm22star-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,561 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnabonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,562 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnanonbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,562 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,563 copying src/pmx/data/mutff/charmm22star-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,564 copying src/pmx/data/mutff/charmm22star-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,564 copying src/pmx/data/mutff/charmm22star-mut.ff/gb.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,565 copying src/pmx/data/mutff/charmm22star-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,565 copying src/pmx/data/mutff/charmm22star-mut.ff/lipids.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,566 copying src/pmx/data/mutff/charmm22star-mut.ff/lipids.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,567 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,567 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,578 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,583 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,583 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.c.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,584 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,584 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.n.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,585 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,585 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,586 copying src/pmx/data/mutff/charmm22star-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,587 copying src/pmx/data/mutff/charmm22star-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,587 copying src/pmx/data/mutff/charmm22star-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,588 copying src/pmx/data/mutff/charmm22star-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,588 copying src/pmx/data/mutff/charmm22star-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,589 copying src/pmx/data/mutff/charmm22star-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,589 copying src/pmx/data/mutff/charmm22star-mut.ff/tips3p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,590 copying src/pmx/data/mutff/charmm22star-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:52:53,590 creating build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,590 copying src/pmx/data/mutff/charmm36m-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,591 copying src/pmx/data/mutff/charmm36m-mut.ff/cmap.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,592 copying src/pmx/data/mutff/charmm36m-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,597 copying src/pmx/data/mutff/charmm36m-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,603 copying src/pmx/data/mutff/charmm36m-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,604 copying src/pmx/data/mutff/charmm36m-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,604 copying src/pmx/data/mutff/charmm36m-mut.ff/gb.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,605 copying src/pmx/data/mutff/charmm36m-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,605 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,606 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.c.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,606 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.hdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,607 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.n.tdb -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,607 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.r2b -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,608 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,613 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.vsd -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,613 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.arn -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,614 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,625 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,630 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,632 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,633 copying src/pmx/data/mutff/charmm36m-mut.ff/nbfix.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,633 copying src/pmx/data/mutff/charmm36m-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,634 copying src/pmx/data/mutff/charmm36m-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,635 copying src/pmx/data/mutff/charmm36m-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,635 copying src/pmx/data/mutff/charmm36m-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,636 copying src/pmx/data/mutff/charmm36m-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:52:53,636 creating build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx 2025-12-18T15:52:53,636 copying src/pmx/extensions/pmx/Energy.c -> build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx 2025-12-18T15:52:53,637 copying src/pmx/extensions/pmx/Geometry.c -> build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx 2025-12-18T15:52:53,638 copying src/pmx/extensions/pmx/Geometry.h -> build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx 2025-12-18T15:52:53,638 copying src/pmx/extensions/pmx/cpp_test.cpp -> build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx 2025-12-18T15:52:53,639 copying src/pmx/extensions/pmx/init.c -> build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx 2025-12-18T15:52:53,639 copying src/pmx/extensions/pmx/pmx.h -> build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx 2025-12-18T15:52:53,640 copying src/pmx/extensions/pmx/wrap_Geometry.c -> build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx 2025-12-18T15:52:53,640 creating build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr 2025-12-18T15:52:53,641 copying src/pmx/extensions/xdr/trr2xtc.c -> build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr 2025-12-18T15:52:53,641 copying src/pmx/extensions/xdr/xdrfile.c -> build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr 2025-12-18T15:52:53,642 copying src/pmx/extensions/xdr/xdrfile.h -> build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr 2025-12-18T15:52:53,643 copying src/pmx/extensions/xdr/xdrfile_c_test.c -> build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr 2025-12-18T15:52:53,643 copying src/pmx/extensions/xdr/xdrfile_trr.c -> build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr 2025-12-18T15:52:53,644 copying src/pmx/extensions/xdr/xdrfile_trr.h -> build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr 2025-12-18T15:52:53,644 copying src/pmx/extensions/xdr/xdrfile_xtc.c -> build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr 2025-12-18T15:52:53,645 copying src/pmx/extensions/xdr/xdrfile_xtc.h -> build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr 2025-12-18T15:52:53,645 creating build/lib.linux-armv7l-cpython-313/pmx/rosetta_example 2025-12-18T15:52:53,646 copying src/pmx/rosetta_example/README -> build/lib.linux-armv7l-cpython-313/pmx/rosetta_example 2025-12-18T15:52:53,646 copying src/pmx/rosetta_example/analyze.py -> build/lib.linux-armv7l-cpython-313/pmx/rosetta_example 2025-12-18T15:52:53,647 copying src/pmx/rosetta_example/mut.dat -> build/lib.linux-armv7l-cpython-313/pmx/rosetta_example 2025-12-18T15:52:53,647 copying src/pmx/rosetta_example/plot_results.ipynb -> build/lib.linux-armv7l-cpython-313/pmx/rosetta_example 2025-12-18T15:52:53,648 copying src/pmx/rosetta_example/prot_zn.pdb -> build/lib.linux-armv7l-cpython-313/pmx/rosetta_example 2025-12-18T15:52:53,651 copying src/pmx/rosetta_example/rosetta_prepare.ipynb -> build/lib.linux-armv7l-cpython-313/pmx/rosetta_example 2025-12-18T15:52:53,652 copying src/pmx/rosetta_example/submit_jobscripts.py -> build/lib.linux-armv7l-cpython-313/pmx/rosetta_example 2025-12-18T15:52:53,652 creating build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,652 copying src/pmx/scripts/__init__.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,653 copying src/pmx/scripts/analyze_dhdl.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,654 copying src/pmx/scripts/atomMapping.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,654 copying src/pmx/scripts/build_cyclic_top.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,655 copying src/pmx/scripts/cli.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,655 copying src/pmx/scripts/fill_cgenff_itp.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,656 copying src/pmx/scripts/fix_residue_names.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,656 copying src/pmx/scripts/gen_abs_restraints.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,657 copying src/pmx/scripts/generate_hybrid_residue.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,658 copying src/pmx/scripts/generate_hybrid_topology.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,658 copying src/pmx/scripts/hydrogen_atom_renaming.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,659 copying src/pmx/scripts/ligandHybrid.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,659 copying src/pmx/scripts/make_double_box.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,660 copying src/pmx/scripts/md_setup.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,661 copying src/pmx/scripts/mutate.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,661 copying src/pmx/scripts/parameterize_ligands.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,662 copying src/pmx/scripts/prepare_crooks_runs.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,663 copying src/pmx/scripts/repartition_mass.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,663 copying src/pmx/scripts/set_gmxlib.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,664 copying src/pmx/scripts/setup_abfe.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts 2025-12-18T15:52:53,664 creating build/lib.linux-armv7l-cpython-313/pmx/scripts/icolos_entrypoints 2025-12-18T15:52:53,664 copying src/pmx/scripts/icolos_entrypoints/__init__.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts/icolos_entrypoints 2025-12-18T15:52:53,665 copying src/pmx/scripts/icolos_entrypoints/assemble_systems.py -> build/lib.linux-armv7l-cpython-313/pmx/scripts/icolos_entrypoints 2025-12-18T15:52:53,667 UPDATING build/lib.linux-armv7l-cpython-313/pmx/_version.py 2025-12-18T15:52:53,667 set build/lib.linux-armv7l-cpython-313/pmx/_version.py to '5.2.1' 2025-12-18T15:52:53,667 running build_ext 2025-12-18T15:52:54,071 building 'pmx._pmx' extension 2025-12-18T15:52:54,072 creating build/temp.linux-armv7l-cpython-313/src/pmx/extensions/pmx 2025-12-18T15:52:54,073 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.13 -c src/pmx/extensions/pmx/Energy.c -o build/temp.linux-armv7l-cpython-313/src/pmx/extensions/pmx/Energy.o 2025-12-18T15:52:55,131 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.13 -c src/pmx/extensions/pmx/Geometry.c -o build/temp.linux-armv7l-cpython-313/src/pmx/extensions/pmx/Geometry.o 2025-12-18T15:52:55,519 src/pmx/extensions/pmx/Geometry.c: In function ‘spread_atoms_on_grid’: 2025-12-18T15:52:55,520 src/pmx/extensions/pmx/Geometry.c:527:15: warning: variable ‘nz’ set but not used [-Wunused-but-set-variable] 2025-12-18T15:52:55,520 527 | int nx, ny, nz; 2025-12-18T15:52:55,520 | ^~ 2025-12-18T15:52:55,521 src/pmx/extensions/pmx/Geometry.c: In function ‘search_neighbors’: 2025-12-18T15:52:55,521 src/pmx/extensions/pmx/Geometry.c:586:15: warning: variable ‘nz’ set but not used [-Wunused-but-set-variable] 2025-12-18T15:52:55,522 586 | int nx, ny, nz; 2025-12-18T15:52:55,522 | ^~ 2025-12-18T15:52:57,398 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.13 -c src/pmx/extensions/pmx/init.c -o build/temp.linux-armv7l-cpython-313/src/pmx/extensions/pmx/init.o 2025-12-18T15:52:57,789 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.13 -c src/pmx/extensions/pmx/wrap_Geometry.c -o build/temp.linux-armv7l-cpython-313/src/pmx/extensions/pmx/wrap_Geometry.o 2025-12-18T15:52:59,329 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-313/src/pmx/extensions/pmx/Energy.o build/temp.linux-armv7l-cpython-313/src/pmx/extensions/pmx/Geometry.o build/temp.linux-armv7l-cpython-313/src/pmx/extensions/pmx/init.o build/temp.linux-armv7l-cpython-313/src/pmx/extensions/pmx/wrap_Geometry.o -L/usr/lib/arm-linux-gnueabihf -lm -o build/lib.linux-armv7l-cpython-313/pmx/_pmx.cpython-313-arm-linux-gnueabihf.so 2025-12-18T15:52:59,462 building 'pmx._xdrio' extension 2025-12-18T15:52:59,463 creating build/temp.linux-armv7l-cpython-313/src/pmx/extensions/xdr 2025-12-18T15:52:59,463 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -Isrc/pmx/extensions/xdr -I/usr/include/python3.13 -c src/pmx/extensions/xdr/xdrfile.c -o build/temp.linux-armv7l-cpython-313/src/pmx/extensions/xdr/xdrfile.o 2025-12-18T15:52:59,505 src/pmx/extensions/xdr/xdrfile.c:5:2: warning: "/*" within comment [-Wcomment] 2025-12-18T15:52:59,505 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2025-12-18T15:52:59,592 In file included from src/pmx/extensions/xdr/xdrfile.c:60: 2025-12-18T15:52:59,592 src/pmx/extensions/xdr/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2025-12-18T15:52:59,592 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2025-12-18T15:52:59,599 src/pmx/extensions/xdr/xdrfile.c: In function ‘sizeofint’: 2025-12-18T15:52:59,599 src/pmx/extensions/xdr/xdrfile.c:499:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-12-18T15:52:59,599 499 | while (size >= num && num_of_bits < 32) 2025-12-18T15:52:59,599 | ^~ 2025-12-18T15:52:59,600 src/pmx/extensions/xdr/xdrfile.c: In function ‘sizeofints’: 2025-12-18T15:52:59,600 src/pmx/extensions/xdr/xdrfile.c:545:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T15:52:59,600 545 | while (bytes[num_of_bytes] >= num) 2025-12-18T15:52:59,600 | ^~ 2025-12-18T15:52:59,601 src/pmx/extensions/xdr/xdrfile.c: In function ‘encodeints’: 2025-12-18T15:52:59,602 src/pmx/extensions/xdr/xdrfile.c:654:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-12-18T15:52:59,602 654 | if (num_of_bits >= num_of_bytes * 8) 2025-12-18T15:52:59,602 | ^~ 2025-12-18T15:52:59,603 src/pmx/extensions/xdr/xdrfile.c:656:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-12-18T15:52:59,603 656 | for (i = 0; i < num_of_bytes; i++) 2025-12-18T15:52:59,603 | ^ 2025-12-18T15:52:59,603 src/pmx/extensions/xdr/xdrfile.c:664:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-12-18T15:52:59,603 664 | for (i = 0; i < num_of_bytes-1; i++) 2025-12-18T15:52:59,603 | ^ 2025-12-18T15:52:59,604 src/pmx/extensions/xdr/xdrfile.c: In function ‘decodebits’: 2025-12-18T15:52:59,605 src/pmx/extensions/xdr/xdrfile.c:704:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T15:52:59,605 704 | if (lastbits < num_of_bits) 2025-12-18T15:52:59,605 | ^ 2025-12-18T15:52:59,607 src/pmx/extensions/xdr/xdrfile.c: In function ‘xdrfile_decompress_coord_float’: 2025-12-18T15:52:59,607 src/pmx/extensions/xdr/xdrfile.c:814:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T15:52:59,608 814 | if(size3>xfp->buf1size) 2025-12-18T15:52:59,608 | ^ 2025-12-18T15:52:59,609 src/pmx/extensions/xdr/xdrfile.c:866:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T15:52:59,610 866 | maxidx = (LASTIDXxfp->buf1size) 2025-12-18T15:52:59,616 | ^ 2025-12-18T15:52:59,621 src/pmx/extensions/xdr/xdrfile.c:1133:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-12-18T15:52:59,622 1133 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2025-12-18T15:52:59,622 | ^ 2025-12-18T15:52:59,623 src/pmx/extensions/xdr/xdrfile.c:1139:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T15:52:59,623 1139 | maxidx = (LASTIDXxfp->buf1size) 2025-12-18T15:52:59,631 | ^ 2025-12-18T15:52:59,633 src/pmx/extensions/xdr/xdrfile.c:1366:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T15:52:59,634 1366 | maxidx = (LASTIDXxfp->buf1size) { 2025-12-18T15:52:59,642 | ^ 2025-12-18T15:52:59,649 src/pmx/extensions/xdr/xdrfile.c:1617:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-12-18T15:52:59,649 1617 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2025-12-18T15:52:59,650 | ^ 2025-12-18T15:52:59,651 src/pmx/extensions/xdr/xdrfile.c:1622:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T15:52:59,651 1622 | maxidx = (LASTIDX build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:03,727 copying build/lib.linux-armv7l-cpython-313/pmx/_pmx.cpython-313-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:03,728 copying build/lib.linux-armv7l-cpython-313/pmx/_version.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:03,728 creating build/bdist.linux-armv7l/wheel/pmx/scripts 2025-12-18T15:53:03,729 creating build/bdist.linux-armv7l/wheel/pmx/scripts/icolos_entrypoints 2025-12-18T15:53:03,729 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/icolos_entrypoints/assemble_systems.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts/icolos_entrypoints 2025-12-18T15:53:03,729 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/icolos_entrypoints/__init__.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts/icolos_entrypoints 2025-12-18T15:53:03,730 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/setup_abfe.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,730 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/set_gmxlib.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,731 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/repartition_mass.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,731 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/prepare_crooks_runs.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,731 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/parameterize_ligands.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,732 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/mutate.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,732 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/md_setup.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,733 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/make_double_box.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,733 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/ligandHybrid.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,734 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/hydrogen_atom_renaming.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,734 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/generate_hybrid_topology.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,734 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/generate_hybrid_residue.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,735 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/gen_abs_restraints.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,735 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/fix_residue_names.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,736 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/fill_cgenff_itp.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,736 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/cli.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,737 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/build_cyclic_top.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,737 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/atomMapping.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,738 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/analyze_dhdl.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,738 copying build/lib.linux-armv7l-cpython-313/pmx/scripts/__init__.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T15:53:03,739 creating build/bdist.linux-armv7l/wheel/pmx/rosetta_example 2025-12-18T15:53:03,739 copying build/lib.linux-armv7l-cpython-313/pmx/rosetta_example/submit_jobscripts.py -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T15:53:03,740 copying build/lib.linux-armv7l-cpython-313/pmx/rosetta_example/rosetta_prepare.ipynb -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T15:53:03,740 copying build/lib.linux-armv7l-cpython-313/pmx/rosetta_example/prot_zn.pdb -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T15:53:03,742 copying build/lib.linux-armv7l-cpython-313/pmx/rosetta_example/plot_results.ipynb -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T15:53:03,744 copying build/lib.linux-armv7l-cpython-313/pmx/rosetta_example/mut.dat -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T15:53:03,744 copying build/lib.linux-armv7l-cpython-313/pmx/rosetta_example/analyze.py -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T15:53:03,744 copying build/lib.linux-armv7l-cpython-313/pmx/rosetta_example/README -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T15:53:03,745 creating build/bdist.linux-armv7l/wheel/pmx/extensions 2025-12-18T15:53:03,745 creating build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2025-12-18T15:53:03,746 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr/xdrfile_xtc.h -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T15:53:03,746 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr/xdrfile_xtc.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T15:53:03,747 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr/xdrfile_trr.h -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T15:53:03,747 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr/xdrfile_trr.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T15:53:03,747 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr/xdrfile_c_test.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T15:53:03,748 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr/xdrfile.h -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T15:53:03,748 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr/xdrfile.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T15:53:03,749 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/xdr/trr2xtc.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T15:53:03,749 creating build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2025-12-18T15:53:03,750 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx/wrap_Geometry.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T15:53:03,750 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx/pmx.h -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T15:53:03,751 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx/init.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T15:53:03,751 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx/cpp_test.cpp -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T15:53:03,751 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx/Geometry.h -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T15:53:03,752 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx/Geometry.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T15:53:03,752 copying build/lib.linux-armv7l-cpython-313/pmx/extensions/pmx/Energy.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T15:53:03,753 creating build/bdist.linux-armv7l/wheel/pmx/data 2025-12-18T15:53:03,753 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff 2025-12-18T15:53:03,754 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,754 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,754 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,755 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,755 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,755 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,756 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/nbfix.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,756 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,757 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.mtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,759 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,764 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,775 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/mutres.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,776 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/merged.vsd -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,776 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/merged.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,781 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/merged.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,781 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/merged.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,782 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/merged.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,782 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/merged.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,782 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/merged.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,783 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,783 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/gb.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,783 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,784 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,784 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,790 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,795 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/cmap.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,796 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm36m-mut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T15:53:03,796 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,797 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,797 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/tips3p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,797 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/tip5p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,798 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/tip4pew.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,798 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,799 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,799 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,799 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,800 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/rna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,800 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/rna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,801 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/rna.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,801 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/rna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,801 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/rna.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,802 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/rna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,802 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,807 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,817 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/mutres.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,817 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/lipids.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,818 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/lipids.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,818 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,819 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/gb.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,819 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,819 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,820 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,821 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/ffnanonbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,822 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/ffnabonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,822 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,823 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/dna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,823 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/dna.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,824 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/dna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,824 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/dna.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,824 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/dna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,825 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/cmap.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,825 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,826 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/aminoacids.vsd -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,826 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/aminoacids.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,827 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/aminoacids.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,827 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/aminoacids.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,827 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/aminoacids.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,828 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/aminoacids.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,828 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/charmm22star-mut.ff/aminoacids.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T15:53:03,829 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,829 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,829 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/urea.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,830 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip5p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,830 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4pew.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,831 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,831 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,831 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,832 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,832 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,832 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,833 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,833 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,834 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,839 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,851 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,851 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/gbsa.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,852 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,852 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,852 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,853 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,853 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,854 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,854 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,855 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,855 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,855 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.vsd -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,856 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,856 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,857 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,857 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,858 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,858 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T15:53:03,859 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,859 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,859 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/urea.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,860 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip5p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,860 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4pew.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,860 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,861 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,861 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,862 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,862 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,862 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,863 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,863 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,864 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer_posre.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,864 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,864 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,865 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.mtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,867 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,867 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/gbsa.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,868 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,868 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,868 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,869 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,869 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffberger.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,870 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,870 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,870 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,871 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,871 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/correct_ffbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,872 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_mutres -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,876 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_ffbonded_for_ildn_test.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,877 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,877 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.vsd -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,878 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,878 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,879 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,879 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,880 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,880 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T15:53:03,881 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,881 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,881 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/urea.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,882 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip5p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,882 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4pew.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,882 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,883 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,883 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,884 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,884 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,884 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,885 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,885 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,885 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer_posre.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,886 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,886 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,887 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.mtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,889 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,889 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/gbsa.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,889 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,890 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,890 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,891 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,891 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffberger.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,892 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,892 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,892 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,893 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,893 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/correct_ffbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,894 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_mutres -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,898 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_ffbonded_for_ildn_test.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,899 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,899 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.vsd -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,900 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,901 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,901 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,901 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,902 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,902 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn_backup -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,903 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T15:53:03,903 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,904 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,904 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/urea.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,904 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/tip5p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,905 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/tip4pew.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,905 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,905 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,906 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,906 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,907 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/rna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,907 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/rna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,907 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/rna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,908 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/rna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,908 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,913 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,925 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,925 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/gbsa.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,925 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,926 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,926 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,927 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,927 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/dna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,928 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/dna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,928 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/dna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,928 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/dna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,929 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,929 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,930 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,930 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,931 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/aminoacids.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,931 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,931 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/aminoacids.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,932 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/aminoacids.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,932 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/Makefile.in -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,933 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/amber14sbmut.ff/Makefile.am -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T15:53:03,933 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/xlateat.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T15:53:03,933 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/vdwradii.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T15:53:03,934 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/specbond.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T15:53:03,934 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/spc216.gro -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T15:53:03,935 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/residuetypes.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T15:53:03,935 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/elements.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T15:53:03,935 copying build/lib.linux-armv7l-cpython-313/pmx/data/mutff/atommass.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T15:53:03,936 copying build/lib.linux-armv7l-cpython-313/pmx/data/rna.pkl -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T15:53:03,936 copying build/lib.linux-armv7l-cpython-313/pmx/data/bp_charmm.pkl -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T15:53:03,937 copying build/lib.linux-armv7l-cpython-313/pmx/data/bp_amber.pkl -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T15:53:03,938 copying build/lib.linux-armv7l-cpython-313/pmx/data/bp.pkl -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T15:53:03,939 copying build/lib.linux-armv7l-cpython-313/pmx/data/blosum62_new.mat -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T15:53:03,940 copying build/lib.linux-armv7l-cpython-313/pmx/data/bbdep.pkl -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T15:53:04,003 copying build/lib.linux-armv7l-cpython-313/pmx/data/aminoacids.pkl -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T15:53:04,005 copying build/lib.linux-armv7l-cpython-313/pmx/AbsRestraints.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,005 copying build/lib.linux-armv7l-cpython-313/pmx/__init__.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,006 copying build/lib.linux-armv7l-cpython-313/pmx/alchemy.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,006 copying build/lib.linux-armv7l-cpython-313/pmx/analysis.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,007 copying build/lib.linux-armv7l-cpython-313/pmx/atom.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,007 copying build/lib.linux-armv7l-cpython-313/pmx/atomselection.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,008 copying build/lib.linux-armv7l-cpython-313/pmx/builder.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,008 copying build/lib.linux-armv7l-cpython-313/pmx/chain.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,009 copying build/lib.linux-armv7l-cpython-313/pmx/estimators.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,009 copying build/lib.linux-armv7l-cpython-313/pmx/ffparser.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,010 copying build/lib.linux-armv7l-cpython-313/pmx/forcefield.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,010 copying build/lib.linux-armv7l-cpython-313/pmx/geometry.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,011 copying build/lib.linux-armv7l-cpython-313/pmx/gmx.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,011 copying build/lib.linux-armv7l-cpython-313/pmx/jobscript.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,012 copying build/lib.linux-armv7l-cpython-313/pmx/library.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,012 copying build/lib.linux-armv7l-cpython-313/pmx/ligand_alchemy.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,013 copying build/lib.linux-armv7l-cpython-313/pmx/model.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,014 copying build/lib.linux-armv7l-cpython-313/pmx/molecule.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,014 copying build/lib.linux-armv7l-cpython-313/pmx/mutdb.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,015 copying build/lib.linux-armv7l-cpython-313/pmx/ndx.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,015 copying build/lib.linux-armv7l-cpython-313/pmx/options.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,015 copying build/lib.linux-armv7l-cpython-313/pmx/parser.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,016 copying build/lib.linux-armv7l-cpython-313/pmx/resselection.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,016 copying build/lib.linux-armv7l-cpython-313/pmx/rosetta.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,017 copying build/lib.linux-armv7l-cpython-313/pmx/rosetta_analyze.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,017 copying build/lib.linux-armv7l-cpython-313/pmx/rotamer.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,017 copying build/lib.linux-armv7l-cpython-313/pmx/summary.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,018 copying build/lib.linux-armv7l-cpython-313/pmx/utils.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,018 copying build/lib.linux-armv7l-cpython-313/pmx/xdrfile.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,019 copying build/lib.linux-armv7l-cpython-313/pmx/xtc.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T15:53:04,019 running install_egg_info 2025-12-18T15:53:04,096 Copying src/pmx_biobb.egg-info to build/bdist.linux-armv7l/wheel/./pmx_biobb-5.2.1-py3.13.egg-info 2025-12-18T15:53:04,099 running install_scripts 2025-12-18T15:53:04,155 creating build/bdist.linux-armv7l/wheel/pmx_biobb-5.2.1.dist-info/WHEEL 2025-12-18T15:53:04,156 creating '/tmp/pip-wheel-a2logf2p/pmx_biobb-5.2.1-cp313-cp313-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-12-18T15:53:04,160 adding 'pmx/AbsRestraints.py' 2025-12-18T15:53:04,161 adding 'pmx/__init__.py' 2025-12-18T15:53:04,194 adding 'pmx/_pmx.cpython-313-arm-linux-gnueabihf.so' 2025-12-18T15:53:04,196 adding 'pmx/_version.py' 2025-12-18T15:53:04,215 adding 'pmx/_xdrio.cpython-313-arm-linux-gnueabihf.so' 2025-12-18T15:53:04,224 adding 'pmx/alchemy.py' 2025-12-18T15:53:04,226 adding 'pmx/analysis.py' 2025-12-18T15:53:04,228 adding 'pmx/atom.py' 2025-12-18T15:53:04,229 adding 'pmx/atomselection.py' 2025-12-18T15:53:04,231 adding 'pmx/builder.py' 2025-12-18T15:53:04,234 adding 'pmx/chain.py' 2025-12-18T15:53:04,237 adding 'pmx/estimators.py' 2025-12-18T15:53:04,240 adding 'pmx/ffparser.py' 2025-12-18T15:53:04,248 adding 'pmx/forcefield.py' 2025-12-18T15:53:04,250 adding 'pmx/geometry.py' 2025-12-18T15:53:04,251 adding 'pmx/gmx.py' 2025-12-18T15:53:04,252 adding 'pmx/jobscript.py' 2025-12-18T15:53:04,261 adding 'pmx/library.py' 2025-12-18T15:53:04,273 adding 'pmx/ligand_alchemy.py' 2025-12-18T15:53:04,278 adding 'pmx/model.py' 2025-12-18T15:53:04,281 adding 'pmx/molecule.py' 2025-12-18T15:53:04,282 adding 'pmx/mutdb.py' 2025-12-18T15:53:04,284 adding 'pmx/ndx.py' 2025-12-18T15:53:04,285 adding 'pmx/options.py' 2025-12-18T15:53:04,286 adding 'pmx/parser.py' 2025-12-18T15:53:04,288 adding 'pmx/resselection.py' 2025-12-18T15:53:04,290 adding 'pmx/rosetta.py' 2025-12-18T15:53:04,292 adding 'pmx/rosetta_analyze.py' 2025-12-18T15:53:04,293 adding 'pmx/rotamer.py' 2025-12-18T15:53:04,295 adding 'pmx/summary.py' 2025-12-18T15:53:04,296 adding 'pmx/utils.py' 2025-12-18T15:53:04,298 adding 'pmx/xdrfile.py' 2025-12-18T15:53:04,299 adding 'pmx/xtc.py' 2025-12-18T15:53:04,324 adding 'pmx/data/aminoacids.pkl' 2025-12-18T15:53:06,129 adding 'pmx/data/bbdep.pkl' 2025-12-18T15:53:06,237 adding 'pmx/data/blosum62_new.mat' 2025-12-18T15:53:06,251 adding 'pmx/data/bp.pkl' 2025-12-18T15:53:06,271 adding 'pmx/data/bp_amber.pkl' 2025-12-18T15:53:06,290 adding 'pmx/data/bp_charmm.pkl' 2025-12-18T15:53:06,299 adding 'pmx/data/rna.pkl' 2025-12-18T15:53:06,301 adding 'pmx/data/mutff/atommass.dat' 2025-12-18T15:53:06,302 adding 'pmx/data/mutff/elements.dat' 2025-12-18T15:53:06,303 adding 'pmx/data/mutff/residuetypes.dat' 2025-12-18T15:53:06,309 adding 'pmx/data/mutff/spc216.gro' 2025-12-18T15:53:06,310 adding 'pmx/data/mutff/specbond.dat' 2025-12-18T15:53:06,310 adding 'pmx/data/mutff/vdwradii.dat' 2025-12-18T15:53:06,311 adding 'pmx/data/mutff/xlateat.dat' 2025-12-18T15:53:06,312 adding 'pmx/data/mutff/amber14sbmut.ff/Makefile.am' 2025-12-18T15:53:06,313 adding 'pmx/data/mutff/amber14sbmut.ff/Makefile.in' 2025-12-18T15:53:06,315 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.arn' 2025-12-18T15:53:06,315 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.c.tdb' 2025-12-18T15:53:06,316 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb' 2025-12-18T15:53:06,317 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.n.tdb' 2025-12-18T15:53:06,317 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b' 2025-12-18T15:53:06,324 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp' 2025-12-18T15:53:06,325 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd' 2025-12-18T15:53:06,326 adding 'pmx/data/mutff/amber14sbmut.ff/atomtypes.atp' 2025-12-18T15:53:06,327 adding 'pmx/data/mutff/amber14sbmut.ff/dna.arn' 2025-12-18T15:53:06,327 adding 'pmx/data/mutff/amber14sbmut.ff/dna.hdb' 2025-12-18T15:53:06,328 adding 'pmx/data/mutff/amber14sbmut.ff/dna.r2b' 2025-12-18T15:53:06,330 adding 'pmx/data/mutff/amber14sbmut.ff/dna.rtp' 2025-12-18T15:53:06,336 adding 'pmx/data/mutff/amber14sbmut.ff/ffbonded.itp' 2025-12-18T15:53:06,338 adding 'pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp' 2025-12-18T15:53:06,338 adding 'pmx/data/mutff/amber14sbmut.ff/forcefield.doc' 2025-12-18T15:53:06,339 adding 'pmx/data/mutff/amber14sbmut.ff/forcefield.itp' 2025-12-18T15:53:06,340 adding 'pmx/data/mutff/amber14sbmut.ff/gbsa.itp' 2025-12-18T15:53:06,340 adding 'pmx/data/mutff/amber14sbmut.ff/ions.itp' 2025-12-18T15:53:06,517 adding 'pmx/data/mutff/amber14sbmut.ff/mutres.mtp' 2025-12-18T15:53:06,601 adding 'pmx/data/mutff/amber14sbmut.ff/mutres.rtp' 2025-12-18T15:53:06,609 adding 'pmx/data/mutff/amber14sbmut.ff/rna.arn' 2025-12-18T15:53:06,610 adding 'pmx/data/mutff/amber14sbmut.ff/rna.hdb' 2025-12-18T15:53:06,611 adding 'pmx/data/mutff/amber14sbmut.ff/rna.r2b' 2025-12-18T15:53:06,613 adding 'pmx/data/mutff/amber14sbmut.ff/rna.rtp' 2025-12-18T15:53:06,614 adding 'pmx/data/mutff/amber14sbmut.ff/spc.itp' 2025-12-18T15:53:06,614 adding 'pmx/data/mutff/amber14sbmut.ff/spce.itp' 2025-12-18T15:53:06,615 adding 'pmx/data/mutff/amber14sbmut.ff/tip3p.itp' 2025-12-18T15:53:06,616 adding 'pmx/data/mutff/amber14sbmut.ff/tip4p.itp' 2025-12-18T15:53:06,616 adding 'pmx/data/mutff/amber14sbmut.ff/tip4pew.itp' 2025-12-18T15:53:06,617 adding 'pmx/data/mutff/amber14sbmut.ff/tip5p.itp' 2025-12-18T15:53:06,618 adding 'pmx/data/mutff/amber14sbmut.ff/urea.itp' 2025-12-18T15:53:06,618 adding 'pmx/data/mutff/amber14sbmut.ff/watermodels.dat' 2025-12-18T15:53:06,621 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn' 2025-12-18T15:53:06,621 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn_backup' 2025-12-18T15:53:06,622 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.c.tdb' 2025-12-18T15:53:06,623 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.hdb' 2025-12-18T15:53:06,624 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.n.tdb' 2025-12-18T15:53:06,624 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.r2b' 2025-12-18T15:53:06,632 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.rtp' 2025-12-18T15:53:06,634 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.vsd' 2025-12-18T15:53:06,635 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/atomtypes.atp' 2025-12-18T15:53:06,638 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_ffbonded_for_ildn_test.itp' 2025-12-18T15:53:06,698 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_mutres' 2025-12-18T15:53:06,709 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/correct_ffbonded.itp' 2025-12-18T15:53:06,710 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.arn' 2025-12-18T15:53:06,711 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.hdb' 2025-12-18T15:53:06,711 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.r2b' 2025-12-18T15:53:06,713 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.rtp' 2025-12-18T15:53:06,715 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffberger.itp' 2025-12-18T15:53:06,719 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffbonded.itp' 2025-12-18T15:53:06,720 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffnonbonded.itp' 2025-12-18T15:53:06,721 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.doc' 2025-12-18T15:53:06,722 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.itp' 2025-12-18T15:53:06,722 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/gbsa.itp' 2025-12-18T15:53:06,723 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ions.itp' 2025-12-18T15:53:06,741 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.mtp' 2025-12-18T15:53:06,750 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.rtp' 2025-12-18T15:53:06,753 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer.itp' 2025-12-18T15:53:06,755 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer_posre.itp' 2025-12-18T15:53:06,755 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.arn' 2025-12-18T15:53:06,756 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.hdb' 2025-12-18T15:53:06,757 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.r2b' 2025-12-18T15:53:06,759 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.rtp' 2025-12-18T15:53:06,759 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spc.itp' 2025-12-18T15:53:06,760 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spce.itp' 2025-12-18T15:53:06,761 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip3p.itp' 2025-12-18T15:53:06,762 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4p.itp' 2025-12-18T15:53:06,762 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4pew.itp' 2025-12-18T15:53:06,763 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip5p.itp' 2025-12-18T15:53:06,764 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/urea.itp' 2025-12-18T15:53:06,764 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/watermodels.dat' 2025-12-18T15:53:06,765 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.arn' 2025-12-18T15:53:06,766 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.c.tdb' 2025-12-18T15:53:06,766 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.hdb' 2025-12-18T15:53:06,767 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.n.tdb' 2025-12-18T15:53:06,768 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.r2b' 2025-12-18T15:53:06,776 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.rtp' 2025-12-18T15:53:06,777 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.vsd' 2025-12-18T15:53:06,778 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/atomtypes.atp' 2025-12-18T15:53:06,781 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_ffbonded_for_ildn_test.itp' 2025-12-18T15:53:06,842 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_mutres' 2025-12-18T15:53:06,853 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/correct_ffbonded.itp' 2025-12-18T15:53:06,854 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.arn' 2025-12-18T15:53:06,854 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.hdb' 2025-12-18T15:53:06,855 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.r2b' 2025-12-18T15:53:06,857 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.rtp' 2025-12-18T15:53:06,858 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffberger.itp' 2025-12-18T15:53:06,862 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffbonded.itp' 2025-12-18T15:53:06,863 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffnonbonded.itp' 2025-12-18T15:53:06,864 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.doc' 2025-12-18T15:53:06,864 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.itp' 2025-12-18T15:53:06,865 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/gbsa.itp' 2025-12-18T15:53:06,866 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ions.itp' 2025-12-18T15:53:06,883 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.mtp' 2025-12-18T15:53:06,892 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.rtp' 2025-12-18T15:53:06,894 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer.itp' 2025-12-18T15:53:06,897 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer_posre.itp' 2025-12-18T15:53:06,897 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.arn' 2025-12-18T15:53:06,898 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.hdb' 2025-12-18T15:53:06,898 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.r2b' 2025-12-18T15:53:06,900 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.rtp' 2025-12-18T15:53:06,901 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spc.itp' 2025-12-18T15:53:06,902 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spce.itp' 2025-12-18T15:53:06,903 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip3p.itp' 2025-12-18T15:53:06,903 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4p.itp' 2025-12-18T15:53:06,904 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4pew.itp' 2025-12-18T15:53:06,905 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip5p.itp' 2025-12-18T15:53:06,905 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/urea.itp' 2025-12-18T15:53:06,906 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/watermodels.dat' 2025-12-18T15:53:06,907 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.arn' 2025-12-18T15:53:06,908 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.c.tdb' 2025-12-18T15:53:06,909 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.hdb' 2025-12-18T15:53:06,910 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.n.tdb' 2025-12-18T15:53:06,910 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.r2b' 2025-12-18T15:53:06,918 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.rtp' 2025-12-18T15:53:06,920 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.vsd' 2025-12-18T15:53:06,921 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/atomtypes.atp' 2025-12-18T15:53:06,921 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.arn' 2025-12-18T15:53:06,922 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.hdb' 2025-12-18T15:53:06,923 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.r2b' 2025-12-18T15:53:06,925 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.rtp' 2025-12-18T15:53:06,928 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffbonded.itp' 2025-12-18T15:53:06,929 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffnonbonded.itp' 2025-12-18T15:53:06,930 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.doc' 2025-12-18T15:53:06,931 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.itp' 2025-12-18T15:53:06,931 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/gbsa.itp' 2025-12-18T15:53:06,932 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/ions.itp' 2025-12-18T15:53:07,116 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.mtp' 2025-12-18T15:53:07,207 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.rtp' 2025-12-18T15:53:07,216 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.arn' 2025-12-18T15:53:07,216 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.hdb' 2025-12-18T15:53:07,217 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.r2b' 2025-12-18T15:53:07,219 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.rtp' 2025-12-18T15:53:07,220 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/spc.itp' 2025-12-18T15:53:07,221 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/spce.itp' 2025-12-18T15:53:07,221 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip3p.itp' 2025-12-18T15:53:07,222 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4p.itp' 2025-12-18T15:53:07,223 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4pew.itp' 2025-12-18T15:53:07,223 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip5p.itp' 2025-12-18T15:53:07,224 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/urea.itp' 2025-12-18T15:53:07,224 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/watermodels.dat' 2025-12-18T15:53:07,225 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.arn' 2025-12-18T15:53:07,226 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.c.tdb' 2025-12-18T15:53:07,227 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.hdb' 2025-12-18T15:53:07,228 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.n.tdb' 2025-12-18T15:53:07,228 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.r2b' 2025-12-18T15:53:07,231 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.rtp' 2025-12-18T15:53:07,233 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.vsd' 2025-12-18T15:53:07,234 adding 'pmx/data/mutff/charmm22star-mut.ff/atomtypes.atp' 2025-12-18T15:53:07,238 adding 'pmx/data/mutff/charmm22star-mut.ff/cmap.itp' 2025-12-18T15:53:07,239 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.arn' 2025-12-18T15:53:07,240 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.c.tdb' 2025-12-18T15:53:07,240 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.hdb' 2025-12-18T15:53:07,241 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.n.tdb' 2025-12-18T15:53:07,242 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.rtp' 2025-12-18T15:53:07,249 adding 'pmx/data/mutff/charmm22star-mut.ff/ffbonded.itp' 2025-12-18T15:53:07,256 adding 'pmx/data/mutff/charmm22star-mut.ff/ffnabonded.itp' 2025-12-18T15:53:07,260 adding 'pmx/data/mutff/charmm22star-mut.ff/ffnanonbonded.itp' 2025-12-18T15:53:07,272 adding 'pmx/data/mutff/charmm22star-mut.ff/ffnonbonded.itp' 2025-12-18T15:53:07,273 adding 'pmx/data/mutff/charmm22star-mut.ff/forcefield.doc' 2025-12-18T15:53:07,274 adding 'pmx/data/mutff/charmm22star-mut.ff/forcefield.itp' 2025-12-18T15:53:07,275 adding 'pmx/data/mutff/charmm22star-mut.ff/gb.itp' 2025-12-18T15:53:07,275 adding 'pmx/data/mutff/charmm22star-mut.ff/ions.itp' 2025-12-18T15:53:07,276 adding 'pmx/data/mutff/charmm22star-mut.ff/lipids.hdb' 2025-12-18T15:53:07,279 adding 'pmx/data/mutff/charmm22star-mut.ff/lipids.rtp' 2025-12-18T15:53:07,280 adding 'pmx/data/mutff/charmm22star-mut.ff/mutres.arn' 2025-12-18T15:53:07,429 adding 'pmx/data/mutff/charmm22star-mut.ff/mutres.mtp' 2025-12-18T15:53:07,504 adding 'pmx/data/mutff/charmm22star-mut.ff/mutres.rtp' 2025-12-18T15:53:07,512 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.arn' 2025-12-18T15:53:07,513 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.c.tdb' 2025-12-18T15:53:07,513 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.hdb' 2025-12-18T15:53:07,514 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.n.tdb' 2025-12-18T15:53:07,514 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.r2b' 2025-12-18T15:53:07,516 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.rtp' 2025-12-18T15:53:07,516 adding 'pmx/data/mutff/charmm22star-mut.ff/spc.itp' 2025-12-18T15:53:07,517 adding 'pmx/data/mutff/charmm22star-mut.ff/spce.itp' 2025-12-18T15:53:07,518 adding 'pmx/data/mutff/charmm22star-mut.ff/tip3p.itp' 2025-12-18T15:53:07,518 adding 'pmx/data/mutff/charmm22star-mut.ff/tip4p.itp' 2025-12-18T15:53:07,519 adding 'pmx/data/mutff/charmm22star-mut.ff/tip4pew.itp' 2025-12-18T15:53:07,520 adding 'pmx/data/mutff/charmm22star-mut.ff/tip5p.itp' 2025-12-18T15:53:07,520 adding 'pmx/data/mutff/charmm22star-mut.ff/tips3p.itp' 2025-12-18T15:53:07,521 adding 'pmx/data/mutff/charmm22star-mut.ff/watermodels.dat' 2025-12-18T15:53:07,524 adding 'pmx/data/mutff/charmm36m-mut.ff/atomtypes.atp' 2025-12-18T15:53:07,536 adding 'pmx/data/mutff/charmm36m-mut.ff/cmap.itp' 2025-12-18T15:53:07,618 adding 'pmx/data/mutff/charmm36m-mut.ff/ffbonded.itp' 2025-12-18T15:53:07,745 adding 'pmx/data/mutff/charmm36m-mut.ff/ffnonbonded.itp' 2025-12-18T15:53:07,757 adding 'pmx/data/mutff/charmm36m-mut.ff/forcefield.doc' 2025-12-18T15:53:07,758 adding 'pmx/data/mutff/charmm36m-mut.ff/forcefield.itp' 2025-12-18T15:53:07,758 adding 'pmx/data/mutff/charmm36m-mut.ff/gb.itp' 2025-12-18T15:53:07,759 adding 'pmx/data/mutff/charmm36m-mut.ff/ions.itp' 2025-12-18T15:53:07,760 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.arn' 2025-12-18T15:53:07,760 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.c.tdb' 2025-12-18T15:53:07,761 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.hdb' 2025-12-18T15:53:07,762 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.n.tdb' 2025-12-18T15:53:07,763 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.r2b' 2025-12-18T15:53:07,898 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.rtp' 2025-12-18T15:53:07,907 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.vsd' 2025-12-18T15:53:07,907 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres.arn' 2025-12-18T15:53:08,070 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres.mtp' 2025-12-18T15:53:08,152 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres.rtp' 2025-12-18T15:53:08,176 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres_dna.mtp' 2025-12-18T15:53:08,185 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres_dna.rtp' 2025-12-18T15:53:08,187 adding 'pmx/data/mutff/charmm36m-mut.ff/nbfix.itp' 2025-12-18T15:53:08,187 adding 'pmx/data/mutff/charmm36m-mut.ff/spc.itp' 2025-12-18T15:53:08,188 adding 'pmx/data/mutff/charmm36m-mut.ff/spce.itp' 2025-12-18T15:53:08,188 adding 'pmx/data/mutff/charmm36m-mut.ff/tip3p.itp' 2025-12-18T15:53:08,189 adding 'pmx/data/mutff/charmm36m-mut.ff/tip4p.itp' 2025-12-18T15:53:08,190 adding 'pmx/data/mutff/charmm36m-mut.ff/watermodels.dat' 2025-12-18T15:53:08,191 adding 'pmx/extensions/pmx/Energy.c' 2025-12-18T15:53:08,193 adding 'pmx/extensions/pmx/Geometry.c' 2025-12-18T15:53:08,195 adding 'pmx/extensions/pmx/Geometry.h' 2025-12-18T15:53:08,196 adding 'pmx/extensions/pmx/cpp_test.cpp' 2025-12-18T15:53:08,197 adding 'pmx/extensions/pmx/init.c' 2025-12-18T15:53:08,198 adding 'pmx/extensions/pmx/pmx.h' 2025-12-18T15:53:08,200 adding 'pmx/extensions/pmx/wrap_Geometry.c' 2025-12-18T15:53:08,201 adding 'pmx/extensions/xdr/trr2xtc.c' 2025-12-18T15:53:08,207 adding 'pmx/extensions/xdr/xdrfile.c' 2025-12-18T15:53:08,210 adding 'pmx/extensions/xdr/xdrfile.h' 2025-12-18T15:53:08,211 adding 'pmx/extensions/xdr/xdrfile_c_test.c' 2025-12-18T15:53:08,213 adding 'pmx/extensions/xdr/xdrfile_trr.c' 2025-12-18T15:53:08,214 adding 'pmx/extensions/xdr/xdrfile_trr.h' 2025-12-18T15:53:08,214 adding 'pmx/extensions/xdr/xdrfile_xtc.c' 2025-12-18T15:53:08,215 adding 'pmx/extensions/xdr/xdrfile_xtc.h' 2025-12-18T15:53:08,216 adding 'pmx/rosetta_example/README' 2025-12-18T15:53:08,216 adding 'pmx/rosetta_example/analyze.py' 2025-12-18T15:53:08,217 adding 'pmx/rosetta_example/mut.dat' 2025-12-18T15:53:08,246 adding 'pmx/rosetta_example/plot_results.ipynb' 2025-12-18T15:53:08,338 adding 'pmx/rosetta_example/prot_zn.pdb' 2025-12-18T15:53:08,343 adding 'pmx/rosetta_example/rosetta_prepare.ipynb' 2025-12-18T15:53:08,343 adding 'pmx/rosetta_example/submit_jobscripts.py' 2025-12-18T15:53:08,344 adding 'pmx/scripts/__init__.py' 2025-12-18T15:53:08,347 adding 'pmx/scripts/analyze_dhdl.py' 2025-12-18T15:53:08,349 adding 'pmx/scripts/atomMapping.py' 2025-12-18T15:53:08,350 adding 'pmx/scripts/build_cyclic_top.py' 2025-12-18T15:53:08,351 adding 'pmx/scripts/cli.py' 2025-12-18T15:53:08,353 adding 'pmx/scripts/fill_cgenff_itp.py' 2025-12-18T15:53:08,355 adding 'pmx/scripts/fix_residue_names.py' 2025-12-18T15:53:08,356 adding 'pmx/scripts/gen_abs_restraints.py' 2025-12-18T15:53:08,362 adding 'pmx/scripts/generate_hybrid_residue.py' 2025-12-18T15:53:08,364 adding 'pmx/scripts/generate_hybrid_topology.py' 2025-12-18T15:53:08,365 adding 'pmx/scripts/hydrogen_atom_renaming.py' 2025-12-18T15:53:08,367 adding 'pmx/scripts/ligandHybrid.py' 2025-12-18T15:53:08,367 adding 'pmx/scripts/make_double_box.py' 2025-12-18T15:53:08,369 adding 'pmx/scripts/md_setup.py' 2025-12-18T15:53:08,372 adding 'pmx/scripts/mutate.py' 2025-12-18T15:53:08,376 adding 'pmx/scripts/parameterize_ligands.py' 2025-12-18T15:53:08,377 adding 'pmx/scripts/prepare_crooks_runs.py' 2025-12-18T15:53:08,378 adding 'pmx/scripts/repartition_mass.py' 2025-12-18T15:53:08,379 adding 'pmx/scripts/set_gmxlib.py' 2025-12-18T15:53:08,380 adding 'pmx/scripts/setup_abfe.py' 2025-12-18T15:53:08,381 adding 'pmx/scripts/icolos_entrypoints/__init__.py' 2025-12-18T15:53:08,382 adding 'pmx/scripts/icolos_entrypoints/assemble_systems.py' 2025-12-18T15:53:08,384 adding 'pmx_biobb-5.2.1.dist-info/licenses/LICENSE' 2025-12-18T15:53:08,385 adding 'pmx_biobb-5.2.1.dist-info/METADATA' 2025-12-18T15:53:08,385 adding 'pmx_biobb-5.2.1.dist-info/WHEEL' 2025-12-18T15:53:08,386 adding 'pmx_biobb-5.2.1.dist-info/entry_points.txt' 2025-12-18T15:53:08,386 adding 'pmx_biobb-5.2.1.dist-info/top_level.txt' 2025-12-18T15:53:08,391 adding 'pmx_biobb-5.2.1.dist-info/RECORD' 2025-12-18T15:53:08,394 removing build/bdist.linux-armv7l/wheel 2025-12-18T15:53:08,583 Building wheel for pmx-biobb (setup.py): finished with status 'done' 2025-12-18T15:53:08,643 Created wheel for pmx-biobb: filename=pmx_biobb-5.2.1-cp313-cp313-linux_armv7l.whl size=5729321 sha256=90a801512df6c5c518f5664ee26983ceb1f4991b01ac289edff33dbdc5b3911d 2025-12-18T15:53:08,644 Stored in directory: /tmp/pip-ephem-wheel-cache-8er_uwve/wheels/64/f4/c4/bb03efd1a9e57afa87615ff79e04251e13ef39867e1be60325 2025-12-18T15:53:08,659 Successfully built pmx-biobb 2025-12-18T15:53:08,672 Removed build tracker: '/tmp/pip-build-tracker-04290ft3'