2025-12-18T14:49:26,163 Created temporary directory: /tmp/pip-ephem-wheel-cache-u2zayn3n 2025-12-18T14:49:26,164 Created temporary directory: /tmp/pip-build-tracker-559iudoo 2025-12-18T14:49:26,165 Initialized build tracking at /tmp/pip-build-tracker-559iudoo 2025-12-18T14:49:26,166 Created build tracker: /tmp/pip-build-tracker-559iudoo 2025-12-18T14:49:26,166 Entered build tracker: /tmp/pip-build-tracker-559iudoo 2025-12-18T14:49:26,167 Created temporary directory: /tmp/pip-wheel-x1ud0ma8 2025-12-18T14:49:26,170 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2025-12-18T14:49:26,172 Created temporary directory: /tmp/pip-ephem-wheel-cache-vt1uyy3d 2025-12-18T14:49:26,196 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-12-18T14:49:26,200 2 location(s) to search for versions of pmx-biobb: 2025-12-18T14:49:26,200 * https://pypi.org/simple/pmx-biobb/ 2025-12-18T14:49:26,200 * https://www.piwheels.org/simple/pmx-biobb/ 2025-12-18T14:49:26,201 Fetching project page and analyzing links: https://pypi.org/simple/pmx-biobb/ 2025-12-18T14:49:26,202 Getting page https://pypi.org/simple/pmx-biobb/ 2025-12-18T14:49:26,203 Found index url https://pypi.org/simple 2025-12-18T14:49:26,417 Fetched page https://pypi.org/simple/pmx-biobb/ as application/vnd.pypi.simple.v1+json 2025-12-18T14:49:26,422 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.*) 2025-12-18T14:49:26,423 Link requires a different Python (3.11.2 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.*) 2025-12-18T14:49:26,424 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.*) 2025-12-18T14:49:26,425 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.*) 2025-12-18T14:49:26,425 Link requires a different Python (3.11.2 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.*) 2025-12-18T14:49:26,426 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.*) 2025-12-18T14:49:26,427 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) 2025-12-18T14:49:26,427 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 2025-12-18T14:49:26,428 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) 2025-12-18T14:49:26,429 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) 2025-12-18T14:49:26,430 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 2025-12-18T14:49:26,430 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) 2025-12-18T14:49:26,431 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 2025-12-18T14:49:26,432 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) 2025-12-18T14:49:26,433 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 2025-12-18T14:49:26,433 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) 2025-12-18T14:49:26,434 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 2025-12-18T14:49:26,435 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) 2025-12-18T14:49:26,436 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 2025-12-18T14:49:26,436 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) 2025-12-18T14:49:26,437 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 2025-12-18T14:49:26,438 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) 2025-12-18T14:49:26,439 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 2025-12-18T14:49:26,440 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) 2025-12-18T14:49:26,440 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 2025-12-18T14:49:26,441 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 2025-12-18T14:49:26,442 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 2025-12-18T14:49:26,443 Fetching project page and analyzing links: https://www.piwheels.org/simple/pmx-biobb/ 2025-12-18T14:49:26,444 Getting page https://www.piwheels.org/simple/pmx-biobb/ 2025-12-18T14:49:26,445 Found index url https://www.piwheels.org/simple 2025-12-18T14:49:26,601 Fetched page https://www.piwheels.org/simple/pmx-biobb/ as text/html 2025-12-18T14:49:26,616 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) 2025-12-18T14:49:26,616 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) 2025-12-18T14:49:26,617 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) 2025-12-18T14:49:26,618 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) 2025-12-18T14:49:26,618 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) 2025-12-18T14:49:26,619 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) 2025-12-18T14:49:26,619 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) 2025-12-18T14:49:26,620 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) 2025-12-18T14:49:26,620 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) 2025-12-18T14:49:26,621 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) 2025-12-18T14:49:26,622 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) 2025-12-18T14:49:26,622 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) 2025-12-18T14:49:26,623 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) 2025-12-18T14:49:26,623 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) 2025-12-18T14:49:26,624 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) 2025-12-18T14:49:26,624 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) 2025-12-18T14:49:26,625 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) 2025-12-18T14:49:26,625 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) 2025-12-18T14:49:26,626 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) 2025-12-18T14:49:26,626 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) 2025-12-18T14:49:26,627 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) 2025-12-18T14:49:26,627 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.1-cp311-cp311-linux_armv7l.whl#sha256=b0398fae5229f8915a467bfa70ecf4855a9df4be5b25b6846c503634fd819011 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T14:49:26,628 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.0-cp37-cp37m-linux_armv6l.whl#sha256=a27ba6f102f456ee697a94e3336dc27b59746723f1054ffdd4229bc85b007dd1 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T14:49:26,629 Skipping link: No binaries permitted for pmx-biobb: https://archive1.piwheels.org/simple/pmx-biobb/pmx_biobb-4.0.0-cp37-cp37m-linux_armv7l.whl#sha256=a27ba6f102f456ee697a94e3336dc27b59746723f1054ffdd4229bc85b007dd1 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2025-12-18T14:49:26,630 Skipping link: No binaries permitted for pmx-biobb: 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) 2025-12-18T14:49:26,631 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) 2025-12-18T14:49:26,631 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) 2025-12-18T14:49:26,632 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) 2025-12-18T14:49:26,633 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) 2025-12-18T14:49:26,633 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) 2025-12-18T14:49:26,634 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) 2025-12-18T14:49:26,635 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) 2025-12-18T14:49:26,635 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) 2025-12-18T14:49:26,636 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) 2025-12-18T14:49:26,636 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) 2025-12-18T14:49:26,637 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) 2025-12-18T14:49:26,638 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) 2025-12-18T14:49:26,639 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) 2025-12-18T14:49:26,640 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) 2025-12-18T14:49:26,641 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) 2025-12-18T14:49:26,641 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) 2025-12-18T14:49:26,641 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) 2025-12-18T14:49:26,642 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) 2025-12-18T14:49:26,643 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) 2025-12-18T14:49:26,643 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) 2025-12-18T14:49:26,644 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) 2025-12-18T14:49:26,644 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) 2025-12-18T14:49:26,645 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) 2025-12-18T14:49:26,645 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.*) 2025-12-18T14:49:26,646 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.*) 2025-12-18T14:49:26,647 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.*) 2025-12-18T14:49:26,647 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.*) 2025-12-18T14:49:26,648 Skipping link: not a file: https://www.piwheels.org/simple/pmx-biobb/ 2025-12-18T14:49:26,648 Skipping link: not a file: https://pypi.org/simple/pmx-biobb/ 2025-12-18T14:49:26,668 Given no hashes to check 1 links for project 'pmx-biobb': discarding no candidates 2025-12-18T14:49:26,686 Collecting pmx-biobb==5.2.1 2025-12-18T14:49:26,689 Created temporary directory: /tmp/pip-unpack-6wb5vph3 2025-12-18T14:49:26,905 Downloading pmx_biobb-5.2.1.tar.gz (5.2 MB) 2025-12-18T14:49:30,325 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-559iudoo' 2025-12-18T14:49:30,327 Running setup.py (path:/tmp/pip-wheel-x1ud0ma8/pmx-biobb_9fba41d1311846d2ba0080b56a64e256/setup.py) egg_info for package pmx-biobb 2025-12-18T14:49:30,328 Created temporary directory: /tmp/pip-pip-egg-info-61l9_k_n 2025-12-18T14:49:30,329 Preparing metadata (setup.py): started 2025-12-18T14:49:30,330 Running command python setup.py egg_info 2025-12-18T14:49:30,958 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'tests_require' 2025-12-18T14:49:30,958 warnings.warn(msg) 2025-12-18T14:49:31,291 running egg_info 2025-12-18T14:49:31,319 creating /tmp/pip-pip-egg-info-61l9_k_n/pmx_biobb.egg-info 2025-12-18T14:49:31,320 writing /tmp/pip-pip-egg-info-61l9_k_n/pmx_biobb.egg-info/PKG-INFO 2025-12-18T14:49:31,324 writing dependency_links to /tmp/pip-pip-egg-info-61l9_k_n/pmx_biobb.egg-info/dependency_links.txt 2025-12-18T14:49:31,326 writing entry points to /tmp/pip-pip-egg-info-61l9_k_n/pmx_biobb.egg-info/entry_points.txt 2025-12-18T14:49:31,328 writing requirements to /tmp/pip-pip-egg-info-61l9_k_n/pmx_biobb.egg-info/requires.txt 2025-12-18T14:49:31,329 writing top-level names to /tmp/pip-pip-egg-info-61l9_k_n/pmx_biobb.egg-info/top_level.txt 2025-12-18T14:49:31,331 writing manifest file '/tmp/pip-pip-egg-info-61l9_k_n/pmx_biobb.egg-info/SOURCES.txt' 2025-12-18T14:49:31,418 reading manifest file '/tmp/pip-pip-egg-info-61l9_k_n/pmx_biobb.egg-info/SOURCES.txt' 2025-12-18T14:49:31,420 reading manifest template 'MANIFEST.in' 2025-12-18T14:49:31,675 adding license file 'LICENSE' 2025-12-18T14:49:31,688 writing manifest file '/tmp/pip-pip-egg-info-61l9_k_n/pmx_biobb.egg-info/SOURCES.txt' 2025-12-18T14:49:31,797 Preparing metadata (setup.py): finished with status 'done' 2025-12-18T14:49:31,801 Source in /tmp/pip-wheel-x1ud0ma8/pmx-biobb_9fba41d1311846d2ba0080b56a64e256 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 2025-12-18T14:49:31,802 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-559iudoo' 2025-12-18T14:49:31,808 Created temporary directory: /tmp/pip-unpack-_yv0a7ql 2025-12-18T14:49:31,808 Building wheels for collected packages: pmx-biobb 2025-12-18T14:49:31,813 Created temporary directory: /tmp/pip-wheel-qlvhk178 2025-12-18T14:49:31,813 Building wheel for pmx-biobb (setup.py): started 2025-12-18T14:49:31,814 Destination directory: /tmp/pip-wheel-qlvhk178 2025-12-18T14:49:31,815 Running command python setup.py bdist_wheel 2025-12-18T14:49:32,369 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'tests_require' 2025-12-18T14:49:32,369 warnings.warn(msg) 2025-12-18T14:49:32,664 running bdist_wheel 2025-12-18T14:49:32,799 running build 2025-12-18T14:49:32,800 running build_py 2025-12-18T14:49:32,804 creating build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,806 copying src/pmx/utils.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,809 copying src/pmx/mutdb.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,811 copying src/pmx/jobscript.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,813 copying src/pmx/forcefield.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,817 copying src/pmx/_version.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,819 copying src/pmx/rosetta.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,822 copying src/pmx/analysis.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,824 copying src/pmx/library.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,828 copying src/pmx/model.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,831 copying src/pmx/geometry.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,834 copying src/pmx/xdrfile.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,836 copying src/pmx/summary.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,839 copying src/pmx/ffparser.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,842 copying src/pmx/ligand_alchemy.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,846 copying src/pmx/options.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,849 copying src/pmx/parser.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,851 copying src/pmx/__init__.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,853 copying src/pmx/alchemy.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,858 copying src/pmx/gmx.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,860 copying src/pmx/AbsRestraints.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,863 copying src/pmx/ndx.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,866 copying src/pmx/resselection.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,868 copying src/pmx/rosetta_analyze.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,871 copying src/pmx/rotamer.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,873 copying src/pmx/molecule.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,876 copying src/pmx/chain.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,880 copying src/pmx/estimators.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,883 copying src/pmx/atomselection.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,886 copying src/pmx/builder.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,889 copying src/pmx/atom.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,891 copying src/pmx/xtc.py -> build/lib.linux-armv7l-cpython-311/pmx 2025-12-18T14:49:32,893 running egg_info 2025-12-18T14:49:32,920 writing src/pmx_biobb.egg-info/PKG-INFO 2025-12-18T14:49:32,923 writing dependency_links to src/pmx_biobb.egg-info/dependency_links.txt 2025-12-18T14:49:32,925 writing entry points to src/pmx_biobb.egg-info/entry_points.txt 2025-12-18T14:49:32,926 writing requirements to src/pmx_biobb.egg-info/requires.txt 2025-12-18T14:49:32,927 writing top-level names to src/pmx_biobb.egg-info/top_level.txt 2025-12-18T14:49:32,961 reading manifest file 'src/pmx_biobb.egg-info/SOURCES.txt' 2025-12-18T14:49:32,979 reading manifest template 'MANIFEST.in' 2025-12-18T14:49:32,995 adding license file 'LICENSE' 2025-12-18T14:49:33,011 writing manifest file 'src/pmx_biobb.egg-info/SOURCES.txt' 2025-12-18T14:49:33,014 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.data' is absent from the `packages` configuration. 2025-12-18T14:49:33,015 !! 2025-12-18T14:49:33,016 ******************************************************************************** 2025-12-18T14:49:33,016 ############################ 2025-12-18T14:49:33,017 # Package would be ignored # 2025-12-18T14:49:33,017 ############################ 2025-12-18T14:49:33,017 Python recognizes 'pmx.data' as an importable package[^1], 2025-12-18T14:49:33,018 but it is absent from setuptools' `packages` configuration. 2025-12-18T14:49:33,019 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T14:49:33,019 package, please make sure that 'pmx.data' is explicitly added 2025-12-18T14:49:33,019 to the `packages` configuration field. 2025-12-18T14:49:33,020 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T14:49:33,021 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T14:49:33,021 instead of `find_packages(...)`/`find:`). 2025-12-18T14:49:33,022 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T14:49:33,023 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T14:49:33,024 If you don't want 'pmx.data' to be distributed and are 2025-12-18T14:49:33,025 already explicitly excluding 'pmx.data' via 2025-12-18T14:49:33,025 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T14:49:33,026 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T14:49:33,026 combination with a more fine grained `package-data` configuration. 2025-12-18T14:49:33,027 You can read more about "package data files" on setuptools documentation page: 2025-12-18T14:49:33,028 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T14:49:33,030 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T14:49:33,030 even if it does not contain any `.py` files. 2025-12-18T14:49:33,031 On the other hand, currently there is no concept of package data 2025-12-18T14:49:33,031 directory, all directories are treated like packages. 2025-12-18T14:49:33,032 ******************************************************************************** 2025-12-18T14:49:33,033 !! 2025-12-18T14:49:33,033 check.warn(importable) 2025-12-18T14:49:33,034 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.data.mutff' is absent from the `packages` configuration. 2025-12-18T14:49:33,034 !! 2025-12-18T14:49:33,036 ******************************************************************************** 2025-12-18T14:49:33,036 ############################ 2025-12-18T14:49:33,037 # Package would be ignored # 2025-12-18T14:49:33,037 ############################ 2025-12-18T14:49:33,038 Python recognizes 'pmx.data.mutff' as an importable package[^1], 2025-12-18T14:49:33,038 but it is absent from setuptools' `packages` configuration. 2025-12-18T14:49:33,040 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T14:49:33,040 package, please make sure that 'pmx.data.mutff' is explicitly added 2025-12-18T14:49:33,040 to the `packages` configuration field. 2025-12-18T14:49:33,041 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T14:49:33,042 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T14:49:33,042 instead of `find_packages(...)`/`find:`). 2025-12-18T14:49:33,043 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T14:49:33,043 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T14:49:33,044 If you don't want 'pmx.data.mutff' to be distributed and are 2025-12-18T14:49:33,045 already explicitly excluding 'pmx.data.mutff' via 2025-12-18T14:49:33,045 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T14:49:33,045 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T14:49:33,046 combination with a more fine grained `package-data` configuration. 2025-12-18T14:49:33,047 You can read more about "package data files" on setuptools documentation page: 2025-12-18T14:49:33,047 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T14:49:33,049 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T14:49:33,049 even if it does not contain any `.py` files. 2025-12-18T14:49:33,050 On the other hand, currently there is no concept of package data 2025-12-18T14:49:33,050 directory, all directories are treated like packages. 2025-12-18T14:49:33,051 ******************************************************************************** 2025-12-18T14:49:33,052 !! 2025-12-18T14:49:33,052 check.warn(importable) 2025-12-18T14:49:33,053 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.extensions.pmx' is absent from the `packages` configuration. 2025-12-18T14:49:33,053 !! 2025-12-18T14:49:33,054 ******************************************************************************** 2025-12-18T14:49:33,055 ############################ 2025-12-18T14:49:33,055 # Package would be ignored # 2025-12-18T14:49:33,057 ############################ 2025-12-18T14:49:33,058 Python recognizes 'pmx.extensions.pmx' as an importable package[^1], 2025-12-18T14:49:33,059 but it is absent from setuptools' `packages` configuration. 2025-12-18T14:49:33,060 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T14:49:33,060 package, please make sure that 'pmx.extensions.pmx' is explicitly added 2025-12-18T14:49:33,061 to the `packages` configuration field. 2025-12-18T14:49:33,062 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T14:49:33,062 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T14:49:33,063 instead of `find_packages(...)`/`find:`). 2025-12-18T14:49:33,064 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T14:49:33,065 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T14:49:33,066 If you don't want 'pmx.extensions.pmx' to be distributed and are 2025-12-18T14:49:33,067 already explicitly excluding 'pmx.extensions.pmx' via 2025-12-18T14:49:33,067 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T14:49:33,068 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T14:49:33,069 combination with a more fine grained `package-data` configuration. 2025-12-18T14:49:33,070 You can read more about "package data files" on setuptools documentation page: 2025-12-18T14:49:33,071 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T14:49:33,072 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T14:49:33,073 even if it does not contain any `.py` files. 2025-12-18T14:49:33,073 On the other hand, currently there is no concept of package data 2025-12-18T14:49:33,073 directory, all directories are treated like packages. 2025-12-18T14:49:33,074 ******************************************************************************** 2025-12-18T14:49:33,075 !! 2025-12-18T14:49:33,075 check.warn(importable) 2025-12-18T14:49:33,076 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.extensions.xdr' is absent from the `packages` configuration. 2025-12-18T14:49:33,076 !! 2025-12-18T14:49:33,077 ******************************************************************************** 2025-12-18T14:49:33,078 ############################ 2025-12-18T14:49:33,078 # Package would be ignored # 2025-12-18T14:49:33,079 ############################ 2025-12-18T14:49:33,079 Python recognizes 'pmx.extensions.xdr' as an importable package[^1], 2025-12-18T14:49:33,079 but it is absent from setuptools' `packages` configuration. 2025-12-18T14:49:33,080 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T14:49:33,081 package, please make sure that 'pmx.extensions.xdr' is explicitly added 2025-12-18T14:49:33,081 to the `packages` configuration field. 2025-12-18T14:49:33,082 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T14:49:33,083 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T14:49:33,083 instead of `find_packages(...)`/`find:`). 2025-12-18T14:49:33,084 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T14:49:33,085 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T14:49:33,086 If you don't want 'pmx.extensions.xdr' to be distributed and are 2025-12-18T14:49:33,087 already explicitly excluding 'pmx.extensions.xdr' via 2025-12-18T14:49:33,087 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T14:49:33,088 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T14:49:33,088 combination with a more fine grained `package-data` configuration. 2025-12-18T14:49:33,089 You can read more about "package data files" on setuptools documentation page: 2025-12-18T14:49:33,091 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T14:49:33,092 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T14:49:33,093 even if it does not contain any `.py` files. 2025-12-18T14:49:33,093 On the other hand, currently there is no concept of package data 2025-12-18T14:49:33,094 directory, all directories are treated like packages. 2025-12-18T14:49:33,094 ******************************************************************************** 2025-12-18T14:49:33,095 !! 2025-12-18T14:49:33,096 check.warn(importable) 2025-12-18T14:49:33,096 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.rosetta_example' is absent from the `packages` configuration. 2025-12-18T14:49:33,097 !! 2025-12-18T14:49:33,098 ******************************************************************************** 2025-12-18T14:49:33,099 ############################ 2025-12-18T14:49:33,099 # Package would be ignored # 2025-12-18T14:49:33,100 ############################ 2025-12-18T14:49:33,100 Python recognizes 'pmx.rosetta_example' as an importable package[^1], 2025-12-18T14:49:33,101 but it is absent from setuptools' `packages` configuration. 2025-12-18T14:49:33,102 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T14:49:33,102 package, please make sure that 'pmx.rosetta_example' is explicitly added 2025-12-18T14:49:33,103 to the `packages` configuration field. 2025-12-18T14:49:33,103 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T14:49:33,104 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T14:49:33,104 instead of `find_packages(...)`/`find:`). 2025-12-18T14:49:33,105 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T14:49:33,106 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T14:49:33,107 If you don't want 'pmx.rosetta_example' to be distributed and are 2025-12-18T14:49:33,108 already explicitly excluding 'pmx.rosetta_example' via 2025-12-18T14:49:33,108 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T14:49:33,109 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T14:49:33,109 combination with a more fine grained `package-data` configuration. 2025-12-18T14:49:33,110 You can read more about "package data files" on setuptools documentation page: 2025-12-18T14:49:33,111 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T14:49:33,113 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T14:49:33,114 even if it does not contain any `.py` files. 2025-12-18T14:49:33,114 On the other hand, currently there is no concept of package data 2025-12-18T14:49:33,115 directory, all directories are treated like packages. 2025-12-18T14:49:33,115 ******************************************************************************** 2025-12-18T14:49:33,116 !! 2025-12-18T14:49:33,117 check.warn(importable) 2025-12-18T14:49:33,117 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.scripts' is absent from the `packages` configuration. 2025-12-18T14:49:33,118 !! 2025-12-18T14:49:33,119 ******************************************************************************** 2025-12-18T14:49:33,120 ############################ 2025-12-18T14:49:33,120 # Package would be ignored # 2025-12-18T14:49:33,121 ############################ 2025-12-18T14:49:33,121 Python recognizes 'pmx.scripts' as an importable package[^1], 2025-12-18T14:49:33,122 but it is absent from setuptools' `packages` configuration. 2025-12-18T14:49:33,123 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T14:49:33,123 package, please make sure that 'pmx.scripts' is explicitly added 2025-12-18T14:49:33,124 to the `packages` configuration field. 2025-12-18T14:49:33,125 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T14:49:33,126 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T14:49:33,126 instead of `find_packages(...)`/`find:`). 2025-12-18T14:49:33,127 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T14:49:33,129 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T14:49:33,130 If you don't want 'pmx.scripts' to be distributed and are 2025-12-18T14:49:33,130 already explicitly excluding 'pmx.scripts' via 2025-12-18T14:49:33,131 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T14:49:33,132 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T14:49:33,132 combination with a more fine grained `package-data` configuration. 2025-12-18T14:49:33,133 You can read more about "package data files" on setuptools documentation page: 2025-12-18T14:49:33,134 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T14:49:33,135 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T14:49:33,136 even if it does not contain any `.py` files. 2025-12-18T14:49:33,136 On the other hand, currently there is no concept of package data 2025-12-18T14:49:33,136 directory, all directories are treated like packages. 2025-12-18T14:49:33,137 ******************************************************************************** 2025-12-18T14:49:33,138 !! 2025-12-18T14:49:33,138 check.warn(importable) 2025-12-18T14:49:33,139 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pmx.scripts.icolos_entrypoints' is absent from the `packages` configuration. 2025-12-18T14:49:33,139 !! 2025-12-18T14:49:33,140 ******************************************************************************** 2025-12-18T14:49:33,141 ############################ 2025-12-18T14:49:33,141 # Package would be ignored # 2025-12-18T14:49:33,142 ############################ 2025-12-18T14:49:33,142 Python recognizes 'pmx.scripts.icolos_entrypoints' as an importable package[^1], 2025-12-18T14:49:33,143 but it is absent from setuptools' `packages` configuration. 2025-12-18T14:49:33,144 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-18T14:49:33,144 package, please make sure that 'pmx.scripts.icolos_entrypoints' is explicitly added 2025-12-18T14:49:33,145 to the `packages` configuration field. 2025-12-18T14:49:33,146 Alternatively, you can also rely on setuptools' discovery methods 2025-12-18T14:49:33,146 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-18T14:49:33,147 instead of `find_packages(...)`/`find:`). 2025-12-18T14:49:33,148 You can read more about "package discovery" on setuptools documentation page: 2025-12-18T14:49:33,149 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-18T14:49:33,150 If you don't want 'pmx.scripts.icolos_entrypoints' to be distributed and are 2025-12-18T14:49:33,151 already explicitly excluding 'pmx.scripts.icolos_entrypoints' via 2025-12-18T14:49:33,151 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-18T14:49:33,152 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-18T14:49:33,152 combination with a more fine grained `package-data` configuration. 2025-12-18T14:49:33,153 You can read more about "package data files" on setuptools documentation page: 2025-12-18T14:49:33,155 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-18T14:49:33,156 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-18T14:49:33,157 even if it does not contain any `.py` files. 2025-12-18T14:49:33,157 On the other hand, currently there is no concept of package data 2025-12-18T14:49:33,158 directory, all directories are treated like packages. 2025-12-18T14:49:33,159 ******************************************************************************** 2025-12-18T14:49:33,160 !! 2025-12-18T14:49:33,161 check.warn(importable) 2025-12-18T14:49:33,161 creating build/lib.linux-armv7l-cpython-311/pmx/data 2025-12-18T14:49:33,162 copying src/pmx/data/aminoacids.pkl -> build/lib.linux-armv7l-cpython-311/pmx/data 2025-12-18T14:49:33,162 copying src/pmx/data/bbdep.pkl -> build/lib.linux-armv7l-cpython-311/pmx/data 2025-12-18T14:49:33,342 copying src/pmx/data/blosum62_new.mat -> build/lib.linux-armv7l-cpython-311/pmx/data 2025-12-18T14:49:33,345 copying src/pmx/data/bp.pkl -> build/lib.linux-armv7l-cpython-311/pmx/data 2025-12-18T14:49:33,350 copying src/pmx/data/bp_amber.pkl -> build/lib.linux-armv7l-cpython-311/pmx/data 2025-12-18T14:49:33,355 copying src/pmx/data/bp_charmm.pkl -> build/lib.linux-armv7l-cpython-311/pmx/data 2025-12-18T14:49:33,360 copying src/pmx/data/rna.pkl -> build/lib.linux-armv7l-cpython-311/pmx/data 2025-12-18T14:49:33,364 creating build/lib.linux-armv7l-cpython-311/pmx/data/mutff 2025-12-18T14:49:33,365 copying src/pmx/data/mutff/atommass.dat -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff 2025-12-18T14:49:33,368 copying src/pmx/data/mutff/elements.dat -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff 2025-12-18T14:49:33,370 copying src/pmx/data/mutff/residuetypes.dat -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff 2025-12-18T14:49:33,373 copying src/pmx/data/mutff/spc216.gro -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff 2025-12-18T14:49:33,376 copying src/pmx/data/mutff/specbond.dat -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff 2025-12-18T14:49:33,378 copying src/pmx/data/mutff/vdwradii.dat -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff 2025-12-18T14:49:33,380 copying src/pmx/data/mutff/xlateat.dat -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff 2025-12-18T14:49:33,382 creating build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,383 copying src/pmx/data/mutff/amber14sbmut.ff/Makefile.am -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,386 copying src/pmx/data/mutff/amber14sbmut.ff/Makefile.in -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,388 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,391 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,393 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,396 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,398 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,400 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,404 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,407 copying src/pmx/data/mutff/amber14sbmut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,410 copying src/pmx/data/mutff/amber14sbmut.ff/dna.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,412 copying src/pmx/data/mutff/amber14sbmut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,414 copying src/pmx/data/mutff/amber14sbmut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,417 copying src/pmx/data/mutff/amber14sbmut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,420 copying src/pmx/data/mutff/amber14sbmut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,424 copying src/pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,427 copying src/pmx/data/mutff/amber14sbmut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,429 copying src/pmx/data/mutff/amber14sbmut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,431 copying src/pmx/data/mutff/amber14sbmut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,433 copying src/pmx/data/mutff/amber14sbmut.ff/ions.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,435 copying src/pmx/data/mutff/amber14sbmut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,489 copying src/pmx/data/mutff/amber14sbmut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,510 copying src/pmx/data/mutff/amber14sbmut.ff/rna.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,512 copying src/pmx/data/mutff/amber14sbmut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,515 copying src/pmx/data/mutff/amber14sbmut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,517 copying src/pmx/data/mutff/amber14sbmut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,520 copying src/pmx/data/mutff/amber14sbmut.ff/spc.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,522 copying src/pmx/data/mutff/amber14sbmut.ff/spce.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,524 copying src/pmx/data/mutff/amber14sbmut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,527 copying src/pmx/data/mutff/amber14sbmut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,529 copying src/pmx/data/mutff/amber14sbmut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,531 copying src/pmx/data/mutff/amber14sbmut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,533 copying src/pmx/data/mutff/amber14sbmut.ff/urea.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,536 copying src/pmx/data/mutff/amber14sbmut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:33,538 creating build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,539 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,542 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn_backup -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,544 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,547 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,550 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,552 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,554 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,559 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,562 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,565 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_ffbonded_for_ildn_test.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,568 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_mutres -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,593 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/correct_ffbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,596 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,598 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,601 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,603 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,606 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffberger.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,609 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,612 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,615 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,617 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,619 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,622 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,624 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,631 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,636 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,639 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer_posre.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,642 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,644 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,646 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,648 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,651 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,654 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,656 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,658 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,660 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,663 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,665 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/urea.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,667 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:33,669 creating build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,670 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,673 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,675 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,678 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,680 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,683 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,686 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,689 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,692 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_ffbonded_for_ildn_test.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,695 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_mutres -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,714 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/correct_ffbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,718 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,720 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,723 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,725 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,728 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffberger.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,730 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,734 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,736 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,738 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,740 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,743 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,745 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,754 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,759 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,762 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer_posre.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,765 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,767 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,769 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,771 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,774 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,776 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,778 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,781 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,783 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,785 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,787 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/urea.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,789 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:33,791 creating build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,792 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,795 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,796 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,799 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,801 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,803 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,807 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,810 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,812 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,814 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,816 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,819 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,822 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,825 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,827 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,829 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,831 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,833 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,836 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,888 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,911 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,913 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,915 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,917 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,920 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,923 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,925 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,927 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,929 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,932 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,934 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/urea.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,936 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:33,938 creating build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,939 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,942 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,944 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,947 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,950 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,952 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,955 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,958 copying src/pmx/data/mutff/charmm22star-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,961 copying src/pmx/data/mutff/charmm22star-mut.ff/cmap.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,964 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,966 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.c.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,969 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,971 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.n.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,973 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,976 copying src/pmx/data/mutff/charmm22star-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,981 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnabonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,984 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnanonbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,987 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,993 copying src/pmx/data/mutff/charmm22star-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,995 copying src/pmx/data/mutff/charmm22star-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:33,998 copying src/pmx/data/mutff/charmm22star-mut.ff/gb.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,000 copying src/pmx/data/mutff/charmm22star-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,002 copying src/pmx/data/mutff/charmm22star-mut.ff/lipids.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,004 copying src/pmx/data/mutff/charmm22star-mut.ff/lipids.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,007 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,010 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,146 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,187 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,189 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.c.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,192 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,194 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.n.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,197 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,199 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,202 copying src/pmx/data/mutff/charmm22star-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,204 copying src/pmx/data/mutff/charmm22star-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,206 copying src/pmx/data/mutff/charmm22star-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,209 copying src/pmx/data/mutff/charmm22star-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,211 copying src/pmx/data/mutff/charmm22star-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,214 copying src/pmx/data/mutff/charmm22star-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,216 copying src/pmx/data/mutff/charmm22star-mut.ff/tips3p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,218 copying src/pmx/data/mutff/charmm22star-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:34,221 creating build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,223 copying src/pmx/data/mutff/charmm36m-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,227 copying src/pmx/data/mutff/charmm36m-mut.ff/cmap.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,233 copying src/pmx/data/mutff/charmm36m-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,266 copying src/pmx/data/mutff/charmm36m-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,327 copying src/pmx/data/mutff/charmm36m-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,330 copying src/pmx/data/mutff/charmm36m-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,332 copying src/pmx/data/mutff/charmm36m-mut.ff/gb.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,334 copying src/pmx/data/mutff/charmm36m-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,336 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,338 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.c.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,341 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.hdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,343 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.n.tdb -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,345 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.r2b -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,347 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,373 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.vsd -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,376 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.arn -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,378 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,433 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,455 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,465 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,469 copying src/pmx/data/mutff/charmm36m-mut.ff/nbfix.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,472 copying src/pmx/data/mutff/charmm36m-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,474 copying src/pmx/data/mutff/charmm36m-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,476 copying src/pmx/data/mutff/charmm36m-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,478 copying src/pmx/data/mutff/charmm36m-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,481 copying src/pmx/data/mutff/charmm36m-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:34,482 creating build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx 2025-12-18T14:49:34,484 copying src/pmx/extensions/pmx/Energy.c -> build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx 2025-12-18T14:49:34,487 copying src/pmx/extensions/pmx/Geometry.c -> build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx 2025-12-18T14:49:34,489 copying src/pmx/extensions/pmx/Geometry.h -> build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx 2025-12-18T14:49:34,493 copying src/pmx/extensions/pmx/cpp_test.cpp -> build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx 2025-12-18T14:49:34,495 copying src/pmx/extensions/pmx/init.c -> build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx 2025-12-18T14:49:34,498 copying src/pmx/extensions/pmx/pmx.h -> build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx 2025-12-18T14:49:34,500 copying src/pmx/extensions/pmx/wrap_Geometry.c -> build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx 2025-12-18T14:49:34,503 creating build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr 2025-12-18T14:49:34,504 copying src/pmx/extensions/xdr/trr2xtc.c -> build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr 2025-12-18T14:49:34,507 copying src/pmx/extensions/xdr/xdrfile.c -> build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr 2025-12-18T14:49:34,511 copying src/pmx/extensions/xdr/xdrfile.h -> build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr 2025-12-18T14:49:34,514 copying src/pmx/extensions/xdr/xdrfile_c_test.c -> build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr 2025-12-18T14:49:34,517 copying src/pmx/extensions/xdr/xdrfile_trr.c -> build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr 2025-12-18T14:49:34,519 copying src/pmx/extensions/xdr/xdrfile_trr.h -> build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr 2025-12-18T14:49:34,522 copying src/pmx/extensions/xdr/xdrfile_xtc.c -> build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr 2025-12-18T14:49:34,524 copying src/pmx/extensions/xdr/xdrfile_xtc.h -> build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr 2025-12-18T14:49:34,526 creating build/lib.linux-armv7l-cpython-311/pmx/rosetta_example 2025-12-18T14:49:34,527 copying src/pmx/rosetta_example/README -> build/lib.linux-armv7l-cpython-311/pmx/rosetta_example 2025-12-18T14:49:34,529 copying src/pmx/rosetta_example/analyze.py -> build/lib.linux-armv7l-cpython-311/pmx/rosetta_example 2025-12-18T14:49:34,531 copying src/pmx/rosetta_example/mut.dat -> build/lib.linux-armv7l-cpython-311/pmx/rosetta_example 2025-12-18T14:49:34,533 copying src/pmx/rosetta_example/plot_results.ipynb -> build/lib.linux-armv7l-cpython-311/pmx/rosetta_example 2025-12-18T14:49:34,539 copying src/pmx/rosetta_example/prot_zn.pdb -> build/lib.linux-armv7l-cpython-311/pmx/rosetta_example 2025-12-18T14:49:34,553 copying src/pmx/rosetta_example/rosetta_prepare.ipynb -> build/lib.linux-armv7l-cpython-311/pmx/rosetta_example 2025-12-18T14:49:34,556 copying src/pmx/rosetta_example/submit_jobscripts.py -> build/lib.linux-armv7l-cpython-311/pmx/rosetta_example 2025-12-18T14:49:34,558 creating build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,559 copying src/pmx/scripts/__init__.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,560 copying src/pmx/scripts/analyze_dhdl.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,563 copying src/pmx/scripts/atomMapping.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,566 copying src/pmx/scripts/build_cyclic_top.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,569 copying src/pmx/scripts/cli.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,571 copying src/pmx/scripts/fill_cgenff_itp.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,574 copying src/pmx/scripts/fix_residue_names.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,577 copying src/pmx/scripts/gen_abs_restraints.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,579 copying src/pmx/scripts/generate_hybrid_residue.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,583 copying src/pmx/scripts/generate_hybrid_topology.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,585 copying src/pmx/scripts/hydrogen_atom_renaming.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,588 copying src/pmx/scripts/ligandHybrid.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,590 copying src/pmx/scripts/make_double_box.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,593 copying src/pmx/scripts/md_setup.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,596 copying src/pmx/scripts/mutate.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,598 copying src/pmx/scripts/parameterize_ligands.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,602 copying src/pmx/scripts/prepare_crooks_runs.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,604 copying src/pmx/scripts/repartition_mass.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,606 copying src/pmx/scripts/set_gmxlib.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,608 copying src/pmx/scripts/setup_abfe.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts 2025-12-18T14:49:34,611 creating build/lib.linux-armv7l-cpython-311/pmx/scripts/icolos_entrypoints 2025-12-18T14:49:34,612 copying src/pmx/scripts/icolos_entrypoints/__init__.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts/icolos_entrypoints 2025-12-18T14:49:34,614 copying src/pmx/scripts/icolos_entrypoints/assemble_systems.py -> build/lib.linux-armv7l-cpython-311/pmx/scripts/icolos_entrypoints 2025-12-18T14:49:34,618 UPDATING build/lib.linux-armv7l-cpython-311/pmx/_version.py 2025-12-18T14:49:34,619 set build/lib.linux-armv7l-cpython-311/pmx/_version.py to '5.2.1' 2025-12-18T14:49:34,620 running build_ext 2025-12-18T14:49:35,169 building 'pmx._pmx' extension 2025-12-18T14:49:35,170 creating build/temp.linux-armv7l-cpython-311/src/pmx/extensions/pmx 2025-12-18T14:49:35,173 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.11 -c src/pmx/extensions/pmx/Energy.c -o build/temp.linux-armv7l-cpython-311/src/pmx/extensions/pmx/Energy.o 2025-12-18T14:49:36,270 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.11 -c src/pmx/extensions/pmx/Geometry.c -o build/temp.linux-armv7l-cpython-311/src/pmx/extensions/pmx/Geometry.o 2025-12-18T14:49:36,665 src/pmx/extensions/pmx/Geometry.c: In function ‘spread_atoms_on_grid’: 2025-12-18T14:49:36,665 src/pmx/extensions/pmx/Geometry.c:527:15: warning: variable ‘nz’ set but not used [-Wunused-but-set-variable] 2025-12-18T14:49:36,666 527 | int nx, ny, nz; 2025-12-18T14:49:36,667 | ^~ 2025-12-18T14:49:36,667 src/pmx/extensions/pmx/Geometry.c: In function ‘search_neighbors’: 2025-12-18T14:49:36,668 src/pmx/extensions/pmx/Geometry.c:586:15: warning: variable ‘nz’ set but not used [-Wunused-but-set-variable] 2025-12-18T14:49:36,669 586 | int nx, ny, nz; 2025-12-18T14:49:36,671 | ^~ 2025-12-18T14:49:38,544 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.11 -c src/pmx/extensions/pmx/init.c -o build/temp.linux-armv7l-cpython-311/src/pmx/extensions/pmx/init.o 2025-12-18T14:49:38,946 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.11 -c src/pmx/extensions/pmx/wrap_Geometry.c -o build/temp.linux-armv7l-cpython-311/src/pmx/extensions/pmx/wrap_Geometry.o 2025-12-18T14:49:40,520 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/src/pmx/extensions/pmx/Energy.o build/temp.linux-armv7l-cpython-311/src/pmx/extensions/pmx/Geometry.o build/temp.linux-armv7l-cpython-311/src/pmx/extensions/pmx/init.o build/temp.linux-armv7l-cpython-311/src/pmx/extensions/pmx/wrap_Geometry.o -L/usr/lib/arm-linux-gnueabihf -lm -o build/lib.linux-armv7l-cpython-311/pmx/_pmx.cpython-311-arm-linux-gnueabihf.so 2025-12-18T14:49:40,645 building 'pmx._xdrio' extension 2025-12-18T14:49:40,645 creating build/temp.linux-armv7l-cpython-311/src/pmx/extensions/xdr 2025-12-18T14:49:40,646 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pmx/extensions/xdr -I/usr/include/python3.11 -c src/pmx/extensions/xdr/xdrfile.c -o build/temp.linux-armv7l-cpython-311/src/pmx/extensions/xdr/xdrfile.o 2025-12-18T14:49:40,688 src/pmx/extensions/xdr/xdrfile.c:5:2: warning: "/*" within comment [-Wcomment] 2025-12-18T14:49:40,689 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2025-12-18T14:49:40,689 | 2025-12-18T14:49:40,782 In file included from src/pmx/extensions/xdr/xdrfile.c:60: 2025-12-18T14:49:40,782 src/pmx/extensions/xdr/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2025-12-18T14:49:40,783 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2025-12-18T14:49:40,783 | 2025-12-18T14:49:40,792 src/pmx/extensions/xdr/xdrfile.c: In function ‘sizeofint’: 2025-12-18T14:49:40,792 src/pmx/extensions/xdr/xdrfile.c:499:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-12-18T14:49:40,793 499 | while (size >= num && num_of_bits < 32) 2025-12-18T14:49:40,794 | ^~ 2025-12-18T14:49:40,794 src/pmx/extensions/xdr/xdrfile.c: In function ‘sizeofints’: 2025-12-18T14:49:40,795 src/pmx/extensions/xdr/xdrfile.c:545:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T14:49:40,796 545 | while (bytes[num_of_bytes] >= num) 2025-12-18T14:49:40,796 | ^~ 2025-12-18T14:49:40,798 src/pmx/extensions/xdr/xdrfile.c: In function ‘encodeints’: 2025-12-18T14:49:40,799 src/pmx/extensions/xdr/xdrfile.c:654:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-12-18T14:49:40,799 654 | if (num_of_bits >= num_of_bytes * 8) 2025-12-18T14:49:40,800 | ^~ 2025-12-18T14:49:40,800 src/pmx/extensions/xdr/xdrfile.c:656:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-12-18T14:49:40,801 656 | for (i = 0; i < num_of_bytes; i++) 2025-12-18T14:49:40,802 | ^ 2025-12-18T14:49:40,802 src/pmx/extensions/xdr/xdrfile.c:664:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-12-18T14:49:40,803 664 | for (i = 0; i < num_of_bytes-1; i++) 2025-12-18T14:49:40,803 | ^ 2025-12-18T14:49:40,804 src/pmx/extensions/xdr/xdrfile.c: In function ‘decodebits’: 2025-12-18T14:49:40,805 src/pmx/extensions/xdr/xdrfile.c:704:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T14:49:40,805 704 | if (lastbits < num_of_bits) 2025-12-18T14:49:40,806 | ^ 2025-12-18T14:49:40,808 src/pmx/extensions/xdr/xdrfile.c: In function ‘xdrfile_decompress_coord_float’: 2025-12-18T14:49:40,809 src/pmx/extensions/xdr/xdrfile.c:814:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T14:49:40,810 814 | if(size3>xfp->buf1size) 2025-12-18T14:49:40,811 | ^ 2025-12-18T14:49:40,813 src/pmx/extensions/xdr/xdrfile.c:866:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T14:49:40,813 866 | maxidx = (LASTIDXxfp->buf1size) 2025-12-18T14:49:40,825 | ^ 2025-12-18T14:49:40,831 src/pmx/extensions/xdr/xdrfile.c:1133:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-12-18T14:49:40,831 1133 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2025-12-18T14:49:40,832 | ^ 2025-12-18T14:49:40,833 src/pmx/extensions/xdr/xdrfile.c:1139:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T14:49:40,834 1139 | maxidx = (LASTIDXxfp->buf1size) 2025-12-18T14:49:40,847 | ^ 2025-12-18T14:49:40,850 src/pmx/extensions/xdr/xdrfile.c:1366:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T14:49:40,851 1366 | maxidx = (LASTIDXxfp->buf1size) { 2025-12-18T14:49:40,865 | ^ 2025-12-18T14:49:40,873 src/pmx/extensions/xdr/xdrfile.c:1617:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-12-18T14:49:40,873 1617 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2025-12-18T14:49:40,874 | ^ 2025-12-18T14:49:40,875 src/pmx/extensions/xdr/xdrfile.c:1622:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-12-18T14:49:40,876 1622 | maxidx = (LASTIDX build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:44,606 copying build/lib.linux-armv7l-cpython-311/pmx/mutdb.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:44,609 copying build/lib.linux-armv7l-cpython-311/pmx/jobscript.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:44,611 creating build/bdist.linux-armv7l/wheel/pmx/data 2025-12-18T14:49:44,612 copying build/lib.linux-armv7l-cpython-311/pmx/data/aminoacids.pkl -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T14:49:44,619 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff 2025-12-18T14:49:44,621 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,623 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/dna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,625 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,628 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/tip5p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,630 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/dna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,632 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,690 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/gbsa.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,692 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,695 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,697 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,698 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,701 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/urea.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,703 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/aminoacids.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,704 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/dna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,707 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,710 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/Makefile.in -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,712 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,714 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,717 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/Makefile.am -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,719 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/rna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,721 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/dna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,723 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,724 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,726 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/rna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,729 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,731 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,751 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/aminoacids.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,753 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/rna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,755 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,757 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/aminoacids.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,758 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/rna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,761 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,764 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,766 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,768 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber14sbmut.ff/tip4pew.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber14sbmut.ff 2025-12-18T14:49:44,770 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/spc216.gro -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T14:49:44,773 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,775 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,776 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.vsd -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,778 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip5p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,780 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,782 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,830 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/gbsa.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,832 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,834 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,836 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,838 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,841 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/urea.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,843 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,845 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,848 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,851 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,853 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,857 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,859 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,862 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,864 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,867 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,870 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,873 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,903 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,905 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,907 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,909 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,911 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,914 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,917 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,919 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,921 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4pew.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/amber99sb-star-ildn-mut.ff 2025-12-18T14:49:44,922 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/specbond.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T14:49:44,925 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2025-12-18T14:49:44,926 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,929 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,931 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,933 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,970 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,973 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,975 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,978 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,981 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,984 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,987 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,989 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,992 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,995 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:44,999 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,002 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,004 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,010 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,012 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,015 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,018 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,020 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,023 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,026 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,029 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,032 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,035 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,038 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,040 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,042 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,044 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,054 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,057 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,060 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,064 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,066 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,068 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,071 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,074 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,081 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/elements.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T14:49:45,084 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/xlateat.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T14:49:45,087 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,088 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/merged.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,092 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/merged.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,094 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,156 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/mutres.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,158 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,161 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,163 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,165 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/gb.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,166 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/merged.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,168 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/merged.vsd -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,170 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,195 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/merged.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,213 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,216 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/cmap.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,219 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,221 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/merged.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,223 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/nbfix.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,225 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,227 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,252 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,254 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/merged.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,256 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.mtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,263 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,283 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,285 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,286 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm36m-mut.ff 2025-12-18T14:49:45,291 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/residuetypes.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T14:49:45,294 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/atommass.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T14:49:45,297 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2025-12-18T14:49:45,298 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,301 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,304 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,305 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,338 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,340 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,343 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,345 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,347 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,349 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,351 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,353 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,355 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,358 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,361 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,363 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,365 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,370 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,372 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,375 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,377 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,380 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,382 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,384 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,387 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,389 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,391 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,393 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,395 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,397 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,405 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,408 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,410 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,414 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,415 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,417 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,419 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,422 copying build/lib.linux-armv7l-cpython-311/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 2025-12-18T14:49:45,428 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,429 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/dna.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,431 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/dna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,433 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/aminoacids.vsd -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,435 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/tip5p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,437 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/ffnanonbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,470 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,514 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/mutres.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,515 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,518 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,520 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,522 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/gb.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,523 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/ffnabonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,527 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/aminoacids.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,529 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/aminoacids.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,531 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/rna.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,533 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/dna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,536 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,540 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,542 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/aminoacids.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,545 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/tips3p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,547 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/rna.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,549 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/lipids.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,553 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/dna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,555 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/aminoacids.r2b -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,557 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/cmap.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,560 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/rna.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,562 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,564 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/rna.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,566 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,568 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,588 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/aminoacids.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,590 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/rna.arn -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,592 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,594 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/dna.n.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,596 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/lipids.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,597 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/aminoacids.c.tdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,599 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/rna.hdb -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,601 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,605 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,606 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,608 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/charmm22star-mut.ff/tip4pew.itp -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff/charmm22star-mut.ff 2025-12-18T14:49:45,611 copying build/lib.linux-armv7l-cpython-311/pmx/data/mutff/vdwradii.dat -> build/bdist.linux-armv7l/wheel/./pmx/data/mutff 2025-12-18T14:49:45,613 copying build/lib.linux-armv7l-cpython-311/pmx/data/bp_amber.pkl -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T14:49:45,617 copying build/lib.linux-armv7l-cpython-311/pmx/data/bp_charmm.pkl -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T14:49:45,623 copying build/lib.linux-armv7l-cpython-311/pmx/data/bp.pkl -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T14:49:45,628 copying build/lib.linux-armv7l-cpython-311/pmx/data/rna.pkl -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T14:49:45,631 copying build/lib.linux-armv7l-cpython-311/pmx/data/blosum62_new.mat -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T14:49:45,634 copying build/lib.linux-armv7l-cpython-311/pmx/data/bbdep.pkl -> build/bdist.linux-armv7l/wheel/./pmx/data 2025-12-18T14:49:45,889 copying build/lib.linux-armv7l-cpython-311/pmx/forcefield.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,893 copying build/lib.linux-armv7l-cpython-311/pmx/_version.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,895 copying build/lib.linux-armv7l-cpython-311/pmx/rosetta.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,897 copying build/lib.linux-armv7l-cpython-311/pmx/analysis.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,900 creating build/bdist.linux-armv7l/wheel/pmx/rosetta_example 2025-12-18T14:49:45,901 copying build/lib.linux-armv7l-cpython-311/pmx/rosetta_example/README -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T14:49:45,903 copying build/lib.linux-armv7l-cpython-311/pmx/rosetta_example/prot_zn.pdb -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T14:49:45,914 copying build/lib.linux-armv7l-cpython-311/pmx/rosetta_example/mut.dat -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T14:49:45,916 copying build/lib.linux-armv7l-cpython-311/pmx/rosetta_example/analyze.py -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T14:49:45,918 copying build/lib.linux-armv7l-cpython-311/pmx/rosetta_example/rosetta_prepare.ipynb -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T14:49:45,920 copying build/lib.linux-armv7l-cpython-311/pmx/rosetta_example/submit_jobscripts.py -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T14:49:45,922 copying build/lib.linux-armv7l-cpython-311/pmx/rosetta_example/plot_results.ipynb -> build/bdist.linux-armv7l/wheel/./pmx/rosetta_example 2025-12-18T14:49:45,927 copying build/lib.linux-armv7l-cpython-311/pmx/library.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,932 copying build/lib.linux-armv7l-cpython-311/pmx/model.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,935 copying build/lib.linux-armv7l-cpython-311/pmx/geometry.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,937 copying build/lib.linux-armv7l-cpython-311/pmx/xdrfile.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,940 copying build/lib.linux-armv7l-cpython-311/pmx/summary.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,942 copying build/lib.linux-armv7l-cpython-311/pmx/ffparser.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,945 copying build/lib.linux-armv7l-cpython-311/pmx/ligand_alchemy.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,949 copying build/lib.linux-armv7l-cpython-311/pmx/options.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,951 copying build/lib.linux-armv7l-cpython-311/pmx/parser.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:45,954 creating build/bdist.linux-armv7l/wheel/pmx/scripts 2025-12-18T14:49:45,955 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/parameterize_ligands.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,958 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/ligandHybrid.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,961 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/atomMapping.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,963 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/make_double_box.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,965 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/__init__.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,967 creating build/bdist.linux-armv7l/wheel/pmx/scripts/icolos_entrypoints 2025-12-18T14:49:45,969 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/icolos_entrypoints/__init__.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts/icolos_entrypoints 2025-12-18T14:49:45,970 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/icolos_entrypoints/assemble_systems.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts/icolos_entrypoints 2025-12-18T14:49:45,973 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/gen_abs_restraints.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,974 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/build_cyclic_top.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,977 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/hydrogen_atom_renaming.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,979 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/setup_abfe.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,981 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/prepare_crooks_runs.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,983 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/generate_hybrid_topology.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,986 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/fill_cgenff_itp.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,988 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/generate_hybrid_residue.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,991 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/md_setup.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,994 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/repartition_mass.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,996 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/set_gmxlib.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:45,997 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/mutate.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:46,000 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/analyze_dhdl.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:46,003 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/cli.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:46,005 copying build/lib.linux-armv7l-cpython-311/pmx/scripts/fix_residue_names.py -> build/bdist.linux-armv7l/wheel/./pmx/scripts 2025-12-18T14:49:46,007 copying build/lib.linux-armv7l-cpython-311/pmx/__init__.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,009 copying build/lib.linux-armv7l-cpython-311/pmx/_xdrio.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,013 copying build/lib.linux-armv7l-cpython-311/pmx/alchemy.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,016 copying build/lib.linux-armv7l-cpython-311/pmx/gmx.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,019 copying build/lib.linux-armv7l-cpython-311/pmx/AbsRestraints.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,021 copying build/lib.linux-armv7l-cpython-311/pmx/ndx.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,024 copying build/lib.linux-armv7l-cpython-311/pmx/resselection.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,026 copying build/lib.linux-armv7l-cpython-311/pmx/rosetta_analyze.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,029 copying build/lib.linux-armv7l-cpython-311/pmx/rotamer.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,031 copying build/lib.linux-armv7l-cpython-311/pmx/molecule.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,034 copying build/lib.linux-armv7l-cpython-311/pmx/_pmx.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,039 copying build/lib.linux-armv7l-cpython-311/pmx/chain.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,042 copying build/lib.linux-armv7l-cpython-311/pmx/estimators.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,045 copying build/lib.linux-armv7l-cpython-311/pmx/atomselection.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,048 creating build/bdist.linux-armv7l/wheel/pmx/extensions 2025-12-18T14:49:46,049 creating build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2025-12-18T14:49:46,050 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx/cpp_test.cpp -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T14:49:46,052 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx/init.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T14:49:46,054 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx/pmx.h -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T14:49:46,056 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx/Energy.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T14:49:46,058 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx/wrap_Geometry.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T14:49:46,061 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx/Geometry.h -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T14:49:46,064 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/pmx/Geometry.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/pmx 2025-12-18T14:49:46,066 creating build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2025-12-18T14:49:46,067 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr/xdrfile_c_test.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T14:49:46,070 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr/xdrfile_xtc.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T14:49:46,072 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr/xdrfile.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T14:49:46,075 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr/xdrfile_xtc.h -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T14:49:46,077 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr/xdrfile_trr.h -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T14:49:46,079 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr/xdrfile_trr.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T14:49:46,081 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr/trr2xtc.c -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T14:49:46,083 copying build/lib.linux-armv7l-cpython-311/pmx/extensions/xdr/xdrfile.h -> build/bdist.linux-armv7l/wheel/./pmx/extensions/xdr 2025-12-18T14:49:46,086 copying build/lib.linux-armv7l-cpython-311/pmx/builder.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,088 copying build/lib.linux-armv7l-cpython-311/pmx/atom.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,091 copying build/lib.linux-armv7l-cpython-311/pmx/xtc.py -> build/bdist.linux-armv7l/wheel/./pmx 2025-12-18T14:49:46,092 running install_egg_info 2025-12-18T14:49:46,125 Copying src/pmx_biobb.egg-info to build/bdist.linux-armv7l/wheel/./pmx_biobb-5.2.1-py3.11.egg-info 2025-12-18T14:49:46,139 running install_scripts 2025-12-18T14:49:46,192 creating build/bdist.linux-armv7l/wheel/pmx_biobb-5.2.1.dist-info/WHEEL 2025-12-18T14:49:46,194 creating '/tmp/pip-wheel-qlvhk178/pmx_biobb-5.2.1-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-12-18T14:49:46,199 adding 'pmx/AbsRestraints.py' 2025-12-18T14:49:46,201 adding 'pmx/__init__.py' 2025-12-18T14:49:46,235 adding 'pmx/_pmx.cpython-311-arm-linux-gnueabihf.so' 2025-12-18T14:49:46,237 adding 'pmx/_version.py' 2025-12-18T14:49:46,258 adding 'pmx/_xdrio.cpython-311-arm-linux-gnueabihf.so' 2025-12-18T14:49:46,266 adding 'pmx/alchemy.py' 2025-12-18T14:49:46,269 adding 'pmx/analysis.py' 2025-12-18T14:49:46,272 adding 'pmx/atom.py' 2025-12-18T14:49:46,274 adding 'pmx/atomselection.py' 2025-12-18T14:49:46,277 adding 'pmx/builder.py' 2025-12-18T14:49:46,280 adding 'pmx/chain.py' 2025-12-18T14:49:46,284 adding 'pmx/estimators.py' 2025-12-18T14:49:46,286 adding 'pmx/ffparser.py' 2025-12-18T14:49:46,295 adding 'pmx/forcefield.py' 2025-12-18T14:49:46,298 adding 'pmx/geometry.py' 2025-12-18T14:49:46,299 adding 'pmx/gmx.py' 2025-12-18T14:49:46,301 adding 'pmx/jobscript.py' 2025-12-18T14:49:46,309 adding 'pmx/library.py' 2025-12-18T14:49:46,322 adding 'pmx/ligand_alchemy.py' 2025-12-18T14:49:46,328 adding 'pmx/model.py' 2025-12-18T14:49:46,331 adding 'pmx/molecule.py' 2025-12-18T14:49:46,333 adding 'pmx/mutdb.py' 2025-12-18T14:49:46,335 adding 'pmx/ndx.py' 2025-12-18T14:49:46,337 adding 'pmx/options.py' 2025-12-18T14:49:46,339 adding 'pmx/parser.py' 2025-12-18T14:49:46,341 adding 'pmx/resselection.py' 2025-12-18T14:49:46,343 adding 'pmx/rosetta.py' 2025-12-18T14:49:46,346 adding 'pmx/rosetta_analyze.py' 2025-12-18T14:49:46,348 adding 'pmx/rotamer.py' 2025-12-18T14:49:46,350 adding 'pmx/summary.py' 2025-12-18T14:49:46,352 adding 'pmx/utils.py' 2025-12-18T14:49:46,354 adding 'pmx/xdrfile.py' 2025-12-18T14:49:46,355 adding 'pmx/xtc.py' 2025-12-18T14:49:46,381 adding 'pmx/data/aminoacids.pkl' 2025-12-18T14:49:48,181 adding 'pmx/data/bbdep.pkl' 2025-12-18T14:49:48,289 adding 'pmx/data/blosum62_new.mat' 2025-12-18T14:49:48,304 adding 'pmx/data/bp.pkl' 2025-12-18T14:49:48,323 adding 'pmx/data/bp_amber.pkl' 2025-12-18T14:49:48,344 adding 'pmx/data/bp_charmm.pkl' 2025-12-18T14:49:48,353 adding 'pmx/data/rna.pkl' 2025-12-18T14:49:48,355 adding 'pmx/data/mutff/atommass.dat' 2025-12-18T14:49:48,357 adding 'pmx/data/mutff/elements.dat' 2025-12-18T14:49:48,359 adding 'pmx/data/mutff/residuetypes.dat' 2025-12-18T14:49:48,365 adding 'pmx/data/mutff/spc216.gro' 2025-12-18T14:49:48,366 adding 'pmx/data/mutff/specbond.dat' 2025-12-18T14:49:48,367 adding 'pmx/data/mutff/vdwradii.dat' 2025-12-18T14:49:48,369 adding 'pmx/data/mutff/xlateat.dat' 2025-12-18T14:49:48,371 adding 'pmx/data/mutff/amber14sbmut.ff/Makefile.am' 2025-12-18T14:49:48,373 adding 'pmx/data/mutff/amber14sbmut.ff/Makefile.in' 2025-12-18T14:49:48,375 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.arn' 2025-12-18T14:49:48,376 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.c.tdb' 2025-12-18T14:49:48,378 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb' 2025-12-18T14:49:48,379 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.n.tdb' 2025-12-18T14:49:48,380 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b' 2025-12-18T14:49:48,387 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp' 2025-12-18T14:49:48,389 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd' 2025-12-18T14:49:48,390 adding 'pmx/data/mutff/amber14sbmut.ff/atomtypes.atp' 2025-12-18T14:49:48,392 adding 'pmx/data/mutff/amber14sbmut.ff/dna.arn' 2025-12-18T14:49:48,393 adding 'pmx/data/mutff/amber14sbmut.ff/dna.hdb' 2025-12-18T14:49:48,394 adding 'pmx/data/mutff/amber14sbmut.ff/dna.r2b' 2025-12-18T14:49:48,396 adding 'pmx/data/mutff/amber14sbmut.ff/dna.rtp' 2025-12-18T14:49:48,403 adding 'pmx/data/mutff/amber14sbmut.ff/ffbonded.itp' 2025-12-18T14:49:48,405 adding 'pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp' 2025-12-18T14:49:48,407 adding 'pmx/data/mutff/amber14sbmut.ff/forcefield.doc' 2025-12-18T14:49:48,408 adding 'pmx/data/mutff/amber14sbmut.ff/forcefield.itp' 2025-12-18T14:49:48,409 adding 'pmx/data/mutff/amber14sbmut.ff/gbsa.itp' 2025-12-18T14:49:48,411 adding 'pmx/data/mutff/amber14sbmut.ff/ions.itp' 2025-12-18T14:49:48,587 adding 'pmx/data/mutff/amber14sbmut.ff/mutres.mtp' 2025-12-18T14:49:48,671 adding 'pmx/data/mutff/amber14sbmut.ff/mutres.rtp' 2025-12-18T14:49:48,680 adding 'pmx/data/mutff/amber14sbmut.ff/rna.arn' 2025-12-18T14:49:48,681 adding 'pmx/data/mutff/amber14sbmut.ff/rna.hdb' 2025-12-18T14:49:48,682 adding 'pmx/data/mutff/amber14sbmut.ff/rna.r2b' 2025-12-18T14:49:48,685 adding 'pmx/data/mutff/amber14sbmut.ff/rna.rtp' 2025-12-18T14:49:48,686 adding 'pmx/data/mutff/amber14sbmut.ff/spc.itp' 2025-12-18T14:49:48,688 adding 'pmx/data/mutff/amber14sbmut.ff/spce.itp' 2025-12-18T14:49:48,689 adding 'pmx/data/mutff/amber14sbmut.ff/tip3p.itp' 2025-12-18T14:49:48,690 adding 'pmx/data/mutff/amber14sbmut.ff/tip4p.itp' 2025-12-18T14:49:48,691 adding 'pmx/data/mutff/amber14sbmut.ff/tip4pew.itp' 2025-12-18T14:49:48,693 adding 'pmx/data/mutff/amber14sbmut.ff/tip5p.itp' 2025-12-18T14:49:48,694 adding 'pmx/data/mutff/amber14sbmut.ff/urea.itp' 2025-12-18T14:49:48,695 adding 'pmx/data/mutff/amber14sbmut.ff/watermodels.dat' 2025-12-18T14:49:48,699 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn' 2025-12-18T14:49:48,701 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn_backup' 2025-12-18T14:49:48,702 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.c.tdb' 2025-12-18T14:49:48,703 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.hdb' 2025-12-18T14:49:48,704 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.n.tdb' 2025-12-18T14:49:48,706 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.r2b' 2025-12-18T14:49:48,714 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.rtp' 2025-12-18T14:49:48,716 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.vsd' 2025-12-18T14:49:48,717 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/atomtypes.atp' 2025-12-18T14:49:48,721 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_ffbonded_for_ildn_test.itp' 2025-12-18T14:49:48,782 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_mutres' 2025-12-18T14:49:48,793 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/correct_ffbonded.itp' 2025-12-18T14:49:48,794 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.arn' 2025-12-18T14:49:48,796 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.hdb' 2025-12-18T14:49:48,797 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.r2b' 2025-12-18T14:49:48,799 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.rtp' 2025-12-18T14:49:48,801 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffberger.itp' 2025-12-18T14:49:48,806 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffbonded.itp' 2025-12-18T14:49:48,808 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffnonbonded.itp' 2025-12-18T14:49:48,809 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.doc' 2025-12-18T14:49:48,810 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.itp' 2025-12-18T14:49:48,812 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/gbsa.itp' 2025-12-18T14:49:48,813 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ions.itp' 2025-12-18T14:49:48,834 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.mtp' 2025-12-18T14:49:48,844 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.rtp' 2025-12-18T14:49:48,847 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer.itp' 2025-12-18T14:49:48,850 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer_posre.itp' 2025-12-18T14:49:48,851 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.arn' 2025-12-18T14:49:48,852 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.hdb' 2025-12-18T14:49:48,854 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.r2b' 2025-12-18T14:49:48,856 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.rtp' 2025-12-18T14:49:48,858 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spc.itp' 2025-12-18T14:49:48,859 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spce.itp' 2025-12-18T14:49:48,860 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip3p.itp' 2025-12-18T14:49:48,862 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4p.itp' 2025-12-18T14:49:48,863 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4pew.itp' 2025-12-18T14:49:48,864 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip5p.itp' 2025-12-18T14:49:48,866 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/urea.itp' 2025-12-18T14:49:48,867 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/watermodels.dat' 2025-12-18T14:49:48,869 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.arn' 2025-12-18T14:49:48,871 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.c.tdb' 2025-12-18T14:49:48,872 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.hdb' 2025-12-18T14:49:48,873 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.n.tdb' 2025-12-18T14:49:48,875 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.r2b' 2025-12-18T14:49:48,883 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.rtp' 2025-12-18T14:49:48,885 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.vsd' 2025-12-18T14:49:48,887 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/atomtypes.atp' 2025-12-18T14:49:48,891 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_ffbonded_for_ildn_test.itp' 2025-12-18T14:49:48,952 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_mutres' 2025-12-18T14:49:48,963 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/correct_ffbonded.itp' 2025-12-18T14:49:48,964 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.arn' 2025-12-18T14:49:48,965 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.hdb' 2025-12-18T14:49:48,967 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.r2b' 2025-12-18T14:49:48,969 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.rtp' 2025-12-18T14:49:48,971 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffberger.itp' 2025-12-18T14:49:48,975 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffbonded.itp' 2025-12-18T14:49:48,977 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffnonbonded.itp' 2025-12-18T14:49:48,978 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.doc' 2025-12-18T14:49:48,979 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.itp' 2025-12-18T14:49:48,981 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/gbsa.itp' 2025-12-18T14:49:48,982 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ions.itp' 2025-12-18T14:49:49,000 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.mtp' 2025-12-18T14:49:49,009 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.rtp' 2025-12-18T14:49:49,012 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer.itp' 2025-12-18T14:49:49,014 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer_posre.itp' 2025-12-18T14:49:49,015 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.arn' 2025-12-18T14:49:49,017 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.hdb' 2025-12-18T14:49:49,018 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.r2b' 2025-12-18T14:49:49,020 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.rtp' 2025-12-18T14:49:49,022 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spc.itp' 2025-12-18T14:49:49,023 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spce.itp' 2025-12-18T14:49:49,024 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip3p.itp' 2025-12-18T14:49:49,026 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4p.itp' 2025-12-18T14:49:49,027 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4pew.itp' 2025-12-18T14:49:49,028 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip5p.itp' 2025-12-18T14:49:49,029 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/urea.itp' 2025-12-18T14:49:49,031 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/watermodels.dat' 2025-12-18T14:49:49,034 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.arn' 2025-12-18T14:49:49,035 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.c.tdb' 2025-12-18T14:49:49,037 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.hdb' 2025-12-18T14:49:49,038 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.n.tdb' 2025-12-18T14:49:49,039 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.r2b' 2025-12-18T14:49:49,048 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.rtp' 2025-12-18T14:49:49,050 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.vsd' 2025-12-18T14:49:49,051 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/atomtypes.atp' 2025-12-18T14:49:49,052 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.arn' 2025-12-18T14:49:49,053 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.hdb' 2025-12-18T14:49:49,055 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.r2b' 2025-12-18T14:49:49,057 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.rtp' 2025-12-18T14:49:49,061 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffbonded.itp' 2025-12-18T14:49:49,063 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffnonbonded.itp' 2025-12-18T14:49:49,064 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.doc' 2025-12-18T14:49:49,065 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.itp' 2025-12-18T14:49:49,066 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/gbsa.itp' 2025-12-18T14:49:49,068 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/ions.itp' 2025-12-18T14:49:49,252 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.mtp' 2025-12-18T14:49:49,342 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.rtp' 2025-12-18T14:49:49,352 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.arn' 2025-12-18T14:49:49,353 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.hdb' 2025-12-18T14:49:49,354 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.r2b' 2025-12-18T14:49:49,357 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.rtp' 2025-12-18T14:49:49,358 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/spc.itp' 2025-12-18T14:49:49,359 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/spce.itp' 2025-12-18T14:49:49,360 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip3p.itp' 2025-12-18T14:49:49,362 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4p.itp' 2025-12-18T14:49:49,363 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4pew.itp' 2025-12-18T14:49:49,364 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip5p.itp' 2025-12-18T14:49:49,366 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/urea.itp' 2025-12-18T14:49:49,367 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/watermodels.dat' 2025-12-18T14:49:49,369 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.arn' 2025-12-18T14:49:49,371 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.c.tdb' 2025-12-18T14:49:49,372 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.hdb' 2025-12-18T14:49:49,373 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.n.tdb' 2025-12-18T14:49:49,375 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.r2b' 2025-12-18T14:49:49,378 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.rtp' 2025-12-18T14:49:49,380 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.vsd' 2025-12-18T14:49:49,382 adding 'pmx/data/mutff/charmm22star-mut.ff/atomtypes.atp' 2025-12-18T14:49:49,387 adding 'pmx/data/mutff/charmm22star-mut.ff/cmap.itp' 2025-12-18T14:49:49,388 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.arn' 2025-12-18T14:49:49,389 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.c.tdb' 2025-12-18T14:49:49,391 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.hdb' 2025-12-18T14:49:49,392 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.n.tdb' 2025-12-18T14:49:49,394 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.rtp' 2025-12-18T14:49:49,401 adding 'pmx/data/mutff/charmm22star-mut.ff/ffbonded.itp' 2025-12-18T14:49:49,408 adding 'pmx/data/mutff/charmm22star-mut.ff/ffnabonded.itp' 2025-12-18T14:49:49,413 adding 'pmx/data/mutff/charmm22star-mut.ff/ffnanonbonded.itp' 2025-12-18T14:49:49,424 adding 'pmx/data/mutff/charmm22star-mut.ff/ffnonbonded.itp' 2025-12-18T14:49:49,427 adding 'pmx/data/mutff/charmm22star-mut.ff/forcefield.doc' 2025-12-18T14:49:49,428 adding 'pmx/data/mutff/charmm22star-mut.ff/forcefield.itp' 2025-12-18T14:49:49,429 adding 'pmx/data/mutff/charmm22star-mut.ff/gb.itp' 2025-12-18T14:49:49,430 adding 'pmx/data/mutff/charmm22star-mut.ff/ions.itp' 2025-12-18T14:49:49,431 adding 'pmx/data/mutff/charmm22star-mut.ff/lipids.hdb' 2025-12-18T14:49:49,435 adding 'pmx/data/mutff/charmm22star-mut.ff/lipids.rtp' 2025-12-18T14:49:49,437 adding 'pmx/data/mutff/charmm22star-mut.ff/mutres.arn' 2025-12-18T14:49:49,586 adding 'pmx/data/mutff/charmm22star-mut.ff/mutres.mtp' 2025-12-18T14:49:49,661 adding 'pmx/data/mutff/charmm22star-mut.ff/mutres.rtp' 2025-12-18T14:49:49,669 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.arn' 2025-12-18T14:49:49,670 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.c.tdb' 2025-12-18T14:49:49,671 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.hdb' 2025-12-18T14:49:49,672 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.n.tdb' 2025-12-18T14:49:49,673 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.r2b' 2025-12-18T14:49:49,675 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.rtp' 2025-12-18T14:49:49,676 adding 'pmx/data/mutff/charmm22star-mut.ff/spc.itp' 2025-12-18T14:49:49,678 adding 'pmx/data/mutff/charmm22star-mut.ff/spce.itp' 2025-12-18T14:49:49,679 adding 'pmx/data/mutff/charmm22star-mut.ff/tip3p.itp' 2025-12-18T14:49:49,680 adding 'pmx/data/mutff/charmm22star-mut.ff/tip4p.itp' 2025-12-18T14:49:49,681 adding 'pmx/data/mutff/charmm22star-mut.ff/tip4pew.itp' 2025-12-18T14:49:49,683 adding 'pmx/data/mutff/charmm22star-mut.ff/tip5p.itp' 2025-12-18T14:49:49,684 adding 'pmx/data/mutff/charmm22star-mut.ff/tips3p.itp' 2025-12-18T14:49:49,685 adding 'pmx/data/mutff/charmm22star-mut.ff/watermodels.dat' 2025-12-18T14:49:49,689 adding 'pmx/data/mutff/charmm36m-mut.ff/atomtypes.atp' 2025-12-18T14:49:49,701 adding 'pmx/data/mutff/charmm36m-mut.ff/cmap.itp' 2025-12-18T14:49:49,783 adding 'pmx/data/mutff/charmm36m-mut.ff/ffbonded.itp' 2025-12-18T14:49:49,908 adding 'pmx/data/mutff/charmm36m-mut.ff/ffnonbonded.itp' 2025-12-18T14:49:49,919 adding 'pmx/data/mutff/charmm36m-mut.ff/forcefield.doc' 2025-12-18T14:49:49,921 adding 'pmx/data/mutff/charmm36m-mut.ff/forcefield.itp' 2025-12-18T14:49:49,922 adding 'pmx/data/mutff/charmm36m-mut.ff/gb.itp' 2025-12-18T14:49:49,923 adding 'pmx/data/mutff/charmm36m-mut.ff/ions.itp' 2025-12-18T14:49:49,925 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.arn' 2025-12-18T14:49:49,926 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.c.tdb' 2025-12-18T14:49:49,928 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.hdb' 2025-12-18T14:49:49,929 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.n.tdb' 2025-12-18T14:49:49,930 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.r2b' 2025-12-18T14:49:50,065 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.rtp' 2025-12-18T14:49:50,074 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.vsd' 2025-12-18T14:49:50,075 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres.arn' 2025-12-18T14:49:50,237 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres.mtp' 2025-12-18T14:49:50,319 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres.rtp' 2025-12-18T14:49:50,344 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres_dna.mtp' 2025-12-18T14:49:50,353 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres_dna.rtp' 2025-12-18T14:49:50,355 adding 'pmx/data/mutff/charmm36m-mut.ff/nbfix.itp' 2025-12-18T14:49:50,356 adding 'pmx/data/mutff/charmm36m-mut.ff/spc.itp' 2025-12-18T14:49:50,357 adding 'pmx/data/mutff/charmm36m-mut.ff/spce.itp' 2025-12-18T14:49:50,359 adding 'pmx/data/mutff/charmm36m-mut.ff/tip3p.itp' 2025-12-18T14:49:50,360 adding 'pmx/data/mutff/charmm36m-mut.ff/tip4p.itp' 2025-12-18T14:49:50,361 adding 'pmx/data/mutff/charmm36m-mut.ff/watermodels.dat' 2025-12-18T14:49:50,364 adding 'pmx/extensions/pmx/Energy.c' 2025-12-18T14:49:50,366 adding 'pmx/extensions/pmx/Geometry.c' 2025-12-18T14:49:50,369 adding 'pmx/extensions/pmx/Geometry.h' 2025-12-18T14:49:50,371 adding 'pmx/extensions/pmx/cpp_test.cpp' 2025-12-18T14:49:50,372 adding 'pmx/extensions/pmx/init.c' 2025-12-18T14:49:50,374 adding 'pmx/extensions/pmx/pmx.h' 2025-12-18T14:49:50,376 adding 'pmx/extensions/pmx/wrap_Geometry.c' 2025-12-18T14:49:50,378 adding 'pmx/extensions/xdr/trr2xtc.c' 2025-12-18T14:49:50,384 adding 'pmx/extensions/xdr/xdrfile.c' 2025-12-18T14:49:50,387 adding 'pmx/extensions/xdr/xdrfile.h' 2025-12-18T14:49:50,389 adding 'pmx/extensions/xdr/xdrfile_c_test.c' 2025-12-18T14:49:50,391 adding 'pmx/extensions/xdr/xdrfile_trr.c' 2025-12-18T14:49:50,393 adding 'pmx/extensions/xdr/xdrfile_trr.h' 2025-12-18T14:49:50,394 adding 'pmx/extensions/xdr/xdrfile_xtc.c' 2025-12-18T14:49:50,395 adding 'pmx/extensions/xdr/xdrfile_xtc.h' 2025-12-18T14:49:50,397 adding 'pmx/rosetta_example/README' 2025-12-18T14:49:50,398 adding 'pmx/rosetta_example/analyze.py' 2025-12-18T14:49:50,399 adding 'pmx/rosetta_example/mut.dat' 2025-12-18T14:49:50,428 adding 'pmx/rosetta_example/plot_results.ipynb' 2025-12-18T14:49:50,520 adding 'pmx/rosetta_example/prot_zn.pdb' 2025-12-18T14:49:50,524 adding 'pmx/rosetta_example/rosetta_prepare.ipynb' 2025-12-18T14:49:50,526 adding 'pmx/rosetta_example/submit_jobscripts.py' 2025-12-18T14:49:50,527 adding 'pmx/scripts/__init__.py' 2025-12-18T14:49:50,531 adding 'pmx/scripts/analyze_dhdl.py' 2025-12-18T14:49:50,533 adding 'pmx/scripts/atomMapping.py' 2025-12-18T14:49:50,535 adding 'pmx/scripts/build_cyclic_top.py' 2025-12-18T14:49:50,537 adding 'pmx/scripts/cli.py' 2025-12-18T14:49:50,539 adding 'pmx/scripts/fill_cgenff_itp.py' 2025-12-18T14:49:50,541 adding 'pmx/scripts/fix_residue_names.py' 2025-12-18T14:49:50,543 adding 'pmx/scripts/gen_abs_restraints.py' 2025-12-18T14:49:50,550 adding 'pmx/scripts/generate_hybrid_residue.py' 2025-12-18T14:49:50,552 adding 'pmx/scripts/generate_hybrid_topology.py' 2025-12-18T14:49:50,553 adding 'pmx/scripts/hydrogen_atom_renaming.py' 2025-12-18T14:49:50,555 adding 'pmx/scripts/ligandHybrid.py' 2025-12-18T14:49:50,556 adding 'pmx/scripts/make_double_box.py' 2025-12-18T14:49:50,559 adding 'pmx/scripts/md_setup.py' 2025-12-18T14:49:50,562 adding 'pmx/scripts/mutate.py' 2025-12-18T14:49:50,566 adding 'pmx/scripts/parameterize_ligands.py' 2025-12-18T14:49:50,568 adding 'pmx/scripts/prepare_crooks_runs.py' 2025-12-18T14:49:50,570 adding 'pmx/scripts/repartition_mass.py' 2025-12-18T14:49:50,571 adding 'pmx/scripts/set_gmxlib.py' 2025-12-18T14:49:50,573 adding 'pmx/scripts/setup_abfe.py' 2025-12-18T14:49:50,575 adding 'pmx/scripts/icolos_entrypoints/__init__.py' 2025-12-18T14:49:50,576 adding 'pmx/scripts/icolos_entrypoints/assemble_systems.py' 2025-12-18T14:49:50,580 adding 'pmx_biobb-5.2.1.dist-info/licenses/LICENSE' 2025-12-18T14:49:50,581 adding 'pmx_biobb-5.2.1.dist-info/METADATA' 2025-12-18T14:49:50,582 adding 'pmx_biobb-5.2.1.dist-info/WHEEL' 2025-12-18T14:49:50,583 adding 'pmx_biobb-5.2.1.dist-info/entry_points.txt' 2025-12-18T14:49:50,584 adding 'pmx_biobb-5.2.1.dist-info/top_level.txt' 2025-12-18T14:49:50,588 adding 'pmx_biobb-5.2.1.dist-info/RECORD' 2025-12-18T14:49:50,654 removing build/bdist.linux-armv7l/wheel 2025-12-18T14:49:50,898 Building wheel for pmx-biobb (setup.py): finished with status 'done' 2025-12-18T14:49:50,956 Created wheel for pmx-biobb: filename=pmx_biobb-5.2.1-cp311-cp311-linux_armv7l.whl size=5730902 sha256=2a0d3dadcb1b00cce1cf39fe332a083a145f0c142d06c67b49cb5f0ae09e0cac 2025-12-18T14:49:50,958 Stored in directory: /tmp/pip-ephem-wheel-cache-vt1uyy3d/wheels/8c/c4/25/b6c44e65867b559046e6a632da6da51edaf27f4d68c9a5e04c 2025-12-18T14:49:50,979 Successfully built pmx-biobb 2025-12-18T14:49:51,120 Removed build tracker: '/tmp/pip-build-tracker-559iudoo'