2023-05-26T09:32:05,789 Created temporary directory: /tmp/pip-build-tracker-t_0ux29h 2023-05-26T09:32:05,790 Initialized build tracking at /tmp/pip-build-tracker-t_0ux29h 2023-05-26T09:32:05,790 Created build tracker: /tmp/pip-build-tracker-t_0ux29h 2023-05-26T09:32:05,790 Entered build tracker: /tmp/pip-build-tracker-t_0ux29h 2023-05-26T09:32:05,791 Created temporary directory: /tmp/pip-wheel-vapuozpr 2023-05-26T09:32:05,794 Created temporary directory: /tmp/pip-ephem-wheel-cache-5klm2wxj 2023-05-26T09:32:05,819 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-05-26T09:32:05,823 2 location(s) to search for versions of pmx-biobb: 2023-05-26T09:32:05,823 * https://pypi.org/simple/pmx-biobb/ 2023-05-26T09:32:05,823 * https://www.piwheels.org/simple/pmx-biobb/ 2023-05-26T09:32:05,823 Fetching project page and analyzing links: https://pypi.org/simple/pmx-biobb/ 2023-05-26T09:32:05,824 Getting page https://pypi.org/simple/pmx-biobb/ 2023-05-26T09:32:05,825 Found index url https://pypi.org/simple/ 2023-05-26T09:32:05,875 Fetched page https://pypi.org/simple/pmx-biobb/ as application/vnd.pypi.simple.v1+json 2023-05-26T09:32:05,878 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.*) 2023-05-26T09:32:05,878 Link requires a different Python (3.9.2 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.*) 2023-05-26T09:32:05,879 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.*) 2023-05-26T09:32:05,879 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.*) 2023-05-26T09:32:05,879 Link requires a different Python (3.9.2 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.*) 2023-05-26T09:32:05,880 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.*) 2023-05-26T09:32:05,880 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) 2023-05-26T09:32:05,880 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 2023-05-26T09:32:05,881 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) 2023-05-26T09:32:05,881 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) 2023-05-26T09:32:05,881 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 2023-05-26T09:32:05,882 Fetching project page and analyzing links: https://www.piwheels.org/simple/pmx-biobb/ 2023-05-26T09:32:05,882 Getting page https://www.piwheels.org/simple/pmx-biobb/ 2023-05-26T09:32:05,883 Found index url https://www.piwheels.org/simple/ 2023-05-26T09:32:06,046 Fetched page https://www.piwheels.org/simple/pmx-biobb/ as text/html 2023-05-26T09:32:06,049 Skipping link: No binaries permitted for pmx-biobb: https://www.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) 2023-05-26T09:32:06,050 Skipping link: No binaries permitted for pmx-biobb: https://www.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) 2023-05-26T09:32:06,050 Skipping link: No binaries permitted for pmx-biobb: https://www.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) 2023-05-26T09:32:06,050 Skipping link: No binaries permitted for pmx-biobb: https://www.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) 2023-05-26T09:32:06,050 Skipping link: No binaries permitted for pmx-biobb: https://www.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) 2023-05-26T09:32:06,050 Skipping link: No binaries permitted for pmx-biobb: https://www.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) 2023-05-26T09:32:06,051 Skipping link: No binaries permitted for pmx-biobb: https://www.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.*) 2023-05-26T09:32:06,051 Skipping link: No binaries permitted for pmx-biobb: https://www.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.*) 2023-05-26T09:32:06,051 Skipping link: No binaries permitted for pmx-biobb: https://www.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.*) 2023-05-26T09:32:06,051 Skipping link: No binaries permitted for pmx-biobb: https://www.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.*) 2023-05-26T09:32:06,051 Skipping link: not a file: https://www.piwheels.org/simple/pmx-biobb/ 2023-05-26T09:32:06,052 Skipping link: not a file: https://pypi.org/simple/pmx-biobb/ 2023-05-26T09:32:06,069 Given no hashes to check 1 links for project 'pmx-biobb': discarding no candidates 2023-05-26T09:32:06,086 Collecting pmx-biobb==3.0.1 2023-05-26T09:32:06,088 Created temporary directory: /tmp/pip-unpack-r1vjghyt 2023-05-26T09:32:06,229 Downloading pmx_biobb-3.0.1.tar.gz (5.3 MB) 2023-05-26T09:32:09,007 Added pmx-biobb==3.0.1 from https://files.pythonhosted.org/packages/3c/b8/7dcc8b482f02b8ff26aa1a9819fd389f9cc01087954d968e156a073ea4ac/pmx_biobb-3.0.1.tar.gz to build tracker '/tmp/pip-build-tracker-t_0ux29h' 2023-05-26T09:32:09,010 Running setup.py (path:/tmp/pip-wheel-vapuozpr/pmx-biobb_06b13c195fb44bca89da427cb42d8ddb/setup.py) egg_info for package pmx-biobb 2023-05-26T09:32:09,010 Created temporary directory: /tmp/pip-pip-egg-info-fc0h7hkk 2023-05-26T09:32:09,011 Preparing metadata (setup.py): started 2023-05-26T09:32:09,012 Running command python setup.py egg_info 2023-05-26T09:32:09,665 running egg_info 2023-05-26T09:32:09,666 creating /tmp/pip-pip-egg-info-fc0h7hkk/pmx_biobb.egg-info 2023-05-26T09:32:09,690 writing /tmp/pip-pip-egg-info-fc0h7hkk/pmx_biobb.egg-info/PKG-INFO 2023-05-26T09:32:09,693 writing dependency_links to /tmp/pip-pip-egg-info-fc0h7hkk/pmx_biobb.egg-info/dependency_links.txt 2023-05-26T09:32:09,695 writing entry points to /tmp/pip-pip-egg-info-fc0h7hkk/pmx_biobb.egg-info/entry_points.txt 2023-05-26T09:32:09,696 writing requirements to /tmp/pip-pip-egg-info-fc0h7hkk/pmx_biobb.egg-info/requires.txt 2023-05-26T09:32:09,697 writing top-level names to /tmp/pip-pip-egg-info-fc0h7hkk/pmx_biobb.egg-info/top_level.txt 2023-05-26T09:32:09,699 writing manifest file '/tmp/pip-pip-egg-info-fc0h7hkk/pmx_biobb.egg-info/SOURCES.txt' 2023-05-26T09:32:09,954 reading manifest file '/tmp/pip-pip-egg-info-fc0h7hkk/pmx_biobb.egg-info/SOURCES.txt' 2023-05-26T09:32:09,956 reading manifest template 'MANIFEST.in' 2023-05-26T09:32:09,978 adding license file 'LICENSE' 2023-05-26T09:32:09,991 writing manifest file '/tmp/pip-pip-egg-info-fc0h7hkk/pmx_biobb.egg-info/SOURCES.txt' 2023-05-26T09:32:10,061 Preparing metadata (setup.py): finished with status 'done' 2023-05-26T09:32:10,066 Source in /tmp/pip-wheel-vapuozpr/pmx-biobb_06b13c195fb44bca89da427cb42d8ddb has version 3.0.1, which satisfies requirement pmx-biobb==3.0.1 from https://files.pythonhosted.org/packages/3c/b8/7dcc8b482f02b8ff26aa1a9819fd389f9cc01087954d968e156a073ea4ac/pmx_biobb-3.0.1.tar.gz 2023-05-26T09:32:10,067 Removed pmx-biobb==3.0.1 from https://files.pythonhosted.org/packages/3c/b8/7dcc8b482f02b8ff26aa1a9819fd389f9cc01087954d968e156a073ea4ac/pmx_biobb-3.0.1.tar.gz from build tracker '/tmp/pip-build-tracker-t_0ux29h' 2023-05-26T09:32:10,074 Created temporary directory: /tmp/pip-unpack-otuounmt 2023-05-26T09:32:10,074 Building wheels for collected packages: pmx-biobb 2023-05-26T09:32:10,083 Created temporary directory: /tmp/pip-wheel-bg7auzbo 2023-05-26T09:32:10,083 Building wheel for pmx-biobb (setup.py): started 2023-05-26T09:32:10,084 Destination directory: /tmp/pip-wheel-bg7auzbo 2023-05-26T09:32:10,084 Running command python setup.py bdist_wheel 2023-05-26T09:32:10,908 running bdist_wheel 2023-05-26T09:32:11,173 running build 2023-05-26T09:32:11,173 running build_py 2023-05-26T09:32:11,177 creating build 2023-05-26T09:32:11,178 creating build/lib.linux-armv7l-cpython-39 2023-05-26T09:32:11,178 creating build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,180 copying src/pmx/rosetta.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,182 copying src/pmx/molecule.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,185 copying src/pmx/rosetta_analyze.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,187 copying src/pmx/atomselection.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,190 copying src/pmx/mutdb.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,192 copying src/pmx/ffparser.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,194 copying src/pmx/rotamer.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,197 copying src/pmx/ndx.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,199 copying src/pmx/parser.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,201 copying src/pmx/xtc.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,202 copying src/pmx/builder.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,205 copying src/pmx/alchemy.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,208 copying src/pmx/chain.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,211 copying src/pmx/__init__.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,213 copying src/pmx/_version.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,214 copying src/pmx/atom.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,217 copying src/pmx/ligand_alchemy.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,221 copying src/pmx/options.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,223 copying src/pmx/library.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,227 copying src/pmx/estimators.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,230 copying src/pmx/jobscript.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,232 copying src/pmx/forcefield.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,235 copying src/pmx/model.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,238 copying src/pmx/analysis.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,240 copying src/pmx/utils.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,243 copying src/pmx/geometry.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,245 copying src/pmx/xdrfile.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,247 copying src/pmx/gmx.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-26T09:32:11,249 running egg_info 2023-05-26T09:32:11,305 writing src/pmx_biobb.egg-info/PKG-INFO 2023-05-26T09:32:11,307 writing dependency_links to src/pmx_biobb.egg-info/dependency_links.txt 2023-05-26T09:32:11,309 writing entry points to src/pmx_biobb.egg-info/entry_points.txt 2023-05-26T09:32:11,311 writing requirements to src/pmx_biobb.egg-info/requires.txt 2023-05-26T09:32:11,312 writing top-level names to src/pmx_biobb.egg-info/top_level.txt 2023-05-26T09:32:11,340 reading manifest file 'src/pmx_biobb.egg-info/SOURCES.txt' 2023-05-26T09:32:11,349 reading manifest template 'MANIFEST.in' 2023-05-26T09:32:11,366 adding license file 'LICENSE' 2023-05-26T09:32:11,384 writing manifest file 'src/pmx_biobb.egg-info/SOURCES.txt' 2023-05-26T09:32:11,387 /usr/local/lib/python3.9/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'pmx.data' is absent from the `packages` configuration. 2023-05-26T09:32:11,387 !! 2023-05-26T09:32:11,388 ******************************************************************************** 2023-05-26T09:32:11,388 ############################ 2023-05-26T09:32:11,388 # Package would be ignored # 2023-05-26T09:32:11,388 ############################ 2023-05-26T09:32:11,388 Python recognizes 'pmx.data' as an importable package[^1], 2023-05-26T09:32:11,388 but it is absent from setuptools' `packages` configuration. 2023-05-26T09:32:11,388 This leads to an ambiguous overall configuration. If you want to distribute this 2023-05-26T09:32:11,389 package, please make sure that 'pmx.data' is explicitly added 2023-05-26T09:32:11,389 to the `packages` configuration field. 2023-05-26T09:32:11,389 Alternatively, you can also rely on setuptools' discovery methods 2023-05-26T09:32:11,389 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-05-26T09:32:11,389 instead of `find_packages(...)`/`find:`). 2023-05-26T09:32:11,389 You can read more about "package discovery" on setuptools documentation page: 2023-05-26T09:32:11,390 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-05-26T09:32:11,390 If you don't want 'pmx.data' to be distributed and are 2023-05-26T09:32:11,390 already explicitly excluding 'pmx.data' via 2023-05-26T09:32:11,390 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-05-26T09:32:11,390 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-05-26T09:32:11,390 combination with a more fine grained `package-data` configuration. 2023-05-26T09:32:11,391 You can read more about "package data files" on setuptools documentation page: 2023-05-26T09:32:11,391 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-05-26T09:32:11,391 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-05-26T09:32:11,391 even if it does not contain any `.py` files. 2023-05-26T09:32:11,391 On the other hand, currently there is no concept of package data 2023-05-26T09:32:11,391 directory, all directories are treated like packages. 2023-05-26T09:32:11,392 ******************************************************************************** 2023-05-26T09:32:11,392 !! 2023-05-26T09:32:11,392 check.warn(importable) 2023-05-26T09:32:11,392 /usr/local/lib/python3.9/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'pmx.data.mutff' is absent from the `packages` configuration. 2023-05-26T09:32:11,392 !! 2023-05-26T09:32:11,392 ******************************************************************************** 2023-05-26T09:32:11,392 ############################ 2023-05-26T09:32:11,393 # Package would be ignored # 2023-05-26T09:32:11,393 ############################ 2023-05-26T09:32:11,393 Python recognizes 'pmx.data.mutff' as an importable package[^1], 2023-05-26T09:32:11,393 but it is absent from setuptools' `packages` configuration. 2023-05-26T09:32:11,393 This leads to an ambiguous overall configuration. If you want to distribute this 2023-05-26T09:32:11,393 package, please make sure that 'pmx.data.mutff' is explicitly added 2023-05-26T09:32:11,393 to the `packages` configuration field. 2023-05-26T09:32:11,394 Alternatively, you can also rely on setuptools' discovery methods 2023-05-26T09:32:11,394 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-05-26T09:32:11,394 instead of `find_packages(...)`/`find:`). 2023-05-26T09:32:11,394 You can read more about "package discovery" on setuptools documentation page: 2023-05-26T09:32:11,394 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-05-26T09:32:11,394 If you don't want 'pmx.data.mutff' to be distributed and are 2023-05-26T09:32:11,395 already explicitly excluding 'pmx.data.mutff' via 2023-05-26T09:32:11,395 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-05-26T09:32:11,395 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-05-26T09:32:11,395 combination with a more fine grained `package-data` configuration. 2023-05-26T09:32:11,395 You can read more about "package data files" on setuptools documentation page: 2023-05-26T09:32:11,395 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-05-26T09:32:11,396 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-05-26T09:32:11,396 even if it does not contain any `.py` files. 2023-05-26T09:32:11,396 On the other hand, currently there is no concept of package data 2023-05-26T09:32:11,396 directory, all directories are treated like packages. 2023-05-26T09:32:11,396 ******************************************************************************** 2023-05-26T09:32:11,396 !! 2023-05-26T09:32:11,396 check.warn(importable) 2023-05-26T09:32:11,408 /usr/local/lib/python3.9/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'pmx.extensions.pmx' is absent from the `packages` configuration. 2023-05-26T09:32:11,409 !! 2023-05-26T09:32:11,409 ******************************************************************************** 2023-05-26T09:32:11,409 ############################ 2023-05-26T09:32:11,409 # Package would be ignored # 2023-05-26T09:32:11,409 ############################ 2023-05-26T09:32:11,409 Python recognizes 'pmx.extensions.pmx' as an importable package[^1], 2023-05-26T09:32:11,409 but it is absent from setuptools' `packages` configuration. 2023-05-26T09:32:11,410 This leads to an ambiguous overall configuration. If you want to distribute this 2023-05-26T09:32:11,410 package, please make sure that 'pmx.extensions.pmx' is explicitly added 2023-05-26T09:32:11,410 to the `packages` configuration field. 2023-05-26T09:32:11,410 Alternatively, you can also rely on setuptools' discovery methods 2023-05-26T09:32:11,410 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-05-26T09:32:11,410 instead of `find_packages(...)`/`find:`). 2023-05-26T09:32:11,411 You can read more about "package discovery" on setuptools documentation page: 2023-05-26T09:32:11,411 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-05-26T09:32:11,411 If you don't want 'pmx.extensions.pmx' to be distributed and are 2023-05-26T09:32:11,411 already explicitly excluding 'pmx.extensions.pmx' via 2023-05-26T09:32:11,411 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-05-26T09:32:11,411 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-05-26T09:32:11,411 combination with a more fine grained `package-data` configuration. 2023-05-26T09:32:11,412 You can read more about "package data files" on setuptools documentation page: 2023-05-26T09:32:11,412 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-05-26T09:32:11,412 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-05-26T09:32:11,412 even if it does not contain any `.py` files. 2023-05-26T09:32:11,412 On the other hand, currently there is no concept of package data 2023-05-26T09:32:11,413 directory, all directories are treated like packages. 2023-05-26T09:32:11,413 ******************************************************************************** 2023-05-26T09:32:11,413 !! 2023-05-26T09:32:11,413 check.warn(importable) 2023-05-26T09:32:11,413 /usr/local/lib/python3.9/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'pmx.extensions.xdr' is absent from the `packages` configuration. 2023-05-26T09:32:11,413 !! 2023-05-26T09:32:11,414 ******************************************************************************** 2023-05-26T09:32:11,414 ############################ 2023-05-26T09:32:11,414 # Package would be ignored # 2023-05-26T09:32:11,414 ############################ 2023-05-26T09:32:11,414 Python recognizes 'pmx.extensions.xdr' as an importable package[^1], 2023-05-26T09:32:11,414 but it is absent from setuptools' `packages` configuration. 2023-05-26T09:32:11,414 This leads to an ambiguous overall configuration. If you want to distribute this 2023-05-26T09:32:11,414 package, please make sure that 'pmx.extensions.xdr' is explicitly added 2023-05-26T09:32:11,415 to the `packages` configuration field. 2023-05-26T09:32:11,415 Alternatively, you can also rely on setuptools' discovery methods 2023-05-26T09:32:11,415 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-05-26T09:32:11,415 instead of `find_packages(...)`/`find:`). 2023-05-26T09:32:11,415 You can read more about "package discovery" on setuptools documentation page: 2023-05-26T09:32:11,415 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-05-26T09:32:11,416 If you don't want 'pmx.extensions.xdr' to be distributed and are 2023-05-26T09:32:11,416 already explicitly excluding 'pmx.extensions.xdr' via 2023-05-26T09:32:11,416 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-05-26T09:32:11,416 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-05-26T09:32:11,416 combination with a more fine grained `package-data` configuration. 2023-05-26T09:32:11,416 You can read more about "package data files" on setuptools documentation page: 2023-05-26T09:32:11,416 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-05-26T09:32:11,417 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-05-26T09:32:11,417 even if it does not contain any `.py` files. 2023-05-26T09:32:11,417 On the other hand, currently there is no concept of package data 2023-05-26T09:32:11,417 directory, all directories are treated like packages. 2023-05-26T09:32:11,417 ******************************************************************************** 2023-05-26T09:32:11,417 !! 2023-05-26T09:32:11,418 check.warn(importable) 2023-05-26T09:32:11,418 /usr/local/lib/python3.9/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'pmx.scripts' is absent from the `packages` configuration. 2023-05-26T09:32:11,418 !! 2023-05-26T09:32:11,418 ******************************************************************************** 2023-05-26T09:32:11,418 ############################ 2023-05-26T09:32:11,418 # Package would be ignored # 2023-05-26T09:32:11,418 ############################ 2023-05-26T09:32:11,418 Python recognizes 'pmx.scripts' as an importable package[^1], 2023-05-26T09:32:11,419 but it is absent from setuptools' `packages` configuration. 2023-05-26T09:32:11,419 This leads to an ambiguous overall configuration. If you want to distribute this 2023-05-26T09:32:11,419 package, please make sure that 'pmx.scripts' is explicitly added 2023-05-26T09:32:11,419 to the `packages` configuration field. 2023-05-26T09:32:11,419 Alternatively, you can also rely on setuptools' discovery methods 2023-05-26T09:32:11,419 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-05-26T09:32:11,419 instead of `find_packages(...)`/`find:`). 2023-05-26T09:32:11,420 You can read more about "package discovery" on setuptools documentation page: 2023-05-26T09:32:11,420 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-05-26T09:32:11,420 If you don't want 'pmx.scripts' to be distributed and are 2023-05-26T09:32:11,420 already explicitly excluding 'pmx.scripts' via 2023-05-26T09:32:11,420 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-05-26T09:32:11,420 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-05-26T09:32:11,421 combination with a more fine grained `package-data` configuration. 2023-05-26T09:32:11,421 You can read more about "package data files" on setuptools documentation page: 2023-05-26T09:32:11,421 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-05-26T09:32:11,421 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-05-26T09:32:11,421 even if it does not contain any `.py` files. 2023-05-26T09:32:11,421 On the other hand, currently there is no concept of package data 2023-05-26T09:32:11,422 directory, all directories are treated like packages. 2023-05-26T09:32:11,422 ******************************************************************************** 2023-05-26T09:32:11,422 !! 2023-05-26T09:32:11,422 check.warn(importable) 2023-05-26T09:32:11,422 /usr/local/lib/python3.9/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'pmx.scripts.icolos_entrypoints' is absent from the `packages` configuration. 2023-05-26T09:32:11,422 !! 2023-05-26T09:32:11,422 ******************************************************************************** 2023-05-26T09:32:11,423 ############################ 2023-05-26T09:32:11,423 # Package would be ignored # 2023-05-26T09:32:11,423 ############################ 2023-05-26T09:32:11,423 Python recognizes 'pmx.scripts.icolos_entrypoints' as an importable package[^1], 2023-05-26T09:32:11,423 but it is absent from setuptools' `packages` configuration. 2023-05-26T09:32:11,423 This leads to an ambiguous overall configuration. If you want to distribute this 2023-05-26T09:32:11,423 package, please make sure that 'pmx.scripts.icolos_entrypoints' is explicitly added 2023-05-26T09:32:11,423 to the `packages` configuration field. 2023-05-26T09:32:11,424 Alternatively, you can also rely on setuptools' discovery methods 2023-05-26T09:32:11,424 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-05-26T09:32:11,424 instead of `find_packages(...)`/`find:`). 2023-05-26T09:32:11,424 You can read more about "package discovery" on setuptools documentation page: 2023-05-26T09:32:11,424 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-05-26T09:32:11,425 If you don't want 'pmx.scripts.icolos_entrypoints' to be distributed and are 2023-05-26T09:32:11,425 already explicitly excluding 'pmx.scripts.icolos_entrypoints' via 2023-05-26T09:32:11,425 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-05-26T09:32:11,425 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-05-26T09:32:11,425 combination with a more fine grained `package-data` configuration. 2023-05-26T09:32:11,425 You can read more about "package data files" on setuptools documentation page: 2023-05-26T09:32:11,425 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-05-26T09:32:11,426 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-05-26T09:32:11,426 even if it does not contain any `.py` files. 2023-05-26T09:32:11,426 On the other hand, currently there is no concept of package data 2023-05-26T09:32:11,426 directory, all directories are treated like packages. 2023-05-26T09:32:11,426 ******************************************************************************** 2023-05-26T09:32:11,426 !! 2023-05-26T09:32:11,426 check.warn(importable) 2023-05-26T09:32:11,431 creating build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-26T09:32:11,432 copying src/pmx/data/aminoacids.pkl -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-26T09:32:11,440 copying src/pmx/data/bbdep.pkl -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-26T09:32:11,697 copying src/pmx/data/blosum62_new.mat -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-26T09:32:11,699 copying src/pmx/data/bp.pkl -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-26T09:32:11,705 copying src/pmx/data/bp_amber.pkl -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-26T09:32:11,712 copying src/pmx/data/bp_charmm.pkl -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-26T09:32:11,718 copying src/pmx/data/rna.pkl -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-26T09:32:11,723 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-26T09:32:11,725 copying src/pmx/data/mutff/atommass.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-26T09:32:11,728 copying src/pmx/data/mutff/elements.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-26T09:32:11,731 copying src/pmx/data/mutff/residuetypes.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-26T09:32:11,734 copying src/pmx/data/mutff/spc216.gro -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-26T09:32:11,738 copying src/pmx/data/mutff/specbond.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-26T09:32:11,741 copying src/pmx/data/mutff/vdwradii.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-26T09:32:11,744 copying src/pmx/data/mutff/xlateat.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-26T09:32:11,747 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,749 copying src/pmx/data/mutff/amber14sbmut.ff/Makefile.am -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,752 copying src/pmx/data/mutff/amber14sbmut.ff/Makefile.in -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,756 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,759 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,761 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,764 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,766 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,769 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,773 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,776 copying src/pmx/data/mutff/amber14sbmut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,779 copying src/pmx/data/mutff/amber14sbmut.ff/dna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,781 copying src/pmx/data/mutff/amber14sbmut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,784 copying src/pmx/data/mutff/amber14sbmut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,786 copying src/pmx/data/mutff/amber14sbmut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,789 copying src/pmx/data/mutff/amber14sbmut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,793 copying src/pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,796 copying src/pmx/data/mutff/amber14sbmut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,798 copying src/pmx/data/mutff/amber14sbmut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,801 copying src/pmx/data/mutff/amber14sbmut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,803 copying src/pmx/data/mutff/amber14sbmut.ff/ions.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,806 copying src/pmx/data/mutff/amber14sbmut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,864 copying src/pmx/data/mutff/amber14sbmut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,887 copying src/pmx/data/mutff/amber14sbmut.ff/rna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,890 copying src/pmx/data/mutff/amber14sbmut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,893 copying src/pmx/data/mutff/amber14sbmut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,895 copying src/pmx/data/mutff/amber14sbmut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,898 copying src/pmx/data/mutff/amber14sbmut.ff/spc.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,901 copying src/pmx/data/mutff/amber14sbmut.ff/spce.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,903 copying src/pmx/data/mutff/amber14sbmut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,905 copying src/pmx/data/mutff/amber14sbmut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,908 copying src/pmx/data/mutff/amber14sbmut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,910 copying src/pmx/data/mutff/amber14sbmut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,912 copying src/pmx/data/mutff/amber14sbmut.ff/urea.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,915 copying src/pmx/data/mutff/amber14sbmut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:11,917 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,918 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,922 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn_backup -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,924 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,927 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,930 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,932 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,934 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,940 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,942 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,945 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_ffbonded_for_ildn_test.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,948 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_mutres -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,969 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/correct_ffbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,971 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,973 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,975 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,977 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,980 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffberger.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,982 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,985 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,987 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,989 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,991 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,993 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:11,995 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,038 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,057 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,064 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,068 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,070 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer_posre.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,073 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,075 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,077 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,079 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,082 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,084 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,086 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,087 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,089 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,091 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,093 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/urea.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,095 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:12,096 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,097 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,099 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,101 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,103 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,105 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,107 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,111 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,113 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,116 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_ffbonded_for_ildn_test.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,119 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_mutres -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,138 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/correct_ffbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,141 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,143 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,145 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,147 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,150 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffberger.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,153 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,156 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,159 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,161 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,163 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,165 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,168 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,220 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,240 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,247 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,252 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,255 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer_posre.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,257 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,259 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,262 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,264 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,267 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,268 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,271 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,273 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,275 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,276 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,278 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/urea.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,280 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:12,282 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,284 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,286 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,288 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,291 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,292 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,294 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,298 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,300 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,303 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,305 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,307 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,309 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,311 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,314 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,317 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,319 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,321 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,323 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,325 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,374 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,398 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,400 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,403 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,405 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,408 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,410 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,412 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,414 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,416 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,418 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,420 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/urea.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,422 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:12,424 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,425 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,427 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,429 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,431 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,433 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,435 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,438 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,441 copying src/pmx/data/mutff/charmm22star-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,443 copying src/pmx/data/mutff/charmm22star-mut.ff/cmap.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,447 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,448 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,450 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,452 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,454 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,456 copying src/pmx/data/mutff/charmm22star-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,460 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnabonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,464 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnanonbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,468 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,475 copying src/pmx/data/mutff/charmm22star-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,477 copying src/pmx/data/mutff/charmm22star-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,480 copying src/pmx/data/mutff/charmm22star-mut.ff/gb.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,483 copying src/pmx/data/mutff/charmm22star-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,485 copying src/pmx/data/mutff/charmm22star-mut.ff/lipids.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,487 copying src/pmx/data/mutff/charmm22star-mut.ff/lipids.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,491 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,494 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,561 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,581 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,583 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,585 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,587 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,589 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,590 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,593 copying src/pmx/data/mutff/charmm22star-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,595 copying src/pmx/data/mutff/charmm22star-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,596 copying src/pmx/data/mutff/charmm22star-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,598 copying src/pmx/data/mutff/charmm22star-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,600 copying src/pmx/data/mutff/charmm22star-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,602 copying src/pmx/data/mutff/charmm22star-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,604 copying src/pmx/data/mutff/charmm22star-mut.ff/tips3p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,606 copying src/pmx/data/mutff/charmm22star-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:12,608 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,608 copying src/pmx/data/mutff/charmm36m-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,611 copying src/pmx/data/mutff/charmm36m-mut.ff/cmap.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,615 copying src/pmx/data/mutff/charmm36m-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,633 copying src/pmx/data/mutff/charmm36m-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,660 copying src/pmx/data/mutff/charmm36m-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,663 copying src/pmx/data/mutff/charmm36m-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,665 copying src/pmx/data/mutff/charmm36m-mut.ff/gb.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,667 copying src/pmx/data/mutff/charmm36m-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,669 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,672 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,674 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,677 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,679 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,681 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,704 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.vsd -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,706 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,709 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,756 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,776 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,784 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,788 copying src/pmx/data/mutff/charmm36m-mut.ff/nbfix.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,791 copying src/pmx/data/mutff/charmm36m-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,793 copying src/pmx/data/mutff/charmm36m-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,795 copying src/pmx/data/mutff/charmm36m-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,797 copying src/pmx/data/mutff/charmm36m-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,800 copying src/pmx/data/mutff/charmm36m-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:12,802 creating build/lib.linux-armv7l-cpython-39/pmx/extensions 2023-05-26T09:32:12,802 creating build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-26T09:32:12,804 copying src/pmx/extensions/pmx/Energy.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-26T09:32:12,807 copying src/pmx/extensions/pmx/Geometry.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-26T09:32:12,809 copying src/pmx/extensions/pmx/Geometry.h -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-26T09:32:12,812 copying src/pmx/extensions/pmx/cpp_test.cpp -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-26T09:32:12,815 copying src/pmx/extensions/pmx/init.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-26T09:32:12,817 copying src/pmx/extensions/pmx/pmx.h -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-26T09:32:12,819 copying src/pmx/extensions/pmx/wrap_Geometry.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-26T09:32:12,823 creating build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-26T09:32:12,824 copying src/pmx/extensions/xdr/trr2xtc.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-26T09:32:12,827 copying src/pmx/extensions/xdr/xdrfile.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-26T09:32:12,831 copying src/pmx/extensions/xdr/xdrfile.h -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-26T09:32:12,834 copying src/pmx/extensions/xdr/xdrfile_c_test.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-26T09:32:12,837 copying src/pmx/extensions/xdr/xdrfile_trr.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-26T09:32:12,840 copying src/pmx/extensions/xdr/xdrfile_trr.h -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-26T09:32:12,842 copying src/pmx/extensions/xdr/xdrfile_xtc.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-26T09:32:12,845 copying src/pmx/extensions/xdr/xdrfile_xtc.h -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-26T09:32:12,847 creating build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,848 copying src/pmx/scripts/__init__.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,850 copying src/pmx/scripts/analyze_dhdl.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,854 copying src/pmx/scripts/atomMapping.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,857 copying src/pmx/scripts/build_cyclic_top.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,860 copying src/pmx/scripts/cli.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,862 copying src/pmx/scripts/generate_hybrid_residue.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,867 copying src/pmx/scripts/generate_hybrid_topology.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,869 copying src/pmx/scripts/ligandHybrid.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,872 copying src/pmx/scripts/make_double_box.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,874 copying src/pmx/scripts/md_setup.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,877 copying src/pmx/scripts/mutate.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,879 copying src/pmx/scripts/prepare_crooks_runs.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,882 copying src/pmx/scripts/set_gmxlib.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,884 copying src/pmx/scripts/setup_abfe.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-26T09:32:12,887 creating build/lib.linux-armv7l-cpython-39/pmx/scripts/icolos_entrypoints 2023-05-26T09:32:12,888 copying src/pmx/scripts/icolos_entrypoints/__init__.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts/icolos_entrypoints 2023-05-26T09:32:12,890 copying src/pmx/scripts/icolos_entrypoints/assemble_systems.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts/icolos_entrypoints 2023-05-26T09:32:12,895 UPDATING build/lib.linux-armv7l-cpython-39/pmx/_version.py 2023-05-26T09:32:12,896 set build/lib.linux-armv7l-cpython-39/pmx/_version.py to '3.0.1' 2023-05-26T09:32:12,896 running build_ext 2023-05-26T09:32:12,902 building 'pmx._pmx' extension 2023-05-26T09:32:12,903 creating build/temp.linux-armv7l-cpython-39 2023-05-26T09:32:12,904 creating build/temp.linux-armv7l-cpython-39/src 2023-05-26T09:32:12,904 creating build/temp.linux-armv7l-cpython-39/src/pmx 2023-05-26T09:32:12,905 creating build/temp.linux-armv7l-cpython-39/src/pmx/extensions 2023-05-26T09:32:12,906 creating build/temp.linux-armv7l-cpython-39/src/pmx/extensions/pmx 2023-05-26T09:32:12,907 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.9 -c src/pmx/extensions/pmx/Energy.c -o build/temp.linux-armv7l-cpython-39/src/pmx/extensions/pmx/Energy.o 2023-05-26T09:32:13,855 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.9 -c src/pmx/extensions/pmx/Geometry.c -o build/temp.linux-armv7l-cpython-39/src/pmx/extensions/pmx/Geometry.o 2023-05-26T09:32:14,173 src/pmx/extensions/pmx/Geometry.c: In function ‘spread_atoms_on_grid’: 2023-05-26T09:32:14,174 src/pmx/extensions/pmx/Geometry.c:527:15: warning: variable ‘nz’ set but not used [-Wunused-but-set-variable] 2023-05-26T09:32:14,174 527 | int nx, ny, nz; 2023-05-26T09:32:14,174 | ^~ 2023-05-26T09:32:14,175 src/pmx/extensions/pmx/Geometry.c: In function ‘search_neighbors’: 2023-05-26T09:32:14,175 src/pmx/extensions/pmx/Geometry.c:586:15: warning: variable ‘nz’ set but not used [-Wunused-but-set-variable] 2023-05-26T09:32:14,175 586 | int nx, ny, nz; 2023-05-26T09:32:14,175 | ^~ 2023-05-26T09:32:15,812 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.9 -c src/pmx/extensions/pmx/init.c -o build/temp.linux-armv7l-cpython-39/src/pmx/extensions/pmx/init.o 2023-05-26T09:32:16,160 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.9 -c src/pmx/extensions/pmx/wrap_Geometry.c -o build/temp.linux-armv7l-cpython-39/src/pmx/extensions/pmx/wrap_Geometry.o 2023-05-26T09:32:17,492 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/src/pmx/extensions/pmx/Energy.o build/temp.linux-armv7l-cpython-39/src/pmx/extensions/pmx/Geometry.o build/temp.linux-armv7l-cpython-39/src/pmx/extensions/pmx/init.o build/temp.linux-armv7l-cpython-39/src/pmx/extensions/pmx/wrap_Geometry.o -L/usr/lib -lm -o build/lib.linux-armv7l-cpython-39/pmx/_pmx.cpython-39-arm-linux-gnueabihf.so 2023-05-26T09:32:17,620 building 'pmx._xdrio' extension 2023-05-26T09:32:17,621 creating build/temp.linux-armv7l-cpython-39/src/pmx/extensions/xdr 2023-05-26T09:32:17,621 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pmx/extensions/xdr -I/usr/include/python3.9 -c src/pmx/extensions/xdr/xdrfile.c -o build/temp.linux-armv7l-cpython-39/src/pmx/extensions/xdr/xdrfile.o 2023-05-26T09:32:17,664 src/pmx/extensions/xdr/xdrfile.c:5:2: warning: "/*" within comment [-Wcomment] 2023-05-26T09:32:17,665 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2023-05-26T09:32:17,665 | 2023-05-26T09:32:17,737 In file included from src/pmx/extensions/xdr/xdrfile.c:60: 2023-05-26T09:32:17,737 src/pmx/extensions/xdr/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2023-05-26T09:32:17,738 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2023-05-26T09:32:17,738 | 2023-05-26T09:32:17,744 src/pmx/extensions/xdr/xdrfile.c: In function ‘sizeofint’: 2023-05-26T09:32:17,744 src/pmx/extensions/xdr/xdrfile.c:499:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-05-26T09:32:17,744 499 | while (size >= num && num_of_bits < 32) 2023-05-26T09:32:17,744 | ^~ 2023-05-26T09:32:17,745 src/pmx/extensions/xdr/xdrfile.c: In function ‘sizeofints’: 2023-05-26T09:32:17,745 src/pmx/extensions/xdr/xdrfile.c:545:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-26T09:32:17,745 545 | while (bytes[num_of_bytes] >= num) 2023-05-26T09:32:17,745 | ^~ 2023-05-26T09:32:17,746 src/pmx/extensions/xdr/xdrfile.c: In function ‘encodeints’: 2023-05-26T09:32:17,746 src/pmx/extensions/xdr/xdrfile.c:654:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-05-26T09:32:17,746 654 | if (num_of_bits >= num_of_bytes * 8) 2023-05-26T09:32:17,746 | ^~ 2023-05-26T09:32:17,747 src/pmx/extensions/xdr/xdrfile.c:656:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-05-26T09:32:17,747 656 | for (i = 0; i < num_of_bytes; i++) 2023-05-26T09:32:17,747 | ^ 2023-05-26T09:32:17,747 src/pmx/extensions/xdr/xdrfile.c:664:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-05-26T09:32:17,747 664 | for (i = 0; i < num_of_bytes-1; i++) 2023-05-26T09:32:17,747 | ^ 2023-05-26T09:32:17,747 src/pmx/extensions/xdr/xdrfile.c: In function ‘decodebits’: 2023-05-26T09:32:17,748 src/pmx/extensions/xdr/xdrfile.c:704:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-26T09:32:17,748 704 | if (lastbits < num_of_bits) 2023-05-26T09:32:17,748 | ^ 2023-05-26T09:32:17,750 src/pmx/extensions/xdr/xdrfile.c: In function ‘xdrfile_decompress_coord_float’: 2023-05-26T09:32:17,750 src/pmx/extensions/xdr/xdrfile.c:814:10: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-26T09:32:17,750 814 | if(size3>xfp->buf1size) 2023-05-26T09:32:17,750 | ^ 2023-05-26T09:32:17,752 src/pmx/extensions/xdr/xdrfile.c:866:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-26T09:32:17,752 866 | maxidx = (LASTIDXxfp->buf1size) 2023-05-26T09:32:17,756 | ^ 2023-05-26T09:32:17,761 src/pmx/extensions/xdr/xdrfile.c:1133:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-05-26T09:32:17,761 1133 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2023-05-26T09:32:17,761 | ^ 2023-05-26T09:32:17,762 src/pmx/extensions/xdr/xdrfile.c:1139:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-26T09:32:17,762 1139 | maxidx = (LASTIDXxfp->buf1size) 2023-05-26T09:32:17,768 | ^ 2023-05-26T09:32:17,770 src/pmx/extensions/xdr/xdrfile.c:1366:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-26T09:32:17,770 1366 | maxidx = (LASTIDXxfp->buf1size) { 2023-05-26T09:32:17,776 | ^ 2023-05-26T09:32:17,782 src/pmx/extensions/xdr/xdrfile.c:1617:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-05-26T09:32:17,783 1617 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2023-05-26T09:32:17,783 | ^ 2023-05-26T09:32:17,783 src/pmx/extensions/xdr/xdrfile.c:1622:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-26T09:32:17,783 1622 | maxidx = (LASTIDX build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,921 creating build/bdist.linux-armv7l/wheel/pmx/extensions 2023-05-26T09:32:20,922 creating build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-26T09:32:20,923 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/Geometry.h -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-26T09:32:20,926 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/Energy.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-26T09:32:20,929 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/wrap_Geometry.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-26T09:32:20,931 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/cpp_test.cpp -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-26T09:32:20,933 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/Geometry.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-26T09:32:20,936 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/pmx.h -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-26T09:32:20,938 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/init.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-26T09:32:20,940 creating build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-26T09:32:20,941 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile_xtc.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-26T09:32:20,943 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/trr2xtc.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-26T09:32:20,946 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile_c_test.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-26T09:32:20,948 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile.h -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-26T09:32:20,951 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-26T09:32:20,954 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile_xtc.h -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-26T09:32:20,956 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile_trr.h -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-26T09:32:20,958 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile_trr.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-26T09:32:20,960 copying build/lib.linux-armv7l-cpython-39/pmx/molecule.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,963 copying build/lib.linux-armv7l-cpython-39/pmx/rosetta_analyze.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,965 copying build/lib.linux-armv7l-cpython-39/pmx/atomselection.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,968 copying build/lib.linux-armv7l-cpython-39/pmx/mutdb.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,970 copying build/lib.linux-armv7l-cpython-39/pmx/_pmx.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,976 copying build/lib.linux-armv7l-cpython-39/pmx/ffparser.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,979 copying build/lib.linux-armv7l-cpython-39/pmx/rotamer.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,981 copying build/lib.linux-armv7l-cpython-39/pmx/ndx.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,983 copying build/lib.linux-armv7l-cpython-39/pmx/parser.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,985 copying build/lib.linux-armv7l-cpython-39/pmx/xtc.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,987 copying build/lib.linux-armv7l-cpython-39/pmx/_xdrio.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,993 copying build/lib.linux-armv7l-cpython-39/pmx/builder.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:20,995 creating build/bdist.linux-armv7l/wheel/pmx/data 2023-05-26T09:32:20,996 copying build/lib.linux-armv7l-cpython-39/pmx/data/bp.pkl -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-26T09:32:21,002 copying build/lib.linux-armv7l-cpython-39/pmx/data/bp_charmm.pkl -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-26T09:32:21,007 copying build/lib.linux-armv7l-cpython-39/pmx/data/bp_amber.pkl -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-26T09:32:21,014 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-26T09:32:21,015 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/vdwradii.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-26T09:32:21,017 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:21,018 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,023 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,025 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,027 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,029 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,031 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,033 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:21,061 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-26T09:32:21,103 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,105 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,125 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,126 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,128 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,130 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,131 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,133 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,135 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,136 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,140 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,142 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,145 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,147 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,149 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,151 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,153 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,155 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,160 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,162 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,164 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,167 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,171 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,173 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,175 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,188 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,190 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,192 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,195 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,197 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,199 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,201 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,203 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,208 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,209 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,211 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,215 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,217 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,219 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,222 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,253 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,307 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.r2b -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,309 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,311 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,313 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/urea.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,315 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/gbsa.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,317 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.r2b -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,319 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4pew.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,321 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,323 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,326 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,328 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.r2b -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,330 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,331 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.n.tdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,333 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,335 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,340 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.vsd -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,342 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,344 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,345 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip5p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,347 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.c.tdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,349 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,351 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,353 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,354 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,356 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-26T09:32:21,359 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/atommass.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-26T09:32:21,361 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,362 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,367 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,369 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,371 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,397 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/merged.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,400 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,419 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,462 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/merged.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,464 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,465 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/cmap.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,469 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,470 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/merged.c.tdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,472 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,496 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/merged.n.tdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,498 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/merged.r2b -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,500 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/mutres.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,501 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/nbfix.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,503 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/gb.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,505 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,507 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/merged.vsd -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,509 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/merged.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,527 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,529 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,531 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.mtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,539 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,541 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-26T09:32:21,543 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/residuetypes.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-26T09:32:21,545 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/spc216.gro -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-26T09:32:21,548 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/xlateat.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-26T09:32:21,551 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,551 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/dna.n.tdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,553 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/dna.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,555 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/aminoacids.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,556 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,559 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,560 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,566 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,593 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,645 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,647 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/cmap.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,649 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,651 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/ffnanonbonded.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,654 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/aminoacids.r2b -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,655 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/lipids.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,658 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/tip4pew.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,660 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/rna.c.tdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,661 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/tips3p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,663 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/dna.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,664 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,668 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/mutres.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,670 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/aminoacids.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,673 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/rna.r2b -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,674 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/gb.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,676 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,678 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/aminoacids.n.tdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,680 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/dna.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,682 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/aminoacids.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,685 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/rna.n.tdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,687 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/dna.c.tdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,688 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/aminoacids.vsd -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,691 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/lipids.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,692 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,694 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,696 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/tip5p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,697 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/aminoacids.c.tdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,699 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/rna.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,701 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,703 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/ffnabonded.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,707 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/rna.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,708 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,710 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff/rna.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-26T09:32:21,713 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,714 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/dna.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,716 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/aminoacids.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,718 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,721 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/Makefile.in -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,723 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,725 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,727 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,756 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,805 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/dna.r2b -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,807 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,809 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,811 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/urea.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,812 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/gbsa.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,814 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,816 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/tip4pew.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,818 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/dna.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,820 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,823 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,826 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/rna.r2b -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,827 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,830 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/aminoacids.n.tdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,831 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/dna.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,834 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,837 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,840 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,842 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,844 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/tip5p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,845 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/aminoacids.c.tdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,847 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/rna.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,850 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/Makefile.am -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,851 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,853 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/rna.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,855 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,857 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/rna.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-26T09:32:21,860 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/specbond.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-26T09:32:21,863 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:21,863 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,868 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,870 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,871 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,874 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,875 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,878 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:21,896 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-26T09:32:21,937 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,939 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,961 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,963 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,965 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,967 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,969 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,970 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,972 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,974 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,976 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,979 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,981 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,983 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,985 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,987 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,990 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,992 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,996 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:21,998 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,001 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,003 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,006 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,008 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,010 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,017 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,019 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,021 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,023 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,025 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,027 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,029 copying build/lib.linux-armv7l-cpython-39/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 2023-05-26T09:32:22,031 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/elements.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-26T09:32:22,033 copying build/lib.linux-armv7l-cpython-39/pmx/data/blosum62_new.mat -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-26T09:32:22,035 copying build/lib.linux-armv7l-cpython-39/pmx/data/rna.pkl -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-26T09:32:22,038 copying build/lib.linux-armv7l-cpython-39/pmx/data/bbdep.pkl -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-26T09:32:22,296 copying build/lib.linux-armv7l-cpython-39/pmx/data/aminoacids.pkl -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-26T09:32:22,302 copying build/lib.linux-armv7l-cpython-39/pmx/alchemy.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,306 creating build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,306 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/make_double_box.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,308 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/mutate.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,311 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/generate_hybrid_residue.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,314 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/cli.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,316 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/atomMapping.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,318 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/set_gmxlib.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,320 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/analyze_dhdl.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,322 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/__init__.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,323 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/ligandHybrid.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,326 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/prepare_crooks_runs.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,328 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/generate_hybrid_topology.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,330 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/build_cyclic_top.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,333 creating build/bdist.linux-armv7l/wheel/pmx/scripts/icolos_entrypoints 2023-05-26T09:32:22,334 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/icolos_entrypoints/assemble_systems.py -> build/bdist.linux-armv7l/wheel/pmx/scripts/icolos_entrypoints 2023-05-26T09:32:22,336 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/icolos_entrypoints/__init__.py -> build/bdist.linux-armv7l/wheel/pmx/scripts/icolos_entrypoints 2023-05-26T09:32:22,338 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/md_setup.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,340 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/setup_abfe.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-26T09:32:22,343 copying build/lib.linux-armv7l-cpython-39/pmx/chain.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,345 copying build/lib.linux-armv7l-cpython-39/pmx/__init__.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,347 copying build/lib.linux-armv7l-cpython-39/pmx/_version.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,349 copying build/lib.linux-armv7l-cpython-39/pmx/atom.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,351 copying build/lib.linux-armv7l-cpython-39/pmx/ligand_alchemy.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,355 copying build/lib.linux-armv7l-cpython-39/pmx/options.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,358 copying build/lib.linux-armv7l-cpython-39/pmx/library.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,361 copying build/lib.linux-armv7l-cpython-39/pmx/estimators.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,364 copying build/lib.linux-armv7l-cpython-39/pmx/jobscript.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,367 copying build/lib.linux-armv7l-cpython-39/pmx/forcefield.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,370 copying build/lib.linux-armv7l-cpython-39/pmx/model.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,373 copying build/lib.linux-armv7l-cpython-39/pmx/analysis.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,375 copying build/lib.linux-armv7l-cpython-39/pmx/utils.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,378 copying build/lib.linux-armv7l-cpython-39/pmx/geometry.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,380 copying build/lib.linux-armv7l-cpython-39/pmx/xdrfile.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,382 copying build/lib.linux-armv7l-cpython-39/pmx/gmx.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-26T09:32:22,384 running install_egg_info 2023-05-26T09:32:22,413 Copying src/pmx_biobb.egg-info to build/bdist.linux-armv7l/wheel/pmx_biobb-3.0.1-py3.9.egg-info 2023-05-26T09:32:22,428 running install_scripts 2023-05-26T09:32:22,445 adding license file "LICENSE" (matched pattern "LICEN[CS]E*") 2023-05-26T09:32:22,450 creating build/bdist.linux-armv7l/wheel/pmx_biobb-3.0.1.dist-info/WHEEL 2023-05-26T09:32:22,452 creating '/tmp/pip-wheel-bg7auzbo/pmx_biobb-3.0.1-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-05-26T09:32:22,455 adding 'pmx/__init__.py' 2023-05-26T09:32:22,493 adding 'pmx/_pmx.cpython-39-arm-linux-gnueabihf.so' 2023-05-26T09:32:22,496 adding 'pmx/_version.py' 2023-05-26T09:32:22,521 adding 'pmx/_xdrio.cpython-39-arm-linux-gnueabihf.so' 2023-05-26T09:32:22,530 adding 'pmx/alchemy.py' 2023-05-26T09:32:22,532 adding 'pmx/analysis.py' 2023-05-26T09:32:22,535 adding 'pmx/atom.py' 2023-05-26T09:32:22,537 adding 'pmx/atomselection.py' 2023-05-26T09:32:22,539 adding 'pmx/builder.py' 2023-05-26T09:32:22,543 adding 'pmx/chain.py' 2023-05-26T09:32:22,546 adding 'pmx/estimators.py' 2023-05-26T09:32:22,550 adding 'pmx/ffparser.py' 2023-05-26T09:32:22,559 adding 'pmx/forcefield.py' 2023-05-26T09:32:22,561 adding 'pmx/geometry.py' 2023-05-26T09:32:22,563 adding 'pmx/gmx.py' 2023-05-26T09:32:22,565 adding 'pmx/jobscript.py' 2023-05-26T09:32:22,573 adding 'pmx/library.py' 2023-05-26T09:32:22,586 adding 'pmx/ligand_alchemy.py' 2023-05-26T09:32:22,592 adding 'pmx/model.py' 2023-05-26T09:32:22,595 adding 'pmx/molecule.py' 2023-05-26T09:32:22,597 adding 'pmx/mutdb.py' 2023-05-26T09:32:22,599 adding 'pmx/ndx.py' 2023-05-26T09:32:22,601 adding 'pmx/options.py' 2023-05-26T09:32:22,603 adding 'pmx/parser.py' 2023-05-26T09:32:22,606 adding 'pmx/rosetta.py' 2023-05-26T09:32:22,608 adding 'pmx/rosetta_analyze.py' 2023-05-26T09:32:22,610 adding 'pmx/rotamer.py' 2023-05-26T09:32:22,613 adding 'pmx/utils.py' 2023-05-26T09:32:22,615 adding 'pmx/xdrfile.py' 2023-05-26T09:32:22,616 adding 'pmx/xtc.py' 2023-05-26T09:32:22,643 adding 'pmx/data/aminoacids.pkl' 2023-05-26T09:32:24,468 adding 'pmx/data/bbdep.pkl' 2023-05-26T09:32:24,576 adding 'pmx/data/blosum62_new.mat' 2023-05-26T09:32:24,591 adding 'pmx/data/bp.pkl' 2023-05-26T09:32:24,611 adding 'pmx/data/bp_amber.pkl' 2023-05-26T09:32:24,632 adding 'pmx/data/bp_charmm.pkl' 2023-05-26T09:32:24,641 adding 'pmx/data/rna.pkl' 2023-05-26T09:32:24,644 adding 'pmx/data/mutff/atommass.dat' 2023-05-26T09:32:24,645 adding 'pmx/data/mutff/elements.dat' 2023-05-26T09:32:24,647 adding 'pmx/data/mutff/residuetypes.dat' 2023-05-26T09:32:24,654 adding 'pmx/data/mutff/spc216.gro' 2023-05-26T09:32:24,655 adding 'pmx/data/mutff/specbond.dat' 2023-05-26T09:32:24,656 adding 'pmx/data/mutff/vdwradii.dat' 2023-05-26T09:32:24,657 adding 'pmx/data/mutff/xlateat.dat' 2023-05-26T09:32:24,660 adding 'pmx/data/mutff/amber14sbmut.ff/Makefile.am' 2023-05-26T09:32:24,662 adding 'pmx/data/mutff/amber14sbmut.ff/Makefile.in' 2023-05-26T09:32:24,664 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.arn' 2023-05-26T09:32:24,665 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.c.tdb' 2023-05-26T09:32:24,667 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb' 2023-05-26T09:32:24,668 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.n.tdb' 2023-05-26T09:32:24,669 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b' 2023-05-26T09:32:24,676 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp' 2023-05-26T09:32:24,678 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd' 2023-05-26T09:32:24,680 adding 'pmx/data/mutff/amber14sbmut.ff/atomtypes.atp' 2023-05-26T09:32:24,681 adding 'pmx/data/mutff/amber14sbmut.ff/dna.arn' 2023-05-26T09:32:24,682 adding 'pmx/data/mutff/amber14sbmut.ff/dna.hdb' 2023-05-26T09:32:24,683 adding 'pmx/data/mutff/amber14sbmut.ff/dna.r2b' 2023-05-26T09:32:24,686 adding 'pmx/data/mutff/amber14sbmut.ff/dna.rtp' 2023-05-26T09:32:24,693 adding 'pmx/data/mutff/amber14sbmut.ff/ffbonded.itp' 2023-05-26T09:32:24,695 adding 'pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp' 2023-05-26T09:32:24,696 adding 'pmx/data/mutff/amber14sbmut.ff/forcefield.doc' 2023-05-26T09:32:24,697 adding 'pmx/data/mutff/amber14sbmut.ff/forcefield.itp' 2023-05-26T09:32:24,699 adding 'pmx/data/mutff/amber14sbmut.ff/gbsa.itp' 2023-05-26T09:32:24,700 adding 'pmx/data/mutff/amber14sbmut.ff/ions.itp' 2023-05-26T09:32:24,880 adding 'pmx/data/mutff/amber14sbmut.ff/mutres.mtp' 2023-05-26T09:32:24,964 adding 'pmx/data/mutff/amber14sbmut.ff/mutres.rtp' 2023-05-26T09:32:24,974 adding 'pmx/data/mutff/amber14sbmut.ff/rna.arn' 2023-05-26T09:32:24,975 adding 'pmx/data/mutff/amber14sbmut.ff/rna.hdb' 2023-05-26T09:32:24,976 adding 'pmx/data/mutff/amber14sbmut.ff/rna.r2b' 2023-05-26T09:32:24,979 adding 'pmx/data/mutff/amber14sbmut.ff/rna.rtp' 2023-05-26T09:32:24,980 adding 'pmx/data/mutff/amber14sbmut.ff/spc.itp' 2023-05-26T09:32:24,982 adding 'pmx/data/mutff/amber14sbmut.ff/spce.itp' 2023-05-26T09:32:24,983 adding 'pmx/data/mutff/amber14sbmut.ff/tip3p.itp' 2023-05-26T09:32:24,984 adding 'pmx/data/mutff/amber14sbmut.ff/tip4p.itp' 2023-05-26T09:32:24,985 adding 'pmx/data/mutff/amber14sbmut.ff/tip4pew.itp' 2023-05-26T09:32:24,987 adding 'pmx/data/mutff/amber14sbmut.ff/tip5p.itp' 2023-05-26T09:32:24,988 adding 'pmx/data/mutff/amber14sbmut.ff/urea.itp' 2023-05-26T09:32:24,989 adding 'pmx/data/mutff/amber14sbmut.ff/watermodels.dat' 2023-05-26T09:32:24,993 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn' 2023-05-26T09:32:24,995 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn_backup' 2023-05-26T09:32:24,996 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.c.tdb' 2023-05-26T09:32:24,998 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.hdb' 2023-05-26T09:32:24,999 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.n.tdb' 2023-05-26T09:32:25,000 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.r2b' 2023-05-26T09:32:25,008 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.rtp' 2023-05-26T09:32:25,011 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.vsd' 2023-05-26T09:32:25,012 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/atomtypes.atp' 2023-05-26T09:32:25,016 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_ffbonded_for_ildn_test.itp' 2023-05-26T09:32:25,079 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_mutres' 2023-05-26T09:32:25,090 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/correct_ffbonded.itp' 2023-05-26T09:32:25,092 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.arn' 2023-05-26T09:32:25,093 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.hdb' 2023-05-26T09:32:25,094 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.r2b' 2023-05-26T09:32:25,097 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.rtp' 2023-05-26T09:32:25,099 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffberger.itp' 2023-05-26T09:32:25,104 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffbonded.itp' 2023-05-26T09:32:25,106 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffnonbonded.itp' 2023-05-26T09:32:25,107 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.doc' 2023-05-26T09:32:25,108 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.itp' 2023-05-26T09:32:25,110 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/gbsa.itp' 2023-05-26T09:32:25,111 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ions.itp' 2023-05-26T09:32:25,268 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres.mtp' 2023-05-26T09:32:25,346 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres.rtp' 2023-05-26T09:32:25,372 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.mtp' 2023-05-26T09:32:25,382 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.rtp' 2023-05-26T09:32:25,385 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer.itp' 2023-05-26T09:32:25,387 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer_posre.itp' 2023-05-26T09:32:25,389 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.arn' 2023-05-26T09:32:25,390 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.hdb' 2023-05-26T09:32:25,391 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.r2b' 2023-05-26T09:32:25,394 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.rtp' 2023-05-26T09:32:25,395 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spc.itp' 2023-05-26T09:32:25,397 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spce.itp' 2023-05-26T09:32:25,398 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip3p.itp' 2023-05-26T09:32:25,399 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4p.itp' 2023-05-26T09:32:25,401 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4pew.itp' 2023-05-26T09:32:25,402 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip5p.itp' 2023-05-26T09:32:25,403 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/urea.itp' 2023-05-26T09:32:25,404 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/watermodels.dat' 2023-05-26T09:32:25,407 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.arn' 2023-05-26T09:32:25,408 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.c.tdb' 2023-05-26T09:32:25,410 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.hdb' 2023-05-26T09:32:25,411 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.n.tdb' 2023-05-26T09:32:25,412 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.r2b' 2023-05-26T09:32:25,421 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.rtp' 2023-05-26T09:32:25,423 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.vsd' 2023-05-26T09:32:25,424 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/atomtypes.atp' 2023-05-26T09:32:25,428 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_ffbonded_for_ildn_test.itp' 2023-05-26T09:32:25,490 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_mutres' 2023-05-26T09:32:25,502 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/correct_ffbonded.itp' 2023-05-26T09:32:25,503 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.arn' 2023-05-26T09:32:25,505 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.hdb' 2023-05-26T09:32:25,506 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.r2b' 2023-05-26T09:32:25,508 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.rtp' 2023-05-26T09:32:25,511 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffberger.itp' 2023-05-26T09:32:25,515 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffbonded.itp' 2023-05-26T09:32:25,516 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffnonbonded.itp' 2023-05-26T09:32:25,518 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.doc' 2023-05-26T09:32:25,519 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.itp' 2023-05-26T09:32:25,521 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/gbsa.itp' 2023-05-26T09:32:25,522 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ions.itp' 2023-05-26T09:32:25,679 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres.mtp' 2023-05-26T09:32:25,757 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres.rtp' 2023-05-26T09:32:25,782 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.mtp' 2023-05-26T09:32:25,791 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.rtp' 2023-05-26T09:32:25,795 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer.itp' 2023-05-26T09:32:25,797 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer_posre.itp' 2023-05-26T09:32:25,799 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.arn' 2023-05-26T09:32:25,800 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.hdb' 2023-05-26T09:32:25,801 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.r2b' 2023-05-26T09:32:25,803 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.rtp' 2023-05-26T09:32:25,805 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spc.itp' 2023-05-26T09:32:25,806 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spce.itp' 2023-05-26T09:32:25,807 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip3p.itp' 2023-05-26T09:32:25,809 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4p.itp' 2023-05-26T09:32:25,810 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4pew.itp' 2023-05-26T09:32:25,811 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip5p.itp' 2023-05-26T09:32:25,812 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/urea.itp' 2023-05-26T09:32:25,813 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/watermodels.dat' 2023-05-26T09:32:25,816 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.arn' 2023-05-26T09:32:25,817 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.c.tdb' 2023-05-26T09:32:25,819 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.hdb' 2023-05-26T09:32:25,820 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.n.tdb' 2023-05-26T09:32:25,821 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.r2b' 2023-05-26T09:32:25,830 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.rtp' 2023-05-26T09:32:25,832 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.vsd' 2023-05-26T09:32:25,834 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/atomtypes.atp' 2023-05-26T09:32:25,835 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.arn' 2023-05-26T09:32:25,836 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.hdb' 2023-05-26T09:32:25,837 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.r2b' 2023-05-26T09:32:25,840 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.rtp' 2023-05-26T09:32:25,844 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffbonded.itp' 2023-05-26T09:32:25,846 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffnonbonded.itp' 2023-05-26T09:32:25,847 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.doc' 2023-05-26T09:32:25,848 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.itp' 2023-05-26T09:32:25,849 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/gbsa.itp' 2023-05-26T09:32:25,851 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/ions.itp' 2023-05-26T09:32:26,038 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.mtp' 2023-05-26T09:32:26,131 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.rtp' 2023-05-26T09:32:26,141 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.arn' 2023-05-26T09:32:26,142 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.hdb' 2023-05-26T09:32:26,143 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.r2b' 2023-05-26T09:32:26,146 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.rtp' 2023-05-26T09:32:26,148 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/spc.itp' 2023-05-26T09:32:26,149 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/spce.itp' 2023-05-26T09:32:26,150 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip3p.itp' 2023-05-26T09:32:26,151 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4p.itp' 2023-05-26T09:32:26,153 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4pew.itp' 2023-05-26T09:32:26,154 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip5p.itp' 2023-05-26T09:32:26,155 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/urea.itp' 2023-05-26T09:32:26,156 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/watermodels.dat' 2023-05-26T09:32:26,159 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.arn' 2023-05-26T09:32:26,160 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.c.tdb' 2023-05-26T09:32:26,162 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.hdb' 2023-05-26T09:32:26,163 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.n.tdb' 2023-05-26T09:32:26,164 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.r2b' 2023-05-26T09:32:26,168 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.rtp' 2023-05-26T09:32:26,170 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.vsd' 2023-05-26T09:32:26,172 adding 'pmx/data/mutff/charmm22star-mut.ff/atomtypes.atp' 2023-05-26T09:32:26,177 adding 'pmx/data/mutff/charmm22star-mut.ff/cmap.itp' 2023-05-26T09:32:26,178 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.arn' 2023-05-26T09:32:26,180 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.c.tdb' 2023-05-26T09:32:26,181 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.hdb' 2023-05-26T09:32:26,182 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.n.tdb' 2023-05-26T09:32:26,184 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.rtp' 2023-05-26T09:32:26,192 adding 'pmx/data/mutff/charmm22star-mut.ff/ffbonded.itp' 2023-05-26T09:32:26,199 adding 'pmx/data/mutff/charmm22star-mut.ff/ffnabonded.itp' 2023-05-26T09:32:26,203 adding 'pmx/data/mutff/charmm22star-mut.ff/ffnanonbonded.itp' 2023-05-26T09:32:26,216 adding 'pmx/data/mutff/charmm22star-mut.ff/ffnonbonded.itp' 2023-05-26T09:32:26,218 adding 'pmx/data/mutff/charmm22star-mut.ff/forcefield.doc' 2023-05-26T09:32:26,220 adding 'pmx/data/mutff/charmm22star-mut.ff/forcefield.itp' 2023-05-26T09:32:26,221 adding 'pmx/data/mutff/charmm22star-mut.ff/gb.itp' 2023-05-26T09:32:26,222 adding 'pmx/data/mutff/charmm22star-mut.ff/ions.itp' 2023-05-26T09:32:26,223 adding 'pmx/data/mutff/charmm22star-mut.ff/lipids.hdb' 2023-05-26T09:32:26,228 adding 'pmx/data/mutff/charmm22star-mut.ff/lipids.rtp' 2023-05-26T09:32:26,229 adding 'pmx/data/mutff/charmm22star-mut.ff/mutres.arn' 2023-05-26T09:32:26,381 adding 'pmx/data/mutff/charmm22star-mut.ff/mutres.mtp' 2023-05-26T09:32:26,458 adding 'pmx/data/mutff/charmm22star-mut.ff/mutres.rtp' 2023-05-26T09:32:26,466 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.arn' 2023-05-26T09:32:26,467 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.c.tdb' 2023-05-26T09:32:26,469 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.hdb' 2023-05-26T09:32:26,470 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.n.tdb' 2023-05-26T09:32:26,471 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.r2b' 2023-05-26T09:32:26,473 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.rtp' 2023-05-26T09:32:26,474 adding 'pmx/data/mutff/charmm22star-mut.ff/spc.itp' 2023-05-26T09:32:26,475 adding 'pmx/data/mutff/charmm22star-mut.ff/spce.itp' 2023-05-26T09:32:26,477 adding 'pmx/data/mutff/charmm22star-mut.ff/tip3p.itp' 2023-05-26T09:32:26,478 adding 'pmx/data/mutff/charmm22star-mut.ff/tip4p.itp' 2023-05-26T09:32:26,479 adding 'pmx/data/mutff/charmm22star-mut.ff/tip4pew.itp' 2023-05-26T09:32:26,481 adding 'pmx/data/mutff/charmm22star-mut.ff/tip5p.itp' 2023-05-26T09:32:26,482 adding 'pmx/data/mutff/charmm22star-mut.ff/tips3p.itp' 2023-05-26T09:32:26,483 adding 'pmx/data/mutff/charmm22star-mut.ff/watermodels.dat' 2023-05-26T09:32:26,487 adding 'pmx/data/mutff/charmm36m-mut.ff/atomtypes.atp' 2023-05-26T09:32:26,500 adding 'pmx/data/mutff/charmm36m-mut.ff/cmap.itp' 2023-05-26T09:32:26,584 adding 'pmx/data/mutff/charmm36m-mut.ff/ffbonded.itp' 2023-05-26T09:32:26,711 adding 'pmx/data/mutff/charmm36m-mut.ff/ffnonbonded.itp' 2023-05-26T09:32:26,723 adding 'pmx/data/mutff/charmm36m-mut.ff/forcefield.doc' 2023-05-26T09:32:26,724 adding 'pmx/data/mutff/charmm36m-mut.ff/forcefield.itp' 2023-05-26T09:32:26,725 adding 'pmx/data/mutff/charmm36m-mut.ff/gb.itp' 2023-05-26T09:32:26,727 adding 'pmx/data/mutff/charmm36m-mut.ff/ions.itp' 2023-05-26T09:32:26,728 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.arn' 2023-05-26T09:32:26,729 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.c.tdb' 2023-05-26T09:32:26,731 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.hdb' 2023-05-26T09:32:26,732 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.n.tdb' 2023-05-26T09:32:26,733 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.r2b' 2023-05-26T09:32:26,871 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.rtp' 2023-05-26T09:32:26,879 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.vsd' 2023-05-26T09:32:26,881 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres.arn' 2023-05-26T09:32:27,047 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres.mtp' 2023-05-26T09:32:27,130 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres.rtp' 2023-05-26T09:32:27,155 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres_dna.mtp' 2023-05-26T09:32:27,164 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres_dna.rtp' 2023-05-26T09:32:27,166 adding 'pmx/data/mutff/charmm36m-mut.ff/nbfix.itp' 2023-05-26T09:32:27,167 adding 'pmx/data/mutff/charmm36m-mut.ff/spc.itp' 2023-05-26T09:32:27,169 adding 'pmx/data/mutff/charmm36m-mut.ff/spce.itp' 2023-05-26T09:32:27,170 adding 'pmx/data/mutff/charmm36m-mut.ff/tip3p.itp' 2023-05-26T09:32:27,172 adding 'pmx/data/mutff/charmm36m-mut.ff/tip4p.itp' 2023-05-26T09:32:27,173 adding 'pmx/data/mutff/charmm36m-mut.ff/watermodels.dat' 2023-05-26T09:32:27,176 adding 'pmx/extensions/pmx/Energy.c' 2023-05-26T09:32:27,179 adding 'pmx/extensions/pmx/Geometry.c' 2023-05-26T09:32:27,181 adding 'pmx/extensions/pmx/Geometry.h' 2023-05-26T09:32:27,183 adding 'pmx/extensions/pmx/cpp_test.cpp' 2023-05-26T09:32:27,184 adding 'pmx/extensions/pmx/init.c' 2023-05-26T09:32:27,186 adding 'pmx/extensions/pmx/pmx.h' 2023-05-26T09:32:27,188 adding 'pmx/extensions/pmx/wrap_Geometry.c' 2023-05-26T09:32:27,191 adding 'pmx/extensions/xdr/trr2xtc.c' 2023-05-26T09:32:27,197 adding 'pmx/extensions/xdr/xdrfile.c' 2023-05-26T09:32:27,200 adding 'pmx/extensions/xdr/xdrfile.h' 2023-05-26T09:32:27,202 adding 'pmx/extensions/xdr/xdrfile_c_test.c' 2023-05-26T09:32:27,205 adding 'pmx/extensions/xdr/xdrfile_trr.c' 2023-05-26T09:32:27,206 adding 'pmx/extensions/xdr/xdrfile_trr.h' 2023-05-26T09:32:27,207 adding 'pmx/extensions/xdr/xdrfile_xtc.c' 2023-05-26T09:32:27,209 adding 'pmx/extensions/xdr/xdrfile_xtc.h' 2023-05-26T09:32:27,211 adding 'pmx/scripts/__init__.py' 2023-05-26T09:32:27,214 adding 'pmx/scripts/analyze_dhdl.py' 2023-05-26T09:32:27,216 adding 'pmx/scripts/atomMapping.py' 2023-05-26T09:32:27,218 adding 'pmx/scripts/build_cyclic_top.py' 2023-05-26T09:32:27,220 adding 'pmx/scripts/cli.py' 2023-05-26T09:32:27,227 adding 'pmx/scripts/generate_hybrid_residue.py' 2023-05-26T09:32:27,229 adding 'pmx/scripts/generate_hybrid_topology.py' 2023-05-26T09:32:27,231 adding 'pmx/scripts/ligandHybrid.py' 2023-05-26T09:32:27,233 adding 'pmx/scripts/make_double_box.py' 2023-05-26T09:32:27,235 adding 'pmx/scripts/md_setup.py' 2023-05-26T09:32:27,238 adding 'pmx/scripts/mutate.py' 2023-05-26T09:32:27,240 adding 'pmx/scripts/prepare_crooks_runs.py' 2023-05-26T09:32:27,242 adding 'pmx/scripts/set_gmxlib.py' 2023-05-26T09:32:27,244 adding 'pmx/scripts/setup_abfe.py' 2023-05-26T09:32:27,246 adding 'pmx/scripts/icolos_entrypoints/__init__.py' 2023-05-26T09:32:27,247 adding 'pmx/scripts/icolos_entrypoints/assemble_systems.py' 2023-05-26T09:32:27,250 adding 'pmx_biobb-3.0.1.dist-info/LICENSE' 2023-05-26T09:32:27,252 adding 'pmx_biobb-3.0.1.dist-info/METADATA' 2023-05-26T09:32:27,253 adding 'pmx_biobb-3.0.1.dist-info/WHEEL' 2023-05-26T09:32:27,254 adding 'pmx_biobb-3.0.1.dist-info/entry_points.txt' 2023-05-26T09:32:27,254 adding 'pmx_biobb-3.0.1.dist-info/top_level.txt' 2023-05-26T09:32:27,259 adding 'pmx_biobb-3.0.1.dist-info/RECORD' 2023-05-26T09:32:27,354 removing build/bdist.linux-armv7l/wheel 2023-05-26T09:32:27,525 Building wheel for pmx-biobb (setup.py): finished with status 'done' 2023-05-26T09:32:27,586 Created wheel for pmx-biobb: filename=pmx_biobb-3.0.1-cp39-cp39-linux_armv7l.whl size=5907737 sha256=ee00c4200b2d58c9f38a7fd4e90bf138cd1a944485cce1bdbcb00cff45c8a842 2023-05-26T09:32:27,587 Stored in directory: /tmp/pip-ephem-wheel-cache-5klm2wxj/wheels/0a/c2/b8/778bae194164748d4d2b996e39d916b36d6bc1df2e7a65c4d2 2023-05-26T09:32:27,608 Successfully built pmx-biobb 2023-05-26T09:32:27,763 Removed build tracker: '/tmp/pip-build-tracker-t_0ux29h'