2023-05-16T20:03:03,219 Created temporary directory: /tmp/pip-build-tracker-lr7vh1tz 2023-05-16T20:03:03,220 Initialized build tracking at /tmp/pip-build-tracker-lr7vh1tz 2023-05-16T20:03:03,220 Created build tracker: /tmp/pip-build-tracker-lr7vh1tz 2023-05-16T20:03:03,220 Entered build tracker: /tmp/pip-build-tracker-lr7vh1tz 2023-05-16T20:03:03,221 Created temporary directory: /tmp/pip-wheel-gcp6cw28 2023-05-16T20:03:03,224 Created temporary directory: /tmp/pip-ephem-wheel-cache-tmj6di_e 2023-05-16T20:03:03,249 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-05-16T20:03:03,252 2 location(s) to search for versions of pmx-biobb: 2023-05-16T20:03:03,252 * https://pypi.org/simple/pmx-biobb/ 2023-05-16T20:03:03,252 * https://www.piwheels.org/simple/pmx-biobb/ 2023-05-16T20:03:03,253 Fetching project page and analyzing links: https://pypi.org/simple/pmx-biobb/ 2023-05-16T20:03:03,253 Getting page https://pypi.org/simple/pmx-biobb/ 2023-05-16T20:03:03,255 Found index url https://pypi.org/simple/ 2023-05-16T20:03:03,419 Fetched page https://pypi.org/simple/pmx-biobb/ as application/vnd.pypi.simple.v1+json 2023-05-16T20:03:03,421 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.*) 2023-05-16T20:03:03,422 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.*) 2023-05-16T20:03:03,422 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.*) 2023-05-16T20:03:03,422 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.*) 2023-05-16T20:03:03,422 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.*) 2023-05-16T20:03:03,423 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.*) 2023-05-16T20:03:03,423 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) 2023-05-16T20:03:03,423 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 2023-05-16T20:03:03,424 Fetching project page and analyzing links: https://www.piwheels.org/simple/pmx-biobb/ 2023-05-16T20:03:03,424 Getting page https://www.piwheels.org/simple/pmx-biobb/ 2023-05-16T20:03:03,425 Found index url https://www.piwheels.org/simple/ 2023-05-16T20:03:03,622 Fetched page https://www.piwheels.org/simple/pmx-biobb/ as text/html 2023-05-16T20:03:03,629 Skipping link: No binaries permitted for pmx-biobb: https://www.piwheels.org/simple/pmx-biobb/pmx_biobb-2.0.0-cp39-cp39-linux_aarch64.whl#sha256=b879d4d707ef4d3a3c8aa464dadc58457d8396a161e06f07389d258eb987d1f9 (from https://www.piwheels.org/simple/pmx-biobb/) (requires-python:>=3.7) 2023-05-16T20:03:03,630 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) 2023-05-16T20:03:03,631 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) 2023-05-16T20:03:03,631 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.*) 2023-05-16T20:03:03,632 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.*) 2023-05-16T20:03:03,632 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.*) 2023-05-16T20:03:03,632 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.*) 2023-05-16T20:03:03,633 Skipping link: not a file: https://www.piwheels.org/simple/pmx-biobb/ 2023-05-16T20:03:03,633 Skipping link: not a file: https://pypi.org/simple/pmx-biobb/ 2023-05-16T20:03:03,671 Given no hashes to check 1 links for project 'pmx-biobb': discarding no candidates 2023-05-16T20:03:03,707 Collecting pmx-biobb==2.0.0 2023-05-16T20:03:03,711 Created temporary directory: /tmp/pip-unpack-ifpos2vd 2023-05-16T20:03:03,764 Downloading pmx_biobb-2.0.0.tar.gz (5.3 MB) 2023-05-16T20:03:06,195 Added pmx-biobb==2.0.0 from https://files.pythonhosted.org/packages/32/7c/dd656cd2d785a7b9815e0ca54fb9bec35c258cdc058d9450726e65bc201c/pmx_biobb-2.0.0.tar.gz to build tracker '/tmp/pip-build-tracker-lr7vh1tz' 2023-05-16T20:03:06,198 Running setup.py (path:/tmp/pip-wheel-gcp6cw28/pmx-biobb_b2854b14efab407f8c48a9780f95616f/setup.py) egg_info for package pmx-biobb 2023-05-16T20:03:06,198 Created temporary directory: /tmp/pip-pip-egg-info-shim40fj 2023-05-16T20:03:06,199 Preparing metadata (setup.py): started 2023-05-16T20:03:06,199 Running command python setup.py egg_info 2023-05-16T20:03:06,843 running egg_info 2023-05-16T20:03:06,844 creating /tmp/pip-pip-egg-info-shim40fj/pmx_biobb.egg-info 2023-05-16T20:03:06,867 writing /tmp/pip-pip-egg-info-shim40fj/pmx_biobb.egg-info/PKG-INFO 2023-05-16T20:03:06,870 writing dependency_links to /tmp/pip-pip-egg-info-shim40fj/pmx_biobb.egg-info/dependency_links.txt 2023-05-16T20:03:06,872 writing entry points to /tmp/pip-pip-egg-info-shim40fj/pmx_biobb.egg-info/entry_points.txt 2023-05-16T20:03:06,873 writing requirements to /tmp/pip-pip-egg-info-shim40fj/pmx_biobb.egg-info/requires.txt 2023-05-16T20:03:06,874 writing top-level names to /tmp/pip-pip-egg-info-shim40fj/pmx_biobb.egg-info/top_level.txt 2023-05-16T20:03:06,876 writing manifest file '/tmp/pip-pip-egg-info-shim40fj/pmx_biobb.egg-info/SOURCES.txt' 2023-05-16T20:03:07,125 reading manifest file '/tmp/pip-pip-egg-info-shim40fj/pmx_biobb.egg-info/SOURCES.txt' 2023-05-16T20:03:07,126 reading manifest template 'MANIFEST.in' 2023-05-16T20:03:07,148 adding license file 'LICENSE' 2023-05-16T20:03:07,161 writing manifest file '/tmp/pip-pip-egg-info-shim40fj/pmx_biobb.egg-info/SOURCES.txt' 2023-05-16T20:03:07,234 Preparing metadata (setup.py): finished with status 'done' 2023-05-16T20:03:07,239 Source in /tmp/pip-wheel-gcp6cw28/pmx-biobb_b2854b14efab407f8c48a9780f95616f has version 2.0.0, which satisfies requirement pmx-biobb==2.0.0 from https://files.pythonhosted.org/packages/32/7c/dd656cd2d785a7b9815e0ca54fb9bec35c258cdc058d9450726e65bc201c/pmx_biobb-2.0.0.tar.gz 2023-05-16T20:03:07,240 Removed pmx-biobb==2.0.0 from https://files.pythonhosted.org/packages/32/7c/dd656cd2d785a7b9815e0ca54fb9bec35c258cdc058d9450726e65bc201c/pmx_biobb-2.0.0.tar.gz from build tracker '/tmp/pip-build-tracker-lr7vh1tz' 2023-05-16T20:03:07,247 Created temporary directory: /tmp/pip-unpack-cm619jba 2023-05-16T20:03:07,247 Building wheels for collected packages: pmx-biobb 2023-05-16T20:03:07,251 Created temporary directory: /tmp/pip-wheel-1fy_kdjc 2023-05-16T20:03:07,251 Building wheel for pmx-biobb (setup.py): started 2023-05-16T20:03:07,252 Destination directory: /tmp/pip-wheel-1fy_kdjc 2023-05-16T20:03:07,252 Running command python setup.py bdist_wheel 2023-05-16T20:03:08,058 running bdist_wheel 2023-05-16T20:03:08,347 running build 2023-05-16T20:03:08,348 running build_py 2023-05-16T20:03:08,352 creating build 2023-05-16T20:03:08,353 creating build/lib.linux-armv7l-cpython-39 2023-05-16T20:03:08,354 creating build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,355 copying src/pmx/__init__.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,357 copying src/pmx/atom.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,360 copying src/pmx/gmx.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,363 copying src/pmx/_version.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,364 copying src/pmx/estimators.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,368 copying src/pmx/chain.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,370 copying src/pmx/options.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,373 copying src/pmx/ndx.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,376 copying src/pmx/geometry.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,378 copying src/pmx/alchemy.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,381 copying src/pmx/forcefield.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,385 copying src/pmx/analysis.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,388 copying src/pmx/atomselection.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,391 copying src/pmx/library.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,396 copying src/pmx/molecule.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,399 copying src/pmx/rosetta.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,401 copying src/pmx/builder.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,404 copying src/pmx/jobscript.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,406 copying src/pmx/model.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,409 copying src/pmx/parser.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,412 copying src/pmx/ffparser.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,415 copying src/pmx/mutdb.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,417 copying src/pmx/xtc.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,419 copying src/pmx/ligand_alchemy.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,424 copying src/pmx/rotamer.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,426 copying src/pmx/utils.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,429 copying src/pmx/xdrfile.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,432 copying src/pmx/rosetta_analyze.py -> build/lib.linux-armv7l-cpython-39/pmx 2023-05-16T20:03:08,434 running egg_info 2023-05-16T20:03:08,488 writing src/pmx_biobb.egg-info/PKG-INFO 2023-05-16T20:03:08,490 writing dependency_links to src/pmx_biobb.egg-info/dependency_links.txt 2023-05-16T20:03:08,493 writing entry points to src/pmx_biobb.egg-info/entry_points.txt 2023-05-16T20:03:08,495 writing requirements to src/pmx_biobb.egg-info/requires.txt 2023-05-16T20:03:08,496 writing top-level names to src/pmx_biobb.egg-info/top_level.txt 2023-05-16T20:03:08,523 reading manifest file 'src/pmx_biobb.egg-info/SOURCES.txt' 2023-05-16T20:03:08,533 reading manifest template 'MANIFEST.in' 2023-05-16T20:03:08,549 adding license file 'LICENSE' 2023-05-16T20:03:08,567 writing manifest file 'src/pmx_biobb.egg-info/SOURCES.txt' 2023-05-16T20:03:08,571 /usr/local/lib/python3.9/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'pmx.data' is absent from the `packages` configuration. 2023-05-16T20:03:08,571 !! 2023-05-16T20:03:08,571 ******************************************************************************** 2023-05-16T20:03:08,571 ############################ 2023-05-16T20:03:08,571 # Package would be ignored # 2023-05-16T20:03:08,572 ############################ 2023-05-16T20:03:08,572 Python recognizes 'pmx.data' as an importable package[^1], 2023-05-16T20:03:08,572 but it is absent from setuptools' `packages` configuration. 2023-05-16T20:03:08,572 This leads to an ambiguous overall configuration. If you want to distribute this 2023-05-16T20:03:08,572 package, please make sure that 'pmx.data' is explicitly added 2023-05-16T20:03:08,572 to the `packages` configuration field. 2023-05-16T20:03:08,572 Alternatively, you can also rely on setuptools' discovery methods 2023-05-16T20:03:08,573 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-05-16T20:03:08,573 instead of `find_packages(...)`/`find:`). 2023-05-16T20:03:08,573 You can read more about "package discovery" on setuptools documentation page: 2023-05-16T20:03:08,573 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-05-16T20:03:08,573 If you don't want 'pmx.data' to be distributed and are 2023-05-16T20:03:08,573 already explicitly excluding 'pmx.data' via 2023-05-16T20:03:08,574 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-05-16T20:03:08,574 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-05-16T20:03:08,574 combination with a more fine grained `package-data` configuration. 2023-05-16T20:03:08,574 You can read more about "package data files" on setuptools documentation page: 2023-05-16T20:03:08,574 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-05-16T20:03:08,575 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-05-16T20:03:08,575 even if it does not contain any `.py` files. 2023-05-16T20:03:08,575 On the other hand, currently there is no concept of package data 2023-05-16T20:03:08,575 directory, all directories are treated like packages. 2023-05-16T20:03:08,575 ******************************************************************************** 2023-05-16T20:03:08,575 !! 2023-05-16T20:03:08,576 check.warn(importable) 2023-05-16T20:03:08,576 /usr/local/lib/python3.9/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'pmx.data.mutff' is absent from the `packages` configuration. 2023-05-16T20:03:08,576 !! 2023-05-16T20:03:08,576 ******************************************************************************** 2023-05-16T20:03:08,576 ############################ 2023-05-16T20:03:08,576 # Package would be ignored # 2023-05-16T20:03:08,576 ############################ 2023-05-16T20:03:08,577 Python recognizes 'pmx.data.mutff' as an importable package[^1], 2023-05-16T20:03:08,577 but it is absent from setuptools' `packages` configuration. 2023-05-16T20:03:08,577 This leads to an ambiguous overall configuration. If you want to distribute this 2023-05-16T20:03:08,577 package, please make sure that 'pmx.data.mutff' is explicitly added 2023-05-16T20:03:08,577 to the `packages` configuration field. 2023-05-16T20:03:08,577 Alternatively, you can also rely on setuptools' discovery methods 2023-05-16T20:03:08,577 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-05-16T20:03:08,578 instead of `find_packages(...)`/`find:`). 2023-05-16T20:03:08,578 You can read more about "package discovery" on setuptools documentation page: 2023-05-16T20:03:08,578 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-05-16T20:03:08,578 If you don't want 'pmx.data.mutff' to be distributed and are 2023-05-16T20:03:08,578 already explicitly excluding 'pmx.data.mutff' via 2023-05-16T20:03:08,579 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-05-16T20:03:08,579 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-05-16T20:03:08,579 combination with a more fine grained `package-data` configuration. 2023-05-16T20:03:08,579 You can read more about "package data files" on setuptools documentation page: 2023-05-16T20:03:08,579 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-05-16T20:03:08,580 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-05-16T20:03:08,580 even if it does not contain any `.py` files. 2023-05-16T20:03:08,580 On the other hand, currently there is no concept of package data 2023-05-16T20:03:08,580 directory, all directories are treated like packages. 2023-05-16T20:03:08,580 ******************************************************************************** 2023-05-16T20:03:08,580 !! 2023-05-16T20:03:08,580 check.warn(importable) 2023-05-16T20:03:08,594 /usr/local/lib/python3.9/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'pmx.extensions.pmx' is absent from the `packages` configuration. 2023-05-16T20:03:08,594 !! 2023-05-16T20:03:08,595 ******************************************************************************** 2023-05-16T20:03:08,595 ############################ 2023-05-16T20:03:08,595 # Package would be ignored # 2023-05-16T20:03:08,595 ############################ 2023-05-16T20:03:08,595 Python recognizes 'pmx.extensions.pmx' as an importable package[^1], 2023-05-16T20:03:08,595 but it is absent from setuptools' `packages` configuration. 2023-05-16T20:03:08,595 This leads to an ambiguous overall configuration. If you want to distribute this 2023-05-16T20:03:08,596 package, please make sure that 'pmx.extensions.pmx' is explicitly added 2023-05-16T20:03:08,596 to the `packages` configuration field. 2023-05-16T20:03:08,596 Alternatively, you can also rely on setuptools' discovery methods 2023-05-16T20:03:08,596 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-05-16T20:03:08,596 instead of `find_packages(...)`/`find:`). 2023-05-16T20:03:08,596 You can read more about "package discovery" on setuptools documentation page: 2023-05-16T20:03:08,597 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-05-16T20:03:08,597 If you don't want 'pmx.extensions.pmx' to be distributed and are 2023-05-16T20:03:08,597 already explicitly excluding 'pmx.extensions.pmx' via 2023-05-16T20:03:08,597 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-05-16T20:03:08,597 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-05-16T20:03:08,597 combination with a more fine grained `package-data` configuration. 2023-05-16T20:03:08,598 You can read more about "package data files" on setuptools documentation page: 2023-05-16T20:03:08,598 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-05-16T20:03:08,598 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-05-16T20:03:08,598 even if it does not contain any `.py` files. 2023-05-16T20:03:08,598 On the other hand, currently there is no concept of package data 2023-05-16T20:03:08,598 directory, all directories are treated like packages. 2023-05-16T20:03:08,599 ******************************************************************************** 2023-05-16T20:03:08,599 !! 2023-05-16T20:03:08,599 check.warn(importable) 2023-05-16T20:03:08,599 /usr/local/lib/python3.9/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'pmx.extensions.xdr' is absent from the `packages` configuration. 2023-05-16T20:03:08,599 !! 2023-05-16T20:03:08,599 ******************************************************************************** 2023-05-16T20:03:08,600 ############################ 2023-05-16T20:03:08,600 # Package would be ignored # 2023-05-16T20:03:08,600 ############################ 2023-05-16T20:03:08,600 Python recognizes 'pmx.extensions.xdr' as an importable package[^1], 2023-05-16T20:03:08,600 but it is absent from setuptools' `packages` configuration. 2023-05-16T20:03:08,600 This leads to an ambiguous overall configuration. If you want to distribute this 2023-05-16T20:03:08,600 package, please make sure that 'pmx.extensions.xdr' is explicitly added 2023-05-16T20:03:08,600 to the `packages` configuration field. 2023-05-16T20:03:08,601 Alternatively, you can also rely on setuptools' discovery methods 2023-05-16T20:03:08,601 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-05-16T20:03:08,601 instead of `find_packages(...)`/`find:`). 2023-05-16T20:03:08,601 You can read more about "package discovery" on setuptools documentation page: 2023-05-16T20:03:08,601 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-05-16T20:03:08,601 If you don't want 'pmx.extensions.xdr' to be distributed and are 2023-05-16T20:03:08,602 already explicitly excluding 'pmx.extensions.xdr' via 2023-05-16T20:03:08,602 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-05-16T20:03:08,602 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-05-16T20:03:08,602 combination with a more fine grained `package-data` configuration. 2023-05-16T20:03:08,602 You can read more about "package data files" on setuptools documentation page: 2023-05-16T20:03:08,602 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-05-16T20:03:08,603 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-05-16T20:03:08,603 even if it does not contain any `.py` files. 2023-05-16T20:03:08,603 On the other hand, currently there is no concept of package data 2023-05-16T20:03:08,603 directory, all directories are treated like packages. 2023-05-16T20:03:08,603 ******************************************************************************** 2023-05-16T20:03:08,603 !! 2023-05-16T20:03:08,603 check.warn(importable) 2023-05-16T20:03:08,604 /usr/local/lib/python3.9/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'pmx.scripts' is absent from the `packages` configuration. 2023-05-16T20:03:08,604 !! 2023-05-16T20:03:08,604 ******************************************************************************** 2023-05-16T20:03:08,604 ############################ 2023-05-16T20:03:08,604 # Package would be ignored # 2023-05-16T20:03:08,604 ############################ 2023-05-16T20:03:08,604 Python recognizes 'pmx.scripts' as an importable package[^1], 2023-05-16T20:03:08,605 but it is absent from setuptools' `packages` configuration. 2023-05-16T20:03:08,605 This leads to an ambiguous overall configuration. If you want to distribute this 2023-05-16T20:03:08,605 package, please make sure that 'pmx.scripts' is explicitly added 2023-05-16T20:03:08,605 to the `packages` configuration field. 2023-05-16T20:03:08,605 Alternatively, you can also rely on setuptools' discovery methods 2023-05-16T20:03:08,605 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-05-16T20:03:08,605 instead of `find_packages(...)`/`find:`). 2023-05-16T20:03:08,606 You can read more about "package discovery" on setuptools documentation page: 2023-05-16T20:03:08,606 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-05-16T20:03:08,606 If you don't want 'pmx.scripts' to be distributed and are 2023-05-16T20:03:08,606 already explicitly excluding 'pmx.scripts' via 2023-05-16T20:03:08,606 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-05-16T20:03:08,606 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-05-16T20:03:08,606 combination with a more fine grained `package-data` configuration. 2023-05-16T20:03:08,607 You can read more about "package data files" on setuptools documentation page: 2023-05-16T20:03:08,607 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-05-16T20:03:08,607 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-05-16T20:03:08,607 even if it does not contain any `.py` files. 2023-05-16T20:03:08,607 On the other hand, currently there is no concept of package data 2023-05-16T20:03:08,608 directory, all directories are treated like packages. 2023-05-16T20:03:08,608 ******************************************************************************** 2023-05-16T20:03:08,608 !! 2023-05-16T20:03:08,608 check.warn(importable) 2023-05-16T20:03:08,608 /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. 2023-05-16T20:03:08,608 !! 2023-05-16T20:03:08,608 ******************************************************************************** 2023-05-16T20:03:08,609 ############################ 2023-05-16T20:03:08,609 # Package would be ignored # 2023-05-16T20:03:08,609 ############################ 2023-05-16T20:03:08,609 Python recognizes 'pmx.scripts.icolos_entrypoints' as an importable package[^1], 2023-05-16T20:03:08,609 but it is absent from setuptools' `packages` configuration. 2023-05-16T20:03:08,609 This leads to an ambiguous overall configuration. If you want to distribute this 2023-05-16T20:03:08,609 package, please make sure that 'pmx.scripts.icolos_entrypoints' is explicitly added 2023-05-16T20:03:08,609 to the `packages` configuration field. 2023-05-16T20:03:08,610 Alternatively, you can also rely on setuptools' discovery methods 2023-05-16T20:03:08,610 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-05-16T20:03:08,610 instead of `find_packages(...)`/`find:`). 2023-05-16T20:03:08,610 You can read more about "package discovery" on setuptools documentation page: 2023-05-16T20:03:08,610 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-05-16T20:03:08,610 If you don't want 'pmx.scripts.icolos_entrypoints' to be distributed and are 2023-05-16T20:03:08,611 already explicitly excluding 'pmx.scripts.icolos_entrypoints' via 2023-05-16T20:03:08,611 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-05-16T20:03:08,611 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-05-16T20:03:08,611 combination with a more fine grained `package-data` configuration. 2023-05-16T20:03:08,611 You can read more about "package data files" on setuptools documentation page: 2023-05-16T20:03:08,611 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-05-16T20:03:08,612 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-05-16T20:03:08,612 even if it does not contain any `.py` files. 2023-05-16T20:03:08,612 On the other hand, currently there is no concept of package data 2023-05-16T20:03:08,612 directory, all directories are treated like packages. 2023-05-16T20:03:08,612 ******************************************************************************** 2023-05-16T20:03:08,612 !! 2023-05-16T20:03:08,612 check.warn(importable) 2023-05-16T20:03:08,617 creating build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-16T20:03:08,618 copying src/pmx/data/aminoacids.pkl -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-16T20:03:08,623 copying src/pmx/data/bbdep.pkl -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-16T20:03:08,874 copying src/pmx/data/blosum62_new.mat -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-16T20:03:08,876 copying src/pmx/data/bp.pkl -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-16T20:03:08,881 copying src/pmx/data/bp_amber.pkl -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-16T20:03:08,887 copying src/pmx/data/bp_charmm.pkl -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-16T20:03:08,891 copying src/pmx/data/rna.pkl -> build/lib.linux-armv7l-cpython-39/pmx/data 2023-05-16T20:03:08,895 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-16T20:03:08,896 copying src/pmx/data/mutff/atommass.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-16T20:03:08,898 copying src/pmx/data/mutff/elements.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-16T20:03:08,900 copying src/pmx/data/mutff/residuetypes.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-16T20:03:08,902 copying src/pmx/data/mutff/spc216.gro -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-16T20:03:08,905 copying src/pmx/data/mutff/specbond.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-16T20:03:08,907 copying src/pmx/data/mutff/vdwradii.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-16T20:03:08,909 copying src/pmx/data/mutff/xlateat.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff 2023-05-16T20:03:08,910 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,911 copying src/pmx/data/mutff/amber14sbmut.ff/Makefile.am -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,913 copying src/pmx/data/mutff/amber14sbmut.ff/Makefile.in -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,916 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,918 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,920 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,922 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,924 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,926 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,930 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,932 copying src/pmx/data/mutff/amber14sbmut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,935 copying src/pmx/data/mutff/amber14sbmut.ff/dna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,936 copying src/pmx/data/mutff/amber14sbmut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,938 copying src/pmx/data/mutff/amber14sbmut.ff/dna.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,940 copying src/pmx/data/mutff/amber14sbmut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,943 copying src/pmx/data/mutff/amber14sbmut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,947 copying src/pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,949 copying src/pmx/data/mutff/amber14sbmut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,951 copying src/pmx/data/mutff/amber14sbmut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,953 copying src/pmx/data/mutff/amber14sbmut.ff/gbsa.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,955 copying src/pmx/data/mutff/amber14sbmut.ff/ions.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:08,957 copying src/pmx/data/mutff/amber14sbmut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,015 copying src/pmx/data/mutff/amber14sbmut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,248 copying src/pmx/data/mutff/amber14sbmut.ff/rna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,250 copying src/pmx/data/mutff/amber14sbmut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,252 copying src/pmx/data/mutff/amber14sbmut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,254 copying src/pmx/data/mutff/amber14sbmut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,257 copying src/pmx/data/mutff/amber14sbmut.ff/spc.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,259 copying src/pmx/data/mutff/amber14sbmut.ff/spce.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,262 copying src/pmx/data/mutff/amber14sbmut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,264 copying src/pmx/data/mutff/amber14sbmut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,266 copying src/pmx/data/mutff/amber14sbmut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,268 copying src/pmx/data/mutff/amber14sbmut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,270 copying src/pmx/data/mutff/amber14sbmut.ff/urea.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,273 copying src/pmx/data/mutff/amber14sbmut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:09,275 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-16T20:03:09,276 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 2023-05-16T20:03:09,279 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 2023-05-16T20:03:09,281 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 2023-05-16T20:03:09,283 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 2023-05-16T20:03:09,286 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 2023-05-16T20:03:09,288 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 2023-05-16T20:03:09,290 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 2023-05-16T20:03:09,294 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 2023-05-16T20:03:09,297 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 2023-05-16T20:03:09,299 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 2023-05-16T20:03:09,303 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 2023-05-16T20:03:09,322 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 2023-05-16T20:03:09,325 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 2023-05-16T20:03:09,327 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 2023-05-16T20:03:09,329 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 2023-05-16T20:03:09,331 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 2023-05-16T20:03:09,334 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 2023-05-16T20:03:09,337 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 2023-05-16T20:03:09,340 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 2023-05-16T20:03:09,342 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 2023-05-16T20:03:09,344 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 2023-05-16T20:03:09,346 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 2023-05-16T20:03:09,348 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 2023-05-16T20:03:09,351 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 2023-05-16T20:03:09,397 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 2023-05-16T20:03:09,416 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 2023-05-16T20:03:09,423 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 2023-05-16T20:03:09,428 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 2023-05-16T20:03:09,431 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 2023-05-16T20:03:09,433 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 2023-05-16T20:03:09,435 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 2023-05-16T20:03:09,438 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 2023-05-16T20:03:09,440 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 2023-05-16T20:03:09,443 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 2023-05-16T20:03:09,445 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 2023-05-16T20:03:09,447 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 2023-05-16T20:03:09,449 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 2023-05-16T20:03:09,451 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 2023-05-16T20:03:09,453 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 2023-05-16T20:03:09,455 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 2023-05-16T20:03:09,457 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 2023-05-16T20:03:09,459 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-16T20:03:09,460 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 2023-05-16T20:03:09,462 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 2023-05-16T20:03:09,464 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 2023-05-16T20:03:09,467 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 2023-05-16T20:03:09,469 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 2023-05-16T20:03:09,471 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 2023-05-16T20:03:09,475 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 2023-05-16T20:03:09,477 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 2023-05-16T20:03:09,480 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 2023-05-16T20:03:09,483 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 2023-05-16T20:03:09,510 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 2023-05-16T20:03:09,513 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 2023-05-16T20:03:09,515 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 2023-05-16T20:03:09,517 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 2023-05-16T20:03:09,519 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 2023-05-16T20:03:09,522 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 2023-05-16T20:03:09,524 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 2023-05-16T20:03:09,527 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 2023-05-16T20:03:09,530 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 2023-05-16T20:03:09,532 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 2023-05-16T20:03:09,534 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 2023-05-16T20:03:09,536 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 2023-05-16T20:03:09,538 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 2023-05-16T20:03:09,593 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 2023-05-16T20:03:09,626 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 2023-05-16T20:03:09,635 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 2023-05-16T20:03:09,640 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 2023-05-16T20:03:09,644 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 2023-05-16T20:03:09,647 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 2023-05-16T20:03:09,650 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 2023-05-16T20:03:09,653 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 2023-05-16T20:03:09,656 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 2023-05-16T20:03:09,660 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 2023-05-16T20:03:09,663 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 2023-05-16T20:03:09,666 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 2023-05-16T20:03:09,669 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 2023-05-16T20:03:09,672 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 2023-05-16T20:03:09,675 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 2023-05-16T20:03:09,677 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 2023-05-16T20:03:09,680 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 2023-05-16T20:03:09,683 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-16T20:03:09,684 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 2023-05-16T20:03:09,688 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 2023-05-16T20:03:09,691 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 2023-05-16T20:03:09,694 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 2023-05-16T20:03:09,697 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 2023-05-16T20:03:09,699 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 2023-05-16T20:03:09,705 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 2023-05-16T20:03:09,708 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 2023-05-16T20:03:09,711 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 2023-05-16T20:03:09,714 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 2023-05-16T20:03:09,717 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 2023-05-16T20:03:09,720 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 2023-05-16T20:03:09,724 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 2023-05-16T20:03:09,728 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 2023-05-16T20:03:09,731 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 2023-05-16T20:03:09,734 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 2023-05-16T20:03:09,737 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 2023-05-16T20:03:09,740 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 2023-05-16T20:03:09,742 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 2023-05-16T20:03:09,806 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 2023-05-16T20:03:09,829 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 2023-05-16T20:03:09,831 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 2023-05-16T20:03:09,834 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 2023-05-16T20:03:09,836 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 2023-05-16T20:03:09,840 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 2023-05-16T20:03:09,842 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 2023-05-16T20:03:09,844 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 2023-05-16T20:03:09,846 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 2023-05-16T20:03:09,848 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 2023-05-16T20:03:09,851 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 2023-05-16T20:03:09,853 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 2023-05-16T20:03:09,855 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 2023-05-16T20:03:09,858 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,859 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,861 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,864 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,867 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,869 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,871 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,875 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,878 copying src/pmx/data/mutff/charmm22star-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,881 copying src/pmx/data/mutff/charmm22star-mut.ff/cmap.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,884 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,886 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,888 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,891 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,893 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,896 copying src/pmx/data/mutff/charmm22star-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,900 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnabonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,903 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnanonbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,907 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,913 copying src/pmx/data/mutff/charmm22star-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,915 copying src/pmx/data/mutff/charmm22star-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,917 copying src/pmx/data/mutff/charmm22star-mut.ff/gb.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,920 copying src/pmx/data/mutff/charmm22star-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,922 copying src/pmx/data/mutff/charmm22star-mut.ff/lipids.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,924 copying src/pmx/data/mutff/charmm22star-mut.ff/lipids.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,927 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,929 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,974 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,993 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,995 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,997 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:09,999 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:10,000 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:10,002 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:10,005 copying src/pmx/data/mutff/charmm22star-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:10,006 copying src/pmx/data/mutff/charmm22star-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:10,008 copying src/pmx/data/mutff/charmm22star-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:10,010 copying src/pmx/data/mutff/charmm22star-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:10,012 copying src/pmx/data/mutff/charmm22star-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:10,014 copying src/pmx/data/mutff/charmm22star-mut.ff/tip5p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:10,016 copying src/pmx/data/mutff/charmm22star-mut.ff/tips3p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:10,018 copying src/pmx/data/mutff/charmm22star-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:10,019 creating build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,020 copying src/pmx/data/mutff/charmm36m-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,023 copying src/pmx/data/mutff/charmm36m-mut.ff/cmap.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,026 copying src/pmx/data/mutff/charmm36m-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,048 copying src/pmx/data/mutff/charmm36m-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,082 copying src/pmx/data/mutff/charmm36m-mut.ff/forcefield.doc -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,085 copying src/pmx/data/mutff/charmm36m-mut.ff/forcefield.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,088 copying src/pmx/data/mutff/charmm36m-mut.ff/gb.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,090 copying src/pmx/data/mutff/charmm36m-mut.ff/ions.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,092 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,095 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.c.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,097 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.hdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,100 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.n.tdb -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,102 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.r2b -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,104 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,123 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.vsd -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,126 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.arn -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,128 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,184 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,206 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,213 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,218 copying src/pmx/data/mutff/charmm36m-mut.ff/nbfix.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,220 copying src/pmx/data/mutff/charmm36m-mut.ff/spc.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,222 copying src/pmx/data/mutff/charmm36m-mut.ff/spce.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,224 copying src/pmx/data/mutff/charmm36m-mut.ff/tip3p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,227 copying src/pmx/data/mutff/charmm36m-mut.ff/tip4p.itp -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,229 copying src/pmx/data/mutff/charmm36m-mut.ff/watermodels.dat -> build/lib.linux-armv7l-cpython-39/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:10,231 creating build/lib.linux-armv7l-cpython-39/pmx/extensions 2023-05-16T20:03:10,231 creating build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-16T20:03:10,233 copying src/pmx/extensions/pmx/Energy.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-16T20:03:10,236 copying src/pmx/extensions/pmx/Geometry.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-16T20:03:10,238 copying src/pmx/extensions/pmx/Geometry.h -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-16T20:03:10,241 copying src/pmx/extensions/pmx/cpp_test.cpp -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-16T20:03:10,244 copying src/pmx/extensions/pmx/init.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-16T20:03:10,246 copying src/pmx/extensions/pmx/pmx.h -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-16T20:03:10,248 copying src/pmx/extensions/pmx/wrap_Geometry.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx 2023-05-16T20:03:10,251 creating build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-16T20:03:10,252 copying src/pmx/extensions/xdr/trr2xtc.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-16T20:03:10,255 copying src/pmx/extensions/xdr/xdrfile.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-16T20:03:10,259 copying src/pmx/extensions/xdr/xdrfile.h -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-16T20:03:10,262 copying src/pmx/extensions/xdr/xdrfile_c_test.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-16T20:03:10,265 copying src/pmx/extensions/xdr/xdrfile_trr.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-16T20:03:10,268 copying src/pmx/extensions/xdr/xdrfile_trr.h -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-16T20:03:10,270 copying src/pmx/extensions/xdr/xdrfile_xtc.c -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-16T20:03:10,273 copying src/pmx/extensions/xdr/xdrfile_xtc.h -> build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr 2023-05-16T20:03:10,275 creating build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,276 copying src/pmx/scripts/__init__.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,278 copying src/pmx/scripts/analyze_dhdl.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,281 copying src/pmx/scripts/atomMapping.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,284 copying src/pmx/scripts/build_cyclic_top.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,287 copying src/pmx/scripts/cli.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,289 copying src/pmx/scripts/generate_hybrid_residue.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,293 copying src/pmx/scripts/generate_hybrid_topology.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,296 copying src/pmx/scripts/ligandHybrid.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,299 copying src/pmx/scripts/make_double_box.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,301 copying src/pmx/scripts/md_setup.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,304 copying src/pmx/scripts/mutate.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,307 copying src/pmx/scripts/prepare_crooks_runs.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,310 copying src/pmx/scripts/set_gmxlib.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,312 copying src/pmx/scripts/setup_abfe.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts 2023-05-16T20:03:10,315 creating build/lib.linux-armv7l-cpython-39/pmx/scripts/icolos_entrypoints 2023-05-16T20:03:10,316 copying src/pmx/scripts/icolos_entrypoints/__init__.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts/icolos_entrypoints 2023-05-16T20:03:10,318 copying src/pmx/scripts/icolos_entrypoints/assemble_systems.py -> build/lib.linux-armv7l-cpython-39/pmx/scripts/icolos_entrypoints 2023-05-16T20:03:10,323 UPDATING build/lib.linux-armv7l-cpython-39/pmx/_version.py 2023-05-16T20:03:10,324 set build/lib.linux-armv7l-cpython-39/pmx/_version.py to '2.0.0' 2023-05-16T20:03:10,324 running build_ext 2023-05-16T20:03:10,330 building 'pmx._pmx' extension 2023-05-16T20:03:10,331 creating build/temp.linux-armv7l-cpython-39 2023-05-16T20:03:10,331 creating build/temp.linux-armv7l-cpython-39/src 2023-05-16T20:03:10,332 creating build/temp.linux-armv7l-cpython-39/src/pmx 2023-05-16T20:03:10,333 creating build/temp.linux-armv7l-cpython-39/src/pmx/extensions 2023-05-16T20:03:10,334 creating build/temp.linux-armv7l-cpython-39/src/pmx/extensions/pmx 2023-05-16T20:03:10,335 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 2023-05-16T20:03:11,296 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 2023-05-16T20:03:11,612 src/pmx/extensions/pmx/Geometry.c: In function ‘spread_atoms_on_grid’: 2023-05-16T20:03:11,612 src/pmx/extensions/pmx/Geometry.c:527:15: warning: variable ‘nz’ set but not used [-Wunused-but-set-variable] 2023-05-16T20:03:11,612 527 | int nx, ny, nz; 2023-05-16T20:03:11,612 | ^~ 2023-05-16T20:03:11,613 src/pmx/extensions/pmx/Geometry.c: In function ‘search_neighbors’: 2023-05-16T20:03:11,613 src/pmx/extensions/pmx/Geometry.c:586:15: warning: variable ‘nz’ set but not used [-Wunused-but-set-variable] 2023-05-16T20:03:11,613 586 | int nx, ny, nz; 2023-05-16T20:03:11,613 | ^~ 2023-05-16T20:03:13,249 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 2023-05-16T20:03:13,585 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 2023-05-16T20:03:14,915 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 2023-05-16T20:03:15,038 building 'pmx._xdrio' extension 2023-05-16T20:03:15,039 creating build/temp.linux-armv7l-cpython-39/src/pmx/extensions/xdr 2023-05-16T20:03:15,040 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 2023-05-16T20:03:15,081 src/pmx/extensions/xdr/xdrfile.c:5:2: warning: "/*" within comment [-Wcomment] 2023-05-16T20:03:15,081 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2023-05-16T20:03:15,082 | 2023-05-16T20:03:15,155 In file included from src/pmx/extensions/xdr/xdrfile.c:60: 2023-05-16T20:03:15,155 src/pmx/extensions/xdr/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2023-05-16T20:03:15,156 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2023-05-16T20:03:15,156 | 2023-05-16T20:03:15,162 src/pmx/extensions/xdr/xdrfile.c: In function ‘sizeofint’: 2023-05-16T20:03:15,162 src/pmx/extensions/xdr/xdrfile.c:499:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-05-16T20:03:15,162 499 | while (size >= num && num_of_bits < 32) 2023-05-16T20:03:15,162 | ^~ 2023-05-16T20:03:15,162 src/pmx/extensions/xdr/xdrfile.c: In function ‘sizeofints’: 2023-05-16T20:03:15,163 src/pmx/extensions/xdr/xdrfile.c:545:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-16T20:03:15,163 545 | while (bytes[num_of_bytes] >= num) 2023-05-16T20:03:15,163 | ^~ 2023-05-16T20:03:15,164 src/pmx/extensions/xdr/xdrfile.c: In function ‘encodeints’: 2023-05-16T20:03:15,164 src/pmx/extensions/xdr/xdrfile.c:654:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-05-16T20:03:15,164 654 | if (num_of_bits >= num_of_bytes * 8) 2023-05-16T20:03:15,164 | ^~ 2023-05-16T20:03:15,164 src/pmx/extensions/xdr/xdrfile.c:656:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-05-16T20:03:15,165 656 | for (i = 0; i < num_of_bytes; i++) 2023-05-16T20:03:15,165 | ^ 2023-05-16T20:03:15,165 src/pmx/extensions/xdr/xdrfile.c:664:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-05-16T20:03:15,165 664 | for (i = 0; i < num_of_bytes-1; i++) 2023-05-16T20:03:15,165 | ^ 2023-05-16T20:03:15,165 src/pmx/extensions/xdr/xdrfile.c: In function ‘decodebits’: 2023-05-16T20:03:15,166 src/pmx/extensions/xdr/xdrfile.c:704:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-16T20:03:15,166 704 | if (lastbits < num_of_bits) 2023-05-16T20:03:15,166 | ^ 2023-05-16T20:03:15,167 src/pmx/extensions/xdr/xdrfile.c: In function ‘xdrfile_decompress_coord_float’: 2023-05-16T20:03:15,168 src/pmx/extensions/xdr/xdrfile.c:814:10: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-16T20:03:15,168 814 | if(size3>xfp->buf1size) 2023-05-16T20:03:15,168 | ^ 2023-05-16T20:03:15,169 src/pmx/extensions/xdr/xdrfile.c:866:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-16T20:03:15,170 866 | maxidx = (LASTIDXxfp->buf1size) 2023-05-16T20:03:15,174 | ^ 2023-05-16T20:03:15,179 src/pmx/extensions/xdr/xdrfile.c:1133:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-05-16T20:03:15,179 1133 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2023-05-16T20:03:15,179 | ^ 2023-05-16T20:03:15,179 src/pmx/extensions/xdr/xdrfile.c:1139:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-16T20:03:15,179 1139 | maxidx = (LASTIDXxfp->buf1size) 2023-05-16T20:03:15,186 | ^ 2023-05-16T20:03:15,187 src/pmx/extensions/xdr/xdrfile.c:1366:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-16T20:03:15,188 1366 | maxidx = (LASTIDXxfp->buf1size) { 2023-05-16T20:03:15,194 | ^ 2023-05-16T20:03:15,200 src/pmx/extensions/xdr/xdrfile.c:1617:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-05-16T20:03:15,201 1617 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2023-05-16T20:03:15,201 | ^ 2023-05-16T20:03:15,201 src/pmx/extensions/xdr/xdrfile.c:1622:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-05-16T20:03:15,201 1622 | maxidx = (LASTIDX build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,321 copying build/lib.linux-armv7l-cpython-39/pmx/atom.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,323 copying build/lib.linux-armv7l-cpython-39/pmx/gmx.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,325 copying build/lib.linux-armv7l-cpython-39/pmx/_version.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,327 copying build/lib.linux-armv7l-cpython-39/pmx/estimators.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,330 copying build/lib.linux-armv7l-cpython-39/pmx/chain.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,332 copying build/lib.linux-armv7l-cpython-39/pmx/_xdrio.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,337 copying build/lib.linux-armv7l-cpython-39/pmx/options.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,339 copying build/lib.linux-armv7l-cpython-39/pmx/ndx.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,341 copying build/lib.linux-armv7l-cpython-39/pmx/geometry.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,343 copying build/lib.linux-armv7l-cpython-39/pmx/alchemy.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,347 copying build/lib.linux-armv7l-cpython-39/pmx/forcefield.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,351 copying build/lib.linux-armv7l-cpython-39/pmx/analysis.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:18,354 creating build/bdist.linux-armv7l/wheel/pmx/data 2023-05-16T20:03:18,355 copying build/lib.linux-armv7l-cpython-39/pmx/data/bbdep.pkl -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-16T20:03:18,617 copying build/lib.linux-armv7l-cpython-39/pmx/data/bp_charmm.pkl -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-16T20:03:18,622 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-16T20:03:18,623 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/spc216.gro -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-16T20:03:18,626 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/atommass.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-16T20:03:18,629 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/xlateat.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-16T20:03:18,632 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2023-05-16T20:03:18,633 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 2023-05-16T20:03:18,636 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 2023-05-16T20:03:18,680 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 2023-05-16T20:03:18,683 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 2023-05-16T20:03:18,691 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 2023-05-16T20:03:18,694 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 2023-05-16T20:03:18,696 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 2023-05-16T20:03:18,720 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 2023-05-16T20:03:18,722 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 2023-05-16T20:03:18,724 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 2023-05-16T20:03:18,726 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 2023-05-16T20:03:18,728 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 2023-05-16T20:03:18,731 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 2023-05-16T20:03:18,732 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 2023-05-16T20:03:18,735 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 2023-05-16T20:03:18,736 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 2023-05-16T20:03:18,765 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 2023-05-16T20:03:18,767 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 2023-05-16T20:03:18,770 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 2023-05-16T20:03:18,773 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 2023-05-16T20:03:18,775 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 2023-05-16T20:03:18,777 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 2023-05-16T20:03:18,779 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 2023-05-16T20:03:18,782 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 2023-05-16T20:03:18,785 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 2023-05-16T20:03:18,787 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 2023-05-16T20:03:18,789 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 2023-05-16T20:03:18,792 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 2023-05-16T20:03:18,794 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 2023-05-16T20:03:18,797 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 2023-05-16T20:03:18,801 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 2023-05-16T20:03:18,804 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 2023-05-16T20:03:18,807 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 2023-05-16T20:03:18,810 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 2023-05-16T20:03:18,812 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 2023-05-16T20:03:18,814 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 2023-05-16T20:03:18,816 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 2023-05-16T20:03:18,819 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 2023-05-16T20:03:18,821 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 2023-05-16T20:03:18,823 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 2023-05-16T20:03:18,825 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/residuetypes.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-16T20:03:18,828 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/specbond.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-16T20:03:18,830 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/vdwradii.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-16T20:03:18,833 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm36m-mut.ff 2023-05-16T20:03:18,834 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 2023-05-16T20:03:18,913 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 2023-05-16T20:03:18,920 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 2023-05-16T20:03:18,922 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 2023-05-16T20:03:18,943 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 2023-05-16T20:03:18,946 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 2023-05-16T20:03:18,948 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 2023-05-16T20:03:18,950 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 2023-05-16T20:03:18,980 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 2023-05-16T20:03:18,982 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 2023-05-16T20:03:18,983 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 2023-05-16T20:03:19,001 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 2023-05-16T20:03:19,003 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 2023-05-16T20:03:19,005 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 2023-05-16T20:03:19,007 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 2023-05-16T20:03:19,009 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 2023-05-16T20:03:19,010 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 2023-05-16T20:03:19,012 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 2023-05-16T20:03:19,014 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 2023-05-16T20:03:19,033 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 2023-05-16T20:03:19,037 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 2023-05-16T20:03:19,041 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 2023-05-16T20:03:19,043 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 2023-05-16T20:03:19,045 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 2023-05-16T20:03:19,047 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 2023-05-16T20:03:19,049 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 2023-05-16T20:03:19,052 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2023-05-16T20:03:19,053 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 2023-05-16T20:03:19,055 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 2023-05-16T20:03:19,120 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 2023-05-16T20:03:19,122 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 2023-05-16T20:03:19,124 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 2023-05-16T20:03:19,126 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 2023-05-16T20:03:19,150 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 2023-05-16T20:03:19,153 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 2023-05-16T20:03:19,154 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 2023-05-16T20:03:19,156 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 2023-05-16T20:03:19,158 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 2023-05-16T20:03:19,160 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 2023-05-16T20:03:19,162 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 2023-05-16T20:03:19,163 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 2023-05-16T20:03:19,165 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 2023-05-16T20:03:19,168 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 2023-05-16T20:03:19,170 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 2023-05-16T20:03:19,172 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 2023-05-16T20:03:19,174 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 2023-05-16T20:03:19,176 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 2023-05-16T20:03:19,177 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 2023-05-16T20:03:19,179 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 2023-05-16T20:03:19,182 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 2023-05-16T20:03:19,184 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 2023-05-16T20:03:19,188 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 2023-05-16T20:03:19,190 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 2023-05-16T20:03:19,192 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 2023-05-16T20:03:19,193 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 2023-05-16T20:03:19,195 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 2023-05-16T20:03:19,198 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 2023-05-16T20:03:19,200 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 2023-05-16T20:03:19,202 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 2023-05-16T20:03:19,204 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/charmm22star-mut.ff 2023-05-16T20:03:19,205 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 2023-05-16T20:03:19,207 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 2023-05-16T20:03:19,250 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 2023-05-16T20:03:19,252 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 2023-05-16T20:03:19,254 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 2023-05-16T20:03:19,255 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 2023-05-16T20:03:19,275 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 2023-05-16T20:03:19,277 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 2023-05-16T20:03:19,281 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 2023-05-16T20:03:19,283 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 2023-05-16T20:03:19,284 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 2023-05-16T20:03:19,290 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 2023-05-16T20:03:19,291 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 2023-05-16T20:03:19,293 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 2023-05-16T20:03:19,295 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 2023-05-16T20:03:19,297 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 2023-05-16T20:03:19,299 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 2023-05-16T20:03:19,300 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 2023-05-16T20:03:19,302 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 2023-05-16T20:03:19,304 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 2023-05-16T20:03:19,307 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 2023-05-16T20:03:19,308 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 2023-05-16T20:03:19,310 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 2023-05-16T20:03:19,312 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 2023-05-16T20:03:19,314 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 2023-05-16T20:03:19,315 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 2023-05-16T20:03:19,319 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 2023-05-16T20:03:19,320 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 2023-05-16T20:03:19,324 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 2023-05-16T20:03:19,326 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 2023-05-16T20:03:19,329 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 2023-05-16T20:03:19,332 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 2023-05-16T20:03:19,335 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 2023-05-16T20:03:19,337 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 2023-05-16T20:03:19,338 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 2023-05-16T20:03:19,340 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 2023-05-16T20:03:19,342 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 2023-05-16T20:03:19,344 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 2023-05-16T20:03:19,346 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 2023-05-16T20:03:19,348 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 2023-05-16T20:03:19,350 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 2023-05-16T20:03:19,352 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2023-05-16T20:03:19,353 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 2023-05-16T20:03:19,355 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 2023-05-16T20:03:19,407 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 2023-05-16T20:03:19,409 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 2023-05-16T20:03:19,415 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 2023-05-16T20:03:19,417 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 2023-05-16T20:03:19,419 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 2023-05-16T20:03:19,439 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 2023-05-16T20:03:19,441 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 2023-05-16T20:03:19,443 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 2023-05-16T20:03:19,445 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 2023-05-16T20:03:19,447 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 2023-05-16T20:03:19,449 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 2023-05-16T20:03:19,451 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 2023-05-16T20:03:19,453 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 2023-05-16T20:03:19,455 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 2023-05-16T20:03:19,483 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 2023-05-16T20:03:19,485 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 2023-05-16T20:03:19,487 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 2023-05-16T20:03:19,490 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 2023-05-16T20:03:19,492 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 2023-05-16T20:03:19,493 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 2023-05-16T20:03:19,495 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 2023-05-16T20:03:19,498 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 2023-05-16T20:03:19,500 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 2023-05-16T20:03:19,502 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 2023-05-16T20:03:19,504 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 2023-05-16T20:03:19,507 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 2023-05-16T20:03:19,508 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 2023-05-16T20:03:19,510 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 2023-05-16T20:03:19,513 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 2023-05-16T20:03:19,517 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 2023-05-16T20:03:19,519 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 2023-05-16T20:03:19,523 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 2023-05-16T20:03:19,525 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 2023-05-16T20:03:19,527 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 2023-05-16T20:03:19,529 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 2023-05-16T20:03:19,530 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 2023-05-16T20:03:19,533 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 2023-05-16T20:03:19,535 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 2023-05-16T20:03:19,537 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 2023-05-16T20:03:19,539 creating build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,540 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 2023-05-16T20:03:19,542 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/mutres.mtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,587 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/tip4pew.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,589 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/rna.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,591 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/forcefield.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,593 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/mutres.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,614 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/atomtypes.atp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,616 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 2023-05-16T20:03:19,617 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/spc.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,619 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,621 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/watermodels.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,623 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/dna.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,625 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/tip4p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,626 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/gbsa.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,628 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/dna.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,631 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,633 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/dna.r2b -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,635 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/urea.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,637 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/rna.r2b -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,638 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/tip5p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,640 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/ions.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,643 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/ffbonded.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,646 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,648 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,651 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/Makefile.in -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,654 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/aminoacids.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,656 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/tip3p.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,658 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/Makefile.am -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,659 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/spce.itp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,661 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/dna.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,663 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/rna.rtp -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,666 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,668 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/rna.arn -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,670 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/amber14sbmut.ff/forcefield.doc -> build/bdist.linux-armv7l/wheel/pmx/data/mutff/amber14sbmut.ff 2023-05-16T20:03:19,672 copying build/lib.linux-armv7l-cpython-39/pmx/data/mutff/elements.dat -> build/bdist.linux-armv7l/wheel/pmx/data/mutff 2023-05-16T20:03:19,674 copying build/lib.linux-armv7l-cpython-39/pmx/data/aminoacids.pkl -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-16T20:03:19,680 copying build/lib.linux-armv7l-cpython-39/pmx/data/rna.pkl -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-16T20:03:19,684 copying build/lib.linux-armv7l-cpython-39/pmx/data/bp_amber.pkl -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-16T20:03:19,690 copying build/lib.linux-armv7l-cpython-39/pmx/data/blosum62_new.mat -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-16T20:03:19,692 copying build/lib.linux-armv7l-cpython-39/pmx/data/bp.pkl -> build/bdist.linux-armv7l/wheel/pmx/data 2023-05-16T20:03:19,697 copying build/lib.linux-armv7l-cpython-39/pmx/atomselection.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,700 copying build/lib.linux-armv7l-cpython-39/pmx/library.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,706 copying build/lib.linux-armv7l-cpython-39/pmx/molecule.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,709 copying build/lib.linux-armv7l-cpython-39/pmx/rosetta.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,712 copying build/lib.linux-armv7l-cpython-39/pmx/builder.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,716 copying build/lib.linux-armv7l-cpython-39/pmx/jobscript.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,719 copying build/lib.linux-armv7l-cpython-39/pmx/model.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,723 creating build/bdist.linux-armv7l/wheel/pmx/extensions 2023-05-16T20:03:19,725 creating build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-16T20:03:19,726 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile_xtc.h -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-16T20:03:19,729 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile_c_test.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-16T20:03:19,732 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile_xtc.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-16T20:03:19,734 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/trr2xtc.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-16T20:03:19,737 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile_trr.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-16T20:03:19,740 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-16T20:03:19,745 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile.h -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-16T20:03:19,748 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/xdr/xdrfile_trr.h -> build/bdist.linux-armv7l/wheel/pmx/extensions/xdr 2023-05-16T20:03:19,750 creating build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-16T20:03:19,751 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/pmx.h -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-16T20:03:19,754 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/Energy.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-16T20:03:19,757 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/Geometry.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-16T20:03:19,760 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/Geometry.h -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-16T20:03:19,763 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/cpp_test.cpp -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-16T20:03:19,765 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/wrap_Geometry.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-16T20:03:19,768 copying build/lib.linux-armv7l-cpython-39/pmx/extensions/pmx/init.c -> build/bdist.linux-armv7l/wheel/pmx/extensions/pmx 2023-05-16T20:03:19,770 copying build/lib.linux-armv7l-cpython-39/pmx/parser.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,772 copying build/lib.linux-armv7l-cpython-39/pmx/_pmx.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,779 copying build/lib.linux-armv7l-cpython-39/pmx/ffparser.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,782 copying build/lib.linux-armv7l-cpython-39/pmx/mutdb.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,784 copying build/lib.linux-armv7l-cpython-39/pmx/xtc.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,786 copying build/lib.linux-armv7l-cpython-39/pmx/ligand_alchemy.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,792 creating build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,793 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/cli.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,796 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/atomMapping.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,798 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/__init__.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,800 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/generate_hybrid_topology.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,803 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/md_setup.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,808 creating build/bdist.linux-armv7l/wheel/pmx/scripts/icolos_entrypoints 2023-05-16T20:03:19,809 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/icolos_entrypoints/__init__.py -> build/bdist.linux-armv7l/wheel/pmx/scripts/icolos_entrypoints 2023-05-16T20:03:19,811 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/icolos_entrypoints/assemble_systems.py -> build/bdist.linux-armv7l/wheel/pmx/scripts/icolos_entrypoints 2023-05-16T20:03:19,814 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/analyze_dhdl.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,819 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/set_gmxlib.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,822 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/prepare_crooks_runs.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,825 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/build_cyclic_top.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,829 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/generate_hybrid_residue.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,835 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/make_double_box.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,837 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/ligandHybrid.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,841 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/mutate.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,845 copying build/lib.linux-armv7l-cpython-39/pmx/scripts/setup_abfe.py -> build/bdist.linux-armv7l/wheel/pmx/scripts 2023-05-16T20:03:19,848 copying build/lib.linux-armv7l-cpython-39/pmx/rotamer.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,851 copying build/lib.linux-armv7l-cpython-39/pmx/utils.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,855 copying build/lib.linux-armv7l-cpython-39/pmx/xdrfile.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,858 copying build/lib.linux-armv7l-cpython-39/pmx/rosetta_analyze.py -> build/bdist.linux-armv7l/wheel/pmx 2023-05-16T20:03:19,861 running install_egg_info 2023-05-16T20:03:19,899 Copying src/pmx_biobb.egg-info to build/bdist.linux-armv7l/wheel/pmx_biobb-2.0.0-py3.9.egg-info 2023-05-16T20:03:19,913 running install_scripts 2023-05-16T20:03:19,930 adding license file "LICENSE" (matched pattern "LICEN[CS]E*") 2023-05-16T20:03:19,935 creating build/bdist.linux-armv7l/wheel/pmx_biobb-2.0.0.dist-info/WHEEL 2023-05-16T20:03:19,938 creating '/tmp/pip-wheel-1fy_kdjc/pmx_biobb-2.0.0-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-05-16T20:03:19,941 adding 'pmx/__init__.py' 2023-05-16T20:03:19,979 adding 'pmx/_pmx.cpython-39-arm-linux-gnueabihf.so' 2023-05-16T20:03:19,982 adding 'pmx/_version.py' 2023-05-16T20:03:20,008 adding 'pmx/_xdrio.cpython-39-arm-linux-gnueabihf.so' 2023-05-16T20:03:20,018 adding 'pmx/alchemy.py' 2023-05-16T20:03:20,021 adding 'pmx/analysis.py' 2023-05-16T20:03:20,023 adding 'pmx/atom.py' 2023-05-16T20:03:20,026 adding 'pmx/atomselection.py' 2023-05-16T20:03:20,029 adding 'pmx/builder.py' 2023-05-16T20:03:20,033 adding 'pmx/chain.py' 2023-05-16T20:03:20,037 adding 'pmx/estimators.py' 2023-05-16T20:03:20,040 adding 'pmx/ffparser.py' 2023-05-16T20:03:20,050 adding 'pmx/forcefield.py' 2023-05-16T20:03:20,053 adding 'pmx/geometry.py' 2023-05-16T20:03:20,055 adding 'pmx/gmx.py' 2023-05-16T20:03:20,057 adding 'pmx/jobscript.py' 2023-05-16T20:03:20,066 adding 'pmx/library.py' 2023-05-16T20:03:20,080 adding 'pmx/ligand_alchemy.py' 2023-05-16T20:03:20,087 adding 'pmx/model.py' 2023-05-16T20:03:20,091 adding 'pmx/molecule.py' 2023-05-16T20:03:20,093 adding 'pmx/mutdb.py' 2023-05-16T20:03:20,095 adding 'pmx/ndx.py' 2023-05-16T20:03:20,098 adding 'pmx/options.py' 2023-05-16T20:03:20,100 adding 'pmx/parser.py' 2023-05-16T20:03:20,103 adding 'pmx/rosetta.py' 2023-05-16T20:03:20,106 adding 'pmx/rosetta_analyze.py' 2023-05-16T20:03:20,109 adding 'pmx/rotamer.py' 2023-05-16T20:03:20,111 adding 'pmx/utils.py' 2023-05-16T20:03:20,114 adding 'pmx/xdrfile.py' 2023-05-16T20:03:20,116 adding 'pmx/xtc.py' 2023-05-16T20:03:20,143 adding 'pmx/data/aminoacids.pkl' 2023-05-16T20:03:21,975 adding 'pmx/data/bbdep.pkl' 2023-05-16T20:03:22,087 adding 'pmx/data/blosum62_new.mat' 2023-05-16T20:03:22,103 adding 'pmx/data/bp.pkl' 2023-05-16T20:03:22,125 adding 'pmx/data/bp_amber.pkl' 2023-05-16T20:03:22,148 adding 'pmx/data/bp_charmm.pkl' 2023-05-16T20:03:22,158 adding 'pmx/data/rna.pkl' 2023-05-16T20:03:22,161 adding 'pmx/data/mutff/atommass.dat' 2023-05-16T20:03:22,163 adding 'pmx/data/mutff/elements.dat' 2023-05-16T20:03:22,166 adding 'pmx/data/mutff/residuetypes.dat' 2023-05-16T20:03:22,172 adding 'pmx/data/mutff/spc216.gro' 2023-05-16T20:03:22,174 adding 'pmx/data/mutff/specbond.dat' 2023-05-16T20:03:22,176 adding 'pmx/data/mutff/vdwradii.dat' 2023-05-16T20:03:22,177 adding 'pmx/data/mutff/xlateat.dat' 2023-05-16T20:03:22,180 adding 'pmx/data/mutff/amber14sbmut.ff/Makefile.am' 2023-05-16T20:03:22,182 adding 'pmx/data/mutff/amber14sbmut.ff/Makefile.in' 2023-05-16T20:03:22,185 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.arn' 2023-05-16T20:03:22,186 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.c.tdb' 2023-05-16T20:03:22,188 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb' 2023-05-16T20:03:22,190 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.n.tdb' 2023-05-16T20:03:22,191 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b' 2023-05-16T20:03:22,199 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp' 2023-05-16T20:03:22,201 adding 'pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd' 2023-05-16T20:03:22,203 adding 'pmx/data/mutff/amber14sbmut.ff/atomtypes.atp' 2023-05-16T20:03:22,205 adding 'pmx/data/mutff/amber14sbmut.ff/dna.arn' 2023-05-16T20:03:22,207 adding 'pmx/data/mutff/amber14sbmut.ff/dna.hdb' 2023-05-16T20:03:22,208 adding 'pmx/data/mutff/amber14sbmut.ff/dna.r2b' 2023-05-16T20:03:22,211 adding 'pmx/data/mutff/amber14sbmut.ff/dna.rtp' 2023-05-16T20:03:22,219 adding 'pmx/data/mutff/amber14sbmut.ff/ffbonded.itp' 2023-05-16T20:03:22,221 adding 'pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp' 2023-05-16T20:03:22,223 adding 'pmx/data/mutff/amber14sbmut.ff/forcefield.doc' 2023-05-16T20:03:22,225 adding 'pmx/data/mutff/amber14sbmut.ff/forcefield.itp' 2023-05-16T20:03:22,226 adding 'pmx/data/mutff/amber14sbmut.ff/gbsa.itp' 2023-05-16T20:03:22,228 adding 'pmx/data/mutff/amber14sbmut.ff/ions.itp' 2023-05-16T20:03:22,408 adding 'pmx/data/mutff/amber14sbmut.ff/mutres.mtp' 2023-05-16T20:03:22,493 adding 'pmx/data/mutff/amber14sbmut.ff/mutres.rtp' 2023-05-16T20:03:22,503 adding 'pmx/data/mutff/amber14sbmut.ff/rna.arn' 2023-05-16T20:03:22,504 adding 'pmx/data/mutff/amber14sbmut.ff/rna.hdb' 2023-05-16T20:03:22,506 adding 'pmx/data/mutff/amber14sbmut.ff/rna.r2b' 2023-05-16T20:03:22,509 adding 'pmx/data/mutff/amber14sbmut.ff/rna.rtp' 2023-05-16T20:03:22,511 adding 'pmx/data/mutff/amber14sbmut.ff/spc.itp' 2023-05-16T20:03:22,512 adding 'pmx/data/mutff/amber14sbmut.ff/spce.itp' 2023-05-16T20:03:22,514 adding 'pmx/data/mutff/amber14sbmut.ff/tip3p.itp' 2023-05-16T20:03:22,516 adding 'pmx/data/mutff/amber14sbmut.ff/tip4p.itp' 2023-05-16T20:03:22,517 adding 'pmx/data/mutff/amber14sbmut.ff/tip4pew.itp' 2023-05-16T20:03:22,519 adding 'pmx/data/mutff/amber14sbmut.ff/tip5p.itp' 2023-05-16T20:03:22,521 adding 'pmx/data/mutff/amber14sbmut.ff/urea.itp' 2023-05-16T20:03:22,522 adding 'pmx/data/mutff/amber14sbmut.ff/watermodels.dat' 2023-05-16T20:03:22,526 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn' 2023-05-16T20:03:22,528 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn_backup' 2023-05-16T20:03:22,530 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.c.tdb' 2023-05-16T20:03:22,532 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.hdb' 2023-05-16T20:03:22,533 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.n.tdb' 2023-05-16T20:03:22,535 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.r2b' 2023-05-16T20:03:22,544 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.rtp' 2023-05-16T20:03:22,546 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.vsd' 2023-05-16T20:03:22,548 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/atomtypes.atp' 2023-05-16T20:03:22,552 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_ffbonded_for_ildn_test.itp' 2023-05-16T20:03:22,614 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_mutres' 2023-05-16T20:03:22,625 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/correct_ffbonded.itp' 2023-05-16T20:03:22,627 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.arn' 2023-05-16T20:03:22,628 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.hdb' 2023-05-16T20:03:22,629 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.r2b' 2023-05-16T20:03:22,632 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.rtp' 2023-05-16T20:03:22,634 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffberger.itp' 2023-05-16T20:03:22,639 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffbonded.itp' 2023-05-16T20:03:22,641 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffnonbonded.itp' 2023-05-16T20:03:22,642 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.doc' 2023-05-16T20:03:22,644 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.itp' 2023-05-16T20:03:22,645 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/gbsa.itp' 2023-05-16T20:03:22,646 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ions.itp' 2023-05-16T20:03:22,803 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres.mtp' 2023-05-16T20:03:22,881 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres.rtp' 2023-05-16T20:03:22,907 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.mtp' 2023-05-16T20:03:22,916 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.rtp' 2023-05-16T20:03:22,919 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer.itp' 2023-05-16T20:03:22,922 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer_posre.itp' 2023-05-16T20:03:22,923 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.arn' 2023-05-16T20:03:22,925 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.hdb' 2023-05-16T20:03:22,926 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.r2b' 2023-05-16T20:03:22,928 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.rtp' 2023-05-16T20:03:22,930 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spc.itp' 2023-05-16T20:03:22,931 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spce.itp' 2023-05-16T20:03:22,932 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip3p.itp' 2023-05-16T20:03:22,934 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4p.itp' 2023-05-16T20:03:22,935 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4pew.itp' 2023-05-16T20:03:22,937 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip5p.itp' 2023-05-16T20:03:22,938 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/urea.itp' 2023-05-16T20:03:22,939 adding 'pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/watermodels.dat' 2023-05-16T20:03:22,942 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.arn' 2023-05-16T20:03:22,943 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.c.tdb' 2023-05-16T20:03:22,945 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.hdb' 2023-05-16T20:03:22,946 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.n.tdb' 2023-05-16T20:03:22,947 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.r2b' 2023-05-16T20:03:22,956 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.rtp' 2023-05-16T20:03:22,958 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.vsd' 2023-05-16T20:03:22,959 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/atomtypes.atp' 2023-05-16T20:03:22,963 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_ffbonded_for_ildn_test.itp' 2023-05-16T20:03:23,025 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_mutres' 2023-05-16T20:03:23,037 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/correct_ffbonded.itp' 2023-05-16T20:03:23,038 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.arn' 2023-05-16T20:03:23,039 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.hdb' 2023-05-16T20:03:23,041 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.r2b' 2023-05-16T20:03:23,043 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.rtp' 2023-05-16T20:03:23,045 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffberger.itp' 2023-05-16T20:03:23,049 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffbonded.itp' 2023-05-16T20:03:23,051 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffnonbonded.itp' 2023-05-16T20:03:23,053 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.doc' 2023-05-16T20:03:23,054 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.itp' 2023-05-16T20:03:23,055 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/gbsa.itp' 2023-05-16T20:03:23,057 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ions.itp' 2023-05-16T20:03:23,213 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres.mtp' 2023-05-16T20:03:23,294 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres.rtp' 2023-05-16T20:03:23,320 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.mtp' 2023-05-16T20:03:23,331 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.rtp' 2023-05-16T20:03:23,334 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer.itp' 2023-05-16T20:03:23,337 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer_posre.itp' 2023-05-16T20:03:23,338 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.arn' 2023-05-16T20:03:23,339 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.hdb' 2023-05-16T20:03:23,341 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.r2b' 2023-05-16T20:03:23,343 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.rtp' 2023-05-16T20:03:23,345 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spc.itp' 2023-05-16T20:03:23,346 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spce.itp' 2023-05-16T20:03:23,347 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip3p.itp' 2023-05-16T20:03:23,349 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4p.itp' 2023-05-16T20:03:23,350 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4pew.itp' 2023-05-16T20:03:23,351 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip5p.itp' 2023-05-16T20:03:23,353 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/urea.itp' 2023-05-16T20:03:23,354 adding 'pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/watermodels.dat' 2023-05-16T20:03:23,357 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.arn' 2023-05-16T20:03:23,358 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.c.tdb' 2023-05-16T20:03:23,360 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.hdb' 2023-05-16T20:03:23,361 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.n.tdb' 2023-05-16T20:03:23,362 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.r2b' 2023-05-16T20:03:23,371 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.rtp' 2023-05-16T20:03:23,373 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.vsd' 2023-05-16T20:03:23,375 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/atomtypes.atp' 2023-05-16T20:03:23,376 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.arn' 2023-05-16T20:03:23,377 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.hdb' 2023-05-16T20:03:23,379 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.r2b' 2023-05-16T20:03:23,381 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.rtp' 2023-05-16T20:03:23,385 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffbonded.itp' 2023-05-16T20:03:23,387 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffnonbonded.itp' 2023-05-16T20:03:23,389 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.doc' 2023-05-16T20:03:23,390 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.itp' 2023-05-16T20:03:23,391 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/gbsa.itp' 2023-05-16T20:03:23,392 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/ions.itp' 2023-05-16T20:03:23,579 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.mtp' 2023-05-16T20:03:23,671 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.rtp' 2023-05-16T20:03:23,681 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.arn' 2023-05-16T20:03:23,683 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.hdb' 2023-05-16T20:03:23,684 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.r2b' 2023-05-16T20:03:23,686 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.rtp' 2023-05-16T20:03:23,688 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/spc.itp' 2023-05-16T20:03:23,689 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/spce.itp' 2023-05-16T20:03:23,690 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip3p.itp' 2023-05-16T20:03:23,691 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4p.itp' 2023-05-16T20:03:23,693 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4pew.itp' 2023-05-16T20:03:23,694 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip5p.itp' 2023-05-16T20:03:23,695 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/urea.itp' 2023-05-16T20:03:23,697 adding 'pmx/data/mutff/amber99sb-star-ildn-mut.ff/watermodels.dat' 2023-05-16T20:03:23,699 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.arn' 2023-05-16T20:03:23,700 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.c.tdb' 2023-05-16T20:03:23,702 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.hdb' 2023-05-16T20:03:23,703 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.n.tdb' 2023-05-16T20:03:23,704 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.r2b' 2023-05-16T20:03:23,708 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.rtp' 2023-05-16T20:03:23,710 adding 'pmx/data/mutff/charmm22star-mut.ff/aminoacids.vsd' 2023-05-16T20:03:23,712 adding 'pmx/data/mutff/charmm22star-mut.ff/atomtypes.atp' 2023-05-16T20:03:23,717 adding 'pmx/data/mutff/charmm22star-mut.ff/cmap.itp' 2023-05-16T20:03:23,719 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.arn' 2023-05-16T20:03:23,720 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.c.tdb' 2023-05-16T20:03:23,721 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.hdb' 2023-05-16T20:03:23,722 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.n.tdb' 2023-05-16T20:03:23,724 adding 'pmx/data/mutff/charmm22star-mut.ff/dna.rtp' 2023-05-16T20:03:23,732 adding 'pmx/data/mutff/charmm22star-mut.ff/ffbonded.itp' 2023-05-16T20:03:23,739 adding 'pmx/data/mutff/charmm22star-mut.ff/ffnabonded.itp' 2023-05-16T20:03:23,744 adding 'pmx/data/mutff/charmm22star-mut.ff/ffnanonbonded.itp' 2023-05-16T20:03:23,756 adding 'pmx/data/mutff/charmm22star-mut.ff/ffnonbonded.itp' 2023-05-16T20:03:23,758 adding 'pmx/data/mutff/charmm22star-mut.ff/forcefield.doc' 2023-05-16T20:03:23,760 adding 'pmx/data/mutff/charmm22star-mut.ff/forcefield.itp' 2023-05-16T20:03:23,761 adding 'pmx/data/mutff/charmm22star-mut.ff/gb.itp' 2023-05-16T20:03:23,762 adding 'pmx/data/mutff/charmm22star-mut.ff/ions.itp' 2023-05-16T20:03:23,763 adding 'pmx/data/mutff/charmm22star-mut.ff/lipids.hdb' 2023-05-16T20:03:23,768 adding 'pmx/data/mutff/charmm22star-mut.ff/lipids.rtp' 2023-05-16T20:03:23,769 adding 'pmx/data/mutff/charmm22star-mut.ff/mutres.arn' 2023-05-16T20:03:23,921 adding 'pmx/data/mutff/charmm22star-mut.ff/mutres.mtp' 2023-05-16T20:03:23,997 adding 'pmx/data/mutff/charmm22star-mut.ff/mutres.rtp' 2023-05-16T20:03:24,005 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.arn' 2023-05-16T20:03:24,007 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.c.tdb' 2023-05-16T20:03:24,008 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.hdb' 2023-05-16T20:03:24,009 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.n.tdb' 2023-05-16T20:03:24,010 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.r2b' 2023-05-16T20:03:24,012 adding 'pmx/data/mutff/charmm22star-mut.ff/rna.rtp' 2023-05-16T20:03:24,013 adding 'pmx/data/mutff/charmm22star-mut.ff/spc.itp' 2023-05-16T20:03:24,015 adding 'pmx/data/mutff/charmm22star-mut.ff/spce.itp' 2023-05-16T20:03:24,016 adding 'pmx/data/mutff/charmm22star-mut.ff/tip3p.itp' 2023-05-16T20:03:24,017 adding 'pmx/data/mutff/charmm22star-mut.ff/tip4p.itp' 2023-05-16T20:03:24,019 adding 'pmx/data/mutff/charmm22star-mut.ff/tip4pew.itp' 2023-05-16T20:03:24,020 adding 'pmx/data/mutff/charmm22star-mut.ff/tip5p.itp' 2023-05-16T20:03:24,021 adding 'pmx/data/mutff/charmm22star-mut.ff/tips3p.itp' 2023-05-16T20:03:24,023 adding 'pmx/data/mutff/charmm22star-mut.ff/watermodels.dat' 2023-05-16T20:03:24,027 adding 'pmx/data/mutff/charmm36m-mut.ff/atomtypes.atp' 2023-05-16T20:03:24,039 adding 'pmx/data/mutff/charmm36m-mut.ff/cmap.itp' 2023-05-16T20:03:24,123 adding 'pmx/data/mutff/charmm36m-mut.ff/ffbonded.itp' 2023-05-16T20:03:24,249 adding 'pmx/data/mutff/charmm36m-mut.ff/ffnonbonded.itp' 2023-05-16T20:03:24,260 adding 'pmx/data/mutff/charmm36m-mut.ff/forcefield.doc' 2023-05-16T20:03:24,262 adding 'pmx/data/mutff/charmm36m-mut.ff/forcefield.itp' 2023-05-16T20:03:24,263 adding 'pmx/data/mutff/charmm36m-mut.ff/gb.itp' 2023-05-16T20:03:24,265 adding 'pmx/data/mutff/charmm36m-mut.ff/ions.itp' 2023-05-16T20:03:24,266 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.arn' 2023-05-16T20:03:24,267 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.c.tdb' 2023-05-16T20:03:24,269 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.hdb' 2023-05-16T20:03:24,270 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.n.tdb' 2023-05-16T20:03:24,271 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.r2b' 2023-05-16T20:03:24,409 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.rtp' 2023-05-16T20:03:24,417 adding 'pmx/data/mutff/charmm36m-mut.ff/merged.vsd' 2023-05-16T20:03:24,418 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres.arn' 2023-05-16T20:03:24,588 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres.mtp' 2023-05-16T20:03:24,671 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres.rtp' 2023-05-16T20:03:24,696 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres_dna.mtp' 2023-05-16T20:03:24,705 adding 'pmx/data/mutff/charmm36m-mut.ff/mutres_dna.rtp' 2023-05-16T20:03:24,708 adding 'pmx/data/mutff/charmm36m-mut.ff/nbfix.itp' 2023-05-16T20:03:24,709 adding 'pmx/data/mutff/charmm36m-mut.ff/spc.itp' 2023-05-16T20:03:24,710 adding 'pmx/data/mutff/charmm36m-mut.ff/spce.itp' 2023-05-16T20:03:24,711 adding 'pmx/data/mutff/charmm36m-mut.ff/tip3p.itp' 2023-05-16T20:03:24,713 adding 'pmx/data/mutff/charmm36m-mut.ff/tip4p.itp' 2023-05-16T20:03:24,714 adding 'pmx/data/mutff/charmm36m-mut.ff/watermodels.dat' 2023-05-16T20:03:24,717 adding 'pmx/extensions/pmx/Energy.c' 2023-05-16T20:03:24,720 adding 'pmx/extensions/pmx/Geometry.c' 2023-05-16T20:03:24,723 adding 'pmx/extensions/pmx/Geometry.h' 2023-05-16T20:03:24,724 adding 'pmx/extensions/pmx/cpp_test.cpp' 2023-05-16T20:03:24,726 adding 'pmx/extensions/pmx/init.c' 2023-05-16T20:03:24,727 adding 'pmx/extensions/pmx/pmx.h' 2023-05-16T20:03:24,730 adding 'pmx/extensions/pmx/wrap_Geometry.c' 2023-05-16T20:03:24,732 adding 'pmx/extensions/xdr/trr2xtc.c' 2023-05-16T20:03:24,739 adding 'pmx/extensions/xdr/xdrfile.c' 2023-05-16T20:03:24,742 adding 'pmx/extensions/xdr/xdrfile.h' 2023-05-16T20:03:24,744 adding 'pmx/extensions/xdr/xdrfile_c_test.c' 2023-05-16T20:03:24,746 adding 'pmx/extensions/xdr/xdrfile_trr.c' 2023-05-16T20:03:24,748 adding 'pmx/extensions/xdr/xdrfile_trr.h' 2023-05-16T20:03:24,749 adding 'pmx/extensions/xdr/xdrfile_xtc.c' 2023-05-16T20:03:24,751 adding 'pmx/extensions/xdr/xdrfile_xtc.h' 2023-05-16T20:03:24,753 adding 'pmx/scripts/__init__.py' 2023-05-16T20:03:24,756 adding 'pmx/scripts/analyze_dhdl.py' 2023-05-16T20:03:24,758 adding 'pmx/scripts/atomMapping.py' 2023-05-16T20:03:24,761 adding 'pmx/scripts/build_cyclic_top.py' 2023-05-16T20:03:24,762 adding 'pmx/scripts/cli.py' 2023-05-16T20:03:24,770 adding 'pmx/scripts/generate_hybrid_residue.py' 2023-05-16T20:03:24,772 adding 'pmx/scripts/generate_hybrid_topology.py' 2023-05-16T20:03:24,774 adding 'pmx/scripts/ligandHybrid.py' 2023-05-16T20:03:24,775 adding 'pmx/scripts/make_double_box.py' 2023-05-16T20:03:24,778 adding 'pmx/scripts/md_setup.py' 2023-05-16T20:03:24,781 adding 'pmx/scripts/mutate.py' 2023-05-16T20:03:24,783 adding 'pmx/scripts/prepare_crooks_runs.py' 2023-05-16T20:03:24,785 adding 'pmx/scripts/set_gmxlib.py' 2023-05-16T20:03:24,787 adding 'pmx/scripts/setup_abfe.py' 2023-05-16T20:03:24,789 adding 'pmx/scripts/icolos_entrypoints/__init__.py' 2023-05-16T20:03:24,791 adding 'pmx/scripts/icolos_entrypoints/assemble_systems.py' 2023-05-16T20:03:24,793 adding 'pmx_biobb-2.0.0.dist-info/LICENSE' 2023-05-16T20:03:24,795 adding 'pmx_biobb-2.0.0.dist-info/METADATA' 2023-05-16T20:03:24,796 adding 'pmx_biobb-2.0.0.dist-info/WHEEL' 2023-05-16T20:03:24,797 adding 'pmx_biobb-2.0.0.dist-info/entry_points.txt' 2023-05-16T20:03:24,798 adding 'pmx_biobb-2.0.0.dist-info/top_level.txt' 2023-05-16T20:03:24,802 adding 'pmx_biobb-2.0.0.dist-info/RECORD' 2023-05-16T20:03:24,879 removing build/bdist.linux-armv7l/wheel 2023-05-16T20:03:25,068 Building wheel for pmx-biobb (setup.py): finished with status 'done' 2023-05-16T20:03:25,130 Created wheel for pmx-biobb: filename=pmx_biobb-2.0.0-cp39-cp39-linux_armv7l.whl size=5907750 sha256=49cc38d8b7531ef391784e7e40fe37f1e923ef8df1e325feb77291ce2ebbf2f9 2023-05-16T20:03:25,131 Stored in directory: /tmp/pip-ephem-wheel-cache-tmj6di_e/wheels/a6/98/98/3a352281fd9a92dff9c29238e3c4457a2f768f49ef14cc4fb5 2023-05-16T20:03:25,153 Successfully built pmx-biobb 2023-05-16T20:03:25,297 Removed build tracker: '/tmp/pip-build-tracker-lr7vh1tz'