2023-11-30T18:42:58,676 Created temporary directory: /tmp/pip-build-tracker-nyjq75tg
2023-11-30T18:42:58,678 Initialized build tracking at /tmp/pip-build-tracker-nyjq75tg
2023-11-30T18:42:58,678 Created build tracker: /tmp/pip-build-tracker-nyjq75tg
2023-11-30T18:42:58,679 Entered build tracker: /tmp/pip-build-tracker-nyjq75tg
2023-11-30T18:42:58,680 Created temporary directory: /tmp/pip-wheel-wn4soll_
2023-11-30T18:42:58,683 Created temporary directory: /tmp/pip-ephem-wheel-cache-joqmv9p0
2023-11-30T18:42:58,709 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-11-30T18:42:58,713 2 location(s) to search for versions of meeko:
2023-11-30T18:42:58,713 * https://pypi.org/simple/meeko/
2023-11-30T18:42:58,713 * https://www.piwheels.org/simple/meeko/
2023-11-30T18:42:58,714 Fetching project page and analyzing links: https://pypi.org/simple/meeko/
2023-11-30T18:42:58,715 Getting page https://pypi.org/simple/meeko/
2023-11-30T18:42:58,716 Found index url https://pypi.org/simple/
2023-11-30T18:42:58,928 Fetched page https://pypi.org/simple/meeko/ as application/vnd.pypi.simple.v1+json
2023-11-30T18:42:58,934   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/38/c7/946dda1732a3aeca878b9cf1aa1a965066488479d67e4fc137d2379a79b6/meeko-0.1.dev1-py2.py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:58,934   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/61/30/79ecf599df2c81ead389544f3291774adddccb3ac4548eae61a7b8a62bc3/meeko-0.1.dev2-py2.py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:58,935   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/89/84/827a0ea853ba0970f0287eb09ba7d07186590a510d10a8b63a2d884ac447/meeko-0.1.dev3-py2.py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:58,936   Found link https://files.pythonhosted.org/packages/ec/d2/c1eaf8b818377fbe788daf86dc8994fcc4ae2d4b6fa00c2a5c81d8aa2ca6/meeko-0.1.dev3.tar.gz (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*), version: 0.1.dev3
2023-11-30T18:42:58,937   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/f1/b6/fe6205ca310917d121b6f96259c845d94ef627d7473fc2bd119235b5b8d3/meeko-0.2-py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:58,938   Found link https://files.pythonhosted.org/packages/23/24/36f5b53aa74cd50f5e6cea8d5d5f3b99b6f3ea1e2a059d13f5f8d51a0624/meeko-0.2.tar.gz (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*), version: 0.2
2023-11-30T18:42:58,939   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/15/e4/e0195c8d07d6c9226c9940ecb9164e6120e9502f64bee2a6303fb0a75ca1/meeko-0.3.0-py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:58,940   Found link https://files.pythonhosted.org/packages/1b/e5/ff954b3fbef337ac7cd0d29ebab8864385aad66fe528aae73d05604dddfd/meeko-0.3.0.tar.gz (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*), version: 0.3.0
2023-11-30T18:42:58,941   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/7a/ff/6e57ed90d6384e76ea2acb31a929f8f036468e07c80319764805398db9d8/meeko-0.3.1-py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:58,942   Found link https://files.pythonhosted.org/packages/33/b4/3a1d12da1c3bc0c7381c51aec8e51206f2b28b8c394b23cc4b373593c478/meeko-0.3.1.tar.gz (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*), version: 0.3.1
2023-11-30T18:42:58,943   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/1a/9d/28755e7eb7679082f4e00ef3e9ad3365e9f90c0d341e95289306a7d10831/meeko-0.3.2-py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:58,944   Found link https://files.pythonhosted.org/packages/04/fd/03d4d7fb97c6ce5789eea55cc8a5a27b3c9ba2e9e8944c46855d0356786d/meeko-0.3.2.tar.gz (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*), version: 0.3.2
2023-11-30T18:42:58,944   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/53/ae/fb019569a4c5d74bcd83434261e41b322aacfae687f38b1c8596c24be8b2/meeko-0.3.3-py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:58,946   Found link https://files.pythonhosted.org/packages/97/42/a9846a4bd8c90d8cf64857e183f3dc55f0553bad814a25ad9e454d51092b/meeko-0.3.3.tar.gz (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*), version: 0.3.3
2023-11-30T18:42:58,947   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/a1/38/e64382d54a507d7cd9b25472e91476d105e312ae8e3f88feacbd3ed6c4ca/meeko-0.4.0-py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:58,948   Found link https://files.pythonhosted.org/packages/df/e8/5599f1f3b4d82a6fd509e9ba1494866c9be26cb9cba57cffe433fb6573e1/meeko-0.4.0.tar.gz (from https://pypi.org/simple/meeko/) (requires-python:>=3.5.*), version: 0.4.0
2023-11-30T18:42:58,948   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/0f/97/aaae239d66f408f0d58c949bf4bc7c62add39fbf9ff22733fb087937ca82/meeko-0.5.0-py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5)
2023-11-30T18:42:58,949   Found link https://files.pythonhosted.org/packages/78/17/8947c029c13d2f55f3a4833e17722dd275f94b10a7c32914374981eb8c8e/meeko-0.5.0.tar.gz (from https://pypi.org/simple/meeko/) (requires-python:>=3.5), version: 0.5.0
2023-11-30T18:42:58,950   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/0f/93/453299cc4dca86c36c7eb9c35374078bfe1aa64a062d55d850286e73b083/meeko-0.6.0a0-py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5)
2023-11-30T18:42:58,951   Found link https://files.pythonhosted.org/packages/17/d1/0906b1cb62d6d1bad1b7f1ab8d24d13fc7b8df66759ef4d0ce4fa4378de6/meeko-0.6.0a0.tar.gz (from https://pypi.org/simple/meeko/) (requires-python:>=3.5), version: 0.6.0a0
2023-11-30T18:42:58,952   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/0a/9f/774439a1db856b584ee216bea0e5319027518e7495bed613a65dbb960793/meeko-0.6.0a1-py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5)
2023-11-30T18:42:58,953   Found link https://files.pythonhosted.org/packages/6e/0f/c39e837be0f4664bf9e3d9d139cbf5e1d2d836e671ca7769522eb5326a25/meeko-0.6.0a1.tar.gz (from https://pypi.org/simple/meeko/) (requires-python:>=3.5), version: 0.6.0a1
2023-11-30T18:42:58,954   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/3b/68/0733d4e5205baefc5484705710a8754117a50ca8acb4e1059b2908c38d4a/meeko-0.6.0a2-py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5)
2023-11-30T18:42:58,955   Found link https://files.pythonhosted.org/packages/53/af/920d5c0225b08924a0c97746264ef33c4ba5d9622548e7b76e0a273e4999/meeko-0.6.0a2.tar.gz (from https://pypi.org/simple/meeko/) (requires-python:>=3.5), version: 0.6.0a2
2023-11-30T18:42:58,956 Fetching project page and analyzing links: https://www.piwheels.org/simple/meeko/
2023-11-30T18:42:58,957 Getting page https://www.piwheels.org/simple/meeko/
2023-11-30T18:42:58,959 Found index url https://www.piwheels.org/simple/
2023-11-30T18:42:59,113 Fetched page https://www.piwheels.org/simple/meeko/ as text/html
2023-11-30T18:42:59,117   Skipping link: No binaries permitted for meeko: https://www.piwheels.org/simple/meeko/meeko-0.6.0a0-py3-none-any.whl#sha256=b06250c9721d6cd2d9c001803a610364ce95f5084fded20180d0c25b77ef6b50 (from https://www.piwheels.org/simple/meeko/) (requires-python:>=3.5)
2023-11-30T18:42:59,118   Skipping link: No binaries permitted for meeko: https://www.piwheels.org/simple/meeko/meeko-0.5.0-py3-none-any.whl#sha256=716f47c9471895bb7314e06164f1748d2cb8f53987d8da9d52ec129b2c91cfc3 (from https://www.piwheels.org/simple/meeko/) (requires-python:>=3.5)
2023-11-30T18:42:59,119   Skipping link: No binaries permitted for meeko: https://www.piwheels.org/simple/meeko/meeko-0.4.0-py3-none-any.whl#sha256=ab401b9be3dd1941184d0ad836b51fc577db7d02d277f08ffc26285d54a6ee5e (from https://www.piwheels.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:59,120   Skipping link: No binaries permitted for meeko: https://www.piwheels.org/simple/meeko/meeko-0.3.3-py3-none-any.whl#sha256=f226db6d061657ac79463f4cc9b02ac1639cff39efeee9d289820c1fc6895382 (from https://www.piwheels.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:59,120   Skipping link: No binaries permitted for meeko: https://www.piwheels.org/simple/meeko/meeko-0.3.2-py3-none-any.whl#sha256=c36d011eb03705ad1d8fd598ce5e441b9c55c76b1c37011d95563b4fe5449494 (from https://www.piwheels.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:59,121   Skipping link: No binaries permitted for meeko: https://www.piwheels.org/simple/meeko/meeko-0.3.1-py3-none-any.whl#sha256=628a26bdbddab96cde118d3180a404144108c33edcbbefe3ade9e84f286cece0 (from https://www.piwheels.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:59,121   Skipping link: No binaries permitted for meeko: https://www.piwheels.org/simple/meeko/meeko-0.3.0-py3-none-any.whl#sha256=508ada8f77e474225a99c3905e6eb53c7db2a45a02c84a774d9f78a889a8da1d (from https://www.piwheels.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:59,122   Skipping link: No binaries permitted for meeko: https://www.piwheels.org/simple/meeko/meeko-0.2-py3-none-any.whl#sha256=88c75d8ed22efc73b451ac641472aa931ccbf3ef36f2f236c14a2d45d58541b2 (from https://www.piwheels.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:59,122   Skipping link: No binaries permitted for meeko: https://www.piwheels.org/simple/meeko/meeko-0.1.dev3-py2.py3-none-any.whl#sha256=feb4d48b05302efc1168ac2365ebfa920dd98fe24fca3f5cafe60376ed796caa (from https://www.piwheels.org/simple/meeko/) (requires-python:>=3.5.*)
2023-11-30T18:42:59,123 Skipping link: not a file: https://www.piwheels.org/simple/meeko/
2023-11-30T18:42:59,123 Skipping link: not a file: https://pypi.org/simple/meeko/
2023-11-30T18:42:59,145 Given no hashes to check 1 links for project 'meeko': discarding no candidates
2023-11-30T18:42:59,164 Collecting meeko==0.6.0a1
2023-11-30T18:42:59,167   Created temporary directory: /tmp/pip-unpack-um9y3lri
2023-11-30T18:42:59,377   Downloading meeko-0.6.0a1.tar.gz (152 kB)
2023-11-30T18:42:59,608   Added meeko==0.6.0a1 from https://files.pythonhosted.org/packages/6e/0f/c39e837be0f4664bf9e3d9d139cbf5e1d2d836e671ca7769522eb5326a25/meeko-0.6.0a1.tar.gz to build tracker '/tmp/pip-build-tracker-nyjq75tg'
2023-11-30T18:42:59,611   Running setup.py (path:/tmp/pip-wheel-wn4soll_/meeko_a3276d45d62246c18552164e6d10f98e/setup.py) egg_info for package meeko
2023-11-30T18:42:59,612   Created temporary directory: /tmp/pip-pip-egg-info-87te4699
2023-11-30T18:42:59,613   Preparing metadata (setup.py): started
2023-11-30T18:42:59,614   Running command python setup.py egg_info
2023-11-30T18:43:00,660   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:314: InformationOnly: Normalizing '0.6.0-alpha.1' to '0.6.0a1'
2023-11-30T18:43:00,660     self.metadata.version = self._normalize_version(self.metadata.version)
2023-11-30T18:43:00,701   running egg_info
2023-11-30T18:43:00,702   creating /tmp/pip-pip-egg-info-87te4699/meeko.egg-info
2023-11-30T18:43:00,728   writing /tmp/pip-pip-egg-info-87te4699/meeko.egg-info/PKG-INFO
2023-11-30T18:43:00,733   writing dependency_links to /tmp/pip-pip-egg-info-87te4699/meeko.egg-info/dependency_links.txt
2023-11-30T18:43:00,735   writing requirements to /tmp/pip-pip-egg-info-87te4699/meeko.egg-info/requires.txt
2023-11-30T18:43:00,736   writing top-level names to /tmp/pip-pip-egg-info-87te4699/meeko.egg-info/top_level.txt
2023-11-30T18:43:00,737   writing manifest file '/tmp/pip-pip-egg-info-87te4699/meeko.egg-info/SOURCES.txt'
2023-11-30T18:43:00,851   reading manifest file '/tmp/pip-pip-egg-info-87te4699/meeko.egg-info/SOURCES.txt'
2023-11-30T18:43:00,853   adding license file 'LICENSE'
2023-11-30T18:43:00,856   writing manifest file '/tmp/pip-pip-egg-info-87te4699/meeko.egg-info/SOURCES.txt'
2023-11-30T18:43:00,966   Preparing metadata (setup.py): finished with status 'done'
2023-11-30T18:43:00,971   Source in /tmp/pip-wheel-wn4soll_/meeko_a3276d45d62246c18552164e6d10f98e has version 0.6.0a1, which satisfies requirement meeko==0.6.0a1 from https://files.pythonhosted.org/packages/6e/0f/c39e837be0f4664bf9e3d9d139cbf5e1d2d836e671ca7769522eb5326a25/meeko-0.6.0a1.tar.gz
2023-11-30T18:43:00,972   Removed meeko==0.6.0a1 from https://files.pythonhosted.org/packages/6e/0f/c39e837be0f4664bf9e3d9d139cbf5e1d2d836e671ca7769522eb5326a25/meeko-0.6.0a1.tar.gz from build tracker '/tmp/pip-build-tracker-nyjq75tg'
2023-11-30T18:43:00,980 Created temporary directory: /tmp/pip-unpack-s3o5m8yv
2023-11-30T18:43:00,981 Created temporary directory: /tmp/pip-unpack-1j280z15
2023-11-30T18:43:00,987 Building wheels for collected packages: meeko
2023-11-30T18:43:00,992   Created temporary directory: /tmp/pip-wheel-imwkcxsb
2023-11-30T18:43:00,993   Building wheel for meeko (setup.py): started
2023-11-30T18:43:00,994   Destination directory: /tmp/pip-wheel-imwkcxsb
2023-11-30T18:43:00,994   Running command python setup.py bdist_wheel
2023-11-30T18:43:02,011   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:314: InformationOnly: Normalizing '0.6.0-alpha.1' to '0.6.0a1'
2023-11-30T18:43:02,011     self.metadata.version = self._normalize_version(self.metadata.version)
2023-11-30T18:43:02,044   running bdist_wheel
2023-11-30T18:43:02,143   running build
2023-11-30T18:43:02,144   running build_py
2023-11-30T18:43:02,172   creating build
2023-11-30T18:43:02,173   creating build/lib
2023-11-30T18:43:02,174   creating build/lib/meeko
2023-11-30T18:43:02,175   copying meeko/macrocycle.py -> build/lib/meeko
2023-11-30T18:43:02,178   copying meeko/openff_xml_parser.py -> build/lib/meeko
2023-11-30T18:43:02,180   copying meeko/rdkit_mol_create.py -> build/lib/meeko
2023-11-30T18:43:02,183   copying meeko/reactive.py -> build/lib/meeko
2023-11-30T18:43:02,185   copying meeko/covalentbuilder.py -> build/lib/meeko
2023-11-30T18:43:02,188   copying meeko/writer.py -> build/lib/meeko
2023-11-30T18:43:02,190   copying meeko/hydrate.py -> build/lib/meeko
2023-11-30T18:43:02,193   copying meeko/__init__.py -> build/lib/meeko
2023-11-30T18:43:02,195   copying meeko/bondtyper.py -> build/lib/meeko
2023-11-30T18:43:02,197   copying meeko/receptor_pdbqt.py -> build/lib/meeko
2023-11-30T18:43:02,200   copying meeko/molecule_pdbqt.py -> build/lib/meeko
2023-11-30T18:43:02,203   copying meeko/gridbox.py -> build/lib/meeko
2023-11-30T18:43:02,205   copying meeko/preparation.py -> build/lib/meeko
2023-11-30T18:43:02,208   copying meeko/espalomatyper.py -> build/lib/meeko
2023-11-30T18:43:02,210   copying meeko/flexibility.py -> build/lib/meeko
2023-11-30T18:43:02,212   copying meeko/molsetup.py -> build/lib/meeko
2023-11-30T18:43:02,215   copying meeko/atomtyper.py -> build/lib/meeko
2023-11-30T18:43:02,218   copying meeko/linked_rdkit_chorizo.py -> build/lib/meeko
2023-11-30T18:43:02,221   creating build/lib/meeko/analysis
2023-11-30T18:43:02,222   copying meeko/analysis/fingerprint_interactions.py -> build/lib/meeko/analysis
2023-11-30T18:43:02,225   copying meeko/analysis/interactions.py -> build/lib/meeko/analysis
2023-11-30T18:43:02,227   copying meeko/analysis/__init__.py -> build/lib/meeko/analysis
2023-11-30T18:43:02,230   creating build/lib/meeko/utils
2023-11-30T18:43:02,231   copying meeko/utils/geomutils.py -> build/lib/meeko/utils
2023-11-30T18:43:02,234   copying meeko/utils/utils.py -> build/lib/meeko/utils
2023-11-30T18:43:02,236   copying meeko/utils/van_der_waals_radius_table.py -> build/lib/meeko/utils
2023-11-30T18:43:02,238   copying meeko/utils/__init__.py -> build/lib/meeko/utils
2023-11-30T18:43:02,240   copying meeko/utils/rdkitutils.py -> build/lib/meeko/utils
2023-11-30T18:43:02,242   copying meeko/utils/autodock4_atom_types_elements.py -> build/lib/meeko/utils
2023-11-30T18:43:02,245   copying meeko/utils/covalent_radius_table.py -> build/lib/meeko/utils
2023-11-30T18:43:02,246   copying meeko/utils/obutils.py -> build/lib/meeko/utils
2023-11-30T18:43:02,249   copying meeko/utils/pdbutils.py -> build/lib/meeko/utils
2023-11-30T18:43:02,250   running egg_info
2023-11-30T18:43:02,307   writing meeko.egg-info/PKG-INFO
2023-11-30T18:43:02,311   writing dependency_links to meeko.egg-info/dependency_links.txt
2023-11-30T18:43:02,313   writing requirements to meeko.egg-info/requires.txt
2023-11-30T18:43:02,314   writing top-level names to meeko.egg-info/top_level.txt
2023-11-30T18:43:02,347   reading manifest file 'meeko.egg-info/SOURCES.txt'
2023-11-30T18:43:02,350   adding license file 'LICENSE'
2023-11-30T18:43:02,354   writing manifest file 'meeko.egg-info/SOURCES.txt'
2023-11-30T18:43:02,356   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'meeko.data' is absent from the `packages` configuration.
2023-11-30T18:43:02,357   !!

2023-11-30T18:43:02,358           ********************************************************************************
2023-11-30T18:43:02,359           ############################
2023-11-30T18:43:02,359           # Package would be ignored #
2023-11-30T18:43:02,360           ############################
2023-11-30T18:43:02,360           Python recognizes 'meeko.data' as an importable package[^1],
2023-11-30T18:43:02,361           but it is absent from setuptools' `packages` configuration.

2023-11-30T18:43:02,362           This leads to an ambiguous overall configuration. If you want to distribute this
2023-11-30T18:43:02,362           package, please make sure that 'meeko.data' is explicitly added
2023-11-30T18:43:02,363           to the `packages` configuration field.

2023-11-30T18:43:02,364           Alternatively, you can also rely on setuptools' discovery methods
2023-11-30T18:43:02,365           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-11-30T18:43:02,365           instead of `find_packages(...)`/`find:`).

2023-11-30T18:43:02,366           You can read more about "package discovery" on setuptools documentation page:

2023-11-30T18:43:02,367           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-11-30T18:43:02,368           If you don't want 'meeko.data' to be distributed and are
2023-11-30T18:43:02,369           already explicitly excluding 'meeko.data' via
2023-11-30T18:43:02,369           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-11-30T18:43:02,370           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-11-30T18:43:02,371           combination with a more fine grained `package-data` configuration.

2023-11-30T18:43:02,372           You can read more about "package data files" on setuptools documentation page:

2023-11-30T18:43:02,373           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-11-30T18:43:02,376           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-11-30T18:43:02,376                 even if it does not contain any `.py` files.
2023-11-30T18:43:02,377                 On the other hand, currently there is no concept of package data
2023-11-30T18:43:02,377                 directory, all directories are treated like packages.
2023-11-30T18:43:02,378           ********************************************************************************

2023-11-30T18:43:02,379   !!
2023-11-30T18:43:02,379     check.warn(importable)
2023-11-30T18:43:02,380   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'meeko.data.params' is absent from the `packages` configuration.
2023-11-30T18:43:02,381   !!

2023-11-30T18:43:02,382           ********************************************************************************
2023-11-30T18:43:02,382           ############################
2023-11-30T18:43:02,383           # Package would be ignored #
2023-11-30T18:43:02,384           ############################
2023-11-30T18:43:02,386           Python recognizes 'meeko.data.params' as an importable package[^1],
2023-11-30T18:43:02,387           but it is absent from setuptools' `packages` configuration.

2023-11-30T18:43:02,389           This leads to an ambiguous overall configuration. If you want to distribute this
2023-11-30T18:43:02,390           package, please make sure that 'meeko.data.params' is explicitly added
2023-11-30T18:43:02,390           to the `packages` configuration field.

2023-11-30T18:43:02,392           Alternatively, you can also rely on setuptools' discovery methods
2023-11-30T18:43:02,392           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-11-30T18:43:02,393           instead of `find_packages(...)`/`find:`).

2023-11-30T18:43:02,394           You can read more about "package discovery" on setuptools documentation page:

2023-11-30T18:43:02,397           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-11-30T18:43:02,398           If you don't want 'meeko.data.params' to be distributed and are
2023-11-30T18:43:02,399           already explicitly excluding 'meeko.data.params' via
2023-11-30T18:43:02,400           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-11-30T18:43:02,401           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-11-30T18:43:02,402           combination with a more fine grained `package-data` configuration.

2023-11-30T18:43:02,403           You can read more about "package data files" on setuptools documentation page:

2023-11-30T18:43:02,404           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-11-30T18:43:02,406           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-11-30T18:43:02,407                 even if it does not contain any `.py` files.
2023-11-30T18:43:02,408                 On the other hand, currently there is no concept of package data
2023-11-30T18:43:02,408                 directory, all directories are treated like packages.
2023-11-30T18:43:02,409           ********************************************************************************

2023-11-30T18:43:02,410   !!
2023-11-30T18:43:02,410     check.warn(importable)
2023-11-30T18:43:02,411   creating build/lib/meeko/data
2023-11-30T18:43:02,411   copying meeko/data/atomtypes.txt -> build/lib/meeko/data
2023-11-30T18:43:02,412   copying meeko/data/flexres_templates.json -> build/lib/meeko/data
2023-11-30T18:43:02,412   copying meeko/data/pi_non_aromatic.txt -> build/lib/meeko/data
2023-11-30T18:43:02,413   copying meeko/data/prot_res_params.json -> build/lib/meeko/data
2023-11-30T18:43:02,413   copying meeko/data/residue_params.json -> build/lib/meeko/data
2023-11-30T18:43:02,414   copying meeko/data/waterfield.txt -> build/lib/meeko/data
2023-11-30T18:43:02,415   creating build/lib/meeko/data/params
2023-11-30T18:43:02,415   copying meeko/data/params/ad4_desolv_param.json -> build/lib/meeko/data/params
2023-11-30T18:43:02,416   copying meeko/data/params/ad4_desolv_volume.json -> build/lib/meeko/data/params
2023-11-30T18:43:02,416   copying meeko/data/params/ad4_types.json -> build/lib/meeko/data/params
2023-11-30T18:43:02,417   copying meeko/data/params/ad4_vdw.json -> build/lib/meeko/data/params
2023-11-30T18:43:02,417   copying meeko/data/params/example_offatom_charge.json -> build/lib/meeko/data/params
2023-11-30T18:43:02,418   copying meeko/data/params/vina_params.json -> build/lib/meeko/data/params
2023-11-30T18:43:02,419   running build_scripts
2023-11-30T18:43:02,419   creating build/scripts-3.11
2023-11-30T18:43:02,420   copying and adjusting scripts/mk_prepare_ligand.py -> build/scripts-3.11
2023-11-30T18:43:02,421   copying and adjusting scripts/mk_prepare_receptor.py -> build/scripts-3.11
2023-11-30T18:43:02,423   copying and adjusting scripts/mk_export.py -> build/scripts-3.11
2023-11-30T18:43:02,424   changing mode of build/scripts-3.11/mk_prepare_ligand.py from 644 to 755
2023-11-30T18:43:02,425   changing mode of build/scripts-3.11/mk_prepare_receptor.py from 644 to 755
2023-11-30T18:43:02,426   changing mode of build/scripts-3.11/mk_export.py from 644 to 755
2023-11-30T18:43:02,450   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2023-11-30T18:43:02,451   !!

2023-11-30T18:43:02,452           ********************************************************************************
2023-11-30T18:43:02,453           Please avoid running ``setup.py`` directly.
2023-11-30T18:43:02,453           Instead, use pypa/build, pypa/installer or other
2023-11-30T18:43:02,454           standards-based tools.

2023-11-30T18:43:02,454           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2023-11-30T18:43:02,455           ********************************************************************************

2023-11-30T18:43:02,456   !!
2023-11-30T18:43:02,457     self.initialize_options()
2023-11-30T18:43:02,476   installing to build/bdist.linux-aarch64/wheel
2023-11-30T18:43:02,477   running install
2023-11-30T18:43:02,501   running install_lib
2023-11-30T18:43:02,527   creating build/bdist.linux-aarch64
2023-11-30T18:43:02,527   creating build/bdist.linux-aarch64/wheel
2023-11-30T18:43:02,529   creating build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,530   copying build/lib/meeko/macrocycle.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,532   copying build/lib/meeko/openff_xml_parser.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,535   creating build/bdist.linux-aarch64/wheel/meeko/analysis
2023-11-30T18:43:02,536   copying build/lib/meeko/analysis/fingerprint_interactions.py -> build/bdist.linux-aarch64/wheel/meeko/analysis
2023-11-30T18:43:02,539   copying build/lib/meeko/analysis/interactions.py -> build/bdist.linux-aarch64/wheel/meeko/analysis
2023-11-30T18:43:02,541   copying build/lib/meeko/analysis/__init__.py -> build/bdist.linux-aarch64/wheel/meeko/analysis
2023-11-30T18:43:02,543   copying build/lib/meeko/rdkit_mol_create.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,546   copying build/lib/meeko/reactive.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,549   copying build/lib/meeko/covalentbuilder.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,552   copying build/lib/meeko/writer.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,554   copying build/lib/meeko/hydrate.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,557   copying build/lib/meeko/__init__.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,559   copying build/lib/meeko/bondtyper.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,561   copying build/lib/meeko/receptor_pdbqt.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,564   creating build/bdist.linux-aarch64/wheel/meeko/data
2023-11-30T18:43:02,565   copying build/lib/meeko/data/atomtypes.txt -> build/bdist.linux-aarch64/wheel/meeko/data
2023-11-30T18:43:02,568   copying build/lib/meeko/data/flexres_templates.json -> build/bdist.linux-aarch64/wheel/meeko/data
2023-11-30T18:43:02,570   copying build/lib/meeko/data/prot_res_params.json -> build/bdist.linux-aarch64/wheel/meeko/data
2023-11-30T18:43:02,576   creating build/bdist.linux-aarch64/wheel/meeko/data/params
2023-11-30T18:43:02,577   copying build/lib/meeko/data/params/ad4_desolv_volume.json -> build/bdist.linux-aarch64/wheel/meeko/data/params
2023-11-30T18:43:02,579   copying build/lib/meeko/data/params/ad4_types.json -> build/bdist.linux-aarch64/wheel/meeko/data/params
2023-11-30T18:43:02,581   copying build/lib/meeko/data/params/ad4_desolv_param.json -> build/bdist.linux-aarch64/wheel/meeko/data/params
2023-11-30T18:43:02,583   copying build/lib/meeko/data/params/example_offatom_charge.json -> build/bdist.linux-aarch64/wheel/meeko/data/params
2023-11-30T18:43:02,585   copying build/lib/meeko/data/params/vina_params.json -> build/bdist.linux-aarch64/wheel/meeko/data/params
2023-11-30T18:43:02,587   copying build/lib/meeko/data/params/ad4_vdw.json -> build/bdist.linux-aarch64/wheel/meeko/data/params
2023-11-30T18:43:02,589   copying build/lib/meeko/data/waterfield.txt -> build/bdist.linux-aarch64/wheel/meeko/data
2023-11-30T18:43:02,592   copying build/lib/meeko/data/pi_non_aromatic.txt -> build/bdist.linux-aarch64/wheel/meeko/data
2023-11-30T18:43:02,594   copying build/lib/meeko/data/residue_params.json -> build/bdist.linux-aarch64/wheel/meeko/data
2023-11-30T18:43:02,603   copying build/lib/meeko/molecule_pdbqt.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,606   copying build/lib/meeko/gridbox.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,608   copying build/lib/meeko/preparation.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,611   copying build/lib/meeko/espalomatyper.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,613   copying build/lib/meeko/flexibility.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,616   creating build/bdist.linux-aarch64/wheel/meeko/utils
2023-11-30T18:43:02,617   copying build/lib/meeko/utils/geomutils.py -> build/bdist.linux-aarch64/wheel/meeko/utils
2023-11-30T18:43:02,620   copying build/lib/meeko/utils/utils.py -> build/bdist.linux-aarch64/wheel/meeko/utils
2023-11-30T18:43:02,622   copying build/lib/meeko/utils/van_der_waals_radius_table.py -> build/bdist.linux-aarch64/wheel/meeko/utils
2023-11-30T18:43:02,624   copying build/lib/meeko/utils/__init__.py -> build/bdist.linux-aarch64/wheel/meeko/utils
2023-11-30T18:43:02,626   copying build/lib/meeko/utils/rdkitutils.py -> build/bdist.linux-aarch64/wheel/meeko/utils
2023-11-30T18:43:02,629   copying build/lib/meeko/utils/autodock4_atom_types_elements.py -> build/bdist.linux-aarch64/wheel/meeko/utils
2023-11-30T18:43:02,631   copying build/lib/meeko/utils/covalent_radius_table.py -> build/bdist.linux-aarch64/wheel/meeko/utils
2023-11-30T18:43:02,633   copying build/lib/meeko/utils/obutils.py -> build/bdist.linux-aarch64/wheel/meeko/utils
2023-11-30T18:43:02,635   copying build/lib/meeko/utils/pdbutils.py -> build/bdist.linux-aarch64/wheel/meeko/utils
2023-11-30T18:43:02,637   copying build/lib/meeko/molsetup.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,640   copying build/lib/meeko/atomtyper.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,643   copying build/lib/meeko/linked_rdkit_chorizo.py -> build/bdist.linux-aarch64/wheel/meeko
2023-11-30T18:43:02,646   running install_data
2023-11-30T18:43:02,672   creating build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data
2023-11-30T18:43:02,672   creating build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/data
2023-11-30T18:43:02,674   copying README.md -> build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/data/
2023-11-30T18:43:02,676   copying LICENSE -> build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/data/
2023-11-30T18:43:02,679   creating build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/data/scripts
2023-11-30T18:43:02,680   copying scripts/mk_export.py -> build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/data/scripts
2023-11-30T18:43:02,683   copying scripts/mk_prepare_ligand.py -> build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/data/scripts
2023-11-30T18:43:02,685   copying scripts/mk_prepare_receptor.py -> build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/data/scripts
2023-11-30T18:43:02,688   copying scripts/mk_get_openff_epsilon_sigma.py -> build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/data/scripts
2023-11-30T18:43:02,690   running install_egg_info
2023-11-30T18:43:02,721   Copying meeko.egg-info to build/bdist.linux-aarch64/wheel/meeko-0.6.0a1-py3.11.egg-info
2023-11-30T18:43:02,734   running install_scripts
2023-11-30T18:43:02,735   creating build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/scripts
2023-11-30T18:43:02,736   copying build/scripts-3.11/mk_export.py -> build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/scripts
2023-11-30T18:43:02,739   copying build/scripts-3.11/mk_prepare_ligand.py -> build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/scripts
2023-11-30T18:43:02,741   copying build/scripts-3.11/mk_prepare_receptor.py -> build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/scripts
2023-11-30T18:43:02,744   changing mode of build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/scripts/mk_export.py to 755
2023-11-30T18:43:02,744   changing mode of build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/scripts/mk_prepare_ligand.py to 755
2023-11-30T18:43:02,745   changing mode of build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.data/scripts/mk_prepare_receptor.py to 755
2023-11-30T18:43:02,762   creating build/bdist.linux-aarch64/wheel/meeko-0.6.0a1.dist-info/WHEEL
2023-11-30T18:43:02,765   creating '/tmp/pip-wheel-imwkcxsb/meeko-0.6.0a1-py3-none-any.whl' and adding 'build/bdist.linux-aarch64/wheel' to it
2023-11-30T18:43:02,768   adding 'meeko/__init__.py'
2023-11-30T18:43:02,770   adding 'meeko/atomtyper.py'
2023-11-30T18:43:02,772   adding 'meeko/bondtyper.py'
2023-11-30T18:43:02,774   adding 'meeko/covalentbuilder.py'
2023-11-30T18:43:02,776   adding 'meeko/espalomatyper.py'
2023-11-30T18:43:02,778   adding 'meeko/flexibility.py'
2023-11-30T18:43:02,780   adding 'meeko/gridbox.py'
2023-11-30T18:43:02,782   adding 'meeko/hydrate.py'
2023-11-30T18:43:02,788   adding 'meeko/linked_rdkit_chorizo.py'
2023-11-30T18:43:02,791   adding 'meeko/macrocycle.py'
2023-11-30T18:43:02,795   adding 'meeko/molecule_pdbqt.py'
2023-11-30T18:43:02,801   adding 'meeko/molsetup.py'
2023-11-30T18:43:02,803   adding 'meeko/openff_xml_parser.py'
2023-11-30T18:43:02,806   adding 'meeko/preparation.py'
2023-11-30T18:43:02,809   adding 'meeko/rdkit_mol_create.py'
2023-11-30T18:43:02,811   adding 'meeko/reactive.py'
2023-11-30T18:43:02,814   adding 'meeko/receptor_pdbqt.py'
2023-11-30T18:43:02,817   adding 'meeko/writer.py'
2023-11-30T18:43:02,819   adding 'meeko/analysis/__init__.py'
2023-11-30T18:43:02,821   adding 'meeko/analysis/fingerprint_interactions.py'
2023-11-30T18:43:02,823   adding 'meeko/analysis/interactions.py'
2023-11-30T18:43:02,825   adding 'meeko/data/atomtypes.txt'
2023-11-30T18:43:02,827   adding 'meeko/data/flexres_templates.json'
2023-11-30T18:43:02,828   adding 'meeko/data/pi_non_aromatic.txt'
2023-11-30T18:43:02,838   adding 'meeko/data/prot_res_params.json'
2023-11-30T18:43:02,849   adding 'meeko/data/residue_params.json'
2023-11-30T18:43:02,852   adding 'meeko/data/waterfield.txt'
2023-11-30T18:43:02,854   adding 'meeko/data/params/ad4_desolv_param.json'
2023-11-30T18:43:02,856   adding 'meeko/data/params/ad4_desolv_volume.json'
2023-11-30T18:43:02,857   adding 'meeko/data/params/ad4_types.json'
2023-11-30T18:43:02,858   adding 'meeko/data/params/ad4_vdw.json'
2023-11-30T18:43:02,860   adding 'meeko/data/params/example_offatom_charge.json'
2023-11-30T18:43:02,861   adding 'meeko/data/params/vina_params.json'
2023-11-30T18:43:02,863   adding 'meeko/utils/__init__.py'
2023-11-30T18:43:02,864   adding 'meeko/utils/autodock4_atom_types_elements.py'
2023-11-30T18:43:02,866   adding 'meeko/utils/covalent_radius_table.py'
2023-11-30T18:43:02,868   adding 'meeko/utils/geomutils.py'
2023-11-30T18:43:02,870   adding 'meeko/utils/obutils.py'
2023-11-30T18:43:02,872   adding 'meeko/utils/pdbutils.py'
2023-11-30T18:43:02,874   adding 'meeko/utils/rdkitutils.py'
2023-11-30T18:43:02,877   adding 'meeko/utils/utils.py'
2023-11-30T18:43:02,879   adding 'meeko/utils/van_der_waals_radius_table.py'
2023-11-30T18:43:02,884   adding 'meeko-0.6.0a1.data/data/LICENSE'
2023-11-30T18:43:02,887   adding 'meeko-0.6.0a1.data/data/README.md'
2023-11-30T18:43:02,889   adding 'meeko-0.6.0a1.data/data/scripts/mk_export.py'
2023-11-30T18:43:02,891   adding 'meeko-0.6.0a1.data/data/scripts/mk_get_openff_epsilon_sigma.py'
2023-11-30T18:43:02,893   adding 'meeko-0.6.0a1.data/data/scripts/mk_prepare_ligand.py'
2023-11-30T18:43:02,897   adding 'meeko-0.6.0a1.data/data/scripts/mk_prepare_receptor.py'
2023-11-30T18:43:02,899   adding 'meeko-0.6.0a1.data/scripts/mk_export.py'
2023-11-30T18:43:02,902   adding 'meeko-0.6.0a1.data/scripts/mk_prepare_ligand.py'
2023-11-30T18:43:02,905   adding 'meeko-0.6.0a1.data/scripts/mk_prepare_receptor.py'
2023-11-30T18:43:02,911   adding 'meeko-0.6.0a1.dist-info/LICENSE'
2023-11-30T18:43:02,913   adding 'meeko-0.6.0a1.dist-info/METADATA'
2023-11-30T18:43:02,915   adding 'meeko-0.6.0a1.dist-info/WHEEL'
2023-11-30T18:43:02,916   adding 'meeko-0.6.0a1.dist-info/top_level.txt'
2023-11-30T18:43:02,917   adding 'meeko-0.6.0a1.dist-info/RECORD'
2023-11-30T18:43:02,925   removing build/bdist.linux-aarch64/wheel
2023-11-30T18:43:03,055   Building wheel for meeko (setup.py): finished with status 'done'
2023-11-30T18:43:03,059   Created wheel for meeko: filename=meeko-0.6.0a1-py3-none-any.whl size=190376 sha256=0ed52cfec48b37b3da175a1426f743aa6095efa144df31884f9cb86fb9fe40ad
2023-11-30T18:43:03,061   Stored in directory: /tmp/pip-ephem-wheel-cache-joqmv9p0/wheels/eb/15/26/1e55e100191aaeb1901e9b91fe801831c69afe4331048449d1
2023-11-30T18:43:03,076 Successfully built meeko
2023-11-30T18:43:03,085 Removed build tracker: '/tmp/pip-build-tracker-nyjq75tg'