2024-02-02T08:12:28,954 Created temporary directory: /tmp/pip-build-tracker-zplzukq_
2024-02-02T08:12:28,955 Initialized build tracking at /tmp/pip-build-tracker-zplzukq_
2024-02-02T08:12:28,956 Created build tracker: /tmp/pip-build-tracker-zplzukq_
2024-02-02T08:12:28,956 Entered build tracker: /tmp/pip-build-tracker-zplzukq_
2024-02-02T08:12:28,957 Created temporary directory: /tmp/pip-wheel-u67fs78k
2024-02-02T08:12:28,960 Created temporary directory: /tmp/pip-ephem-wheel-cache-kzfwhpn2
2024-02-02T08:12:28,984 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2024-02-02T08:12:28,987 2 location(s) to search for versions of meeko:
2024-02-02T08:12:28,987 * https://pypi.org/simple/meeko/
2024-02-02T08:12:28,987 * https://www.piwheels.org/simple/meeko/
2024-02-02T08:12:28,988 Fetching project page and analyzing links: https://pypi.org/simple/meeko/
2024-02-02T08:12:28,989 Getting page https://pypi.org/simple/meeko/
2024-02-02T08:12:28,991 Found index url https://pypi.org/simple/
2024-02-02T08:12:29,206 Fetched page https://pypi.org/simple/meeko/ as application/vnd.pypi.simple.v1+json
2024-02-02T08:12:29,211   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.*)
2024-02-02T08:12:29,212   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.*)
2024-02-02T08:12:29,212   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.*)
2024-02-02T08:12:29,213   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
2024-02-02T08:12:29,214   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.*)
2024-02-02T08:12:29,215   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
2024-02-02T08:12:29,216   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.*)
2024-02-02T08:12:29,217   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
2024-02-02T08:12:29,217   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.*)
2024-02-02T08:12:29,218   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
2024-02-02T08:12:29,219   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.*)
2024-02-02T08:12:29,220   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
2024-02-02T08:12:29,221   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.*)
2024-02-02T08:12:29,222   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
2024-02-02T08:12:29,222   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.*)
2024-02-02T08:12:29,223   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
2024-02-02T08:12:29,224   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)
2024-02-02T08:12:29,225   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
2024-02-02T08:12:29,225   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)
2024-02-02T08:12:29,226   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
2024-02-02T08:12:29,227   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)
2024-02-02T08:12:29,228   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
2024-02-02T08:12:29,228   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)
2024-02-02T08:12:29,229   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
2024-02-02T08:12:29,230   Skipping link: No binaries permitted for meeko: https://files.pythonhosted.org/packages/62/c9/674cb7336acafc89f9fbb77fd80311d57743d96cda81fdd62f6f99e35c31/meeko-0.6.0a3-py3-none-any.whl (from https://pypi.org/simple/meeko/) (requires-python:>=3.5)
2024-02-02T08:12:29,231   Found link https://files.pythonhosted.org/packages/a5/08/8abf3a5732e1c263114060366de04a76fde2c3ca6374e2fea80369e88194/meeko-0.6.0a3.tar.gz (from https://pypi.org/simple/meeko/) (requires-python:>=3.5), version: 0.6.0a3
2024-02-02T08:12:29,232 Fetching project page and analyzing links: https://www.piwheels.org/simple/meeko/
2024-02-02T08:12:29,232 Getting page https://www.piwheels.org/simple/meeko/
2024-02-02T08:12:29,234 Found index url https://www.piwheels.org/simple/
2024-02-02T08:12:29,390 Fetched page https://www.piwheels.org/simple/meeko/ as text/html
2024-02-02T08:12:29,394   Skipping link: No binaries permitted for meeko: https://www.piwheels.org/simple/meeko/meeko-0.6.0a2-py3-none-any.whl#sha256=20994b5df8114eec204a0608030a8291e15c7a9214fdb1728b27489c3920027b (from https://www.piwheels.org/simple/meeko/) (requires-python:>=3.5)
2024-02-02T08:12:29,395   Skipping link: No binaries permitted for meeko: https://www.piwheels.org/simple/meeko/meeko-0.6.0a1-py3-none-any.whl#sha256=0ed52cfec48b37b3da175a1426f743aa6095efa144df31884f9cb86fb9fe40ad (from https://www.piwheels.org/simple/meeko/) (requires-python:>=3.5)
2024-02-02T08:12:29,395   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)
2024-02-02T08:12:29,396   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)
2024-02-02T08:12:29,396   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.*)
2024-02-02T08:12:29,397   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.*)
2024-02-02T08:12:29,397   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.*)
2024-02-02T08:12:29,398   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.*)
2024-02-02T08:12:29,398   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.*)
2024-02-02T08:12:29,399   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.*)
2024-02-02T08:12:29,399   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.*)
2024-02-02T08:12:29,400 Skipping link: not a file: https://www.piwheels.org/simple/meeko/
2024-02-02T08:12:29,401 Skipping link: not a file: https://pypi.org/simple/meeko/
2024-02-02T08:12:29,422 Given no hashes to check 1 links for project 'meeko': discarding no candidates
2024-02-02T08:12:29,442 Collecting meeko==0.6.0a3
2024-02-02T08:12:29,444   Created temporary directory: /tmp/pip-unpack-0iw3b4u3
2024-02-02T08:12:29,668   Downloading meeko-0.6.0a3.tar.gz (154 kB)
2024-02-02T08:12:29,878   Added meeko==0.6.0a3 from https://files.pythonhosted.org/packages/a5/08/8abf3a5732e1c263114060366de04a76fde2c3ca6374e2fea80369e88194/meeko-0.6.0a3.tar.gz to build tracker '/tmp/pip-build-tracker-zplzukq_'
2024-02-02T08:12:29,880   Running setup.py (path:/tmp/pip-wheel-u67fs78k/meeko_a370b73532c6482a9e2b6a1575bdc45b/setup.py) egg_info for package meeko
2024-02-02T08:12:29,881   Created temporary directory: /tmp/pip-pip-egg-info-uv3bojdz
2024-02-02T08:12:29,882   Preparing metadata (setup.py): started
2024-02-02T08:12:29,883   Running command python setup.py egg_info
2024-02-02T08:12:30,964   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:314: InformationOnly: Normalizing '0.6.0-alpha.3' to '0.6.0a3'
2024-02-02T08:12:30,964     self.metadata.version = self._normalize_version(self.metadata.version)
2024-02-02T08:12:31,012   running egg_info
2024-02-02T08:12:31,013   creating /tmp/pip-pip-egg-info-uv3bojdz/meeko.egg-info
2024-02-02T08:12:31,047   writing /tmp/pip-pip-egg-info-uv3bojdz/meeko.egg-info/PKG-INFO
2024-02-02T08:12:31,051   writing dependency_links to /tmp/pip-pip-egg-info-uv3bojdz/meeko.egg-info/dependency_links.txt
2024-02-02T08:12:31,053   writing requirements to /tmp/pip-pip-egg-info-uv3bojdz/meeko.egg-info/requires.txt
2024-02-02T08:12:31,054   writing top-level names to /tmp/pip-pip-egg-info-uv3bojdz/meeko.egg-info/top_level.txt
2024-02-02T08:12:31,055   writing manifest file '/tmp/pip-pip-egg-info-uv3bojdz/meeko.egg-info/SOURCES.txt'
2024-02-02T08:12:31,203   reading manifest file '/tmp/pip-pip-egg-info-uv3bojdz/meeko.egg-info/SOURCES.txt'
2024-02-02T08:12:31,204   adding license file 'LICENSE'
2024-02-02T08:12:31,207   writing manifest file '/tmp/pip-pip-egg-info-uv3bojdz/meeko.egg-info/SOURCES.txt'
2024-02-02T08:12:31,316   Preparing metadata (setup.py): finished with status 'done'
2024-02-02T08:12:31,320   Source in /tmp/pip-wheel-u67fs78k/meeko_a370b73532c6482a9e2b6a1575bdc45b has version 0.6.0a3, which satisfies requirement meeko==0.6.0a3 from https://files.pythonhosted.org/packages/a5/08/8abf3a5732e1c263114060366de04a76fde2c3ca6374e2fea80369e88194/meeko-0.6.0a3.tar.gz
2024-02-02T08:12:31,321   Removed meeko==0.6.0a3 from https://files.pythonhosted.org/packages/a5/08/8abf3a5732e1c263114060366de04a76fde2c3ca6374e2fea80369e88194/meeko-0.6.0a3.tar.gz from build tracker '/tmp/pip-build-tracker-zplzukq_'
2024-02-02T08:12:31,328 Created temporary directory: /tmp/pip-unpack-h9d02395
2024-02-02T08:12:31,329 Created temporary directory: /tmp/pip-unpack-d_ore_nu
2024-02-02T08:12:31,335 Building wheels for collected packages: meeko
2024-02-02T08:12:31,339   Created temporary directory: /tmp/pip-wheel-hr630b0w
2024-02-02T08:12:31,339   Building wheel for meeko (setup.py): started
2024-02-02T08:12:31,341   Destination directory: /tmp/pip-wheel-hr630b0w
2024-02-02T08:12:31,342   Running command python setup.py bdist_wheel
2024-02-02T08:12:32,370   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:314: InformationOnly: Normalizing '0.6.0-alpha.3' to '0.6.0a3'
2024-02-02T08:12:32,370     self.metadata.version = self._normalize_version(self.metadata.version)
2024-02-02T08:12:32,410   running bdist_wheel
2024-02-02T08:12:32,540   running build
2024-02-02T08:12:32,541   running build_py
2024-02-02T08:12:32,576   creating build
2024-02-02T08:12:32,577   creating build/lib
2024-02-02T08:12:32,578   creating build/lib/meeko
2024-02-02T08:12:32,579   copying meeko/hydrate.py -> build/lib/meeko
2024-02-02T08:12:32,582   copying meeko/gridbox.py -> build/lib/meeko
2024-02-02T08:12:32,584   copying meeko/espalomatyper.py -> build/lib/meeko
2024-02-02T08:12:32,586   copying meeko/flexibility.py -> build/lib/meeko
2024-02-02T08:12:32,588   copying meeko/preparation.py -> build/lib/meeko
2024-02-02T08:12:32,591   copying meeko/atomtyper.py -> build/lib/meeko
2024-02-02T08:12:32,593   copying meeko/molecule_pdbqt.py -> build/lib/meeko
2024-02-02T08:12:32,596   copying meeko/macrocycle.py -> build/lib/meeko
2024-02-02T08:12:32,598   copying meeko/reactive.py -> build/lib/meeko
2024-02-02T08:12:32,600   copying meeko/linked_rdkit_chorizo.py -> build/lib/meeko
2024-02-02T08:12:32,603   copying meeko/covalentbuilder.py -> build/lib/meeko
2024-02-02T08:12:32,605   copying meeko/molsetup.py -> build/lib/meeko
2024-02-02T08:12:32,608   copying meeko/writer.py -> build/lib/meeko
2024-02-02T08:12:32,611   copying meeko/__init__.py -> build/lib/meeko
2024-02-02T08:12:32,613   copying meeko/rdkit_mol_create.py -> build/lib/meeko
2024-02-02T08:12:32,615   copying meeko/openff_xml_parser.py -> build/lib/meeko
2024-02-02T08:12:32,618   copying meeko/receptor_pdbqt.py -> build/lib/meeko
2024-02-02T08:12:32,620   copying meeko/bondtyper.py -> build/lib/meeko
2024-02-02T08:12:32,622   creating build/lib/meeko/utils
2024-02-02T08:12:32,623   copying meeko/utils/covalent_radius_table.py -> build/lib/meeko/utils
2024-02-02T08:12:32,625   copying meeko/utils/obutils.py -> build/lib/meeko/utils
2024-02-02T08:12:32,627   copying meeko/utils/van_der_waals_radius_table.py -> build/lib/meeko/utils
2024-02-02T08:12:32,628   copying meeko/utils/pdbutils.py -> build/lib/meeko/utils
2024-02-02T08:12:32,630   copying meeko/utils/rdkitutils.py -> build/lib/meeko/utils
2024-02-02T08:12:32,632   copying meeko/utils/__init__.py -> build/lib/meeko/utils
2024-02-02T08:12:32,633   copying meeko/utils/geomutils.py -> build/lib/meeko/utils
2024-02-02T08:12:32,636   copying meeko/utils/utils.py -> build/lib/meeko/utils
2024-02-02T08:12:32,638   copying meeko/utils/autodock4_atom_types_elements.py -> build/lib/meeko/utils
2024-02-02T08:12:32,640   creating build/lib/meeko/analysis
2024-02-02T08:12:32,641   copying meeko/analysis/fingerprint_interactions.py -> build/lib/meeko/analysis
2024-02-02T08:12:32,643   copying meeko/analysis/interactions.py -> build/lib/meeko/analysis
2024-02-02T08:12:32,645   copying meeko/analysis/__init__.py -> build/lib/meeko/analysis
2024-02-02T08:12:32,646   running egg_info
2024-02-02T08:12:32,720   writing meeko.egg-info/PKG-INFO
2024-02-02T08:12:32,724   writing dependency_links to meeko.egg-info/dependency_links.txt
2024-02-02T08:12:32,726   writing requirements to meeko.egg-info/requires.txt
2024-02-02T08:12:32,727   writing top-level names to meeko.egg-info/top_level.txt
2024-02-02T08:12:32,767   reading manifest file 'meeko.egg-info/SOURCES.txt'
2024-02-02T08:12:32,770   adding license file 'LICENSE'
2024-02-02T08:12:32,773   writing manifest file 'meeko.egg-info/SOURCES.txt'
2024-02-02T08:12:32,775   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'meeko.data' is absent from the `packages` configuration.
2024-02-02T08:12:32,776   !!

2024-02-02T08:12:32,777           ********************************************************************************
2024-02-02T08:12:32,778           ############################
2024-02-02T08:12:32,778           # Package would be ignored #
2024-02-02T08:12:32,779           ############################
2024-02-02T08:12:32,779           Python recognizes 'meeko.data' as an importable package[^1],
2024-02-02T08:12:32,780           but it is absent from setuptools' `packages` configuration.

2024-02-02T08:12:32,781           This leads to an ambiguous overall configuration. If you want to distribute this
2024-02-02T08:12:32,781           package, please make sure that 'meeko.data' is explicitly added
2024-02-02T08:12:32,782           to the `packages` configuration field.

2024-02-02T08:12:32,783           Alternatively, you can also rely on setuptools' discovery methods
2024-02-02T08:12:32,783           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2024-02-02T08:12:32,784           instead of `find_packages(...)`/`find:`).

2024-02-02T08:12:32,785           You can read more about "package discovery" on setuptools documentation page:

2024-02-02T08:12:32,786           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2024-02-02T08:12:32,787           If you don't want 'meeko.data' to be distributed and are
2024-02-02T08:12:32,788           already explicitly excluding 'meeko.data' via
2024-02-02T08:12:32,788           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2024-02-02T08:12:32,789           you can try to use `exclude_package_data`, or `include-package-data=False` in
2024-02-02T08:12:32,789           combination with a more fine grained `package-data` configuration.

2024-02-02T08:12:32,790           You can read more about "package data files" on setuptools documentation page:

2024-02-02T08:12:32,792           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2024-02-02T08:12:32,794           [^1]: For Python, any directory (with suitable naming) can be imported,
2024-02-02T08:12:32,795                 even if it does not contain any `.py` files.
2024-02-02T08:12:32,795                 On the other hand, currently there is no concept of package data
2024-02-02T08:12:32,796                 directory, all directories are treated like packages.
2024-02-02T08:12:32,796           ********************************************************************************

2024-02-02T08:12:32,797   !!
2024-02-02T08:12:32,797     check.warn(importable)
2024-02-02T08:12:32,798   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'meeko.data.params' is absent from the `packages` configuration.
2024-02-02T08:12:32,798   !!

2024-02-02T08:12:32,799           ********************************************************************************
2024-02-02T08:12:32,801           ############################
2024-02-02T08:12:32,802           # Package would be ignored #
2024-02-02T08:12:32,802           ############################
2024-02-02T08:12:32,803           Python recognizes 'meeko.data.params' as an importable package[^1],
2024-02-02T08:12:32,803           but it is absent from setuptools' `packages` configuration.

2024-02-02T08:12:32,804           This leads to an ambiguous overall configuration. If you want to distribute this
2024-02-02T08:12:32,804           package, please make sure that 'meeko.data.params' is explicitly added
2024-02-02T08:12:32,805           to the `packages` configuration field.

2024-02-02T08:12:32,806           Alternatively, you can also rely on setuptools' discovery methods
2024-02-02T08:12:32,806           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2024-02-02T08:12:32,807           instead of `find_packages(...)`/`find:`).

2024-02-02T08:12:32,808           You can read more about "package discovery" on setuptools documentation page:

2024-02-02T08:12:32,809           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2024-02-02T08:12:32,810           If you don't want 'meeko.data.params' to be distributed and are
2024-02-02T08:12:32,810           already explicitly excluding 'meeko.data.params' via
2024-02-02T08:12:32,811           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2024-02-02T08:12:32,811           you can try to use `exclude_package_data`, or `include-package-data=False` in
2024-02-02T08:12:32,812           combination with a more fine grained `package-data` configuration.

2024-02-02T08:12:32,813           You can read more about "package data files" on setuptools documentation page:

2024-02-02T08:12:32,814           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2024-02-02T08:12:32,815           [^1]: For Python, any directory (with suitable naming) can be imported,
2024-02-02T08:12:32,816                 even if it does not contain any `.py` files.
2024-02-02T08:12:32,816                 On the other hand, currently there is no concept of package data
2024-02-02T08:12:32,817                 directory, all directories are treated like packages.
2024-02-02T08:12:32,817           ********************************************************************************

2024-02-02T08:12:32,818   !!
2024-02-02T08:12:32,819     check.warn(importable)
2024-02-02T08:12:32,819   creating build/lib/meeko/data
2024-02-02T08:12:32,820   copying meeko/data/atomtypes.txt -> build/lib/meeko/data
2024-02-02T08:12:32,820   copying meeko/data/flexres_templates.json -> build/lib/meeko/data
2024-02-02T08:12:32,821   copying meeko/data/pi_non_aromatic.txt -> build/lib/meeko/data
2024-02-02T08:12:32,821   copying meeko/data/prot_res_params.json -> build/lib/meeko/data
2024-02-02T08:12:32,822   copying meeko/data/residue_params.json -> build/lib/meeko/data
2024-02-02T08:12:32,822   copying meeko/data/waterfield.txt -> build/lib/meeko/data
2024-02-02T08:12:32,823   creating build/lib/meeko/data/params
2024-02-02T08:12:32,824   copying meeko/data/params/ad4_desolv_param.json -> build/lib/meeko/data/params
2024-02-02T08:12:32,824   copying meeko/data/params/ad4_desolv_volume.json -> build/lib/meeko/data/params
2024-02-02T08:12:32,824   copying meeko/data/params/ad4_types.json -> build/lib/meeko/data/params
2024-02-02T08:12:32,825   copying meeko/data/params/ad4_vdw.json -> build/lib/meeko/data/params
2024-02-02T08:12:32,825   copying meeko/data/params/example_offatom_charge.json -> build/lib/meeko/data/params
2024-02-02T08:12:32,826   copying meeko/data/params/vina_params.json -> build/lib/meeko/data/params
2024-02-02T08:12:32,827   running build_scripts
2024-02-02T08:12:32,827   creating build/scripts-3.11
2024-02-02T08:12:32,828   copying and adjusting scripts/mk_prepare_ligand.py -> build/scripts-3.11
2024-02-02T08:12:32,831   copying and adjusting scripts/mk_prepare_receptor.py -> build/scripts-3.11
2024-02-02T08:12:32,834   copying and adjusting scripts/mk_export.py -> build/scripts-3.11
2024-02-02T08:12:32,835   changing mode of build/scripts-3.11/mk_prepare_ligand.py from 644 to 755
2024-02-02T08:12:32,836   changing mode of build/scripts-3.11/mk_prepare_receptor.py from 644 to 755
2024-02-02T08:12:32,836   changing mode of build/scripts-3.11/mk_export.py from 644 to 755
2024-02-02T08:12:32,870   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2024-02-02T08:12:32,870   !!

2024-02-02T08:12:32,871           ********************************************************************************
2024-02-02T08:12:32,872           Please avoid running ``setup.py`` directly.
2024-02-02T08:12:32,872           Instead, use pypa/build, pypa/installer or other
2024-02-02T08:12:32,873           standards-based tools.

2024-02-02T08:12:32,874           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2024-02-02T08:12:32,874           ********************************************************************************

2024-02-02T08:12:32,875   !!
2024-02-02T08:12:32,876     self.initialize_options()
2024-02-02T08:12:32,905   installing to build/bdist.linux-armv7l/wheel
2024-02-02T08:12:32,906   running install
2024-02-02T08:12:32,929   running install_lib
2024-02-02T08:12:32,962   creating build/bdist.linux-armv7l
2024-02-02T08:12:32,963   creating build/bdist.linux-armv7l/wheel
2024-02-02T08:12:32,964   creating build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:32,965   copying build/lib/meeko/hydrate.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:32,969   creating build/bdist.linux-armv7l/wheel/meeko/data
2024-02-02T08:12:32,969   copying build/lib/meeko/data/waterfield.txt -> build/bdist.linux-armv7l/wheel/meeko/data
2024-02-02T08:12:32,972   creating build/bdist.linux-armv7l/wheel/meeko/data/params
2024-02-02T08:12:32,973   copying build/lib/meeko/data/params/example_offatom_charge.json -> build/bdist.linux-armv7l/wheel/meeko/data/params
2024-02-02T08:12:32,975   copying build/lib/meeko/data/params/ad4_desolv_param.json -> build/bdist.linux-armv7l/wheel/meeko/data/params
2024-02-02T08:12:32,977   copying build/lib/meeko/data/params/ad4_types.json -> build/bdist.linux-armv7l/wheel/meeko/data/params
2024-02-02T08:12:32,979   copying build/lib/meeko/data/params/ad4_vdw.json -> build/bdist.linux-armv7l/wheel/meeko/data/params
2024-02-02T08:12:32,981   copying build/lib/meeko/data/params/ad4_desolv_volume.json -> build/bdist.linux-armv7l/wheel/meeko/data/params
2024-02-02T08:12:32,983   copying build/lib/meeko/data/params/vina_params.json -> build/bdist.linux-armv7l/wheel/meeko/data/params
2024-02-02T08:12:32,984   copying build/lib/meeko/data/atomtypes.txt -> build/bdist.linux-armv7l/wheel/meeko/data
2024-02-02T08:12:32,986   copying build/lib/meeko/data/residue_params.json -> build/bdist.linux-armv7l/wheel/meeko/data
2024-02-02T08:12:32,995   copying build/lib/meeko/data/flexres_templates.json -> build/bdist.linux-armv7l/wheel/meeko/data
2024-02-02T08:12:32,997   copying build/lib/meeko/data/prot_res_params.json -> build/bdist.linux-armv7l/wheel/meeko/data
2024-02-02T08:12:33,003   copying build/lib/meeko/data/pi_non_aromatic.txt -> build/bdist.linux-armv7l/wheel/meeko/data
2024-02-02T08:12:33,005   copying build/lib/meeko/gridbox.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,007   copying build/lib/meeko/espalomatyper.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,009   copying build/lib/meeko/flexibility.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,011   copying build/lib/meeko/preparation.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,014   copying build/lib/meeko/atomtyper.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,017   copying build/lib/meeko/molecule_pdbqt.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,019   copying build/lib/meeko/macrocycle.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,022   copying build/lib/meeko/reactive.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,024   copying build/lib/meeko/linked_rdkit_chorizo.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,028   creating build/bdist.linux-armv7l/wheel/meeko/utils
2024-02-02T08:12:33,029   copying build/lib/meeko/utils/covalent_radius_table.py -> build/bdist.linux-armv7l/wheel/meeko/utils
2024-02-02T08:12:33,031   copying build/lib/meeko/utils/obutils.py -> build/bdist.linux-armv7l/wheel/meeko/utils
2024-02-02T08:12:33,033   copying build/lib/meeko/utils/van_der_waals_radius_table.py -> build/bdist.linux-armv7l/wheel/meeko/utils
2024-02-02T08:12:33,035   copying build/lib/meeko/utils/pdbutils.py -> build/bdist.linux-armv7l/wheel/meeko/utils
2024-02-02T08:12:33,037   copying build/lib/meeko/utils/rdkitutils.py -> build/bdist.linux-armv7l/wheel/meeko/utils
2024-02-02T08:12:33,039   copying build/lib/meeko/utils/__init__.py -> build/bdist.linux-armv7l/wheel/meeko/utils
2024-02-02T08:12:33,041   copying build/lib/meeko/utils/geomutils.py -> build/bdist.linux-armv7l/wheel/meeko/utils
2024-02-02T08:12:33,043   copying build/lib/meeko/utils/utils.py -> build/bdist.linux-armv7l/wheel/meeko/utils
2024-02-02T08:12:33,045   copying build/lib/meeko/utils/autodock4_atom_types_elements.py -> build/bdist.linux-armv7l/wheel/meeko/utils
2024-02-02T08:12:33,047   copying build/lib/meeko/covalentbuilder.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,050   creating build/bdist.linux-armv7l/wheel/meeko/analysis
2024-02-02T08:12:33,051   copying build/lib/meeko/analysis/fingerprint_interactions.py -> build/bdist.linux-armv7l/wheel/meeko/analysis
2024-02-02T08:12:33,053   copying build/lib/meeko/analysis/interactions.py -> build/bdist.linux-armv7l/wheel/meeko/analysis
2024-02-02T08:12:33,055   copying build/lib/meeko/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/meeko/analysis
2024-02-02T08:12:33,057   copying build/lib/meeko/molsetup.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,060   copying build/lib/meeko/writer.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,063   copying build/lib/meeko/__init__.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,065   copying build/lib/meeko/rdkit_mol_create.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,068   copying build/lib/meeko/openff_xml_parser.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,070   copying build/lib/meeko/receptor_pdbqt.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,073   copying build/lib/meeko/bondtyper.py -> build/bdist.linux-armv7l/wheel/meeko
2024-02-02T08:12:33,075   running install_data
2024-02-02T08:12:33,111   creating build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data
2024-02-02T08:12:33,112   creating build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/data
2024-02-02T08:12:33,113   copying README.md -> build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/data/
2024-02-02T08:12:33,116   copying LICENSE -> build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/data/
2024-02-02T08:12:33,119   creating build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/data/scripts
2024-02-02T08:12:33,120   copying scripts/mk_prepare_ligand.py -> build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/data/scripts
2024-02-02T08:12:33,124   copying scripts/mk_prepare_receptor.py -> build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/data/scripts
2024-02-02T08:12:33,127   copying scripts/mk_get_openff_epsilon_sigma.py -> build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/data/scripts
2024-02-02T08:12:33,131   copying scripts/mk_export.py -> build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/data/scripts
2024-02-02T08:12:33,133   running install_egg_info
2024-02-02T08:12:33,172   Copying meeko.egg-info to build/bdist.linux-armv7l/wheel/meeko-0.6.0a3-py3.11.egg-info
2024-02-02T08:12:33,184   running install_scripts
2024-02-02T08:12:33,185   creating build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/scripts
2024-02-02T08:12:33,186   copying build/scripts-3.11/mk_prepare_ligand.py -> build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/scripts
2024-02-02T08:12:33,189   copying build/scripts-3.11/mk_prepare_receptor.py -> build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/scripts
2024-02-02T08:12:33,192   copying build/scripts-3.11/mk_export.py -> build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/scripts
2024-02-02T08:12:33,194   changing mode of build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/scripts/mk_prepare_ligand.py to 755
2024-02-02T08:12:33,195   changing mode of build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/scripts/mk_prepare_receptor.py to 755
2024-02-02T08:12:33,196   changing mode of build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.data/scripts/mk_export.py to 755
2024-02-02T08:12:33,211   creating build/bdist.linux-armv7l/wheel/meeko-0.6.0a3.dist-info/WHEEL
2024-02-02T08:12:33,214   creating '/tmp/pip-wheel-hr630b0w/meeko-0.6.0a3-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2024-02-02T08:12:33,216   adding 'meeko/__init__.py'
2024-02-02T08:12:33,219   adding 'meeko/atomtyper.py'
2024-02-02T08:12:33,221   adding 'meeko/bondtyper.py'
2024-02-02T08:12:33,223   adding 'meeko/covalentbuilder.py'
2024-02-02T08:12:33,225   adding 'meeko/espalomatyper.py'
2024-02-02T08:12:33,227   adding 'meeko/flexibility.py'
2024-02-02T08:12:33,229   adding 'meeko/gridbox.py'
2024-02-02T08:12:33,232   adding 'meeko/hydrate.py'
2024-02-02T08:12:33,238   adding 'meeko/linked_rdkit_chorizo.py'
2024-02-02T08:12:33,241   adding 'meeko/macrocycle.py'
2024-02-02T08:12:33,245   adding 'meeko/molecule_pdbqt.py'
2024-02-02T08:12:33,252   adding 'meeko/molsetup.py'
2024-02-02T08:12:33,254   adding 'meeko/openff_xml_parser.py'
2024-02-02T08:12:33,257   adding 'meeko/preparation.py'
2024-02-02T08:12:33,260   adding 'meeko/rdkit_mol_create.py'
2024-02-02T08:12:33,262   adding 'meeko/reactive.py'
2024-02-02T08:12:33,265   adding 'meeko/receptor_pdbqt.py'
2024-02-02T08:12:33,269   adding 'meeko/writer.py'
2024-02-02T08:12:33,271   adding 'meeko/analysis/__init__.py'
2024-02-02T08:12:33,273   adding 'meeko/analysis/fingerprint_interactions.py'
2024-02-02T08:12:33,275   adding 'meeko/analysis/interactions.py'
2024-02-02T08:12:33,277   adding 'meeko/data/atomtypes.txt'
2024-02-02T08:12:33,278   adding 'meeko/data/flexres_templates.json'
2024-02-02T08:12:33,280   adding 'meeko/data/pi_non_aromatic.txt'
2024-02-02T08:12:33,290   adding 'meeko/data/prot_res_params.json'
2024-02-02T08:12:33,301   adding 'meeko/data/residue_params.json'
2024-02-02T08:12:33,304   adding 'meeko/data/waterfield.txt'
2024-02-02T08:12:33,306   adding 'meeko/data/params/ad4_desolv_param.json'
2024-02-02T08:12:33,308   adding 'meeko/data/params/ad4_desolv_volume.json'
2024-02-02T08:12:33,309   adding 'meeko/data/params/ad4_types.json'
2024-02-02T08:12:33,311   adding 'meeko/data/params/ad4_vdw.json'
2024-02-02T08:12:33,312   adding 'meeko/data/params/example_offatom_charge.json'
2024-02-02T08:12:33,314   adding 'meeko/data/params/vina_params.json'
2024-02-02T08:12:33,316   adding 'meeko/utils/__init__.py'
2024-02-02T08:12:33,318   adding 'meeko/utils/autodock4_atom_types_elements.py'
2024-02-02T08:12:33,320   adding 'meeko/utils/covalent_radius_table.py'
2024-02-02T08:12:33,323   adding 'meeko/utils/geomutils.py'
2024-02-02T08:12:33,325   adding 'meeko/utils/obutils.py'
2024-02-02T08:12:33,326   adding 'meeko/utils/pdbutils.py'
2024-02-02T08:12:33,328   adding 'meeko/utils/rdkitutils.py'
2024-02-02T08:12:33,331   adding 'meeko/utils/utils.py'
2024-02-02T08:12:33,332   adding 'meeko/utils/van_der_waals_radius_table.py'
2024-02-02T08:12:33,338   adding 'meeko-0.6.0a3.data/data/LICENSE'
2024-02-02T08:12:33,341   adding 'meeko-0.6.0a3.data/data/README.md'
2024-02-02T08:12:33,343   adding 'meeko-0.6.0a3.data/data/scripts/mk_export.py'
2024-02-02T08:12:33,345   adding 'meeko-0.6.0a3.data/data/scripts/mk_get_openff_epsilon_sigma.py'
2024-02-02T08:12:33,348   adding 'meeko-0.6.0a3.data/data/scripts/mk_prepare_ligand.py'
2024-02-02T08:12:33,351   adding 'meeko-0.6.0a3.data/data/scripts/mk_prepare_receptor.py'
2024-02-02T08:12:33,354   adding 'meeko-0.6.0a3.data/scripts/mk_export.py'
2024-02-02T08:12:33,356   adding 'meeko-0.6.0a3.data/scripts/mk_prepare_ligand.py'
2024-02-02T08:12:33,360   adding 'meeko-0.6.0a3.data/scripts/mk_prepare_receptor.py'
2024-02-02T08:12:33,365   adding 'meeko-0.6.0a3.dist-info/LICENSE'
2024-02-02T08:12:33,367   adding 'meeko-0.6.0a3.dist-info/METADATA'
2024-02-02T08:12:33,369   adding 'meeko-0.6.0a3.dist-info/WHEEL'
2024-02-02T08:12:33,369   adding 'meeko-0.6.0a3.dist-info/top_level.txt'
2024-02-02T08:12:33,371   adding 'meeko-0.6.0a3.dist-info/RECORD'
2024-02-02T08:12:33,375   removing build/bdist.linux-armv7l/wheel
2024-02-02T08:12:33,502   Building wheel for meeko (setup.py): finished with status 'done'
2024-02-02T08:12:33,507   Created wheel for meeko: filename=meeko-0.6.0a3-py3-none-any.whl size=192355 sha256=0a658b5458906667839e515e452caf347ab0cbc571061c216dabe7b4e54c6b3d
2024-02-02T08:12:33,508   Stored in directory: /tmp/pip-ephem-wheel-cache-kzfwhpn2/wheels/4c/46/47/979030f7b91dc427457e7892ab0cdc8c0eb348544b8c6c6307
2024-02-02T08:12:33,524 Successfully built meeko
2024-02-02T08:12:33,535 Removed build tracker: '/tmp/pip-build-tracker-zplzukq_'