2025-03-28T14:08:58,821 Created temporary directory: /tmp/pip-build-tracker-4j1vgav5
2025-03-28T14:08:58,823 Initialized build tracking at /tmp/pip-build-tracker-4j1vgav5
2025-03-28T14:08:58,823 Created build tracker: /tmp/pip-build-tracker-4j1vgav5
2025-03-28T14:08:58,824 Entered build tracker: /tmp/pip-build-tracker-4j1vgav5
2025-03-28T14:08:58,824 Created temporary directory: /tmp/pip-wheel-ky9_13sl
2025-03-28T14:08:58,828 Created temporary directory: /tmp/pip-ephem-wheel-cache-kgr6xmci
2025-03-28T14:08:58,873 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-03-28T14:08:58,876 2 location(s) to search for versions of streamd:
2025-03-28T14:08:58,876 * https://pypi.org/simple/streamd/
2025-03-28T14:08:58,876 * https://www.piwheels.org/simple/streamd/
2025-03-28T14:08:58,877 Fetching project page and analyzing links: https://pypi.org/simple/streamd/
2025-03-28T14:08:58,877 Getting page https://pypi.org/simple/streamd/
2025-03-28T14:08:58,879 Found index url https://pypi.org/simple/
2025-03-28T14:08:59,095 Fetched page https://pypi.org/simple/streamd/ as application/vnd.pypi.simple.v1+json
2025-03-28T14:08:59,099   Found link https://files.pythonhosted.org/packages/8d/96/dd06d3cfc2b8f66a791d39120d88fc8a735168ebc8ff7e5638850a02bdb7/streamd-0.2.4.tar.gz (from https://pypi.org/simple/streamd/) (requires-python:>=3.6), version: 0.2.4
2025-03-28T14:08:59,100   Found link https://files.pythonhosted.org/packages/3c/33/e67ff9cffede4a4390020db9ba6f6823898845e3c8bba06b3b5ff85c9c70/streamd-0.2.5.tar.gz (from https://pypi.org/simple/streamd/) (requires-python:>=3.6), version: 0.2.5
2025-03-28T14:08:59,101   Skipping link: No binaries permitted for streamd: https://files.pythonhosted.org/packages/44/4e/ff6c13b62f53b4037ae42649009dce5a32b8ac0ad0eac5eec3df5cfbb557/streamd-0.2.6-py3-none-any.whl (from https://pypi.org/simple/streamd/) (requires-python:>=3.6)
2025-03-28T14:08:59,102   Found link https://files.pythonhosted.org/packages/72/53/dc71d524afdcfe34821f994e1affe793bbc44b984a73134cdea2ef641300/streamd-0.2.6.tar.gz (from https://pypi.org/simple/streamd/) (requires-python:>=3.6), version: 0.2.6
2025-03-28T14:08:59,102   Skipping link: No binaries permitted for streamd: https://files.pythonhosted.org/packages/4f/10/22028ea2fffc91921a979a6e5ac95b1f2b490e16abb5942b8ed978990ef7/streamd-0.2.7-py3-none-any.whl (from https://pypi.org/simple/streamd/) (requires-python:>=3.6)
2025-03-28T14:08:59,103   Found link https://files.pythonhosted.org/packages/0f/8e/371666f0b05ae834174fb94cf0f7bd3871c13f87754cb346c767547c4fd6/streamd-0.2.7.tar.gz (from https://pypi.org/simple/streamd/) (requires-python:>=3.6), version: 0.2.7
2025-03-28T14:08:59,104   Skipping link: No binaries permitted for streamd: https://files.pythonhosted.org/packages/c2/f5/430a5c7a0d58e87a183780df143edaea3c8926826fbe74855b67dc603ac8/streamd-0.2.8-py3-none-any.whl (from https://pypi.org/simple/streamd/) (requires-python:>=3.6)
2025-03-28T14:08:59,105   Found link https://files.pythonhosted.org/packages/19/63/5b4a036a2830d533730fefed020bcd0451328786b9d3de3e28b3b4f9ce5a/streamd-0.2.8.tar.gz (from https://pypi.org/simple/streamd/) (requires-python:>=3.6), version: 0.2.8
2025-03-28T14:08:59,106   Skipping link: No binaries permitted for streamd: https://files.pythonhosted.org/packages/0d/0e/56e8fb1a84d82e7f36c107fd07d780f29b3be32de62ab14af1cd1ebf030b/streamd-0.2.9-py3-none-any.whl (from https://pypi.org/simple/streamd/) (requires-python:>=3.6)
2025-03-28T14:08:59,106   Found link https://files.pythonhosted.org/packages/4b/a2/ba16665fe440ea86118621cdcd0510b4d700139c70b1b2597469cbc652c5/streamd-0.2.9.tar.gz (from https://pypi.org/simple/streamd/) (requires-python:>=3.6), version: 0.2.9
2025-03-28T14:08:59,107   Skipping link: No binaries permitted for streamd: https://files.pythonhosted.org/packages/53/88/c0feb4fb4b51196ef79a72380bb22ec9b2e2f0674f034e2520aba9d563eb/streamd-0.3-py3-none-any.whl (from https://pypi.org/simple/streamd/) (requires-python:>=3.6)
2025-03-28T14:08:59,108   Found link https://files.pythonhosted.org/packages/bf/ba/70cf2cfbe64e43048424f29dd196db07250247d0aae797fb5a083054e3fe/streamd-0.3.tar.gz (from https://pypi.org/simple/streamd/) (requires-python:>=3.6), version: 0.3
2025-03-28T14:08:59,109 Fetching project page and analyzing links: https://www.piwheels.org/simple/streamd/
2025-03-28T14:08:59,110 Getting page https://www.piwheels.org/simple/streamd/
2025-03-28T14:08:59,111 Found index url https://www.piwheels.org/simple/
2025-03-28T14:08:59,270 Fetched page https://www.piwheels.org/simple/streamd/ as text/html
2025-03-28T14:08:59,273   Skipping link: No binaries permitted for streamd: https://www.piwheels.org/simple/streamd/streamd-0.2.9-py3-none-any.whl#sha256=2f5cf07ac089ea46fefb860397b396a55254233e996ad7572c92226ed1d2dfc4 (from https://www.piwheels.org/simple/streamd/) (requires-python:>=3.6)
2025-03-28T14:08:59,273   Skipping link: No binaries permitted for streamd: https://www.piwheels.org/simple/streamd/streamd-0.2.8-py3-none-any.whl#sha256=a342054bdd211653becf34ee37509df59f9e3cc54a5ff152aff02627d172df19 (from https://www.piwheels.org/simple/streamd/) (requires-python:>=3.6)
2025-03-28T14:08:59,274   Skipping link: No binaries permitted for streamd: https://www.piwheels.org/simple/streamd/streamd-0.2.7-py3-none-any.whl#sha256=b7a066f4959ff075f96580ed0af8feed31c39d59ca32f5706f79c6503d02d3f7 (from https://www.piwheels.org/simple/streamd/) (requires-python:>=3.6)
2025-03-28T14:08:59,274   Skipping link: No binaries permitted for streamd: https://www.piwheels.org/simple/streamd/streamd-0.2.6-py3-none-any.whl#sha256=f7888c07d9836354ded91c5e344bbb7b1d4552d11e37e32321cde4b50262a040 (from https://www.piwheels.org/simple/streamd/) (requires-python:>=3.6)
2025-03-28T14:08:59,274   Skipping link: No binaries permitted for streamd: https://www.piwheels.org/simple/streamd/streamd-0.2.5-py3-none-any.whl#sha256=23e92bac46dff5622fbf91e611c2277c5c87967d2a26965933d6f33e03b63818 (from https://www.piwheels.org/simple/streamd/) (requires-python:>=3.6)
2025-03-28T14:08:59,275   Skipping link: No binaries permitted for streamd: https://www.piwheels.org/simple/streamd/streamd-0.2.4-py3-none-any.whl#sha256=411cca8c59b01f0e7b8e18520e025a61e135cc2a6db0f374d2d5b80b171dbb2e (from https://www.piwheels.org/simple/streamd/) (requires-python:>=3.6)
2025-03-28T14:08:59,275 Skipping link: not a file: https://www.piwheels.org/simple/streamd/
2025-03-28T14:08:59,276 Skipping link: not a file: https://pypi.org/simple/streamd/
2025-03-28T14:08:59,296 Given no hashes to check 1 links for project 'streamd': discarding no candidates
2025-03-28T14:08:59,298 Collecting streamd==0.3
2025-03-28T14:08:59,300   Created temporary directory: /tmp/pip-unpack-jd0qr40q
2025-03-28T14:08:59,438   Downloading streamd-0.3.tar.gz (178 kB)
2025-03-28T14:08:59,665   Added streamd==0.3 from https://files.pythonhosted.org/packages/bf/ba/70cf2cfbe64e43048424f29dd196db07250247d0aae797fb5a083054e3fe/streamd-0.3.tar.gz to build tracker '/tmp/pip-build-tracker-4j1vgav5'
2025-03-28T14:08:59,667   Running setup.py (path:/tmp/pip-wheel-ky9_13sl/streamd_659fc7b76eb64948ada53026db452948/setup.py) egg_info for package streamd
2025-03-28T14:08:59,668   Created temporary directory: /tmp/pip-pip-egg-info-74ae8k_7
2025-03-28T14:08:59,669   Preparing metadata (setup.py): started
2025-03-28T14:08:59,670   Running command python setup.py egg_info
2025-03-28T14:09:00,760   running egg_info
2025-03-28T14:09:00,787   creating /tmp/pip-pip-egg-info-74ae8k_7/streamd.egg-info
2025-03-28T14:09:00,788   writing /tmp/pip-pip-egg-info-74ae8k_7/streamd.egg-info/PKG-INFO
2025-03-28T14:09:00,793   writing dependency_links to /tmp/pip-pip-egg-info-74ae8k_7/streamd.egg-info/dependency_links.txt
2025-03-28T14:09:00,795   writing entry points to /tmp/pip-pip-egg-info-74ae8k_7/streamd.egg-info/entry_points.txt
2025-03-28T14:09:00,797   writing requirements to /tmp/pip-pip-egg-info-74ae8k_7/streamd.egg-info/requires.txt
2025-03-28T14:09:00,798   writing top-level names to /tmp/pip-pip-egg-info-74ae8k_7/streamd.egg-info/top_level.txt
2025-03-28T14:09:00,799   writing manifest file '/tmp/pip-pip-egg-info-74ae8k_7/streamd.egg-info/SOURCES.txt'
2025-03-28T14:09:00,895   reading manifest file '/tmp/pip-pip-egg-info-74ae8k_7/streamd.egg-info/SOURCES.txt'
2025-03-28T14:09:00,896   reading manifest template 'MANIFEST.in'
2025-03-28T14:09:00,901   adding license file 'LICENSE.txt'
2025-03-28T14:09:00,906   writing manifest file '/tmp/pip-pip-egg-info-74ae8k_7/streamd.egg-info/SOURCES.txt'
2025-03-28T14:09:01,017   Preparing metadata (setup.py): finished with status 'done'
2025-03-28T14:09:01,022   Source in /tmp/pip-wheel-ky9_13sl/streamd_659fc7b76eb64948ada53026db452948 has version 0.3, which satisfies requirement streamd==0.3 from https://files.pythonhosted.org/packages/bf/ba/70cf2cfbe64e43048424f29dd196db07250247d0aae797fb5a083054e3fe/streamd-0.3.tar.gz
2025-03-28T14:09:01,023   Removed streamd==0.3 from https://files.pythonhosted.org/packages/bf/ba/70cf2cfbe64e43048424f29dd196db07250247d0aae797fb5a083054e3fe/streamd-0.3.tar.gz from build tracker '/tmp/pip-build-tracker-4j1vgav5'
2025-03-28T14:09:01,032 Created temporary directory: /tmp/pip-unpack-rhv1sviy
2025-03-28T14:09:01,033 Created temporary directory: /tmp/pip-unpack-pttwnuzj
2025-03-28T14:09:01,034 Building wheels for collected packages: streamd
2025-03-28T14:09:01,038   Created temporary directory: /tmp/pip-wheel-dzrtqn04
2025-03-28T14:09:01,039   Building wheel for streamd (setup.py): started
2025-03-28T14:09:01,040   Destination directory: /tmp/pip-wheel-dzrtqn04
2025-03-28T14:09:01,040   Running command python setup.py bdist_wheel
2025-03-28T14:09:02,083   running bdist_wheel
2025-03-28T14:09:02,220   running build
2025-03-28T14:09:02,221   running build_py
2025-03-28T14:09:02,251   creating build/lib/streamd
2025-03-28T14:09:02,254   copying streamd/run_md.py -> build/lib/streamd
2025-03-28T14:09:02,258   copying streamd/__init__.py -> build/lib/streamd
2025-03-28T14:09:02,260   copying streamd/run_gbsa.py -> build/lib/streamd
2025-03-28T14:09:02,264   creating build/lib/streamd/preparation
2025-03-28T14:09:02,265   copying streamd/preparation/mcpbpy_preparation.py -> build/lib/streamd/preparation
2025-03-28T14:09:02,267   copying streamd/preparation/__init__.py -> build/lib/streamd/preparation
2025-03-28T14:09:02,270   copying streamd/preparation/complex_preparation.py -> build/lib/streamd/preparation
2025-03-28T14:09:02,272   copying streamd/preparation/nonstandard_solvent_preparation.py -> build/lib/streamd/preparation
2025-03-28T14:09:02,274   copying streamd/preparation/ligand_preparation.py -> build/lib/streamd/preparation
2025-03-28T14:09:02,277   copying streamd/preparation/md_files_preparation.py -> build/lib/streamd/preparation
2025-03-28T14:09:02,280   creating build/lib/streamd/analysis
2025-03-28T14:09:02,281   copying streamd/analysis/__init__.py -> build/lib/streamd/analysis
2025-03-28T14:09:02,283   copying streamd/analysis/xvg2png.py -> build/lib/streamd/analysis
2025-03-28T14:09:02,284   copying streamd/analysis/run_analysis.py -> build/lib/streamd/analysis
2025-03-28T14:09:02,287   copying streamd/analysis/plot_build.py -> build/lib/streamd/analysis
2025-03-28T14:09:02,290   copying streamd/analysis/md_system_analysis.py -> build/lib/streamd/analysis
2025-03-28T14:09:02,293   creating build/lib/streamd/tests
2025-03-28T14:09:02,294   copying streamd/tests/preparation_test.py -> build/lib/streamd/tests
2025-03-28T14:09:02,296   copying streamd/tests/gbsa_test.py -> build/lib/streamd/tests
2025-03-28T14:09:02,298   copying streamd/tests/__init__.py -> build/lib/streamd/tests
2025-03-28T14:09:02,300   copying streamd/tests/analysis_test.py -> build/lib/streamd/tests
2025-03-28T14:09:02,302   copying streamd/tests/import_test.py -> build/lib/streamd/tests
2025-03-28T14:09:02,304   copying streamd/tests/prolif_test.py -> build/lib/streamd/tests
2025-03-28T14:09:02,306   copying streamd/tests/conftest.py -> build/lib/streamd/tests
2025-03-28T14:09:02,308   copying streamd/tests/md_test.py -> build/lib/streamd/tests
2025-03-28T14:09:02,311   creating build/lib/streamd/scripts
2025-03-28T14:09:02,312   copying streamd/scripts/pmed_amb2gmx.py -> build/lib/streamd/scripts
2025-03-28T14:09:02,315   copying streamd/scripts/__init__.py -> build/lib/streamd/scripts
2025-03-28T14:09:02,316   copying streamd/scripts/getcharge.py -> build/lib/streamd/scripts
2025-03-28T14:09:02,318   copying streamd/scripts/pdb2mol.py -> build/lib/streamd/scripts
2025-03-28T14:09:02,320   copying streamd/scripts/prepare_Gaussian_input.py -> build/lib/streamd/scripts
2025-03-28T14:09:02,322   copying streamd/scripts/mol2_fix_coordsbonds.py -> build/lib/streamd/scripts
2025-03-28T14:09:02,325   creating build/lib/streamd/utils
2025-03-28T14:09:02,326   copying streamd/utils/dask_init.py -> build/lib/streamd/utils
2025-03-28T14:09:02,327   copying streamd/utils/__init__.py -> build/lib/streamd/utils
2025-03-28T14:09:02,329   copying streamd/utils/utils.py -> build/lib/streamd/utils
2025-03-28T14:09:02,332   creating build/lib/streamd/prolif
2025-03-28T14:09:02,333   copying streamd/prolif/__init__.py -> build/lib/streamd/prolif
2025-03-28T14:09:02,334   copying streamd/prolif/prolif_frame_map.py -> build/lib/streamd/prolif
2025-03-28T14:09:02,337   copying streamd/prolif/prolif2png.py -> build/lib/streamd/prolif
2025-03-28T14:09:02,339   copying streamd/prolif/run_prolif.py -> build/lib/streamd/prolif
2025-03-28T14:09:02,342   creating build/lib/streamd/mcpbpy_md
2025-03-28T14:09:02,343   copying streamd/mcpbpy_md/__init__.py -> build/lib/streamd/mcpbpy_md
2025-03-28T14:09:02,345   copying streamd/mcpbpy_md/mcbpy_md.py -> build/lib/streamd/mcpbpy_md
2025-03-28T14:09:02,346   running egg_info
2025-03-28T14:09:02,376   writing streamd.egg-info/PKG-INFO
2025-03-28T14:09:02,381   writing dependency_links to streamd.egg-info/dependency_links.txt
2025-03-28T14:09:02,383   writing entry points to streamd.egg-info/entry_points.txt
2025-03-28T14:09:02,385   writing requirements to streamd.egg-info/requires.txt
2025-03-28T14:09:02,386   writing top-level names to streamd.egg-info/top_level.txt
2025-03-28T14:09:02,424   reading manifest file 'streamd.egg-info/SOURCES.txt'
2025-03-28T14:09:02,430   reading manifest template 'MANIFEST.in'
2025-03-28T14:09:02,433   adding license file 'LICENSE.txt'
2025-03-28T14:09:02,438   writing manifest file 'streamd.egg-info/SOURCES.txt'
2025-03-28T14:09:02,441   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'streamd.example' is absent from the `packages` configuration.
2025-03-28T14:09:02,441   !!

2025-03-28T14:09:02,443           ********************************************************************************
2025-03-28T14:09:02,444           ############################
2025-03-28T14:09:02,444           # Package would be ignored #
2025-03-28T14:09:02,445           ############################
2025-03-28T14:09:02,446           Python recognizes 'streamd.example' as an importable package[^1],
2025-03-28T14:09:02,447           but it is absent from setuptools' `packages` configuration.

2025-03-28T14:09:02,448           This leads to an ambiguous overall configuration. If you want to distribute this
2025-03-28T14:09:02,448           package, please make sure that 'streamd.example' is explicitly added
2025-03-28T14:09:02,449           to the `packages` configuration field.

2025-03-28T14:09:02,450           Alternatively, you can also rely on setuptools' discovery methods
2025-03-28T14:09:02,451           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2025-03-28T14:09:02,451           instead of `find_packages(...)`/`find:`).

2025-03-28T14:09:02,453           You can read more about "package discovery" on setuptools documentation page:

2025-03-28T14:09:02,454           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2025-03-28T14:09:02,455           If you don't want 'streamd.example' to be distributed and are
2025-03-28T14:09:02,456           already explicitly excluding 'streamd.example' via
2025-03-28T14:09:02,456           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2025-03-28T14:09:02,457           you can try to use `exclude_package_data`, or `include-package-data=False` in
2025-03-28T14:09:02,458           combination with a more fine grained `package-data` configuration.

2025-03-28T14:09:02,459           You can read more about "package data files" on setuptools documentation page:

2025-03-28T14:09:02,459           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2025-03-28T14:09:02,461           [^1]: For Python, any directory (with suitable naming) can be imported,
2025-03-28T14:09:02,461                 even if it does not contain any `.py` files.
2025-03-28T14:09:02,462                 On the other hand, currently there is no concept of package data
2025-03-28T14:09:02,462                 directory, all directories are treated like packages.
2025-03-28T14:09:02,462           ********************************************************************************

2025-03-28T14:09:02,463   !!
2025-03-28T14:09:02,464     check.warn(importable)
2025-03-28T14:09:02,464   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'streamd.scripts.com' is absent from the `packages` configuration.
2025-03-28T14:09:02,465   !!

2025-03-28T14:09:02,466           ********************************************************************************
2025-03-28T14:09:02,466           ############################
2025-03-28T14:09:02,467           # Package would be ignored #
2025-03-28T14:09:02,468           ############################
2025-03-28T14:09:02,469           Python recognizes 'streamd.scripts.com' as an importable package[^1],
2025-03-28T14:09:02,470           but it is absent from setuptools' `packages` configuration.

2025-03-28T14:09:02,471           This leads to an ambiguous overall configuration. If you want to distribute this
2025-03-28T14:09:02,472           package, please make sure that 'streamd.scripts.com' is explicitly added
2025-03-28T14:09:02,472           to the `packages` configuration field.

2025-03-28T14:09:02,473           Alternatively, you can also rely on setuptools' discovery methods
2025-03-28T14:09:02,474           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2025-03-28T14:09:02,474           instead of `find_packages(...)`/`find:`).

2025-03-28T14:09:02,475           You can read more about "package discovery" on setuptools documentation page:

2025-03-28T14:09:02,476           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2025-03-28T14:09:02,477           If you don't want 'streamd.scripts.com' to be distributed and are
2025-03-28T14:09:02,478           already explicitly excluding 'streamd.scripts.com' via
2025-03-28T14:09:02,478           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2025-03-28T14:09:02,479           you can try to use `exclude_package_data`, or `include-package-data=False` in
2025-03-28T14:09:02,479           combination with a more fine grained `package-data` configuration.

2025-03-28T14:09:02,480           You can read more about "package data files" on setuptools documentation page:

2025-03-28T14:09:02,481           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2025-03-28T14:09:02,483           [^1]: For Python, any directory (with suitable naming) can be imported,
2025-03-28T14:09:02,483                 even if it does not contain any `.py` files.
2025-03-28T14:09:02,484                 On the other hand, currently there is no concept of package data
2025-03-28T14:09:02,484                 directory, all directories are treated like packages.
2025-03-28T14:09:02,485           ********************************************************************************

2025-03-28T14:09:02,486   !!
2025-03-28T14:09:02,486     check.warn(importable)
2025-03-28T14:09:02,487   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'streamd.scripts.gbsa' is absent from the `packages` configuration.
2025-03-28T14:09:02,487   !!

2025-03-28T14:09:02,489           ********************************************************************************
2025-03-28T14:09:02,489           ############################
2025-03-28T14:09:02,490           # Package would be ignored #
2025-03-28T14:09:02,490           ############################
2025-03-28T14:09:02,491           Python recognizes 'streamd.scripts.gbsa' as an importable package[^1],
2025-03-28T14:09:02,491           but it is absent from setuptools' `packages` configuration.

2025-03-28T14:09:02,492           This leads to an ambiguous overall configuration. If you want to distribute this
2025-03-28T14:09:02,492           package, please make sure that 'streamd.scripts.gbsa' is explicitly added
2025-03-28T14:09:02,493           to the `packages` configuration field.

2025-03-28T14:09:02,494           Alternatively, you can also rely on setuptools' discovery methods
2025-03-28T14:09:02,494           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2025-03-28T14:09:02,494           instead of `find_packages(...)`/`find:`).

2025-03-28T14:09:02,495           You can read more about "package discovery" on setuptools documentation page:

2025-03-28T14:09:02,496           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2025-03-28T14:09:02,497           If you don't want 'streamd.scripts.gbsa' to be distributed and are
2025-03-28T14:09:02,497           already explicitly excluding 'streamd.scripts.gbsa' via
2025-03-28T14:09:02,498           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2025-03-28T14:09:02,498           you can try to use `exclude_package_data`, or `include-package-data=False` in
2025-03-28T14:09:02,499           combination with a more fine grained `package-data` configuration.

2025-03-28T14:09:02,500           You can read more about "package data files" on setuptools documentation page:

2025-03-28T14:09:02,501           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2025-03-28T14:09:02,502           [^1]: For Python, any directory (with suitable naming) can be imported,
2025-03-28T14:09:02,503                 even if it does not contain any `.py` files.
2025-03-28T14:09:02,503                 On the other hand, currently there is no concept of package data
2025-03-28T14:09:02,504                 directory, all directories are treated like packages.
2025-03-28T14:09:02,504           ********************************************************************************

2025-03-28T14:09:02,505   !!
2025-03-28T14:09:02,506     check.warn(importable)
2025-03-28T14:09:02,506   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'streamd.scripts.mcpbpy_scripts' is absent from the `packages` configuration.
2025-03-28T14:09:02,507   !!

2025-03-28T14:09:02,508           ********************************************************************************
2025-03-28T14:09:02,508           ############################
2025-03-28T14:09:02,509           # Package would be ignored #
2025-03-28T14:09:02,509           ############################
2025-03-28T14:09:02,510           Python recognizes 'streamd.scripts.mcpbpy_scripts' as an importable package[^1],
2025-03-28T14:09:02,510           but it is absent from setuptools' `packages` configuration.

2025-03-28T14:09:02,511           This leads to an ambiguous overall configuration. If you want to distribute this
2025-03-28T14:09:02,512           package, please make sure that 'streamd.scripts.mcpbpy_scripts' is explicitly added
2025-03-28T14:09:02,512           to the `packages` configuration field.

2025-03-28T14:09:02,513           Alternatively, you can also rely on setuptools' discovery methods
2025-03-28T14:09:02,514           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2025-03-28T14:09:02,514           instead of `find_packages(...)`/`find:`).

2025-03-28T14:09:02,515           You can read more about "package discovery" on setuptools documentation page:

2025-03-28T14:09:02,517           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2025-03-28T14:09:02,518           If you don't want 'streamd.scripts.mcpbpy_scripts' to be distributed and are
2025-03-28T14:09:02,518           already explicitly excluding 'streamd.scripts.mcpbpy_scripts' via
2025-03-28T14:09:02,519           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2025-03-28T14:09:02,519           you can try to use `exclude_package_data`, or `include-package-data=False` in
2025-03-28T14:09:02,520           combination with a more fine grained `package-data` configuration.

2025-03-28T14:09:02,520           You can read more about "package data files" on setuptools documentation page:

2025-03-28T14:09:02,521           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2025-03-28T14:09:02,522           [^1]: For Python, any directory (with suitable naming) can be imported,
2025-03-28T14:09:02,523                 even if it does not contain any `.py` files.
2025-03-28T14:09:02,523                 On the other hand, currently there is no concept of package data
2025-03-28T14:09:02,524                 directory, all directories are treated like packages.
2025-03-28T14:09:02,524           ********************************************************************************

2025-03-28T14:09:02,525   !!
2025-03-28T14:09:02,525     check.warn(importable)
2025-03-28T14:09:02,526   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'streamd.scripts.mdp' is absent from the `packages` configuration.
2025-03-28T14:09:02,526   !!

2025-03-28T14:09:02,527           ********************************************************************************
2025-03-28T14:09:02,528           ############################
2025-03-28T14:09:02,528           # Package would be ignored #
2025-03-28T14:09:02,528           ############################
2025-03-28T14:09:02,529           Python recognizes 'streamd.scripts.mdp' as an importable package[^1],
2025-03-28T14:09:02,529           but it is absent from setuptools' `packages` configuration.

2025-03-28T14:09:02,530           This leads to an ambiguous overall configuration. If you want to distribute this
2025-03-28T14:09:02,531           package, please make sure that 'streamd.scripts.mdp' is explicitly added
2025-03-28T14:09:02,531           to the `packages` configuration field.

2025-03-28T14:09:02,532           Alternatively, you can also rely on setuptools' discovery methods
2025-03-28T14:09:02,533           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2025-03-28T14:09:02,533           instead of `find_packages(...)`/`find:`).

2025-03-28T14:09:02,534           You can read more about "package discovery" on setuptools documentation page:

2025-03-28T14:09:02,535           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2025-03-28T14:09:02,536           If you don't want 'streamd.scripts.mdp' to be distributed and are
2025-03-28T14:09:02,537           already explicitly excluding 'streamd.scripts.mdp' via
2025-03-28T14:09:02,537           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2025-03-28T14:09:02,538           you can try to use `exclude_package_data`, or `include-package-data=False` in
2025-03-28T14:09:02,538           combination with a more fine grained `package-data` configuration.

2025-03-28T14:09:02,539           You can read more about "package data files" on setuptools documentation page:

2025-03-28T14:09:02,540           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2025-03-28T14:09:02,542           [^1]: For Python, any directory (with suitable naming) can be imported,
2025-03-28T14:09:02,542                 even if it does not contain any `.py` files.
2025-03-28T14:09:02,543                 On the other hand, currently there is no concept of package data
2025-03-28T14:09:02,543                 directory, all directories are treated like packages.
2025-03-28T14:09:02,544           ********************************************************************************

2025-03-28T14:09:02,545   !!
2025-03-28T14:09:02,546     check.warn(importable)
2025-03-28T14:09:02,547   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'streamd.scripts.script_sh' is absent from the `packages` configuration.
2025-03-28T14:09:02,548   !!

2025-03-28T14:09:02,548           ********************************************************************************
2025-03-28T14:09:02,549           ############################
2025-03-28T14:09:02,549           # Package would be ignored #
2025-03-28T14:09:02,550           ############################
2025-03-28T14:09:02,550           Python recognizes 'streamd.scripts.script_sh' as an importable package[^1],
2025-03-28T14:09:02,551           but it is absent from setuptools' `packages` configuration.

2025-03-28T14:09:02,551           This leads to an ambiguous overall configuration. If you want to distribute this
2025-03-28T14:09:02,552           package, please make sure that 'streamd.scripts.script_sh' is explicitly added
2025-03-28T14:09:02,552           to the `packages` configuration field.

2025-03-28T14:09:02,553           Alternatively, you can also rely on setuptools' discovery methods
2025-03-28T14:09:02,554           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2025-03-28T14:09:02,554           instead of `find_packages(...)`/`find:`).

2025-03-28T14:09:02,555           You can read more about "package discovery" on setuptools documentation page:

2025-03-28T14:09:02,556           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2025-03-28T14:09:02,557           If you don't want 'streamd.scripts.script_sh' to be distributed and are
2025-03-28T14:09:02,557           already explicitly excluding 'streamd.scripts.script_sh' via
2025-03-28T14:09:02,558           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2025-03-28T14:09:02,558           you can try to use `exclude_package_data`, or `include-package-data=False` in
2025-03-28T14:09:02,559           combination with a more fine grained `package-data` configuration.

2025-03-28T14:09:02,560           You can read more about "package data files" on setuptools documentation page:

2025-03-28T14:09:02,562           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2025-03-28T14:09:02,563           [^1]: For Python, any directory (with suitable naming) can be imported,
2025-03-28T14:09:02,564                 even if it does not contain any `.py` files.
2025-03-28T14:09:02,564                 On the other hand, currently there is no concept of package data
2025-03-28T14:09:02,565                 directory, all directories are treated like packages.
2025-03-28T14:09:02,565           ********************************************************************************

2025-03-28T14:09:02,567   !!
2025-03-28T14:09:02,567     check.warn(importable)
2025-03-28T14:09:02,568   creating build/lib/streamd/example
2025-03-28T14:09:02,569   copying streamd/example/instructions.txt -> build/lib/streamd/example
2025-03-28T14:09:02,569   copying streamd/example/ligand.mol -> build/lib/streamd/example
2025-03-28T14:09:02,570   copying streamd/example/protein_HIS.pdb -> build/lib/streamd/example
2025-03-28T14:09:02,570   copying streamd/scripts/tleap.in -> build/lib/streamd/scripts
2025-03-28T14:09:02,571   creating build/lib/streamd/scripts/com
2025-03-28T14:09:02,571   copying streamd/scripts/com/1.com -> build/lib/streamd/scripts/com
2025-03-28T14:09:02,572   copying streamd/scripts/com/2.com -> build/lib/streamd/scripts/com
2025-03-28T14:09:02,573   copying streamd/scripts/com/3.com -> build/lib/streamd/scripts/com
2025-03-28T14:09:02,573   creating build/lib/streamd/scripts/gbsa
2025-03-28T14:09:02,574   copying streamd/scripts/gbsa/mmpbsa.in -> build/lib/streamd/scripts/gbsa
2025-03-28T14:09:02,574   creating build/lib/streamd/scripts/mcpbpy_scripts
2025-03-28T14:09:02,575   copying streamd/scripts/mcpbpy_scripts/protein.in -> build/lib/streamd/scripts/mcpbpy_scripts
2025-03-28T14:09:02,575   creating build/lib/streamd/scripts/mdp
2025-03-28T14:09:02,576   copying streamd/scripts/mdp/ions.mdp -> build/lib/streamd/scripts/mdp
2025-03-28T14:09:02,577   copying streamd/scripts/mdp/md.mdp -> build/lib/streamd/scripts/mdp
2025-03-28T14:09:02,577   copying streamd/scripts/mdp/minim.mdp -> build/lib/streamd/scripts/mdp
2025-03-28T14:09:02,578   copying streamd/scripts/mdp/npt.mdp -> build/lib/streamd/scripts/mdp
2025-03-28T14:09:02,578   copying streamd/scripts/mdp/nvt.mdp -> build/lib/streamd/scripts/mdp
2025-03-28T14:09:02,579   creating build/lib/streamd/scripts/script_sh
2025-03-28T14:09:02,579   copying streamd/scripts/script_sh/continue_md.sh -> build/lib/streamd/scripts/script_sh
2025-03-28T14:09:02,580   copying streamd/scripts/script_sh/equlibration.sh -> build/lib/streamd/scripts/script_sh
2025-03-28T14:09:02,580   copying streamd/scripts/script_sh/ligand_mol2prep.sh -> build/lib/streamd/scripts/script_sh
2025-03-28T14:09:02,580   copying streamd/scripts/script_sh/ligand_mol2prep_by_gaussian.sh -> build/lib/streamd/scripts/script_sh
2025-03-28T14:09:02,581   copying streamd/scripts/script_sh/ligand_prep.sh -> build/lib/streamd/scripts/script_sh
2025-03-28T14:09:02,581   copying streamd/scripts/script_sh/md.sh -> build/lib/streamd/scripts/script_sh
2025-03-28T14:09:02,582   copying streamd/scripts/script_sh/md_analysis.sh -> build/lib/streamd/scripts/script_sh
2025-03-28T14:09:02,582   copying streamd/scripts/script_sh/md_ligand_analysis.sh -> build/lib/streamd/scripts/script_sh
2025-03-28T14:09:02,583   copying streamd/scripts/script_sh/solv_ions.sh -> build/lib/streamd/scripts/script_sh
2025-03-28T14:09:02,585   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2025-03-28T14:09:02,586   !!

2025-03-28T14:09:02,587           ********************************************************************************
2025-03-28T14:09:02,587           Please avoid running ``setup.py`` directly.
2025-03-28T14:09:02,588           Instead, use pypa/build, pypa/installer or other
2025-03-28T14:09:02,588           standards-based tools.

2025-03-28T14:09:02,590           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2025-03-28T14:09:02,590           ********************************************************************************

2025-03-28T14:09:02,591   !!
2025-03-28T14:09:02,592     self.initialize_options()
2025-03-28T14:09:02,614   installing to build/bdist.linux-armv7l/wheel
2025-03-28T14:09:02,615   running install
2025-03-28T14:09:02,638   running install_lib
2025-03-28T14:09:02,665   creating build/bdist.linux-armv7l/wheel
2025-03-28T14:09:02,667   creating build/bdist.linux-armv7l/wheel/streamd
2025-03-28T14:09:02,669   creating build/bdist.linux-armv7l/wheel/streamd/preparation
2025-03-28T14:09:02,670   copying build/lib/streamd/preparation/mcpbpy_preparation.py -> build/bdist.linux-armv7l/wheel/./streamd/preparation
2025-03-28T14:09:02,673   copying build/lib/streamd/preparation/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/preparation
2025-03-28T14:09:02,675   copying build/lib/streamd/preparation/complex_preparation.py -> build/bdist.linux-armv7l/wheel/./streamd/preparation
2025-03-28T14:09:02,677   copying build/lib/streamd/preparation/nonstandard_solvent_preparation.py -> build/bdist.linux-armv7l/wheel/./streamd/preparation
2025-03-28T14:09:02,678   copying build/lib/streamd/preparation/ligand_preparation.py -> build/bdist.linux-armv7l/wheel/./streamd/preparation
2025-03-28T14:09:02,681   copying build/lib/streamd/preparation/md_files_preparation.py -> build/bdist.linux-armv7l/wheel/./streamd/preparation
2025-03-28T14:09:02,683   copying build/lib/streamd/run_md.py -> build/bdist.linux-armv7l/wheel/./streamd
2025-03-28T14:09:02,687   creating build/bdist.linux-armv7l/wheel/streamd/example
2025-03-28T14:09:02,688   copying build/lib/streamd/example/instructions.txt -> build/bdist.linux-armv7l/wheel/./streamd/example
2025-03-28T14:09:02,690   copying build/lib/streamd/example/protein_HIS.pdb -> build/bdist.linux-armv7l/wheel/./streamd/example
2025-03-28T14:09:02,701   copying build/lib/streamd/example/ligand.mol -> build/bdist.linux-armv7l/wheel/./streamd/example
2025-03-28T14:09:02,703   copying build/lib/streamd/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd
2025-03-28T14:09:02,706   creating build/bdist.linux-armv7l/wheel/streamd/analysis
2025-03-28T14:09:02,707   copying build/lib/streamd/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/analysis
2025-03-28T14:09:02,709   copying build/lib/streamd/analysis/xvg2png.py -> build/bdist.linux-armv7l/wheel/./streamd/analysis
2025-03-28T14:09:02,711   copying build/lib/streamd/analysis/run_analysis.py -> build/bdist.linux-armv7l/wheel/./streamd/analysis
2025-03-28T14:09:02,714   copying build/lib/streamd/analysis/plot_build.py -> build/bdist.linux-armv7l/wheel/./streamd/analysis
2025-03-28T14:09:02,716   copying build/lib/streamd/analysis/md_system_analysis.py -> build/bdist.linux-armv7l/wheel/./streamd/analysis
2025-03-28T14:09:02,719   creating build/bdist.linux-armv7l/wheel/streamd/tests
2025-03-28T14:09:02,720   copying build/lib/streamd/tests/preparation_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2025-03-28T14:09:02,722   copying build/lib/streamd/tests/gbsa_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2025-03-28T14:09:02,725   copying build/lib/streamd/tests/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2025-03-28T14:09:02,727   copying build/lib/streamd/tests/analysis_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2025-03-28T14:09:02,730   copying build/lib/streamd/tests/import_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2025-03-28T14:09:02,732   copying build/lib/streamd/tests/prolif_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2025-03-28T14:09:02,734   copying build/lib/streamd/tests/conftest.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2025-03-28T14:09:02,737   copying build/lib/streamd/tests/md_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2025-03-28T14:09:02,740   creating build/bdist.linux-armv7l/wheel/streamd/scripts
2025-03-28T14:09:02,742   creating build/bdist.linux-armv7l/wheel/streamd/scripts/com
2025-03-28T14:09:02,744   copying build/lib/streamd/scripts/com/3.com -> build/bdist.linux-armv7l/wheel/./streamd/scripts/com
2025-03-28T14:09:02,746   copying build/lib/streamd/scripts/com/1.com -> build/bdist.linux-armv7l/wheel/./streamd/scripts/com
2025-03-28T14:09:02,748   copying build/lib/streamd/scripts/com/2.com -> build/bdist.linux-armv7l/wheel/./streamd/scripts/com
2025-03-28T14:09:02,759   copying build/lib/streamd/scripts/pmed_amb2gmx.py -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2025-03-28T14:09:02,761   copying build/lib/streamd/scripts/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2025-03-28T14:09:02,763   creating build/bdist.linux-armv7l/wheel/streamd/scripts/gbsa
2025-03-28T14:09:02,765   copying build/lib/streamd/scripts/gbsa/mmpbsa.in -> build/bdist.linux-armv7l/wheel/./streamd/scripts/gbsa
2025-03-28T14:09:02,767   creating build/bdist.linux-armv7l/wheel/streamd/scripts/mcpbpy_scripts
2025-03-28T14:09:02,769   copying build/lib/streamd/scripts/mcpbpy_scripts/protein.in -> build/bdist.linux-armv7l/wheel/./streamd/scripts/mcpbpy_scripts
2025-03-28T14:09:02,771   copying build/lib/streamd/scripts/getcharge.py -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2025-03-28T14:09:02,774   creating build/bdist.linux-armv7l/wheel/streamd/scripts/script_sh
2025-03-28T14:09:02,775   copying build/lib/streamd/scripts/script_sh/ligand_prep.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2025-03-28T14:09:02,777   copying build/lib/streamd/scripts/script_sh/md.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2025-03-28T14:09:02,779   copying build/lib/streamd/scripts/script_sh/md_ligand_analysis.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2025-03-28T14:09:02,781   copying build/lib/streamd/scripts/script_sh/equlibration.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2025-03-28T14:09:02,783   copying build/lib/streamd/scripts/script_sh/ligand_mol2prep_by_gaussian.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2025-03-28T14:09:02,785   copying build/lib/streamd/scripts/script_sh/solv_ions.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2025-03-28T14:09:02,787   copying build/lib/streamd/scripts/script_sh/continue_md.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2025-03-28T14:09:02,789   copying build/lib/streamd/scripts/script_sh/md_analysis.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2025-03-28T14:09:02,791   copying build/lib/streamd/scripts/script_sh/ligand_mol2prep.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2025-03-28T14:09:02,793   copying build/lib/streamd/scripts/pdb2mol.py -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2025-03-28T14:09:02,795   copying build/lib/streamd/scripts/prepare_Gaussian_input.py -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2025-03-28T14:09:02,797   copying build/lib/streamd/scripts/mol2_fix_coordsbonds.py -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2025-03-28T14:09:02,800   copying build/lib/streamd/scripts/tleap.in -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2025-03-28T14:09:02,802   creating build/bdist.linux-armv7l/wheel/streamd/scripts/mdp
2025-03-28T14:09:02,804   copying build/lib/streamd/scripts/mdp/npt.mdp -> build/bdist.linux-armv7l/wheel/./streamd/scripts/mdp
2025-03-28T14:09:02,806   copying build/lib/streamd/scripts/mdp/ions.mdp -> build/bdist.linux-armv7l/wheel/./streamd/scripts/mdp
2025-03-28T14:09:02,808   copying build/lib/streamd/scripts/mdp/md.mdp -> build/bdist.linux-armv7l/wheel/./streamd/scripts/mdp
2025-03-28T14:09:02,811   copying build/lib/streamd/scripts/mdp/minim.mdp -> build/bdist.linux-armv7l/wheel/./streamd/scripts/mdp
2025-03-28T14:09:02,813   copying build/lib/streamd/scripts/mdp/nvt.mdp -> build/bdist.linux-armv7l/wheel/./streamd/scripts/mdp
2025-03-28T14:09:02,815   creating build/bdist.linux-armv7l/wheel/streamd/utils
2025-03-28T14:09:02,817   copying build/lib/streamd/utils/dask_init.py -> build/bdist.linux-armv7l/wheel/./streamd/utils
2025-03-28T14:09:02,819   copying build/lib/streamd/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/utils
2025-03-28T14:09:02,821   copying build/lib/streamd/utils/utils.py -> build/bdist.linux-armv7l/wheel/./streamd/utils
2025-03-28T14:09:02,824   copying build/lib/streamd/run_gbsa.py -> build/bdist.linux-armv7l/wheel/./streamd
2025-03-28T14:09:02,827   creating build/bdist.linux-armv7l/wheel/streamd/prolif
2025-03-28T14:09:02,829   copying build/lib/streamd/prolif/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/prolif
2025-03-28T14:09:02,831   copying build/lib/streamd/prolif/prolif_frame_map.py -> build/bdist.linux-armv7l/wheel/./streamd/prolif
2025-03-28T14:09:02,834   copying build/lib/streamd/prolif/prolif2png.py -> build/bdist.linux-armv7l/wheel/./streamd/prolif
2025-03-28T14:09:02,837   copying build/lib/streamd/prolif/run_prolif.py -> build/bdist.linux-armv7l/wheel/./streamd/prolif
2025-03-28T14:09:02,840   creating build/bdist.linux-armv7l/wheel/streamd/mcpbpy_md
2025-03-28T14:09:02,842   copying build/lib/streamd/mcpbpy_md/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/mcpbpy_md
2025-03-28T14:09:02,844   copying build/lib/streamd/mcpbpy_md/mcbpy_md.py -> build/bdist.linux-armv7l/wheel/./streamd/mcpbpy_md
2025-03-28T14:09:02,846   running install_egg_info
2025-03-28T14:09:02,884   Copying streamd.egg-info to build/bdist.linux-armv7l/wheel/./streamd-0.3-py3.11.egg-info
2025-03-28T14:09:02,897   running install_scripts
2025-03-28T14:09:02,918   creating build/bdist.linux-armv7l/wheel/streamd-0.3.dist-info/WHEEL
2025-03-28T14:09:02,921   creating '/tmp/pip-wheel-dzrtqn04/streamd-0.3-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2025-03-28T14:09:02,923   adding 'streamd/__init__.py'
2025-03-28T14:09:02,926   adding 'streamd/run_gbsa.py'
2025-03-28T14:09:02,932   adding 'streamd/run_md.py'
2025-03-28T14:09:02,934   adding 'streamd/analysis/__init__.py'
2025-03-28T14:09:02,936   adding 'streamd/analysis/md_system_analysis.py'
2025-03-28T14:09:02,938   adding 'streamd/analysis/plot_build.py'
2025-03-28T14:09:02,940   adding 'streamd/analysis/run_analysis.py'
2025-03-28T14:09:02,942   adding 'streamd/analysis/xvg2png.py'
2025-03-28T14:09:02,944   adding 'streamd/example/instructions.txt'
2025-03-28T14:09:02,945   adding 'streamd/example/ligand.mol'
2025-03-28T14:09:03,019   adding 'streamd/example/protein_HIS.pdb'
2025-03-28T14:09:03,025   adding 'streamd/mcpbpy_md/__init__.py'
2025-03-28T14:09:03,028   adding 'streamd/mcpbpy_md/mcbpy_md.py'
2025-03-28T14:09:03,030   adding 'streamd/preparation/__init__.py'
2025-03-28T14:09:03,032   adding 'streamd/preparation/complex_preparation.py'
2025-03-28T14:09:03,035   adding 'streamd/preparation/ligand_preparation.py'
2025-03-28T14:09:03,039   adding 'streamd/preparation/mcpbpy_preparation.py'
2025-03-28T14:09:03,042   adding 'streamd/preparation/md_files_preparation.py'
2025-03-28T14:09:03,044   adding 'streamd/preparation/nonstandard_solvent_preparation.py'
2025-03-28T14:09:03,046   adding 'streamd/prolif/__init__.py'
2025-03-28T14:09:03,048   adding 'streamd/prolif/prolif2png.py'
2025-03-28T14:09:03,051   adding 'streamd/prolif/prolif_frame_map.py'
2025-03-28T14:09:03,054   adding 'streamd/prolif/run_prolif.py'
2025-03-28T14:09:03,057   adding 'streamd/scripts/__init__.py'
2025-03-28T14:09:03,059   adding 'streamd/scripts/getcharge.py'
2025-03-28T14:09:03,061   adding 'streamd/scripts/mol2_fix_coordsbonds.py'
2025-03-28T14:09:03,064   adding 'streamd/scripts/pdb2mol.py'
2025-03-28T14:09:03,065   adding 'streamd/scripts/pmed_amb2gmx.py'
2025-03-28T14:09:03,068   adding 'streamd/scripts/prepare_Gaussian_input.py'
2025-03-28T14:09:03,069   adding 'streamd/scripts/tleap.in'
2025-03-28T14:09:03,072   adding 'streamd/scripts/com/1.com'
2025-03-28T14:09:03,073   adding 'streamd/scripts/com/2.com'
2025-03-28T14:09:03,075   adding 'streamd/scripts/com/3.com'
2025-03-28T14:09:03,078   adding 'streamd/scripts/gbsa/mmpbsa.in'
2025-03-28T14:09:03,080   adding 'streamd/scripts/mcpbpy_scripts/protein.in'
2025-03-28T14:09:03,082   adding 'streamd/scripts/mdp/ions.mdp'
2025-03-28T14:09:03,084   adding 'streamd/scripts/mdp/md.mdp'
2025-03-28T14:09:03,085   adding 'streamd/scripts/mdp/minim.mdp'
2025-03-28T14:09:03,087   adding 'streamd/scripts/mdp/npt.mdp'
2025-03-28T14:09:03,088   adding 'streamd/scripts/mdp/nvt.mdp'
2025-03-28T14:09:03,090   adding 'streamd/scripts/script_sh/continue_md.sh'
2025-03-28T14:09:03,092   adding 'streamd/scripts/script_sh/equlibration.sh'
2025-03-28T14:09:03,093   adding 'streamd/scripts/script_sh/ligand_mol2prep.sh'
2025-03-28T14:09:03,095   adding 'streamd/scripts/script_sh/ligand_mol2prep_by_gaussian.sh'
2025-03-28T14:09:03,096   adding 'streamd/scripts/script_sh/ligand_prep.sh'
2025-03-28T14:09:03,098   adding 'streamd/scripts/script_sh/md.sh'
2025-03-28T14:09:03,099   adding 'streamd/scripts/script_sh/md_analysis.sh'
2025-03-28T14:09:03,101   adding 'streamd/scripts/script_sh/md_ligand_analysis.sh'
2025-03-28T14:09:03,102   adding 'streamd/scripts/script_sh/solv_ions.sh'
2025-03-28T14:09:03,104   adding 'streamd/tests/__init__.py'
2025-03-28T14:09:03,106   adding 'streamd/tests/analysis_test.py'
2025-03-28T14:09:03,107   adding 'streamd/tests/conftest.py'
2025-03-28T14:09:03,109   adding 'streamd/tests/gbsa_test.py'
2025-03-28T14:09:03,111   adding 'streamd/tests/import_test.py'
2025-03-28T14:09:03,112   adding 'streamd/tests/md_test.py'
2025-03-28T14:09:03,114   adding 'streamd/tests/preparation_test.py'
2025-03-28T14:09:03,115   adding 'streamd/tests/prolif_test.py'
2025-03-28T14:09:03,117   adding 'streamd/utils/__init__.py'
2025-03-28T14:09:03,119   adding 'streamd/utils/dask_init.py'
2025-03-28T14:09:03,121   adding 'streamd/utils/utils.py'
2025-03-28T14:09:03,123   adding 'streamd-0.3.dist-info/LICENSE.txt'
2025-03-28T14:09:03,128   adding 'streamd-0.3.dist-info/METADATA'
2025-03-28T14:09:03,130   adding 'streamd-0.3.dist-info/WHEEL'
2025-03-28T14:09:03,131   adding 'streamd-0.3.dist-info/entry_points.txt'
2025-03-28T14:09:03,132   adding 'streamd-0.3.dist-info/top_level.txt'
2025-03-28T14:09:03,134   adding 'streamd-0.3.dist-info/RECORD'
2025-03-28T14:09:03,138   removing build/bdist.linux-armv7l/wheel
2025-03-28T14:09:03,270   Building wheel for streamd (setup.py): finished with status 'done'
2025-03-28T14:09:03,275   Created wheel for streamd: filename=streamd-0.3-py3-none-any.whl size=178487 sha256=2bf8c22e8b7ef687a394e66f26ce21ad2982fa8c67b633298d4e929f198753f2
2025-03-28T14:09:03,276   Stored in directory: /tmp/pip-ephem-wheel-cache-kgr6xmci/wheels/e5/29/a9/3f6f71ee2da15f31fb5036273a3fea9d7cc242b136f52378e5
2025-03-28T14:09:03,293 Successfully built streamd
2025-03-28T14:09:03,304 Removed build tracker: '/tmp/pip-build-tracker-4j1vgav5'