2026-02-14T09:04:30,557 Created temporary directory: /tmp/pip-ephem-wheel-cache-k973iaxs
2026-02-14T09:04:30,558 Created temporary directory: /tmp/pip-build-tracker-_873qafj
2026-02-14T09:04:30,559 Initialized build tracking at /tmp/pip-build-tracker-_873qafj
2026-02-14T09:04:30,559 Created build tracker: /tmp/pip-build-tracker-_873qafj
2026-02-14T09:04:30,560 Entered build tracker: /tmp/pip-build-tracker-_873qafj
2026-02-14T09:04:30,561 Created temporary directory: /tmp/pip-wheel-s8e6oxac
2026-02-14T09:04:30,563 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
2026-02-14T09:04:30,566 Created temporary directory: /tmp/pip-ephem-wheel-cache-_zdiv_bu
2026-02-14T09:04:30,588 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-02-14T09:04:30,591 2 location(s) to search for versions of streamd:
2026-02-14T09:04:30,591 * https://pypi.org/simple/streamd/
2026-02-14T09:04:30,591 * https://www.piwheels.org/simple/streamd/
2026-02-14T09:04:30,592 Fetching project page and analyzing links: https://pypi.org/simple/streamd/
2026-02-14T09:04:30,593 Getting page https://pypi.org/simple/streamd/
2026-02-14T09:04:30,594 Found index url https://pypi.org/simple
2026-02-14T09:04:30,815 Fetched page https://pypi.org/simple/streamd/ as application/vnd.pypi.simple.v1+json
2026-02-14T09:04:30,819   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
2026-02-14T09:04:30,820   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
2026-02-14T09:04:30,821   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)
2026-02-14T09:04:30,822   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
2026-02-14T09:04:30,823   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)
2026-02-14T09:04:30,824   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
2026-02-14T09:04:30,825   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)
2026-02-14T09:04:30,826   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
2026-02-14T09:04:30,827   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)
2026-02-14T09:04:30,827   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
2026-02-14T09:04:30,828   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)
2026-02-14T09:04:30,829   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
2026-02-14T09:04:30,830   Skipping link: No binaries permitted for streamd: https://files.pythonhosted.org/packages/d9/8c/3204260f6b7c1a12eda43b914f90ea2a79e896c072dc6e9230ea1beae77a/streamd-0.4-py3-none-any.whl (from https://pypi.org/simple/streamd/) (requires-python:>=3.6)
2026-02-14T09:04:30,831   Found link https://files.pythonhosted.org/packages/bd/90/bae892ae6c75b409a16281d5d0c5f3cb6d68711e349160cf6a277e6ac164/streamd-0.4.tar.gz (from https://pypi.org/simple/streamd/) (requires-python:>=3.6), version: 0.4
2026-02-14T09:04:30,831   Skipping link: No binaries permitted for streamd: https://files.pythonhosted.org/packages/19/22/781e35e924eb021c95fcfd3301f7305d1a3a10c2bd3ad5c34eb2c2ff80b5/streamd-0.4.1-py3-none-any.whl (from https://pypi.org/simple/streamd/) (requires-python:>=3.6)
2026-02-14T09:04:30,832   Found link https://files.pythonhosted.org/packages/4b/52/a7c8d8f9516c8776a9c75ca0438e955cbc0899e6c12279080735dd580832/streamd-0.4.1.tar.gz (from https://pypi.org/simple/streamd/) (requires-python:>=3.6), version: 0.4.1
2026-02-14T09:04:30,833   Found link https://files.pythonhosted.org/packages/37/69/c3b9f75bb3895ae9124100df8088d6989595d397560edbc051a0e12569c9/streamd-0.5.tar.gz (from https://pypi.org/simple/streamd/) (requires-python:>=3.6), version: 0.5
2026-02-14T09:04:30,834 Fetching project page and analyzing links: https://www.piwheels.org/simple/streamd/
2026-02-14T09:04:30,835 Getting page https://www.piwheels.org/simple/streamd/
2026-02-14T09:04:30,836 Found index url https://www.piwheels.org/simple
2026-02-14T09:04:30,989 Fetched page https://www.piwheels.org/simple/streamd/ as text/html
2026-02-14T09:04:30,993   Skipping link: No binaries permitted for streamd: https://www.piwheels.org/simple/streamd/streamd-0.4.1-py3-none-any.whl#sha256=c80c87fbbc88e6ba69ce26cafce92ef19566c7349fd066d1e69e520d768b6f07 (from https://www.piwheels.org/simple/streamd/) (requires-python:>=3.6)
2026-02-14T09:04:30,993   Skipping link: No binaries permitted for streamd: https://archive1.piwheels.org/simple/streamd/streamd-0.4-py3-none-any.whl#sha256=afe1d3fb1d27b1f0bd3458d12ac85ed21d9eea86ae3f2a022a0a77607c5e5bb9 (from https://www.piwheels.org/simple/streamd/) (requires-python:>=3.6)
2026-02-14T09:04:30,994   Skipping link: No binaries permitted for streamd: https://archive1.piwheels.org/simple/streamd/streamd-0.3-py3-none-any.whl#sha256=2bf8c22e8b7ef687a394e66f26ce21ad2982fa8c67b633298d4e929f198753f2 (from https://www.piwheels.org/simple/streamd/) (requires-python:>=3.6)
2026-02-14T09:04:30,995   Skipping link: No binaries permitted for streamd: https://archive1.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)
2026-02-14T09:04:30,995   Skipping link: No binaries permitted for streamd: https://archive1.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)
2026-02-14T09:04:30,996   Skipping link: No binaries permitted for streamd: https://archive1.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)
2026-02-14T09:04:30,996   Skipping link: No binaries permitted for streamd: https://archive1.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)
2026-02-14T09:04:30,997   Skipping link: No binaries permitted for streamd: https://archive1.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)
2026-02-14T09:04:30,998   Skipping link: No binaries permitted for streamd: https://archive1.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)
2026-02-14T09:04:30,998 Skipping link: not a file: https://www.piwheels.org/simple/streamd/
2026-02-14T09:04:30,999 Skipping link: not a file: https://pypi.org/simple/streamd/
2026-02-14T09:04:31,019 Given no hashes to check 1 links for project 'streamd': discarding no candidates
2026-02-14T09:04:31,039 Collecting streamd==0.5
2026-02-14T09:04:31,041   Created temporary directory: /tmp/pip-unpack-mctlxnux
2026-02-14T09:04:31,171   Downloading streamd-0.5.tar.gz (168 kB)
2026-02-14T09:04:31,432   Added streamd==0.5 from https://files.pythonhosted.org/packages/37/69/c3b9f75bb3895ae9124100df8088d6989595d397560edbc051a0e12569c9/streamd-0.5.tar.gz to build tracker '/tmp/pip-build-tracker-_873qafj'
2026-02-14T09:04:31,434   Running setup.py (path:/tmp/pip-wheel-s8e6oxac/streamd_8719f33c176848a68a600a3b42748595/setup.py) egg_info for package streamd
2026-02-14T09:04:31,434   Created temporary directory: /tmp/pip-pip-egg-info-oisrgehc
2026-02-14T09:04:31,435   Preparing metadata (setup.py): started
2026-02-14T09:04:31,436   Running command python setup.py egg_info
2026-02-14T09:04:32,318   running egg_info
2026-02-14T09:04:32,345   creating /tmp/pip-pip-egg-info-oisrgehc/streamd.egg-info
2026-02-14T09:04:32,346   writing /tmp/pip-pip-egg-info-oisrgehc/streamd.egg-info/PKG-INFO
2026-02-14T09:04:32,350   writing dependency_links to /tmp/pip-pip-egg-info-oisrgehc/streamd.egg-info/dependency_links.txt
2026-02-14T09:04:32,352   writing entry points to /tmp/pip-pip-egg-info-oisrgehc/streamd.egg-info/entry_points.txt
2026-02-14T09:04:32,354   writing requirements to /tmp/pip-pip-egg-info-oisrgehc/streamd.egg-info/requires.txt
2026-02-14T09:04:32,355   writing top-level names to /tmp/pip-pip-egg-info-oisrgehc/streamd.egg-info/top_level.txt
2026-02-14T09:04:32,357   writing manifest file '/tmp/pip-pip-egg-info-oisrgehc/streamd.egg-info/SOURCES.txt'
2026-02-14T09:04:32,454   reading manifest file '/tmp/pip-pip-egg-info-oisrgehc/streamd.egg-info/SOURCES.txt'
2026-02-14T09:04:32,456   reading manifest template 'MANIFEST.in'
2026-02-14T09:04:32,461   adding license file 'LICENSE.txt'
2026-02-14T09:04:32,465   writing manifest file '/tmp/pip-pip-egg-info-oisrgehc/streamd.egg-info/SOURCES.txt'
2026-02-14T09:04:32,572   Preparing metadata (setup.py): finished with status 'done'
2026-02-14T09:04:32,575   Source in /tmp/pip-wheel-s8e6oxac/streamd_8719f33c176848a68a600a3b42748595 has version 0.5, which satisfies requirement streamd==0.5 from https://files.pythonhosted.org/packages/37/69/c3b9f75bb3895ae9124100df8088d6989595d397560edbc051a0e12569c9/streamd-0.5.tar.gz
2026-02-14T09:04:32,576   Removed streamd==0.5 from https://files.pythonhosted.org/packages/37/69/c3b9f75bb3895ae9124100df8088d6989595d397560edbc051a0e12569c9/streamd-0.5.tar.gz from build tracker '/tmp/pip-build-tracker-_873qafj'
2026-02-14T09:04:32,582 Created temporary directory: /tmp/pip-unpack-g9u984d0
2026-02-14T09:04:32,583 Building wheels for collected packages: streamd
2026-02-14T09:04:32,588   Created temporary directory: /tmp/pip-wheel-phyd4nd1
2026-02-14T09:04:32,589   Building wheel for streamd (setup.py): started
2026-02-14T09:04:32,591   Destination directory: /tmp/pip-wheel-phyd4nd1
2026-02-14T09:04:32,591   Running command python setup.py bdist_wheel
2026-02-14T09:04:33,440   running bdist_wheel
2026-02-14T09:04:33,574   running build
2026-02-14T09:04:33,574   running build_py
2026-02-14T09:04:33,608   creating build/lib/streamd
2026-02-14T09:04:33,611   copying streamd/__init__.py -> build/lib/streamd
2026-02-14T09:04:33,613   copying streamd/run_md.py -> build/lib/streamd
2026-02-14T09:04:33,616   copying streamd/run_gbsa.py -> build/lib/streamd
2026-02-14T09:04:33,620   creating build/lib/streamd/prolif
2026-02-14T09:04:33,621   copying streamd/prolif/__init__.py -> build/lib/streamd/prolif
2026-02-14T09:04:33,623   copying streamd/prolif/run_prolif.py -> build/lib/streamd/prolif
2026-02-14T09:04:33,626   copying streamd/prolif/prolif_frame_map.py -> build/lib/streamd/prolif
2026-02-14T09:04:33,628   copying streamd/prolif/prolif2png.py -> build/lib/streamd/prolif
2026-02-14T09:04:33,631   creating build/lib/streamd/utils
2026-02-14T09:04:33,631   copying streamd/utils/__init__.py -> build/lib/streamd/utils
2026-02-14T09:04:33,634   copying streamd/utils/dask_init.py -> build/lib/streamd/utils
2026-02-14T09:04:33,636   copying streamd/utils/utils.py -> build/lib/streamd/utils
2026-02-14T09:04:33,639   creating build/lib/streamd/tests
2026-02-14T09:04:33,640   copying streamd/tests/analysis_test.py -> build/lib/streamd/tests
2026-02-14T09:04:33,643   copying streamd/tests/__init__.py -> build/lib/streamd/tests
2026-02-14T09:04:33,644   copying streamd/tests/prolif_test.py -> build/lib/streamd/tests
2026-02-14T09:04:33,647   copying streamd/tests/md_test.py -> build/lib/streamd/tests
2026-02-14T09:04:33,649   copying streamd/tests/plot_build_test.py -> build/lib/streamd/tests
2026-02-14T09:04:33,651   copying streamd/tests/system_name_test.py -> build/lib/streamd/tests
2026-02-14T09:04:33,653   copying streamd/tests/conftest.py -> build/lib/streamd/tests
2026-02-14T09:04:33,655   copying streamd/tests/preparation_test.py -> build/lib/streamd/tests
2026-02-14T09:04:33,657   copying streamd/tests/decomp_dat_parser_test.py -> build/lib/streamd/tests
2026-02-14T09:04:33,659   copying streamd/tests/import_test.py -> build/lib/streamd/tests
2026-02-14T09:04:33,661   copying streamd/tests/config_cli_test.py -> build/lib/streamd/tests
2026-02-14T09:04:33,663   copying streamd/tests/gbsa_test.py -> build/lib/streamd/tests
2026-02-14T09:04:33,666   creating build/lib/streamd/analysis
2026-02-14T09:04:33,667   copying streamd/analysis/__init__.py -> build/lib/streamd/analysis
2026-02-14T09:04:33,669   copying streamd/analysis/xvg2png.py -> build/lib/streamd/analysis
2026-02-14T09:04:33,671   copying streamd/analysis/md_system_analysis.py -> build/lib/streamd/analysis
2026-02-14T09:04:33,674   copying streamd/analysis/plot_build.py -> build/lib/streamd/analysis
2026-02-14T09:04:33,676   copying streamd/analysis/run_analysis.py -> build/lib/streamd/analysis
2026-02-14T09:04:33,679   creating build/lib/streamd/preparation
2026-02-14T09:04:33,680   copying streamd/preparation/__init__.py -> build/lib/streamd/preparation
2026-02-14T09:04:33,683   copying streamd/preparation/mcpbpy_preparation.py -> build/lib/streamd/preparation
2026-02-14T09:04:33,685   copying streamd/preparation/complex_preparation.py -> build/lib/streamd/preparation
2026-02-14T09:04:33,688   copying streamd/preparation/nonstandard_solvent_preparation.py -> build/lib/streamd/preparation
2026-02-14T09:04:33,689   copying streamd/preparation/ligand_preparation.py -> build/lib/streamd/preparation
2026-02-14T09:04:33,692   copying streamd/preparation/md_files_preparation.py -> build/lib/streamd/preparation
2026-02-14T09:04:33,695   creating build/lib/streamd/scripts
2026-02-14T09:04:33,696   copying streamd/scripts/pmed_amb2gmx.py -> build/lib/streamd/scripts
2026-02-14T09:04:33,699   copying streamd/scripts/__init__.py -> build/lib/streamd/scripts
2026-02-14T09:04:33,700   copying streamd/scripts/getcharge.py -> build/lib/streamd/scripts
2026-02-14T09:04:33,702   copying streamd/scripts/pdb2mol.py -> build/lib/streamd/scripts
2026-02-14T09:04:33,705   copying streamd/scripts/prepare_Gaussian_input.py -> build/lib/streamd/scripts
2026-02-14T09:04:33,707   copying streamd/scripts/mol2_fix_coordsbonds.py -> build/lib/streamd/scripts
2026-02-14T09:04:33,710   creating build/lib/streamd/mcpbpy_md
2026-02-14T09:04:33,711   copying streamd/mcpbpy_md/__init__.py -> build/lib/streamd/mcpbpy_md
2026-02-14T09:04:33,713   copying streamd/mcpbpy_md/mcbpy_md.py -> build/lib/streamd/mcpbpy_md
2026-02-14T09:04:33,715   running egg_info
2026-02-14T09:04:33,743   writing streamd.egg-info/PKG-INFO
2026-02-14T09:04:33,747   writing dependency_links to streamd.egg-info/dependency_links.txt
2026-02-14T09:04:33,749   writing entry points to streamd.egg-info/entry_points.txt
2026-02-14T09:04:33,750   writing requirements to streamd.egg-info/requires.txt
2026-02-14T09:04:33,752   writing top-level names to streamd.egg-info/top_level.txt
2026-02-14T09:04:33,788   reading manifest file 'streamd.egg-info/SOURCES.txt'
2026-02-14T09:04:33,794   reading manifest template 'MANIFEST.in'
2026-02-14T09:04:33,798   adding license file 'LICENSE.txt'
2026-02-14T09:04:33,803   writing manifest file 'streamd.egg-info/SOURCES.txt'
2026-02-14T09:04:33,805   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'streamd.example' is absent from the `packages` configuration.
2026-02-14T09:04:33,806   !!

2026-02-14T09:04:33,807           ********************************************************************************
2026-02-14T09:04:33,808           ############################
2026-02-14T09:04:33,808           # Package would be ignored #
2026-02-14T09:04:33,808           ############################
2026-02-14T09:04:33,809           Python recognizes 'streamd.example' as an importable package[^1],
2026-02-14T09:04:33,809           but it is absent from setuptools' `packages` configuration.

2026-02-14T09:04:33,810           This leads to an ambiguous overall configuration. If you want to distribute this
2026-02-14T09:04:33,811           package, please make sure that 'streamd.example' is explicitly added
2026-02-14T09:04:33,812           to the `packages` configuration field.

2026-02-14T09:04:33,813           Alternatively, you can also rely on setuptools' discovery methods
2026-02-14T09:04:33,813           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2026-02-14T09:04:33,814           instead of `find_packages(...)`/`find:`).

2026-02-14T09:04:33,815           You can read more about "package discovery" on setuptools documentation page:

2026-02-14T09:04:33,816           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2026-02-14T09:04:33,817           If you don't want 'streamd.example' to be distributed and are
2026-02-14T09:04:33,817           already explicitly excluding 'streamd.example' via
2026-02-14T09:04:33,818           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2026-02-14T09:04:33,818           you can try to use `exclude_package_data`, or `include-package-data=False` in
2026-02-14T09:04:33,819           combination with a more fine grained `package-data` configuration.

2026-02-14T09:04:33,820           You can read more about "package data files" on setuptools documentation page:

2026-02-14T09:04:33,821           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2026-02-14T09:04:33,823           [^1]: For Python, any directory (with suitable naming) can be imported,
2026-02-14T09:04:33,823                 even if it does not contain any `.py` files.
2026-02-14T09:04:33,824                 On the other hand, currently there is no concept of package data
2026-02-14T09:04:33,826                 directory, all directories are treated like packages.
2026-02-14T09:04:33,828           ********************************************************************************

2026-02-14T09:04:33,829   !!
2026-02-14T09:04:33,830     check.warn(importable)
2026-02-14T09:04:33,831   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'streamd.scripts.com' is absent from the `packages` configuration.
2026-02-14T09:04:33,831   !!

2026-02-14T09:04:33,832           ********************************************************************************
2026-02-14T09:04:33,833           ############################
2026-02-14T09:04:33,834           # Package would be ignored #
2026-02-14T09:04:33,834           ############################
2026-02-14T09:04:33,835           Python recognizes 'streamd.scripts.com' as an importable package[^1],
2026-02-14T09:04:33,836           but it is absent from setuptools' `packages` configuration.

2026-02-14T09:04:33,837           This leads to an ambiguous overall configuration. If you want to distribute this
2026-02-14T09:04:33,837           package, please make sure that 'streamd.scripts.com' is explicitly added
2026-02-14T09:04:33,838           to the `packages` configuration field.

2026-02-14T09:04:33,840           Alternatively, you can also rely on setuptools' discovery methods
2026-02-14T09:04:33,840           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2026-02-14T09:04:33,841           instead of `find_packages(...)`/`find:`).

2026-02-14T09:04:33,842           You can read more about "package discovery" on setuptools documentation page:

2026-02-14T09:04:33,843           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2026-02-14T09:04:33,844           If you don't want 'streamd.scripts.com' to be distributed and are
2026-02-14T09:04:33,845           already explicitly excluding 'streamd.scripts.com' via
2026-02-14T09:04:33,846           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2026-02-14T09:04:33,846           you can try to use `exclude_package_data`, or `include-package-data=False` in
2026-02-14T09:04:33,847           combination with a more fine grained `package-data` configuration.

2026-02-14T09:04:33,848           You can read more about "package data files" on setuptools documentation page:

2026-02-14T09:04:33,849           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2026-02-14T09:04:33,851           [^1]: For Python, any directory (with suitable naming) can be imported,
2026-02-14T09:04:33,852                 even if it does not contain any `.py` files.
2026-02-14T09:04:33,852                 On the other hand, currently there is no concept of package data
2026-02-14T09:04:33,853                 directory, all directories are treated like packages.
2026-02-14T09:04:33,853           ********************************************************************************

2026-02-14T09:04:33,855   !!
2026-02-14T09:04:33,855     check.warn(importable)
2026-02-14T09:04:33,856   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'streamd.scripts.gbsa' is absent from the `packages` configuration.
2026-02-14T09:04:33,856   !!

2026-02-14T09:04:33,858           ********************************************************************************
2026-02-14T09:04:33,858           ############################
2026-02-14T09:04:33,859           # Package would be ignored #
2026-02-14T09:04:33,860           ############################
2026-02-14T09:04:33,860           Python recognizes 'streamd.scripts.gbsa' as an importable package[^1],
2026-02-14T09:04:33,861           but it is absent from setuptools' `packages` configuration.

2026-02-14T09:04:33,863           This leads to an ambiguous overall configuration. If you want to distribute this
2026-02-14T09:04:33,864           package, please make sure that 'streamd.scripts.gbsa' is explicitly added
2026-02-14T09:04:33,864           to the `packages` configuration field.

2026-02-14T09:04:33,866           Alternatively, you can also rely on setuptools' discovery methods
2026-02-14T09:04:33,866           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2026-02-14T09:04:33,867           instead of `find_packages(...)`/`find:`).

2026-02-14T09:04:33,868           You can read more about "package discovery" on setuptools documentation page:

2026-02-14T09:04:33,870           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2026-02-14T09:04:33,871           If you don't want 'streamd.scripts.gbsa' to be distributed and are
2026-02-14T09:04:33,872           already explicitly excluding 'streamd.scripts.gbsa' via
2026-02-14T09:04:33,873           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2026-02-14T09:04:33,873           you can try to use `exclude_package_data`, or `include-package-data=False` in
2026-02-14T09:04:33,874           combination with a more fine grained `package-data` configuration.

2026-02-14T09:04:33,875           You can read more about "package data files" on setuptools documentation page:

2026-02-14T09:04:33,877           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2026-02-14T09:04:33,879           [^1]: For Python, any directory (with suitable naming) can be imported,
2026-02-14T09:04:33,880                 even if it does not contain any `.py` files.
2026-02-14T09:04:33,881                 On the other hand, currently there is no concept of package data
2026-02-14T09:04:33,882                 directory, all directories are treated like packages.
2026-02-14T09:04:33,883           ********************************************************************************

2026-02-14T09:04:33,884   !!
2026-02-14T09:04:33,885     check.warn(importable)
2026-02-14T09:04:33,886   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'streamd.scripts.mcpbpy_scripts' is absent from the `packages` configuration.
2026-02-14T09:04:33,887   !!

2026-02-14T09:04:33,888           ********************************************************************************
2026-02-14T09:04:33,889           ############################
2026-02-14T09:04:33,891           # Package would be ignored #
2026-02-14T09:04:33,891           ############################
2026-02-14T09:04:33,892           Python recognizes 'streamd.scripts.mcpbpy_scripts' as an importable package[^1],
2026-02-14T09:04:33,893           but it is absent from setuptools' `packages` configuration.

2026-02-14T09:04:33,895           This leads to an ambiguous overall configuration. If you want to distribute this
2026-02-14T09:04:33,896           package, please make sure that 'streamd.scripts.mcpbpy_scripts' is explicitly added
2026-02-14T09:04:33,896           to the `packages` configuration field.

2026-02-14T09:04:33,898           Alternatively, you can also rely on setuptools' discovery methods
2026-02-14T09:04:33,899           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2026-02-14T09:04:33,900           instead of `find_packages(...)`/`find:`).

2026-02-14T09:04:33,902           You can read more about "package discovery" on setuptools documentation page:

2026-02-14T09:04:33,904           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2026-02-14T09:04:33,905           If you don't want 'streamd.scripts.mcpbpy_scripts' to be distributed and are
2026-02-14T09:04:33,905           already explicitly excluding 'streamd.scripts.mcpbpy_scripts' via
2026-02-14T09:04:33,906           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2026-02-14T09:04:33,907           you can try to use `exclude_package_data`, or `include-package-data=False` in
2026-02-14T09:04:33,907           combination with a more fine grained `package-data` configuration.

2026-02-14T09:04:33,909           You can read more about "package data files" on setuptools documentation page:

2026-02-14T09:04:33,910           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2026-02-14T09:04:33,912           [^1]: For Python, any directory (with suitable naming) can be imported,
2026-02-14T09:04:33,913                 even if it does not contain any `.py` files.
2026-02-14T09:04:33,914                 On the other hand, currently there is no concept of package data
2026-02-14T09:04:33,915                 directory, all directories are treated like packages.
2026-02-14T09:04:33,915           ********************************************************************************

2026-02-14T09:04:33,917   !!
2026-02-14T09:04:33,917     check.warn(importable)
2026-02-14T09:04:33,918   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'streamd.scripts.mdp' is absent from the `packages` configuration.
2026-02-14T09:04:33,918   !!

2026-02-14T09:04:33,919           ********************************************************************************
2026-02-14T09:04:33,920           ############################
2026-02-14T09:04:33,920           # Package would be ignored #
2026-02-14T09:04:33,921           ############################
2026-02-14T09:04:33,921           Python recognizes 'streamd.scripts.mdp' as an importable package[^1],
2026-02-14T09:04:33,922           but it is absent from setuptools' `packages` configuration.

2026-02-14T09:04:33,923           This leads to an ambiguous overall configuration. If you want to distribute this
2026-02-14T09:04:33,923           package, please make sure that 'streamd.scripts.mdp' is explicitly added
2026-02-14T09:04:33,924           to the `packages` configuration field.

2026-02-14T09:04:33,925           Alternatively, you can also rely on setuptools' discovery methods
2026-02-14T09:04:33,925           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2026-02-14T09:04:33,925           instead of `find_packages(...)`/`find:`).

2026-02-14T09:04:33,926           You can read more about "package discovery" on setuptools documentation page:

2026-02-14T09:04:33,927           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2026-02-14T09:04:33,929           If you don't want 'streamd.scripts.mdp' to be distributed and are
2026-02-14T09:04:33,929           already explicitly excluding 'streamd.scripts.mdp' via
2026-02-14T09:04:33,930           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2026-02-14T09:04:33,930           you can try to use `exclude_package_data`, or `include-package-data=False` in
2026-02-14T09:04:33,931           combination with a more fine grained `package-data` configuration.

2026-02-14T09:04:33,932           You can read more about "package data files" on setuptools documentation page:

2026-02-14T09:04:33,933           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2026-02-14T09:04:33,935           [^1]: For Python, any directory (with suitable naming) can be imported,
2026-02-14T09:04:33,936                 even if it does not contain any `.py` files.
2026-02-14T09:04:33,937                 On the other hand, currently there is no concept of package data
2026-02-14T09:04:33,937                 directory, all directories are treated like packages.
2026-02-14T09:04:33,938           ********************************************************************************

2026-02-14T09:04:33,939   !!
2026-02-14T09:04:33,940     check.warn(importable)
2026-02-14T09:04:33,940   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'streamd.scripts.script_sh' is absent from the `packages` configuration.
2026-02-14T09:04:33,941   !!

2026-02-14T09:04:33,942           ********************************************************************************
2026-02-14T09:04:33,943           ############################
2026-02-14T09:04:33,943           # Package would be ignored #
2026-02-14T09:04:33,944           ############################
2026-02-14T09:04:33,945           Python recognizes 'streamd.scripts.script_sh' as an importable package[^1],
2026-02-14T09:04:33,945           but it is absent from setuptools' `packages` configuration.

2026-02-14T09:04:33,946           This leads to an ambiguous overall configuration. If you want to distribute this
2026-02-14T09:04:33,947           package, please make sure that 'streamd.scripts.script_sh' is explicitly added
2026-02-14T09:04:33,948           to the `packages` configuration field.

2026-02-14T09:04:33,949           Alternatively, you can also rely on setuptools' discovery methods
2026-02-14T09:04:33,950           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2026-02-14T09:04:33,950           instead of `find_packages(...)`/`find:`).

2026-02-14T09:04:33,951           You can read more about "package discovery" on setuptools documentation page:

2026-02-14T09:04:33,952           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2026-02-14T09:04:33,953           If you don't want 'streamd.scripts.script_sh' to be distributed and are
2026-02-14T09:04:33,954           already explicitly excluding 'streamd.scripts.script_sh' via
2026-02-14T09:04:33,954           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2026-02-14T09:04:33,955           you can try to use `exclude_package_data`, or `include-package-data=False` in
2026-02-14T09:04:33,955           combination with a more fine grained `package-data` configuration.

2026-02-14T09:04:33,956           You can read more about "package data files" on setuptools documentation page:

2026-02-14T09:04:33,957           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2026-02-14T09:04:33,959           [^1]: For Python, any directory (with suitable naming) can be imported,
2026-02-14T09:04:33,959                 even if it does not contain any `.py` files.
2026-02-14T09:04:33,960                 On the other hand, currently there is no concept of package data
2026-02-14T09:04:33,960                 directory, all directories are treated like packages.
2026-02-14T09:04:33,961           ********************************************************************************

2026-02-14T09:04:33,962   !!
2026-02-14T09:04:33,962     check.warn(importable)
2026-02-14T09:04:33,963   creating build/lib/streamd/example
2026-02-14T09:04:33,964   copying streamd/example/instructions.txt -> build/lib/streamd/example
2026-02-14T09:04:33,964   copying streamd/example/ligand.mol -> build/lib/streamd/example
2026-02-14T09:04:33,965   copying streamd/example/protein_HIS.pdb -> build/lib/streamd/example
2026-02-14T09:04:33,965   copying streamd/scripts/tleap.in -> build/lib/streamd/scripts
2026-02-14T09:04:33,966   creating build/lib/streamd/scripts/com
2026-02-14T09:04:33,967   copying streamd/scripts/com/1.com -> build/lib/streamd/scripts/com
2026-02-14T09:04:33,967   copying streamd/scripts/com/2.com -> build/lib/streamd/scripts/com
2026-02-14T09:04:33,968   copying streamd/scripts/com/3.com -> build/lib/streamd/scripts/com
2026-02-14T09:04:33,968   creating build/lib/streamd/scripts/gbsa
2026-02-14T09:04:33,969   copying streamd/scripts/gbsa/mmpbsa.in -> build/lib/streamd/scripts/gbsa
2026-02-14T09:04:33,969   creating build/lib/streamd/scripts/mcpbpy_scripts
2026-02-14T09:04:33,970   copying streamd/scripts/mcpbpy_scripts/protein.in -> build/lib/streamd/scripts/mcpbpy_scripts
2026-02-14T09:04:33,971   creating build/lib/streamd/scripts/mdp
2026-02-14T09:04:33,971   copying streamd/scripts/mdp/ions.mdp -> build/lib/streamd/scripts/mdp
2026-02-14T09:04:33,972   copying streamd/scripts/mdp/md.mdp -> build/lib/streamd/scripts/mdp
2026-02-14T09:04:33,972   copying streamd/scripts/mdp/minim.mdp -> build/lib/streamd/scripts/mdp
2026-02-14T09:04:33,973   copying streamd/scripts/mdp/npt.mdp -> build/lib/streamd/scripts/mdp
2026-02-14T09:04:33,974   copying streamd/scripts/mdp/nvt.mdp -> build/lib/streamd/scripts/mdp
2026-02-14T09:04:33,974   creating build/lib/streamd/scripts/script_sh
2026-02-14T09:04:33,975   copying streamd/scripts/script_sh/continue_md.sh -> build/lib/streamd/scripts/script_sh
2026-02-14T09:04:33,975   copying streamd/scripts/script_sh/equlibration.sh -> build/lib/streamd/scripts/script_sh
2026-02-14T09:04:33,976   copying streamd/scripts/script_sh/ligand_mol2prep.sh -> build/lib/streamd/scripts/script_sh
2026-02-14T09:04:33,977   copying streamd/scripts/script_sh/ligand_mol2prep_by_gaussian.sh -> build/lib/streamd/scripts/script_sh
2026-02-14T09:04:33,977   copying streamd/scripts/script_sh/ligand_prep.sh -> build/lib/streamd/scripts/script_sh
2026-02-14T09:04:33,978   copying streamd/scripts/script_sh/md.sh -> build/lib/streamd/scripts/script_sh
2026-02-14T09:04:33,979   copying streamd/scripts/script_sh/md_analysis.sh -> build/lib/streamd/scripts/script_sh
2026-02-14T09:04:33,979   copying streamd/scripts/script_sh/md_ligand_analysis.sh -> build/lib/streamd/scripts/script_sh
2026-02-14T09:04:33,980   copying streamd/scripts/script_sh/solv_ions.sh -> build/lib/streamd/scripts/script_sh
2026-02-14T09:04:33,980   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2026-02-14T09:04:33,981   !!

2026-02-14T09:04:33,982           ********************************************************************************
2026-02-14T09:04:33,982           Please avoid running ``setup.py`` directly.
2026-02-14T09:04:33,983           Instead, use pypa/build, pypa/installer or other
2026-02-14T09:04:33,983           standards-based tools.

2026-02-14T09:04:33,985           This deprecation is overdue, please update your project and remove deprecated
2026-02-14T09:04:33,985           calls to avoid build errors in the future.

2026-02-14T09:04:33,986           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2026-02-14T09:04:33,987           ********************************************************************************

2026-02-14T09:04:33,988   !!
2026-02-14T09:04:33,988     self.initialize_options()
2026-02-14T09:04:33,994   installing to build/bdist.linux-armv7l/wheel
2026-02-14T09:04:33,994   running install
2026-02-14T09:04:34,018   running install_lib
2026-02-14T09:04:34,045   creating build/bdist.linux-armv7l/wheel
2026-02-14T09:04:34,047   creating build/bdist.linux-armv7l/wheel/streamd
2026-02-14T09:04:34,049   copying build/lib/streamd/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd
2026-02-14T09:04:34,051   creating build/bdist.linux-armv7l/wheel/streamd/prolif
2026-02-14T09:04:34,052   copying build/lib/streamd/prolif/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/prolif
2026-02-14T09:04:34,054   copying build/lib/streamd/prolif/run_prolif.py -> build/bdist.linux-armv7l/wheel/./streamd/prolif
2026-02-14T09:04:34,057   copying build/lib/streamd/prolif/prolif_frame_map.py -> build/bdist.linux-armv7l/wheel/./streamd/prolif
2026-02-14T09:04:34,060   copying build/lib/streamd/prolif/prolif2png.py -> build/bdist.linux-armv7l/wheel/./streamd/prolif
2026-02-14T09:04:34,063   creating build/bdist.linux-armv7l/wheel/streamd/example
2026-02-14T09:04:34,064   copying build/lib/streamd/example/instructions.txt -> build/bdist.linux-armv7l/wheel/./streamd/example
2026-02-14T09:04:34,066   copying build/lib/streamd/example/ligand.mol -> build/bdist.linux-armv7l/wheel/./streamd/example
2026-02-14T09:04:34,068   copying build/lib/streamd/example/protein_HIS.pdb -> build/bdist.linux-armv7l/wheel/./streamd/example
2026-02-14T09:04:34,093   creating build/bdist.linux-armv7l/wheel/streamd/utils
2026-02-14T09:04:34,094   copying build/lib/streamd/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/utils
2026-02-14T09:04:34,096   copying build/lib/streamd/utils/dask_init.py -> build/bdist.linux-armv7l/wheel/./streamd/utils
2026-02-14T09:04:34,099   copying build/lib/streamd/utils/utils.py -> build/bdist.linux-armv7l/wheel/./streamd/utils
2026-02-14T09:04:34,102   creating build/bdist.linux-armv7l/wheel/streamd/tests
2026-02-14T09:04:34,103   copying build/lib/streamd/tests/analysis_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2026-02-14T09:04:34,106   copying build/lib/streamd/tests/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2026-02-14T09:04:34,108   copying build/lib/streamd/tests/prolif_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2026-02-14T09:04:34,111   copying build/lib/streamd/tests/md_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2026-02-14T09:04:34,113   copying build/lib/streamd/tests/plot_build_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2026-02-14T09:04:34,115   copying build/lib/streamd/tests/system_name_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2026-02-14T09:04:34,117   copying build/lib/streamd/tests/conftest.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2026-02-14T09:04:34,121   copying build/lib/streamd/tests/preparation_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2026-02-14T09:04:34,123   copying build/lib/streamd/tests/decomp_dat_parser_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2026-02-14T09:04:34,125   copying build/lib/streamd/tests/import_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2026-02-14T09:04:34,127   copying build/lib/streamd/tests/config_cli_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2026-02-14T09:04:34,129   copying build/lib/streamd/tests/gbsa_test.py -> build/bdist.linux-armv7l/wheel/./streamd/tests
2026-02-14T09:04:34,132   creating build/bdist.linux-armv7l/wheel/streamd/analysis
2026-02-14T09:04:34,133   copying build/lib/streamd/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/analysis
2026-02-14T09:04:34,135   copying build/lib/streamd/analysis/xvg2png.py -> build/bdist.linux-armv7l/wheel/./streamd/analysis
2026-02-14T09:04:34,137   copying build/lib/streamd/analysis/md_system_analysis.py -> build/bdist.linux-armv7l/wheel/./streamd/analysis
2026-02-14T09:04:34,140   copying build/lib/streamd/analysis/plot_build.py -> build/bdist.linux-armv7l/wheel/./streamd/analysis
2026-02-14T09:04:34,142   copying build/lib/streamd/analysis/run_analysis.py -> build/bdist.linux-armv7l/wheel/./streamd/analysis
2026-02-14T09:04:34,146   creating build/bdist.linux-armv7l/wheel/streamd/preparation
2026-02-14T09:04:34,147   copying build/lib/streamd/preparation/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/preparation
2026-02-14T09:04:34,150   copying build/lib/streamd/preparation/mcpbpy_preparation.py -> build/bdist.linux-armv7l/wheel/./streamd/preparation
2026-02-14T09:04:34,153   copying build/lib/streamd/preparation/complex_preparation.py -> build/bdist.linux-armv7l/wheel/./streamd/preparation
2026-02-14T09:04:34,155   copying build/lib/streamd/preparation/nonstandard_solvent_preparation.py -> build/bdist.linux-armv7l/wheel/./streamd/preparation
2026-02-14T09:04:34,157   copying build/lib/streamd/preparation/ligand_preparation.py -> build/bdist.linux-armv7l/wheel/./streamd/preparation
2026-02-14T09:04:34,160   copying build/lib/streamd/preparation/md_files_preparation.py -> build/bdist.linux-armv7l/wheel/./streamd/preparation
2026-02-14T09:04:34,163   copying build/lib/streamd/run_md.py -> build/bdist.linux-armv7l/wheel/./streamd
2026-02-14T09:04:34,168   creating build/bdist.linux-armv7l/wheel/streamd/scripts
2026-02-14T09:04:34,169   copying build/lib/streamd/scripts/pmed_amb2gmx.py -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2026-02-14T09:04:34,171   copying build/lib/streamd/scripts/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2026-02-14T09:04:34,173   copying build/lib/streamd/scripts/getcharge.py -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2026-02-14T09:04:34,175   copying build/lib/streamd/scripts/pdb2mol.py -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2026-02-14T09:04:34,177   copying build/lib/streamd/scripts/prepare_Gaussian_input.py -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2026-02-14T09:04:34,180   creating build/bdist.linux-armv7l/wheel/streamd/scripts/mdp
2026-02-14T09:04:34,181   copying build/lib/streamd/scripts/mdp/md.mdp -> build/bdist.linux-armv7l/wheel/./streamd/scripts/mdp
2026-02-14T09:04:34,183   copying build/lib/streamd/scripts/mdp/npt.mdp -> build/bdist.linux-armv7l/wheel/./streamd/scripts/mdp
2026-02-14T09:04:34,185   copying build/lib/streamd/scripts/mdp/nvt.mdp -> build/bdist.linux-armv7l/wheel/./streamd/scripts/mdp
2026-02-14T09:04:34,188   copying build/lib/streamd/scripts/mdp/ions.mdp -> build/bdist.linux-armv7l/wheel/./streamd/scripts/mdp
2026-02-14T09:04:34,190   copying build/lib/streamd/scripts/mdp/minim.mdp -> build/bdist.linux-armv7l/wheel/./streamd/scripts/mdp
2026-02-14T09:04:34,192   creating build/bdist.linux-armv7l/wheel/streamd/scripts/script_sh
2026-02-14T09:04:34,194   copying build/lib/streamd/scripts/script_sh/equlibration.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2026-02-14T09:04:34,196   copying build/lib/streamd/scripts/script_sh/ligand_mol2prep_by_gaussian.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2026-02-14T09:04:34,198   copying build/lib/streamd/scripts/script_sh/ligand_prep.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2026-02-14T09:04:34,200   copying build/lib/streamd/scripts/script_sh/md_ligand_analysis.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2026-02-14T09:04:34,202   copying build/lib/streamd/scripts/script_sh/md_analysis.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2026-02-14T09:04:34,204   copying build/lib/streamd/scripts/script_sh/continue_md.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2026-02-14T09:04:34,205   copying build/lib/streamd/scripts/script_sh/solv_ions.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2026-02-14T09:04:34,207   copying build/lib/streamd/scripts/script_sh/md.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2026-02-14T09:04:34,209   copying build/lib/streamd/scripts/script_sh/ligand_mol2prep.sh -> build/bdist.linux-armv7l/wheel/./streamd/scripts/script_sh
2026-02-14T09:04:34,211   copying build/lib/streamd/scripts/mol2_fix_coordsbonds.py -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2026-02-14T09:04:34,214   copying build/lib/streamd/scripts/tleap.in -> build/bdist.linux-armv7l/wheel/./streamd/scripts
2026-02-14T09:04:34,216   creating build/bdist.linux-armv7l/wheel/streamd/scripts/mcpbpy_scripts
2026-02-14T09:04:34,217   copying build/lib/streamd/scripts/mcpbpy_scripts/protein.in -> build/bdist.linux-armv7l/wheel/./streamd/scripts/mcpbpy_scripts
2026-02-14T09:04:34,220   creating build/bdist.linux-armv7l/wheel/streamd/scripts/gbsa
2026-02-14T09:04:34,221   copying build/lib/streamd/scripts/gbsa/mmpbsa.in -> build/bdist.linux-armv7l/wheel/./streamd/scripts/gbsa
2026-02-14T09:04:34,224   creating build/bdist.linux-armv7l/wheel/streamd/scripts/com
2026-02-14T09:04:34,225   copying build/lib/streamd/scripts/com/2.com -> build/bdist.linux-armv7l/wheel/./streamd/scripts/com
2026-02-14T09:04:34,227   copying build/lib/streamd/scripts/com/1.com -> build/bdist.linux-armv7l/wheel/./streamd/scripts/com
2026-02-14T09:04:34,229   copying build/lib/streamd/scripts/com/3.com -> build/bdist.linux-armv7l/wheel/./streamd/scripts/com
2026-02-14T09:04:34,231   creating build/bdist.linux-armv7l/wheel/streamd/mcpbpy_md
2026-02-14T09:04:34,233   copying build/lib/streamd/mcpbpy_md/__init__.py -> build/bdist.linux-armv7l/wheel/./streamd/mcpbpy_md
2026-02-14T09:04:34,235   copying build/lib/streamd/mcpbpy_md/mcbpy_md.py -> build/bdist.linux-armv7l/wheel/./streamd/mcpbpy_md
2026-02-14T09:04:34,237   copying build/lib/streamd/run_gbsa.py -> build/bdist.linux-armv7l/wheel/./streamd
2026-02-14T09:04:34,240   running install_egg_info
2026-02-14T09:04:34,275   Copying streamd.egg-info to build/bdist.linux-armv7l/wheel/./streamd-0.5-py3.11.egg-info
2026-02-14T09:04:34,288   running install_scripts
2026-02-14T09:04:34,303   creating build/bdist.linux-armv7l/wheel/streamd-0.5.dist-info/WHEEL
2026-02-14T09:04:34,306   creating '/tmp/pip-wheel-phyd4nd1/streamd-0.5-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2026-02-14T09:04:34,308   adding 'streamd/__init__.py'
2026-02-14T09:04:34,313   adding 'streamd/run_gbsa.py'
2026-02-14T09:04:34,319   adding 'streamd/run_md.py'
2026-02-14T09:04:34,321   adding 'streamd/analysis/__init__.py'
2026-02-14T09:04:34,323   adding 'streamd/analysis/md_system_analysis.py'
2026-02-14T09:04:34,325   adding 'streamd/analysis/plot_build.py'
2026-02-14T09:04:34,327   adding 'streamd/analysis/run_analysis.py'
2026-02-14T09:04:34,329   adding 'streamd/analysis/xvg2png.py'
2026-02-14T09:04:34,331   adding 'streamd/example/instructions.txt'
2026-02-14T09:04:34,332   adding 'streamd/example/ligand.mol'
2026-02-14T09:04:34,394   adding 'streamd/example/protein_HIS.pdb'
2026-02-14T09:04:34,398   adding 'streamd/mcpbpy_md/__init__.py'
2026-02-14T09:04:34,400   adding 'streamd/mcpbpy_md/mcbpy_md.py'
2026-02-14T09:04:34,401   adding 'streamd/preparation/__init__.py'
2026-02-14T09:04:34,403   adding 'streamd/preparation/complex_preparation.py'
2026-02-14T09:04:34,405   adding 'streamd/preparation/ligand_preparation.py'
2026-02-14T09:04:34,407   adding 'streamd/preparation/mcpbpy_preparation.py'
2026-02-14T09:04:34,409   adding 'streamd/preparation/md_files_preparation.py'
2026-02-14T09:04:34,410   adding 'streamd/preparation/nonstandard_solvent_preparation.py'
2026-02-14T09:04:34,412   adding 'streamd/prolif/__init__.py'
2026-02-14T09:04:34,413   adding 'streamd/prolif/prolif2png.py'
2026-02-14T09:04:34,415   adding 'streamd/prolif/prolif_frame_map.py'
2026-02-14T09:04:34,417   adding 'streamd/prolif/run_prolif.py'
2026-02-14T09:04:34,419   adding 'streamd/scripts/__init__.py'
2026-02-14T09:04:34,420   adding 'streamd/scripts/getcharge.py'
2026-02-14T09:04:34,422   adding 'streamd/scripts/mol2_fix_coordsbonds.py'
2026-02-14T09:04:34,423   adding 'streamd/scripts/pdb2mol.py'
2026-02-14T09:04:34,424   adding 'streamd/scripts/pmed_amb2gmx.py'
2026-02-14T09:04:34,426   adding 'streamd/scripts/prepare_Gaussian_input.py'
2026-02-14T09:04:34,427   adding 'streamd/scripts/tleap.in'
2026-02-14T09:04:34,429   adding 'streamd/scripts/com/1.com'
2026-02-14T09:04:34,430   adding 'streamd/scripts/com/2.com'
2026-02-14T09:04:34,431   adding 'streamd/scripts/com/3.com'
2026-02-14T09:04:34,433   adding 'streamd/scripts/gbsa/mmpbsa.in'
2026-02-14T09:04:34,434   adding 'streamd/scripts/mcpbpy_scripts/protein.in'
2026-02-14T09:04:34,436   adding 'streamd/scripts/mdp/ions.mdp'
2026-02-14T09:04:34,438   adding 'streamd/scripts/mdp/md.mdp'
2026-02-14T09:04:34,439   adding 'streamd/scripts/mdp/minim.mdp'
2026-02-14T09:04:34,441   adding 'streamd/scripts/mdp/npt.mdp'
2026-02-14T09:04:34,442   adding 'streamd/scripts/mdp/nvt.mdp'
2026-02-14T09:04:34,444   adding 'streamd/scripts/script_sh/continue_md.sh'
2026-02-14T09:04:34,445   adding 'streamd/scripts/script_sh/equlibration.sh'
2026-02-14T09:04:34,446   adding 'streamd/scripts/script_sh/ligand_mol2prep.sh'
2026-02-14T09:04:34,448   adding 'streamd/scripts/script_sh/ligand_mol2prep_by_gaussian.sh'
2026-02-14T09:04:34,449   adding 'streamd/scripts/script_sh/ligand_prep.sh'
2026-02-14T09:04:34,450   adding 'streamd/scripts/script_sh/md.sh'
2026-02-14T09:04:34,451   adding 'streamd/scripts/script_sh/md_analysis.sh'
2026-02-14T09:04:34,453   adding 'streamd/scripts/script_sh/md_ligand_analysis.sh'
2026-02-14T09:04:34,454   adding 'streamd/scripts/script_sh/solv_ions.sh'
2026-02-14T09:04:34,456   adding 'streamd/tests/__init__.py'
2026-02-14T09:04:34,457   adding 'streamd/tests/analysis_test.py'
2026-02-14T09:04:34,459   adding 'streamd/tests/config_cli_test.py'
2026-02-14T09:04:34,461   adding 'streamd/tests/conftest.py'
2026-02-14T09:04:34,462   adding 'streamd/tests/decomp_dat_parser_test.py'
2026-02-14T09:04:34,463   adding 'streamd/tests/gbsa_test.py'
2026-02-14T09:04:34,465   adding 'streamd/tests/import_test.py'
2026-02-14T09:04:34,466   adding 'streamd/tests/md_test.py'
2026-02-14T09:04:34,468   adding 'streamd/tests/plot_build_test.py'
2026-02-14T09:04:34,469   adding 'streamd/tests/preparation_test.py'
2026-02-14T09:04:34,470   adding 'streamd/tests/prolif_test.py'
2026-02-14T09:04:34,471   adding 'streamd/tests/system_name_test.py'
2026-02-14T09:04:34,473   adding 'streamd/utils/__init__.py'
2026-02-14T09:04:34,475   adding 'streamd/utils/dask_init.py'
2026-02-14T09:04:34,477   adding 'streamd/utils/utils.py'
2026-02-14T09:04:34,480   adding 'streamd-0.5.dist-info/licenses/LICENSE.txt'
2026-02-14T09:04:34,481   adding 'streamd-0.5.dist-info/METADATA'
2026-02-14T09:04:34,482   adding 'streamd-0.5.dist-info/WHEEL'
2026-02-14T09:04:34,483   adding 'streamd-0.5.dist-info/entry_points.txt'
2026-02-14T09:04:34,484   adding 'streamd-0.5.dist-info/top_level.txt'
2026-02-14T09:04:34,485   adding 'streamd-0.5.dist-info/RECORD'
2026-02-14T09:04:34,489   removing build/bdist.linux-armv7l/wheel
2026-02-14T09:04:34,620   Building wheel for streamd (setup.py): finished with status 'done'
2026-02-14T09:04:34,625   Created wheel for streamd: filename=streamd-0.5-py3-none-any.whl size=189810 sha256=3533c5028e08d32ccc571ab40e10b884f3e07e5eb889e3786441f236982292f5
2026-02-14T09:04:34,627   Stored in directory: /tmp/pip-ephem-wheel-cache-_zdiv_bu/wheels/9b/a5/2a/80a3f18bdaf9ad623af4f4bc7a51e7e006d5547dc5cc1e3794
2026-02-14T09:04:34,639 Successfully built streamd
2026-02-14T09:04:34,651 Removed build tracker: '/tmp/pip-build-tracker-_873qafj'