2023-09-09T20:59:31,553 Created temporary directory: /tmp/pip-build-tracker-nn0wys_4
2023-09-09T20:59:31,554 Initialized build tracking at /tmp/pip-build-tracker-nn0wys_4
2023-09-09T20:59:31,555 Created build tracker: /tmp/pip-build-tracker-nn0wys_4
2023-09-09T20:59:31,555 Entered build tracker: /tmp/pip-build-tracker-nn0wys_4
2023-09-09T20:59:31,556 Created temporary directory: /tmp/pip-wheel-jl5poc6s
2023-09-09T20:59:31,560 Created temporary directory: /tmp/pip-ephem-wheel-cache-y2y5arvv
2023-09-09T20:59:31,581 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-09-09T20:59:31,585 2 location(s) to search for versions of pymcell:
2023-09-09T20:59:31,585 * https://pypi.org/simple/pymcell/
2023-09-09T20:59:31,585 * https://www.piwheels.org/simple/pymcell/
2023-09-09T20:59:31,586 Fetching project page and analyzing links: https://pypi.org/simple/pymcell/
2023-09-09T20:59:31,586 Getting page https://pypi.org/simple/pymcell/
2023-09-09T20:59:31,588 Found index url https://pypi.org/simple/
2023-09-09T20:59:31,836 Fetched page https://pypi.org/simple/pymcell/ as application/vnd.pypi.simple.v1+json
2023-09-09T20:59:31,837   Found link https://files.pythonhosted.org/packages/d2/c8/171b381142a8c44139007524e4e1df60ffccb7baa1112f736787276d3f69/pymcell-0.1.tar.gz (from https://pypi.org/simple/pymcell/), version: 0.1
2023-09-09T20:59:31,838   Found link https://files.pythonhosted.org/packages/15/c4/2c54dd1441778cf446f9357aea6fd378e3d8fd46628aa9245d965afcb409/pymcell-0.2.tar.gz (from https://pypi.org/simple/pymcell/), version: 0.2
2023-09-09T20:59:31,839 Fetching project page and analyzing links: https://www.piwheels.org/simple/pymcell/
2023-09-09T20:59:31,840 Getting page https://www.piwheels.org/simple/pymcell/
2023-09-09T20:59:31,841 Found index url https://www.piwheels.org/simple/
2023-09-09T20:59:32,166 Fetched page https://www.piwheels.org/simple/pymcell/ as text/html
2023-09-09T20:59:32,169   Skipping link: No binaries permitted for pymcell: https://www.piwheels.org/simple/pymcell/pymcell-0.1-cp39-cp39-linux_armv6l.whl#sha256=93642a08f3b2b702c68d3e07632f2804cb9c62976cca999019bee9575489e7d0 (from https://www.piwheels.org/simple/pymcell/)
2023-09-09T20:59:32,170   Skipping link: No binaries permitted for pymcell: https://www.piwheels.org/simple/pymcell/pymcell-0.1-cp39-cp39-linux_armv7l.whl#sha256=93642a08f3b2b702c68d3e07632f2804cb9c62976cca999019bee9575489e7d0 (from https://www.piwheels.org/simple/pymcell/)
2023-09-09T20:59:32,171   Skipping link: No binaries permitted for pymcell: https://www.piwheels.org/simple/pymcell/pymcell-0.2-cp39-cp39-linux_armv6l.whl#sha256=e96b2042c3c8dfb8c8b35e822be8717206520d3bed5f2d01e4afecf00ce9e3cf (from https://www.piwheels.org/simple/pymcell/)
2023-09-09T20:59:32,172   Skipping link: No binaries permitted for pymcell: https://www.piwheels.org/simple/pymcell/pymcell-0.2-cp39-cp39-linux_armv7l.whl#sha256=e96b2042c3c8dfb8c8b35e822be8717206520d3bed5f2d01e4afecf00ce9e3cf (from https://www.piwheels.org/simple/pymcell/)
2023-09-09T20:59:32,173 Skipping link: not a file: https://www.piwheels.org/simple/pymcell/
2023-09-09T20:59:32,173 Skipping link: not a file: https://pypi.org/simple/pymcell/
2023-09-09T20:59:32,200 Given no hashes to check 1 links for project 'pymcell': discarding no candidates
2023-09-09T20:59:32,226 Collecting pymcell==0.1
2023-09-09T20:59:32,229   Created temporary directory: /tmp/pip-unpack-0h223m2a
2023-09-09T20:59:32,782   Downloading pymcell-0.1.tar.gz (621 kB)
2023-09-09T20:59:33,747   Added pymcell==0.1 from https://files.pythonhosted.org/packages/d2/c8/171b381142a8c44139007524e4e1df60ffccb7baa1112f736787276d3f69/pymcell-0.1.tar.gz to build tracker '/tmp/pip-build-tracker-nn0wys_4'
2023-09-09T20:59:33,749   Running setup.py (path:/tmp/pip-wheel-jl5poc6s/pymcell_6f88c923d2c84c36b44d30310f996cce/setup.py) egg_info for package pymcell
2023-09-09T20:59:33,750   Created temporary directory: /tmp/pip-pip-egg-info-i40qa624
2023-09-09T20:59:33,751   Preparing metadata (setup.py): started
2023-09-09T20:59:33,752   Running command python setup.py egg_info
2023-09-09T20:59:34,943   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options
2023-09-09T20:59:34,943   !!

2023-09-09T20:59:34,944           ********************************************************************************
2023-09-09T20:59:34,945           Usage of dash-separated 'description-file' will not be supported in future
2023-09-09T20:59:34,945           versions. Please use the underscore name 'description_file' instead.

2023-09-09T20:59:34,946           By 2023-Sep-26, you need to update your project and remove deprecated calls
2023-09-09T20:59:34,946           or your builds will no longer be supported.

2023-09-09T20:59:34,947           See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details.
2023-09-09T20:59:34,948           ********************************************************************************

2023-09-09T20:59:34,949   !!
2023-09-09T20:59:34,949     opt = self.warn_dash_deprecation(opt, section)
2023-09-09T20:59:35,200   Preparing metadata (setup.py): finished with status 'done'
2023-09-09T20:59:35,204   Source in /tmp/pip-wheel-jl5poc6s/pymcell_6f88c923d2c84c36b44d30310f996cce has version 0.1, which satisfies requirement pymcell==0.1 from https://files.pythonhosted.org/packages/d2/c8/171b381142a8c44139007524e4e1df60ffccb7baa1112f736787276d3f69/pymcell-0.1.tar.gz
2023-09-09T20:59:35,205   Removed pymcell==0.1 from https://files.pythonhosted.org/packages/d2/c8/171b381142a8c44139007524e4e1df60ffccb7baa1112f736787276d3f69/pymcell-0.1.tar.gz from build tracker '/tmp/pip-build-tracker-nn0wys_4'
2023-09-09T20:59:35,209 Created temporary directory: /tmp/pip-unpack-6tcmila5
2023-09-09T20:59:35,210 Created temporary directory: /tmp/pip-unpack-27a49khj
2023-09-09T20:59:35,212 Building wheels for collected packages: pymcell
2023-09-09T20:59:35,217   Created temporary directory: /tmp/pip-wheel-uurlrry7
2023-09-09T20:59:35,217   Building wheel for pymcell (setup.py): started
2023-09-09T20:59:35,219   Destination directory: /tmp/pip-wheel-uurlrry7
2023-09-09T20:59:35,219   Running command python setup.py bdist_wheel
2023-09-09T20:59:36,138   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options
2023-09-09T20:59:36,139   !!

2023-09-09T20:59:36,140           ********************************************************************************
2023-09-09T20:59:36,140           Usage of dash-separated 'description-file' will not be supported in future
2023-09-09T20:59:36,141           versions. Please use the underscore name 'description_file' instead.

2023-09-09T20:59:36,142           By 2023-Sep-26, you need to update your project and remove deprecated calls
2023-09-09T20:59:36,143           or your builds will no longer be supported.

2023-09-09T20:59:36,144           See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details.
2023-09-09T20:59:36,144           ********************************************************************************

2023-09-09T20:59:36,145   !!
2023-09-09T20:59:36,146     opt = self.warn_dash_deprecation(opt, section)
2023-09-09T20:59:36,757   Deprecated command line option: -py3. Ignored, this option is no longer supported.
2023-09-09T20:59:53,523   dyngeom_lex.c: In function ‘yy_get_next_buffer’:
2023-09-09T20:59:53,524   dyngeom_lex.c:1395:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘yy_size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2023-09-09T20:59:59,457   ./src/init.c: In function ‘output_relreg_eval_tree’:
2023-09-09T20:59:59,461   ./src/init.c:3669:5: warning: ‘strncpy’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation]
2023-09-09T20:59:59,462    3669 |     strncpy(prefixA, prefix, l);
2023-09-09T20:59:59,462         |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~
2023-09-09T20:59:59,465   ./src/init.c:3661:14: note: length computed here
2023-09-09T20:59:59,466    3661 |   size_t l = strlen(prefix);
2023-09-09T20:59:59,466         |              ^~~~~~~~~~~~~~
2023-09-09T20:59:59,469   ./src/init.c:3670:5: warning: ‘strncpy’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation]
2023-09-09T20:59:59,470    3670 |     strncpy(prefixB, prefix, l);
2023-09-09T20:59:59,470         |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~
2023-09-09T20:59:59,473   ./src/init.c:3661:14: note: length computed here
2023-09-09T20:59:59,474    3661 |   size_t l = strlen(prefix);
2023-09-09T20:59:59,474         |              ^~~~~~~~~~~~~~
2023-09-09T21:00:16,385   ./src/pymcell_wrap.c: In function ‘_wrap_mcell_argparse’:
2023-09-09T21:00:16,388   ./src/pymcell_wrap.c:4189:19: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
2023-09-09T21:00:16,389    4189 |           arg2[i] = PyUnicode_AsUTF8(PyList_GetItem(swig_obj[1],i));
2023-09-09T21:00:16,389         |                   ^
2023-09-09T21:00:16,733   ./src/pymcell_wrap.c: In function ‘_wrap_mcell_modify_multiple_rate_constants’:
2023-09-09T21:00:16,740   ./src/pymcell_wrap.c:8210:19: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
2023-09-09T21:00:16,740    8210 |           arg2[i] = PyUnicode_AsUTF8(PyList_GetItem(swig_obj[1],i));
2023-09-09T21:00:16,741         |                   ^
2023-09-09T21:00:16,879   ./src/pymcell_wrap.c: In function ‘_wrap_existing_region’:
2023-09-09T21:00:16,891   ./src/pymcell_wrap.c:9745:32: warning: implicit declaration of function ‘existing_region’; did you mean ‘_wrap_existing_region’? [-Wimplicit-function-declaration]
2023-09-09T21:00:16,892    9745 |   result = (struct sym_entry *)existing_region(arg1,arg2,arg3);
2023-09-09T21:00:16,892         |                                ^~~~~~~~~~~~~~~
2023-09-09T21:00:16,893         |                                _wrap_existing_region
2023-09-09T21:00:17,276   ./src/pymcell_wrap.c: In function ‘_wrap_object_t_matrix_set’:
2023-09-09T21:00:17,286   ./src/pymcell_wrap.c:12564:13: warning: the comparison will always evaluate as ‘true’ for the pointer operand in ‘arg2 + (sizetype)(ii * 32)’ must not be NULL [-Waddress]
2023-09-09T21:00:17,287   12564 |         if (arg2[ii]) {
2023-09-09T21:00:17,288         |             ^~~~
2023-09-09T21:00:40,842   ./src/react_output.c: In function ‘oexpr_title’:
2023-09-09T21:00:40,843   ./src/react_output.c:1157:46: warning: bitwise comparison always evaluates to false [-Wtautological-compare]
2023-09-09T21:00:40,844    1157 |     if ((root->expr_flags & OEXPR_TYPE_MASK) == OEXPR_LEFT_INT)
2023-09-09T21:00:40,844         |                                              ^~
2023-09-09T21:00:41,953   ./src/react_trig.c: In function ‘trigger_trimolecular’:
2023-09-09T21:00:41,954   ./src/react_trig.c:439:30: warning: ‘*’ in boolean context, suggest ‘&&’ instead [-Wint-in-bool-context]
2023-09-09T21:00:41,954     439 |             ((geomB + geomC) * (geomB - geomC))) {
2023-09-09T21:00:41,955         |             ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~
2023-09-09T21:00:45,498   ./src/util.c: In function ‘poisson_dist’:
2023-09-09T21:00:45,499   ./src/util.c:1101:1: warning: control reaches end of non-void function [-Wreturn-type]
2023-09-09T21:00:45,499    1101 | }
2023-09-09T21:00:45,500         | ^
2023-09-09T21:00:52,243   ./src/wall_util.c: In function ‘release_onto_regions’:
2023-09-09T21:00:52,245   ./src/wall_util.c:2032:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
2023-09-09T21:00:52,246    2032 |       if (grid_index >= w->grid->n_tiles)
2023-09-09T21:00:52,246         |       ^~
2023-09-09T21:00:52,248   ./src/wall_util.c:2035:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
2023-09-09T21:00:52,248    2035 |         struct surface_molecule_list *sm_list = w->grid->sm_list[grid_index];
2023-09-09T21:00:52,249         |         ^~~~~~
2023-09-09T21:00:55,724   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2023-09-09T21:00:55,725   !!

2023-09-09T21:00:55,726           ********************************************************************************
2023-09-09T21:00:55,727           Please avoid running ``setup.py`` directly.
2023-09-09T21:00:55,727           Instead, use pypa/build, pypa/installer or other
2023-09-09T21:00:55,728           standards-based tools.

2023-09-09T21:00:55,729           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2023-09-09T21:00:55,730           ********************************************************************************

2023-09-09T21:00:55,731   !!
2023-09-09T21:00:55,732     self.initialize_options()
2023-09-09T21:00:56,881   Building wheel for pymcell (setup.py): finished with status 'done'
2023-09-09T21:00:56,900   Created wheel for pymcell: filename=pymcell-0.1-cp311-cp311-linux_armv7l.whl size=1288652 sha256=43c1131338d4734b273ab6d278df180046cfdf826948a2676b653df095a93347
2023-09-09T21:00:56,901   Stored in directory: /tmp/pip-ephem-wheel-cache-y2y5arvv/wheels/f8/44/83/52c8042d76a8f4f11818ba3c2768a530e36cf2c44b5b991de3
2023-09-09T21:00:56,910 Successfully built pymcell
2023-09-09T21:00:56,948 Removed build tracker: '/tmp/pip-build-tracker-nn0wys_4'