2023-09-10T03:48:19,432 Created temporary directory: /tmp/pip-build-tracker-zixjj_j7 2023-09-10T03:48:19,433 Initialized build tracking at /tmp/pip-build-tracker-zixjj_j7 2023-09-10T03:48:19,433 Created build tracker: /tmp/pip-build-tracker-zixjj_j7 2023-09-10T03:48:19,434 Entered build tracker: /tmp/pip-build-tracker-zixjj_j7 2023-09-10T03:48:19,435 Created temporary directory: /tmp/pip-wheel-qfaiu5v8 2023-09-10T03:48:19,437 Created temporary directory: /tmp/pip-ephem-wheel-cache-9xvgr6_z 2023-09-10T03:48:19,459 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-10T03:48:19,463 2 location(s) to search for versions of pymcell: 2023-09-10T03:48:19,463 * https://pypi.org/simple/pymcell/ 2023-09-10T03:48:19,463 * https://www.piwheels.org/simple/pymcell/ 2023-09-10T03:48:19,463 Fetching project page and analyzing links: https://pypi.org/simple/pymcell/ 2023-09-10T03:48:19,464 Getting page https://pypi.org/simple/pymcell/ 2023-09-10T03:48:19,466 Found index url https://pypi.org/simple/ 2023-09-10T03:48:19,715 Fetched page https://pypi.org/simple/pymcell/ as application/vnd.pypi.simple.v1+json 2023-09-10T03:48:19,716 Found link https://files.pythonhosted.org/packages/d2/c8/171b381142a8c44139007524e4e1df60ffccb7baa1112f736787276d3f69/pymcell-0.1.tar.gz (from https://pypi.org/simple/pymcell/), version: 0.1 2023-09-10T03:48:19,717 Found link https://files.pythonhosted.org/packages/15/c4/2c54dd1441778cf446f9357aea6fd378e3d8fd46628aa9245d965afcb409/pymcell-0.2.tar.gz (from https://pypi.org/simple/pymcell/), version: 0.2 2023-09-10T03:48:19,718 Fetching project page and analyzing links: https://www.piwheels.org/simple/pymcell/ 2023-09-10T03:48:19,718 Getting page https://www.piwheels.org/simple/pymcell/ 2023-09-10T03:48:19,720 Found index url https://www.piwheels.org/simple/ 2023-09-10T03:48:24,636 Fetched page https://www.piwheels.org/simple/pymcell/ as text/html 2023-09-10T03:48:24,640 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/) 2023-09-10T03:48:24,641 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/) 2023-09-10T03:48:24,642 Skipping link: No binaries permitted for pymcell: https://www.piwheels.org/simple/pymcell/pymcell-0.1-cp311-cp311-linux_armv7l.whl#sha256=43c1131338d4734b273ab6d278df180046cfdf826948a2676b653df095a93347 (from https://www.piwheels.org/simple/pymcell/) 2023-09-10T03:48:24,643 Skipping link: No binaries permitted for pymcell: https://www.piwheels.org/simple/pymcell/pymcell-0.1-cp311-cp311-linux_armv6l.whl#sha256=43c1131338d4734b273ab6d278df180046cfdf826948a2676b653df095a93347 (from https://www.piwheels.org/simple/pymcell/) 2023-09-10T03:48:24,644 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/) 2023-09-10T03:48:24,645 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/) 2023-09-10T03:48:24,646 Skipping link: not a file: https://www.piwheels.org/simple/pymcell/ 2023-09-10T03:48:24,647 Skipping link: not a file: https://pypi.org/simple/pymcell/ 2023-09-10T03:48:24,684 Given no hashes to check 1 links for project 'pymcell': discarding no candidates 2023-09-10T03:48:24,721 Collecting pymcell==0.2 2023-09-10T03:48:24,725 Created temporary directory: /tmp/pip-unpack-xs0iv0jt 2023-09-10T03:48:25,023 Downloading pymcell-0.2.tar.gz (657 kB) 2023-09-10T03:48:25,471 Added pymcell==0.2 from https://files.pythonhosted.org/packages/15/c4/2c54dd1441778cf446f9357aea6fd378e3d8fd46628aa9245d965afcb409/pymcell-0.2.tar.gz to build tracker '/tmp/pip-build-tracker-zixjj_j7' 2023-09-10T03:48:25,474 Running setup.py (path:/tmp/pip-wheel-qfaiu5v8/pymcell_bc7045b5e1ff4f55921211cbb4a616f4/setup.py) egg_info for package pymcell 2023-09-10T03:48:25,475 Created temporary directory: /tmp/pip-pip-egg-info-ugpbo1s0 2023-09-10T03:48:25,475 Preparing metadata (setup.py): started 2023-09-10T03:48:25,477 Running command python setup.py egg_info 2023-09-10T03:48:26,627 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-10T03:48:26,628 !! 2023-09-10T03:48:26,629 ******************************************************************************** 2023-09-10T03:48:26,629 Usage of dash-separated 'description-file' will not be supported in future 2023-09-10T03:48:26,630 versions. Please use the underscore name 'description_file' instead. 2023-09-10T03:48:26,631 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-10T03:48:26,631 or your builds will no longer be supported. 2023-09-10T03:48:26,632 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-10T03:48:26,632 ******************************************************************************** 2023-09-10T03:48:26,633 !! 2023-09-10T03:48:26,634 opt = self.warn_dash_deprecation(opt, section) 2023-09-10T03:48:26,880 Preparing metadata (setup.py): finished with status 'done' 2023-09-10T03:48:26,884 Source in /tmp/pip-wheel-qfaiu5v8/pymcell_bc7045b5e1ff4f55921211cbb4a616f4 has version 0.2, which satisfies requirement pymcell==0.2 from https://files.pythonhosted.org/packages/15/c4/2c54dd1441778cf446f9357aea6fd378e3d8fd46628aa9245d965afcb409/pymcell-0.2.tar.gz 2023-09-10T03:48:26,885 Removed pymcell==0.2 from https://files.pythonhosted.org/packages/15/c4/2c54dd1441778cf446f9357aea6fd378e3d8fd46628aa9245d965afcb409/pymcell-0.2.tar.gz from build tracker '/tmp/pip-build-tracker-zixjj_j7' 2023-09-10T03:48:26,888 Created temporary directory: /tmp/pip-unpack-_e58sxok 2023-09-10T03:48:26,889 Created temporary directory: /tmp/pip-unpack-b3gef5du 2023-09-10T03:48:26,892 Building wheels for collected packages: pymcell 2023-09-10T03:48:26,896 Created temporary directory: /tmp/pip-wheel-m528gb5u 2023-09-10T03:48:26,896 Building wheel for pymcell (setup.py): started 2023-09-10T03:48:26,898 Destination directory: /tmp/pip-wheel-m528gb5u 2023-09-10T03:48:26,898 Running command python setup.py bdist_wheel 2023-09-10T03:48:27,803 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-10T03:48:27,803 !! 2023-09-10T03:48:27,805 ******************************************************************************** 2023-09-10T03:48:27,805 Usage of dash-separated 'description-file' will not be supported in future 2023-09-10T03:48:27,806 versions. Please use the underscore name 'description_file' instead. 2023-09-10T03:48:27,807 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-10T03:48:27,807 or your builds will no longer be supported. 2023-09-10T03:48:27,809 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-10T03:48:27,809 ******************************************************************************** 2023-09-10T03:48:27,810 !! 2023-09-10T03:48:27,811 opt = self.warn_dash_deprecation(opt, section) 2023-09-10T03:48:28,430 Deprecated command line option: -py3. Ignored, this option is no longer supported. 2023-09-10T03:48:45,276 dyngeom_lex.c: In function ‘yy_get_next_buffer’: 2023-09-10T03:48:45,277 dyngeom_lex.c:1395:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘yy_size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2023-09-10T03:48:51,240 ./src/init.c: In function ‘output_relreg_eval_tree’: 2023-09-10T03:48:51,244 ./src/init.c:3669:5: warning: ‘strncpy’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 2023-09-10T03:48:51,244 3669 | strncpy(prefixA, prefix, l); 2023-09-10T03:48:51,245 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-10T03:48:51,248 ./src/init.c:3661:14: note: length computed here 2023-09-10T03:48:51,249 3661 | size_t l = strlen(prefix); 2023-09-10T03:48:51,249 | ^~~~~~~~~~~~~~ 2023-09-10T03:48:51,252 ./src/init.c:3670:5: warning: ‘strncpy’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 2023-09-10T03:48:51,253 3670 | strncpy(prefixB, prefix, l); 2023-09-10T03:48:51,253 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-10T03:48:51,256 ./src/init.c:3661:14: note: length computed here 2023-09-10T03:48:51,257 3661 | size_t l = strlen(prefix); 2023-09-10T03:48:51,257 | ^~~~~~~~~~~~~~ 2023-09-10T03:49:08,287 ./src/pymcell_wrap.c: In function ‘_wrap_mcell_argparse’: 2023-09-10T03:49:08,290 ./src/pymcell_wrap.c:4281:19: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2023-09-10T03:49:08,290 4281 | arg2[i] = PyUnicode_AsUTF8(PyList_GetItem(swig_obj[1],i)); 2023-09-10T03:49:08,291 | ^ 2023-09-10T03:49:08,639 ./src/pymcell_wrap.c: In function ‘_wrap_mcell_modify_multiple_rate_constants’: 2023-09-10T03:49:08,645 ./src/pymcell_wrap.c:8302:19: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2023-09-10T03:49:08,646 8302 | arg2[i] = PyUnicode_AsUTF8(PyList_GetItem(swig_obj[1],i)); 2023-09-10T03:49:08,646 | ^ 2023-09-10T03:49:09,155 ./src/pymcell_wrap.c: In function ‘_wrap_object_t_matrix_set’: 2023-09-10T03:49:09,165 ./src/pymcell_wrap.c:12656:13: warning: the comparison will always evaluate as ‘true’ for the pointer operand in ‘arg2 + (sizetype)(ii * 32)’ must not be NULL [-Waddress] 2023-09-10T03:49:09,166 12656 | if (arg2[ii]) { 2023-09-10T03:49:09,167 | ^~~~ 2023-09-10T03:49:33,082 ./src/react_output.c: In function ‘oexpr_title’: 2023-09-10T03:49:33,083 ./src/react_output.c:1157:46: warning: bitwise comparison always evaluates to false [-Wtautological-compare] 2023-09-10T03:49:33,084 1157 | if ((root->expr_flags & OEXPR_TYPE_MASK) == OEXPR_LEFT_INT) 2023-09-10T03:49:33,084 | ^~ 2023-09-10T03:49:34,193 ./src/react_trig.c: In function ‘trigger_trimolecular’: 2023-09-10T03:49:34,194 ./src/react_trig.c:439:30: warning: ‘*’ in boolean context, suggest ‘&&’ instead [-Wint-in-bool-context] 2023-09-10T03:49:34,195 439 | ((geomB + geomC) * (geomB - geomC))) { 2023-09-10T03:49:34,195 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ 2023-09-10T03:49:37,750 ./src/util.c: In function ‘poisson_dist’: 2023-09-10T03:49:37,751 ./src/util.c:1101:1: warning: control reaches end of non-void function [-Wreturn-type] 2023-09-10T03:49:37,752 1101 | } 2023-09-10T03:49:37,752 | ^ 2023-09-10T03:49:44,538 ./src/wall_util.c: In function ‘release_onto_regions’: 2023-09-10T03:49:44,540 ./src/wall_util.c:2032:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2023-09-10T03:49:44,541 2032 | if (grid_index >= w->grid->n_tiles) 2023-09-10T03:49:44,541 | ^~ 2023-09-10T03:49:44,542 ./src/wall_util.c:2035:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2023-09-10T03:49:44,543 2035 | struct surface_molecule_list *sm_list = w->grid->sm_list[grid_index]; 2023-09-10T03:49:44,543 | ^~~~~~ 2023-09-10T03:49:48,097 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2023-09-10T03:49:48,097 !! 2023-09-10T03:49:48,099 ******************************************************************************** 2023-09-10T03:49:48,099 Please avoid running ``setup.py`` directly. 2023-09-10T03:49:48,099 Instead, use pypa/build, pypa/installer or other 2023-09-10T03:49:48,100 standards-based tools. 2023-09-10T03:49:48,101 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2023-09-10T03:49:48,101 ******************************************************************************** 2023-09-10T03:49:48,102 !! 2023-09-10T03:49:48,102 self.initialize_options() 2023-09-10T03:49:49,245 Building wheel for pymcell (setup.py): finished with status 'done' 2023-09-10T03:49:49,264 Created wheel for pymcell: filename=pymcell-0.2-cp311-cp311-linux_armv7l.whl size=1299144 sha256=ad8c7517ed0c37c4aca8cdf336c9281ea0a5b22d0060f11c67958d2c38a2cc61 2023-09-10T03:49:49,265 Stored in directory: /tmp/pip-ephem-wheel-cache-9xvgr6_z/wheels/d2/2d/ca/9f98dd105f1db2803da7bf5130f07655ea178ab34c28ee7728 2023-09-10T03:49:49,274 Successfully built pymcell 2023-09-10T03:49:49,307 Removed build tracker: '/tmp/pip-build-tracker-zixjj_j7'