2023-09-19T06:37:35,044 Created temporary directory: /tmp/pip-build-tracker-2daix0sq 2023-09-19T06:37:35,045 Initialized build tracking at /tmp/pip-build-tracker-2daix0sq 2023-09-19T06:37:35,046 Created build tracker: /tmp/pip-build-tracker-2daix0sq 2023-09-19T06:37:35,046 Entered build tracker: /tmp/pip-build-tracker-2daix0sq 2023-09-19T06:37:35,047 Created temporary directory: /tmp/pip-wheel-ao8jem89 2023-09-19T06:37:35,050 Created temporary directory: /tmp/pip-ephem-wheel-cache-lrh9lvzk 2023-09-19T06:37:35,072 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-19T06:37:35,076 2 location(s) to search for versions of pystochsim: 2023-09-19T06:37:35,076 * https://pypi.org/simple/pystochsim/ 2023-09-19T06:37:35,076 * https://www.piwheels.org/simple/pystochsim/ 2023-09-19T06:37:35,077 Fetching project page and analyzing links: https://pypi.org/simple/pystochsim/ 2023-09-19T06:37:35,078 Getting page https://pypi.org/simple/pystochsim/ 2023-09-19T06:37:35,079 Found index url https://pypi.org/simple/ 2023-09-19T06:37:35,219 Fetched page https://pypi.org/simple/pystochsim/ as application/vnd.pypi.simple.v1+json 2023-09-19T06:37:35,220 Found link https://files.pythonhosted.org/packages/08/4f/07ff0c61259abdba9a979cb58c1d52eb991d7ffacf6d323dc56e85cdd3d7/pystochsim-1.0.0.tar.gz (from https://pypi.org/simple/pystochsim/) (requires-python:>=3.6), version: 1.0.0 2023-09-19T06:37:35,222 Found link https://files.pythonhosted.org/packages/a6/5c/7613c6bac1ee52964e761e325353878d5f6ccd739f03b2012eae8c741260/pystochsim-1.1.0.tar.gz (from https://pypi.org/simple/pystochsim/) (requires-python:>=3.6), version: 1.1.0 2023-09-19T06:37:35,222 Fetching project page and analyzing links: https://www.piwheels.org/simple/pystochsim/ 2023-09-19T06:37:35,223 Getting page https://www.piwheels.org/simple/pystochsim/ 2023-09-19T06:37:35,224 Found index url https://www.piwheels.org/simple/ 2023-09-19T06:37:35,477 Fetched page https://www.piwheels.org/simple/pystochsim/ as text/html 2023-09-19T06:37:35,480 Skipping link: No binaries permitted for pystochsim: https://www.piwheels.org/simple/pystochsim/pystochsim-1.1.0-cp39-cp39-linux_armv7l.whl#sha256=062427fe2a74ec34a7481340aaca1e703a59e91473321a009b31d84876b4fe61 (from https://www.piwheels.org/simple/pystochsim/) (requires-python:>=3.6) 2023-09-19T06:37:35,480 Skipping link: No binaries permitted for pystochsim: https://www.piwheels.org/simple/pystochsim/pystochsim-1.1.0-cp39-cp39-linux_armv6l.whl#sha256=062427fe2a74ec34a7481340aaca1e703a59e91473321a009b31d84876b4fe61 (from https://www.piwheels.org/simple/pystochsim/) (requires-python:>=3.6) 2023-09-19T06:37:35,481 Skipping link: No binaries permitted for pystochsim: https://www.piwheels.org/simple/pystochsim/pystochsim-1.0.0-cp39-cp39-linux_armv7l.whl#sha256=92e9db83bd07e9f3cb3ae24e376554b7c560f25e28717b7e696bead47bcc2f24 (from https://www.piwheels.org/simple/pystochsim/) (requires-python:>=3.6) 2023-09-19T06:37:35,482 Skipping link: No binaries permitted for pystochsim: https://www.piwheels.org/simple/pystochsim/pystochsim-1.0.0-cp39-cp39-linux_armv6l.whl#sha256=92e9db83bd07e9f3cb3ae24e376554b7c560f25e28717b7e696bead47bcc2f24 (from https://www.piwheels.org/simple/pystochsim/) (requires-python:>=3.6) 2023-09-19T06:37:35,483 Skipping link: not a file: https://www.piwheels.org/simple/pystochsim/ 2023-09-19T06:37:35,483 Skipping link: not a file: https://pypi.org/simple/pystochsim/ 2023-09-19T06:37:35,502 Given no hashes to check 1 links for project 'pystochsim': discarding no candidates 2023-09-19T06:37:35,520 Collecting pystochsim==1.1.0 2023-09-19T06:37:35,522 Created temporary directory: /tmp/pip-unpack-e9wi8yxe 2023-09-19T06:37:36,323 Downloading pystochsim-1.1.0.tar.gz (1.2 MB) 2023-09-19T06:37:37,580 Added pystochsim==1.1.0 from https://files.pythonhosted.org/packages/a6/5c/7613c6bac1ee52964e761e325353878d5f6ccd739f03b2012eae8c741260/pystochsim-1.1.0.tar.gz to build tracker '/tmp/pip-build-tracker-2daix0sq' 2023-09-19T06:37:37,581 Running setup.py (path:/tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/setup.py) egg_info for package pystochsim 2023-09-19T06:37:37,582 Created temporary directory: /tmp/pip-pip-egg-info-zhejn0yi 2023-09-19T06:37:37,583 Preparing metadata (setup.py): started 2023-09-19T06:37:37,585 Running command python setup.py egg_info 2023-09-19T06:37:38,603 running egg_info 2023-09-19T06:37:38,604 creating /tmp/pip-pip-egg-info-zhejn0yi/pystochsim.egg-info 2023-09-19T06:37:38,627 writing /tmp/pip-pip-egg-info-zhejn0yi/pystochsim.egg-info/PKG-INFO 2023-09-19T06:37:38,630 writing dependency_links to /tmp/pip-pip-egg-info-zhejn0yi/pystochsim.egg-info/dependency_links.txt 2023-09-19T06:37:38,632 writing top-level names to /tmp/pip-pip-egg-info-zhejn0yi/pystochsim.egg-info/top_level.txt 2023-09-19T06:37:38,634 writing manifest file '/tmp/pip-pip-egg-info-zhejn0yi/pystochsim.egg-info/SOURCES.txt' 2023-09-19T06:37:38,683 reading manifest file '/tmp/pip-pip-egg-info-zhejn0yi/pystochsim.egg-info/SOURCES.txt' 2023-09-19T06:37:38,684 reading manifest template 'MANIFEST.in' 2023-09-19T06:37:38,794 adding license file 'LICENSE' 2023-09-19T06:37:38,809 writing manifest file '/tmp/pip-pip-egg-info-zhejn0yi/pystochsim.egg-info/SOURCES.txt' 2023-09-19T06:37:38,918 Preparing metadata (setup.py): finished with status 'done' 2023-09-19T06:37:38,921 Source in /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945 has version 1.1.0, which satisfies requirement pystochsim==1.1.0 from https://files.pythonhosted.org/packages/a6/5c/7613c6bac1ee52964e761e325353878d5f6ccd739f03b2012eae8c741260/pystochsim-1.1.0.tar.gz 2023-09-19T06:37:38,922 Removed pystochsim==1.1.0 from https://files.pythonhosted.org/packages/a6/5c/7613c6bac1ee52964e761e325353878d5f6ccd739f03b2012eae8c741260/pystochsim-1.1.0.tar.gz from build tracker '/tmp/pip-build-tracker-2daix0sq' 2023-09-19T06:37:38,927 Created temporary directory: /tmp/pip-unpack-mlk02577 2023-09-19T06:37:38,928 Created temporary directory: /tmp/pip-unpack-p1nlynsz 2023-09-19T06:37:38,931 Building wheels for collected packages: pystochsim 2023-09-19T06:37:38,935 Created temporary directory: /tmp/pip-wheel-z773pya1 2023-09-19T06:37:38,936 Building wheel for pystochsim (setup.py): started 2023-09-19T06:37:38,937 Destination directory: /tmp/pip-wheel-z773pya1 2023-09-19T06:37:38,937 Running command python setup.py bdist_wheel 2023-09-19T06:37:39,934 running bdist_wheel 2023-09-19T06:37:40,005 running build 2023-09-19T06:37:40,006 running build_ext 2023-09-19T06:37:40,309 -- The C compiler identification is GNU 12.2.0 2023-09-19T06:37:40,612 -- The CXX compiler identification is GNU 12.2.0 2023-09-19T06:37:40,660 -- Detecting C compiler ABI info 2023-09-19T06:37:41,060 -- Detecting C compiler ABI info - done 2023-09-19T06:37:41,102 -- Check for working C compiler: /usr/bin/cc - skipped 2023-09-19T06:37:41,103 -- Detecting C compile features 2023-09-19T06:37:41,106 -- Detecting C compile features - done 2023-09-19T06:37:41,124 -- Detecting CXX compiler ABI info 2023-09-19T06:37:41,555 -- Detecting CXX compiler ABI info - done 2023-09-19T06:37:41,626 -- Check for working CXX compiler: /usr/bin/c++ - skipped 2023-09-19T06:37:41,628 -- Detecting CXX compile features 2023-09-19T06:37:41,632 -- Detecting CXX compile features - done 2023-09-19T06:37:41,684 -- Using the multi-header code from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/extern/json/include/ 2023-09-19T06:37:41,714 -- pybind11 v2.11.0 dev1 2023-09-19T06:37:41,795 -- Found PythonInterp: /usr/bin/python3 (found suitable version "3.11.2", minimum required is "3.6") 2023-09-19T06:37:41,875 -- Found PythonLibs: /usr/lib/arm-linux-gnueabihf/libpython3.11.so 2023-09-19T06:37:41,884 -- Performing Test HAS_FLTO 2023-09-19T06:37:42,534 -- Performing Test HAS_FLTO - Success 2023-09-19T06:37:43,899 -- Found Python: /usr/bin/python3 (found version "3.11.2") found components: Interpreter 2023-09-19T06:37:43,905 -- Performing Test CMAKE_HAVE_LIBC_PTHREAD 2023-09-19T06:37:44,316 -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success 2023-09-19T06:37:44,320 -- Found Threads: TRUE 2023-09-19T06:37:44,334 -- Configuring done 2023-09-19T06:37:44,574 -- Generating done 2023-09-19T06:37:44,600 CMake Warning: 2023-09-19T06:37:44,601 Manually-specified variables were not used by the project: 2023-09-19T06:37:44,602 EXAMPLE_VERSION_INFO 2023-09-19T06:37:44,604 -- Build files have been written to: /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/build/temp.linux-armv7l-cpython-311/pystochsim 2023-09-19T06:37:44,891 [ 2%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/factory.cpp.o 2023-09-19T06:38:07,589 [ 5%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/problem.cpp.o 2023-09-19T06:38:13,129 [ 7%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/reaction.cpp.o 2023-09-19T06:38:15,727 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/reaction.cpp: In member function ‘void stochsim::Reaction::computeGradPropensity(std::span, std::span) const’: 2023-09-19T06:38:15,727 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/reaction.cpp:131:6: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:15,728 131 | void Reaction::computeGradPropensity(std::span speciesNumber, 2023-09-19T06:38:15,728 | ^~~~~~~~ 2023-09-19T06:38:15,768 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/reaction.cpp: In member function ‘void stochsim::Reaction::addContributionMuHatSigmaHatSquare(stochsim::real, std::span, std::span) const’: 2023-09-19T06:38:15,768 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/reaction.cpp:152:6: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:15,769 152 | void Reaction::addContributionMuHatSigmaHatSquare(real propensity, 2023-09-19T06:38:15,769 | ^~~~~~~~ 2023-09-19T06:38:15,770 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/reaction.cpp:152:6: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:16,569 [ 10%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/reaction_parser.cpp.o 2023-09-19T06:38:22,293 [ 12%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/simulation.cpp.o 2023-09-19T06:38:25,754 [ 15%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/diagnostics/collect_tau.cpp.o 2023-09-19T06:38:28,123 [ 17%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/diagnostics/diagnostic.cpp.o 2023-09-19T06:38:30,381 [ 20%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/diagnostics/mean_trajectory.cpp.o 2023-09-19T06:38:33,224 [ 22%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/solvers/R0_leaping.cpp.o 2023-09-19T06:38:36,446 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R0_leaping.cpp: In static member function ‘static void stochsim::R0Leaping::sampleNumFirings(int, std::span, std::span, std::mt19937&)’: 2023-09-19T06:38:36,460 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R0_leaping.cpp:43:6: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:36,460 43 | void R0Leaping::sampleNumFirings(int L, 2023-09-19T06:38:36,461 | ^~~~~~~~~ 2023-09-19T06:38:36,707 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R0_leaping.cpp: In member function ‘virtual void stochsim::R0Leaping::advance()’: 2023-09-19T06:38:36,708 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R0_leaping.cpp:35:21: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:36,709 35 | sampleNumFirings(L_, cumPropensities_, numFirings_, gen_); 2023-09-19T06:38:36,709 | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:38:36,985 [ 25%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/solvers/R1_leaping.cpp.o 2023-09-19T06:38:40,924 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R1_leaping.cpp: In static member function ‘static void stochsim::R1Leaping::sampleNumFirings(int, std::span, std::span, std::span, std::mt19937&)’: 2023-09-19T06:38:40,924 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R1_leaping.cpp:57:6: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:40,925 57 | void R1Leaping::sampleNumFirings(int L, 2023-09-19T06:38:40,926 | ^~~~~~~~~ 2023-09-19T06:38:41,025 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R1_leaping.cpp: In member function ‘virtual void stochsim::R1Leaping::advance()’: 2023-09-19T06:38:41,025 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R1_leaping.cpp:45:21: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:41,026 45 | sampleNumFirings(L_, sortedReactionsIndices_, propensities_, numFirings_, gen_); 2023-09-19T06:38:41,026 | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:38:41,027 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R1_leaping.cpp:45:21: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:41,421 [ 27%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/solvers/R_leaping.cpp.o 2023-09-19T06:38:46,474 In function ‘void stochsim::computeMuHatSigmaHatSq(std::span, std::span, std::span, std::span)’, 2023-09-19T06:38:46,475 inlined from ‘virtual void stochsim::RLeaping::advance()’ at /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R_leaping.cpp:136:27: 2023-09-19T06:38:46,476 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R_leaping.cpp:106:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:46,477 106 | r.addContributionMuHatSigmaHatSquare(a, muHat, sigmaHatSq); 2023-09-19T06:38:46,478 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:38:46,478 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R_leaping.cpp:106:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:46,479 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R_leaping.cpp:106:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:46,480 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R_leaping.cpp: In member function ‘virtual void stochsim::RLeaping::advance()’: 2023-09-19T06:38:46,481 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R_leaping.cpp:149:40: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:46,481 149 | R0Leaping::sampleNumFirings(L, cumPropensities_, numFirings_, gen_); 2023-09-19T06:38:46,482 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:38:46,482 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R_leaping.cpp:153:40: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:46,483 153 | R1Leaping::sampleNumFirings(L, sortedReactionsIndices_, 2023-09-19T06:38:46,484 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:38:46,485 154 | propensities_, numFirings_, gen_); 2023-09-19T06:38:46,485 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:38:46,486 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/R_leaping.cpp:153:40: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:38:47,036 [ 30%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/solvers/solver.cpp.o 2023-09-19T06:38:48,538 [ 32%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/solvers/ssa.cpp.o 2023-09-19T06:38:52,075 [ 35%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/solvers/tau_leaping.cpp.o 2023-09-19T06:38:58,689 [ 37%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/utils/algorithms.cpp.o 2023-09-19T06:39:01,812 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/utils/algorithms.cpp: In function ‘void stochsim::utils::argsortDecreasingOrder(std::span, std::span)’: 2023-09-19T06:39:01,812 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/utils/algorithms.cpp:23:6: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:39:01,813 23 | void argsortDecreasingOrder(std::span a, std::span indices) 2023-09-19T06:39:01,814 | ^~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:39:01,925 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/utils/algorithms.cpp: In function ‘size_t stochsim::utils::choose(std::span, std::mt19937&)’: 2023-09-19T06:39:01,925 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/utils/algorithms.cpp:9:8: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:39:01,926 9 | size_t choose(std::span cumulativeProbs, std::mt19937& gen) 2023-09-19T06:39:01,927 | ^~~~~~ 2023-09-19T06:39:02,085 [ 40%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/utils/exceptions.cpp.o 2023-09-19T06:39:03,459 [ 42%] Building CXX object source/stochsim/CMakeFiles/stochsim.dir/utils/strprintf.cpp.o 2023-09-19T06:39:04,842 [ 45%] Linking CXX static library libstochsim.a 2023-09-19T06:39:05,618 [ 45%] Built target stochsim 2023-09-19T06:39:05,720 [ 47%] Building CXX object apps/CMakeFiles/run_simulation.dir/run_simulation.cpp.o 2023-09-19T06:39:22,443 In file included from /usr/include/c++/12/map:60, 2023-09-19T06:39:22,444 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/extern/json/include/nlohmann/detail/conversions/from_json.hpp:15, 2023-09-19T06:39:22,444 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/extern/json/include/nlohmann/adl_serializer.hpp:14, 2023-09-19T06:39:22,445 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/extern/json/include/nlohmann/json.hpp:35, 2023-09-19T06:39:22,446 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/factory.h:9, 2023-09-19T06:39:22,446 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/apps/run_simulation.cpp:1: 2023-09-19T06:39:22,447 /usr/include/c++/12/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::allocator >&>, std::tuple<>}; _Key = std::__cxx11::basic_string; _Val = std::pair, nlohmann::json_abi_v3_11_1::basic_json<> >; _KeyOfValue = std::_Select1st, nlohmann::json_abi_v3_11_1::basic_json<> > >; _Compare = std::less; _Alloc = std::allocator, nlohmann::json_abi_v3_11_1::basic_json<> > >]’: 2023-09-19T06:39:22,448 /usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, nlohmann::json_abi_v3_11_1::basic_json<> >, std::_Select1st, nlohmann::json_abi_v3_11_1::basic_json<> > >, std::less, std::allocator, nlohmann::json_abi_v3_11_1::basic_json<> > > >::const_iterator’ changed in GCC 7.1 2023-09-19T06:39:22,449 2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: 2023-09-19T06:39:22,449 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:39:22,564 In file included from /usr/include/c++/12/map:61: 2023-09-19T06:39:22,565 /usr/include/c++/12/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = std::__cxx11::basic_string; _Tp = nlohmann::json_abi_v3_11_1::basic_json<>; _Compare = std::less; _Alloc = std::allocator, nlohmann::json_abi_v3_11_1::basic_json<> > >]’: 2023-09-19T06:39:22,565 /usr/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, nlohmann::json_abi_v3_11_1::basic_json<> >, std::_Select1st, nlohmann::json_abi_v3_11_1::basic_json<> > >, std::less, std::allocator, nlohmann::json_abi_v3_11_1::basic_json<> > > >::const_iterator’ changed in GCC 7.1 2023-09-19T06:39:22,566 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, 2023-09-19T06:39:22,567 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:39:22,568 512 | std::tuple(__k), 2023-09-19T06:39:22,568 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:39:22,569 513 | std::tuple<>()); 2023-09-19T06:39:22,570 | ~~~~~~~~~~~~~~~ 2023-09-19T06:39:22,640 In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = std::__cxx11::basic_string; _Tp = nlohmann::json_abi_v3_11_1::basic_json<>; _Compare = std::less; _Alloc = std::allocator, nlohmann::json_abi_v3_11_1::basic_json<> > >]’, 2023-09-19T06:39:22,674 inlined from ‘bool nlohmann::json_abi_v3_11_1::detail::json_sax_dom_callback_parser::key(string_t&) [with BasicJsonType = nlohmann::json_abi_v3_11_1::basic_json<>]’ at /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/extern/json/include/nlohmann/detail/input/json_sax.hpp:442:76: 2023-09-19T06:39:22,675 /usr/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, nlohmann::json_abi_v3_11_1::basic_json<> >, std::_Select1st, nlohmann::json_abi_v3_11_1::basic_json<> > >, std::less, std::allocator, nlohmann::json_abi_v3_11_1::basic_json<> > > >::const_iterator’ changed in GCC 7.1 2023-09-19T06:39:22,676 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, 2023-09-19T06:39:22,678 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:39:22,679 512 | std::tuple(__k), 2023-09-19T06:39:22,680 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:39:22,681 513 | std::tuple<>()); 2023-09-19T06:39:22,682 | ~~~~~~~~~~~~~~~ 2023-09-19T06:39:27,435 [ 50%] Linking CXX executable run_simulation 2023-09-19T06:39:28,185 [ 50%] Built target run_simulation 2023-09-19T06:39:28,287 [ 52%] Building CXX object source/bindings/CMakeFiles/pystochsim.dir/bindings.cpp.o 2023-09-19T06:39:41,044 [ 55%] Building CXX object source/bindings/CMakeFiles/pystochsim.dir/problem.cpp.o 2023-09-19T06:39:56,956 [ 57%] Building CXX object source/bindings/CMakeFiles/pystochsim.dir/run.cpp.o 2023-09-19T06:40:12,307 [ 60%] Building CXX object source/bindings/CMakeFiles/pystochsim.dir/solvers.cpp.o 2023-09-19T06:40:29,192 [ 62%] Linking CXX shared module /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/build/lib.linux-armv7l-cpython-311/pystochsim.cpython-311-arm-linux-gnueabihf.so 2023-09-19T06:40:30,384 lto-wrapper: warning: using serial compilation of 3 LTRANS jobs 2023-09-19T06:40:30,385 lto-wrapper: note: see the ‘-flto’ option documentation for more information 2023-09-19T06:40:50,466 [ 62%] Built target pystochsim 2023-09-19T06:40:50,568 [ 65%] Building CXX object tests/extern/googletest/googletest/CMakeFiles/gtest.dir/src/gtest-all.cc.o 2023-09-19T06:41:31,608 [ 67%] Linking CXX static library ../../../../lib/libgtest.a 2023-09-19T06:41:31,955 [ 67%] Built target gtest 2023-09-19T06:41:32,055 [ 70%] Building CXX object tests/extern/googletest/googletest/CMakeFiles/gtest_main.dir/src/gtest_main.cc.o 2023-09-19T06:41:36,484 [ 72%] Linking CXX static library ../../../../lib/libgtest_main.a 2023-09-19T06:41:36,756 [ 72%] Built target gtest_main 2023-09-19T06:41:36,861 [ 75%] Building CXX object tests/units/CMakeFiles/test_stochsim.dir/main.cpp.o 2023-09-19T06:41:42,774 [ 77%] Building CXX object tests/units/CMakeFiles/test_stochsim.dir/diagnostics.cpp.o 2023-09-19T06:41:54,018 [ 80%] Building CXX object tests/units/CMakeFiles/test_stochsim.dir/exceptions.cpp.o 2023-09-19T06:42:01,582 [ 82%] Building CXX object tests/units/CMakeFiles/test_stochsim.dir/factory.cpp.o 2023-09-19T06:42:21,519 In file included from /usr/include/c++/12/map:60, 2023-09-19T06:42:21,519 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/extern/json/include/nlohmann/detail/conversions/from_json.hpp:15, 2023-09-19T06:42:21,520 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/extern/json/include/nlohmann/adl_serializer.hpp:14, 2023-09-19T06:42:21,521 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/extern/json/include/nlohmann/json.hpp:35, 2023-09-19T06:42:21,521 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/factory.h:9, 2023-09-19T06:42:21,522 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/factory.cpp:1: 2023-09-19T06:42:21,523 /usr/include/c++/12/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::allocator >&>, std::tuple<>}; _Key = std::__cxx11::basic_string; _Val = std::pair, nlohmann::json_abi_v3_11_1::basic_json<> >; _KeyOfValue = std::_Select1st, nlohmann::json_abi_v3_11_1::basic_json<> > >; _Compare = std::less; _Alloc = std::allocator, nlohmann::json_abi_v3_11_1::basic_json<> > >]’: 2023-09-19T06:42:21,523 /usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, nlohmann::json_abi_v3_11_1::basic_json<> >, std::_Select1st, nlohmann::json_abi_v3_11_1::basic_json<> > >, std::less, std::allocator, nlohmann::json_abi_v3_11_1::basic_json<> > > >::const_iterator’ changed in GCC 7.1 2023-09-19T06:42:21,524 2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: 2023-09-19T06:42:21,525 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:42:21,636 In file included from /usr/include/c++/12/map:61: 2023-09-19T06:42:21,637 /usr/include/c++/12/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = std::__cxx11::basic_string; _Tp = nlohmann::json_abi_v3_11_1::basic_json<>; _Compare = std::less; _Alloc = std::allocator, nlohmann::json_abi_v3_11_1::basic_json<> > >]’: 2023-09-19T06:42:21,638 /usr/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, nlohmann::json_abi_v3_11_1::basic_json<> >, std::_Select1st, nlohmann::json_abi_v3_11_1::basic_json<> > >, std::less, std::allocator, nlohmann::json_abi_v3_11_1::basic_json<> > > >::const_iterator’ changed in GCC 7.1 2023-09-19T06:42:21,638 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, 2023-09-19T06:42:21,639 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:42:21,639 512 | std::tuple(__k), 2023-09-19T06:42:21,640 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:42:21,641 513 | std::tuple<>()); 2023-09-19T06:42:21,642 | ~~~~~~~~~~~~~~~ 2023-09-19T06:42:21,711 In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = std::__cxx11::basic_string; _Tp = nlohmann::json_abi_v3_11_1::basic_json<>; _Compare = std::less; _Alloc = std::allocator, nlohmann::json_abi_v3_11_1::basic_json<> > >]’, 2023-09-19T06:42:21,711 inlined from ‘bool nlohmann::json_abi_v3_11_1::detail::json_sax_dom_callback_parser::key(string_t&) [with BasicJsonType = nlohmann::json_abi_v3_11_1::basic_json<>]’ at /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/extern/json/include/nlohmann/detail/input/json_sax.hpp:442:76: 2023-09-19T06:42:21,712 /usr/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, nlohmann::json_abi_v3_11_1::basic_json<> >, std::_Select1st, nlohmann::json_abi_v3_11_1::basic_json<> > >, std::less, std::allocator, nlohmann::json_abi_v3_11_1::basic_json<> > > >::const_iterator’ changed in GCC 7.1 2023-09-19T06:42:21,713 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, 2023-09-19T06:42:21,714 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:42:21,714 512 | std::tuple(__k), 2023-09-19T06:42:21,715 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:42:21,715 513 | std::tuple<>()); 2023-09-19T06:42:21,716 | ~~~~~~~~~~~~~~~ 2023-09-19T06:42:28,234 [ 85%] Building CXX object tests/units/CMakeFiles/test_stochsim.dir/R_leaping.cpp.o 2023-09-19T06:42:36,295 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/R_leaping.cpp: In member function ‘virtual void R1_sampling_numFirings_sum_up_to_L_Test::TestBody()’: 2023-09-19T06:42:36,296 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/R_leaping.cpp:40:36: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:36,297 40 | R1Leaping::sampleNumFirings(L, sortedReactionsIndices, propensities, numFirings, gen); 2023-09-19T06:42:36,297 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:42:36,298 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/R_leaping.cpp:40:36: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:36,451 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/R_leaping.cpp: In member function ‘virtual void R0_sampling_numFirings_sum_up_to_L_Test::TestBody()’: 2023-09-19T06:42:36,452 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/R_leaping.cpp:21:36: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:36,453 21 | R0Leaping::sampleNumFirings(L, cumPropensities, numFirings, gen); 2023-09-19T06:42:36,453 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:42:36,970 [ 87%] Building CXX object tests/units/CMakeFiles/test_stochsim.dir/reaction.cpp.o 2023-09-19T06:42:47,956 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp: In member function ‘virtual void reaction_grad_propensity_third_order_Test::TestBody()’: 2023-09-19T06:42:47,956 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp:181:35: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:47,957 181 | reaction.computeGradPropensity(numSpecies, gradients); 2023-09-19T06:42:47,958 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:42:47,958 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp:181:35: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:49,197 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp: In member function ‘virtual void reaction_grad_propensity_second_order_Test::TestBody()’: 2023-09-19T06:42:49,198 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp:167:35: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:49,198 167 | reaction.computeGradPropensity(numSpecies, gradients); 2023-09-19T06:42:49,199 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:42:49,200 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp:167:35: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:49,428 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp: In member function ‘virtual void reaction_grad_propensity_first_order_Test::TestBody()’: 2023-09-19T06:42:49,429 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp:151:35: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:49,430 151 | reaction.computeGradPropensity(numSpecies, gradients); 2023-09-19T06:42:49,430 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:42:49,431 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp:151:35: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:49,933 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp: In member function ‘virtual void reaction_muHat_sigmaHatSquare_Test::TestBody()’: 2023-09-19T06:42:49,933 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp:200:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:49,934 200 | r.addContributionMuHatSigmaHatSquare(propensities[0], muHat, sigmaHatSq); 2023-09-19T06:42:49,934 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:42:49,935 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp:200:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:49,936 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp:200:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:49,941 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp:218:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:49,941 218 | r.addContributionMuHatSigmaHatSquare(propensities[0], muHat, sigmaHatSq); 2023-09-19T06:42:49,942 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:42:49,943 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp:218:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:49,944 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/reaction.cpp:218:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:42:54,622 [ 90%] Building CXX object tests/units/CMakeFiles/test_stochsim.dir/reaction_parser.cpp.o 2023-09-19T06:43:10,014 [ 92%] Building CXX object tests/units/CMakeFiles/test_stochsim.dir/ssa.cpp.o 2023-09-19T06:43:17,740 In file included from /usr/include/c++/12/vector:64, 2023-09-19T06:43:17,741 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/reaction.h:7, 2023-09-19T06:43:17,742 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/solver.h:3, 2023-09-19T06:43:17,742 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/source/stochsim/solvers/ssa.h:3, 2023-09-19T06:43:17,743 from /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/ssa.cpp:1: 2023-09-19T06:43:17,744 /usr/include/c++/12/bits/stl_vector.h: In constructor ‘constexpr std::vector<_Tp, _Alloc>::vector(std::initializer_list<_Tp>, const allocator_type&) [with _Tp = stochsim::Reaction; _Alloc = std::allocator]’: 2023-09-19T06:43:17,745 /usr/include/c++/12/bits/stl_vector.h:673:7: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 2023-09-19T06:43:17,745 673 | vector(initializer_list __l, 2023-09-19T06:43:17,746 | ^~~~~~ 2023-09-19T06:43:18,064 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/ssa.cpp: In member function ‘virtual void ssa_decay_Test::TestBody()’: 2023-09-19T06:43:18,064 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/ssa.cpp:16:17: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 2023-09-19T06:43:18,065 16 | {n0}); 2023-09-19T06:43:18,066 | ^ 2023-09-19T06:43:18,480 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/ssa.cpp: In member function ‘virtual void ssa_equilibrium_Test::TestBody()’: 2023-09-19T06:43:18,481 /tmp/pip-wheel-ao8jem89/pystochsim_e7fe3ca38b744039b8c1d55d9a074945/tests/units/ssa.cpp:47:20: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 2023-09-19T06:43:18,481 47 | {n0, 0}); 2023-09-19T06:43:18,482 | ^ 2023-09-19T06:43:19,444 [ 95%] Building CXX object tests/units/CMakeFiles/test_stochsim.dir/tau_leaping.cpp.o 2023-09-19T06:43:29,393 [ 97%] Building CXX object tests/units/CMakeFiles/test_stochsim.dir/utils.cpp.o 2023-09-19T06:43:37,989 [100%] Linking CXX executable test_stochsim 2023-09-19T06:43:39,041 [100%] Built target test_stochsim 2023-09-19T06:43:39,138 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2023-09-19T06:43:39,139 !! 2023-09-19T06:43:39,140 ******************************************************************************** 2023-09-19T06:43:39,140 Please avoid running ``setup.py`` directly. 2023-09-19T06:43:39,141 Instead, use pypa/build, pypa/installer or other 2023-09-19T06:43:39,141 standards-based tools. 2023-09-19T06:43:39,143 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2023-09-19T06:43:39,143 ******************************************************************************** 2023-09-19T06:43:39,144 !! 2023-09-19T06:43:39,145 self.initialize_options() 2023-09-19T06:43:39,163 installing to build/bdist.linux-armv7l/wheel 2023-09-19T06:43:39,164 running install 2023-09-19T06:43:39,188 running install_lib 2023-09-19T06:43:39,213 creating build/bdist.linux-armv7l 2023-09-19T06:43:39,213 creating build/bdist.linux-armv7l/wheel 2023-09-19T06:43:39,214 copying build/lib.linux-armv7l-cpython-311/pystochsim.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel 2023-09-19T06:43:39,220 running install_egg_info 2023-09-19T06:43:39,284 running egg_info 2023-09-19T06:43:39,310 writing pystochsim.egg-info/PKG-INFO 2023-09-19T06:43:39,313 writing dependency_links to pystochsim.egg-info/dependency_links.txt 2023-09-19T06:43:39,314 writing top-level names to pystochsim.egg-info/top_level.txt 2023-09-19T06:43:39,344 reading manifest file 'pystochsim.egg-info/SOURCES.txt' 2023-09-19T06:43:39,418 reading manifest template 'MANIFEST.in' 2023-09-19T06:43:39,554 adding license file 'LICENSE' 2023-09-19T06:43:39,575 writing manifest file 'pystochsim.egg-info/SOURCES.txt' 2023-09-19T06:43:39,577 Copying pystochsim.egg-info to build/bdist.linux-armv7l/wheel/pystochsim-1.1.0-py3.11.egg-info 2023-09-19T06:43:39,588 running install_scripts 2023-09-19T06:43:39,641 creating build/bdist.linux-armv7l/wheel/pystochsim-1.1.0.dist-info/WHEEL 2023-09-19T06:43:39,644 creating '/tmp/pip-wheel-z773pya1/pystochsim-1.1.0-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-09-19T06:43:39,695 adding 'pystochsim.cpython-311-arm-linux-gnueabihf.so' 2023-09-19T06:43:39,699 adding 'pystochsim-1.1.0.dist-info/LICENSE' 2023-09-19T06:43:39,701 adding 'pystochsim-1.1.0.dist-info/METADATA' 2023-09-19T06:43:39,702 adding 'pystochsim-1.1.0.dist-info/WHEEL' 2023-09-19T06:43:39,703 adding 'pystochsim-1.1.0.dist-info/top_level.txt' 2023-09-19T06:43:39,704 adding 'pystochsim-1.1.0.dist-info/RECORD' 2023-09-19T06:43:39,706 removing build/bdist.linux-armv7l/wheel 2023-09-19T06:43:39,819 Building wheel for pystochsim (setup.py): finished with status 'done' 2023-09-19T06:43:39,823 Created wheel for pystochsim: filename=pystochsim-1.1.0-cp311-cp311-linux_armv7l.whl size=107359 sha256=370fb234eacb92d55bc33a5a997a84209b7c67348cfe78011882817fc529cbb5 2023-09-19T06:43:39,825 Stored in directory: /tmp/pip-ephem-wheel-cache-lrh9lvzk/wheels/fa/47/d4/0ef0dc4b392afe3e8c70bbf97016ca2e081e34e00286e1855b 2023-09-19T06:43:39,833 Successfully built pystochsim 2023-09-19T06:43:39,839 Removed build tracker: '/tmp/pip-build-tracker-2daix0sq'