2023-09-19T06:30:28,303 Created temporary directory: /tmp/pip-build-tracker-yn4n10yz 2023-09-19T06:30:28,304 Initialized build tracking at /tmp/pip-build-tracker-yn4n10yz 2023-09-19T06:30:28,305 Created build tracker: /tmp/pip-build-tracker-yn4n10yz 2023-09-19T06:30:28,305 Entered build tracker: /tmp/pip-build-tracker-yn4n10yz 2023-09-19T06:30:28,306 Created temporary directory: /tmp/pip-wheel-c9p7bhl4 2023-09-19T06:30:28,309 Created temporary directory: /tmp/pip-ephem-wheel-cache-k4nwhfj_ 2023-09-19T06:30:28,330 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-19T06:30:28,334 2 location(s) to search for versions of pystochsim: 2023-09-19T06:30:28,334 * https://pypi.org/simple/pystochsim/ 2023-09-19T06:30:28,334 * https://www.piwheels.org/simple/pystochsim/ 2023-09-19T06:30:28,335 Fetching project page and analyzing links: https://pypi.org/simple/pystochsim/ 2023-09-19T06:30:28,336 Getting page https://pypi.org/simple/pystochsim/ 2023-09-19T06:30:28,337 Found index url https://pypi.org/simple/ 2023-09-19T06:30:28,550 Fetched page https://pypi.org/simple/pystochsim/ as application/vnd.pypi.simple.v1+json 2023-09-19T06:30:28,552 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 2023-09-19T06:30:28,553 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 2023-09-19T06:30:28,554 Fetching project page and analyzing links: https://www.piwheels.org/simple/pystochsim/ 2023-09-19T06:30:28,554 Getting page https://www.piwheels.org/simple/pystochsim/ 2023-09-19T06:30:28,555 Found index url https://www.piwheels.org/simple/ 2023-09-19T06:30:31,816 Fetched page https://www.piwheels.org/simple/pystochsim/ as text/html 2023-09-19T06:30:31,822 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) 2023-09-19T06:30:31,823 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) 2023-09-19T06:30:31,824 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) 2023-09-19T06:30:31,825 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) 2023-09-19T06:30:31,826 Skipping link: not a file: https://www.piwheels.org/simple/pystochsim/ 2023-09-19T06:30:31,827 Skipping link: not a file: https://pypi.org/simple/pystochsim/ 2023-09-19T06:30:31,857 Given no hashes to check 1 links for project 'pystochsim': discarding no candidates 2023-09-19T06:30:31,886 Collecting pystochsim==1.0.0 2023-09-19T06:30:31,889 Created temporary directory: /tmp/pip-unpack-7rzs2cy1 2023-09-19T06:30:32,339 Downloading pystochsim-1.0.0.tar.gz (1.2 MB) 2023-09-19T06:30:33,635 Added pystochsim==1.0.0 from https://files.pythonhosted.org/packages/08/4f/07ff0c61259abdba9a979cb58c1d52eb991d7ffacf6d323dc56e85cdd3d7/pystochsim-1.0.0.tar.gz to build tracker '/tmp/pip-build-tracker-yn4n10yz' 2023-09-19T06:30:33,637 Running setup.py (path:/tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/setup.py) egg_info for package pystochsim 2023-09-19T06:30:33,638 Created temporary directory: /tmp/pip-pip-egg-info-w0196vqk 2023-09-19T06:30:33,639 Preparing metadata (setup.py): started 2023-09-19T06:30:33,640 Running command python setup.py egg_info 2023-09-19T06:30:34,647 running egg_info 2023-09-19T06:30:34,649 creating /tmp/pip-pip-egg-info-w0196vqk/pystochsim.egg-info 2023-09-19T06:30:34,672 writing /tmp/pip-pip-egg-info-w0196vqk/pystochsim.egg-info/PKG-INFO 2023-09-19T06:30:34,675 writing dependency_links to /tmp/pip-pip-egg-info-w0196vqk/pystochsim.egg-info/dependency_links.txt 2023-09-19T06:30:34,677 writing top-level names to /tmp/pip-pip-egg-info-w0196vqk/pystochsim.egg-info/top_level.txt 2023-09-19T06:30:34,679 writing manifest file '/tmp/pip-pip-egg-info-w0196vqk/pystochsim.egg-info/SOURCES.txt' 2023-09-19T06:30:34,728 reading manifest file '/tmp/pip-pip-egg-info-w0196vqk/pystochsim.egg-info/SOURCES.txt' 2023-09-19T06:30:34,729 reading manifest template 'MANIFEST.in' 2023-09-19T06:30:34,841 adding license file 'LICENSE' 2023-09-19T06:30:34,857 writing manifest file '/tmp/pip-pip-egg-info-w0196vqk/pystochsim.egg-info/SOURCES.txt' 2023-09-19T06:30:34,965 Preparing metadata (setup.py): finished with status 'done' 2023-09-19T06:30:34,968 Source in /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05 has version 1.0.0, which satisfies requirement pystochsim==1.0.0 from https://files.pythonhosted.org/packages/08/4f/07ff0c61259abdba9a979cb58c1d52eb991d7ffacf6d323dc56e85cdd3d7/pystochsim-1.0.0.tar.gz 2023-09-19T06:30:34,969 Removed pystochsim==1.0.0 from https://files.pythonhosted.org/packages/08/4f/07ff0c61259abdba9a979cb58c1d52eb991d7ffacf6d323dc56e85cdd3d7/pystochsim-1.0.0.tar.gz from build tracker '/tmp/pip-build-tracker-yn4n10yz' 2023-09-19T06:30:34,974 Created temporary directory: /tmp/pip-unpack-brpb_dtm 2023-09-19T06:30:34,975 Created temporary directory: /tmp/pip-unpack-l7ii8l24 2023-09-19T06:30:34,977 Building wheels for collected packages: pystochsim 2023-09-19T06:30:34,981 Created temporary directory: /tmp/pip-wheel-blc825ft 2023-09-19T06:30:34,982 Building wheel for pystochsim (setup.py): started 2023-09-19T06:30:34,983 Destination directory: /tmp/pip-wheel-blc825ft 2023-09-19T06:30:34,984 Running command python setup.py bdist_wheel 2023-09-19T06:30:35,962 running bdist_wheel 2023-09-19T06:30:36,036 running build 2023-09-19T06:30:36,036 running build_ext 2023-09-19T06:30:36,344 -- The C compiler identification is GNU 12.2.0 2023-09-19T06:30:36,647 -- The CXX compiler identification is GNU 12.2.0 2023-09-19T06:30:36,696 -- Detecting C compiler ABI info 2023-09-19T06:30:37,090 -- Detecting C compiler ABI info - done 2023-09-19T06:30:37,138 -- Check for working C compiler: /usr/bin/cc - skipped 2023-09-19T06:30:37,139 -- Detecting C compile features 2023-09-19T06:30:37,141 -- Detecting C compile features - done 2023-09-19T06:30:37,159 -- Detecting CXX compiler ABI info 2023-09-19T06:30:37,580 -- Detecting CXX compiler ABI info - done 2023-09-19T06:30:37,623 -- Check for working CXX compiler: /usr/bin/c++ - skipped 2023-09-19T06:30:37,624 -- Detecting CXX compile features 2023-09-19T06:30:37,626 -- Detecting CXX compile features - done 2023-09-19T06:30:37,674 -- Using the multi-header code from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/extern/json/include/ 2023-09-19T06:30:37,704 -- pybind11 v2.11.0 dev1 2023-09-19T06:30:37,782 -- Found PythonInterp: /usr/bin/python3 (found suitable version "3.11.2", minimum required is "3.6") 2023-09-19T06:30:37,862 -- Found PythonLibs: /usr/lib/arm-linux-gnueabihf/libpython3.11.so 2023-09-19T06:30:37,872 -- Performing Test HAS_FLTO 2023-09-19T06:30:38,477 -- Performing Test HAS_FLTO - Success 2023-09-19T06:30:39,819 -- Found Python: /usr/bin/python3 (found version "3.11.2") found components: Interpreter 2023-09-19T06:30:39,828 -- Performing Test CMAKE_HAVE_LIBC_PTHREAD 2023-09-19T06:30:40,237 -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success 2023-09-19T06:30:40,242 -- Found Threads: TRUE 2023-09-19T06:30:40,257 -- Configuring done 2023-09-19T06:30:40,501 -- Generating done 2023-09-19T06:30:40,527 CMake Warning: 2023-09-19T06:30:40,528 Manually-specified variables were not used by the project: 2023-09-19T06:30:40,529 EXAMPLE_VERSION_INFO 2023-09-19T06:30:40,531 -- Build files have been written to: /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/build/temp.linux-armv7l-cpython-311/pystochsim 2023-09-19T06:30:40,806 [ 2%] Building CXX object source/ssm/CMakeFiles/ssm.dir/factory.cpp.o 2023-09-19T06:31:03,514 [ 5%] Building CXX object source/ssm/CMakeFiles/ssm.dir/problem.cpp.o 2023-09-19T06:31:09,005 [ 7%] Building CXX object source/ssm/CMakeFiles/ssm.dir/reaction.cpp.o 2023-09-19T06:31:11,582 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/reaction.cpp: In member function ‘void ssm::Reaction::computeGradPropensity(std::span, std::span) const’: 2023-09-19T06:31:11,583 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/reaction.cpp:131:6: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:11,584 131 | void Reaction::computeGradPropensity(std::span speciesNumber, 2023-09-19T06:31:11,584 | ^~~~~~~~ 2023-09-19T06:31:11,622 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/reaction.cpp: In member function ‘void ssm::Reaction::addContributionMuHatSigmaHatSquare(ssm::real, std::span, std::span) const’: 2023-09-19T06:31:11,623 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/reaction.cpp:152:6: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:11,624 152 | void Reaction::addContributionMuHatSigmaHatSquare(real propensity, 2023-09-19T06:31:11,624 | ^~~~~~~~ 2023-09-19T06:31:11,625 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/reaction.cpp:152:6: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:12,413 [ 10%] Building CXX object source/ssm/CMakeFiles/ssm.dir/reaction_parser.cpp.o 2023-09-19T06:31:18,064 [ 12%] Building CXX object source/ssm/CMakeFiles/ssm.dir/simulation.cpp.o 2023-09-19T06:31:21,510 [ 15%] Building CXX object source/ssm/CMakeFiles/ssm.dir/diagnostics/collect_tau.cpp.o 2023-09-19T06:31:23,846 [ 17%] Building CXX object source/ssm/CMakeFiles/ssm.dir/diagnostics/diagnostic.cpp.o 2023-09-19T06:31:26,113 [ 20%] Building CXX object source/ssm/CMakeFiles/ssm.dir/diagnostics/mean_trajectory.cpp.o 2023-09-19T06:31:29,215 [ 22%] Building CXX object source/ssm/CMakeFiles/ssm.dir/solvers/R0_leaping.cpp.o 2023-09-19T06:31:32,415 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R0_leaping.cpp: In static member function ‘static void ssm::R0Leaping::sampleNumFirings(int, std::span, std::span, std::mt19937&)’: 2023-09-19T06:31:32,416 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R0_leaping.cpp:43:6: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:32,416 43 | void R0Leaping::sampleNumFirings(int L, 2023-09-19T06:31:32,417 | ^~~~~~~~~ 2023-09-19T06:31:32,676 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R0_leaping.cpp: In member function ‘virtual void ssm::R0Leaping::advance()’: 2023-09-19T06:31:32,676 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R0_leaping.cpp:35:21: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:32,677 35 | sampleNumFirings(L_, cumPropensities_, numFirings_, gen_); 2023-09-19T06:31:32,678 | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:31:32,947 [ 25%] Building CXX object source/ssm/CMakeFiles/ssm.dir/solvers/R1_leaping.cpp.o 2023-09-19T06:31:36,868 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R1_leaping.cpp: In static member function ‘static void ssm::R1Leaping::sampleNumFirings(int, std::span, std::span, std::span, std::mt19937&)’: 2023-09-19T06:31:36,869 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R1_leaping.cpp:57:6: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:36,869 57 | void R1Leaping::sampleNumFirings(int L, 2023-09-19T06:31:36,870 | ^~~~~~~~~ 2023-09-19T06:31:36,969 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R1_leaping.cpp: In member function ‘virtual void ssm::R1Leaping::advance()’: 2023-09-19T06:31:36,970 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R1_leaping.cpp:45:21: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:36,970 45 | sampleNumFirings(L_, sortedReactionsIndices_, propensities_, numFirings_, gen_); 2023-09-19T06:31:36,971 | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:31:36,971 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R1_leaping.cpp:45:21: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:37,335 [ 27%] Building CXX object source/ssm/CMakeFiles/ssm.dir/solvers/R_leaping.cpp.o 2023-09-19T06:31:42,372 In function ‘void ssm::computeMuHatSigmaHatSq(std::span, std::span, std::span, std::span)’, 2023-09-19T06:31:42,373 inlined from ‘virtual void ssm::RLeaping::advance()’ at /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R_leaping.cpp:136:27: 2023-09-19T06:31:42,374 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R_leaping.cpp:106:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:42,375 106 | r.addContributionMuHatSigmaHatSquare(a, muHat, sigmaHatSq); 2023-09-19T06:31:42,375 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:31:42,376 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R_leaping.cpp:106:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:42,377 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R_leaping.cpp:106:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:42,378 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R_leaping.cpp: In member function ‘virtual void ssm::RLeaping::advance()’: 2023-09-19T06:31:42,378 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R_leaping.cpp:149:40: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:42,379 149 | R0Leaping::sampleNumFirings(L, cumPropensities_, numFirings_, gen_); 2023-09-19T06:31:42,380 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:31:42,380 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R_leaping.cpp:153:40: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:42,381 153 | R1Leaping::sampleNumFirings(L, sortedReactionsIndices_, 2023-09-19T06:31:42,382 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:31:42,382 154 | propensities_, numFirings_, gen_); 2023-09-19T06:31:42,383 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:31:42,384 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/R_leaping.cpp:153:40: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:42,906 [ 30%] Building CXX object source/ssm/CMakeFiles/ssm.dir/solvers/solver.cpp.o 2023-09-19T06:31:44,391 [ 32%] Building CXX object source/ssm/CMakeFiles/ssm.dir/solvers/ssa.cpp.o 2023-09-19T06:31:47,913 [ 35%] Building CXX object source/ssm/CMakeFiles/ssm.dir/solvers/tau_leaping.cpp.o 2023-09-19T06:31:54,506 [ 37%] Building CXX object source/ssm/CMakeFiles/ssm.dir/utils/algorithms.cpp.o 2023-09-19T06:31:57,831 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/utils/algorithms.cpp: In function ‘void ssm::utils::argsortDecreasingOrder(std::span, std::span)’: 2023-09-19T06:31:57,832 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/utils/algorithms.cpp:23:6: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:57,832 23 | void argsortDecreasingOrder(std::span a, std::span indices) 2023-09-19T06:31:57,833 | ^~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:31:57,944 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/utils/algorithms.cpp: In function ‘size_t ssm::utils::choose(std::span, std::mt19937&)’: 2023-09-19T06:31:57,945 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/utils/algorithms.cpp:9:8: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:31:57,945 9 | size_t choose(std::span cumulativeProbs, std::mt19937& gen) 2023-09-19T06:31:57,946 | ^~~~~~ 2023-09-19T06:31:58,097 [ 40%] Building CXX object source/ssm/CMakeFiles/ssm.dir/utils/exceptions.cpp.o 2023-09-19T06:31:59,456 [ 42%] Building CXX object source/ssm/CMakeFiles/ssm.dir/utils/strprintf.cpp.o 2023-09-19T06:32:01,046 [ 45%] Linking CXX static library libssm.a 2023-09-19T06:32:01,843 [ 45%] Built target ssm 2023-09-19T06:32:01,944 [ 47%] Building CXX object apps/CMakeFiles/run_simulation.dir/run_simulation.cpp.o 2023-09-19T06:32:18,497 In file included from /usr/include/c++/12/map:60, 2023-09-19T06:32:18,498 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/extern/json/include/nlohmann/detail/conversions/from_json.hpp:15, 2023-09-19T06:32:18,499 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/extern/json/include/nlohmann/adl_serializer.hpp:14, 2023-09-19T06:32:18,499 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/extern/json/include/nlohmann/json.hpp:35, 2023-09-19T06:32:18,500 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/factory.h:9, 2023-09-19T06:32:18,501 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/apps/run_simulation.cpp:1: 2023-09-19T06:32:18,501 /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<> > >]’: 2023-09-19T06:32:18,502 /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 2023-09-19T06:32:18,503 2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: 2023-09-19T06:32:18,503 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:32:18,618 In file included from /usr/include/c++/12/map:61: 2023-09-19T06:32:18,618 /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<> > >]’: 2023-09-19T06:32:18,619 /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 2023-09-19T06:32:18,619 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, 2023-09-19T06:32:18,620 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:32:18,620 512 | std::tuple(__k), 2023-09-19T06:32:18,621 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:32:18,621 513 | std::tuple<>()); 2023-09-19T06:32:18,622 | ~~~~~~~~~~~~~~~ 2023-09-19T06:32:18,693 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<> > >]’, 2023-09-19T06:32:18,694 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-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/extern/json/include/nlohmann/detail/input/json_sax.hpp:442:76: 2023-09-19T06:32:18,695 /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 2023-09-19T06:32:18,695 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, 2023-09-19T06:32:18,696 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:32:18,697 512 | std::tuple(__k), 2023-09-19T06:32:18,697 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:32:18,698 513 | std::tuple<>()); 2023-09-19T06:32:18,699 | ~~~~~~~~~~~~~~~ 2023-09-19T06:32:23,429 [ 50%] Linking CXX executable run_simulation 2023-09-19T06:32:24,132 [ 50%] Built target run_simulation 2023-09-19T06:32:24,231 [ 52%] Building CXX object source/bindings/CMakeFiles/pystochsim.dir/bindings.cpp.o 2023-09-19T06:32:37,211 [ 55%] Building CXX object source/bindings/CMakeFiles/pystochsim.dir/problem.cpp.o 2023-09-19T06:32:53,147 [ 57%] Building CXX object source/bindings/CMakeFiles/pystochsim.dir/run.cpp.o 2023-09-19T06:33:08,650 [ 60%] Building CXX object source/bindings/CMakeFiles/pystochsim.dir/solvers.cpp.o 2023-09-19T06:33:25,587 [ 62%] Linking CXX shared module /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/build/lib.linux-armv7l-cpython-311/pystochsim.cpython-311-arm-linux-gnueabihf.so 2023-09-19T06:33:26,880 lto-wrapper: warning: using serial compilation of 3 LTRANS jobs 2023-09-19T06:33:26,882 lto-wrapper: note: see the ‘-flto’ option documentation for more information 2023-09-19T06:33:47,203 [ 62%] Built target pystochsim 2023-09-19T06:33:47,305 [ 65%] Building CXX object tests/extern/googletest/googletest/CMakeFiles/gtest.dir/src/gtest-all.cc.o 2023-09-19T06:34:28,344 [ 67%] Linking CXX static library ../../../../lib/libgtest.a 2023-09-19T06:34:28,744 [ 67%] Built target gtest 2023-09-19T06:34:28,843 [ 70%] Building CXX object tests/extern/googletest/googletest/CMakeFiles/gtest_main.dir/src/gtest_main.cc.o 2023-09-19T06:34:33,268 [ 72%] Linking CXX static library ../../../../lib/libgtest_main.a 2023-09-19T06:34:33,604 [ 72%] Built target gtest_main 2023-09-19T06:34:33,705 [ 75%] Building CXX object tests/units/CMakeFiles/test_ssm.dir/main.cpp.o 2023-09-19T06:34:39,638 [ 77%] Building CXX object tests/units/CMakeFiles/test_ssm.dir/diagnostics.cpp.o 2023-09-19T06:34:50,905 [ 80%] Building CXX object tests/units/CMakeFiles/test_ssm.dir/exceptions.cpp.o 2023-09-19T06:34:58,417 [ 82%] Building CXX object tests/units/CMakeFiles/test_ssm.dir/factory.cpp.o 2023-09-19T06:35:18,287 In file included from /usr/include/c++/12/map:60, 2023-09-19T06:35:18,287 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/extern/json/include/nlohmann/detail/conversions/from_json.hpp:15, 2023-09-19T06:35:18,288 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/extern/json/include/nlohmann/adl_serializer.hpp:14, 2023-09-19T06:35:18,289 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/extern/json/include/nlohmann/json.hpp:35, 2023-09-19T06:35:18,290 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/factory.h:9, 2023-09-19T06:35:18,290 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/factory.cpp:1: 2023-09-19T06:35:18,291 /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<> > >]’: 2023-09-19T06:35:18,292 /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 2023-09-19T06:35:18,292 2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: 2023-09-19T06:35:18,293 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:35:18,405 In file included from /usr/include/c++/12/map:61: 2023-09-19T06:35:18,405 /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<> > >]’: 2023-09-19T06:35:18,406 /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 2023-09-19T06:35:18,406 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, 2023-09-19T06:35:18,407 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:35:18,408 512 | std::tuple(__k), 2023-09-19T06:35:18,408 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:35:18,409 513 | std::tuple<>()); 2023-09-19T06:35:18,409 | ~~~~~~~~~~~~~~~ 2023-09-19T06:35:18,478 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<> > >]’, 2023-09-19T06:35:18,479 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-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/extern/json/include/nlohmann/detail/input/json_sax.hpp:442:76: 2023-09-19T06:35:18,480 /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 2023-09-19T06:35:18,480 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, 2023-09-19T06:35:18,481 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:35:18,482 512 | std::tuple(__k), 2023-09-19T06:35:18,482 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:35:18,483 513 | std::tuple<>()); 2023-09-19T06:35:18,484 | ~~~~~~~~~~~~~~~ 2023-09-19T06:35:25,016 [ 85%] Building CXX object tests/units/CMakeFiles/test_ssm.dir/R_leaping.cpp.o 2023-09-19T06:35:33,014 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/R_leaping.cpp: In member function ‘virtual void R1_sampling_numFirings_sum_up_to_L_Test::TestBody()’: 2023-09-19T06:35:33,014 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/R_leaping.cpp:40:36: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:33,015 40 | R1Leaping::sampleNumFirings(L, sortedReactionsIndices, propensities, numFirings, gen); 2023-09-19T06:35:33,015 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:35:33,016 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/R_leaping.cpp:40:36: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:33,171 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/R_leaping.cpp: In member function ‘virtual void R0_sampling_numFirings_sum_up_to_L_Test::TestBody()’: 2023-09-19T06:35:33,171 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/R_leaping.cpp:21:36: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:33,172 21 | R0Leaping::sampleNumFirings(L, cumPropensities, numFirings, gen); 2023-09-19T06:35:33,172 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:35:33,713 [ 87%] Building CXX object tests/units/CMakeFiles/test_ssm.dir/reaction.cpp.o 2023-09-19T06:35:44,721 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp: In member function ‘virtual void reaction_grad_propensity_third_order_Test::TestBody()’: 2023-09-19T06:35:44,722 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp:181:35: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:44,722 181 | reaction.computeGradPropensity(numSpecies, gradients); 2023-09-19T06:35:44,723 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:35:44,724 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp:181:35: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:45,965 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp: In member function ‘virtual void reaction_grad_propensity_second_order_Test::TestBody()’: 2023-09-19T06:35:45,966 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp:167:35: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:45,967 167 | reaction.computeGradPropensity(numSpecies, gradients); 2023-09-19T06:35:45,967 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:35:45,968 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp:167:35: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:46,197 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp: In member function ‘virtual void reaction_grad_propensity_first_order_Test::TestBody()’: 2023-09-19T06:35:46,198 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp:151:35: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:46,199 151 | reaction.computeGradPropensity(numSpecies, gradients); 2023-09-19T06:35:46,200 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:35:46,200 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp:151:35: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:46,700 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp: In member function ‘virtual void reaction_muHat_sigmaHatSquare_Test::TestBody()’: 2023-09-19T06:35:46,701 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp:200:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:46,701 200 | r.addContributionMuHatSigmaHatSquare(propensities[0], muHat, sigmaHatSq); 2023-09-19T06:35:46,702 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:35:46,703 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp:200:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:46,704 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp:200:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:46,707 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp:218:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:46,708 218 | r.addContributionMuHatSigmaHatSquare(propensities[0], muHat, sigmaHatSq); 2023-09-19T06:35:46,708 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-19T06:35:46,709 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp:218:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:46,710 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/reaction.cpp:218:45: note: parameter passing for argument of type ‘std::span’ changed in GCC 7.1 2023-09-19T06:35:51,396 [ 90%] Building CXX object tests/units/CMakeFiles/test_ssm.dir/reaction_parser.cpp.o 2023-09-19T06:36:06,714 [ 92%] Building CXX object tests/units/CMakeFiles/test_ssm.dir/ssa.cpp.o 2023-09-19T06:36:14,419 In file included from /usr/include/c++/12/vector:64, 2023-09-19T06:36:14,420 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/reaction.h:7, 2023-09-19T06:36:14,421 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/solver.h:3, 2023-09-19T06:36:14,421 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/source/ssm/solvers/ssa.h:3, 2023-09-19T06:36:14,422 from /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/ssa.cpp:1: 2023-09-19T06:36:14,423 /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 = ssm::Reaction; _Alloc = std::allocator]’: 2023-09-19T06:36:14,424 /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 2023-09-19T06:36:14,424 673 | vector(initializer_list __l, 2023-09-19T06:36:14,425 | ^~~~~~ 2023-09-19T06:36:14,744 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/ssa.cpp: In member function ‘virtual void ssa_decay_Test::TestBody()’: 2023-09-19T06:36:14,745 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/ssa.cpp:16:17: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 2023-09-19T06:36:14,746 16 | {n0}); 2023-09-19T06:36:14,747 | ^ 2023-09-19T06:36:15,160 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/ssa.cpp: In member function ‘virtual void ssa_equilibrium_Test::TestBody()’: 2023-09-19T06:36:15,161 /tmp/pip-wheel-c9p7bhl4/pystochsim_01ee6a8a01f44ada9601c6dd282dae05/tests/units/ssa.cpp:47:20: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 2023-09-19T06:36:15,162 47 | {n0, 0}); 2023-09-19T06:36:15,162 | ^ 2023-09-19T06:36:16,122 [ 95%] Building CXX object tests/units/CMakeFiles/test_ssm.dir/tau_leaping.cpp.o 2023-09-19T06:36:26,093 [ 97%] Building CXX object tests/units/CMakeFiles/test_ssm.dir/utils.cpp.o 2023-09-19T06:36:34,732 [100%] Linking CXX executable test_ssm 2023-09-19T06:36:35,863 [100%] Built target test_ssm 2023-09-19T06:36:36,175 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2023-09-19T06:36:36,175 !! 2023-09-19T06:36:36,176 ******************************************************************************** 2023-09-19T06:36:36,177 Please avoid running ``setup.py`` directly. 2023-09-19T06:36:36,177 Instead, use pypa/build, pypa/installer or other 2023-09-19T06:36:36,177 standards-based tools. 2023-09-19T06:36:36,178 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2023-09-19T06:36:36,179 ******************************************************************************** 2023-09-19T06:36:36,180 !! 2023-09-19T06:36:36,180 self.initialize_options() 2023-09-19T06:36:36,212 installing to build/bdist.linux-armv7l/wheel 2023-09-19T06:36:36,213 running install 2023-09-19T06:36:36,253 running install_lib 2023-09-19T06:36:36,290 creating build/bdist.linux-armv7l 2023-09-19T06:36:36,290 creating build/bdist.linux-armv7l/wheel 2023-09-19T06:36:36,292 copying build/lib.linux-armv7l-cpython-311/pystochsim.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel 2023-09-19T06:36:36,304 running install_egg_info 2023-09-19T06:36:36,583 running egg_info 2023-09-19T06:36:36,606 writing pystochsim.egg-info/PKG-INFO 2023-09-19T06:36:36,608 writing dependency_links to pystochsim.egg-info/dependency_links.txt 2023-09-19T06:36:36,610 writing top-level names to pystochsim.egg-info/top_level.txt 2023-09-19T06:36:36,636 reading manifest file 'pystochsim.egg-info/SOURCES.txt' 2023-09-19T06:36:36,704 reading manifest template 'MANIFEST.in' 2023-09-19T06:36:37,074 adding license file 'LICENSE' 2023-09-19T06:36:37,111 writing manifest file 'pystochsim.egg-info/SOURCES.txt' 2023-09-19T06:36:37,114 Copying pystochsim.egg-info to build/bdist.linux-armv7l/wheel/pystochsim-1.0.0-py3.11.egg-info 2023-09-19T06:36:37,127 running install_scripts 2023-09-19T06:36:37,179 creating build/bdist.linux-armv7l/wheel/pystochsim-1.0.0.dist-info/WHEEL 2023-09-19T06:36:37,182 creating '/tmp/pip-wheel-blc825ft/pystochsim-1.0.0-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-09-19T06:36:37,234 adding 'pystochsim.cpython-311-arm-linux-gnueabihf.so' 2023-09-19T06:36:37,238 adding 'pystochsim-1.0.0.dist-info/LICENSE' 2023-09-19T06:36:37,239 adding 'pystochsim-1.0.0.dist-info/METADATA' 2023-09-19T06:36:37,241 adding 'pystochsim-1.0.0.dist-info/WHEEL' 2023-09-19T06:36:37,242 adding 'pystochsim-1.0.0.dist-info/top_level.txt' 2023-09-19T06:36:37,243 adding 'pystochsim-1.0.0.dist-info/RECORD' 2023-09-19T06:36:37,246 removing build/bdist.linux-armv7l/wheel 2023-09-19T06:36:37,359 Building wheel for pystochsim (setup.py): finished with status 'done' 2023-09-19T06:36:37,364 Created wheel for pystochsim: filename=pystochsim-1.0.0-cp311-cp311-linux_armv7l.whl size=107209 sha256=757fd665e29c2960f43b5ebb53927dd9c7656b6a8b93500064e2077982df15ec 2023-09-19T06:36:37,365 Stored in directory: /tmp/pip-ephem-wheel-cache-k4nwhfj_/wheels/92/b3/6c/8c3cf233bae52b3f15076b026451b5c4e692a4bc631a5c88a2 2023-09-19T06:36:37,375 Successfully built pystochsim 2023-09-19T06:36:37,382 Removed build tracker: '/tmp/pip-build-tracker-yn4n10yz'