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Test CI for Python 3.13 #9026

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Test CI for Python 3.13

Test CI for Python 3.13 #9026

Triggered via pull request October 4, 2024 11:19
@JCGoranJCGoran
synchronize #3103
jelic/test_313
Status Failure
Total duration 39m 50s
Artifacts –

neuron-ci.yml

on: pull_request
Matrix: ci
Final CI
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Final CI
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4 errors and 64 warnings
ubuntu-20.04 - cmake (CC=gcc-10 CXX=g++-10)
Process completed with exit code 77.
ubuntu-24.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_MPI=OFF -DCORENRN_ENABLE_OPENMP=OFF -DNRN_ENABLE_RX3D=OFFthread)
Process completed with exit code 8.
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
Process completed with exit code 8.
Final CI
Process completed with exit code 1.
macOS-13 - cmake (-DNRN_ENABLE_PYTHON=OFF -DNRN_ENABLE_RX3D=OFF -DNRN_ENABLE_CORENEURON=ONCC=gcc-10 CXX=g++-10)
Treating doxygen as a formula. For the cask, use homebrew/cask/doxygen or specify the `--cask` flag. To silence this message, use the `--formula` flag.
macOS-13 - cmake (-DNRN_ENABLE_PYTHON=OFF -DNRN_ENABLE_RX3D=OFF -DNRN_ENABLE_CORENEURON=ONCC=gcc-10 CXX=g++-10)
xz 5.6.2 is already installed and up-to-date. To reinstall 5.6.2, run: brew reinstall xz
macOS-13 - cmake (-DNRN_ENABLE_PYTHON=OFF -DNRN_ENABLE_RX3D=OFF -DNRN_ENABLE_CORENEURON=ONCC=gcc-10 CXX=g++-10)
autoconf 2.72 is already installed and up-to-date. To reinstall 2.72, run: brew reinstall autoconf
macOS-13 - cmake (-DNRN_ENABLE_PYTHON=OFF -DNRN_ENABLE_RX3D=OFF -DNRN_ENABLE_CORENEURON=ONCC=gcc-10 CXX=g++-10)
libtool 2.5.3 is already installed and up-to-date. To reinstall 2.5.3, run: brew reinstall libtool
macOS-13 - cmake (-DNRN_ENABLE_PYTHON=OFF -DNRN_ENABLE_RX3D=OFF -DNRN_ENABLE_CORENEURON=ONCC=gcc-10 CXX=g++-10)
macOS's Gatekeeper has been disabled for this Cask
macOS-13 - cmake (-DNRN_ENABLE_CORENEURON=ONCC=gcc-9 CXX=g++-9)
Treating doxygen as a formula. For the cask, use homebrew/cask/doxygen or specify the `--cask` flag. To silence this message, use the `--formula` flag.
macOS-13 - cmake (-DNRN_ENABLE_CORENEURON=ONCC=gcc-9 CXX=g++-9)
xz 5.6.2 is already installed and up-to-date. To reinstall 5.6.2, run: brew reinstall xz
macOS-13 - cmake (-DNRN_ENABLE_CORENEURON=ONCC=gcc-9 CXX=g++-9)
autoconf 2.72 is already installed and up-to-date. To reinstall 2.72, run: brew reinstall autoconf
macOS-13 - cmake (-DNRN_ENABLE_CORENEURON=ONCC=gcc-9 CXX=g++-9)
libtool 2.5.3 is already installed and up-to-date. To reinstall 2.5.3, run: brew reinstall libtool
macOS-13 - cmake (-DNRN_ENABLE_CORENEURON=ONCC=gcc-9 CXX=g++-9)
macOS's Gatekeeper has been disabled for this Cask
macOS-13 - setuptools (CC=gcc-9 CXX=g++-9)
Treating doxygen as a formula. For the cask, use homebrew/cask/doxygen or specify the `--cask` flag. To silence this message, use the `--formula` flag.
macOS-13 - setuptools (CC=gcc-9 CXX=g++-9)
xz 5.6.2 is already installed and up-to-date. To reinstall 5.6.2, run: brew reinstall xz
macOS-13 - setuptools (CC=gcc-9 CXX=g++-9)
autoconf 2.72 is already installed and up-to-date. To reinstall 2.72, run: brew reinstall autoconf
macOS-13 - setuptools (CC=gcc-9 CXX=g++-9)
libtool 2.5.3 is already installed and up-to-date. To reinstall 2.5.3, run: brew reinstall libtool
macOS-13 - setuptools (CC=gcc-9 CXX=g++-9)
macOS's Gatekeeper has been disabled for this Cask
ubuntu-22.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNMODL_SANITIZERS=undefinedundefined): src/nrnpython/nrnpython.cpp#L199
'Py_NoSiteFlag' is deprecated [-Wdeprecated-declarations]
ubuntu-22.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNMODL_SANITIZERS=undefinedundefined): src/nrnpython/nrnpy_nrn.cpp#L181
'PyWeakref_GetObject' is deprecated [-Wdeprecated-declarations]
ubuntu-22.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNMODL_SANITIZERS=undefinedundefined): src/nrnpython/nrnpy_nrn.cpp#L219
'PyWeakref_GetObject' is deprecated [-Wdeprecated-declarations]
ubuntu-22.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNMODL_SANITIZERS=undefinedundefined): src/nrnpython/nrnpy_nrn.cpp#L1205
'PyWeakref_GetObject' is deprecated [-Wdeprecated-declarations]
macOS-13 - cmake (CC=gcc-10 CXX=g++-10)
Treating doxygen as a formula. For the cask, use homebrew/cask/doxygen or specify the `--cask` flag. To silence this message, use the `--formula` flag.
macOS-13 - cmake (CC=gcc-10 CXX=g++-10)
xz 5.6.2 is already installed and up-to-date. To reinstall 5.6.2, run: brew reinstall xz
macOS-13 - cmake (CC=gcc-10 CXX=g++-10)
autoconf 2.72 is already installed and up-to-date. To reinstall 2.72, run: brew reinstall autoconf
macOS-13 - cmake (CC=gcc-10 CXX=g++-10)
libtool 2.5.3 is already installed and up-to-date. To reinstall 2.5.3, run: brew reinstall libtool
macOS-13 - cmake (CC=gcc-10 CXX=g++-10)
macOS's Gatekeeper has been disabled for this Cask
macOS-13 - cmake (CC=gcc-10 CXX=g++-10)
Treating doxygen as a formula. For the cask, use homebrew/cask/doxygen or specify the `--cask` flag. To silence this message, use the `--formula` flag.
macOS-13 - cmake (CC=gcc-10 CXX=g++-10)
xz 5.6.2 is already installed and up-to-date. To reinstall 5.6.2, run: brew reinstall xz
macOS-13 - cmake (CC=gcc-10 CXX=g++-10)
autoconf 2.72 is already installed and up-to-date. To reinstall 2.72, run: brew reinstall autoconf
macOS-13 - cmake (CC=gcc-10 CXX=g++-10)
libtool 2.5.3 is already installed and up-to-date. To reinstall 2.5.3, run: brew reinstall libtool
macOS-13 - cmake (CC=gcc-10 CXX=g++-10)
macOS's Gatekeeper has been disabled for this Cask
macOS-13 - cmake (-DNRN_ENABLE_MPI=OFF -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_CORENEURON=ONCC=gcc-9 CXX=g++-9)
Treating doxygen as a formula. For the cask, use homebrew/cask/doxygen or specify the `--cask` flag. To silence this message, use the `--formula` flag.
macOS-13 - cmake (-DNRN_ENABLE_MPI=OFF -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_CORENEURON=ONCC=gcc-9 CXX=g++-9)
xz 5.6.2 is already installed and up-to-date. To reinstall 5.6.2, run: brew reinstall xz
macOS-13 - cmake (-DNRN_ENABLE_MPI=OFF -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_CORENEURON=ONCC=gcc-9 CXX=g++-9)
autoconf 2.72 is already installed and up-to-date. To reinstall 2.72, run: brew reinstall autoconf
macOS-13 - cmake (-DNRN_ENABLE_MPI=OFF -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_CORENEURON=ONCC=gcc-9 CXX=g++-9)
libtool 2.5.3 is already installed and up-to-date. To reinstall 2.5.3, run: brew reinstall libtool
macOS-13 - cmake (-DNRN_ENABLE_MPI=OFF -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_CORENEURON=ONCC=gcc-9 CXX=g++-9)
macOS's Gatekeeper has been disabled for this Cask
ubuntu-24.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_MPI=OFF -DCORENRN_ENABLE_OPENMP=OFF -DNRN_ENABLE_RX3D=OFFthread)
thread leak (pid=13926)
ubuntu-24.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_MPI=OFF -DCORENRN_ENABLE_OPENMP=OFF -DNRN_ENABLE_RX3D=OFFthread)
thread leak Python/thread_pthread.h:290 in do_start_joinable_thread
ubuntu-24.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_MPI=OFF -DCORENRN_ENABLE_OPENMP=OFF -DNRN_ENABLE_RX3D=OFFthread)
thread leak (pid=13935)
ubuntu-24.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_MPI=OFF -DCORENRN_ENABLE_OPENMP=OFF -DNRN_ENABLE_RX3D=OFFthread)
thread leak Python/thread_pthread.h:290 in do_start_joinable_thread
ubuntu-24.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_MPI=OFF -DCORENRN_ENABLE_OPENMP=OFF -DNRN_ENABLE_RX3D=OFFthread)
thread leak (pid=13948)
ubuntu-24.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_MPI=OFF -DCORENRN_ENABLE_OPENMP=OFF -DNRN_ENABLE_RX3D=OFFthread)
thread leak Python/thread_pthread.h:290 in do_start_joinable_thread
ubuntu-24.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_MPI=OFF -DCORENRN_ENABLE_OPENMP=OFF -DNRN_ENABLE_RX3D=OFFthread)
thread leak (pid=13969)
ubuntu-24.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_MPI=OFF -DCORENRN_ENABLE_OPENMP=OFF -DNRN_ENABLE_RX3D=OFFthread)
thread leak Python/thread_pthread.h:290 in do_start_joinable_thread
ubuntu-24.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_MPI=OFF -DCORENRN_ENABLE_OPENMP=OFF -DNRN_ENABLE_RX3D=OFFthread)
thread leak (pid=13755)
ubuntu-24.04 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_MPI=OFF -DCORENRN_ENABLE_OPENMP=OFF -DNRN_ENABLE_RX3D=OFFthread)
thread leak Python/thread_pthread.h:290 in do_start_joinable_thread
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
thread leak (pid=25386)
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
thread leak (Python:arm64+0x2eb664) in do_start_joinable_thread+0xc0
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
thread leak (pid=25513)
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
thread leak (Python:arm64+0x2eb664) in do_start_joinable_thread+0xc0
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
thread leak (pid=25595)
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
thread leak (Python:arm64+0x2eb664) in do_start_joinable_thread+0xc0
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
thread leak (pid=25511)
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
thread leak (Python:arm64+0x2eb664) in do_start_joinable_thread+0xc0
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
thread leak (pid=25323)
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
thread leak (Python:arm64+0x2eb664) in do_start_joinable_thread+0xc0
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
Treating doxygen as a formula. For the cask, use homebrew/cask/doxygen or specify the `--cask` flag. To silence this message, use the `--formula` flag.
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
xz 5.6.2 is already installed and up-to-date. To reinstall 5.6.2, run: brew reinstall xz
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
macOS's Gatekeeper has been disabled for this Cask
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
Treating cmake as a formula. For the cask, use homebrew/cask/cmake or specify the `--cask` flag. To silence this message, use the `--formula` flag.
macOS-14 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressthread)
cmake 3.30.3 is already installed and up-to-date. To reinstall 3.30.3, run: brew reinstall cmake
macOS-13 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressaddress)
Treating doxygen as a formula. For the cask, use homebrew/cask/doxygen or specify the `--cask` flag. To silence this message, use the `--formula` flag.
macOS-13 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressaddress)
xz 5.6.2 is already installed and up-to-date. To reinstall 5.6.2, run: brew reinstall xz
macOS-13 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressaddress)
autoconf 2.72 is already installed and up-to-date. To reinstall 2.72, run: brew reinstall autoconf
macOS-13 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressaddress)
libtool 2.5.3 is already installed and up-to-date. To reinstall 2.5.3, run: brew reinstall libtool
macOS-13 - cmake (-DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DNMODL_SANITIZERS=addressaddress)
macOS's Gatekeeper has been disabled for this Cask