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On linuxmint-17-minimal
(https://github.com/sagemath/sage/runs/3593003595)
gcc -pthread -shared -Wl,-rpath-link,/sage/local/lib -L/sage/local/lib -Wl,-rpath,/sage/local/lib -L. -Wl,-rpath-link,/sage/local/lib -L/sage/local/lib -Wl,-rpath,/sage/local/lib -shared -Wl,-rpath-link,/sage/local/lib -L/sage/local/lib -Wl,-rpath,/sage/local/lib build/temp.linux-x86_64-3.9/scipy/cluster/_optimal_leaf_ordering.o -L/sage/local/lib -Lbuild/temp.linux-x86_64-3.9 -o build/lib.linux-x86_64-3.9/scipy/cluster/_optimal_leaf_ordering.cpython-39-x86_64-linux-gnu.so -Wl,--version-script=build/temp.linux-x86_64-3.9/link-version-scipy.cluster._optimal_leaf_ordering.map
C compiler: g++ -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -O2 -g -fPIC
creating /tmp/tmpif5aglmi/tmp
creating /tmp/tmpif5aglmi/tmp/tmpif5aglmi
compile options: '-I/sage/local/include/python3.9 -c'
extra options: '-std=c++14'
g++: /tmp/tmpif5aglmi/main.cpp
g++: error: unrecognized command line option '-std=c++14'
C compiler: g++ -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -O2 -g -fPIC
creating /tmp/tmpjrgp9vmy/tmp
creating /tmp/tmpjrgp9vmy/tmp/tmpjrgp9vmy
compile options: '-I/sage/local/include/python3.9 -c'
extra options: '-std=c++11'
g++: /tmp/tmpjrgp9vmy/main.cpp
C compiler: g++ -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -O2 -g -fPIC
creating /tmp/tmpik_q_vbd/tmp
creating /tmp/tmpik_q_vbd/tmp/tmpik_q_vbd
compile options: '-I/sage/local/include/python3.9 -c'
g++: /tmp/tmpik_q_vbd/main.c
C compiler: g++ -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -O2 -g -fPIC
creating /tmp/tmpv4ojh26z/tmp
creating /tmp/tmpv4ojh26z/tmp/tmpv4ojh26z
compile options: '-I/sage/local/include/python3.9 -c'
extra options: '-pthread'
g++: /tmp/tmpv4ojh26z/main.c
C compiler: g++ -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -O2 -g -fPIC
creating build/temp.linux-x86_64-3.9/scipy/fft
creating build/temp.linux-x86_64-3.9/scipy/fft/_pocketfft
compile options: '-DPOCKETFFT_PTHREADS -I/sage/local/lib/python3.9/site-packages/pybind11/include -I/sage/local/lib/python3.9/site-packages/pybind11/include -I/sage/local/lib/python3.9/site-packages/numpy/core/include -Ibuild/src.linux-x86_64-3.9/numpy/distutils/include -I/sage/local/include/python3.9 -c'
extra options: '-std=c++11 -pthread -fvisibility=hidden -msse -msse2 -msse3'
g++: scipy/fft/_pocketfft/pypocketfft.cxx
In file included from scipy/fft/_pocketfft/pypocketfft.cxx:16:0:
/sage/local/lib/python3.9/site-packages/pybind11/include/pybind11/numpy.h:328:5: error: 'is_trivially_copyable' is not a member of 'std'
std::is_trivially_copyable<T>,
^
/sage/local/lib/python3.9/site-packages/pybind11/include/pybind11/numpy.h:328:5: error: 'is_trivially_copyable' is not a member of 'std'
/sage/local/lib/python3.9/site-packages/pybind11/include/pybind11/numpy.h:328:33: error: template argument 2 is invalid
std::is_trivially_copyable<T>,
^
/sage/local/lib/python3.9/site-packages/pybind11/include/pybind11/numpy.h:968:49: error: 'is_pod_struct' is not a member of 'pybind11::detail'
struct format_descriptor<T, detail::enable_if_t<detail::is_pod_struct<T>::value>> {
^
/sage/local/lib/python3.9/site-packages/pybind11/include/pybind11/numpy.h:968:49: error: 'is_pod_struct' is not a member of 'pybind11::detail'
/sage/local/lib/python3.9/site-packages/pybind11/include/pybind11/numpy.h:968:72: error: template argument 1 is invalid
struct format_descriptor<T, detail::enable_if_t<detail::is_pod_struct<T>::value>> {
^
/sage/local/lib/python3.9/site-packages/pybind11/include/pybind11/numpy.h:968:75: error: template argument 2 is invalid
struct format_descriptor<T, detail::enable_if_t<detail::is_pod_struct<T>::value>> {
^
/sage/local/lib/python3.9/site-packages/pybind11/include/pybind11/numpy.h:968:80: error: expected unqualified-id before '>' token
struct format_descriptor<T, detail::enable_if_t<detail::is_pod_struct<T>::value>> {
error: Command "g++ -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -O2 -g -fPIC -DPOCKETFFT_PTHREADS -I/sage/local/lib/python3.9/site-packages/pybind11/include -I/sage/local/lib/python3.9/site-packages/pybind11/include -I/sage/local/lib/python3.9/site-packages/numpy/core/include -Ibuild/src.linux-x86_64-3.9/numpy/distutils/include -I/sage/local/include/python3.9 -c scipy/fft/_pocketfft/pypocketfft.cxx -o build/temp.linux-x86_64-3.9/scipy/fft/_pocketfft/pypocketfft.o -MMD -MF build/temp.linux-x86_64-3.9/scipy/fft/_pocketfft/pypocketfft.o.d -std=c++11 -pthread -fvisibility=hidden -msse -msse2 -msse3" failed with exit status 1
Likely caused by the pybind11
update (from 2.6.0 to 2.7.1; https://pybind11.readthedocs.io/en/stable/changelog.html) done as part of the Jupyter upgrade in #31280.
Broken:
linuxmint-17
(gcc 4.8.4-2ubuntu1~14.04.3,__GLIBCXX__ = 20150426
),ubuntu-trusty
(4.8.4-2ubuntu1~14.04.4,__GLIBCXX__ = 20150426
)
OK:
centos-7
4.8.5 20150623 (Red Hat 4.8.5-44,__GLIBCXX__ = 20150623
)debian-jessie
(gcc 4.9.2-10+deb8u2),linuxmint-18
(gcc 5.4.0-6ubuntu1~16.04.6),fedora-26
(7.3.1 20180130 (Red Hat 7.3.1-2))
Opened pybind11
upstream issue: pybind/pybind11#3269, PR pybind/pybind11#3270 (merged in the 2.7 maintenance branch)
CC: @dimpase @orlitzky @jhpalmieri @kliem
Component: packages: standard
Author: Matthias Koeppe
Branch/Commit: d0e1e95
Reviewer: Jonathan Kliem
Issue created by migration from https://trac.sagemath.org/ticket/32515