Bug#925820: sagemath: ftbfs with GCC-9

[Matthias Klose]

Package: src:sagemath
Version: 8.6-6
Severity: normal
Tags: sid bullseye
User: debian-gcc at lists.debian.org
Usertags: ftbfs-gcc-9

Please keep this issue open in the bug tracker for the package it
was filed for.  If a fix in another package is required, please
file a bug for the other package (or clone), and add a block in this
package. Please keep the issue open until the package can be built in
a follow-up test rebuild.

The package fails to build in a test rebuild on at least amd64 with
gcc-9/g++-9, but succeeds to build with gcc-8/g++-8. The
severity of this report will be raised before the bullseye release,
so nothing has to be done for the buster release.

The full build log can be found at:
http://people.debian.org/~doko/logs/gcc9-20190321/sagemath_8.6-6_unstable_gcc9.log
The last lines of the build log are at the end of this report.

To build with GCC 9, either set CC=gcc-9 CXX=g++-9 explicitly,
or install the gcc, g++, gfortran, ... packages from experimental.

  apt-get -t=experimental install g++ 

Common build failures are new warnings resulting in build failures with
-Werror turned on, or new/dropped symbols in Debian symbols files.
For other C/C++ related build failures see the porting guide at
http://gcc.gnu.org/gcc-9/porting_to.html

GCC 9 also passes the linker option --as-needed by default; typical
build issues are passing libraries before object files to the linker,
or underlinking of convenience libraries built from the same source.

[...]
Error while executing Python code.
Saved trace to /<<PKGBUILDDIR>>/debian/test/crash_logs/crash_jfpzc0q7.log
------------------------------------------------------------------------
Unhandled SIGABRT: An abort() occurred.
This probably occurred because a *compiled* module has a bug
in it and is not properly wrapped with sig_on(), sig_off().
Python will now terminate.
------------------------------------------------------------------------

**********************************************************************
sage -t --long --warn-long 57.0 src/sage/graphs/generators/families.py
**********************************************************************
File "src/sage/graphs/generators/families.py", line 3179, in sage.graphs.generators.families.MathonPseudocyclicStronglyRegularGraph
Failed example:
    L = sum(i*(r[a]-r[b]) for i,(a,b) in zip(range(1,len(ff)+1), ff)); L
Expected:
    [ 0  1 -1 -3 -2 -4  3  4  2]
    [-1  0  1 -4 -3 -2  2  3  4]
    [ 1 -1  0 -2 -4 -3  4  2  3]
    [ 3  4  2  0  1 -1 -3 -2 -4]
    [ 2  3  4 -1  0  1 -4 -3 -2]
    [ 4  2  3  1 -1  0 -2 -4 -3]
    [-3 -2 -4  3  4  2  0  1 -1]
    [-4 -3 -2  2  3  4 -1  0  1]
    [-2 -4 -3  4  2  3  1 -1  0]
Got:
    [ 0 -1  1 -2 -3 -4  2  4  3]
    [ 1  0 -1 -4 -2 -3  3  2  4]
    [-1  1  0 -3 -4 -2  4  3  2]
    [ 2  4  3  0 -1  1 -2 -3 -4]
    [ 3  2  4  1  0 -1 -4 -2 -3]
    [ 4  3  2 -1  1  0 -3 -4 -2]
    [-2 -3 -4  2  4  3  0 -1  1]
    [-4 -2 -3  3  2  4  1  0 -1]
    [-3 -4 -2  4  3  2 -1  1  0]
**********************************************************************
1 item had failures:
   1 of  17 in sage.graphs.generators.families.MathonPseudocyclicStronglyRegularGraph
    [363 tests, 1 failure, 17.60 s]
----------------------------------------------------------------------
sage -t --long --warn-long 57.0 src/sage/repl/interpreter.py  # 1 doctest failed
sage -t --long --warn-long 57.0 src/sage/repl/ipython_kernel/install.py  # 2 doctests failed
sage -t --long --warn-long 57.0 src/sage/crypto/mq/sr.py  # Killed due to abort
sage -t --long --warn-long 57.0 src/sage/sat/boolean_polynomials.py  # Killed due to abort
sage -t --long --warn-long 57.0 src/sage/sat/solvers/dimacs.py  # Killed due to abort
sage -t --long --warn-long 57.0 src/sage/dynamics/complex_dynamics/mandel_julia.py  # 3 doctests failed
sage -t --long --warn-long 57.0 src/sage/misc/cython.py  # 3 doctests failed
sage -t --long --warn-long 57.0 src/sage/cpython/debug.pyx  # 1 doctest failed
sage -t --long --warn-long 57.0 src/sage/interfaces/giac.py  # 1 doctest failed
sage -t --long --warn-long 57.0 src/sage/interfaces/sympy.py  # 1 doctest failed
sage -t --long --warn-long 57.0 src/sage/combinat/cluster_algebra_quiver/interact.py  # 1 doctest failed
sage -t --long --warn-long 57.0 src/sage/combinat/cluster_algebra_quiver/cluster_seed.py  # 1 doctest failed
sage -t --long --warn-long 57.0 src/sage/combinat/cluster_algebra_quiver/quiver.py  # 1 doctest failed
sage -t --long --warn-long 57.0 src/sage/rings/polynomial/multi_polynomial_sequence.py  # Killed due to abort
sage -t --long --warn-long 57.0 src/sage/rings/polynomial/polynomial_ring_constructor.py  # Killed due to abort
sage -t --long --warn-long 57.0 src/sage/rings/polynomial/pbori.pyx  # Killed due to abort
sage -t --long --warn-long 57.0 src/sage/graphs/generators/families.py  # 1 doctest failed
----------------------------------------------------------------------
Total time for all tests: 82.4 seconds
    cpu time: 39.3 seconds
    cumulative wall time: 47.1 seconds
make[2]: Entering directory '/<<PKGBUILDDIR>>'
Success: 17 tests failed, up to 50 failures are tolerated
Error: critical test failures (e.g. timeout, segfault, etc.)
make[2]: *** [debian/rules:253: had-few-failures] Error 1
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
make[1]: *** [debian/rules:289: override_dh_auto_test-arch] Error 2
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:73: binary-arch] Error 2
dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2