#13779: Crash in graph_generators with MALLOC_CHECK_=3
-----------------------------+----------------------------------------------
Reporter: SimonKing | Owner: jason, ncohen, rlm
Type: PLEASE CHANGE | Status: new
Priority: critical | Milestone: sage-5.6
Component: graph theory | Keywords: MALLOC_CHECK
graph_generators crash
Work issues: | Report Upstream: N/A
Reviewers: | Authors:
Merged in: | Dependencies:
Stopgaps: |
-----------------------------+----------------------------------------------
When one exports `MALLOC_CHECK_=3`, then the following crash occurs on
`openSuse, both with sage-5.2.rc0 and with sage-5.5.rc0:
{{{
simon@linux-sqwp:~/SAGE/prerelease/sage-5.2.rc0> ./sage -t -force_lib
"devel/sage/sage/graphs/graph_generators.py"
sage -t -force_lib "devel/sage/sage/graphs/graph_generators.py"
*** glibc detected *** python: free(): invalid pointer: 0x0000000002f47fc0
***
======= Backtrace: =========
/lib64/libc.so.6(+0x766d6)[0x7f40d98926d6]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python/site-
packages/sage/graphs/trees.so(+0x2f0d)[0x7f40ab341f0d]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(+0xa3653)[0x7f40da4ca653]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x3fe9)[0x7f40da516919]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x855)[0x7f40da519925]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalCode+0x32)[0x7f40da519a62]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x515f)[0x7f40da517a8f]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x855)[0x7f40da519925]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(+0x7582c)[0x7f40da49c82c]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyObject_Call+0x53)[0x7f40da474ab3]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(+0x5b1ff)[0x7f40da4821ff]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyObject_Call+0x53)[0x7f40da474ab3]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x3fcd)[0x7f40da5168fd]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x855)[0x7f40da519925]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x5420)[0x7f40da517d50]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x855)[0x7f40da519925]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(+0x7582c)[0x7f40da49c82c]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyObject_Call+0x53)[0x7f40da474ab3]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(+0x5b1ff)[0x7f40da4821ff]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyObject_Call+0x53)[0x7f40da474ab3]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x3fcd)[0x7f40da5168fd]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x855)[0x7f40da519925]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x5420)[0x7f40da517d50]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x855)[0x7f40da519925]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(+0x75923)[0x7f40da49c923]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyObject_Call+0x53)[0x7f40da474ab3]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(+0x5b1ff)[0x7f40da4821ff]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyObject_Call+0x53)[0x7f40da474ab3]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x3fcd)[0x7f40da5168fd]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x855)[0x7f40da519925]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x5420)[0x7f40da517d50]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x855)[0x7f40da519925]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x5420)[0x7f40da517d50]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x855)[0x7f40da519925]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x5420)[0x7f40da517d50]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x855)[0x7f40da519925]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyEval_EvalCode+0x32)[0x7f40da519a62]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyRun_FileExFlags+0xb0)[0x7f40da53bf50]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(PyRun_SimpleFileExFlags+0xdf)[0x7f40da53c9ef]
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libpython2.7.so.1.0(Py_Main+0xbd5)[0x7f40da54fc95]
/lib64/libc.so.6(__libc_start_main+0xed)[0x7f40d983d23d]
python[0x4006e1]
======= Memory map: ========
00400000-00401000 r-xp 00000000 08:07 789234
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/bin/python2.7
00600000-00601000 r--p 00000000 08:07 789234
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/bin/python2.7
00601000-00602000 rw-p 00001000 08:07 789234
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/bin/python2.7
00602000-0441c000 rw-p 00000000 00:00 0
[heap]
7f40a3274000-7f40a3275000 rw-p 00000000 00:00 0
7f40a3275000-7f40a333b000 r-xp 00000000 08:07 788881
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libglpk.so.0.29.0
7f40a333b000-7f40a353a000 ---p 000c6000 08:07 788881
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libglpk.so.0.29.0
7f40a353a000-7f40a353b000 r--p 000c5000 08:07 788881
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libglpk.so.0.29.0
7f40a353b000-7f40a353c000 rw-p 000c6000 08:07 788881
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/libglpk.so.0.29.0
7f40a353c000-7f40a3569000 r-xp 00000000 08:07 1576851
/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/numerical/backends/glpk_backend.so
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/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/numerical/backends/glpk_backend.so
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main/build/sage/numerical/backends/glpk_backend.so
7f40a3778000-7f40a3779000 rw-p 00000000 00:00 0
7f40a3779000-7f40a378a000 r--p 00000000 08:07 655538
/home/simon/SAGE/debug/sage-5.5.rc0/local/lib/python2.7/site-
packages/matplotlib/mpl-data/fonts/ttf/Vera.ttf
7f40a378a000-7f40a380d000 rw-p 00000000 00:00 0
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/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
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packages/matplotlib/backends/_backend_agg.so
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/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
packages/matplotlib/backends/_backend_agg.so
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packages/matplotlib/backends/_backend_agg.so
7f40a3c75000-7f40a3cf7000 rw-p 00000000 00:00 0
7f40a3cf7000-7f40a3d31000 r-xp 00000000 08:07 1325033
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
packages/matplotlib/_tri.so
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packages/matplotlib/_tri.so
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/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
packages/matplotlib/_tri.so
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/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
packages/matplotlib/_tri.so
7f40a3f34000-7f40a3f44000 r-xp 00000000 08:07 1325016
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packages/matplotlib/_delaunay.so
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packages/matplotlib/nxutils.so
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packages/matplotlib/ft2font.so
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packages/matplotlib/_path.so
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packages/matplotlib/_path.so
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packages/matplotlib/_path.so
7f40a5af0000-7f40a5bb3000 rw-p 00000000 00:00 0
7f40a5bb3000-7f40a5bbb000 r-xp 00000000 08:07 1576704
/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/modules/vector_complex_double_dense.so
7f40a5bbb000-7f40a5dba000 ---p 00008000 08:07 1576704
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main/build/sage/modules/vector_complex_double_dense.so
7f40a5dba000-7f40a5dbb000 r--p 00007000 08:07 1576704
/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/modules/vector_complex_double_dense.so
7f40a5dbb000-7f40a5dbd000 rw-p 00008000 08:07 1576704
/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/modules/vector_complex_double_dense.so
7f40a5dbd000-7f40a5dd7000 r-xp 00000000 08:07 1576705
/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/modules/vector_double_dense.so
7f40a5dd7000-7f40a5fd6000 ---p 0001a000 08:07 1576705
/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/modules/vector_double_dense.so
7f40a5fd6000-7f40a5fd7000 r--p 00019000 08:07 1576705
/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/modules/vector_double_dense.so
7f40a5fd7000-7f40a5fdd000 rw-p 0001a000 08:07 1576705
/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/modules/vector_double_dense.so
7f40a5fdd000-7f40a5fde000 rw-p 00000000 00:00 0
7f40a5fde000-7f40a5fe6000 r-xp 00000000 08:07 1576732
/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/modules/vector_real_double_dense.so
7f40a5fe6000-7f40a61e5000 ---p 00008000 08:07 1576732
/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/modules/vector_real_double_dense.so
7f40a61e5000-7f40a61e6000 r--p 00007000 08:07 1576732
/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/modules/vector_real_double_dense.so
7f40a61e6000-7f40a61e8000 rw-p 00008000 08:07 1576732
/home/simon/SAGE/prerelease/sage-5.2.rc0/devel/sage-
main/build/sage/modules/vector_real_double_dense.so
7f40a61e8000-7f40a6234000 r-xp 00000000 08:07 1316090
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
packages/numpy/random/mtrand.so
7f40a6234000-7f40a6433000 ---p 0004c000 08:07 1316090
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
packages/numpy/random/mtrand.so
7f40a6433000-7f40a6434000 r--p 0004b000 08:07 1316090
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
packages/numpy/random/mtrand.so
7f40a6434000-7f40a6450000 rw-p 0004c000 08:07 1316090
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
packages/numpy/random/mtrand.so
7f40a6450000-7f40a64d3000 rw-p 00000000 00:00 0
7f40a64d3000-7f40a64dc000 r-xp 00000000 08:07 1192717
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
packages/numpy/fft/fftpack_lite.so
7f40a64dc000-7f40a66db000 ---p 00009000 08:07 1192717
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
packages/numpy/fft/fftpack_lite.so
7f40a66db000-7f40a66dc000 r--p 00008000 08:07 1192717
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
packages/numpy/fft/fftpack_lite.so
7f40a66dc000-7f40a66dd000 rw-p 00009000 08:07 1192717
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/python2.7/site-
packages/numpy/fft/fftpack_lite.so
7f40a66dd000-7f40a671e000 rw-p 00000000 00:00 0
7f40a671e000-7f40a6753000 r-xp 00000000 08:06 142750
/usr/lib64/libquadmath.so.0.0.0
7f40a6753000-7f40a6952000 ---p 00035000 08:06 142750
/usr/lib64/libquadmath.so.0.0.0
7f40a6952000-7f40a6953000 r--p 00034000 08:06 142750
/usr/lib64/libquadmath.so.0.0.0
7f40a6953000-7f40a6954000 rw-p 00035000 08:06 142750
/usr/lib64/libquadmath.so.0.0.0
7f40a6954000-7f40a6a6a000 r-xp 00000000 08:06 142752
/usr/lib64/libgfortran.so.3.0.0
7f40a6a6a000-7f40a6c69000 ---p 00116000 08:06 142752
/usr/lib64/libgfortran.so.3.0.0
7f40a6c69000-7f40a6c6a000 r--p 00115000 08:06 142752
/usr/lib64/libgfortran.so.3.0.0
7f40a6c6a000-7f40a6c6c000 rw-p 00116000 08:06 142752
/usr/lib64/libgfortran.so.3.0.0
7f40a6c6c000-7f40a7222000 r-xp 00000000 08:07 789505
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/liblapack.so
7f40a7222000-7f40a7421000 ---p 005b6000 08:07 789505
/home/simon/SAGE/prerelease/sage-5.2.rc0/local/lib/liblapack.soThe
doctested process was killed by signal 6
[6.3 s]
----------------------------------------------------------------------
The following tests failed:
sage -t -force_lib "devel/sage/sage/graphs/graph_generators.py" #
Killed/crashed
Total time for all tests: 6.3 seconds
}}}
The crash does not occur without `MALLOC_CHECK_`.
--
Ticket URL: <http://trac.sagemath.org/sage_trac/ticket/13779>
Sage <http://www.sagemath.org>
Sage: Creating a Viable Open Source Alternative to Magma, Maple, Mathematica,
and MATLAB
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