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Bug#586247: marked as done (python-vigra: crash in vigra::detail::noiseVarianceListMedianCut)

Your message dated Wed, 10 Dec 2014 17:05:57 +0100
with message-id <54886F65.5070403@danielstender.com>
and subject line python-vigra: crash in vigra::detail::noiseVarianceListMedianCut
has caused the Debian Bug report #586247,
regarding python-vigra: crash in vigra::detail::noiseVarianceListMedianCut
to be marked as done.

This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.

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-- 
586247: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=586247
Debian Bug Tracking System
Contact owner@bugs.debian.org with problems
--- Begin Message --- 
Package: python-vigra
Version: 1.7.0+dfsg-3
Severity: serious
Justification: FTBFS
This Python program causes non-deterministic segmentation faults on AMD64: 

import numpy
import vigra.noise
import vigra.arraytypes
image = vigra.arraytypes.ScalarImage(numpy.random.rand(100,100)*255, dtype=numpy.float32)
vigra.noise.noiseVarianceClustering(image)

Severity serious, because the bug is causing build failures.

gdb traceback:
#0 0x00007f591a68b64c in vigra::detail::noiseVarianceListMedianCut<vigra::ArrayVector<vigra::TinyVector<double, 2>, std::allocator<vigra::TinyVector<double, 2> > >, vigra::ArrayVector<vigra::TinyVector<unsigned int, 2>, std::allocator<vigra::TinyVector<unsigned int, 2> > > > (noise=..., clusters=..., maxClusterCount=<value optimized out>) at /tmp/buildd/libvigraimpex-1.7.0+dfsg/include/vigra/noise_normalization.hxx:585 #1 0x00007f591a68d9ea in vigra::detail::noiseVarianceClusteringImpl<vigra::ArrayVector<vigra::TinyVector<double, 2>, std::allocator<vigra::TinyVector<double, 2> > >, std::vector<vigra::TinyVector<double, 2>, std::allocator<vigra::TinyVector<double, 2> > > > (noise=..., result=..., clusterCount=10, quantile=<value optimized out>) at /tmp/buildd/libvigraimpex-1.7.0+dfsg/include/vigra/noise_normalization.hxx:716 #2 0x00007f591a697c45 in noiseVarianceClustering<vigra::ConstStridedImageIterator<float>, vigra::StandardConstValueAccessor<float>, std::vector<vigra::TinyVector<double, 2>, std::allocator<vigra::TinyVector<double, 2> > > > (image=<value optimized out>, useGradient=<value optimized out>, windowRadius=<value optimized out>, clusterCount=<value optimized out>, averagingQuantile=<value optimized out>, noiseEstimationQuantile=<value optimized out>, noiseVarianceInitialGuess=<value optimized out>, res=<value optimized out>) 
    at /tmp/buildd/libvigraimpex-1.7.0+dfsg/include/vigra/noise_normalization.hxx:1119
#3 noiseVarianceClustering<vigra::ConstStridedImageIterator<float>, vigra::StandardConstValueAccessor<float>, std::vector<vigra::TinyVector<double, 2>, std::allocator<vigra::TinyVector<double, 2> > > > (image=<value optimized out>, useGradient=<value optimized out>, windowRadius=<value optimized out>, clusterCount=<value optimized out>, averagingQuantile=<value optimized out>, noiseEstimationQuantile=<value optimized out>, noiseVarianceInitialGuess=<value optimized out>, res=<value optimized out>) 
    at /tmp/buildd/libvigraimpex-1.7.0+dfsg/include/vigra/noise_normalization.hxx:1128
#4 vigra::pythonNoiseVarianceClustering<float> (image=<value optimized out>, useGradient=<value optimized out>, windowRadius=<value optimized out>, clusterCount=<value optimized out>, averagingQuantile=<value optimized out>, noiseEstimationQuantile=<value optimized out>, noiseVarianceInitialGuess=<value optimized out>, res=<value optimized out>) at /tmp/buildd/libvigraimpex-1.7.0+dfsg/vigranumpy/src/core/noise.cxx:89 #5 0x00007f591a690b55 in invoke<boost::python::detail::caller_arity<4u>::impl<F, Policies, Sig>::operator()(PyObject*, PyObject*) [with F = vigra::NumpyAnyArray (*)(vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>), Policies = boost::python::default_call_policies, Sig = boost::mpl::vector5<vigra::NumpyAnyArray, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag> >]::result_converter, vigra::NumpyAnyArray (*)(vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>), boost::python::detail::caller_arity<8u>::impl<F, Policies, Sig>::operator()(PyObject*, PyObject*) [with F = vigra::NumpyAnyArray (*)(vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>), Policies = boost::python::default_call_policies, Sig = boost::mpl::vector9<vigra::NumpyAnyArray, vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag> >]::c_t0, boost::python::detail::caller_arity<8u>::impl<F, Policies, Sig>::operator()(PyObject*, PyObject*) [with F = vigra::NumpyAnyArray (*)(vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>), Policies = boost::python::default_call_policies, Sig = boost::mpl::vector9<vigra::NumpyAnyArray, vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag> >]::c_t1, boost::python::detail::caller_arity<8u>::impl<F, Policies, Sig>::operator()(PyObject*, PyObject*) [with F = vigra::NumpyAnyArray (*)(vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>), Policies = boost::python::default_call_policies, Sig = boost::mpl::vector9<vigra::NumpyAnyArray, vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag> >]::c_t2, boost::python::detail::caller_arity<8u>::impl<F, Policies, Sig>::operator()(PyObject*, PyObject*) [with F = vigra::NumpyAnyArray (*)(vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>), Policies = boost::python::default_call_policies, Sig = boost::mpl::vector9<vigra::NumpyAnyArray, vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag> >]::c_t3, boost::python::detail::caller_arity<8u>::impl<F, Policies, Sig>::operator()(PyObject*, PyObject*) [with F = vigra::NumpyAnyArray (*)(vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>), Policies = boost::python::default_call_policies, Sig = boost::mpl::vector9<vigra::NumpyAnyArray, vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag> >]::c_t4, boost::python::detail::caller_arity<8u>::impl<F, Policies, Sig>::operator()(PyObject*, PyObject*) [with F = vigra::NumpyAnyArray (*)(vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>), Policies = boost::python::default_call_policies, Sig = boost::mpl::vector9<vigra::NumpyAnyArray, vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag> >]::c_t5, boost::python::detail::caller_arity<8u>::impl<F, Policies, Sig>::operator()(PyObject*, PyObject*) [with F = vigra::NumpyAnyArray (*)(vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>), Policies = boost::python::default_call_policies, Sig = boost::mpl::vector9<vigra::NumpyAnyArray, vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag> >]::c_t6, boost::python::detail::caller_arity<8u>::impl<F, Policies, Sig>::operator()(PyObject*, PyObject*) [with F = vigra::NumpyAnyArray (*)(vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>), Policies = boost::python::default_call_policies, Sig = boost::mpl::vector9<vigra::NumpyAnyArray, vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag> >]::c_t7> (this=<value optimized out>, args_=<value optimized out>) at /usr/include/boost/python/detail/invoke.hpp:75 
#6  boost::python::detail::caller_arity<8u>::impl<vigra::NumpyAnyArray (*)(vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag>), boost::python::default_call_policies, boost::mpl::vector9<vigra::NumpyAnyArray, vigra::NumpyArray<2u, vigra::Singleband<float>, vigra::StridedArrayTag>, bool, unsigned int, unsigned int, double, double, double, vigra::NumpyArray<3u, vigra::Multiband<float>, vigra::StridedArrayTag> > >::operator() (this=<value optimized out>, args_=<value optimized out>)
    at /usr/include/boost/python/detail/caller.hpp:223
#7  0x00007f591d405c1e in boost::python::objects::py_function::operator() (this=<value optimized out>, args=0x29f9b10, keywords=<value optimized out>)
    at ./boost/python/object/py_function.hpp:143
#8  boost::python::objects::function::call (this=<value optimized out>, args=0x29f9b10, keywords=<value optimized out>)
    at libs/python/src/object/function.cpp:226
#9  0x00007f591d405ec8 in operator() (function_obj_ptr=<value optimized out>) at libs/python/src/object/function.cpp:585
#10 invoke (function_obj_ptr=<value optimized out>) at ./boost/function/function_template.hpp:188
#11 0x00007f591d40d52b in boost::function0<void>::operator() (f=DWARF-2 expression error: DW_OP_reg operations must be used either alone or in conjuction with DW_OP_piece.
) at ./boost/function/function_template.hpp:1013
#12 boost::python::handle_exception_impl (f=DWARF-2 expression error: DW_OP_reg operations must be used either alone or in conjuction with DW_OP_piece.
) at libs/python/src/errors.cpp:25
#13 0x00007f591d4027b8 in handle_exception<boost::python::objects::<unnamed>::bind_return> (func=<value optimized out>, args=0x29f9b10, kw=0xffffffff0)
    at ./boost/python/errors.hpp:29
#14 function_call (func=<value optimized out>, args=0x29f9b10, kw=0xffffffff0) at libs/python/src/object/function.cpp:626
#15 0x0000000000418493 in PyObject_Call (func=0x1, arg=0x29f9b10, kw=0xffffffff0) at ../Objects/abstract.c:1861
#16 0x000000000048f62e in do_call (f=0x2712f90, throwflag=<value optimized out>) at ../Python/ceval.c:3823
#17 call_function (f=0x2712f90, throwflag=<value optimized out>) at ../Python/ceval.c:3635
#18 PyEval_EvalFrameEx (f=0x2712f90, throwflag=<value optimized out>) at ../Python/ceval.c:2304
#19 0x00000000004915f9 in PyEval_EvalCodeEx (co=0x7f5922114468, globals=<value optimized out>, locals=<value optimized out>, args=<value optimized out>, argcount=44014448, kws=0x0, kwcount=0, defs=0x0, defcount=0, closure=0x0) at ../Python/ceval.c:2875 
#20 0x0000000000491722 in PyEval_EvalCode (co=0x1, globals=0x29f9b10, locals=0xffffffff0) at ../Python/ceval.c:514
#21 0x00000000004b0e9b in run_mod (fp=<value optimized out>, filename=0x7fffde7f9d14 "test2.py", start=<value optimized out>, globals=<value optimized out>, locals=<value optimized out>, closeit=1, flags=0x7fffde7f8790) at ../Python/pythonrun.c:1273 #22 PyRun_FileExFlags (fp=<value optimized out>, filename=0x7fffde7f9d14 "test2.py", start=<value optimized out>, globals=<value optimized out>, locals=<value optimized out>, closeit=1, flags=0x7fffde7f8790) at ../Python/pythonrun.c:1259 
#23 0x00000000004b103b in PyRun_SimpleFileExFlags (fp=0x26f8010, filename=0x7fffde7f9d14 "test2.py", closeit=1, flags=0x7fffde7f8790)
    at ../Python/pythonrun.c:879
#24 0x0000000000414633 in Py_Main (argc=1, argv=<value optimized out>) at ../Modules/main.c:532
#25 0x00007f5921329c4d in __libc_start_main (main=<value optimized out>, argc=<value optimized out>, ubp_av=<value optimized out>, init=<value optimized out>, fini=<value optimized out>, rtld_fini=<value optimized out>, stack_end=0x7fffde7f88a8) at libc-start.c:228 
#26 0x0000000000413a29 in _start ()


-- System Information:
Debian Release: squeeze/sid
  APT prefers unstable
  APT policy: (500, 'unstable')
Architecture: amd64 (x86_64)

Kernel: Linux 2.6.32-5-amd64 (SMP w/2 CPU cores)
Locale: LANG=C, LC_CTYPE=pl_PL.UTF-8 (charmap=ANSI_X3.4-1968) (ignored: LC_ALL set to C)
Shell: /bin/sh linked to /bin/dash

Versions of packages python-vigra depends on:
ii  libboost-python1.42.0     1.42.0-3       Boost.Python Library
ii  libc6                     2.11.2-1       Embedded GNU C Library: Shared lib
ii  libfftw3-3                3.2.2-1        library for computing Fast Fourier
ii  libgcc1                   1:4.4.4-5      GCC support library
ii libhdf5-serial-1.8.4 [lib 1.8.4-patch1-2 Hierarchical Data Format 5 (HDF5) ii libstdc++6 4.4.4-5 The GNU Standard C++ Library v3 
ii  libvigraimpex2ldbl        1.7.0+dfsg-3   C++ computer vision library
ii  python                    2.5.4-9        An interactive high-level object-o
ii  python-numpy              1:1.3.0-3+b1   Numerical Python adds a fast array
ii  python-support            1.0.8          automated rebuilding support for P

Versions of packages python-vigra recommends:
pn  python-h5py                   <none>     (no description available)
pn  python-qt4                    <none>     (no description available)

Versions of packages python-vigra suggests:
ii python-vigra-doc 1.7.0+dfsg-3 Documentation for Python bindings 
--
Jakub Wilk

Attachment: signature.asc
Description: Digital signature


--- End Message ---
--- Begin Message --- 
Version: 1.8.0+dfsg-1

This belongs into the archives. The resulting crash behavior has been
solved for some time: https://github.com/ukoethe/vigra/issues/22

Greetings,
Daniel Stender (owner of ITA)

-- 
http://qa.debian.org/developer.php?login=debian%40danielstender.com
GPG key: 4096R/DF5182C8
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