[Numpy-discussion] Seg. fault when running tests
Charles R Harris
charlesr.harris at gmail.com
Sat Jun 15 15:26:27 EDT 2013
On Sat, Jun 15, 2013 at 1:15 PM, Julian Taylor <
jtaylor.debian at googlemail.com> wrote:
> On 15.06.2013 21:12, Charles R Harris wrote:
> >
> >
> > On Sat, Jun 15, 2013 at 9:50 AM, Warren Weckesser
> > <warren.weckesser at gmail.com <mailto:warren.weckesser at gmail.com>> wrote:
> >
> >
> > On Sat, Jun 15, 2013 at 11:43 AM, Warren Weckesser
> > <warren.weckesser at gmail.com <mailto:warren.weckesser at gmail.com>>
> wrote:
> >
> > I'm getting a seg. fault in master when I run the tests. I'm on
> > Ubuntu 12.04 64 bit, with Python 3.3.2 (64 bits):
> >
> > $ python3 -c "import numpy as np; np.test('full')"
> > Running unit tests for numpy
> > NumPy version 1.8.0.dev-fa5bc1c
> > NumPy is installed in
> > /home/warren/local_py332/lib/python3.3/site-packages/numpy
> > Python version 3.3.2 (default, Jun 14 2013, 12:12:22) [GCC 4.6.3]
> > nose version 1.3.0
> >
> .............................S.........................................................................................................................................................S.......................................................................................................................................................S....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
> .........
>
> .............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................K............................................................................................................................................................................................SSS.
> .........
>
> .......................................................................................K.....................................................................................................................................................................................Segmentation
> > fault
> >
> > The seg. fault is occurring in ma/tests/test_mrecords.py:
> >
> > $ nosetests test_mrecords.py
> > .Segmentation fault
> >
> > More info:
> >
> > $ python3
> > Python 3.3.2 (default, Jun 14 2013, 12:12:22)
> > [GCC 4.6.3] on linux
> > Type "help", "copyright", "credits" or "license" for more
> > information.
> > >>> import numpy as np
> > >>> np.show_config()
> > atlas_threads_info:
> > library_dirs = ['/usr/lib/atlas-base/atlas',
> > '/usr/lib/atlas-base']
> > include_dirs = ['/usr/include/atlas']
> > language = f77
> > libraries = ['lapack', 'ptf77blas', 'ptcblas', 'atlas']
> > define_macros = [('ATLAS_INFO', '"\\"3.8.4\\""')]
> > atlas_blas_threads_info:
> > library_dirs = ['/usr/lib/atlas-base']
> > include_dirs = ['/usr/include/atlas']
> > language = c
> > libraries = ['ptf77blas', 'ptcblas', 'atlas']
> > define_macros = [('ATLAS_INFO', '"\\"3.8.4\\""')]
> > mkl_info:
> > NOT AVAILABLE
> > lapack_opt_info:
> > library_dirs = ['/usr/lib/atlas-base/atlas',
> > '/usr/lib/atlas-base']
> > include_dirs = ['/usr/include/atlas']
> > language = f77
> > libraries = ['lapack', 'ptf77blas', 'ptcblas', 'atlas']
> > define_macros = [('ATLAS_INFO', '"\\"3.8.4\\""')]
> > blas_opt_info:
> > library_dirs = ['/usr/lib/atlas-base']
> > include_dirs = ['/usr/include/atlas']
> > language = c
> > libraries = ['ptf77blas', 'ptcblas', 'atlas']
> > define_macros = [('ATLAS_INFO', '"\\"3.8.4\\""')]
> > lapack_mkl_info:
> > NOT AVAILABLE
> > blas_mkl_info:
> > NOT AVAILABLE
> > >>>
> >
> > gdb:
> >
> > $ gdb python3
> > GNU gdb (Ubuntu/Linaro 7.4-2012.04-0ubuntu2.1) 7.4-2012.04
> > Copyright (C) 2012 Free Software Foundation, Inc.
> > License GPLv3+: GNU GPL version 3 or later
> > <http://gnu.org/licenses/gpl.html>
> > This is free software: you are free to change and redistribute
> it.
> > There is NO WARRANTY, to the extent permitted by law. Type
> > "show copying"
> > and "show warranty" for details.
> > This GDB was configured as "x86_64-linux-gnu".
> > For bug reporting instructions, please see:
> > <http://bugs.launchpad.net/gdb-linaro/>...
> > Reading symbols from /home/warren/local_py332/bin/python3...done.
> > (gdb) run test_mrecords.py
> > Starting program: /home/warren/local_py332/bin/python3
> > test_mrecords.py
> > [Thread debugging using libthread_db enabled]
> > Using host libthread_db library
> > "/lib/x86_64-linux-gnu/libthread_db.so.1".
> > .
> > Program received signal SIGSEGV, Segmentation fault.
> > 0x00007ffff5f080a4 in
> > _aligned_strided_to_contig_size8_srcstride0 (dst=<optimized out>,
> > dst_stride=<optimized out>, src=<optimized out>,
> > __NPY_UNUSED_TAGGEDsrc_stride=<optimized out>,
> > N=<optimized out>,
> > __NPY_UNUSED_TAGGEDsrc_itemsize=<optimized out>,
> > __NPY_UNUSED_TAGGEDdata=0x0)
> > at numpy/core/src/multiarray/lowlevel_strided_loops.c.src:190
> > 190 *((@type@ *)dst) = temp;
> > (gdb)
> >
> >
> >
> >
> > Is this repeatable? Just asking as I don't see that here with gcc 4.7.2.
> > Looks like Julian's changes to lowlevel_strided_loops may be responsible.
> >
> > Chuck
> >
>
> I can't reproduce it on ubuntu 12.04 with python 3.2 (don't have 3.3.2)
> the changes made are very minimal, from looking at them again I don't
> see how they could cause this (especially on a x86 platform).
>
> @warren, can you please bisect the commit causing this?
>
Also, 32 or 64 bit? Intel hardware? Clean install? Works here with python
3.3.0.
Chuck
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