right list for SIGABRT python binary question ?
Karsten Hilbert
Karsten.Hilbert at gmx.net
Mon Oct 30 13:21:18 EDT 2017
On Mon, Oct 30, 2017 at 02:02:25PM +0100, M.-A. Lemburg wrote:
> PS: Please CC me on replies as I don't regularly read c.l.p anymore.
Sure.
> >> Could you check whether you have similar import errors with
> >> other modules that have C extensions ? E.g. lxml.
> >>
> >> What you're seeing appears to be a compilation problem
> >> with Python 2.7.14 on Debian. The executable doesn't appear
> >> to export its symbols to the .so files, or only some of them.
> >
> > Let's see:
> > ... using -dbg packages for everything, the imports work ...
>
> Ah, so you were mixing debug packages with non-debug ones. This
> explains the import errors.
I am not sure I do.
I installed normal and -dbg packages for modules with
c extensions, say psycopg2:
python-psycopg2:
Installiert: 2.7.3-1
Installationskandidat: 2.7.3-1
Versionstabelle:
*** 2.7.3-1 990
990 http://httpredir.debian.org/debian buster/main i386 Packages
500 http://httpredir.debian.org/debian unstable/main i386 Packages
100 /var/lib/dpkg/status
2.6.2-1 500
500 http://httpredir.debian.org/debian stretch/main i386 Packages
python-psycopg2-dbg:
Installiert: 2.7.3-1
Installationskandidat: 2.7.3-1
Versionstabelle:
*** 2.7.3-1 990
990 http://httpredir.debian.org/debian buster/main i386 Packages
500 http://httpredir.debian.org/debian unstable/main i386 Packages
100 /var/lib/dpkg/status
2.6.2-1 500
500 http://httpredir.debian.org/debian stretch/main i386 Packages
Now, when running either python2.7 or python2.7-dbg, which
are installed alongside
python2.7-dbg:
Installiert: 2.7.14-2
Installationskandidat: 2.7.14-2
Versionstabelle:
*** 2.7.14-2 990
990 http://httpredir.debian.org/debian buster/main i386 Packages
500 http://httpredir.debian.org/debian unstable/main i386 Packages
100 /var/lib/dpkg/status
2.7.13-2 500
500 http://httpredir.debian.org/debian stretch/main i386 Packages
python2.7:
Installiert: 2.7.14-2
Installationskandidat: 2.7.14-2
Versionstabelle:
*** 2.7.14-2 990
990 http://httpredir.debian.org/debian buster/main i386 Packages
500 http://httpredir.debian.org/debian unstable/main i386 Packages
100 /var/lib/dpkg/status
2.7.13-2 500
500 http://httpredir.debian.org/debian stretch/main i386 Packages
the Debian version does (should ?) take care to import either
the -dbg or the normal version of modules. It seems it so
does because when I got both module versions installed I
don't get any import errors. So I don't think I am mixing, at
least not to my knowledge.
(But I still get the SIGABORT on shutdown regardless.)
> Do you just see the SIGABRT when running the debug versions or
> also with the production versions (memory management works differently
> in Python debug mode) ?
Either version fails.
Why haven't I tried running this under python3 ? Because the
whole shebang is part of a wxPython application (GNUmed) and
there are no Debian packages for wxPython/wxPhoenix on py3 as
far as I know.
> BTW: It would help if you'd post the stack trace with symbols.
> The one you posted in one of your earlier emails only includes
> addresses.
I'd gladly comply if I knew how. This is what apt says about python2.7-dbg:
Package: python2.7-dbg
Version: 2.7.14-2
Description-en: Debug Build of the Python Interpreter (version 2.7)
The package holds two things:
.
- A Python interpreter configured with --pydebug. Dynamically loaded modules
are searched as <foo>_d.so first. Third party extensions need a separate
build to be used by this interpreter.
- Debug information for standard python interpreter and extensions.
So from that I conferred it does contain symbols.
I am getting a fresh run under gdb with python2.7-dbg. Maybe
you can point out where you'd have expected to see symbols
and help me figure out which -dbg package is missing on this
Debian system:
[...]
==> verifying target database schema ...
==> checking migrated data for plausibility ...
Done bootstrapping GNUmed database: We very likely succeeded.
log: /home/ncq/Projekte/gm-git/gnumed/gnumed/server/bootstrap/bootstrap-latest.log
Debug memory block at address p=0x6aab7c: API ' '
0 bytes originally requested
The 3 pad bytes at p-3 are not all FORBIDDENBYTE (0xfb):
at p-3: 0x33 *** OUCH
at p-2: 0x47 *** OUCH
at p-1: 0x00 *** OUCH
Because memory is corrupted at the start, the count of bytes requested
may be bogus, and checking the trailing pad bytes may segfault.
The 4 pad bytes at tail=0x6aab7c are not all FORBIDDENBYTE (0xfb):
at tail+0: 0x00 *** OUCH
at tail+1: 0x00 *** OUCH
at tail+2: 0x00 *** OUCH
at tail+3: 0x00 *** OUCH
The block was made by call #0 to debug malloc/realloc.
Fatal Python error: bad ID: Allocated using API ' ', verified using API 'o'
Program received signal SIGABRT, Aborted.
0xb7fd9ce9 in __kernel_vsyscall ()
(gdb) bt
#0 0xb7fd9ce9 in __kernel_vsyscall ()
#1 0xb7d70dd0 in __libc_signal_restore_set (set=0xbfffed40) at ../sysdeps/unix/sysv/linux/nptl-signals.h:79
#2 __GI_raise (sig=6) at ../sysdeps/unix/sysv/linux/raise.c:48
#3 0xb7d72297 in __GI_abort () at abort.c:89
#4 0x0055fb74 in Py_FatalError (msg=0xbfffefec "bad ID: Allocated using API '\037', verified using API 'o'") at ../Python/pythonrun.c:1700
#5 0x00499adb in _PyObject_DebugCheckAddressApi (api=111 'o', p=0x6aab7c <_Py_ZeroStruct>) at ../Objects/obmalloc.c:1640
#6 0x004997a5 in _PyObject_DebugFreeApi (api=111 'o', p=0x6aab7c <_Py_ZeroStruct>) at ../Objects/obmalloc.c:1527
#7 0x0049964f in _PyObject_DebugFree (p=0x6aab7c <_Py_ZeroStruct>) at ../Objects/obmalloc.c:1471
#8 0x00471043 in int_dealloc (v=0x6aab7c <_Py_ZeroStruct>) at ../Objects/intobject.c:139
#9 0x00497bee in _Py_Dealloc (op=False) at ../Objects/object.c:2262
#10 0x00489bad in dict_dealloc (mp=0xb79f10d4) at ../Objects/dictobject.c:1085
Python Exception <class 'UnicodeDecodeError'> 'utf-8' codec can't decode byte 0xb7 in position 3: invalid start byte:
#11 0x00497bee in _Py_Dealloc (op=) at ../Objects/object.c:2262
Python Exception <class 'UnicodeDecodeError'> 'utf-8' codec can't decode byte 0xb7 in position 3: invalid start byte:
#12 0x004b9ab7 in subtype_dealloc (self=) at ../Objects/typeobject.c:1035
Python Exception <class 'UnicodeDecodeError'> 'utf-8' codec can't decode byte 0xb7 in position 3: invalid start byte:
#13 0x00497bee in _Py_Dealloc (op=) at ../Objects/object.c:2262
#14 0x0044dc7a in instancemethod_dealloc (im=0xb79e9034) at ../Objects/classobject.c:2388
#15 0x00497bee in _Py_Dealloc (op=<instancemethod at remote 0xb79e9034>) at ../Objects/object.c:2262
#16 0x004885d7 in insertdict_by_entry (mp=0xb7891214, key='_shutdown', hash=598970216, ep=0x88e1ec, value=None) at ../Objects/dictobject.c:519
#17 0x00488857 in insertdict (mp=0xb7891214, key='_shutdown', hash=598970216, value=None) at ../Objects/dictobject.c:556
#18 0x0048910f in dict_set_item_by_hash_or_entry (
op={'current_thread': <function at remote 0xb79f23a4>, '_BoundedSemaphore': None, 'currentThread': <function at remote 0xb79f23a4>, '_Timer': None, '_format_exc': None, 'Semaphore': <function at remote 0xb79ec174>, '_deque': None, 'activeCount': <function at remote 0xb79f24e4>, '_profile_hook': None, '_sleep': None, '_trace_hook': None, 'ThreadError': <type at remote 0xb7850414>, '_enumerate': None, '_start_new_thread': None, 'BoundedSemaphore': <function at remote 0xb79ec4e4>, '_shutdown': None, '__all__': ['activeCount', 'active_count', 'Condition', 'currentThread', 'current_thread', 'enumerate', 'Event', 'Lock', 'RLock', 'Semaphore', 'BoundedSemaphore', 'Thread', 'Timer', 'setprofile', 'settrace', 'local', 'stack_size'], '_Event': <type at remote 0xb79ee224>, 'active_count': <function at remote 0xb79f24e4>, '__package__': None, '_Condition': <type at remote 0xb7850bd4>, '_RLock': <type at remote 0xb78509e4>, '_test': <function at remote 0xb79f2624>, 'local': <type at remote 0x6fd420>, '__doc__': "Thread modul...(truncated), key='_shutdown', hash=598970216, ep=0x0, value=None) at ../Objects/dictobject.c:795
#19 0x00489285 in PyDict_SetItem (
op={'current_thread': <function at remote 0xb79f23a4>, '_BoundedSemaphore': None, 'currentThread': <function at remote 0xb79f23a4>, '_Timer': None, '_format_exc': None, 'Semaphore': <function at remote 0xb79ec174>, '_deque': None, 'activeCount': <function at remote 0xb79f24e4>, '_profile_hook': None, '_sleep': None, '_trace_hook': None, 'ThreadError': <type at remote 0xb7850414>, '_enumerate': None, '_start_new_thread': None, 'BoundedSemaphore': <function at remote 0xb79ec4e4>, '_shutdown': None, '__all__': ['activeCount', 'active_count', 'Condition', 'currentThread', 'current_thread', 'enumerate', 'Event', 'Lock', 'RLock', 'Semaphore', 'BoundedSemaphore', 'Thread', 'Timer', 'setprofile', 'settrace', 'local', 'stack_size'], '_Event': <type at remote 0xb79ee224>, 'active_count': <function at remote 0xb79f24e4>, '__package__': None, '_Condition': <type at remote 0xb7850bd4>, '_RLock': <type at remote 0xb78509e4>, '_test': <function at remote 0xb79f2624>, 'local': <type at remote 0x6fd420>, '__doc__': "Thread modul...(truncated), key='_shutdown', value=None) at ../Objects/dictobject.c:848
#20 0x00492758 in _PyModule_Clear (m=<module at remote 0xb78a1154>) at ../Objects/moduleobject.c:125
#21 0x0054a33b in PyImport_Cleanup () at ../Python/import.c:530
#22 0x0055c53c in Py_Finalize () at ../Python/pythonrun.c:458
#23 0x0055fe9c in Py_Exit (sts=0) at ../Python/pythonrun.c:1783
#24 0x0055e0fc in handle_system_exit () at ../Python/pythonrun.c:1151
#25 0x0055e152 in PyErr_PrintEx (set_sys_last_vars=1) at ../Python/pythonrun.c:1161
#26 0x0055dd5b in PyErr_Print () at ../Python/pythonrun.c:1064
#27 0x0055d61f in PyRun_SimpleFileExFlags (fp=0x7ee010, filename=0xbffff7e6 "./bootstrap_gm_db_system.py", closeit=1, flags=0xbffff4f4) at ../Python/pythonrun.c:952
#28 0x0055cc4e in PyRun_AnyFileExFlags (fp=0x7ee010, filename=0xbffff7e6 "./bootstrap_gm_db_system.py", closeit=1, flags=0xbffff4f4) at ../Python/pythonrun.c:752
#29 0x00577cb0 in Py_Main (argc=5, argv=0xbffff684) at ../Modules/main.c:645
#30 0x004259c8 in main (argc=5, argv=0xbffff684) at ../Modules/python.c:20
(gdb) q
A debugging session is active.
Inferior 1 [process 12740] will be killed.
Quit anyway? (y or n) y
Does that help ?
Thanks,
Karsten
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