Hey, any chance it has something to do with running an up-to-date numpy with an "out-of-date" Python (2.3.4 is pretty old, isn't it?)
DG Fernando Perez wrote: > Hi all, > > two colleagues have been seeing occasional crashes from very > long-running code which uses numpy. We've now gotten a backtrace from > one such crash, unfortunately it uses a build from a few days ago: > > In [3]: numpy.__version__ > Out[3]: '1.0b5.dev3097' > > In [4]: scipy.__version__ > Out[4]: '0.5.0.2180' > > Because it takes so long to get the code to crash (several days of > 100%CPU usage), I can't make a new one right now, but I'll be happy to > restart the same run with a current SVN build if necessary, and post > the results in a few days. > > In the meantime, here's a gdb backtrace we were able to get by setting > MALLOC_CHECK_ to 2 and running the python process from within gdb: > > Program received signal SIGABRT, Aborted. > [Switching to Thread 1073880896 (LWP 26280)] > 0x40000402 in __kernel_vsyscall () > (gdb) bt > #0 0x40000402 in __kernel_vsyscall () > #1 0x0042c7d5 in raise () from /lib/tls/libc.so.6 > #2 0x0042e149 in abort () from /lib/tls/libc.so.6 > #3 0x0046b665 in free_check () from /lib/tls/libc.so.6 > #4 0x00466e65 in free () from /lib/tls/libc.so.6 > #5 0x005a4ab7 in PyObject_Free () from /usr/lib/libpython2.3.so.1.0 > #6 0x403f6336 in arraydescr_dealloc (self=0x40424020) at arrayobject.c:10455 > #7 0x403fab3e in PyArray_FromArray (arr=0xe081cb0, newtype=0x40424020, > flags=0) > at arrayobject.c:7725 > #8 0x403facc3 in PyArray_FromAny (op=0xe081cb0, newtype=0x0, min_depth=0, > max_depth=0, flags=0, context=0x0) at arrayobject.c:8178 > #9 0x4043bc45 in PyUFunc_GenericFunction (self=0x943a660, args=0xa9dbf2c, > mps=0xbfc83730) at ufuncobject.c:906 > #10 0x40440a04 in ufunc_generic_call (self=0x943a660, args=0xa9dbf2c) > at ufuncobject.c:2742 > #11 0x0057d607 in PyObject_Call () from /usr/lib/libpython2.3.so.1.0 > #12 0x0057d6d4 in PyObject_CallFunction () from /usr/lib/libpython2.3.so.1.0 > #13 0x403eabb6 in PyArray_GenericBinaryFunction (m1=Variable "m1" is > not available. > ) at arrayobject.c:3296 > #14 0x0057b7e1 in PyNumber_Check () from /usr/lib/libpython2.3.so.1.0 > #15 0x0057c1e0 in PyNumber_Multiply () from /usr/lib/libpython2.3.so.1.0 > #16 0x005d16a3 in _PyEval_SliceIndex () from /usr/lib/libpython2.3.so.1.0 > #17 0x005d509e in PyEval_EvalCodeEx () from /usr/lib/libpython2.3.so.1.0 > #18 0x005d3d8f in _PyEval_SliceIndex () from /usr/lib/libpython2.3.so.1.0 > #19 0x005d509e in PyEval_EvalCodeEx () from /usr/lib/libpython2.3.so.1.0 > #20 0x00590e2e in PyFunction_SetClosure () from /usr/lib/libpython2.3.so.1.0 > #21 0x0057d607 in PyObject_Call () from /usr/lib/libpython2.3.so.1.0 > #22 0x00584d98 in PyMethod_New () from /usr/lib/libpython2.3.so.1.0 > #23 0x0057d607 in PyObject_Call () from /usr/lib/libpython2.3.so.1.0 > #24 0x005b584c in _PyObject_SlotCompare () from /usr/lib/libpython2.3.so.1.0 > #25 0x005aec2c in PyType_IsSubtype () from /usr/lib/libpython2.3.so.1.0 > #26 0x0057d607 in PyObject_Call () from /usr/lib/libpython2.3.so.1.0 > #27 0x005d2b7f in _PyEval_SliceIndex () from /usr/lib/libpython2.3.so.1.0 > #28 0x005d509e in PyEval_EvalCodeEx () from /usr/lib/libpython2.3.so.1.0 > #29 0x005d3d8f in _PyEval_SliceIndex () from /usr/lib/libpython2.3.so.1.0 > #30 0x005d509e in PyEval_EvalCodeEx () from /usr/lib/libpython2.3.so.1.0 > #31 0x005d3d8f in _PyEval_SliceIndex () from /usr/lib/libpython2.3.so.1.0 > #32 0x005d497b in _PyEval_SliceIndex () from /usr/lib/libpython2.3.so.1.0 > #33 0x005d497b in _PyEval_SliceIndex () from /usr/lib/libpython2.3.so.1.0 > #34 0x005d497b in _PyEval_SliceIndex () from /usr/lib/libpython2.3.so.1.0 > #35 0x005d509e in PyEval_EvalCodeEx () from /usr/lib/libpython2.3.so.1.0 > #36 0x005d5362 in PyEval_EvalCode () from /usr/lib/libpython2.3.so.1.0 > #37 0x005ee817 in PyErr_Display () from /usr/lib/libpython2.3.so.1.0 > #38 0x005ef942 in PyRun_SimpleFileExFlags () from /usr/lib/libpython2.3.so.1.0 > #39 0x005f0994 in PyRun_AnyFileExFlags () from /usr/lib/libpython2.3.so.1.0 > #40 0x005f568e in Py_Main () from /usr/lib/libpython2.3.so.1.0 > #41 0x080485b2 in main () > > # End of BT. > > This code is running on a Fedora Core 3 box, with python 2.3.4 and > numpy/scipy compiled using gcc 3.4.4. > > I realize that it's extremely difficult to help with so little > information, but unfortunately we have no small test that can > reproduce the problem. Only our large research codes, when running > for multiple days on a single run, cause this. Even very intensive > uses of the same code but which last only a few hours never show this. > > This code is a long-runing iterative algorithm, so it's basically > applying the same (complex) loop over and over until convergence, > using numpy and scipy pretty extensively throughout. > > If super Travis (or anyone else) can have a Eureka moment from the > above backtrace, that would be fantastic. If there's any other > information you think I may be able to provide, I'll be happy to do my > best. > > Cheers, > > f > > ------------------------------------------------------------------------- > Using Tomcat but need to do more? Need to support web services, security? > Get stuff done quickly with pre-integrated technology to make your job easier > Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 > _______________________________________________ > Numpy-discussion mailing list > Numpy-discussion@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/numpy-discussion > ------------------------------------------------------------------------- Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 _______________________________________________ Numpy-discussion mailing list Numpy-discussion@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/numpy-discussion
