[Gmsh] gmsh crash
Karen Pease
meme at eaku.net
Sun May 29 14:54:08 CEST 2016
This is the first time I've ever come across a password-protected bug
tracker ;)
Bug report filed:
https://onelab.info/trac/gmsh/ticket/289#ticket
The file is in the google drive link.
Out of curiosity (now working with a different model that's not
crashing gmsh directly - the other one wasn't a memory-related crash):
are there parameters one can alter with GMSH to reduce its memory
usage? I have a model with 36k points and 136k faces, and my computer
seemed to basically lock up last night when gmsh had been running for a
few hours (and ultimately, when I woke up, gmsh had crashed due to what
appears to be running out of memory). My computer only has 8GB.
The parameters for the new run are:
/usr/local/bin/gmsh /tmp/tmpC4Ud4h.step -3 -format unv -o
/tmp/Mesh0700
01_Mesh.unv -algo netgen -clmax 5,00 -optimize -order 2
Maybe a higher clmax?
- kv, Karen
On sun, 2016-05-29 at 09:12 +0200, Christophe Geuzaine wrote:
> Dear Karen - Could you send the input file?
>
> PS : you need to login (username and password = gmsh) to access the
> bug tracker.
>
> > On 28 May 2016, at 16:58, Karen Pease <meme at eaku.net> wrote:
> >
> > I tried to report it through the bug database, but when I went to
> > the
> > site linked on the gmsh webpage I got a https warning through
> > chrome,
> > and when I told it to ignore the warning, I got a request for a
> > password from https://onelab.info/trac/gmsh/report/1; when I
> > clicked
> > cancel, I got unauthorized.
> >
> > So, here's the crash report here instead :)
> >
> >
> > File:
> >
> > https://drive.google.com/open?id=0B6KWLyPRYMb0N1QzYkpPTl9fTDQ
> >
> > Command:
> >
> > /usr/local/bin/gmsh /tmp/tmpTzGAhu.step -3 -format unv -o
> > /tmp/gh001_Mesh.unv -algo netgen -clmax 5,00 -optimize -order 2
> >
> > Running that through GDB, I see:
> >
> > ---------------------------------------------------
> > Info : Meshing surface 315 (Plane, Delaunay)
> > Info : Meshing surface 316 (Plane, Delaunay)
> > Info : Meshing surface 317 (Plane, Delaunay)
> > Warning : Mesh Generation of Model Face 317 Skipped: Only 0 mesh
> > vertices on the contours
> > Info : Meshing surface 318 (Plane, Delaunay)
> > Warning : Mesh Generation of Model Face 318 Skipped: Only 2 mesh
> > vertices on the contours
> > Info : Meshing surface 319 (Plane, Delaunay)
> > Warning : Mesh Generation of Model Face 319 Skipped: Only 2 mesh
> > vertices on the contours
> > Info : Meshing surface 320 (Plane, Delaunay)
> > Warning : Mesh Generation of Model Face 320 Skipped: Only 2 mesh
> > vertices on the contours
> > Info : Meshing surface 321 (Plane, Delaunay)
> > Info : Meshing surface 322 (Plane, Delaunay)
> > ***************************************** NULL
> > terminate called without an active exception
> > [New Thread 0x7ffff1bd6700 (LWP 15383)]
> >
> > Program received signal SIGABRT, Aborted.
> > 0x00007ffff4e769c8 in __GI_raise (sig=sig at entry=6)
> > at ../sysdeps/unix/sysv/linux/raise.c:55
> > 55 return INLINE_SYSCALL (tgkill, 3, pid, selftid, sig);
> > (gdb) bt
> > #0 0x00007ffff4e769c8 in __GI_raise (sig=sig at entry=6)
> > at ../sysdeps/unix/sysv/linux/raise.c:55
> > #1 0x00007ffff4e7865a in __GI_abort () at abort.c:89
> > #2 0x00007ffff5ad6b4d in __gnu_cxx::__verbose_terminate_handler ()
> > at ../../../../libstdc++-v3/libsupc++/vterminate.cc:95
> > #3 0x00007ffff5ad49a6 in __cxxabiv1::__terminate
> > (handler=<optimized
> > out>)
> > at ../../../../libstdc++-v3/libsupc++/eh_terminate.cc:47
> > #4 0x00007ffff5ad49f1 in std::terminate ()
> > at ../../../../libstdc++-v3/libsupc++/eh_terminate.cc:57
> > #5 0x00007ffff5ad4c59 in __cxxabiv1::__cxa_rethrow ()
> > at ../../../../libstdc++-v3/libsupc++/eh_throw.cc:125
> > #6 0x0000000000f1f448 in buildMeshGenerationDataStructures(GFace*,
> > std::set<MTri3*, compareTri3Ptr, std::allocator<MTri3*> >&,
> > bidimMeshData&) ()
> > #7 0x0000000000f01494 in bowyerWatson(GFace*, int,
> > std::map<MVertex*,
> > MVertex*, std::less<MVertex*>, std::allocator<std::pair<MVertex*
> > const,
> > MVertex*> > >*, std::map<MVertex*, SPoint2, std::less<MVertex*>,
> > std::allocator<std::pair<MVertex* const, SPoint2> > >*) ()
> > #8 0x0000000000ed4592 in meshGenerator(GFace*, int, bool, bool,
> > bool,
> > std::list<GEdge*, std::allocator<GEdge*> >*) ()
> > #9 0x0000000000ecf255 in meshGFace::operator()(GFace*, bool) ()
> > #10 0x0000000000cc0c1f in GFace::mesh(bool) ()
> > #11 0x0000000000ebd52c in ?? ()
> > #12 0x0000000000ebff84 in GenerateMesh(GModel*, int) ()
> > #13 0x0000000000d44369 in GModel::mesh(int) ()
> > #14 0x0000000000ba2b20 in GmshBatch() ()
> > #15 0x0000000000ba1f86 in main ()
> > ---------------------------------------------------
> >
> > The end through strace:
> >
> > ---------------------------------------------------
> > write(1, "Info : Meshing surface 318 (P"..., 48Info : Meshing
> > surface 318
> > (Plane, Delaunay)
> >
> > ) = 48
> >
> > fstat(2, {st_mode=S_IFCHR|0600, st_rdev=makedev(136, 14), ...}) = 0
> >
> > write(2, "\33[35mWarning : Mesh Generation o"..., 99Warning : Mesh
> > Generation of
> > Model Face 318 Skipped: Only 2 mesh vertices on the contours
> >
> >
> > ) = 99
> >
> > write(1, "Info : Meshing surface 319 (P"..., 48Info : Meshing
> > surface 319
> > (Plane, Delaunay)
> >
> > ) = 48
> >
> > fstat(2, {st_mode=S_IFCHR|0600, st_rdev=makedev(136, 14), ...}) = 0
> >
> > write(2, "\33[35mWarning : Mesh Generation o"..., 99Warning : Mesh
> > Generation of
> > Model Face 319 Skipped: Only 2 mesh vertices on the contours
> >
> >
> > ) = 99
> >
> > write(1, "Info : Meshing surface 320 (P"..., 48Info : Meshing
> > surface 320
> > (Plane, Delaunay)
> >
> > ) = 48
> >
> > fstat(2, {st_mode=S_IFCHR|0600, st_rdev=makedev(136, 14), ...}) = 0
> >
> > write(2, "\33[35mWarning : Mesh Generation o"..., 99Warning : Mesh
> > Generation of
> > Model Face 320 Skipped: Only 2 mesh vertices on the contours
> >
> >
> > ) = 99
> >
> > write(1, "Info : Meshing surface 321 (P"..., 48Info : Meshing
> > surface 321
> > (Plane, Delaunay)
> >
> > ) = 48
> >
> > write(1, "Info : Meshing surface 322 (P"..., 48Info : Meshing
> > surface 322
> > (Plane, Delaunay)
> >
> > ) = 48
> >
> > write(1, "********************************"...,
> > 47******************************
> > *********** NULL
> >
> > ) = 47
> >
> > write(2, "terminate called without an acti"..., 45terminate called
> > without an ac
> > tive exception
> >
> > ) = 45
> >
> > rt_sigprocmask(SIG_UNBLOCK, [ABRT], NULL, 8) = 0
> >
> > tgkill(15476, 15476, SIGABRT) = 0
> >
> > --- SIGABRT {si_signo=SIGABRT, si_code=SI_TKILL, si_pid=15476,
> > si_uid=1000} ---
> >
> > +++ killed by SIGABRT (core dumped) +++
> >
> > Aborted (core dumped)
> > ---------------------------------------------------
> >
> > Don't know if that helps any..
> >
> > - kv, Karen
> >
> >
> > _______________________________________________
> > gmsh mailing list
> > gmsh at onelab.info
> > http://onelab.info/mailman/listinfo/gmsh
>
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