[CIG-SHORT] Problem when launching "pylith axialdisp.cfg"

[Christian Baillard]

Hi,

I'm following the pylith tutorial but in the first exercise there is a problem when I launch "pylith axialdisp.cfg"
the error is:

macbaillard:twotri3 baillard$ pylith axialdisp.cfg 

/Users/baillard/pylith/lib/python2.6/site-packages/merlin-1.7.egg/merlin/__init__.py:175: DeprecationWarning: the sets module is deprecated
  from sets import ImmutableSet
/Users/baillard/pylith/lib/python2.6/site-packages/merlin-1.7.egg/merlin/__init__.py:175: DeprecationWarning: the sets module is deprecated
  from sets import ImmutableSet
/Users/baillard/pylith/lib/python2.6/site-packages/merlin-1.7.egg/merlin/__init__.py:175: DeprecationWarning: the sets module is deprecated
  from sets import ImmutableSet
 >> /Users/baillard/pylith/lib/python2.6/site-packages/pylith/utils/PetscManager.py:54:initialize
 -- petsc(info)
 -- Initializing PETSc.
 >> /Users/baillard/pylith/lib/python2.6/site-packages/pylith/meshio/MeshIOObj.py:52:read
 -- meshioascii(info)
 -- Reading finite-element mesh
mpinemesis(2320) malloc: *** error for object 0x102e5a0e0: pointer being freed was not allocated
*** set a breakpoint in malloc_error_break to debug
[macbaillard:02320] *** Process received signal ***
[macbaillard:02320] Signal: Abort trap (6)
[macbaillard:02320] Signal code:  (0)
[macbaillard:02320] [ 0] 2   libSystem.B.dylib                   0x00007fff84de666a _sigtramp + 26
[macbaillard:02320] [ 1] 3   libSystem.B.dylib                   0x00007fff84d8b147 tiny_malloc_from_free_list + 1196
[macbaillard:02320] [ 2] 4   libSystem.B.dylib                   0x00007fff84d8c6b5 free + 128
[macbaillard:02320] [ 3] 5   libstdc++.6.dylib                   0x00007fff86630eb3 _ZNSt15basic_stringbufIcSt11char_traitsIcESaIcEE8overflowEi + 281
[macbaillard:02320] [ 4] 6   libstdc++.6.dylib                   0x00007fff86631c21 _ZNSt15basic_streambufIcSt11char_traitsIcEE6xsputnEPKcl + 139
[macbaillard:02320] [ 5] 7   libstdc++.6.dylib                   0x0000000102dde3d5 _ZSt16__ostream_insertIcSt11char_traitsIcEERSt13basic_ostreamIT_T0_ES6_PKS3_l + 453
[macbaillard:02320] [ 6] 8   libstdc++.6.dylib                   0x0000000102dde651 _ZStlsISt11char_traitsIcEERSt13basic_ostreamIcT_ES5_PKc + 49
[macbaillard:02320] [ 7] 9   libpylith.0.dylib                   0x0000000101760800 _ZN6pylith6meshio11MeshIOAscii5_readEv + 5040
[macbaillard:02320] [ 8] 10  libpylith.0.dylib                   0x0000000101750a66 _ZN6pylith6meshio6MeshIO4readEPNS_8topology4MeshE + 54
[macbaillard:02320] [ 9] 11  _meshiomodule.so                    0x00000001030dddb4 _wrap_MeshIO_read + 164
[macbaillard:02320] [10] 12  Python                              0x0000000100012ff3 PyObject_Call + 112
[macbaillard:02320] [11] 13  Python                              0x000000010009254e PyEval_EvalFrameEx + 20380
[macbaillard:02320] [12] 14  Python                              0x0000000100092cce PyEval_EvalCodeEx + 1803
[macbaillard:02320] [13] 15  Python                              0x00000001000348e1 PyClassMethod_New + 1748
[macbaillard:02320] [14] 16  Python                              0x0000000100012ff3 PyObject_Call + 112
[macbaillard:02320] [15] 17  Python                              0x00000001000229df PyClass_New + 1575
[macbaillard:02320] [16] 18  Python                              0x0000000100012ff3 PyObject_Call + 112
[macbaillard:02320] [17] 19  Python                              0x000000010009251a PyEval_EvalFrameEx + 20328
[macbaillard:02320] [18] 20  Python                              0x00000001000912e1 PyEval_EvalFrameEx + 15663
[macbaillard:02320] [19] 21  Python                              0x0000000100092cce PyEval_EvalCodeEx + 1803
[macbaillard:02320] [20] 22  Python                              0x000000010009135e PyEval_EvalFrameEx + 15788
[macbaillard:02320] [21] 23  Python                              0x0000000100092cce PyEval_EvalCodeEx + 1803
[macbaillard:02320] [22] 24  Python                              0x000000010003488f PyClassMethod_New + 1666
[macbaillard:02320] [23] 25  Python                              0x0000000100012ff3 PyObject_Call + 112
[macbaillard:02320] [24] 26  Python                              0x000000010009254e PyEval_EvalFrameEx + 20380
[macbaillard:02320] [25] 27  Python                              0x0000000100092cce PyEval_EvalCodeEx + 1803
[macbaillard:02320] [26] 28  Python                              0x000000010003488f PyClassMethod_New + 1666
[macbaillard:02320] [27] 29  Python                              0x0000000100012ff3 PyObject_Call + 112
[macbaillard:02320] [28] 30  Python                              0x000000010009254e PyEval_EvalFrameEx + 20380
[macbaillard:02320] [29] 31  Python                              0x0000000100092cce PyEval_EvalCodeEx + 1803
[macbaillard:02320] *** End of error message ***
--------------------------------------------------------------------------
mpirun noticed that process rank 0 with PID 2320 on node macbaillard.ipgp.fr exited on signal 6 (Abort trap).
--------------------------------------------------------------------------
/Users/baillard/pylith/bin/nemesis: mpirun: exit 134
/Users/baillard/pylith/bin/pylith: /Users/baillard/pylith/bin/nemesis: exit 1

Could anybody help me with this? I work on Mac OSX

Best regards,

Christian Baillard, PhD student
Laboratoire de Géosciences Marines
Institut de Physique du Globe de Paris
Bureau 335 - 1,rue Jussieu
75238 Paris cedex 05
+33 (0)1 83 95 77 72




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