ASPECT 2.1.0-pre
deal.II 9.0.0-pre
Trilinos 12.10.1
p4rest 2.0.0
I would like to generate a 3d spherical shell from Earth surface to CMB with very high resolution for the surface. I was able to generate such a mesh with GMR5 + AMR2 for the crust, but when I want a GMR5 + AMR3, I have a SIGFPE received error. Also despite the high resolution, it did not see any memory issue yet (running on 28 nodes *30t).
I have the following backtraces in gdb:
#0 0x00000031a1e07c01 in __ieee754_acos () from /lib64/libm.so.6
#1 0x00000031a1e24812 in acos () from /lib64/libm.so.6
#2 0x00007ffff479aab0 in dealii::SphericalManifold<3, 3>::get_intermediate_point (this=, p1=…, p2=…, w=0.5)
at /home/aspect/deal.ii/deal.ii_2017-11-17/dealii/source/grid/manifold_lib.cc:292
#3 0x00007ffff47b0607 in dealii::SphericalManifold<3, 3>::get_new_point (this=0x1c97d48, vertices=…, weights=…)
at /home/aspect/deal.ii/deal.ii_2017-11-17/dealii/source/grid/manifold_lib.cc:378
#4 0x00007ffff4739eb6 in dealii::Manifold<3, 3>::get_new_point_on_line (this=0x1c97d48, line=…)
at /home/aspect/deal.ii/deal.ii_2017-11-17/dealii/source/grid/manifold.cc:314
#5 0x00007ffff47c4bc0 in dealii::(anonymous namespace)::get_new_point_on_object<3, 3> (obj=…)
at /home/aspect/deal.ii/deal.ii_2017-11-17/dealii/source/grid/tria_accessor.cc:1028
#6 0x00007ffff47c58d7 in dealii::(anonymous namespace)::get_new_point_on_object<1, 3, 3> (obj=…, use_laplace=use_laplace@entry=false)
at /home/aspect/deal.ii/deal.ii_2017-11-17/dealii/source/grid/tria_accessor.cc:1050
#7 0x00007ffff481cad5 in dealii::TriaAccessor<1, 3, 3>::center (this=0x7fffffff6670, respect_manifold=respect_manifold@entry=true,
use_laplace=use_laplace@entry=false) at /home/aspect/deal.ii/deal.ii_2017-11-17/dealii/source/grid/tria_accessor.cc:1403
#8 0x00007ffff4adc9ab in dealii::internal::Triangulation::Implementation::execute_refinement<3> (triangulation=…,
check_for_distorted_cells=) at /home/aspect/deal.ii/deal.ii_2017-11-17/dealii/source/grid/tria.cc:5248
#9 0x00007ffff4aec358 in dealii::Triangulation<3, 3>::execute_refinement (this=this@entry=0x7fffffffc1c0)
at /home/aspect/deal.ii/deal.ii_2017-11-17/dealii/source/grid/tria.cc:11922
#10 0x00007ffff4aecbdf in dealii::Triangulation<3, 3>::execute_coarsening_and_refinement (this=this@entry=0x7fffffffc1c0)
at /home/aspect/deal.ii/deal.ii_2017-11-17/dealii/source/grid/tria.cc:11806
#11 0x00007ffff4e2399c in dealii::parallel::distributed::Triangulation<3, 3>::copy_local_forest_to_triangulation (this=this@entry=0x7fffffffc1c0)
at /home/aspect/deal.ii/deal.ii_2017-11-17/dealii/source/distributed/tria.cc:2621
#12 0x00007ffff4e2698e in dealii::parallel::distributed::Triangulation<3, 3>::execute_coarsening_and_refinement (this=this@entry=0x7fffffffc1c0)
at /home/aspect/deal.ii/deal.ii_2017-11-17/dealii/source/distributed/tria.cc:2911
#13 0x0000000000b43380 in aspect::Simulator<3>::refine_mesh (this=this@entry=0x7fffffffb160, max_grid_level=max_grid_level@entry=9)
at /home/jeanniot/aspect/aspect_2018-08-13/aspect/source/simulator/core.cc:1491
#14 0x0000000000b95b99 in aspect::Simulator<3>::maybe_do_initial_refinement (this=this@entry=0x7fffffffb160, max_refinement_level=9)
at /home/jeanniot/aspect/aspect_2018-08-13/aspect/source/simulator/helper_functions.cc:373
#15 0x0000000000b42d5c in aspect::Simulator<3>::run (this=this@entry=0x7fffffffb160)
at /home/jeanniot/aspect/aspect_2018-08-13/aspect/source/simulator/core.cc:1754
#16 0x0000000000dafb05 in run_simulator<3> (input_as_string=…, output_xml=output_xml@entry=false,
output_plugin_graph=output_plugin_graph@entry=false, validate_only=validate_only@entry=false)
at /home/jeanniot/aspect/aspect_2018-08-13/aspect/source/main.cc:605
#17 0x0000000000d8566e in main (argc=2, argv=) at /home/jeanniot/aspect/aspect_2018-08-13/aspect/source/main.cc:796
I printed few variables:
p1 = -1.3096152364662485643558098770626746e+549
p2 = 2.70429662801675051088334272624006e+1927
other variables (e1,e2,w) did not “exist”
I did the computation in Q1 then Q2 and have the same issue.
I am not able to attach anything in here, so I copy-paste some important info of the input file:
set Dimension = 3
set End time = 0
set Use years in output instead of seconds = true
set Pressure normalization = surface
set Surface pressure = 0
subsection Geometry model
set Model name = spherical shell
subsection Spherical shell
set Inner radius = 3481000
set Outer radius = 6376000
set Cells along circumference = 12
end
end
subsection Mesh refinement
set Initial global refinement = 5
set Initial adaptive refinement = 3
set Skip solvers on initial refinement = true
set Skip setup initial conditions on initial refinement = true
set Strategy = minimum refinement function
subsection Minimum refinement function
set Coordinate system = spherical
set Variable names = depth, phi, theta
set Function expression = if (depth>6350000, 8, 5)
end
end
Let me know if you need further information,
Many thanks,
Ludovic