Element Quality with auto-meshing

[mmegally]

Description

Error: MMG5_minQualCheck: too bad quality for the worst element: (elt 49214 -> 0.000000e+00)

Traceback (most recent call last):
File "C:\Users\micha\miniconda3\envs\svv\lib\site-packages\svv\utils\remeshing\remesh.py", line 536, in remesh_surface
subprocess.check_call(executable_list)
File "C:\Users\micha\miniconda3\envs\svv\lib\subprocess.py", line 373, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['C:\Users\micha\miniconda3\envs\svv\lib\site-packages\svv\utils\remeshing\Windows\mmgs_O3.exe', 'tmp.mesh', '-v', '1', '-hsiz', '0.0035423998394562674']' returned non-zero exit status 1.

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
File "", line 1, in
File "C:\Users\micha\Downloads\Simulations\Pyvista Scripts\sample_baffle\Sample_Baffle.py", line 22, in
sim.build_meshes(fluid=True,tissue=True,boundary_layer=False)
File "C:\Users\micha\miniconda3\envs\svv\lib\site-packages\svv\simulation\simulation.py", line 97, in build_meshes
fluid_surface_mesh = self.synthetic_object.export_solid(watertight=True)
File "C:\Users\micha\miniconda3\envs\svv\lib\site-packages\svv\tree\tree.py", line 296, in export_solid
model = build_watertight_solid(self)
File "C:\Users\micha\miniconda3\envs\svv\lib\site-packages\svv\tree\export\export_solid.py", line 733, in build_watertight_solid
model = union_tubes(tubes, lines, cap_resolution=cap_resolution)
File "C:\Users\micha\miniconda3\envs\svv\lib\site-packages\svv\tree\export\export_solid.py", line 708, in union_tubes
model = remesh_surface(model, hsiz=hsize)
File "C:\Users\micha\miniconda3\envs\svv\lib\site-packages\svv\utils\remeshing\remesh.py", line 562, in remesh_surface
subprocess.check_call(executable_list)
File "C:\Users\micha\miniconda3\envs\svv\lib\subprocess.py", line 373, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['C:\Users\micha\miniconda3\envs\svv\lib\site-packages\svv\utils\remeshing\Windows\mmgs_O3.exe', 'tmp.mesh', '-v', '1', '-hsiz', '0.0035423998394562674']' returned non-zero exit status 1.

Reproduction

import pyvista as pv
from svv.domain.domain import Domain
from svv.tree.tree import Tree

mesh = pv.read('sample_baffle_extrude_allometric3_repaired2.stl').triangulate()
baffle = Domain(mesh)
baffle.create()
baffle.solve()
baffle.build()

t = Tree()
t.set_domain(baffle)
t.parameters.set('root_pressure',100)
t.parameters.set('terminal_pressure',0)
t.set_root()
t.n_add(10)

from svv.simulation.simulation import Simulation

sim = Simulation(t)
sim.build_meshes(fluid=True,tissue=True,boundary_layer=False)
sim.extract_faces()

sim.construct_3d_fluid_simulation()
sim.write_3d_fluid_simulation()

Expected behavior

generate mesh files

Additional context

No response

Code of Conduct

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