Hey all -
Thought I'd post issue here since I have been thrown the same error.
I am doing some simple flow-line modelling in a relatively small model domain. I have been creating an extruded mesh using gmsh. Any time I chose a mesh resolution of less than 10 meters for either my z or x resolution, I get thrown the error DetectExtrudedStructure when I run my . sif file.
Code: Select all
MAIN: Reading Model: cavity_base.sif
LoadInputFile: Scanning input file: cavity_base.sif
LoadInputFile: Loading input file: cavity_base.sif
Model Input: Unlisted keyword: [depth] in section: [initial condition 1]
Model Input: Unlisted keyword: [mesh velocity first zero] in section: [solver 1]
Model Input: Unlisted keyword: [flow solver name] in section: [solver 4]
Model Input: Unlisted keyword: [strainrate variable name] in section: [solver 4]
Model Input: Unlisted keyword: [rate factor 1] in section: [material 1]
Model Input: Unlisted keyword: [rate factor 2] in section: [material 1]
Model Input: Unlisted keyword: [activation energy 1] in section: [material 1]
Model Input: Unlisted keyword: [activation energy 2] in section: [material 1]
Model Input: Unlisted keyword: [limit temperature] in section: [material 1]
Model Input: Unlisted keyword: [constant temperature] in section: [material 1]
Loading user function library: [StructuredMeshMapper]...[StructuredMeshMapper_Init0]
Loading user function library: [StructuredProjectToPlane]...[StructuredProjectToPlane_Init0]
Loading user function library: [ElmerIceSolvers]...[ComputeStrainRate_Init0]
LoadMesh: Base mesh name: ./ed_domain_2m
MAIN: -------------------------------------
AddVtuOutputSolverHack: Adding ResultOutputSolver to write VTU output in file: s40_a10_b120
Loading user function library: [StructuredMeshMapper]...[StructuredMeshMapper_Init]
Loading user function library: [StructuredMeshMapper]...[StructuredMeshMapper_bulk]
Loading user function library: [StructuredMeshMapper]...[StructuredMeshMapper]
Loading user function library: [StructuredProjectToPlane]...[StructuredProjectToPlane_Init]
Loading user function library: [StructuredProjectToPlane]...[StructuredProjectToPlane_bulk]
Loading user function library: [StructuredProjectToPlane]...[StructuredProjectToPlane]
Loading user function library: [FlowSolve]...[FlowSolver_Init]
Loading user function library: [FlowSolve]...[FlowSolver_bulk]
Loading user function library: [FlowSolve]...[FlowSolver]
Loading user function library: [ElmerIceSolvers]...[ComputeStrainRate_Init]
Loading user function library: [ElmerIceSolvers]...[ComputeStrainRate_bulk]
Loading user function library: [ElmerIceSolvers]...[ComputeStrainRate]
Loading user function library: [ResultOutputSolve]...[ResultOutputSolver_Init]
Loading user function library: [ResultOutputSolve]...[ResultOutputSolver_bulk]
Loading user function library: [ResultOutputSolve]...[ResultOutputSolver]
StructuredMeshMapper: ---------------------------------------
StructuredMeshMapper: Performing mapping on a structured mesh
StructuredMeshMapper: ---------------------------------------
DetectExtrudedStructure: Top and bottom pointer init time: 0.69200000000000017
DetectExtrudedStructure: Top and bottom pointer init rounds: 90
DetectExtrudedStructure: Number of nodes at the top: 10001
DetectExtrudedStructure: Number of nodes at the bottom: 10001
StructuredMeshMapper: Active coordinate mapping time: 3.2000000000000028E-002
MAIN:
MAIN: -------------------------------------
MAIN: Steady state iteration: 1
MAIN: -------------------------------------
MAIN:
StructuredProjectToPlane: ------------------------------------------
StructuredProjectToPlane: Performing projection on a structured mesh
StructuredProjectToPlane: ------------------------------------------
DetectExtrudedStructure: Try to increase value for > Dot Product Tolerance <
ERROR:: DetectExtrudedStructure: Zero rounds implies unsuccesfull operation
I have modified my dot product tolerance - but can't seem to find any value that will make the DetectExtrudedStructure happy. I have attached my .sif file and my .geo file originally used to produce my mesh. Any help would be much appreciated.
Cheers,
Nate Maier
Code: Select all
!1/23/17 - cavity_base- 2-d flowline model to test how short length scale contrasts on in basal slipperiness will modify the basa!strain field.
!echo on
Header
!CHECK KEYWORDS Warn
Mesh DB "." "ed_domain_2m" ! 10000 x 750 m model domain with 20 m resolution in x and y.
Include Path ""
Results Directory ""
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
Simulation
Max Output Level = 4
Coordinate System = "Cartesian 2D"
Coordinate Mapping(3) = 1 2 3
Simulation Type = "Steady"
Steady State Max Iterations = 1
Output Intervals = 1
Output File = "s40_a10_b120.result" ! Need to edit the slip ratio in active region
Post File = "s40_a10_b120.vtu" ! use .ep suffix for leagcy format
Initialize Dirichlet Conditions = Logical False
!Restart File = "Stokes_ELA400_diagnostic.result" ! Restart from previous result to save iterations
!Restart Position = 0
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
Constants
Gas Constant = Real 8.314 !Joule/mol
Stefan Boltzmann = 5.67e-08 ! I think for heat equation?
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!SLIP FUNCTION - this is our basal boundary slip function. Coded in fortran 90.
$ function slide(X) {\
if (X(0) > 5100)\
{_slide = 0.00018;}\
else if (X(0) < 4900)\
{_slide = 0.00018;}\
else\
{ _slide = 0.005;}\
}
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!Glens Flow Law - different way to apply glens flow law used below
$ function glen(Th) {\
EF = 1.0;\
AF = getArrheniusFactor(Th);\
_glen = (2.0*EF*AF)^(-1.0/3.0);\
}
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!Arrhenius Factor Needed by Glens Flow Law - different way to apply glens flow law used below
$ function getArrheniusFactor(Th){ \
if (Th<-10) {_getArrheniusFactor=3.985E-13 * exp( -60.0E03/(8.314 * (273.15 + Th)));}\
else {\
if (Th>0) _getArrheniusFactor=1.916E03 * exp( -139.0E03/(8.314 * (273.15)));\
else _getArrheniusFactor=1.916E03 * exp( -139.0E03/(8.314 * (273.15 + Th)));}\
}
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
Body 1
Name = "Glacier"
Body Force = 1
Equation = 1
Material = 1
Initial Condition = 1
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
Equation 1
Name = "Equation1"
Convection = "computed"
Flow Solution Name = String "Flow Solution"
Active Solvers(4) = 1 2 3 4
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
Initial Condition 1
! Velocity 1 = 0.0
! Velocity 2 = 0.0
! Pressure = 0.0
Depth = Real 0.0
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Is used to map surface and basal boundaries into mesh
Solver 1
Exec Solver = "before Simulation"
Equation = "MapCoordinate"
Procedure = "StructuredMeshMapper" "StructuredMeshMapper"
Active Coordinate = Integer 2 ! the mesh-update is y-direction
! For time being this is currently externally allocated
Mesh Velocity Variable = String "Mesh Velocity 2"
! The 1st value is special as the mesh velocity could be unrelistically high
Mesh Velocity First Zero = Logical True
! The accuracy applied to vector-projections
Dot Product Tolerance = Real 0.01
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Solves for height above the bed and depth below the free surface
Solver 2
Equation = "HeightDepth"
Procedure = "StructuredProjectToPlane" "StructuredProjectToPlane"
Active Coordinate = Integer 2
Operator 1 = depth
Operator 2 = height
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! the central part of the problem: the Stokes solver
Solver 3
! Exec Solver = "Never" # uncommenting would switch this off
Equation = "Navier-Stokes"
Optimize Bandwidth = Logical True
! direct solver
Linear System Solver = Direct
Linear System Direct Method = "UMFPACK"
! alternative to above - Krylov subspace iterative solution
! Linear System Solver = "Iterative"
! Linear System Iterative Method = "GCR" !or "BICGStab"
Linear System Max Iterations = 5000
Linear System Convergence Tolerance = 1.0E-06
Linear System Abort Not Converged = False
Linear System Preconditioning = "ILU1"
Linear System Residual Output = 1
Flow Model = Stokes
Steady State Convergence Tolerance = 1.0E-05
! Stabilization Method can be [Stabilized,P2/P1,Bubbles]
Stabilization Method = Bubbles
Nonlinear System Convergence Tolerance = 5.0E-04
Nonlinear System Convergence Measure = Solution
Nonlinear System Max Iterations = 100
Nonlinear System Newton After Iterations = 10
Nonlinear System Newton After Tolerance = 1.0E-01
Nonlinear System Relaxation Factor = 0.75
Exported Variable 1 = -dofs 3 "Mesh Velocity"
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!NM - Strain rate solver - exports the strain-rate tensor in results file
Solver 4
Equation = "Eij"
Variable = -nooutput "Eij"
Variable DOFs = 1
Exported Variable 1 = "StrainRate"
Exported Variable 1 DOFs = 5
Procedure = "ElmerIceSolvers" "ComputeStrainRate"
Flow Solver Name = String "Flow Solution"
StrainRate Variable Name = String "StrainRate"
Linear System Solver = Direct
Linear System Direct Method = umfpack
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! we use m-yr-MPa system 1 yr = 31556926.0 sec
! need to spend some time looking at this
Material 1
Name = "ice"
Density = Real $910.0*1.0E-06*(31556926.0)^(-2.0)
Viscosity Model = String "Glen"
! Glen's flow law (using Glen)
!----------------
! viscosity stuff
!----------------
Viscosity Model = String "Glen"
! Viscosity has to be set to a dummy value
! to avoid warning output from Elmer
Viscosity = Real 1.0
Glen Exponent = Real 3.0
Critical Shear Rate = Real 1.0e-10
! Rate factors (Paterson value in MPa^-3a^-1)
Rate Factor 1 = Real 1.258e13
Rate Factor 2 = Real 6.046e28
! these are in SI units - no problem, as long as
! the gas constant also is
Activation Energy 1 = Real 60e3
Activation Energy 2 = Real 139e3
Glen Enhancement Factor = Real 1.0
! the variable taken to evaluate the Arrhenius law
! in general this should be the temperature relative
! to pressure melting point. The suggestion below plugs
! in the correct value obtained with TemperateIceSolver
Temperature Field Variable = String "Temp Homologous"
! the temperature to switch between the
! two regimes in the flow law
Limit Temperature = Real -10.0
!
Constant Temperature = Real -3.0
! Setting temperature to vary as a function of height using data
!!NOTE!! The lines below have to be justified exactly like this or they will not work
!Constant Temperature = Variable height
!Real cubic
!include "GL15SiteCA_Temp_form.dat"
!End
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!Defines gravity as body force
Body Force 1
Name = "BodyForce1"
Heat Source = 1
Flow BodyForce 1 = Real 0.0
Flow BodyForce 2 = Real $-9.81 * (31556926.0)^(2.0) !MPa - a - m
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
Boundary Condition 1
Name = "bedrock"
Target Boundaries = 1
! Using MATC to set bedrock boundry to bottom of mesh
Bottom Surface = Variable Coordinate 1
Real MATC "200-tx*tan(0.0174533)+2.5*sin((2*3.14/20)*tx)"
Normal-Tangential Velocity = Logical True
Velocity 1 = Real 0.0e0
Slip Coefficient 2 = Real 0.0011
!Slip Coefficient 2 = Variable Coordinate 1
!include "perc_50.dat"
!End
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
Boundary Condition 2
Name = "surface"
Target Boundaries = 2
!Using MACT function to set surface slope based on x coordinate
Top Surface = Variable Coordinate 1
Real MATC "900-tx*tan(0.0174533)"
End
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!par!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Upgradient Boundary Condition - Perscribed Velocity - this boundary condition has trouble with convergence without loosening to tolerances for the stokes solver
Boundary Condition 3
Name = "sides"
Target Boundaries(2) = 3 4 ! combine left and right boundary
!Velocity 1 = Real 300
Velocity 1 = Variable Depth
Real cubic
include "bound_120.dat"
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Downgradient Boundary Condition - External Pressure
!Boundary Condition 4
! Name = "downgradient"
!Target Boundaries = 4
!Velocity 1 = Real 300
!Velocity 1 = Variable Depth
!Real cubic
!include "bound_down_120.dat"
!End
!End
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Point(1) = {10000, 0, 0, 2};
Point(2) = {0, 0, 0, 2};
Line(1) = {2, 1};
Extrude {0, 900, 0} {
Line{1};Layers{450};Recombine;
}
Physical Surface(6) = {5};
Physical Line(7) = {1};
Physical Line(8) = {2};
Physical Line(9) = {3};
Physical Line(10) = {4};