Hello,
I am trying to do a prognostic case of a glacier viscously flowing over time with no accumulation. My diagnostic case works perfectly. I have tried to follow the wiki in changing it a prognostic case but it doesn't seem to work  the solver runs but the free surface doesn't seem to actually be free. I suspect I am missing something obvious but can't figure it out. The problem may be in my boundary condition for the free surface:
Boundary Condition 3
Name = "surface"
Target Boundaries = 2
Body ID = 2
Top Surface = Variable Coordinate 1
Real cubic
include "icescarp70degground.dat"
End
Depth = Real 0.0
End
Where "icescarp70degground.dat" is the file containing the geometry of the initial glacier that is to flow. Should this instead be in the initial condition somewhere? I have attached the prognostic case sif (which works, thanks for the helpful documentation and notes!) and the diagnostic case sif.
trouble going from diagnostic to prognostic
trouble going from diagnostic to prognostic
 Attachments

 icescarp70degground.dat
 geometry of "glacier"
 (322.27 KiB) Downloaded 1753 times

 Mars_scarp_time.sif
 prognostic case, free surface doesn't work
 (7.59 KiB) Downloaded 1794 times

 Mars_scarp.sif
 diagnostic case, which works
 (5.62 KiB) Downloaded 1776 times
Re: trouble going from diagnostic to prognostic
Also attached are the msh files and the bedrock dat file... thanks in advance for any help
 Attachments

 meshfile.zip
 msh file
 (215.97 KiB) Downloaded 1946 times

 groundwide.dat
 bedrock dat file
 (322.27 KiB) Downloaded 1748 times

 meshstuff.zip
 mesh files (elements boundary header nodes)
 (225.24 KiB) Downloaded 1834 times
Re: trouble going from diagnostic to prognostic
The main issue is conected to the fact that your "Top Surface" keyword points to the initial data all the time, but rather should point to the result of your freesurface evolution equation. So, the good strategy would be to let the initial shape define the initial condition for the freesurface variable and link, as said before, the latter with "Top Surface"
Regards,
Thomas
Regards,
Thomas
Re: trouble going from diagnostic to prognostic
OK, thank you, that makes sense. I have changed my boundary condition for the top surface to just:
Boundary Condition 3
Name = "surface"
Target Boundaries = 2
Body ID = 2
Top Surface = Equals "Zs"
Depth = Real 0.0
End
To point to the result of the freesurface evolution equation. I think my problem is just that I am not putting in the initial condition correctly. If I do something like:
Initial Condition 2
Zs = Equals Variable Coordinate 2
Real cubic
include "icescarp70degground.dat"
End
RefZs = Equals Coordinate 2
End
I get an error for "Unknown Specifier" for property name "Real cubic." The same happens if I instead try and write a MATC expression in the initial condition. I think I must be missing something very easy  is this the incorrect syntax to input the initial shape? Or should it go in a different section, other than initial condition?
Boundary Condition 3
Name = "surface"
Target Boundaries = 2
Body ID = 2
Top Surface = Equals "Zs"
Depth = Real 0.0
End
To point to the result of the freesurface evolution equation. I think my problem is just that I am not putting in the initial condition correctly. If I do something like:
Initial Condition 2
Zs = Equals Variable Coordinate 2
Real cubic
include "icescarp70degground.dat"
End
RefZs = Equals Coordinate 2
End
I get an error for "Unknown Specifier" for property name "Real cubic." The same happens if I instead try and write a MATC expression in the initial condition. I think I must be missing something very easy  is this the incorrect syntax to input the initial shape? Or should it go in a different section, other than initial condition?
Re: trouble going from diagnostic to prognostic
Code: Select all
Initial Condition 2
Zs = Variable Coordinate 2
Real cubic
include "icescarp70degground.dat"
End
RefZs = Equals Coordinate 2
End
And then, of course, you have to take care that the solver that updates the mesh (StructuredMeshMapper) is executed before any other solver in the timeloop.
Regards,
Thomas
Re: trouble going from diagnostic to prognostic
OK, thank you! I am getting much closer. Elmer does run with that change, but the output does not have the glacier geometry, only the bedrock. I can get results with the correct glacier geometry using the following sif:
However, I don't think this is quite correct, because as you pointed out before the surface Boundary Condition is pointing toward what I want to be the initial state. I have played around a lot with when the StructuredMeshMapper is executed like you suggested, and with a Mesh Update solver, but think I am probably using them incorrectly  is it necessary to have Mesh Update terms in the BC, and would it make sense to have the top surface term inside one of the solvers instead of the BC?
Code: Select all
Header
Mesh DB "." "testglacier2"
Include Path ""
Results Directory ""
End
Simulation
Max Output Level = 4
Coordinate System = "Cartesian 2D"
Coordinate Mapping(3) = 1 2 3
Simulation Type = "Transient"
Steady State Max Iterations = 1
Timestepping Method = "BDF"
BDF Order = 1
Timestep Sizes = 1
Timestep Intervals = 3
Output Intervals = 1
Output File = "scarp_thirdtest.result"
Post File = "scarp_thirdtest.vtu" ! use .ep suffix for leagcy format
Initialize Dirichlet Conditions = Logical False
End
Constants
Gravity(4) = 0 1 0 3.711
Stefan Boltzmann = 5.67e08
End
Body 1
Name = "Glacier"
Body Force = 1
Equation = 1
Material = 1
Initial Condition = 1
End
Body 2
Name = "free surface"
Equation = 2
Material = 2
Body Force = 2
Initial Condition = 2
End
Equation 1
Name = "Equation1"
Convection = "computed"
Flow Solution Name = String "Flow Solution"
Active Solvers(5) = 1 2 3 4 6
End
Equation 2
Active Solvers(1) = 5
Flow Solution Name = String "Flow Solution"
Convection = Computed
End
Initial Condition 1
Velocity 1 = 0.0
Velocity 2 = 0.0
Pressure = 0.0
Depth = Real 0.0
End
Initial Condition 2
Zs = Variable Coordinate 2
Real cubic
include "icescarp70degground.dat"
End
ReferenceZs = Equals Coordinate 2
Mesh Update 2 = Real 0.0
Mesh Update 1 = Real 0.0
End
Solver 1
Exec Solver = "before simulation"
Equation = "MapCoordinate"
Procedure = "StructuredMeshMapper" "StructuredMeshMapper"
Active Coordinate = Integer 2 ! the meshupdate is ydirection
Mesh Velocity Variable = String "Mesh Velocity 2"
Mesh Velocity First Zero = Logical True
Dot Product Tolerance = Real 0.01
End
! FlowDepth on generally unstructured mesh
! (could be replaced by strucuterd version)
Solver 2
Equation = "Flowdepth"
Exec Solver = "Before Simulation"
Procedure = File "ElmerIceSolvers" "FlowDepthSolver"
Variable = String "Depth"
Variable DOFs = 1
Linear System Solver = "Direct"
Linear System Direct Method = "UMFPACK"
Linear System Max Iterations = 200
Linear System Convergence Tolerance = 1.0E09
Linear System Abort Not Converged = False
Linear System Preconditioning = "ILU0"
Linear System Residual Output = 1
Gradient = Real 1.0E00
Exported Variable 1 = dofs 3 "Mesh Velocity"
Calc Free Surface = Logical True
! the name for the exported (if not existing) added variable
! the gradients will be stored in variables with the base
! name given and "Grad1" and (in 3 dimensions) "Grad2" added,
! so in our case "FreeSurfGrad1" and "FreeSurfGrad2"
! again, if those variables did not exist, they will be
! automatically created
!
Freesurf Name = String "FreeSurf"
End
Solver 3
Equation = "NavierStokes"
Optimize Bandwidth = Logical True
Linear System Solver = Direct
Linear System Direct Method = "UMFPACK"
Linear System Max Iterations = 5000
Linear System Convergence Tolerance = 1.0E06
Linear System Abort Not Converged = False
Linear System Preconditioning = "ILU1"
Linear System Residual Output = 1
Steady State Convergence Tolerance = 1.0E05
Stabilization Method = Stabilized
Nonlinear System Convergence Tolerance = 1.0E04
Nonlinear System Convergence Measure = Solution
Nonlinear System Max Iterations = 50
Nonlinear System Newton After Iterations = 3
Nonlinear System Newton After Tolerance = 1.0E01
End
Solver 4
Equation = Sij
Procedure = "ElmerIceSolvers" "ComputeDevStress"
Variable = nooutput "Sij"
Variable DOFs = 1
Exported Variable 1 = dofs 4 Stress
Stress Variable Name = String "Stress"
Flow Solver Name = String "Flow Solution"
Linear System Solver = Direct
Linear System Direct Method = umfpack
End
Solver 5
Exec Solver = "After TimeStep"
Equation = String "Free Surface Evolution"
Variable = "Zs"
Variable DOFs = 1
Procedure = "FreeSurfaceSolver" "FreeSurfaceSolver"
Apply Dirichlet = Logical True
Linear System Solver = Iterative
Linear System Iterative Method = BiCGStab
Linear System Max Iterations = 100
Linear System Preconditioning = ILU1
Linear System Convergence Tolerance = 1.0e8
Nonlinear System Max Iterations = 100
Nonlinear System Min Iterations = 2
Nonlinear System Convergence Tolerance = 1.0e6
Steady State Convergence Tolerance = 1.0e4
Stabilization Method = Bubbles
Flow Solution Name = String "Flow Solution"
Exported Variable 1 = Zs Residual
Exported Variable 1 DOFS = 1
Exported Variable 2 = ReferenceZs
Exported Variable 2 DOFS = 1
End
Solver 6
Equation = "Mesh Update"
Exec Solver = "After TimeStep"
Linear System Solver = Iterative
Linear System Iterative Method = BiCGStab
Linear System Max Iterations = 500
Linear System Preconditioning = ILU1
Linear System Convergence Tolerance = 1.0e6
Nonlinear System Max Iterations = 1
Nonlinear System Convergence Tolerance = 1.0e06
End
! we use myrMPa system 1 yr = 31556926.0 sec
Material 1
Name = "iceicebaby"
Density = Real $910.0*1.0E06*(31556926.0)^(2.0)
Viscosity Model = String "Glen"
Viscosity = Real 1.0
Glen Exponent = Real 3.0
Critical Shear Rate = Real 1.0e10
Rate Factor 1 = Real 1.258e13
Rate Factor 2 = Real 6.046e28
Activation Energy 1 = Real 60e3
Activation Energy 2 = Real 139e3
Glen Enhancement Factor = Real 1.0
Mesh Elastic Modulus = 1.0
Mesh Poisson Ratio = 0.3
! 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 0.0
Constant Temperature = Real MATC "220273.15"
Cauchy = Logical False
End
Material 2
Density = Real $910.0*1.0E06*(31556926.0)^(2.0)
! Min Zs = Real 0.0
! Max Zs = Real 900.0
End
Body Force 1
Name = "BodyForce1"
Heat Source = 1
Flow BodyForce 1 = Real 0.0
Flow BodyForce 2 = Real 3.711e15 !MPa  a  m
End
Body Force 2
Zs Accumulation Flux 1 = Real 0.0
Zs Accumulation Flux 2 = Real 0.0
End
Boundary Condition 1
Name = "bedrock"
Target Boundaries = 1
Compute Normals = Logical True
Bottom Surface = Variable Coordinate 1
Real cubic
include "groundwide.dat"
End
Velocity 1 = Real 0.0e0
Velocity 2 = Real 0.0e0
Mesh Update 1 = Real 0.0
Mesh Update 2 = Real 0.0
End
Boundary Condition 2
Name = "sides"
Target Boundaries(2) = 3 4 ! combine left and right boundary
Velocity 1 = 0.0
Mesh Update 1 = Real 0.0
Mesh Update 2 = Real 0.0
End
Boundary Condition 3
Name = "surface"
Target Boundaries = 2
Body ID = 2
Top Surface = Variable Coordinate 1
Real cubic
include "icescarp70degground.dat"
End
! Top Surface = Equals Zs
Depth = Real 0.0
Mesh Update 1 = Real 0.0
Mesh Update 2 = Variable Zs, ReferenceZs
Real MATC "tx(0)  tx(1)"
End
Re: trouble going from diagnostic to prognostic
Hello,
I didn't realize your MeshUpdate in the first instance  sorry. Then you can do it such that you just initialize, imposing the data directly to Top Surface and then couple the FS to the MeshUpdate variable, sacrificing the advantage of having a vertically structured mesh. Or, you do as I suggested and link the Top Surface to FS  your choice. In any way, you should initialize the ReferenceFS (now set to Ycoords in the unaltered mesh) with the same values as the initial FS.
Best wishes,
Thomas
I didn't realize your MeshUpdate in the first instance  sorry. Then you can do it such that you just initialize, imposing the data directly to Top Surface and then couple the FS to the MeshUpdate variable, sacrificing the advantage of having a vertically structured mesh. Or, you do as I suggested and link the Top Surface to FS  your choice. In any way, you should initialize the ReferenceFS (now set to Ycoords in the unaltered mesh) with the same values as the initial FS.
Best wishes,
Thomas