Fix errors in setting up 2d/strikeslip examples.

geodynamics · Jun 11, 2019 · 7bc6dff · 7bc6dff
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commit 7bc6dff
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Showing 5 changed files with 130 additions and 129 deletions.
diff --git a/examples/2d/strikeslip/pylithapp.cfg b/examples/2d/strikeslip/pylithapp.cfg
@@ -25,6 +25,31 @@ reader = pylith.meshio.MeshIOCubit
 reader.filename = mesh_tri.exo
 reader.coordsys.space_dim = 2
 
+# ----------------------------------------------------------------------
+# solution
+# ----------------------------------------------------------------------
+[pylithapp.problem]
+# For a quastistatic simulation with a fault, we have two solution fields:
+# (1) displacement and (2) Lagrange multiplier. We use a predefined containter
+# to create a solution field with these two subfields.
+solution = pylith.problems.SolnDispLagrange
+
+[pylithapp.problem.solution.subfields]
+displacement.basis_order = 1
+displacement.quadrature_order = 1
+
+lagrange_fault.basis_order = 1
+lagrange_fault.quadrature_order = 1
+
+[pylithapp.problem.solution_observers.domain]
+writer.filename = output/step01_slip_tri-domain.h5
+
+[pylithapp.problem.solution_observers.top_boundary]
+writer.filename = output/step01_slip_tri-boundary_ypos.h5
+
+[pylithapp.problem.solution_observers.bot_boundary]
+writer.filename = output/step01_slip_tri-boundary_yneg.h5
+
 # ----------------------------------------------------------------------
 # solution
 # ----------------------------------------------------------------------
@@ -46,14 +71,17 @@ solution_observers.top_boundary = pylith.meshio.OutputSolnBoundary
 solution_observers.bot_boundary = pylith.meshio.OutputSolnBoundary
 
 [pylithapp.problem.solution_observers.domain]
+data_fields = [displacement]
 # writer.filename = output/SIMULATION-domain.h5
 
 [pylithapp.problem.solution_observers.top_boundary]
 label = face_ypos
+data_fields = [displacement]
 #writer.filename = output/SIMULATION-boundary_ypos.h5
 
 [pylithapp.problem.solution_observers.bot_boundary]
 label = face_yneg
+data_fields = [displacement]
 #writer.filename = output/SIMULATION-boundary_yneg.h5
 
 # ----------------------------------------------------------------------
@@ -78,6 +106,7 @@ db_auxiliary_field = spatialdata.spatialdb.SimpleDB
 db_auxiliary_field.label = Elastic properties xneg
 db_auxiliary_field.iohandler.filename = elastic_xneg_matfields.spatialdb
 
+observers.observer.data_fields = [displacement, cauchy_stress, cauchy_strain]
 # observers.observer.writer.filename = output/SIMULATION-elastic_xneg.h5
 
 auxiliary_subfields.density.basis_order = 0
@@ -105,8 +134,8 @@ db_auxiliary_field = spatialdata.spatialdb.SimpleDB
 db_auxiliary_field.label = Elastic properties xpos
 db_auxiliary_field.iohandler.filename = elastic_xpos_matfields.spatialdb
 
+observers.observer.data_fields = [displacement, cauchy_stress, cauchy_strain]
 # observers.observer.writer.filename = output/SIMULATION-elastic_xpos.h5
-observers.observer.field_filter = pylith.meshio.FieldFilterNone
 
 auxiliary_subfields.density.basis_order = 0
 auxiliary_subfields.density.quadrature_order = 1
@@ -124,13 +153,65 @@ auxiliary_subfields.bulk_modulus.quadrature_order = 1
 auxiliary_subfields.shear_modulus.basis_order = 0
 auxiliary_subfields.shear_modulus.quadrature_order = 1
 
+# ----------------------------------------------------------------------
+# fault
+# ----------------------------------------------------------------------
+[pylithapp.problem]
+interfaces = [fault]
+
+[pylithapp.problem.interfaces.fault]
+# The label corresponds to the nodeset we created in CUBIT/Trelis for the fault.
+label = fault
+
+# For the fault, we need to specify an id associated with the cohesive cells that is
+# different from any of the ids for the materials.
+id = 10
+observers.observer.data_fields = [slip]
+#observers.observer.writer.filename = output/SIMULATION_slip-fault.h5
+
+# ----------------------------------------------------------------------
+# boundary conditions
+# ----------------------------------------------------------------------
+[pylithapp.problem]
+bc = [x_neg, x_pos]
+bc.x_neg = pylith.bc.DirichletTimeDependent
+bc.x_pos = pylith.bc.DirichletTimeDependent
+
+[pylithapp.problem.bc.x_pos]
+constrained_dof = [0, 1]
+label = face_xpos
+db_auxiliary_field = pylith.bc.ZeroDB
+db_auxiliary_field.label = Dirichlet BC +x boundary
+
+observers.observer.data_fields = [displacement]
+#observers.observer.writer.filename = output/SIMULATION_slip-bc_xpos.h5
+
+[pylithapp.problem.bc.x_neg]
+constrained_dof = [0, 1]
+label = face_xneg
+db_auxiliary_field = pylith.bc.ZeroDB
+db_auxiliary_field.label = Dirichlet BC -x boundary
+
+observers.observer.data_fields = [displacement]
+#observers.observer.writer.filename = output/SIMULATION_slip-bc_xneg.h5
+
 # ----------------------------------------------------------------------
 # PETSc
 # ----------------------------------------------------------------------
 [pylithapp.petsc]
 ts_type = beuler
 
-pc_type = ilu
+pc_type = fieldsplit
+pc_use_amat = true
+pc_fieldsplit_type = schur
+pc_fieldsplit_schur_factorization_type = full
+pc_fieldsplit_dm_splits = true
+fieldsplit_displacement_ksp_type = preonly
+fieldsplit_displacement_pc_type = lu
+fieldsplit_lagrange_multiplier_fault_pc_type = jacobi
+fieldsplit_lagrange_multiplier_fault_ksp_type = gmres
+fieldsplit_lagrange_multiplier_fault_ksp_rtol = 1.0e-11
+fieldsplit_lagrange_multiplier_fault_ksp_converged_reason = true
 
 ksp_rtol = 1.0e-8
 ksp_atol = 1.0e-12
@@ -150,8 +231,8 @@ snes_monitor = true
 snes_converged_reason = true
 snes_linesearch_monitor = true
 
-ksp_view = true
-snes_view = true
+#ksp_view = true
+#snes_view = true
 
 
 # End of file
diff --git a/examples/2d/strikeslip/step01_slip.cfg b/examples/2d/strikeslip/step01_slip.cfg
@@ -28,87 +28,55 @@
 [pylithapp]
 # You can view this file using the pylith_parameters application or
 # online at https://geodynamics.github.io/pylith_parameters/.
-dump_parameters.filename = output/step01_slip_tri-parameters.json
-# problem.progress_monitor.filename = output/step01_slip_tri-progress.txt
+dump_parameters.filename = output/step01_slip-parameters.json
+# problem.progress_monitor.filename = output/step01_slip-progress.txt
 
 # ----------------------------------------------------------------------
 # solution
 # ----------------------------------------------------------------------
-[pylithapp.problem]
-# For a quastistatic simulation with a fault, we have two solution fields:
-# (1) displacement and (2) Lagrange multiplier. We use a predefined containter
-# to create a solution field with these two subfields.
-solution = pylith.problems.SolnDispLagrange
-
-[pylithapp.problem.solution.subfields]
-displacement.basis_order = 1
-displacement.quadrature_order = 1
-
-lagrange_fault.basis_order = 1
-lagrange_fault.quadrature_order = 1
-
 [pylithapp.problem.solution_observers.domain]
-writer.filename = output/step01_slip_tri-domain.h5
+writer.filename = output/step01_slip-domain.h5
 
 [pylithapp.problem.solution_observers.top_boundary]
-writer.filename = output/step01_slip_tri-boundary_ypos.h5
+writer.filename = output/step01_slip-boundary_ypos.h5
 
 [pylithapp.problem.solution_observers.bot_boundary]
-writer.filename = output/step01_slip_tri-boundary_yneg.h5
+writer.filename = output/step01_slip-boundary_yneg.h5
 
 # ----------------------------------------------------------------------
 # materials
 # ----------------------------------------------------------------------
 [pylithapp.problem.materials.elastic_xneg]
-observers.observer.writer.filename = output/step01_slip_tri-elastic_xneg.h5
+observers.observer.writer.filename = output/step01_slip-elastic_xneg.h5
 
 [pylithapp.problem.materials.elastic_xpos]
-observers.observer.writer.filename = output/step01_slip_tri-elastic_xpos.h5
+observers.observer.writer.filename = output/step01_slip-elastic_xpos.h5
 
 # ----------------------------------------------------------------------
 # fault
 # ----------------------------------------------------------------------
-[pylithapp.problem]
-interfaces = [fault]
-
 [pylithapp.problem.interfaces.fault]
-# The label corresponds to the nodeset we created in CUBIT/Trelis for the fault.
-label = fault
-
-# For the fault, we need to specify an id associated with the cohesive cells that is
-# different from any of the ids for the materials.
-id = 10
-observers.observer.writer.filename = output/step01_slip_tri-fault.h5
+observers.observer.writer.filename = output/step01_slip-fault.h5
 
 [pylithapp.problem.interfaces.fault.eq_ruptures.rupture]
 db_auxiliary_field = spatialdata.spatialdb.UniformDB
 db_auxiliary_field.label = Fault rupture auxiliary field spatial database
 db_auxiliary_field.values = [initiation_time, final_slip_left_lateral, final_slip_opening]
-db_auxiliary_field.data = [0.0*s, 2.0*m, 0.0*m]
+db_auxiliary_field.data = [0.0*s, -2.0*m, 0.0*m]
 
 # ----------------------------------------------------------------------
 # boundary conditions
 # ----------------------------------------------------------------------
-[pylithapp.problem]
-bc = [x_neg,x_pos]
-bc.x_neg = pylith.bc.DirichletTimeDependent
-bc.x_pos = pylith.bc.DirichletTimeDependent
-
 [pylithapp.problem.bc.x_pos]
-constrained_dof = [0, 1]
-label = face_xpos
-db_auxiliary_field = pylith.bc.ZeroDB
-db_auxiliary_field.label = Dirichlet BC +x boundary
-
-observers.observer.writer.filename = output/step01_slip_tri-bc_xpos.h5
+observers.observer.writer.filename = output/step01_slip-bc_xpos.h5
 
 [pylithapp.problem.bc.x_neg]
-constrained_dof = [0, 1]
-label = face_xneg
-db_auxiliary_field = pylith.bc.ZeroDB
-db_auxiliary_field.label = Dirichlet BC -x boundary
+observers.observer.writer.filename = output/step01_slip-bc_xneg.h5
+
 
-observers.observer.writer.filename = output/step01_slip_tri-bc_xneg.h5
+[pylithapp.petsc]
+ksp_view = true
+snes_view = true
 
 
 # End of file
diff --git a/examples/2d/strikeslip/step02_slip_velbc.cfg b/examples/2d/strikeslip/step02_slip_velbc.cfg
@@ -28,100 +28,76 @@
 [pylithapp]
 # You can view this file using the pylith_parameters application or
 # online at https://geodynamics.github.io/pylith_parameters/.
-dump_parameters.filename = output/step02_slip_velbc_tri-parameters.json
-# problem.progress_monitor.filename = output/step02_slip_velbc_tri-progress.txt
+dump_parameters.filename = output/step02_slip_velbc-parameters.json
+# problem.progress_monitor.filename = output/step02_slip_velbc-progress.txt
 
 # ----------------------------------------------------------------------
 # problem
 # ----------------------------------------------------------------------
 [pylithapp.problem]
 initial_dt = 5.0*year
 start_time = -5.0*year
-total_time = 100.0*year
+total_time = 120.0*year
 
 # ----------------------------------------------------------------------
 # solution
 # ----------------------------------------------------------------------
-[pylithapp.problem]
-solution = pylith.problems.SolnDispLagrange
-
-[pylithapp.problem.solution.subfields]
-displacement.basis_order = 1
-displacement.quadrature_order = 1
-
-lagrange_fault.basis_order = 1
-lagrange_fault.quadrature_order = 1
-
 [pylithapp.problem.solution_observers.domain]
-writer.filename = output/step02_slip_velbc_tri-domain.h5
+writer.filename = output/step02_slip_velbc-domain.h5
 
 [pylithapp.problem.solution_observers.top_boundary]
-writer.filename = output/step02_slip_velbc_tri-boundary_ypos.h5
+writer.filename = output/step02_slip_velbc-boundary_ypos.h5
 
 [pylithapp.problem.solution_observers.bot_boundary]
-writer.filename = output/step02_slip_velbc_tri-boundary_yneg.h5
+writer.filename = output/step02_slip_velbc-boundary_yneg.h5
 
 # ----------------------------------------------------------------------
 # materials
 # ----------------------------------------------------------------------
 [pylithapp.problem.materials.elastic_xneg]
-observers.observer.writer.filename = output/step02_slip_velbc_tri-elastic_xneg.h5
+observers.observer.writer.filename = output/step02_slip_velbc-elastic_xneg.h5
 
 [pylithapp.problem.materials.elastic_xpos]
-observers.observer.writer.filename = output/step02_slip_velbc_tri-elastic_xpos.h5
+observers.observer.writer.filename = output/step02_slip_velbc-elastic_xpos.h5
 
 # ----------------------------------------------------------------------
 # fault
 # ----------------------------------------------------------------------
-[pylithapp.problem]
-interfaces = [fault]
-
 [pylithapp.problem.interfaces.fault]
-label = fault
-id = 10
-observers.observer.writer.filename = output/step02_slip_velbc_tri-fault.h5
+observers.observer.writer.filename = output/step02_slip_velbc-fault.h5
 
-# Earthquake rupture of 2.0*m of left-lateral motion occurs at 100 years.
+# Earthquake rupture of 2.0*m of right-lateral motion occurs at 100 years.
 # We use the default slip-time function, which is a step.
 [pylithapp.problem.interfaces.fault.eq_ruptures.rupture]
 db_auxiliary_field = spatialdata.spatialdb.UniformDB
 db_auxiliary_field.label = Fault rupture auxiliary field spatial database
 db_auxiliary_field.values = [initiation_time, final_slip_left_lateral, final_slip_opening]
-db_auxiliary_field.data = [100.0*year, 2.0*m, 0.0*m]
+db_auxiliary_field.data = [100.0*year, -2.0*m, 0.0*m]
 
 # ----------------------------------------------------------------------
 # boundary conditions
 # ----------------------------------------------------------------------
-[pylithapp.problem]
-bc = [x_neg, x_pos]
-bc.x_neg = pylith.bc.DirichletTimeDependent
-bc.x_pos = pylith.bc.DirichletTimeDependent
-
 # We have velocity boundary conditions, so we use the rate term in the
 # expression for time-dependent boundary conditions.
 [pylithapp.problem.bc.x_pos]
-constrained_dof = [0, 1]
-label = face_xpos
 use_initial = False
 use_rate = True
 
 db_auxiliary_field = spatialdata.spatialdb.SimpleDB
 db_auxiliary_field.label = Dirichlet BC +x boundary
 db_auxiliary_field.iohandler.filename = disprate_bc_xpos.spatialdb
 
-observers.observer.writer.filename = output/step02_slip_velbc_tri-bc_xpos.h5
+observers.observer.writer.filename = output/step02_slip_velbc-bc_xpos.h5
 
 [pylithapp.problem.bc.x_neg]
-constrained_dof = [0, 1]
-label = face_xneg
 use_initial = False
 use_rate = True
 
 db_auxiliary_field = spatialdata.spatialdb.SimpleDB
 db_auxiliary_field.label = Dirichlet BC -x boundary
 db_auxiliary_field.iohandler.filename = disprate_bc_xneg.spatialdb
 
-observers.observer.writer.filename = output/step02_slip_velbc_tri-bc_xneg.h5
+observers.observer.writer.filename = output/step02_slip_velbc-bc_xneg.h5
 
 
 # End of file