[cig-commits] r11654 - in short/3D/PyLith/trunk/examples/3d: . bar_hex8 bar_tet4
brad at geodynamics.org
brad at geodynamics.org
Mon Mar 31 00:04:29 PDT 2008
Author: brad
Date: 2008-03-31 00:04:29 -0700 (Mon, 31 Mar 2008)
New Revision: 11654
Added:
short/3D/PyLith/trunk/examples/3d/bar_tet4/
short/3D/PyLith/trunk/examples/3d/bar_tet4/README
short/3D/PyLith/trunk/examples/3d/bar_tet4/bar_tet4_200m.gmv
short/3D/PyLith/trunk/examples/3d/bar_tet4/bar_tet4_200m.pset
short/3D/PyLith/trunk/examples/3d/bar_tet4/matprops.spatialdb
short/3D/PyLith/trunk/examples/3d/bar_tet4/mesh_tet4_200m.lagrit
short/3D/PyLith/trunk/examples/3d/bar_tet4/output/
short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave.cfg
short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave_slip.spatialdb
short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave_sliprate.spatialdb
short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave_sliptime.spatialdb
Modified:
short/3D/PyLith/trunk/examples/3d/bar_hex8/README
short/3D/PyLith/trunk/examples/3d/bar_hex8/shearwave.cfg
Log:
Added bar_tet4 example (same as bar_hex8 but with tet4 cells).
Modified: short/3D/PyLith/trunk/examples/3d/bar_hex8/README
===================================================================
--- short/3D/PyLith/trunk/examples/3d/bar_hex8/README 2008-03-31 06:39:25 UTC (rev 11653)
+++ short/3D/PyLith/trunk/examples/3d/bar_hex8/README 2008-03-31 07:04:29 UTC (rev 11654)
@@ -4,7 +4,8 @@
vertices are fixed in the longitudinal and other shear direction)
generates a shear wave that propagates down the bar. Absorbing
boundary conditions on each end perfectly absorb the shear wave.
-The bar is discretized with hexahedral cells.
+The bar is discretized with hexahedral cells (see examples/3d/bar_tet4)
+for the same problem discretized with tetrahedral cells.
Files associated with the example problem:
@@ -18,3 +19,7 @@
peak slip rate
- shearwave_sliptime.spatialdb: Spatial database with values for the
slip initiation time
+
+To run the problem, enter
+
+ pylith shearwave.cfg
Modified: short/3D/PyLith/trunk/examples/3d/bar_hex8/shearwave.cfg
===================================================================
--- short/3D/PyLith/trunk/examples/3d/bar_hex8/shearwave.cfg 2008-03-31 06:39:25 UTC (rev 11653)
+++ short/3D/PyLith/trunk/examples/3d/bar_hex8/shearwave.cfg 2008-03-31 07:04:29 UTC (rev 11654)
@@ -48,7 +48,7 @@
formulation = pylith.problems.Explicit
# Reuse solution from previous time step as initial guess for next time step
-#formulation.solver.initial_guess_zero = False
+formulation.solver.initial_guess_zero = False
# Set bc to an array with 3 boundary conditions: 'x_neg', 'x_pos', and 'y_pos'.
bc = [x_pos,x_neg,y_pos]
Added: short/3D/PyLith/trunk/examples/3d/bar_tet4/README
===================================================================
--- short/3D/PyLith/trunk/examples/3d/bar_tet4/README (rev 0)
+++ short/3D/PyLith/trunk/examples/3d/bar_tet4/README 2008-03-31 07:04:29 UTC (rev 11654)
@@ -0,0 +1,25 @@
+This directory contains a wave propagation example problem. We create
+a shear dislocation in a rectangular, elastic bar 8 km long with a
+square cross-section 400 m on a side. The shear dislocation (the
+vertices are fixed in the longitudinal and other shear direction)
+generates a shear wave that propagates down the bar. Absorbing
+boundary conditions on each end perfectly absorb the shear wave.
+The bar is discretized with tetrahedral cells (see examples/3d/bar_hex8)
+for the same problem discretized with hexahedral cells.
+
+Files associated with the example problem:
+
+ - mesh_tet4_200m.lagrit: LaGriT script file for meshing the problem
+ - shearwave.cfg: Parameter settings for the shear wave dislocation problem
+ - matprops.spatialdb: Material database of physical properties
+ - bar_tet4_200m.gmv: GMV file with mesh generated by LaGriT
+ - bar_tet4_200m.pset: Pset file with point sets for mesh generated by LaGriT
+ - shearwave_slip.spatialdb: Spatial database with values for final slip
+ - shearwave_sliprate.spatialdb: Spatial database with values for the
+ peak slip rate
+ - shearwave_sliptime.spatialdb: Spatial database with values for the
+ slip initiation time
+
+To run the problem, enter
+
+ pylith shearwave.cfg
Added: short/3D/PyLith/trunk/examples/3d/bar_tet4/bar_tet4_200m.gmv
===================================================================
--- short/3D/PyLith/trunk/examples/3d/bar_tet4/bar_tet4_200m.gmv (rev 0)
+++ short/3D/PyLith/trunk/examples/3d/bar_tet4/bar_tet4_200m.gmv 2008-03-31 07:04:29 UTC (rev 11654)
@@ -0,0 +1,1300 @@
+gmvinput ascii
+codename LaGriT
+simdate ô/14/07
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+ 0.00000E+000 0.00000E+000 0.00000E+000 0.00000E+000 0.00000E+000 0.00000E+000 0.00000E+000 0.00000E+000 0.00000E+000
+endvars
+flags
+imt1 3 1
+mr_xpos
+mr_xneg
+ERROR
+ 1 2 2 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2
+endflag
+material 3 0
+mr_xpos
+mr_xneg
+ERROR
+ 2 2 1 1 2 1 1 2 2 2 2 1 2 2 1 2 1 1 1 2
+ 1 2 2 2 1 1 2 2 2 2 1 1 1 2 1 1 2 1 1 1
+ 1 1 1 1 1 1 1 2 2 1 1 1 1 2 1 1 2 2 1 2
+ 1 2 2 2 2 1 2 1 2 2 1 1 1 1 2 1 1 1 2 2
+ 2 2 1 2 2 2 2 2 2 1 1 2 1 1 1 2 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 2 2 1
+ 1 2 1 1 1 1 1 1 2 2 2 1 1 2 1 2 1 1 2 1
+ 2 2 1 2 2 1 2 2 2 1 1 2 2 2 2 2 2 2 2 1
+ 2 2 2 1 2 1 1 2 1 1 1 2 1 2 2 2 1 2 1 1
+ 2 2 1 2 2 1 1 1 2 1 1 2 2 2 1 1 2 1 1 2
+ 1 2 2 1 2 2 1 1 1 1 1 2 2 1 1 1 1 2 1 1
+ 2 2 2 2 1 1 1 2 2 1 2 2 2 1 2 2 1 1 1 2
+ 2 2 1 1 2 2 2 2 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 2 1 1 1 1 1 1 2 2 1 2 1 2 2 1 1 1
+ 2 1 1 1 1 1 2 1 2 1 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 1 2 1 2 2
+ 2 2 1 2 1 1 1 1 1 1 2 1 1 2 2 2 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 2
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 2 2 2 2 1 2 1 2 2 1 1 2 2 1 2 2 2
+ 2 1 1 2 2 2 2 1 2 2 2 1 2 2 2 2 2 2 2 2
+ 2 2 2 1 1 2 2 2 2 2 1 1 2 1 2 1 2 2 1 2
+ 1 1 1 1 1 2 2 1 1 2 2 2 1 1 2 2 2 2 1 1
+ 1 1 2 2 1 2 2 1 1 1 2 1 1 2 1 2 1 2 1 1
+ 1 1 2 2 2 2 2 2 1 2 2 2 2 2 2 2 2 1 2 2
+ 1 1 2 2 2 2 1 1 1 1 2 1 2 1 1 2 1 1 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 1 2 1 2 2 1 2 2
+ 1 2 1 1 2 1 1 1 2 2 2 1 1 1 2 2 2 1 2 1
+ 1 1 1 2 1 2 1 2 2 2 1 1 1 2 2 1 2 1 2 1
+ 2 1 2 2 1 2 2 2 2 2 2 2 1 1 1 2 2 2 1 1
+ 2 2 1 1 1 2 2 1 2 1 1 2 2 2 2 2 1 2 2 1
+ 2 1 1 2 1 2 1 2 2 2 1 1 1 2 1 2 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 2 2 2 1 2 2 1 1
+ 2 1 2 2 1 1 1 1 2 1 2 2 2 2 1 2 1 1 1 1
+ 2 1 1 1 1 2 2 2 1 2 1 1 1 2 1 1 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 1 1 2 1 2 2 1 1 1 2 1 1 2
+ 2 2 2 1 1 2 1 2 1 2 2 2 1 1 1 1 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 2 1 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2 2 2 1 1 1 1 2 1 2 2
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
+ 1 1 2 2 1 1 2 2 2 2 1 1 2 2 2 2 1 1 2 1
+ 2 1 1 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2
+ 2 2 2 2 2 2 2 2 2 2
+cycleno 0
+probtime 0.00000E+000
+endgmv
Added: short/3D/PyLith/trunk/examples/3d/bar_tet4/bar_tet4_200m.pset
===================================================================
--- short/3D/PyLith/trunk/examples/3d/bar_tet4/bar_tet4_200m.pset (rev 0)
+++ short/3D/PyLith/trunk/examples/3d/bar_tet4/bar_tet4_200m.pset 2008-03-31 07:04:29 UTC (rev 11654)
@@ -0,0 +1,44 @@
+pset ascii 4
+fault 1 9
+ 1 2 3 64 65 66 127 128 129
+boundary_xm 2 9
+ 190 191 192 250 251 252 310 311 312
+boundary_xp 3 9
+ 61 62 63 124 125 126 187 188 189
+pts_notfault 4 360
+ 4 5 6 7 8 9 10 11 12 13
+ 14 15 16 17 18 19 20 21 22 23
+ 24 25 26 27 28 29 30 31 32 33
+ 34 35 36 37 38 39 40 41 42 43
+ 44 45 46 47 48 49 50 51 52 53
+ 54 55 56 57 58 59 60 61 62 63
+ 67 68 69 70 71 72 73 74 75 76
+ 77 78 79 80 81 82 83 84 85 86
+ 87 88 89 90 91 92 93 94 95 96
+ 97 98 99 100 101 102 103 104 105 106
+ 107 108 109 110 111 112 113 114 115 116
+ 117 118 119 120 121 122 123 124 125 126
+ 130 131 132 133 134 135 136 137 138 139
+ 140 141 142 143 144 145 146 147 148 149
+ 150 151 152 153 154 155 156 157 158 159
+ 160 161 162 163 164 165 166 167 168 169
+ 170 171 172 173 174 175 176 177 178 179
+ 180 181 182 183 184 185 186 187 188 189
+ 190 191 192 193 194 195 196 197 198 199
+ 200 201 202 203 204 205 206 207 208 209
+ 210 211 212 213 214 215 216 217 218 219
+ 220 221 222 223 224 225 226 227 228 229
+ 230 231 232 233 234 235 236 237 238 239
+ 240 241 242 243 244 245 246 247 248 249
+ 250 251 252 253 254 255 256 257 258 259
+ 260 261 262 263 264 265 266 267 268 269
+ 270 271 272 273 274 275 276 277 278 279
+ 280 281 282 283 284 285 286 287 288 289
+ 290 291 292 293 294 295 296 297 298 299
+ 300 301 302 303 304 305 306 307 308 309
+ 310 311 312 313 314 315 316 317 318 319
+ 320 321 322 323 324 325 326 327 328 329
+ 330 331 332 333 334 335 336 337 338 339
+ 340 341 342 343 344 345 346 347 348 349
+ 350 351 352 353 354 355 356 357 358 359
+ 360 361 362 363 364 365 366 367 368 369
Added: short/3D/PyLith/trunk/examples/3d/bar_tet4/matprops.spatialdb
===================================================================
--- short/3D/PyLith/trunk/examples/3d/bar_tet4/matprops.spatialdb (rev 0)
+++ short/3D/PyLith/trunk/examples/3d/bar_tet4/matprops.spatialdb 2008-03-31 07:04:29 UTC (rev 11654)
@@ -0,0 +1,25 @@
+#SPATIAL.ascii 1
+SimpleDB {
+ // number of physical properties
+ num-values = 3
+
+ // Names and units of physical properties
+ value-names = density vs vp
+ value-units = kg/m^3 m/s m/s
+
+ // Number of locations where physical properties are given
+ // 1 location -> data is uniform -> data dimension is 0
+ num-locs = 1
+ data-dim = 0
+
+ // Problem is in 3-D
+ space-dim = 3
+
+ // Coordinate system (3-D with coordinates in meters)
+ cs-data = cartesian {
+ to-meters = 1.0
+ space-dim = 3
+ }
+}
+// Columns are x, y, z, density, vs, vp
+0.0 0.0 0.0 2500.0 1000.0 1732.0
Added: short/3D/PyLith/trunk/examples/3d/bar_tet4/mesh_tet4_200m.lagrit
===================================================================
--- short/3D/PyLith/trunk/examples/3d/bar_tet4/mesh_tet4_200m.lagrit (rev 0)
+++ short/3D/PyLith/trunk/examples/3d/bar_tet4/mesh_tet4_200m.lagrit 2008-03-31 07:04:29 UTC (rev 11654)
@@ -0,0 +1,186 @@
+* -*- LaGriT -*-
+*
+* Mesh of a bar with a through-going, vertical, strike-slip fault.
+*
+* Bar is 400m x 400m x 8000m
+* -4000 m <= x <= 4000 m
+* -200 m <= y <= 200 m
+* -200 m <= z <= 200 km
+*
+* The domain is constructed with the region command after constructing the
+* boundaries of the domain using the surface command with the plane
+* attribute (construct the 3-D domain from boundary surfaces). The
+* fault plane is also a plane.
+*
+* ----------------------------------------------------------------------
+* PARAMETERS CONTROLLING MESH
+* ----------------------------------------------------------------------
+*
+* Boundaries of domain
+define / domain_xm / -4000.0
+define / domain_xp / 4000.0
+define / domain_ym / -200.0
+define / domain_yp / 200.0
+define / domain_zm / -200.0
+define / domain_zp / 200.0
+*
+* Mesh size and number of points along x & y
+define / dx / 200.0
+define / nx / 41
+define / ny / 3
+*
+* ----------------------------------------------------------------------
+* CREATE GEOMETRY
+* ----------------------------------------------------------------------
+*
+* Create a mesh object and name it box
+cmo / create / box /
+*
+* Create boundary surfaces
+surface / surf_xm / reflect / plane / &
+ domain_xm 0.0e+0 0.0e+0 / &
+ domain_xm 0.0e+0 10.0e+3 / &
+ domain_xm 10.0e+3 0.0e+0
+surface / surf_xp / reflect / plane / &
+ domain_xp 0.0e+0 0.0e+0 / &
+ domain_xp 10.0e+3 0.0e+0 / &
+ domain_xp 0.0e+0 10.0e+3
+surface / surf_ym / reflect / plane / &
+ 0.0e+0 domain_ym 0.0e+0 / &
+ 0.0e+0 domain_ym 10.0e+3 / &
+ -10.0e+3 domain_ym 0.0e+0
+surface / surf_yp / reflect / plane / &
+ 0.0e+0 domain_yp 0.0e+0 / &
+ -10.0e+3 domain_yp 0.0e+0 / &
+ 0.0e+0 domain_yp 10.0e+3
+surface / surf_zm / reflect / plane / &
+ 0.0e+0 0.0e+0 domain_zm / &
+ -10.0e+3 0.0e+0 domain_zm / &
+ 0.0e+0 10.0e+3 domain_zm
+surface / surf_zp / reflect / plane / &
+ 0.0e+0 0.0e+0 domain_zp / &
+ 0.0e+0 10.0e+3 domain_zp / &
+ -10.0e+3 0.0e+0 domain_zp
+*
+* Create fault plane
+surface / surf_fault / intrface / plane / &
+ 0.0 0.0 0.0 / &
+ 0.0 1.0 0.0 / &
+ 0.0 0.0 1.0 /
+
+* ----------------------------------------------------------------------
+* Create regions
+* ----------------------------------------------------------------------
+
+** Material on +x side of fault
+region / r_xpos / &
+ le surf_xp and ge surf_fault &
+ and le surf_yp and le surf_ym &
+ and le surf_zp and le surf_zm /
+
+** Material on -x side of the fault
+region / r_xneg / &
+ le surf_xm and lt surf_fault &
+ and le surf_yp and le surf_ym &
+ and le surf_zp and le surf_zm /
+
+* ----------------------------------------------------------------------
+* Create material regions
+* ----------------------------------------------------------------------
+* Material regions do not include internal interfaces (regions do)
+*
+mregion / mr_xpos / &
+ le surf_xp and gt surf_fault &
+ and le surf_yp and le surf_ym &
+ and le surf_zp and le surf_zm /
+mregion / mr_xneg / &
+ le surf_xm and lt surf_fault &
+ and le surf_yp and le surf_ym &
+ and le surf_zp and le surf_zm /
+*
+* ----------------------------------------------------------------------
+* CREATE MESH
+* ----------------------------------------------------------------------
+*
+createpts / xyz / nx,ny,1 / &
+ domain_xm domain_ym domain_zp / &
+ domain_xp domain_yp domain_zp / &
+ 1,1,0 /
+pset / rayend / seq / 0,0,0
+*
+
+loop / foreach / iregion / &
+ r_xpos r_xneg &
+ / loop_end / &
+ regnpts / iregion / dx / pset,get,rayend / xyz / &
+ 0.0e+3 0.0e+3 domain_zm / &
+ 0.0e+3 1.0e+3 domain_zm / &
+ 1.0e+3 0.0e+3 domain_zm / &
+ 0,0
+cmo/setatt//itp/pset,get,rayend/dud
+pset / rayend / delete
+
+* ----------------------------------------------------------------------
+* Remove duplicate points
+* ----------------------------------------------------------------------
+filter / 1,0,0 / 10.0
+rmpoint / compress
+
+* ----------------------------------------------------------------------
+* Set node type and material
+* ----------------------------------------------------------------------
+setpts
+
+* ----------------------------------------------------------------------
+* Connect the points into a Delaunay tetrahedral mesh
+* ----------------------------------------------------------------------
+connect
+
+* ----------------------------------------------------------------------
+* Set elements to tetrahedra
+* ----------------------------------------------------------------------
+settets / geometry
+resetpts/cell_color
+
+* Remove parent/child hierarchy
+resetpts
+rmpoint / compress
+*
+* ----------------------------------------------------------------------
+* MESH QUALITY
+* ----------------------------------------------------------------------
+*
+quality
+*
+* ----------------------------------------------------------------------
+* IDENTIFY GROUPS
+* ----------------------------------------------------------------------
+*
+* Identify nodes on fault surface
+pset / fault / surface / surf_fault /
+*
+* Identify nodes on boundaries
+pset / boundary_xm / surface / surf_xm /
+pset / boundary_xp / surface / surf_xp /
+*
+* Identify all nodes except those on fault
+pset / tmp / seq / 1,0,0
+pset / pts_notfault / not / tmp / fault
+pset / tmp / delete
+*
+* ----------------------------------------------------------------------
+* WRITE MESH
+* ----------------------------------------------------------------------
+*
+* Export mesh and psets to files.
+cmo / setatt / box / ipolydat / no
+dump / gmv / bar_tet4_200m.gmv / / ascii
+
+pset / -all- / write / bar_tet4_200m.pset / ascii
+
+*
+* Terminate processing
+finish
+
+* ======================================================================
+* End of file
Added: short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave.cfg
===================================================================
--- short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave.cfg (rev 0)
+++ short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave.cfg 2008-03-31 07:04:29 UTC (rev 11654)
@@ -0,0 +1,246 @@
+# -*- Python -*-
+
+# The settings in this file (shearwave.cfg) will be read if it is
+# specified on the command line:
+# 'pylith shearwave.cfg'
+#
+# If this file is given, the settings in this file will override all
+# others except for parameters specified directly on the command line.
+#
+# These settings define an explicit time-stepping problem using a fault with
+# kinematically-specified slip.
+
+[pylithapp]
+
+# ----------------------------------------------------------------------
+# journal
+# ----------------------------------------------------------------------
+[pylithapp.journal.info]
+timedependent = 1
+#explicit = 1
+#petsc = 1
+#solverlinear = 1
+#meshiolagrit = 1
+#homogeneous = 1
+#explicitelasticity = 1
+#quadrature2d = 1
+#fiatlagrange = 1
+#faultcohesivekin = 1
+
+# ----------------------------------------------------------------------
+# mesh_generator
+# ----------------------------------------------------------------------
+[pylithapp.mesh_generator]
+#debug = 1
+importer = pylith.meshio.MeshIOLagrit
+
+[pylithapp.mesh_generator.importer]
+filename_gmv = bar_tet4_200m.gmv
+filename_pset = bar_tet4_200m.pset
+
+# ----------------------------------------------------------------------
+# problem
+# ----------------------------------------------------------------------
+[pylithapp.timedependent]
+total_time = 12.0*s
+default_dt = 0.0333333333333333333*s
+dimension = 3
+
+# Change to an explicit time stepping formulation
+formulation = pylith.problems.Explicit
+
+# Reuse solution from previous time step as initial guess for next time step
+formulation.solver.initial_guess_zero = False
+
+# Set bc to an array with 3 boundary conditions: 'x_neg', 'x_pos', and 'y_pos'.
+bc = [x_pos,x_neg,y_pos]
+
+# Change the DirichletPoints BC to the AbsorbingDampers BC
+bc.x_pos = pylith.bc.AbsorbingDampers
+bc.x_neg = pylith.bc.AbsorbingDampers
+
+# Set interfaces to an array with 1 fault: 'fault'.
+interfaces = [fault]
+
+# Set materials to an array with 2 materials 'pos' and 'neg'.
+materials = [pos,neg]
+
+# ----------------------------------------------------------------------
+# materials
+# ----------------------------------------------------------------------
+[pylithapp.timedependent.materials.pos]
+
+# Label for material
+label = elastic material +x
+
+# Material id (itetclr) from LaGriT
+id = 1
+
+# Spatial database with physical properties for elastic material
+db.iohandler.filename = matprops.spatialdb
+
+# Set the basis functions and quadrature:
+# 3-D simplex cell with 2nd order quadrature
+quadrature = pylith.feassemble.quadrature.Quadrature3D
+quadrature.cell = pylith.feassemble.FIATSimplex
+quadrature.cell.shape = tetrahedron
+quadrature.cell.quad_order = 2
+
+[pylithapp.timedependent.materials.neg]
+
+# Label for material
+label = elastic material -x
+
+# Material id (itetclr) from LaGriT
+id = 2
+
+# Spatial database with physical properties for elastic material
+db.iohandler.filename = matprops.spatialdb
+
+# Set the basis functions and quadrature:
+# 3-D simplex cell with 2nd order quadrature
+quadrature = pylith.feassemble.quadrature.Quadrature3D
+quadrature.cell = pylith.feassemble.FIATSimplex
+quadrature.cell.shape = tetrahedron
+quadrature.cell.quad_order = 2
+
+# ----------------------------------------------------------------------
+# boundary conditions
+# ----------------------------------------------------------------------
+[pylithapp.timedependent.bc.x_pos]
+# Absorbing boundary condition on +x face of bar
+
+# Pset name from LaGriT
+label = boundary_xp
+
+# Specify label and filename for spatial database with physical properties
+db.label = Absorbing BC +x
+db.iohandler.filename = matprops.spatialdb
+
+# Specify the basis functions and quadrature:
+# 2-D simplex cell in 3-D space with 2nd order quadrature
+quadrature = pylith.feassemble.quadrature.Quadrature2Din3D
+quadrature.cell = pylith.feassemble.FIATSimplex
+quadrature.cell.shape = triangle
+quadrature.cell.quad_order = 2
+
+[pylithapp.timedependent.bc.x_neg]
+# Absorbing boundary condition on +x face of bar
+
+# Pset name from LaGriT
+label = boundary_xm
+
+# Specify label and filename for spatial database with physical properties
+db.label = Absorbing BC -x
+db.iohandler.filename = matprops.spatialdb
+
+# Specify the basis functions and quadrature:
+# 2-D simplex cell in 3-D space with 2nd order quadrature
+quadrature = pylith.feassemble.quadrature.Quadrature2Din3D
+quadrature.cell = pylith.feassemble.FIATSimplex
+quadrature.cell.shape = triangle
+quadrature.cell.quad_order = 2
+
+[pylithapp.timedependent.bc.y_pos]
+# Dirichlet boundary condition on all vertices except fault vertices
+
+fixed_dof = [0, 2]
+
+# Pset name from LaGriT
+label = pts_notfault
+
+# ----------------------------------------------------------------------
+# faults
+# ----------------------------------------------------------------------
+# NOTE: It is possible to assign an ID number to a fault (e.g.,
+# 'id = 10'). Care must be taken when doing this, however, because the
+# assigned ID will become the material ID for the cohesive element.
+# This ID must not conflict with any of the material ID numbers for
+# volume elements. The default ID for a fault is 100. If you have a
+# fault in your mesh you must:
+# 1. If you create your own fault ID, make sure it does not conflict
+# with any of you material ID's.
+# 2. If you use the default fault ID, make sure that none of your
+# material ID's are equal to 100.
+
+[pylithapp.timedependent.interfaces.fault]
+# Material id
+id = 100
+
+# Pset name from LaGriT
+label = fault
+
+# Specify the basis functions and quadrature:
+# 2-D simplex cell in 3-D space with 2nd order quadrature
+quadrature = pylith.feassemble.quadrature.Quadrature2Din3D
+quadrature.cell = pylith.feassemble.FIATSimplex
+quadrature.cell.shape = triangle
+quadrature.cell.quad_order = 2
+
+# Set the physical properties for the fault to properly condition the
+# system of equations.
+mat_db.iohandler.filename = matprops.spatialdb
+
+[pylithapp.timedependent.interfaces.fault.eq_src.slip_function]
+
+# Database specifying the final slip.
+slip.iohandler.filename = shearwave_slip.spatialdb
+
+# Database specifying peak slip rate.
+slip_rate.iohandler.filename = shearwave_sliprate.spatialdb
+
+# Database specifying time at which slip begins at each point.
+slip_time.iohandler.filename = shearwave_sliptime.spatialdb
+
+# ----------------------------------------------------------------------
+# PETSc
+# ----------------------------------------------------------------------
+[pylithapp.petsc]
+ksp_type = gmres
+pc_type = asm
+ksp_rtol = 1.0e-8
+ksp_max_it = 50
+ksp_gmres_restart = 10
+
+#ksp_monitor = true
+#ksp_view = true
+log_summary = true
+
+
+# ----------------------------------------------------------------------
+# output
+# ----------------------------------------------------------------------
+# We set three output manager parameters for each type of output.
+# skip - Number of time steps to skip between output
+# writer.filename - Root name for VTK file
+# writer.time_format - Format of time stamp (decimal point is removed)
+
+# Give basename for VTK domain output of solution over domain.
+[pylithapp.problem.formulation.output.output]
+skip = 3
+writer.filename = output/shearwave.vtk
+writer.time_format = %05.2f
+
+# Give basename for VTK fault output.
+[pylithapp.timedependent.interfaces.fault.output]
+skip = 3
+writer.filename = output/shearwave-fault.vtk
+writer.time_format = %05.2f
+
+# Give basename for VTK output of state variables.
+[pylithapp.timedependent.materials.pos.output]
+skip = 33
+writer.filename = output/shearwave-statevars-pos.vtk
+writer.time_format = %05.2f
+
+# Averate state variables over cell
+cell_filter = pylith.meshio.CellFilterAvg
+
+# Give basename for VTK output of state variables.
+[pylithapp.timedependent.materials.neg.output]
+skip = 33
+writer.filename = output/shearwave-statevars-neg.vtk
+writer.time_format = %05.2f
+
+# Averate state variables over cell
+cell_filter = pylith.meshio.CellFilterAvg
Added: short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave_slip.spatialdb
===================================================================
--- short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave_slip.spatialdb (rev 0)
+++ short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave_slip.spatialdb 2008-03-31 07:04:29 UTC (rev 11654)
@@ -0,0 +1,25 @@
+#SPATIAL.ascii 1
+SimpleDB {
+ // number of values for final slip
+ num-values = 3
+
+ // Names and units of final slip values
+ value-names = left-lateral-slip reverse-slip fault-opening
+ value-units = m m m
+
+ // Number of locations where physical properties are given
+ // 1 location -> data is uniform -> data dimension is 0
+ num-locs = 1
+ data-dim = 0
+
+ // Problem is in 3-D
+ space-dim = 3
+
+ // Coordinate system (3-D with coordinates in meters)
+ cs-data = cartesian {
+ to-meters = 1.0
+ space-dim = 3
+ }
+}
+// Columns are x, y, z, left-lateral-slip, reverse-slip, fault-opening
+0.0 0.0 0.0 1.0 0.0 0.0
Added: short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave_sliprate.spatialdb
===================================================================
--- short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave_sliprate.spatialdb (rev 0)
+++ short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave_sliprate.spatialdb 2008-03-31 07:04:29 UTC (rev 11654)
@@ -0,0 +1,27 @@
+#SPATIAL.ascii 1
+SimpleDB {
+ // number of values for peak slip rate
+ num-values = 1
+
+ // Name and units for peak slip rate
+ value-names = slip-rate
+ value-units = m/s
+
+ // Number of locations where physical properties are given
+ // 1 location -> data is uniform -> data dimension is 0
+ num-locs = 1
+
+ // Problem is in 3-D
+ data-dim = 0
+
+ // Problem is in 3-D
+ space-dim = 3
+
+ // Coordinate system (3-D with coordinates in meters)
+ cs-data = cartesian {
+ to-meters = 1.0
+ space-dim = 3
+ }
+}
+// Columns are x, y, z, slip-rate
+0.0 0.0 0.0 1.0
Added: short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave_sliptime.spatialdb
===================================================================
--- short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave_sliptime.spatialdb (rev 0)
+++ short/3D/PyLith/trunk/examples/3d/bar_tet4/shearwave_sliptime.spatialdb 2008-03-31 07:04:29 UTC (rev 11654)
@@ -0,0 +1,25 @@
+#SPATIAL.ascii 1
+SimpleDB {
+ // number of values for slip initiation time
+ num-values = 1
+
+ // Names and units of slip initiation time
+ value-names = slip-time
+ value-units = s
+
+ // Number of locations where physical properties are given
+ // 1 location -> data is uniform -> data dimension is 0
+ num-locs = 1
+ data-dim = 0
+
+ // Problem is in 3-D
+ space-dim = 3
+
+ // Coordinate system (3-D with coordinates in meters)
+ cs-data = cartesian {
+ to-meters = 1.0
+ space-dim = 3
+ }
+}
+// Columns are x, y, z, slip-time
+0.0 0.0 0.0 0.1
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