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fixes mesh exporting script for poroelastic domains
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,154 @@ | ||
| #!/usr/bin/env python | ||
| # | ||
| # "create_mesh.py" is a script that generates mesh specific to homogenous halfspace example | ||
| # i.e., a uniform mesh of 134 km x 134 km x 60 km with an element size 3.75 km. | ||
| # It is not applicable to other examples. | ||
| from __future__ import print_function | ||
|
|
||
| import os | ||
| import sys | ||
|
|
||
| # to run this script from command line, python must have its PATH environment set such that it | ||
| # includes the path to CUBIT/Trelis (cubit.py). | ||
| # | ||
| # you can also explicitly set it here e.g. like: | ||
| #sys.path.append('/opt/Trelis-15.0/bin/') | ||
|
|
||
| try: | ||
| import cubit | ||
| except ImportError: | ||
| print("Error: Importing cubit as python module failed") | ||
| print("could not import cubit, please check your PYTHONPATH settings...") | ||
| print("") | ||
| print("current path: ") | ||
| print(sys.path) | ||
| print("") | ||
| print("try to include path to directory which includes file cubit.py, e.g. /opt/Trelis-15.0/bin/") | ||
| print("") | ||
| sys.exit("Import cubit failed") | ||
|
|
||
| print(sys.path) | ||
|
|
||
| cubit.init([""]) | ||
|
|
||
| # gets version string | ||
| cubit_version = cubit.get_version() | ||
| print("version: ",cubit_version) | ||
|
|
||
| # extracts major number | ||
| v = cubit_version.split('.') | ||
| cubit_version_major = int(v[0]) | ||
| print("major version number: ",cubit_version_major) | ||
|
|
||
| # current work directory | ||
| cubit.cmd('pwd') | ||
|
|
||
| # Creating the volumes | ||
| cubit.cmd('reset') | ||
|
|
||
| # single volume | ||
| cubit.cmd('brick x 134000 y 134000 z 60000') | ||
| cubit.cmd('volume 1 move x 67000 y 67000 z -30000') | ||
|
|
||
| # two merged volumes | ||
| #cubit.cmd('brick x 67000 y 134000 z 60000') | ||
| #cubit.cmd('volume 1 move x 33500 y 67000 z -30000') | ||
| #cubit.cmd('brick x 67000 y 134000 z 60000') | ||
| #cubit.cmd('volume 2 move x 100500 y 67000 z -30000') | ||
| #cubit.cmd('merge all') | ||
|
|
||
| # Meshing the volumes | ||
| elementsize = 3750.0 | ||
|
|
||
| cubit.cmd('volume all size '+str(elementsize)) | ||
| cubit.cmd('mesh volume all') | ||
|
|
||
| # End of meshing | ||
|
|
||
| # | ||
| # GEOCUBIT | ||
| # | ||
| # adds path to geocubit (if not setup yet) | ||
| sys.path.append('../../CUBIT_GEOCUBIT/') | ||
|
|
||
| print("path: ") | ||
| print(sys.path) | ||
| print("") | ||
|
|
||
| # avoids assigning empty blocks | ||
| cubit.cmd('set duplicate block elements on') | ||
|
|
||
| # creates MESH/ directory for file output | ||
| os.system('mkdir -p MESH') | ||
|
|
||
| # conversion to specfem-format | ||
| # use_explicit will explicitly assign material properties as block attributes | ||
| use_explicit=1 | ||
|
|
||
| if use_explicit == 1: | ||
| from geocubitlib import boundary_definition | ||
| # bounding faces | ||
| boundary_definition.entities=['face'] | ||
| boundary_definition.define_bc(boundary_definition.entities,parallel=True) | ||
| from geocubitlib import cubit2specfem3d | ||
| print("") | ||
| print("material properties: assigned as block attributes") | ||
| print("") | ||
| # sets the id of the volume block | ||
| # (volume block starts at id 4) | ||
| id_block = 1 | ||
| print("cubit block:") | ||
| print(" volume block id = " + str(id_block)) | ||
| print("") | ||
| # Define material properties | ||
| print("#### DEFINE MATERIAL PROPERTIES #######################") | ||
| # elastic material | ||
| cubit.cmd('block '+str(id_block)+' name "poroelastic 1" ') # poroelastic material region | ||
| cubit.cmd('block '+str(id_block)+' attribute count 7') | ||
| cubit.cmd('block '+str(id_block)+' attribute index 1 1') # flag for material: 1 for 1. material | ||
| cubit.cmd('block '+str(id_block)+' attribute index 2 3371.0') # vp | ||
| cubit.cmd('block '+str(id_block)+' attribute index 3 2128.0') # vs | ||
| cubit.cmd('block '+str(id_block)+' attribute index 4 2473.0') # rho | ||
| cubit.cmd('block '+str(id_block)+' attribute index 5 9999.0') # Qkappa | ||
| cubit.cmd('block '+str(id_block)+' attribute index 6 9999.0') # Qmu | ||
| cubit.cmd('block '+str(id_block)+' attribute index 7 0') # anisotropy_flag | ||
| print("") | ||
| print("exporting to SPECFEM3D-format:") | ||
| print("") | ||
| # Export to SPECFEM3D format | ||
| cubit2specfem3d.export2SPECFEM3D('MESH/') | ||
| # backup cubit | ||
| cubit.cmd('export mesh "MESH/top.e" dimension 3 overwrite') | ||
| cubit.cmd('save as "MESH/meshing.cub" overwrite') | ||
| else: | ||
| from geocubitlib import exportlib | ||
| print("") | ||
| print("exporting to SPECFEM3D-format:") | ||
| print("") | ||
| # Export to SPECFEM3D format | ||
| # note: exportlib-commands will overwrite material properties | ||
| exportlib.define_blocks(outdir='MESH/',save_cubfile=True,outfilename='top') | ||
| exportlib.e2SEM(outdir='MESH/') | ||
| # Define material properties | ||
| print("#### DEFINE MATERIAL PROPERTIES #######################") | ||
| # elastic material | ||
| material_cfg=[{'material region':'3','id_block':'1','vp':'3371.0','vs':'2128.0','rho':'2473.0','Qkappa':'9999.0','Qmu':'9999.0','anisotropy_flag':'0'}] | ||
| # modifies material file | ||
| nummaterial_velocity_file='MESH/nummaterial_velocity_file' | ||
| f=open(nummaterial_velocity_file,'w') | ||
| for block in material_cfg: | ||
| print(block) | ||
| s=block['material region']+' ' | ||
| s=s+block['id_block']+' ' | ||
| s=s+block['rho']+' ' | ||
| s=s+block['vp']+' ' | ||
| s=s+block['vs']+' ' | ||
| s=s+block['Qkappa']+' ' | ||
| s=s+block['Qmu']+' ' | ||
| s=s+block['anisotropy_flag'] | ||
| f.write(s+'\n') | ||
| f.close() | ||
|
|
||
| # backup cubit | ||
|
|
||
| # all files needed by xdecompose_mesh are now in directory MESH/ |
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