1 | """Script for running tsunami inundation scenario for Dampier, WA, Australia. |
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2 | |
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3 | Source data such as elevation and boundary data is assumed to be available in |
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4 | directories specified by project.py |
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5 | The output sww file is stored in project.output_run_time_dir |
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6 | |
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7 | The scenario is defined by a triangular mesh created from project.polygon, |
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8 | the elevation data and a simulated tsunami generated with URS code. |
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9 | |
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10 | Ole Nielsen and Duncan Gray, GA - 2005 and Jane Sexton, Nick Bartzis, GA - 2006 |
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11 | """ |
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12 | |
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13 | #------------------------------------------------------------------------------ |
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14 | # Import necessary modules |
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15 | #------------------------------------------------------------------------------ |
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16 | |
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17 | # Standard modules |
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18 | from os import sep |
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19 | from os.path import dirname, basename |
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20 | import os |
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21 | from os import mkdir, access, F_OK |
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22 | from shutil import copy |
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23 | import time |
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24 | import sys |
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25 | |
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26 | # Related major packages |
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27 | from anuga.shallow_water import Domain |
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28 | from anuga.shallow_water import Dirichlet_boundary |
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29 | from anuga.shallow_water import File_boundary |
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30 | from anuga.shallow_water import Reflective_boundary |
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31 | from anuga.shallow_water import Field_boundary |
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32 | from Numeric import allclose |
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33 | from anuga.shallow_water.data_manager import export_grid, create_sts_boundary |
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34 | |
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35 | from anuga.pmesh.mesh_interface import create_mesh_from_regions |
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36 | from anuga.shallow_water.data_manager import start_screen_catcher, copy_code_files,store_parameters |
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37 | #from anuga_parallel.parallel_api import distribute, numprocs, myid, barrier |
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38 | from anuga_parallel.parallel_abstraction import get_processor_name |
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39 | from anuga.caching import myhash |
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40 | from anuga.damage_modelling.inundation_damage import add_depth_and_momentum2csv, inundation_damage |
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41 | from anuga.fit_interpolate.benchmark_least_squares import mem_usage |
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42 | from anuga.utilities.polygon import read_polygon, plot_polygons, polygon_area, is_inside_polygon |
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43 | from anuga.geospatial_data.geospatial_data import find_optimal_smoothing_parameter |
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44 | from Scientific.IO.NetCDF import NetCDFFile |
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45 | # Application specific imports |
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46 | import project # Definition of file names and polygons |
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47 | |
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48 | numprocs = 1 |
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49 | myid = 0 |
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50 | |
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51 | def run_model(**kwargs): |
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52 | |
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53 | |
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54 | #------------------------------------------------------------------------------ |
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55 | # Copy scripts to time stamped output directory and capture screen |
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56 | # output to file |
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57 | #------------------------------------------------------------------------------ |
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58 | print "Processor Name:",get_processor_name() |
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59 | |
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60 | #copy script must be before screen_catcher |
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61 | #print kwargs |
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62 | |
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63 | print 'output_dir',kwargs['output_dir'] |
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64 | if myid == 0: |
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65 | copy_code_files(kwargs['output_dir'],__file__, |
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66 | dirname(project.__file__)+sep+ project.__name__+'.py' ) |
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67 | |
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68 | store_parameters(**kwargs) |
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69 | |
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70 | #barrier() |
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71 | |
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72 | start_screen_catcher(kwargs['output_dir'], myid, numprocs) |
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73 | |
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74 | print "Processor Name:",get_processor_name() |
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75 | |
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76 | #----------------------------------------------------------------------- |
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77 | # Domain definitions |
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78 | #----------------------------------------------------------------------- |
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79 | |
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80 | # Read in boundary from ordered sts file |
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81 | urs_bounding_polygon=create_sts_boundary(os.path.join(project.boundaries_dir,project.scenario_name)) |
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82 | |
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83 | # Reading the landward defined points, this incorporates the original clipping |
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84 | # polygon minus the 100m contour |
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85 | landward_bounding_polygon = read_polygon(project.boundaries_dir+'landward_bounding_polygon.txt') |
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86 | |
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87 | # Combine sts polyline with landward points |
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88 | bounding_polygon = urs_bounding_polygon + landward_bounding_polygon |
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89 | |
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90 | # counting segments |
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91 | N = len(urs_bounding_polygon)-1 |
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92 | boundary_tags={'back': [N+1,N+2,N+3,N+4, N+5], 'side': [N,N+6],'ocean': range(N)} |
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93 | |
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94 | |
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95 | #-------------------------------------------------------------------------- |
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96 | # Create the triangular mesh based on overall clipping polygon with a |
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97 | # tagged |
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98 | # boundary and interior regions defined in project.py along with |
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99 | # resolutions (maximal area of per triangle) for each polygon |
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100 | #-------------------------------------------------------------------------- |
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101 | |
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102 | #IMPORTANT don't cache create_mesh_from_region and Domain(mesh....) as it |
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103 | # causes problems with the ability to cache set quantity which takes alot of times |
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104 | if myid == 0: |
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105 | |
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106 | print 'start create mesh from regions' |
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107 | |
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108 | create_mesh_from_regions(bounding_polygon, |
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109 | boundary_tags=boundary_tags, |
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110 | maximum_triangle_area=project.res_poly_all, |
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111 | interior_regions=project.interior_regions, |
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112 | filename=project.meshes_dir_name+'.msh', |
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113 | use_cache=False, |
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114 | verbose=False) |
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115 | #barrier() |
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116 | |
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117 | ## covariance_value,alpha = find_optimal_smoothing_parameter (data_file = kwargs['bathy_file'], |
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118 | ## alpha_list=[0.001, 0.01, 0.1, 0.15, 0.2, 0.25, 0.3, 0.4, 0.5], |
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119 | ## mesh_file = project.meshes_dir_name+'.msh') |
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120 | ## print 'optimal alpha', covariance_value,alpha |
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121 | |
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122 | #------------------------------------------------------------------------- |
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123 | # Setup computational domain |
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124 | #------------------------------------------------------------------------- |
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125 | print 'Setup computational domain' |
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126 | |
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127 | domain = Domain(project.meshes_dir_name+'.msh', use_cache=False, verbose=True) |
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128 | print 'memory usage before del domain',mem_usage() |
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129 | |
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130 | print domain.statistics() |
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131 | print 'triangles',len(domain) |
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132 | |
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133 | kwargs['act_num_trigs']=len(domain) |
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134 | |
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135 | |
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136 | #------------------------------------------------------------------------- |
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137 | # Setup initial conditions |
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138 | #------------------------------------------------------------------------- |
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139 | if myid == 0: |
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140 | |
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141 | print 'Setup initial conditions' |
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142 | |
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143 | from polygon import Polygon_function |
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144 | #following sets the stage/water to be offcoast only |
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145 | IC = Polygon_function( [(project.poly_mainland, 0)], default = kwargs['tide'], |
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146 | geo_reference = domain.geo_reference) |
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147 | domain.set_quantity('stage', IC) |
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148 | # domain.set_quantity('stage', kwargs['tide']) |
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149 | domain.set_quantity('friction', kwargs['friction']) |
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150 | |
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151 | print 'Start Set quantity',kwargs['bathy_file'] |
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152 | |
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153 | domain.set_quantity('elevation', |
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154 | filename = kwargs['bathy_file'], |
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155 | use_cache = True, |
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156 | verbose = True, |
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157 | alpha = kwargs['alpha']) |
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158 | print 'Finished Set quantity' |
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159 | #barrier() |
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160 | |
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161 | |
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162 | #------------------------------------------------------ |
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163 | # Distribute domain to implement parallelism !!! |
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164 | #------------------------------------------------------ |
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165 | |
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166 | if numprocs > 1: |
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167 | domain=distribute(domain) |
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168 | |
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169 | #------------------------------------------------------ |
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170 | # Set domain parameters |
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171 | #------------------------------------------------------ |
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172 | print 'domain id', id(domain) |
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173 | domain.set_name(kwargs['aa_scenario_name']) |
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174 | domain.set_datadir(kwargs['output_dir']) |
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175 | domain.set_default_order(2) # Apply second order scheme |
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176 | domain.set_minimum_storable_height(0.01) # Don't store anything less than 1cm |
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177 | domain.set_store_vertices_uniquely(False) |
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178 | domain.set_quantities_to_be_stored(['stage', 'xmomentum', 'ymomentum']) |
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179 | domain.tight_slope_limiters = 1 |
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180 | print 'domain id', id(domain) |
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181 | |
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182 | #------------------------------------------------------------------------- |
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183 | # Setup boundary conditions |
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184 | #------------------------------------------------------------------------- |
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185 | print 'Available boundary tags', domain.get_boundary_tags() |
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186 | print 'domain id', id(domain) |
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187 | |
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188 | boundary_urs_out=project.boundaries_dir_name |
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189 | |
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190 | print 'Available boundary tags', domain.get_boundary_tags() |
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191 | Bf = Field_boundary(boundary_urs_out+'.sts', # Change from file_boundary |
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192 | domain, mean_stage=project.tide, |
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193 | time_thinning=1, |
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194 | use_cache=True, |
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195 | verbose = True, |
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196 | boundary_polygon=bounding_polygon) |
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197 | |
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198 | Br = Reflective_boundary(domain) |
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199 | Bd = Dirichlet_boundary([kwargs['tide'],0,0]) |
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200 | |
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201 | fid = NetCDFFile(boundary_urs_out+'.sts', 'r') #Open existing file for read |
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202 | sts_time=fid.variables['time'][:]+fid.starttime |
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203 | tmin=min(sts_time) |
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204 | tmax=max(sts_time) |
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205 | fid.close() |
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206 | |
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207 | print 'Boundary end time ', tmax-tmin |
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208 | |
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209 | domain.set_boundary({'back': Bd, |
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210 | 'side': Bd, |
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211 | 'ocean': Bf}) #changed from Bf to Bd for large wave |
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212 | |
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213 | kwargs['input_start_time']=domain.starttime |
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214 | |
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215 | print'finish set boundary' |
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216 | |
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217 | #---------------------------------------------------------------------------- |
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218 | # Evolve system through time |
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219 | #-------------------------------------------------------------------- |
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220 | t0 = time.time() |
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221 | |
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222 | for t in domain.evolve(yieldstep = project.yieldstep, finaltime = kwargs['finaltime'] |
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223 | ,skip_initial_step = False ): |
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224 | domain.write_time() |
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225 | domain.write_boundary_statistics(tags = 'ocean') |
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226 | |
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227 | if t >= tmax-tmin: |
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228 | print 'changed to tide boundary condition at ocean' |
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229 | domain.set_boundary({'ocean': Bd}) |
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230 | |
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231 | x, y = domain.get_maximum_inundation_location() |
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232 | q = domain.get_maximum_inundation_elevation() |
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233 | |
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234 | print 'Maximum runup observed at (%.2f, %.2f) with elevation %.2f' %(x,y,q) |
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235 | |
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236 | print 'That took %.2f seconds' %(time.time()-t0) |
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237 | |
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238 | #kwargs 'completed' must be added to write the final parameters to file |
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239 | kwargs['completed']=str(time.time()-t0) |
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240 | |
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241 | if myid==0: |
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242 | store_parameters(**kwargs) |
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243 | #barrier |
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244 | |
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245 | print 'memory usage before del domain1',mem_usage() |
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246 | |
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247 | #------------------------------------------------------------- |
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248 | if __name__ == "__main__": |
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249 | |
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250 | kwargs={} |
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251 | kwargs['est_num_trigs']=project.trigs_min |
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252 | kwargs['num_cpu']=numprocs |
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253 | kwargs['host']=project.host |
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254 | kwargs['res_factor']=project.res_factor |
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255 | kwargs['starttime']=project.starttime |
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256 | kwargs['yieldstep']=project.yieldstep |
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257 | kwargs['finaltime']=project.finaltime |
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258 | |
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259 | kwargs['output_dir']=project.output_run_time_dir |
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260 | kwargs['bathy_file']=project.combined_dir_name+'.txt' |
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261 | kwargs['file_name']=project.home+'detail.csv' |
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262 | kwargs['aa_scenario_name']=project.scenario_name |
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263 | kwargs['ab_time']=project.time |
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264 | kwargs['res_factor']= project.res_factor |
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265 | kwargs['tide']=project.tide |
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266 | kwargs['user']=project.user |
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267 | kwargs['alpha'] = project.alpha |
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268 | kwargs['friction']=project.friction |
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269 | kwargs['time_thinning'] = project.time_thinning |
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270 | kwargs['dir_comment']=project.dir_comment |
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271 | kwargs['export_cellsize']=project.export_cellsize |
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272 | |
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273 | |
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274 | run_model(**kwargs) |
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275 | |
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276 | if myid==0: |
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277 | export_model(**kwargs) |
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278 | #barrier |
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279 | |
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