1 | ######################################################### |
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2 | # |
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3 | # Given the subdivision of the grid assigned to the |
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4 | # current processor convert it into a form that is |
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5 | # appropriate for the GA datastructure. |
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6 | # |
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7 | # The main function of these modules is to change the |
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8 | # node numbering. The GA datastructure assumes they |
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9 | # are numbered consecutively from 0. |
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10 | # |
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11 | # The module also changes the communication pattern |
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12 | # datastructure into a form needed by parallel_advection |
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13 | # |
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14 | # Authors: Linda Stals and Matthew Hardy, June 2005 |
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15 | # Modified: Linda Stals, Nov 2005 (optimise python code) |
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16 | # |
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17 | # |
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18 | ######################################################### |
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19 | |
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20 | from mesh import * |
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21 | from Numeric import * |
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22 | |
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23 | ######################################################### |
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24 | # Convert the format of the data to that used by |
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25 | # pyvolution |
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26 | # |
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27 | # |
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28 | # *) Change the nodes global ID's to an integer value, |
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29 | #starting from 0. |
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30 | # |
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31 | # *) The triangles and boundary edges must also be |
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32 | # updated accordingly. |
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33 | # |
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34 | # ------------------------------------------------------- |
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35 | # |
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36 | # *) The nodes, triangles and boundary edges defined by |
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37 | # the new numbering scheme are returned |
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38 | # |
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39 | ######################################################### |
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40 | |
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41 | def build_local_GA(nodes, triangles): |
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42 | |
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43 | Nnodes =len(nodes) |
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44 | Ntriangles = len(triangles) |
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45 | |
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46 | # extract the nodes (using the local ID) |
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47 | |
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48 | GAnodes = take(nodes, (1, 2), 1) |
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49 | |
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50 | # build a global ID to local ID mapping |
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51 | |
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52 | NGlobal = 0 |
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53 | for i in range(Nnodes): |
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54 | if nodes[i][0] > NGlobal: |
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55 | NGlobal = nodes[i][0] |
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56 | index = zeros(int(NGlobal)+1, Int) |
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57 | put(index, take(nodes, (0,), 1).astype(Int), arrayrange(Nnodes)) |
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58 | |
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59 | # change the global IDs in the triangles to the local IDs |
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60 | |
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61 | GAtriangles = zeros((Ntriangles, 3), Int) |
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62 | GAtriangles[:,0] = take(index, triangles[:,0]) |
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63 | GAtriangles[:,1] = take(index, triangles[:,1]) |
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64 | GAtriangles[:,2] = take(index, triangles[:,2]) |
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65 | |
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66 | del (index) |
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67 | |
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68 | return GAnodes, GAtriangles |
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69 | |
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70 | |
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71 | ######################################################### |
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72 | # Change the communication format to that needed by the |
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73 | # parallel advection file. |
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74 | # |
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75 | # *) The index contains [global triangle no, |
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76 | # local triangle no.] |
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77 | # |
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78 | # ------------------------------------------------------- |
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79 | # |
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80 | # *) The ghost_recv and full_send dictionaries are |
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81 | # returned. |
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82 | # |
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83 | # *) ghost_recv dictionary is local id, global id, value |
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84 | # |
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85 | # *) full_recv dictionary is local id, global id, value |
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86 | # |
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87 | # *) The information is ordered by the global id. This |
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88 | # means that the communication order is predetermined and |
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89 | # local and global id do not need to be |
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90 | # compared when the information is sent/received. |
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91 | # |
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92 | ######################################################### |
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93 | |
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94 | def build_local_commun(index, ghostc, fullc, nproc): |
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95 | |
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96 | # initialise |
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97 | |
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98 | full_send = {} |
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99 | ghost_recv = {} |
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100 | |
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101 | # build the ghost_recv dictionary (sort the |
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102 | # information by the global numbering) |
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103 | |
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104 | ghostc = sort(ghostc, 0) |
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105 | |
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106 | for c in range(nproc): |
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107 | s = ghostc[:,0] |
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108 | d = compress(equal(ghostc[:,1],c), s) |
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109 | if len(d) > 0: |
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110 | ghost_recv[c] = [0, 0] |
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111 | ghost_recv[c][1] = d |
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112 | ghost_recv[c][0] = take(index, d) |
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113 | |
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114 | # build a temporary copy of the full_send dictionary |
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115 | # (this version allows the information to be stored |
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116 | # by the global numbering) |
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117 | |
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118 | tmp_send = {} |
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119 | for global_id in fullc: |
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120 | for i in range(len(fullc[global_id])): |
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121 | neigh = fullc[global_id][i] |
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122 | if not tmp_send.has_key(neigh): |
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123 | tmp_send[neigh] = [] |
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124 | tmp_send[neigh].append([global_id, index[global_id]]) |
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125 | |
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126 | # extract the full send information and put it in the form |
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127 | # required for the full_send dictionary |
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128 | |
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129 | for neigh in tmp_send: |
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130 | neigh_commun = sort(tmp_send[neigh], 0) |
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131 | full_send[neigh] = [0, 0] |
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132 | full_send[neigh][0] = neigh_commun[:,1] |
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133 | full_send[neigh][1] = neigh_commun[:,0] |
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134 | |
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135 | return ghost_recv, full_send |
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136 | |
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137 | |
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138 | ######################################################### |
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139 | # Convert the format of the data to that used by |
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140 | # pyvolution |
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141 | # |
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142 | # |
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143 | # *) Change the nodes global ID's to an integer value, |
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144 | # starting from 0. The node numbering in the triangles |
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145 | # must also be updated to take this into account. |
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146 | # |
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147 | # *) The triangle number will also change, which affects |
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148 | # the boundary tag information and the communication |
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149 | # pattern. |
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150 | # |
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151 | # ------------------------------------------------------- |
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152 | # |
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153 | # *) The nodes, triangles, boundary edges and communication |
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154 | # pattern defined by the new numbering scheme are returned |
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155 | # |
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156 | ######################################################### |
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157 | |
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158 | def build_local_mesh(submesh, lower_t, upper_t, nproc): |
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159 | |
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160 | # combine the full nodes and ghost nodes |
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161 | |
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162 | nodes = concatenate((submesh["full_nodes"], submesh["ghost_nodes"])) |
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163 | |
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164 | # combine the full triangles and ghost triangles |
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165 | |
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166 | gtri = take(submesh["ghost_triangles"],(1, 2, 3),1) |
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167 | triangles = concatenate((submesh["full_triangles"], gtri)) |
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168 | |
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169 | # renumber the boundary edges to correspond to the new |
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170 | # triangle numbering |
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171 | |
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172 | GAboundary = {} |
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173 | for b in submesh["full_boundary"]: |
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174 | GAboundary[b[0]-lower_t,b[1]]=submesh["full_boundary"][b] |
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175 | |
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176 | # make note of the new triangle numbers, including the ghost |
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177 | # triangles |
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178 | |
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179 | NGlobal = upper_t |
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180 | for i in range(len(submesh["ghost_triangles"])): |
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181 | id = submesh["ghost_triangles"][i][0] |
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182 | if id > NGlobal: |
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183 | NGlobal = id |
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184 | index = zeros(int(NGlobal)+1, Int) |
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185 | index[lower_t:upper_t]=arrayrange(upper_t-lower_t) |
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186 | for i in range(len(submesh["ghost_triangles"])): |
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187 | index[submesh["ghost_triangles"][i][0]] = i+upper_t-lower_t |
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188 | |
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189 | # change the node numbering (and update the numbering in the |
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190 | # triangles) |
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191 | |
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192 | [GAnodes, GAtriangles] = build_local_GA(nodes, triangles) |
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193 | |
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194 | # extract the local quantities |
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195 | |
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196 | quantities ={} |
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197 | for k in submesh["full_quan"]: |
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198 | Nf = len(submesh["full_quan"][k]) |
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199 | Ng = len(submesh["ghost_quan"][k]) |
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200 | quantities[k] = zeros((Nf+Ng, 3), Float) |
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201 | quantities[k][0:Nf] = submesh["full_quan"][k] |
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202 | quantities[k][Nf:Nf+Ng] = submesh["ghost_quan"][k] |
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203 | |
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204 | # change the communication pattern into a form needed by |
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205 | # the parallel_advection.py file |
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206 | |
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207 | gcommun = submesh["ghost_commun"] |
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208 | fcommun = submesh["full_commun"] |
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209 | [ghost_rec, full_send] = build_local_commun(index, gcommun, fcommun, nproc) |
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210 | |
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211 | # clean up before exiting |
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212 | |
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213 | del(index) |
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214 | |
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215 | return GAnodes, GAtriangles, GAboundary, quantities, ghost_rec, full_send |
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