[812] | 1 | from dynamico import getargs |
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| 2 | getargs.add("--LAM", action='store_true') |
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| 3 | |
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| 4 | # Args for both cases |
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| 5 | getargs.add("--Omega", type=float, help='Planetary radius', default=7e-5) |
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| 6 | # Args for global mesh |
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| 7 | getargs.add("--grid", type=int, help='Number of hexagons', default=2562) |
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| 8 | getargs.add("--radius", type=float, help='Planetary radius', default=6.4e6) |
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| 9 | # Args for LAM |
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| 10 | getargs.add("--nx", type=int, help='Zonal dimension of LAM mesh', default=100) |
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| 11 | getargs.add("--ny", type=int, help='Meridional dimension of LAM mesh', default=100) |
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| 12 | getargs.add("--dx", type=float, help='Resolution at center of LAM domain', default=1e5) |
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| 13 | getargs.add("--center_lat", type=float, help='Latitude in degrees of LAM center', default=0.) |
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| 14 | getargs.add("--Davies_N1", type=int, default=3) |
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| 15 | getargs.add("--Davies_N2", type=int, default=3) |
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| 16 | |
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| 17 | args = getargs.parse() |
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[825] | 18 | for arg in vars(args): print arg, getattr(args, arg) |
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[812] | 19 | |
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| 20 | log_master, log_world = getargs.getLogger() |
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| 21 | INFO, DEBUG, ERROR = log_master.info, log_master.debug, log_world.error |
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| 22 | |
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| 23 | INFO('Starting') |
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| 24 | |
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| 25 | from mpi4py import MPI |
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| 26 | comm = MPI.COMM_WORLD |
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| 27 | mpi_rank, mpi_size = comm.Get_rank(), comm.Get_size() |
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| 28 | INFO('%d/%d starting'%(mpi_rank,mpi_size)) |
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| 29 | prefix='fig_RSW2_MPAS_W02/%02d'%mpi_rank |
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| 30 | |
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| 31 | INFO('Loading DYNAMICO modules ...') |
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[825] | 32 | from dynamico.dev import unstructured as unst |
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[812] | 33 | from dynamico.dev.meshes import MPAS_Format, Unstructured_PMesh as PMesh, Local_Mesh as Mesh |
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| 34 | from dynamico.dev import meshes |
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| 35 | from dynamico import time_step |
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| 36 | from dynamico import maps |
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| 37 | from dynamico.LAM import Davies |
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| 38 | |
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| 39 | print '...Done' |
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| 40 | |
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| 41 | print 'Loading modules ...' |
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| 42 | import math as math |
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| 43 | import matplotlib.pyplot as plt |
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| 44 | import numpy as np |
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| 45 | import netCDF4 as cdf |
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| 46 | |
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| 47 | print '...Done' |
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| 48 | |
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| 49 | #--------------------------- functions and classes ----------------------------- |
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| 50 | |
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| 51 | class myDavies(Davies): |
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| 52 | def mask(self,X,Y): |
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| 53 | # X and Y are coordinates in the reference domain (cell = unit square) |
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| 54 | # numerical domain extends from -nx/2 ... nx/2 and -ny/2 ... ny/2 |
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| 55 | # useful domain extends from -X0 ... X0 and -Y0 ... Y0 |
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| 56 | N3 = args.Davies_N1+args.Davies_N2 |
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| 57 | X0 = args.nx/2. - N3 |
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| 58 | Y0 = args.ny/2. - N3 |
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| 59 | mask = self.mask0( X,X0,1.) # Western boundary |
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| 60 | mask *= self.mask0(-X,X0,1.) # Eastern boundary |
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| 61 | mask *= self.mask0( Y,Y0,1.) # Northern boundary |
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| 62 | mask *= self.mask0(-Y,Y0,1.) # Southern boundary |
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| 63 | return mask |
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| 64 | |
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| 65 | #----------------------------- main program -------------------------------- |
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| 66 | |
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| 67 | llm, nqdyn = 1,1 |
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| 68 | Omega, radius = args.Omega, args.radius |
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| 69 | |
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| 70 | print 'Omega :', Omega |
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| 71 | |
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| 72 | if args.LAM: |
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| 73 | nx, ny = args.nx, args.ny |
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| 74 | filename = 'cart_%03d_%03d.nc'%(nx,ny) |
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| 75 | INFO('Reading Cartesian mesh ...') |
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| 76 | meshfile = meshes.DYNAMICO_Format(filename) |
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| 77 | pmesh = meshes.Unstructured_PMesh(comm,meshfile) |
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| 78 | pmesh.partition_curvilinear(args.mpi_ni,args.mpi_nj) |
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| 79 | planet = maps.PolarStereoMap(radius,Omega, args.dx, args.center_lat*np.pi/180.) |
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| 80 | mesh = Mesh(pmesh, llm, nqdyn, planet) |
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| 81 | davies = myDavies(args.Davies_N1, args.Davies_N2, |
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| 82 | mesh.ref_lon_i, mesh.ref_lat_i, mesh.ref_lon_e,mesh.ref_lat_e) |
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| 83 | else: |
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| 84 | planet = maps.SphereMap(radius, Omega) |
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| 85 | print 'Reading MPAS mesh ...' |
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| 86 | meshfile = MPAS_Format('grids/x1.%d.grid.nc'%args.grid) |
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| 87 | pmesh = PMesh(comm,meshfile) |
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| 88 | pmesh.partition_metis() |
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| 89 | mesh = Mesh(pmesh, llm, nqdyn, planet) |
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| 90 | |
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| 91 | print '...Done' |
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| 92 | |
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| 93 | def print_attr(obj): |
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| 94 | #for name in obj.__dict__.keys(): print name, type(getattr(obj,name)) |
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| 95 | for name in obj.__dict__.keys(): print name, type(getattr(obj,name)), np.shape(getattr(obj,name))#,np.dtype(getattr(obj,name)) |
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| 96 | #for key in obj.__dict__.keys(): print key, np.dtype(obj.__dict__.values()) |
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| 97 | |
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| 98 | print_attr(mesh) |
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| 99 | print("--------") |
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| 100 | print_attr(mesh.com_edges) |
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| 101 | print("--------") |
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| 102 | |
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| 103 | class preprocess_output: |
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| 104 | def __init__(self,mesh): |
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| 105 | self._mesh = mesh |
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| 106 | #-------------------START WRITING THE netCDF file--------------------------- |
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| 107 | def create_vars(self,f,dimname, info): |
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| 108 | for vname, vtype, vdata in info: |
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[869] | 109 | vdata = np.asarray(vdata) |
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| 110 | print('creating variable %s with shape %s.' %(vname, vdata.shape)) |
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[812] | 111 | var = f.createVariable(vname,vtype,dimname) |
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| 112 | var[:] = vdata |
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| 113 | |
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| 114 | def meshwrite(self,name): |
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[869] | 115 | mesh = self._mesh |
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[812] | 116 | """ Writing Mesh information to disk for Fortran segment""" |
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| 117 | |
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| 118 | #----------------OPENING NETCDF OUTPUT FILE------------ |
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| 119 | try: |
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| 120 | f = cdf.Dataset(name, 'w', format='NETCDF4') |
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| 121 | except: |
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| 122 | print("Error occurred while opening new netCDF file. ") |
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| 123 | |
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| 124 | |
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| 125 | f.description = "Python_side_mesh_information" |
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| 126 | f.primal_num, f.edge_num, f.dual_num = self._mesh.primal_num, self._mesh.edge_num, self._mesh.dual_num |
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| 127 | |
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| 128 | #----------------DEFINING DIMENSIONS-------------------- |
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[869] | 129 | max_primal_deg = mesh.primal_deg.max() |
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| 130 | max_dual_deg = mesh.dual_deg.max() |
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| 131 | max_trisk_deg = mesh.trisk_deg.max() |
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| 132 | def crop(dim, *data) : return [ x[:,0:dim] for x in data ] |
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| 133 | mesh.primal_edge, mesh.primal_ne, mesh.primal_vertex = crop(max_primal_deg, mesh.primal_edge, mesh.primal_ne, mesh.primal_vertex) |
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| 134 | mesh.dual_edge, mesh.dual_ne = crop(max_dual_deg, mesh.dual_edge, mesh.dual_ne) |
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| 135 | mesh.trisk, mesh.wee = crop(max_trisk_deg, mesh.trisk, mesh.wee) |
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| 136 | |
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[812] | 137 | for dimname, dimsize in [("primal_cell", self._mesh.primal_deg.size), |
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| 138 | ("dual_cell", self._mesh.dual_deg.size), |
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| 139 | ("edge", len(self._mesh.edges_E2)), |
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| 140 | ("primal_edge_or_vertex", self._mesh.primal_edge.shape[1]), |
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| 141 | ("dual_edge_or_vertex", self._mesh.dual_edge.shape[1]), |
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| 142 | ("trisk_edge",self._mesh.trisk.shape[1]) ]: |
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| 143 | f.createDimension(dimname,dimsize) |
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| 144 | |
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| 145 | self.create_vars(f,"primal_cell", |
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| 146 | [("primal_deg","i4",self._mesh.primal_deg), |
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| 147 | ("Ai","f8",self._mesh.Ai), |
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| 148 | ("lon_i","f8",self._mesh.lon_i), |
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| 149 | ("ref_lon_i","f8",self._mesh.ref_lon_i), |
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| 150 | ("lat_i","f8",self._mesh.lat_i), |
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| 151 | ("ref_lat_i","f8",self._mesh.ref_lat_i), |
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| 152 | ("primal_own_deg","f8",self._mesh.primal_own_deg), |
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| 153 | ("primal_own_glo","f8",self._mesh.primal_own_glo), |
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[825] | 154 | ("primal_own_loc","f8",self._mesh.primal_own_loc) ]) |
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[812] | 155 | |
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| 156 | self.create_vars(f,("primal_cell","primal_edge_or_vertex"), |
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[869] | 157 | [("primal_vertex","i4",self._mesh.primal_vertex), |
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| 158 | ("primal_bounds_lon","f8",self._mesh.primal_bounds_lon), |
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| 159 | ("primal_bounds_lat","f8",self._mesh.primal_bounds_lat), |
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| 160 | ("primal_edge","i4",self._mesh.primal_edge), |
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| 161 | ("primal_ne","i4",self._mesh.primal_ne) ]) |
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| 162 | |
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[812] | 163 | self.create_vars(f,"dual_cell", |
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| 164 | [("dual_deg","i4",self._mesh.dual_deg), |
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| 165 | ("Av","f8",self._mesh.Av), |
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| 166 | ("fv","f8",self._mesh.fv), |
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| 167 | ("lon_v","f8",self._mesh.lon_v), |
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| 168 | ("ref_lon_v","f8",self._mesh.ref_lon_v), |
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| 169 | ("lat_v","f8",self._mesh.lat_v), |
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| 170 | ("ref_lat_v","f8",self._mesh.ref_lat_v), |
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[825] | 171 | ("vertices_V1","f8",self._mesh.vertices_V1), |
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| 172 | ("dual_own_loc","f8",self._mesh.dual_own_loc) ]) |
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[812] | 173 | |
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| 174 | self.create_vars(f,("dual_cell","dual_edge_or_vertex"), |
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| 175 | [("dual_edge","i4",self._mesh.dual_edge), |
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[869] | 176 | ("dual_vertex","i4",self._mesh.dual_vertex), |
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| 177 | ("dual_bounds_lon","f8",self._mesh.dual_bounds_lon), |
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| 178 | ("dual_bounds_lat","f8",self._mesh.dual_bounds_lat), |
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| 179 | ("dual_ne","i4",self._mesh.dual_ne), |
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| 180 | ("Riv2","f8",self._mesh.Riv2)]) |
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[812] | 181 | |
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| 182 | self.create_vars(f,"edge", |
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| 183 | [("left","i4",self._mesh.left), |
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| 184 | ("up","i4",self._mesh.up), |
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| 185 | ("right","i4",self._mesh.right), |
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| 186 | ("down","i4",self._mesh.down), |
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| 187 | ("le","f8",self._mesh.le), |
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| 188 | ("de","f8",self._mesh.de), |
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| 189 | ("le_de","f8",self._mesh.le_de), |
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| 190 | ("trisk_deg","i4",self._mesh.trisk_deg), |
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| 191 | ("angle_e","f8",self._mesh.le_de), |
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| 192 | ("lon_e","f8",self._mesh.lon_e), |
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| 193 | ("ref_lon_e","f8",self._mesh.ref_lon_e), |
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| 194 | ("lat_e","f8",self._mesh.lat_e), |
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| 195 | ("ref_lat_e","f8",self._mesh.ref_lat_e), |
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| 196 | ("edges_E2","i4",self._mesh.edges_E2)]) |
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| 197 | |
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| 198 | self.create_vars(f,("edge","trisk_edge"), |
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| 199 | [("trisk","i4",self._mesh.trisk), |
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| 200 | ("wee","f8",self._mesh.wee) ]) |
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| 201 | f.close() |
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| 202 | |
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| 203 | print("writing......") |
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| 204 | f_write = preprocess_output(mesh) |
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| 205 | f_write.meshwrite('mesh_information.nc') |
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| 206 | |
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