1 | /* ************************************************************************** * |
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2 | * Copyright © IPSL/LSCE, XMLIOServer, Avril 2010 - Octobre 2011 * |
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3 | * ************************************************************************** */ |
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4 | |
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5 | // XMLIOServer headers |
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6 | #include "onetcdf4.hpp" |
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7 | #include "onetcdf4_impl.hpp" |
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8 | |
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9 | // /////////////////////////////// Définitions ////////////////////////////// // |
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10 | |
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11 | namespace xmlioserver { |
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12 | namespace io { |
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13 | |
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14 | // ------------------------------ Constructeurs ----------------------------- |
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15 | |
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16 | CONetCDF4::CONetCDF4(const std::string & filename, bool exist, |
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17 | const MPI_Comm * _comm_server) |
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18 | { |
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19 | if (_comm_server != NULL) this->comm_server = *_comm_server; |
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20 | if (this->comm_server) |
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21 | { |
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22 | if (exist) |
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23 | CheckError(nc_open_par(filename.c_str(), NC_NETCDF4|NC_MPIIO, |
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24 | this->comm_server.get(), MPI_INFO_NULL, &this->ncidp)); |
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25 | else |
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26 | CheckError(nc_create_par(filename.c_str(), NC_NETCDF4|NC_MPIIO, |
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27 | this->comm_server.get(), MPI_INFO_NULL, &this->ncidp)); |
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28 | } |
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29 | else |
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30 | { |
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31 | if (exist) |
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32 | CheckError(nc_open(filename.c_str(), NC_NETCDF4, &this->ncidp)); |
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33 | else |
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34 | CheckError(nc_create(filename.c_str(), NC_NETCDF4, &this->ncidp)); |
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35 | } |
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36 | } |
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37 | |
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38 | // ------------------------------- Destructeur ------------------------------ |
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39 | |
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40 | CONetCDF4::~CONetCDF4(void) |
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41 | { |
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42 | CheckError(nc_close(this->ncidp)); |
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43 | } |
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44 | |
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45 | // --------------------- Vérification des erreurs NetCDF -------------------- |
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46 | |
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47 | void CONetCDF4::CheckError(int _status) throw (CException) |
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48 | { |
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49 | if (_status != NC_NOERR) |
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50 | { |
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51 | std::string errormsg (nc_strerror(_status)); // fuite mémoire ici ? |
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52 | XIOS_ERROR("CONetCDF4::CheckError(int status)", |
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53 | << "[ status = " << _status << " ] " << errormsg); |
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54 | } |
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55 | } |
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56 | |
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57 | // ------------------------- Début/Fin de définition ------------------------ |
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58 | |
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59 | void CONetCDF4::definition_start(void) |
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60 | { |
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61 | CheckError(nc_redef(this->ncidp)); |
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62 | } |
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63 | |
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64 | void CONetCDF4::definition_end(void) |
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65 | { |
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66 | CheckError(nc_enddef(this->ncidp)); |
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67 | } |
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68 | |
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69 | // ------------------------------- Accesseurs ------------------------------- |
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70 | |
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71 | const CONetCDF4::CNetCDF4Path & CONetCDF4::getCurrentPath(void) const |
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72 | { |
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73 | return (this->path); |
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74 | } |
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75 | |
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76 | std::string CONetCDF4::getUnlimitedDimensionName(void) |
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77 | { |
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78 | char full_name_in[NC_MAX_NAME +1]; |
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79 | int grpid = this->getGroup(path); |
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80 | int dimid = this->getUnlimitedDimension(); |
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81 | |
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82 | if (dimid == -1) return (std::string()); |
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83 | CheckError(nc_inq_dimname(grpid, dimid, full_name_in)); |
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84 | |
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85 | std::string dimname(full_name_in); |
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86 | return (dimname); |
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87 | } |
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88 | |
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89 | std::vector<std::string> CONetCDF4::getDimensionsIdList (const std::string * _varname) |
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90 | { |
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91 | char full_name_in[NC_MAX_NAME +1]; |
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92 | int nbdim = 0, *dimid = NULL; |
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93 | int grpid = this->getCurrentGroup(); |
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94 | int varid = (_varname != NULL) ? this->getVariable(*_varname) : NC_GLOBAL; |
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95 | std::vector<std::string> retvalue; |
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96 | |
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97 | if (_varname != NULL) |
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98 | { |
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99 | CheckError(nc_inq_varndims(grpid, varid, &nbdim)); |
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100 | dimid = new int[nbdim](); |
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101 | CheckError(nc_inq_vardimid(grpid, varid, dimid)); |
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102 | } |
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103 | else |
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104 | { |
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105 | CheckError(nc_inq_dimids(grpid, &nbdim, NULL, 1)); |
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106 | dimid = new int[nbdim](); |
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107 | CheckError(nc_inq_dimids(grpid, NULL, dimid, 1)); |
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108 | } |
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109 | |
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110 | for (int i = 0; i < nbdim; i++) |
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111 | { |
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112 | CheckError(nc_inq_dimname(grpid, dimid[i], full_name_in)); |
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113 | std::string dimname(full_name_in); |
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114 | retvalue.push_back(dimname); |
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115 | } |
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116 | delete [] dimid; |
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117 | |
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118 | return (retvalue); |
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119 | } |
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120 | |
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121 | // ------------------------------- Mutateurs -------------------------------- |
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122 | |
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123 | void CONetCDF4::setCurrentPath(const CONetCDF4::CNetCDF4Path & path) |
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124 | { |
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125 | this->path = path; |
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126 | } |
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127 | |
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128 | int CONetCDF4::addDimension(const std::string & _name, std::size_t _size) |
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129 | { |
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130 | int retvalue = 0; |
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131 | int grpid = this->getCurrentGroup(); |
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132 | if (_size != UNLIMITED_DIM) |
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133 | CheckError(nc_def_dim (grpid, _name.c_str(), _size, &retvalue)); |
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134 | else |
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135 | CheckError(nc_def_dim (grpid, _name.c_str(), NC_UNLIMITED, &retvalue)); |
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136 | return (retvalue); |
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137 | } |
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138 | |
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139 | int CONetCDF4::addVariable (const std::string & _name, nc_type _type, |
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140 | const std::vector<std::string> & _dims) |
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141 | { |
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142 | int retvalue = 0; |
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143 | std::vector<int> dimids; |
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144 | int grpid = this->getCurrentGroup(); |
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145 | |
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146 | std::vector<std::string>::const_iterator |
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147 | it = _dims.begin(), end = _dims.end(); |
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148 | |
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149 | for (;it != end; it++) |
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150 | { |
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151 | const std::string & dimid = *it; |
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152 | dimids.push_back(this->getDimension(dimid)); |
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153 | } |
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154 | CheckError(nc_def_var(grpid, _name.c_str(), _type, dimids.size(), &(dimids[0]), &retvalue)); |
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155 | return (retvalue); |
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156 | } |
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157 | |
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158 | int CONetCDF4::addGroup(const std::string & _name) |
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159 | { |
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160 | int retvalue = 0; |
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161 | int grpid = this->getCurrentGroup(); |
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162 | CheckError(nc_def_grp(grpid, const_cast<char*>(_name.c_str()), &retvalue)); |
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163 | return (retvalue); |
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164 | } |
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165 | |
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166 | // --------------------------- Accesseurs protégés -------------------------- |
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167 | |
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168 | int CONetCDF4::getCurrentGroup(void) |
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169 | { |
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170 | return (this->getGroup(this->getCurrentPath())); |
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171 | } |
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172 | |
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173 | int CONetCDF4::getGroup(const CNetCDF4Path & path) |
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174 | { |
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175 | int retvalue = this->ncidp; |
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176 | |
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177 | CNetCDF4Path::const_iterator |
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178 | it = path.begin(), end = path.end(); |
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179 | |
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180 | for (;it != end; it++) |
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181 | { |
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182 | const std::string & groupid = *it; |
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183 | CheckError(nc_inq_ncid(retvalue, const_cast<char*>(groupid.c_str()), &retvalue)); |
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184 | } |
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185 | return (retvalue); |
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186 | } |
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187 | |
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188 | int CONetCDF4::getVariable(const std::string & varname) |
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189 | { |
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190 | int varid = 0; |
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191 | int grpid = this->getCurrentGroup(); |
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192 | CheckError(nc_inq_varid (grpid, varname.c_str(), &varid)); |
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193 | return (varid); |
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194 | } |
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195 | |
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196 | int CONetCDF4::getDimension(const std::string & dimname) |
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197 | { |
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198 | int dimid = 0; |
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199 | int grpid = this->getCurrentGroup(); |
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200 | CheckError(nc_inq_dimid (grpid, dimname.c_str(), &dimid)); |
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201 | return (dimid); |
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202 | } |
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203 | |
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204 | int CONetCDF4::getUnlimitedDimension(void) |
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205 | { |
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206 | int dimid = 0; |
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207 | int grpid = this->getCurrentGroup(); |
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208 | CheckError(nc_inq_unlimdim (grpid, &dimid)); |
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209 | return (dimid); |
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210 | } |
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211 | |
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212 | std::vector<std::size_t> CONetCDF4::getDimensions(const std::string & varname) |
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213 | { |
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214 | std::size_t size = 0; |
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215 | std::vector<std::size_t> retvalue; |
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216 | int grpid = this->getCurrentGroup(); |
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217 | int varid = this->getVariable(varname); |
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218 | int nbdim = 0, *dimid = NULL; |
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219 | |
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220 | CheckError(nc_inq_varndims(grpid, varid, &nbdim)); |
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221 | dimid = new int[nbdim](); |
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222 | CheckError(nc_inq_vardimid(grpid, varid, dimid)); |
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223 | |
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224 | for (int i = 0; i < nbdim; i++) |
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225 | { |
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226 | CheckError(nc_inq_dimlen (grpid, dimid[i], &size)); |
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227 | if (size == NC_UNLIMITED) |
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228 | size = UNLIMITED_DIM; |
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229 | retvalue.push_back(size); |
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230 | } |
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231 | |
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232 | return (retvalue); |
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233 | } |
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234 | |
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235 | bool CONetCDF4::varExist(const std::string & _varname) |
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236 | { |
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237 | int varid = 0; |
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238 | int grpid = this->getCurrentGroup(); |
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239 | return (nc_inq_varid (grpid, _varname.c_str(), &varid) == NC_NOERR); |
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240 | } |
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241 | |
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242 | // ----------------- Obtention des informations d'écriture ------------------ |
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243 | |
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244 | void CONetCDF4::getWriteDataInfos(const std::string & _varname, |
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245 | std::size_t _record, |
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246 | std::size_t & _array_size, |
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247 | std::vector<std::size_t> & _sstart, |
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248 | std::vector<std::size_t> & _scount, |
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249 | const std::vector<std::size_t> * _start, |
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250 | const std::vector<std::size_t> * _count) |
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251 | { |
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252 | std::vector<std::size_t> sizes = this->getDimensions(_varname); |
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253 | std::vector<std::string> iddims = this->getDimensionsIdList (&_varname); |
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254 | std::vector<std::size_t>::const_iterator |
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255 | it = sizes.begin(), end = sizes.end(); |
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256 | int i = 0; |
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257 | |
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258 | if (iddims.begin()->compare(this->getUnlimitedDimensionName()) == 0) |
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259 | { |
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260 | _sstart.push_back(_record); |
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261 | _scount.push_back(1); |
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262 | if ((_start == NULL) && |
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263 | (_count == NULL)) i++; |
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264 | it++; |
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265 | } |
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266 | |
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267 | for (;it != end; it++) |
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268 | { |
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269 | if ((_start != NULL) && (_count != NULL)) |
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270 | { |
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271 | _sstart.push_back((*_start)[i]); |
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272 | _scount.push_back((*_count)[i]); |
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273 | _array_size *= (*_count)[i]; |
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274 | i++; |
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275 | } |
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276 | else |
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277 | { |
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278 | _sstart.push_back(0); |
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279 | _scount.push_back(sizes[i]); |
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280 | _array_size *= sizes[i]; |
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281 | i++; |
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282 | } |
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283 | } |
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284 | } |
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285 | |
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286 | // ------------------------- Ecriture des données -------------------------- |
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287 | |
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288 | template <> |
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289 | void CONetCDF4::writeData_(int _grpid, int _varid, |
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290 | const std::vector<std::size_t> & _sstart, |
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291 | const std::vector<std::size_t> & _scount, |
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292 | const float * _data) |
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293 | { |
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294 | CheckError(nc_put_vara_float(_grpid, _varid, &(_sstart[0]), &(_scount[0]), _data)); |
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295 | } |
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296 | |
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297 | template <> |
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298 | void CONetCDF4::writeData_(int _grpid, int _varid, |
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299 | const std::vector<std::size_t> & _sstart, |
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300 | const std::vector<std::size_t> & _scount, |
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301 | const int * _data) |
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302 | { |
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303 | CheckError(nc_put_vara_int(_grpid, _varid, &(_sstart[0]), &(_scount[0]), _data)); |
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304 | } |
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305 | |
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306 | template <> |
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307 | void CONetCDF4::writeData_(int _grpid, int _varid, |
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308 | const std::vector<std::size_t> & _sstart, |
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309 | const std::vector<std::size_t> & _scount, |
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310 | const double * _data) |
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311 | { |
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312 | CheckError(nc_put_vara_double(_grpid, _varid, &(_sstart[0]), &(_scount[0]), _data)); |
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313 | } |
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314 | |
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315 | // ------------------------- Ecriture des attributs -------------------------- |
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316 | |
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317 | template <> |
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318 | void CONetCDF4::writeAttribute_ |
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319 | (const std::string & _attname, const double * _value, std::size_t _size, int _grpid, int _varid) |
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320 | { |
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321 | CheckError(nc_put_att_double(_grpid, _varid, _attname.c_str(), NC_DOUBLE, _size, _value)); |
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322 | } |
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323 | |
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324 | template <> |
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325 | void CONetCDF4::writeAttribute_ |
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326 | (const std::string & _attname, const float * _value, std::size_t _size, int _grpid, int _varid) |
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327 | { |
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328 | CheckError(nc_put_att_float(_grpid, _varid, _attname.c_str(), NC_FLOAT, _size, _value)); |
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329 | } |
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330 | |
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331 | template <> |
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332 | void CONetCDF4::writeAttribute_ |
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333 | (const std::string & _attname, const int * _value, std::size_t _size, int _grpid, int _varid) |
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334 | { |
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335 | CheckError(nc_put_att_int(_grpid, _varid, _attname.c_str(), NC_INT, _size, _value)); |
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336 | } |
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337 | |
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338 | template <> |
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339 | void CONetCDF4::writeAttribute_ |
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340 | (const std::string & _attname, const char * _value, std::size_t _size, int _grpid, int _varid) |
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341 | { |
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342 | CheckError(nc_put_att_text(_grpid, _varid, _attname.c_str(), _size, _value)); |
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343 | } |
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344 | |
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345 | void CONetCDF4::writeAttribute |
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346 | (const std::string & _attname, const std::string & _value, const std::string * _varname) |
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347 | { |
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348 | std::vector<char> chart; |
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349 | chart.assign (_value.begin(), _value.end()); |
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350 | this->writeAttribute(_attname, chart, _varname); |
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351 | } |
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352 | |
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353 | } // namespace io |
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354 | } // namespace xmlioserver |
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