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 | /** |
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6 | * \file inetcdf4.hpp |
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7 | * \brief Lecture des fichiers de données au format netCDF-4 (implémentation). |
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8 | * \author Hervé Ozdoba |
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9 | * \version 0.4 |
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10 | * \date 15 Juin 2011 |
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11 | */ |
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12 | |
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13 | // XMLIOServer headers |
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14 | #include "inetcdf4.hpp" |
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15 | #include "inetcdf4_impl.hpp" |
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16 | |
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17 | // /////////////////////////////// Définitions ////////////////////////////// // |
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18 | |
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19 | namespace xmlioserver { |
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20 | namespace io { |
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21 | |
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22 | CINetCDF4::CINetCDF4(const std::string & filename) |
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23 | { |
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24 | CheckError(nc_open(filename.c_str(), NC_NOWRITE, &this->ncidp)); |
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25 | } |
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26 | |
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27 | CINetCDF4::~CINetCDF4(void) |
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28 | { |
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29 | CheckError(nc_close(this->ncidp)); |
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30 | } |
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31 | |
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32 | void CINetCDF4::CheckError(int _status) throw (CException) |
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33 | { |
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34 | if (_status != NC_NOERR) |
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35 | { |
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36 | std::string errormsg (nc_strerror(_status)); // fuite mémoire ici ? |
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37 | XIOS_ERROR("CONetCDF4::CheckError(int status)", |
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38 | << "[ status = " << _status << " ] " << errormsg); |
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39 | } |
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40 | } |
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41 | |
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42 | int CINetCDF4::getCurrentGroup(void) |
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43 | { |
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44 | return (this->getGroup(this->getCurrentPath())); |
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45 | } |
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46 | |
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47 | int CINetCDF4::getGroup(const CNetCDF4Path & path) |
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48 | { |
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49 | int retvalue = this->ncidp; |
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50 | |
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51 | CNetCDF4Path::const_iterator |
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52 | it = path.begin(), end = path.end(); |
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53 | |
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54 | for (;it != end; it++) |
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55 | { |
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56 | const std::string & groupid = *it; |
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57 | CheckError(nc_inq_ncid(retvalue, const_cast<char*>(groupid.c_str()), &retvalue)); |
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58 | } |
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59 | return (retvalue); |
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60 | } |
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61 | |
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62 | int CINetCDF4::getVariable(const std::string & varname) |
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63 | { |
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64 | int varid = 0; |
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65 | int grpid = this->getCurrentGroup(); |
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66 | CheckError(nc_inq_varid (grpid, varname.c_str(), &varid)); |
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67 | return (varid); |
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68 | } |
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69 | |
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70 | int CINetCDF4::getDimension(const std::string & dimname) |
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71 | { |
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72 | int dimid = 0; |
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73 | int grpid = this->getCurrentGroup(); |
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74 | CheckError(nc_inq_dimid (grpid, dimname.c_str(), &dimid)); |
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75 | return (dimid); |
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76 | } |
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77 | |
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78 | int CINetCDF4::getUnlimitedDimension(void) |
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79 | { |
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80 | int dimid = 0; |
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81 | int grpid = this->getCurrentGroup(); |
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82 | CheckError(nc_inq_unlimdim (grpid, &dimid)); |
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83 | return (dimid); |
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84 | } |
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85 | |
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86 | std::vector<std::size_t> CINetCDF4::getDimensions(const std::string & varname) |
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87 | { |
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88 | std::size_t size = 0; |
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89 | std::vector<std::size_t> retvalue; |
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90 | int grpid = this->getCurrentGroup(); |
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91 | int varid = this->getVariable(varname); |
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92 | int nbdim = 0, *dimid = NULL; |
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93 | |
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94 | CheckError(nc_inq_varndims(grpid, varid, &nbdim)); |
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95 | dimid = new int[nbdim](); |
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96 | CheckError(nc_inq_vardimid(grpid, varid, dimid)); |
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97 | |
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98 | for (int i = 0; i < nbdim; i++) |
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99 | { |
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100 | CheckError(nc_inq_dimlen (grpid, dimid[i], &size)); |
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101 | if (size == NC_UNLIMITED) |
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102 | size = UNLIMITED_DIM; |
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103 | retvalue.push_back(size); |
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104 | } |
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105 | |
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106 | return (retvalue); |
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107 | } |
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108 | |
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109 | const CINetCDF4::CNetCDF4Path & CINetCDF4::getCurrentPath(void) const |
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110 | { |
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111 | return (this->path); |
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112 | } |
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113 | |
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114 | void CINetCDF4::setCurrentPath(const CNetCDF4Path & path) |
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115 | { |
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116 | this->path = path; |
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117 | } |
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118 | |
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119 | void CINetCDF4::getReadDataInfos(const std::string & _varname, |
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120 | std::size_t _record, |
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121 | std::size_t & _array_size, |
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122 | std::vector<std::size_t> & _sstart, |
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123 | std::vector<std::size_t> & _scount, |
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124 | const std::vector<std::size_t> * _start, |
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125 | const std::vector<std::size_t> * _count) |
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126 | { |
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127 | std::vector<std::size_t> sizes = this->getDimensions(_varname); |
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128 | std::vector<std::size_t>::const_iterator |
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129 | it = sizes.begin(), end = sizes.end(); |
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130 | int i = 0; |
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131 | |
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132 | for (;it != end; it++) |
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133 | { |
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134 | std::size_t s = *it; |
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135 | if ((_start != NULL) && (_count != NULL)) |
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136 | { |
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137 | if (s == UNLIMITED_DIM) |
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138 | { |
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139 | _sstart.push_back(_record); |
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140 | _scount.push_back(1); |
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141 | } |
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142 | else |
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143 | { |
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144 | _sstart.push_back((*_start)[i]); |
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145 | _scount.push_back((*_count)[i]); |
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146 | _array_size *= (*_count)[i]; |
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147 | i++; |
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148 | } |
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149 | } |
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150 | else |
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151 | { |
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152 | if (s == UNLIMITED_DIM) |
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153 | { |
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154 | _sstart.push_back(_record); |
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155 | _scount.push_back(1); |
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156 | } |
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157 | else |
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158 | { |
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159 | _sstart.push_back(0); |
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160 | _scount.push_back(sizes[i]); |
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161 | _array_size *= sizes[i]; |
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162 | } |
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163 | i++; |
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164 | } |
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165 | } |
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166 | } |
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167 | |
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168 | void CINetCDF4::readAttribute |
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169 | (const std::string & _attname, std::string & _value, const std::string * _varname) |
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170 | { |
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171 | std::vector<char> chart; |
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172 | this->readAttribute(_attname,chart , _varname); |
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173 | _value.assign(&(chart[0]), chart.size()); |
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174 | } |
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175 | |
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176 | std::vector<std::string> CINetCDF4::getAttributes(const std::string * const _varname) |
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177 | { |
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178 | int nbatt = 0; |
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179 | char full_name_in[NC_MAX_NAME +1]; |
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180 | std::vector<std::string> retvalue; |
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181 | int grpid = this->getCurrentGroup(); |
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182 | int varid = (_varname != NULL) ? this->getVariable(*_varname) : NC_GLOBAL; |
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183 | |
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184 | if (_varname != NULL) |
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185 | CheckError(nc_inq_varnatts (grpid, varid, &nbatt)); |
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186 | else |
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187 | CheckError(nc_inq_natts(grpid, &nbatt)); |
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188 | |
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189 | for (int i = 0; i < nbatt; i++) |
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190 | { |
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191 | CheckError(nc_inq_attname(grpid, varid, i, full_name_in)); |
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192 | std::string attname(full_name_in); |
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193 | retvalue.push_back(attname); |
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194 | } |
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195 | return (retvalue); |
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196 | } |
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197 | |
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198 | |
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199 | std::map<std::string, std::size_t> CINetCDF4::getDimensions(const std::string * const _varname) |
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200 | { |
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201 | std::size_t size = 0; |
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202 | char full_name_in[NC_MAX_NAME +1]; |
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203 | int nbdim = 0, *dimid = NULL; |
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204 | int grpid = this->getCurrentGroup(); |
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205 | int varid = (_varname != NULL) ? this->getVariable(*_varname) : NC_GLOBAL; |
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206 | std::map<std::string, std::size_t> retvalue; |
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207 | |
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208 | if (_varname != NULL) |
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209 | { |
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210 | CheckError(nc_inq_varndims(grpid, varid, &nbdim)); |
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211 | dimid = new int[nbdim](); |
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212 | CheckError(nc_inq_vardimid(grpid, varid, dimid)); |
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213 | } |
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214 | else |
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215 | { |
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216 | CheckError(nc_inq_dimids(grpid, &nbdim, NULL, 1)); |
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217 | dimid = new int[nbdim](); |
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218 | CheckError(nc_inq_dimids(grpid, NULL, dimid, 1)); |
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219 | } |
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220 | |
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221 | for (int i = 0; i < nbdim; i++) |
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222 | { |
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223 | CheckError(nc_inq_dimname(grpid, dimid[i], full_name_in)); |
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224 | CheckError(nc_inq_dimlen (grpid, dimid[i], &size)); |
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225 | |
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226 | std::string dimname(full_name_in); |
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227 | retvalue.insert(retvalue.end(), std::make_pair(dimname, size)); |
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228 | } |
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229 | delete [] dimid; |
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230 | |
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231 | return (retvalue); |
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232 | } |
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233 | |
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234 | std::vector<std::string> CINetCDF4::getGroups(void) |
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235 | { |
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236 | std::size_t strlen = 0; |
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237 | char full_name_in[NC_MAX_NAME +1]; |
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238 | int nbgroup = 0, *groupid = NULL; |
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239 | int grpid = this->getCurrentGroup(); |
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240 | std::vector<std::string> retvalue; |
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241 | |
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242 | CheckError(nc_inq_grps(grpid, &nbgroup, NULL)); |
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243 | groupid = new int[nbgroup](); |
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244 | CheckError(nc_inq_grps(grpid, NULL, groupid)); |
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245 | |
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246 | for (int i = 0; i < nbgroup; i++) |
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247 | { |
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248 | CheckError(nc_inq_grpname_full(groupid[i], &strlen, full_name_in)); |
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249 | std::string groupname(full_name_in, strlen); |
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250 | retvalue.push_back(groupname); |
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251 | } |
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252 | |
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253 | delete [] groupid; |
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254 | return (retvalue); |
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255 | } |
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256 | |
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257 | std::vector<std::string> CINetCDF4::getVariables(void) |
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258 | { |
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259 | char full_name_in[NC_MAX_NAME +1]; |
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260 | int nbvar = 0, *varid = NULL; |
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261 | int grpid = this->getCurrentGroup(); |
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262 | std::vector<std::string> retvalue; |
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263 | |
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264 | CheckError(nc_inq_varids(grpid, &nbvar, NULL)); |
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265 | varid = new int[nbvar](); |
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266 | CheckError(nc_inq_varids(grpid, NULL, varid)); |
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267 | |
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268 | for (int i = 0; i < nbvar; i++) |
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269 | { |
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270 | CheckError(nc_inq_varname(grpid, varid[i], full_name_in)); |
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271 | std::string varname(full_name_in); |
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272 | retvalue.push_back(varname); |
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273 | } |
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274 | |
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275 | delete [] varid; |
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276 | return (retvalue); |
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277 | } |
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278 | |
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279 | std::size_t CINetCDF4::getNbOfTimestep(void) |
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280 | { |
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281 | return (this->getDimensions(NULL)[this->getUnlimitedDimensionName()]); |
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282 | } |
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283 | |
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284 | std::string CINetCDF4::getUnlimitedDimensionName(void) |
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285 | { |
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286 | char full_name_in[NC_MAX_NAME +1]; |
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287 | int grpid = this->getGroup(path); |
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288 | int dimid = this->getUnlimitedDimension(); |
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289 | CheckError(nc_inq_dimname(grpid, dimid, full_name_in)); |
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290 | |
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291 | std::string dimname(full_name_in); |
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292 | return (dimname); |
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293 | } |
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294 | |
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295 | std::vector<std::string> CINetCDF4::getDimensionsIdList (const std::string * _varname) |
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296 | { |
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297 | char full_name_in[NC_MAX_NAME +1]; |
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298 | int nbdim = 0, *dimid = NULL; |
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299 | int grpid = this->getCurrentGroup(); |
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300 | int varid = (_varname != NULL) ? this->getVariable(*_varname) : NC_GLOBAL; |
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301 | std::vector<std::string> retvalue; |
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302 | |
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303 | if (_varname != NULL) |
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304 | { |
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305 | CheckError(nc_inq_varndims(grpid, varid, &nbdim)); |
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306 | dimid = new int[nbdim](); |
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307 | CheckError(nc_inq_vardimid(grpid, varid, dimid)); |
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308 | } |
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309 | else |
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310 | { |
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311 | CheckError(nc_inq_dimids(grpid, &nbdim, NULL, 1)); |
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312 | dimid = new int[nbdim](); |
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313 | CheckError(nc_inq_dimids(grpid, NULL, dimid, 1)); |
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314 | } |
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315 | |
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316 | for (int i = 0; i < nbdim; i++) |
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317 | { |
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318 | CheckError(nc_inq_dimname(grpid, dimid[i], full_name_in)); |
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319 | std::string dimname(full_name_in); |
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320 | retvalue.push_back(dimname); |
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321 | } |
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322 | delete [] dimid; |
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323 | |
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324 | return (retvalue); |
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325 | } |
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326 | |
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327 | template <> |
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328 | void CINetCDF4::readData_(int _grpid, int _varid, |
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329 | const std::vector<std::size_t> & _sstart, |
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330 | const std::vector<std::size_t> & _scount, |
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331 | float * _data) |
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332 | { |
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333 | CheckError(nc_get_vara_float(_grpid, _varid, &(_sstart[0]), &(_scount[0]), _data)); |
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334 | } |
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335 | |
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336 | template <> |
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337 | void CINetCDF4::readData_(int _grpid, int _varid, |
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338 | const std::vector<std::size_t> & _sstart, |
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339 | const std::vector<std::size_t> & _scount, |
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340 | int * _data) |
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341 | { |
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342 | CheckError(nc_get_vara_int(_grpid, _varid, &(_sstart[0]), &(_scount[0]), _data)); |
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343 | } |
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344 | |
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345 | template <> |
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346 | void CINetCDF4::readData_(int _grpid, int _varid, |
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347 | const std::vector<std::size_t> & _sstart, |
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348 | const std::vector<std::size_t> & _scount, |
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349 | double * _data) |
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350 | { |
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351 | CheckError(nc_get_vara_double(_grpid, _varid, &(_sstart[0]), &(_scount[0]), _data)); |
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352 | } |
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353 | |
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354 | template <> |
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355 | void CINetCDF4::readAttribute_ |
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356 | (const std::string & _attname, double * _value, int _grpid, int _varid) |
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357 | { |
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358 | CheckError(nc_get_att_double(_grpid, _varid, _attname.c_str(), _value)); |
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359 | } |
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360 | |
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361 | template <> |
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362 | void CINetCDF4::readAttribute_ |
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363 | (const std::string & _attname, float * _value, int _grpid, int _varid) |
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364 | { |
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365 | CheckError(nc_get_att_float(_grpid, _varid, _attname.c_str(), _value)); |
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366 | } |
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367 | |
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368 | template <> |
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369 | void CINetCDF4::readAttribute_ |
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370 | (const std::string & _attname, int * _value, int _grpid, int _varid) |
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371 | { |
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372 | CheckError(nc_get_att_int(_grpid, _varid, _attname.c_str(), _value)); |
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373 | } |
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374 | |
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375 | template <> |
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376 | void CINetCDF4::readAttribute_ |
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377 | (const std::string & _attname, char * _value, int _grpid, int _varid) |
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378 | { |
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379 | CheckError(nc_get_att_text(_grpid, _varid, _attname.c_str(), _value)); |
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380 | } |
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381 | |
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382 | bool CINetCDF4::varExist(const std::string & _varname) |
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383 | { |
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384 | int varid = 0; |
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385 | int grpid = this->getCurrentGroup(); |
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386 | return (nc_inq_varid (grpid, _varname.c_str(), &varid) == NC_NOERR); |
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387 | } |
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388 | |
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389 | } // namespace io |
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390 | } // namespace xmlioserver |
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