[266] | 1 | |
---|
[219] | 2 | #include "nc4_data_output.hpp" |
---|
| 3 | |
---|
| 4 | #include <boost/lexical_cast.hpp> |
---|
[352] | 5 | #include "attribute_template.hpp" |
---|
| 6 | #include "group_template.hpp" |
---|
[219] | 7 | |
---|
| 8 | #include "file.hpp" |
---|
| 9 | #include "calendar.hpp" |
---|
[278] | 10 | #include "context.hpp" |
---|
[300] | 11 | #include "context_server.hpp" |
---|
[219] | 12 | |
---|
[335] | 13 | namespace xios |
---|
[219] | 14 | { |
---|
| 15 | /// ////////////////////// Définitions ////////////////////// /// |
---|
| 16 | CNc4DataOutput::CNc4DataOutput |
---|
| 17 | (const StdString & filename, bool exist) |
---|
| 18 | : SuperClass() |
---|
| 19 | , SuperClassWriter(filename, exist) |
---|
| 20 | , filename(filename) |
---|
| 21 | { |
---|
| 22 | StdString timeid = StdString("time_counter"); |
---|
| 23 | SuperClass::type = MULTI_FILE; |
---|
[391] | 24 | // if (!exist) |
---|
| 25 | // SuperClassWriter::addDimension(timeid); |
---|
[219] | 26 | } |
---|
| 27 | |
---|
| 28 | CNc4DataOutput::CNc4DataOutput |
---|
[379] | 29 | (const StdString & filename, bool exist, MPI_Comm comm_file,bool multifile, bool isCollective) |
---|
[219] | 30 | : SuperClass() |
---|
[379] | 31 | , SuperClassWriter(filename, exist, &comm_file,multifile) |
---|
| 32 | , comm_file(comm_file) |
---|
[219] | 33 | , filename(filename) |
---|
[335] | 34 | , isCollective(isCollective) |
---|
[219] | 35 | { |
---|
| 36 | StdString timeid = StdString("time_counter"); |
---|
| 37 | |
---|
[286] | 38 | SuperClass::type = (multifile) ? MULTI_FILE : ONE_FILE; |
---|
| 39 | |
---|
[391] | 40 | // if (!exist) |
---|
| 41 | // SuperClassWriter::addDimension(timeid); |
---|
[219] | 42 | } |
---|
| 43 | |
---|
[286] | 44 | |
---|
[219] | 45 | CNc4DataOutput::~CNc4DataOutput(void) |
---|
| 46 | { /* Ne rien faire de plus */ } |
---|
| 47 | |
---|
| 48 | ///-------------------------------------------------------------- |
---|
| 49 | |
---|
| 50 | const StdString & CNc4DataOutput::getFileName(void) const |
---|
| 51 | { |
---|
| 52 | return (this->filename); |
---|
| 53 | } |
---|
| 54 | |
---|
| 55 | //--------------------------------------------------------------- |
---|
| 56 | |
---|
[347] | 57 | void CNc4DataOutput::writeDomain_(CDomain* domain) |
---|
[219] | 58 | { |
---|
[347] | 59 | CContext* context = CContext::getCurrent() ; |
---|
[300] | 60 | CContextServer* server=context->server ; |
---|
| 61 | |
---|
[219] | 62 | if (domain->IsWritten(this->filename)) return; |
---|
| 63 | domain->checkAttributes(); |
---|
| 64 | |
---|
[300] | 65 | if (domain->isEmpty()) |
---|
| 66 | if (SuperClass::type==MULTI_FILE) return ; |
---|
[219] | 67 | |
---|
| 68 | std::vector<StdString> dim0, dim1; |
---|
| 69 | StdString domid = (!domain->name.isEmpty()) |
---|
| 70 | ? domain->name.getValue() : domain->getId(); |
---|
[318] | 71 | StdString appendDomid = (singleDomain) ? "" : "_"+domid ; |
---|
[391] | 72 | |
---|
[433] | 73 | bool isCurvilinear = domain->isCurvilinear ; |
---|
| 74 | StdString dimXid, dimYid ; |
---|
| 75 | if (isCurvilinear) |
---|
| 76 | { |
---|
| 77 | dimXid = StdString("x").append(appendDomid); |
---|
| 78 | dimYid = StdString("y").append(appendDomid); |
---|
| 79 | } |
---|
| 80 | else |
---|
| 81 | { |
---|
| 82 | dimXid = StdString("lon").append(appendDomid); |
---|
| 83 | dimYid = StdString("lat").append(appendDomid); |
---|
| 84 | } |
---|
| 85 | |
---|
[391] | 86 | string lonid,latid ; |
---|
| 87 | /* |
---|
[300] | 88 | StdString lonid_loc = (server->intraCommSize > 1) |
---|
[318] | 89 | ? StdString("lon").append(appendDomid).append("_local") |
---|
[278] | 90 | : lonid; |
---|
[300] | 91 | StdString latid_loc = (server->intraCommSize > 1) |
---|
[318] | 92 | ? StdString("lat").append(appendDomid).append("_local") |
---|
[278] | 93 | : latid; |
---|
[391] | 94 | */ |
---|
[219] | 95 | |
---|
| 96 | switch (SuperClass::type) |
---|
| 97 | { |
---|
| 98 | case (MULTI_FILE) : |
---|
| 99 | { |
---|
[300] | 100 | // if (domain->isEmpty()) return; |
---|
[286] | 101 | |
---|
[300] | 102 | if (server->intraCommSize > 1) |
---|
[286] | 103 | { |
---|
[391] | 104 | // SuperClassWriter::addDimension(lonid, domain->zoom_ni.getValue()); |
---|
| 105 | // SuperClassWriter::addDimension(latid, domain->zoom_nj.getValue()); |
---|
[286] | 106 | } |
---|
| 107 | |
---|
| 108 | if (isCurvilinear) |
---|
| 109 | { |
---|
[391] | 110 | dim0.push_back(dimYid); dim0.push_back(dimXid); |
---|
[318] | 111 | lonid = StdString("nav_lon").append(appendDomid); |
---|
| 112 | latid = StdString("nav_lat").append(appendDomid); |
---|
[286] | 113 | } |
---|
| 114 | else |
---|
| 115 | { |
---|
[391] | 116 | lonid = StdString("lon").append(appendDomid); |
---|
| 117 | latid = StdString("lat").append(appendDomid); |
---|
| 118 | dim0.push_back(dimYid); |
---|
| 119 | dim1.push_back(dimXid); |
---|
[286] | 120 | } |
---|
| 121 | |
---|
[391] | 122 | SuperClassWriter::addDimension(dimXid, domain->zoom_ni_srv); |
---|
| 123 | SuperClassWriter::addDimension(dimYid, domain->zoom_nj_srv); |
---|
[300] | 124 | if (server->intraCommSize > 1) |
---|
[278] | 125 | { |
---|
[300] | 126 | this->writeLocalAttributes(domain->zoom_ibegin_srv, |
---|
| 127 | domain->zoom_ni_srv, |
---|
| 128 | domain->zoom_jbegin_srv, |
---|
| 129 | domain->zoom_nj_srv, |
---|
[318] | 130 | appendDomid); |
---|
[391] | 131 | |
---|
| 132 | if (singleDomain) this->writeLocalAttributes_IOIPSL(domain->zoom_ibegin_srv, |
---|
| 133 | domain->zoom_ni_srv, |
---|
| 134 | domain->zoom_jbegin_srv, |
---|
| 135 | domain->zoom_nj_srv, |
---|
| 136 | domain->ni_glo,domain->nj_glo, |
---|
| 137 | server->intraCommRank,server->intraCommSize); |
---|
[278] | 138 | } |
---|
| 139 | |
---|
[219] | 140 | if (isCurvilinear) |
---|
| 141 | { |
---|
| 142 | SuperClassWriter::addVariable(latid, NC_FLOAT, dim0); |
---|
| 143 | SuperClassWriter::addVariable(lonid, NC_FLOAT, dim0); |
---|
| 144 | } |
---|
| 145 | else |
---|
| 146 | { |
---|
| 147 | SuperClassWriter::addVariable(latid, NC_FLOAT, dim0); |
---|
| 148 | SuperClassWriter::addVariable(lonid, NC_FLOAT, dim1); |
---|
| 149 | } |
---|
| 150 | this->writeAxisAttributes |
---|
[286] | 151 | (lonid, "X", "longitude", "Longitude", "degrees_east", domid); |
---|
[219] | 152 | this->writeAxisAttributes |
---|
[286] | 153 | (latid, "Y", "latitude", "Latitude", "degrees_north", domid); |
---|
[219] | 154 | |
---|
| 155 | dim0.clear(); |
---|
[391] | 156 | dim0.push_back(dimYid); |
---|
| 157 | dim0.push_back(dimXid); |
---|
[219] | 158 | |
---|
| 159 | |
---|
[300] | 160 | // supress mask if (server->intraCommSize > 1) |
---|
| 161 | // supress mask { |
---|
| 162 | // supress mask SuperClassWriter::addVariable(maskid, NC_INT, dim0); |
---|
| 163 | // supress mask |
---|
| 164 | // supress mask this->writeMaskAttributes(maskid, |
---|
| 165 | // supress mask domain->data_dim.getValue()/*, |
---|
| 166 | // supress mask domain->data_ni.getValue(), |
---|
| 167 | // supress mask domain->data_nj.getValue(), |
---|
| 168 | // supress mask domain->data_ibegin.getValue(), |
---|
| 169 | // supress mask domain->data_jbegin.getValue()*/); |
---|
| 170 | // supress mask } |
---|
[219] | 171 | |
---|
[266] | 172 | //SuperClassWriter::setDefaultValue(maskid, &dvm); |
---|
[219] | 173 | |
---|
| 174 | SuperClassWriter::definition_end(); |
---|
[384] | 175 | if (isCurvilinear) |
---|
| 176 | { |
---|
| 177 | |
---|
| 178 | SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0); |
---|
| 179 | SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0); |
---|
[300] | 180 | // supress mask if (server->intraCommSize > 1) SuperClassWriter::writeData(mask, maskid); |
---|
[384] | 181 | } |
---|
| 182 | else |
---|
| 183 | { |
---|
| 184 | CArray<double,1> lat = domain->latvalue_srv(Range(fromStart,toEnd,domain->zoom_ni_srv)) ; |
---|
| 185 | SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0); |
---|
| 186 | CArray<double,1> lon=domain->lonvalue_srv(Range(0,domain->zoom_ni_srv-1)) ; |
---|
| 187 | SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0); |
---|
| 188 | } |
---|
[219] | 189 | SuperClassWriter::definition_start(); |
---|
| 190 | |
---|
| 191 | break; |
---|
| 192 | } |
---|
[286] | 193 | case (ONE_FILE) : |
---|
| 194 | { |
---|
[391] | 195 | SuperClassWriter::addDimension(dimXid, domain->zoom_ni.getValue()); |
---|
| 196 | SuperClassWriter::addDimension(dimYid, domain->zoom_nj.getValue()); |
---|
[286] | 197 | |
---|
| 198 | |
---|
| 199 | if (isCurvilinear) |
---|
| 200 | { |
---|
[391] | 201 | dim0.push_back(dimYid); dim0.push_back(dimXid); |
---|
[318] | 202 | lonid = StdString("nav_lon").append(appendDomid); |
---|
| 203 | latid = StdString("nav_lat").append(appendDomid); |
---|
[286] | 204 | SuperClassWriter::addVariable(latid, NC_FLOAT, dim0); |
---|
| 205 | SuperClassWriter::addVariable(lonid, NC_FLOAT, dim0); |
---|
| 206 | } |
---|
| 207 | else |
---|
| 208 | { |
---|
[391] | 209 | dim0.push_back(dimYid); |
---|
| 210 | dim1.push_back(dimXid); |
---|
| 211 | lonid = StdString("lon").append(appendDomid); |
---|
| 212 | latid = StdString("lat").append(appendDomid); |
---|
[286] | 213 | SuperClassWriter::addVariable(latid, NC_FLOAT, dim0); |
---|
| 214 | SuperClassWriter::addVariable(lonid, NC_FLOAT, dim1); |
---|
| 215 | } |
---|
| 216 | this->writeAxisAttributes |
---|
[434] | 217 | (lonid, "X", "longitude", "Longitude", "degrees_east", domid); |
---|
[286] | 218 | this->writeAxisAttributes |
---|
[434] | 219 | (latid, "Y", "latitude", "Latitude", "degrees_north", domid); |
---|
[286] | 220 | |
---|
| 221 | |
---|
| 222 | SuperClassWriter::definition_end(); |
---|
[384] | 223 | if (isCurvilinear) |
---|
[286] | 224 | { |
---|
[384] | 225 | std::vector<StdSize> start(2) ; |
---|
| 226 | std::vector<StdSize> count(2) ; |
---|
| 227 | if (domain->isEmpty()) |
---|
| 228 | { |
---|
| 229 | start[0]=0 ; start [1]=0 ; |
---|
| 230 | count[0]=0 ; count[1]=0 ; |
---|
| 231 | } |
---|
| 232 | else |
---|
| 233 | { |
---|
| 234 | start[1]=domain->zoom_ibegin_srv-domain->zoom_ibegin.getValue() ; start [0]=domain->zoom_jbegin_srv-domain->zoom_jbegin.getValue() ; |
---|
| 235 | count[1]=domain->zoom_ni_srv ; count[0]=domain->zoom_nj_srv ; |
---|
| 236 | } |
---|
| 237 | |
---|
| 238 | SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0,&start,&count); |
---|
| 239 | SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0,&start,&count); |
---|
[286] | 240 | } |
---|
| 241 | else |
---|
| 242 | { |
---|
[384] | 243 | std::vector<StdSize> start(1) ; |
---|
| 244 | std::vector<StdSize> count(1) ; |
---|
| 245 | if (domain->isEmpty()) |
---|
| 246 | { |
---|
| 247 | start[0]=0 ; |
---|
| 248 | count[0]=0 ; |
---|
| 249 | SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0,&start,&count); |
---|
| 250 | SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0,&start,&count); } |
---|
| 251 | else |
---|
| 252 | { |
---|
| 253 | start[0]=domain->zoom_jbegin_srv-domain->zoom_jbegin.getValue() ; |
---|
| 254 | count[0]=domain->zoom_nj_srv ; |
---|
| 255 | CArray<double,1> lat = domain->latvalue_srv(Range(fromStart,toEnd,domain->zoom_ni_srv)) ; |
---|
| 256 | SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0,&start,&count); |
---|
| 257 | |
---|
| 258 | start[0]=domain->zoom_ibegin_srv-domain->zoom_ibegin.getValue() ; |
---|
| 259 | count[0]=domain->zoom_ni_srv ; |
---|
| 260 | CArray<double,1> lon=domain->lonvalue_srv(Range(0,domain->zoom_ni_srv-1)) ; |
---|
| 261 | SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0,&start,&count); |
---|
| 262 | } |
---|
[286] | 263 | } |
---|
| 264 | SuperClassWriter::definition_start(); |
---|
| 265 | break; |
---|
| 266 | } |
---|
[219] | 267 | default : |
---|
| 268 | ERROR("CNc4DataOutput::writeDomain(domain)", |
---|
| 269 | << "[ type = " << SuperClass::type << "]" |
---|
| 270 | << " not implemented yet !"); |
---|
| 271 | } |
---|
| 272 | domain->addRelFile(this->filename); |
---|
| 273 | } |
---|
| 274 | |
---|
| 275 | //-------------------------------------------------------------- |
---|
| 276 | |
---|
[347] | 277 | void CNc4DataOutput::writeAxis_(CAxis* axis) |
---|
[219] | 278 | { |
---|
| 279 | if (axis->IsWritten(this->filename)) return; |
---|
| 280 | axis->checkAttributes(); |
---|
[351] | 281 | StdSize zoom_size=axis->zoom_size.getValue() ; |
---|
| 282 | StdSize zoom_begin=axis->zoom_begin.getValue()-1 ; |
---|
| 283 | |
---|
[219] | 284 | std::vector<StdString> dims; |
---|
| 285 | StdString axisid = (!axis->name.isEmpty()) |
---|
| 286 | ? axis->name.getValue() : axis->getId(); |
---|
[351] | 287 | SuperClassWriter::addDimension(axisid, zoom_size); |
---|
[219] | 288 | dims.push_back(axisid); |
---|
[286] | 289 | |
---|
[219] | 290 | switch (SuperClass::type) |
---|
| 291 | { |
---|
[286] | 292 | case (MULTI_FILE ) : |
---|
| 293 | {} |
---|
[278] | 294 | case (ONE_FILE) : |
---|
[219] | 295 | { |
---|
| 296 | SuperClassWriter::addVariable(axisid, NC_FLOAT, dims); |
---|
| 297 | |
---|
| 298 | SuperClassWriter::addAttribute("axis", StdString("Z"), &axisid); |
---|
| 299 | |
---|
| 300 | if (!axis->standard_name.isEmpty()) |
---|
| 301 | SuperClassWriter::addAttribute |
---|
| 302 | ("standard_name", axis->standard_name.getValue(), &axisid); |
---|
| 303 | |
---|
| 304 | if (!axis->long_name.isEmpty()) |
---|
| 305 | SuperClassWriter::addAttribute |
---|
| 306 | ("long_name", axis->long_name.getValue(), &axisid); |
---|
| 307 | |
---|
| 308 | if (!axis->unit.isEmpty()) |
---|
| 309 | SuperClassWriter::addAttribute |
---|
| 310 | ("units", axis->unit.getValue(), &axisid); |
---|
| 311 | |
---|
[399] | 312 | if (!axis->positive.isEmpty()) |
---|
| 313 | if (axis->positive==CAxis::positive_attr::up) SuperClassWriter::addAttribute("positive", string("up"), &axisid); |
---|
| 314 | else SuperClassWriter::addAttribute("positive", string("down"), &axisid); |
---|
| 315 | |
---|
[219] | 316 | SuperClassWriter::definition_end(); |
---|
[351] | 317 | |
---|
[369] | 318 | CArray<double,1> axis_value(zoom_size) ; |
---|
| 319 | for(StdSize i = 0 ; i < zoom_size ; i++) axis_value(i)=axis->value(i+zoom_begin) ; |
---|
| 320 | SuperClassWriter::writeData(axis_value, axisid, isCollective, 0); |
---|
[351] | 321 | |
---|
[219] | 322 | SuperClassWriter::definition_start(); |
---|
| 323 | |
---|
| 324 | break; |
---|
| 325 | } |
---|
| 326 | default : |
---|
| 327 | ERROR("CNc4DataOutput::writeDomain(domain)", |
---|
| 328 | << "[ type = " << SuperClass::type << "]" |
---|
| 329 | << " not implemented yet !"); |
---|
| 330 | } |
---|
| 331 | axis->addRelFile(this->filename); |
---|
[391] | 332 | } |
---|
| 333 | |
---|
| 334 | void CNc4DataOutput::writeTimeDimension_(void) |
---|
| 335 | { |
---|
| 336 | SuperClassWriter::addDimension(string("time_counter")); |
---|
| 337 | } |
---|
[219] | 338 | //-------------------------------------------------------------- |
---|
| 339 | |
---|
[347] | 340 | void CNc4DataOutput::writeField_(CField* field) |
---|
[219] | 341 | { |
---|
[347] | 342 | CContext* context = CContext::getCurrent() ; |
---|
[300] | 343 | CContextServer* server=context->server ; |
---|
| 344 | |
---|
[219] | 345 | std::vector<StdString> dims, coodinates; |
---|
[347] | 346 | CGrid* grid = field->grid; |
---|
| 347 | CDomain* domain = grid->domain; |
---|
[286] | 348 | |
---|
| 349 | if (domain->isEmpty()) |
---|
| 350 | if (SuperClass::type==MULTI_FILE) return ; |
---|
[219] | 351 | |
---|
| 352 | StdString timeid = StdString("time_counter"); |
---|
| 353 | StdString domid = (!domain->name.isEmpty()) |
---|
| 354 | ? domain->name.getValue() : domain->getId(); |
---|
[318] | 355 | StdString appendDomid = (singleDomain) ? "" : "_"+domid ; |
---|
[434] | 356 | |
---|
| 357 | bool isCurvilinear = domain->isCurvilinear ; |
---|
| 358 | |
---|
| 359 | StdString dimXid,dimYid ; |
---|
| 360 | |
---|
| 361 | if (isCurvilinear) |
---|
| 362 | { |
---|
| 363 | dimXid = StdString("x").append(appendDomid); |
---|
| 364 | dimYid = StdString("y").append(appendDomid); |
---|
| 365 | } |
---|
| 366 | else |
---|
| 367 | { |
---|
| 368 | dimXid = StdString("lon").append(appendDomid); |
---|
| 369 | dimYid = StdString("lat").append(appendDomid); |
---|
| 370 | } |
---|
| 371 | |
---|
| 372 | /* |
---|
[300] | 373 | StdString lonid_loc = (server->intraCommSize > 1) |
---|
[318] | 374 | ? StdString("lon").append(appendDomid).append("_local") |
---|
[278] | 375 | : lonid; |
---|
[300] | 376 | StdString latid_loc = (server->intraCommSize > 1) |
---|
[318] | 377 | ? StdString("lat").append(appendDomid).append("_local") |
---|
[278] | 378 | : latid; |
---|
[391] | 379 | */ |
---|
[219] | 380 | StdString fieldid = (!field->name.isEmpty()) |
---|
| 381 | ? field->name.getValue() : field->getBaseFieldReference()->getId(); |
---|
| 382 | |
---|
[300] | 383 | // unsigned int ssize = domain->zoom_ni_loc.getValue() * domain->zoom_nj_loc.getValue(); |
---|
| 384 | // bool isCurvilinear = (domain->lonvalue.getValue()->size() == ssize); |
---|
[434] | 385 | // bool isCurvilinear = domain->isCurvilinear ; |
---|
[300] | 386 | |
---|
[219] | 387 | nc_type type = (!field->prec.isEmpty() && |
---|
| 388 | ( field->prec.getValue() == 4)) |
---|
| 389 | ? NC_FLOAT : NC_DOUBLE; |
---|
| 390 | bool wtime = !(!field->operation.isEmpty() && |
---|
| 391 | ( field->operation.getValue().compare("once") == 0)); |
---|
| 392 | |
---|
| 393 | if (wtime) |
---|
| 394 | { |
---|
| 395 | StdOStringStream oss; |
---|
| 396 | oss << "time_" << field->operation.getValue() |
---|
| 397 | << "_" << field->getRelFile()->output_freq.getValue(); |
---|
| 398 | |
---|
| 399 | coodinates.push_back(oss.str()); |
---|
| 400 | dims.push_back(timeid); |
---|
| 401 | } |
---|
| 402 | |
---|
| 403 | if (!grid->axis_ref.isEmpty()) |
---|
| 404 | { |
---|
[347] | 405 | CAxis* axis = grid->axis ; |
---|
[300] | 406 | StdString axisid = (!axis->name.isEmpty()) ? axis->name.getValue() : axis->getId(); |
---|
[219] | 407 | dims.push_back(axisid); |
---|
| 408 | coodinates.push_back(axisid); |
---|
| 409 | } |
---|
| 410 | |
---|
| 411 | if (isCurvilinear) |
---|
| 412 | { |
---|
[318] | 413 | coodinates.push_back(StdString("nav_lat").append(appendDomid)); |
---|
| 414 | coodinates.push_back(StdString("nav_lon").append(appendDomid)); |
---|
[219] | 415 | } |
---|
| 416 | else |
---|
| 417 | { |
---|
[391] | 418 | coodinates.push_back(StdString("lat").append(appendDomid)); |
---|
| 419 | coodinates.push_back(StdString("lon").append(appendDomid)); |
---|
[219] | 420 | } |
---|
| 421 | |
---|
| 422 | switch (SuperClass::type) |
---|
| 423 | { |
---|
| 424 | case (MULTI_FILE) : |
---|
| 425 | { |
---|
[391] | 426 | dims.push_back(dimYid); |
---|
| 427 | dims.push_back(dimXid); |
---|
[286] | 428 | break ; |
---|
| 429 | } |
---|
| 430 | case (ONE_FILE) : |
---|
| 431 | { |
---|
[391] | 432 | dims.push_back(dimYid); |
---|
| 433 | dims.push_back(dimXid); |
---|
[286] | 434 | break; |
---|
| 435 | } |
---|
| 436 | default : |
---|
| 437 | ERROR("CNc4DataOutput::writeDomain(domain)", |
---|
| 438 | << "[ type = " << SuperClass::type << "]" |
---|
| 439 | << " not implemented yet !"); |
---|
| 440 | } |
---|
| 441 | |
---|
| 442 | SuperClassWriter::addVariable(fieldid, type, dims); |
---|
| 443 | |
---|
| 444 | if (!field->standard_name.isEmpty()) |
---|
| 445 | SuperClassWriter::addAttribute |
---|
| 446 | ("standard_name", field->standard_name.getValue(), &fieldid); |
---|
[219] | 447 | |
---|
[286] | 448 | if (!field->long_name.isEmpty()) |
---|
| 449 | SuperClassWriter::addAttribute |
---|
| 450 | ("long_name", field->long_name.getValue(), &fieldid); |
---|
[219] | 451 | |
---|
[286] | 452 | if (!field->unit.isEmpty()) |
---|
| 453 | SuperClassWriter::addAttribute |
---|
| 454 | ("units", field->unit.getValue(), &fieldid); |
---|
[219] | 455 | |
---|
[286] | 456 | SuperClassWriter::addAttribute |
---|
| 457 | ("online_operation", field->operation.getValue(), &fieldid); |
---|
[219] | 458 | |
---|
[286] | 459 | if (wtime) |
---|
| 460 | { |
---|
[437] | 461 | CDuration duration ; |
---|
| 462 | |
---|
| 463 | duration.FromString(field->freq_op) ; |
---|
| 464 | duration.solveTimeStep(*(context->calendar)); |
---|
| 465 | SuperClassWriter::addAttribute("interval_operation", duration.toString(), &fieldid); |
---|
| 466 | |
---|
| 467 | duration.FromString(field->getRelFile()->output_freq) ; |
---|
| 468 | duration.solveTimeStep(*(context->calendar)); |
---|
| 469 | SuperClassWriter::addAttribute("interval_write", duration.toString(), &fieldid); |
---|
[286] | 470 | } |
---|
| 471 | |
---|
| 472 | if (!field->default_value.isEmpty()) |
---|
| 473 | { |
---|
| 474 | double default_value = field->default_value.getValue(); |
---|
| 475 | float fdefault_value = (float)default_value; |
---|
| 476 | if (type == NC_DOUBLE) |
---|
| 477 | SuperClassWriter::setDefaultValue(fieldid, &default_value); |
---|
| 478 | else |
---|
| 479 | SuperClassWriter::setDefaultValue(fieldid, &fdefault_value); |
---|
| 480 | } |
---|
| 481 | else |
---|
| 482 | { |
---|
| 483 | double * default_value = NULL; |
---|
| 484 | SuperClassWriter::setDefaultValue(fieldid, default_value); |
---|
| 485 | } |
---|
[219] | 486 | |
---|
[286] | 487 | { // Ecriture des coordonnées |
---|
| 488 | |
---|
| 489 | StdString coordstr; //boost::algorithm::join(coodinates, " ") |
---|
| 490 | std::vector<StdString>::iterator |
---|
| 491 | itc = coodinates.begin(), endc = coodinates.end(); |
---|
| 492 | |
---|
| 493 | for (; itc!= endc; itc++) |
---|
| 494 | { |
---|
| 495 | StdString & coord = *itc; |
---|
| 496 | if (itc+1 != endc) |
---|
| 497 | coordstr.append(coord).append(" "); |
---|
| 498 | else coordstr.append(coord); |
---|
| 499 | } |
---|
[219] | 500 | |
---|
[286] | 501 | SuperClassWriter::addAttribute("coordinates", coordstr, &fieldid); |
---|
[219] | 502 | |
---|
| 503 | } |
---|
[286] | 504 | |
---|
[219] | 505 | } |
---|
| 506 | |
---|
| 507 | //-------------------------------------------------------------- |
---|
| 508 | |
---|
[347] | 509 | void CNc4DataOutput::writeFile_ (CFile* file) |
---|
[219] | 510 | { |
---|
| 511 | StdString filename = (!file->name.isEmpty()) |
---|
| 512 | ? file->name.getValue() : file->getId(); |
---|
| 513 | StdString description = (!file->description.isEmpty()) |
---|
| 514 | ? file->description.getValue() |
---|
[335] | 515 | : StdString("Created by xios"); |
---|
[219] | 516 | this->writeFileAttributes(filename, description, |
---|
| 517 | StdString ("CF-1.1"), |
---|
| 518 | StdString("An IPSL model"), |
---|
| 519 | this->getTimeStamp()); |
---|
[318] | 520 | if (file->nbDomain==1) singleDomain=true ; |
---|
| 521 | else singleDomain=false ; |
---|
[219] | 522 | } |
---|
[321] | 523 | |
---|
| 524 | void CNc4DataOutput::syncFile_ (void) |
---|
| 525 | { |
---|
| 526 | SuperClassWriter::sync() ; |
---|
| 527 | } |
---|
[219] | 528 | |
---|
[286] | 529 | void CNc4DataOutput::closeFile_ (void) |
---|
| 530 | { |
---|
| 531 | SuperClassWriter::close() ; |
---|
| 532 | } |
---|
| 533 | |
---|
[219] | 534 | //--------------------------------------------------------------- |
---|
| 535 | |
---|
| 536 | StdString CNc4DataOutput::getTimeStamp(void) const |
---|
| 537 | { |
---|
| 538 | const int buffer_size = 100; |
---|
| 539 | time_t rawtime; |
---|
| 540 | struct tm * timeinfo = NULL; |
---|
| 541 | char buffer [buffer_size]; |
---|
| 542 | |
---|
| 543 | time ( &rawtime ); |
---|
| 544 | timeinfo = localtime ( &rawtime ); |
---|
| 545 | strftime (buffer, buffer_size, "%Y-%b-%d %H:%M:%S %Z", timeinfo); |
---|
| 546 | |
---|
| 547 | return (StdString(buffer)); |
---|
| 548 | } |
---|
| 549 | |
---|
| 550 | //--------------------------------------------------------------- |
---|
| 551 | |
---|
[347] | 552 | void CNc4DataOutput::writeFieldData_ (CField* field) |
---|
[219] | 553 | { |
---|
[347] | 554 | CContext* context = CContext::getCurrent() ; |
---|
[321] | 555 | // if (field->getRelFile()->isSyncTime()) SuperClassWriter::sync() ; |
---|
[413] | 556 | CContextServer* server=context->server ; |
---|
[300] | 557 | |
---|
[347] | 558 | CGrid* grid = field->grid ; |
---|
| 559 | CDomain* domain = grid->domain ; |
---|
[286] | 560 | |
---|
[335] | 561 | if(SuperClass::type==MULTI_FILE || !isCollective) if (domain->isEmpty()) return; |
---|
[286] | 562 | |
---|
| 563 | |
---|
[300] | 564 | StdString fieldid = (!field->name.isEmpty()) |
---|
[219] | 565 | ? field->name.getValue() |
---|
| 566 | : field->getBaseFieldReference()->getId(); |
---|
[278] | 567 | |
---|
| 568 | StdOStringStream oss; |
---|
| 569 | oss << "time_" << field->operation.getValue() |
---|
| 570 | << "_" << field->getRelFile()->output_freq.getValue(); |
---|
| 571 | |
---|
[369] | 572 | CArray<double,1> time_data(1) ; |
---|
[413] | 573 | |
---|
[369] | 574 | if (field->operation.getValue()=="instant") time_data(0) = Time(*field->last_Write_srv) |
---|
[343] | 575 | -Time(context->calendar->getTimeOrigin()); |
---|
[369] | 576 | else time_data(0) = (Time(*field->last_Write_srv)+Time(*field->lastlast_Write_srv))/2 |
---|
[343] | 577 | -Time(context->calendar->getTimeOrigin()); |
---|
[413] | 578 | |
---|
| 579 | |
---|
| 580 | bool isRoot ; |
---|
| 581 | if (server->intraCommRank==0) isRoot=true ; |
---|
| 582 | else isRoot=false ; |
---|
[334] | 583 | |
---|
[219] | 584 | if (grid->hasAxis()) // 3D |
---|
| 585 | { |
---|
[347] | 586 | CAxis* axis = grid->axis ; |
---|
[369] | 587 | CArray<double,3> field_data3D(domain->zoom_ni_srv,domain->zoom_nj_srv,axis->zoom_size) ; |
---|
[384] | 588 | if (!field->default_value.isEmpty()) field_data3D = field->default_value ; |
---|
[300] | 589 | field->outputField(field_data3D); |
---|
[286] | 590 | switch (SuperClass::type) |
---|
| 591 | { |
---|
| 592 | case (MULTI_FILE) : |
---|
| 593 | { |
---|
[335] | 594 | SuperClassWriter::writeData(field_data3D, fieldid, isCollective, field->getNStep()-1); |
---|
| 595 | SuperClassWriter::writeData(time_data, oss.str(), isCollective, field->getNStep()-1); |
---|
[286] | 596 | break ; |
---|
| 597 | } |
---|
| 598 | case (ONE_FILE) : |
---|
| 599 | { |
---|
| 600 | std::vector<StdSize> start(3) ; |
---|
| 601 | std::vector<StdSize> count(3) ; |
---|
| 602 | if (domain->isEmpty()) |
---|
| 603 | { |
---|
| 604 | start[0]=0 ; start[1]=0 ; start[2]=0 ; |
---|
| 605 | count[0]=0 ; count[1]=0 ; start[2]=0 ; |
---|
| 606 | } |
---|
| 607 | else |
---|
| 608 | { |
---|
| 609 | // start[2]=domain->zoom_ibegin_loc.getValue()-domain->zoom_ibegin.getValue() ; start [1]=domain->zoom_jbegin_loc.getValue()-domain->zoom_jbegin.getValue() ; start[0]=0 ; |
---|
[300] | 610 | start[2]=domain->zoom_ibegin_srv-domain->zoom_ibegin.getValue() ; start [1]=domain->zoom_jbegin_srv-domain->zoom_jbegin.getValue() ; start[0]=0 ; |
---|
[351] | 611 | count[2]=domain->zoom_ni_srv ; count[1]=domain->zoom_nj_srv ; count[0] = axis->zoom_size.getValue(); |
---|
[286] | 612 | } |
---|
[335] | 613 | SuperClassWriter::writeData(field_data3D, fieldid, isCollective, field->getNStep()-1,&start,&count ); |
---|
[413] | 614 | SuperClassWriter::writeTimeAxisData(time_data, oss.str(), isCollective, field->getNStep()-1,isRoot ); |
---|
[286] | 615 | break; |
---|
| 616 | } |
---|
| 617 | } |
---|
[219] | 618 | |
---|
| 619 | } |
---|
| 620 | else // 2D |
---|
| 621 | { |
---|
[369] | 622 | CArray<double,2> field_data2D(domain->zoom_ni_srv,domain->zoom_nj_srv) ; |
---|
[384] | 623 | if (!field->default_value.isEmpty()) field_data2D = field->default_value ; |
---|
[300] | 624 | field->outputField(field_data2D); |
---|
[286] | 625 | switch (SuperClass::type) |
---|
| 626 | { |
---|
| 627 | case (MULTI_FILE) : |
---|
| 628 | { |
---|
[335] | 629 | SuperClassWriter::writeData(field_data2D, fieldid, isCollective, field->getNStep()-1); |
---|
| 630 | SuperClassWriter::writeData(time_data, oss.str(), isCollective, field->getNStep()-1); |
---|
[286] | 631 | break; |
---|
| 632 | } |
---|
| 633 | case (ONE_FILE) : |
---|
| 634 | { |
---|
| 635 | std::vector<StdSize> start(2) ; |
---|
| 636 | std::vector<StdSize> count(2) ; |
---|
| 637 | if (domain->isEmpty()) |
---|
| 638 | { |
---|
| 639 | start[0]=0 ; start[1]=0 ; |
---|
| 640 | count[0]=0 ; count[1]=0 ; |
---|
| 641 | } |
---|
| 642 | else |
---|
| 643 | { |
---|
[300] | 644 | start[1]=domain->zoom_ibegin_srv-domain->zoom_ibegin.getValue() ; start[0]=domain->zoom_jbegin_srv-domain->zoom_jbegin.getValue() ; |
---|
| 645 | count[1]=domain->zoom_ni_srv ; count[0]=domain->zoom_nj_srv ; |
---|
[286] | 646 | } |
---|
[300] | 647 | |
---|
[335] | 648 | SuperClassWriter::writeData(field_data2D, fieldid, isCollective, field->getNStep()-1,&start,&count); |
---|
[413] | 649 | SuperClassWriter::writeTimeAxisData(time_data, oss.str(), isCollective, field->getNStep()-1,isRoot); |
---|
| 650 | break; |
---|
[286] | 651 | |
---|
| 652 | } |
---|
| 653 | } |
---|
[219] | 654 | } |
---|
| 655 | } |
---|
| 656 | |
---|
| 657 | //--------------------------------------------------------------- |
---|
| 658 | |
---|
| 659 | void CNc4DataOutput::writeTimeAxis_ |
---|
[347] | 660 | (CField* field, |
---|
[343] | 661 | const boost::shared_ptr<CCalendar> cal) |
---|
[219] | 662 | { |
---|
| 663 | StdOStringStream oss; |
---|
| 664 | oss << "time_" << field->operation.getValue() |
---|
| 665 | << "_" << field->getRelFile()->output_freq.getValue(); |
---|
| 666 | |
---|
| 667 | std::vector<StdString> dims; |
---|
| 668 | StdString axisid = oss.str(); |
---|
| 669 | StdString timeid = StdString("time_counter"); |
---|
| 670 | |
---|
| 671 | dims.push_back(timeid); |
---|
| 672 | if (!SuperClassWriter::varExist(axisid)) |
---|
| 673 | { |
---|
| 674 | SuperClassWriter::addVariable(axisid, NC_DOUBLE, dims); |
---|
[343] | 675 | CDate timeOrigin=cal->getTimeOrigin() ; |
---|
[316] | 676 | // StdOStringStream oss2; |
---|
| 677 | // oss2<<initDate.getYear()<<"-"<<initDate.getMonth()<<"-"<<initDate.getDay()<<" " |
---|
| 678 | // <<initDate.getHour()<<"-"<<initDate.getMinute()<<"-"<<initDate.getSecond() ; |
---|
| 679 | // StdString strInitdate=oss2.str() ; |
---|
[334] | 680 | StdString strTimeOrigin=timeOrigin.toString() ; |
---|
[219] | 681 | this->writeTimeAxisAttributes |
---|
[292] | 682 | (axisid, cal->getType(), |
---|
[334] | 683 | StdString("seconds since ").append(strTimeOrigin), |
---|
| 684 | strTimeOrigin); |
---|
[219] | 685 | } |
---|
| 686 | |
---|
| 687 | } |
---|
| 688 | |
---|
| 689 | //--------------------------------------------------------------- |
---|
| 690 | |
---|
| 691 | void CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name, |
---|
| 692 | const StdString & calendar, |
---|
| 693 | const StdString & units, |
---|
| 694 | const StdString & time_origin, |
---|
| 695 | const StdString & standard_name, |
---|
| 696 | const StdString & long_name, |
---|
| 697 | const StdString & title) |
---|
| 698 | { |
---|
| 699 | SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name); |
---|
| 700 | SuperClassWriter::addAttribute("long_name", long_name , &axis_name); |
---|
| 701 | SuperClassWriter::addAttribute("title", title , &axis_name); |
---|
| 702 | SuperClassWriter::addAttribute("calendar", calendar , &axis_name); |
---|
| 703 | SuperClassWriter::addAttribute("units", units , &axis_name); |
---|
| 704 | SuperClassWriter::addAttribute("time_origin", time_origin , &axis_name); |
---|
| 705 | } |
---|
| 706 | |
---|
| 707 | //--------------------------------------------------------------- |
---|
| 708 | |
---|
| 709 | void CNc4DataOutput::writeAxisAttributes(const StdString & axis_name, |
---|
| 710 | const StdString & axis, |
---|
| 711 | const StdString & standard_name, |
---|
| 712 | const StdString & long_name, |
---|
| 713 | const StdString & units, |
---|
| 714 | const StdString & nav_model) |
---|
| 715 | { |
---|
| 716 | SuperClassWriter::addAttribute("axis" , axis , &axis_name); |
---|
| 717 | SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name); |
---|
| 718 | SuperClassWriter::addAttribute("long_name" , long_name , &axis_name); |
---|
| 719 | SuperClassWriter::addAttribute("units" , units , &axis_name); |
---|
| 720 | SuperClassWriter::addAttribute("nav_model" , nav_model , &axis_name); |
---|
| 721 | } |
---|
| 722 | |
---|
| 723 | //--------------------------------------------------------------- |
---|
| 724 | |
---|
| 725 | void CNc4DataOutput::writeLocalAttributes |
---|
| 726 | (int ibegin, int ni, int jbegin, int nj, StdString domid) |
---|
| 727 | { |
---|
[318] | 728 | SuperClassWriter::addAttribute(StdString("ibegin").append(domid), ibegin); |
---|
| 729 | SuperClassWriter::addAttribute(StdString("ni" ).append(domid), ni); |
---|
| 730 | SuperClassWriter::addAttribute(StdString("jbegin").append(domid), jbegin); |
---|
| 731 | SuperClassWriter::addAttribute(StdString("nj" ).append(domid), nj); |
---|
[219] | 732 | } |
---|
| 733 | |
---|
[391] | 734 | void CNc4DataOutput::writeLocalAttributes_IOIPSL |
---|
| 735 | (int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size) |
---|
| 736 | { |
---|
| 737 | CArray<int,1> array(2) ; |
---|
| 738 | |
---|
| 739 | SuperClassWriter::addAttribute("DOMAIN_number_total",size ) ; |
---|
| 740 | SuperClassWriter::addAttribute("DOMAIN_number", rank) ; |
---|
| 741 | array=1,2 ; |
---|
| 742 | SuperClassWriter::addAttribute("DOMAIN_dimensions_ids",array) ; |
---|
| 743 | array=ni_glo,nj_glo ; |
---|
| 744 | SuperClassWriter::addAttribute("DOMAIN_size_global", array) ; |
---|
| 745 | array=ni,nj ; |
---|
| 746 | SuperClassWriter::addAttribute("DOMAIN_size_local", array) ; |
---|
| 747 | array=ibegin,jbegin ; |
---|
| 748 | SuperClassWriter::addAttribute("DOMAIN_position_first", array) ; |
---|
| 749 | array=ibegin+ni-1,jbegin+nj-1 ; |
---|
| 750 | SuperClassWriter::addAttribute("DOMAIN_position_last",array) ; |
---|
| 751 | array=0,0 ; |
---|
| 752 | SuperClassWriter::addAttribute("DOMAIN_halo_size_start", array) ; |
---|
| 753 | SuperClassWriter::addAttribute("DOMAIN_halo_size_end", array); |
---|
| 754 | SuperClassWriter::addAttribute("DOMAIN_type",string("box")) ; |
---|
| 755 | /* |
---|
| 756 | SuperClassWriter::addAttribute("DOMAIN_DIM_N001",string("x")) ; |
---|
| 757 | SuperClassWriter::addAttribute("DOMAIN_DIM_N002",string("y")) ; |
---|
| 758 | SuperClassWriter::addAttribute("DOMAIN_DIM_N003",string("axis_A")) ; |
---|
| 759 | SuperClassWriter::addAttribute("DOMAIN_DIM_N004",string("time_counter")) ; |
---|
| 760 | */ |
---|
| 761 | |
---|
| 762 | } |
---|
[219] | 763 | //--------------------------------------------------------------- |
---|
| 764 | |
---|
| 765 | void CNc4DataOutput:: writeFileAttributes(const StdString & name, |
---|
| 766 | const StdString & description, |
---|
| 767 | const StdString & conventions, |
---|
| 768 | const StdString & production, |
---|
| 769 | const StdString & timeStamp) |
---|
| 770 | { |
---|
| 771 | SuperClassWriter::addAttribute("name" , name); |
---|
| 772 | SuperClassWriter::addAttribute("description", description); |
---|
| 773 | SuperClassWriter::addAttribute("conventions", conventions); |
---|
| 774 | SuperClassWriter::addAttribute("production" , production); |
---|
| 775 | SuperClassWriter::addAttribute("timeStamp" , timeStamp); |
---|
| 776 | } |
---|
| 777 | |
---|
| 778 | //--------------------------------------------------------------- |
---|
| 779 | |
---|
| 780 | void CNc4DataOutput::writeMaskAttributes(const StdString & mask_name, |
---|
| 781 | int data_dim, |
---|
| 782 | int data_ni, |
---|
| 783 | int data_nj, |
---|
| 784 | int data_ibegin, |
---|
| 785 | int data_jbegin) |
---|
| 786 | { |
---|
| 787 | SuperClassWriter::addAttribute("data_dim" , data_dim , &mask_name); |
---|
| 788 | SuperClassWriter::addAttribute("data_ni" , data_ni , &mask_name); |
---|
| 789 | SuperClassWriter::addAttribute("data_nj" , data_nj , &mask_name); |
---|
| 790 | SuperClassWriter::addAttribute("data_ibegin", data_ibegin, &mask_name); |
---|
| 791 | SuperClassWriter::addAttribute("data_jbegin", data_jbegin, &mask_name); |
---|
| 792 | } |
---|
| 793 | |
---|
| 794 | ///-------------------------------------------------------------- |
---|
| 795 | |
---|
[335] | 796 | } // namespace xios |
---|