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