[528] | 1 | #include <fstream> |
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| 2 | |
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[219] | 3 | #include "onetcdf4.hpp" |
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[352] | 4 | #include "group_template.hpp" |
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[382] | 5 | #include "mpi.hpp" |
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[379] | 6 | #include "netcdf.hpp" |
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[498] | 7 | #include "netCdfInterface.hpp" |
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| 8 | #include "netCdfException.hpp" |
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[1158] | 9 | #include "timer.hpp" |
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[219] | 10 | |
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[335] | 11 | namespace xios |
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[219] | 12 | { |
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| 13 | /// ////////////////////// Définitions ////////////////////// /// |
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| 14 | |
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[686] | 15 | CONetCDF4::CONetCDF4(const StdString& filename, bool append, bool useClassicFormat, |
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[878] | 16 | bool useCFConvention, |
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[802] | 17 | const MPI_Comm* comm, bool multifile, const StdString& timeCounterName) |
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[686] | 18 | : path() |
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| 19 | , wmpi(false) |
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| 20 | , useClassicFormat(useClassicFormat) |
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[878] | 21 | , useCFConvention(useCFConvention) |
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[219] | 22 | { |
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[878] | 23 | this->initialize(filename, append, useClassicFormat, useCFConvention, comm, multifile, timeCounterName); |
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[219] | 24 | } |
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[498] | 25 | |
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[219] | 26 | //--------------------------------------------------------------- |
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[286] | 27 | |
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[219] | 28 | CONetCDF4::~CONetCDF4(void) |
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| 29 | { |
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| 30 | } |
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| 31 | |
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| 32 | ///-------------------------------------------------------------- |
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| 33 | |
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[878] | 34 | void CONetCDF4::initialize(const StdString& filename, bool append, bool useClassicFormat, bool useCFConvention, |
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[802] | 35 | const MPI_Comm* comm, bool multifile, const StdString& timeCounterName) |
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[219] | 36 | { |
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[517] | 37 | this->useClassicFormat = useClassicFormat; |
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[878] | 38 | this->useCFConvention = useCFConvention; |
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[517] | 39 | |
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| 40 | int mode = useClassicFormat ? 0 : NC_NETCDF4; |
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[605] | 41 | |
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| 42 | // Don't use parallel mode if there is only one process |
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| 43 | if (comm) |
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| 44 | { |
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| 45 | int commSize = 0; |
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| 46 | MPI_Comm_size(*comm, &commSize); |
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| 47 | if (commSize <= 1) |
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| 48 | comm = NULL; |
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| 49 | } |
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| 50 | wmpi = comm && !multifile; |
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| 51 | |
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| 52 | if (wmpi) |
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[517] | 53 | mode |= useClassicFormat ? NC_PNETCDF : NC_MPIIO; |
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| 54 | |
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[528] | 55 | // If the file does not exist, we always create it |
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| 56 | if (!append || !std::ifstream(filename.c_str())) |
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[219] | 57 | { |
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[1158] | 58 | CTimer::get("Files : create").resume(); |
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[605] | 59 | if (wmpi) |
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| 60 | CNetCdfInterface::createPar(filename, mode, *comm, MPI_INFO_NULL, this->ncidp); |
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| 61 | else |
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| 62 | CNetCdfInterface::create(filename, mode, this->ncidp); |
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[1158] | 63 | CTimer::get("Files : create").suspend(); |
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| 64 | |
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[528] | 65 | this->appendMode = false; |
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[219] | 66 | } |
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| 67 | else |
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| 68 | { |
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[528] | 69 | mode |= NC_WRITE; |
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[1158] | 70 | CTimer::get("Files : open").resume(); |
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[605] | 71 | if (wmpi) |
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| 72 | CNetCdfInterface::openPar(filename, mode, *comm, MPI_INFO_NULL, this->ncidp); |
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| 73 | else |
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| 74 | CNetCdfInterface::open(filename, mode, this->ncidp); |
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[1158] | 75 | CTimer::get("Files : open").suspend(); |
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[528] | 76 | this->appendMode = true; |
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[219] | 77 | } |
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[517] | 78 | |
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| 79 | // If the classic NetCDF format is used, we enable the "no-fill mode" globally. |
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| 80 | // This is done per variable for the NetCDF4 format. |
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| 81 | if (useClassicFormat) |
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[606] | 82 | CNetCdfInterface::setFill(this->ncidp, false); |
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[802] | 83 | |
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| 84 | this->timeCounterName = timeCounterName; |
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[219] | 85 | } |
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[498] | 86 | |
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[286] | 87 | void CONetCDF4::close() |
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| 88 | { |
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[1158] | 89 | CTimer::get("Files : close").resume(); |
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[686] | 90 | CNetCdfInterface::close(this->ncidp); |
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[1158] | 91 | CTimer::get("Files : close").suspend(); |
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[286] | 92 | } |
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[498] | 93 | |
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[219] | 94 | //--------------------------------------------------------------- |
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[498] | 95 | |
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[219] | 96 | void CONetCDF4::definition_start(void) |
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[498] | 97 | { |
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[686] | 98 | CNetCdfInterface::reDef(this->ncidp); |
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[219] | 99 | } |
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[498] | 100 | |
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[219] | 101 | //--------------------------------------------------------------- |
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[498] | 102 | |
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[219] | 103 | void CONetCDF4::definition_end(void) |
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| 104 | { |
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[686] | 105 | CNetCdfInterface::endDef(this->ncidp); |
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[219] | 106 | } |
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| 107 | |
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| 108 | //--------------------------------------------------------------- |
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[498] | 109 | |
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[219] | 110 | int CONetCDF4::getCurrentGroup(void) |
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| 111 | { |
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[686] | 112 | return this->getGroup(this->getCurrentPath()); |
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[219] | 113 | } |
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[498] | 114 | |
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[219] | 115 | //--------------------------------------------------------------- |
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[498] | 116 | |
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[686] | 117 | int CONetCDF4::getGroup(const CONetCDF4Path& path) |
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[219] | 118 | { |
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| 119 | int retvalue = this->ncidp; |
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[498] | 120 | |
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[686] | 121 | CONetCDF4Path::const_iterator it = path.begin(), end = path.end(); |
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[219] | 122 | |
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[686] | 123 | for (; it != end; it++) |
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[219] | 124 | { |
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[686] | 125 | const StdString& groupid = *it; |
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| 126 | CNetCdfInterface::inqNcId(retvalue, groupid, retvalue); |
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[219] | 127 | } |
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[686] | 128 | return retvalue; |
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[219] | 129 | } |
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[498] | 130 | |
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[219] | 131 | //--------------------------------------------------------------- |
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[498] | 132 | |
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[686] | 133 | int CONetCDF4::getVariable(const StdString& varname) |
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[219] | 134 | { |
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| 135 | int varid = 0; |
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| 136 | int grpid = this->getCurrentGroup(); |
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[686] | 137 | CNetCdfInterface::inqVarId(grpid, varname, varid); |
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| 138 | return varid; |
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[219] | 139 | } |
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[498] | 140 | |
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[219] | 141 | //--------------------------------------------------------------- |
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[498] | 142 | |
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[686] | 143 | int CONetCDF4::getDimension(const StdString& dimname) |
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[219] | 144 | { |
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| 145 | int dimid = 0; |
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| 146 | int grpid = this->getCurrentGroup(); |
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[686] | 147 | CNetCdfInterface::inqDimId(grpid, dimname, dimid); |
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| 148 | return dimid; |
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[219] | 149 | } |
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[498] | 150 | |
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[219] | 151 | //--------------------------------------------------------------- |
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[498] | 152 | |
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[219] | 153 | int CONetCDF4::getUnlimitedDimension(void) |
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| 154 | { |
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| 155 | int dimid = 0; |
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| 156 | int grpid = this->getCurrentGroup(); |
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[686] | 157 | CNetCdfInterface::inqUnLimDim(grpid, dimid); |
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| 158 | return dimid; |
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[219] | 159 | } |
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[498] | 160 | |
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[266] | 161 | StdString CONetCDF4::getUnlimitedDimensionName(void) |
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| 162 | { |
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| 163 | int grpid = this->getGroup(path); |
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| 164 | int dimid = this->getUnlimitedDimension(); |
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[498] | 165 | |
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| 166 | StdString dimname; |
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[686] | 167 | if (dimid != -1) |
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| 168 | CNetCdfInterface::inqDimName(grpid, dimid, dimname); |
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| 169 | return dimname; |
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[266] | 170 | } |
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[498] | 171 | |
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[219] | 172 | //--------------------------------------------------------------- |
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[498] | 173 | |
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[686] | 174 | std::vector<StdSize> CONetCDF4::getDimensions(const StdString& varname) |
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[219] | 175 | { |
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| 176 | StdSize size = 0; |
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| 177 | std::vector<StdSize> retvalue; |
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| 178 | int grpid = this->getCurrentGroup(); |
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| 179 | int varid = this->getVariable(varname); |
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| 180 | int nbdim = 0, *dimid = NULL; |
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| 181 | |
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[686] | 182 | CNetCdfInterface::inqVarNDims(grpid, varid, nbdim); |
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[219] | 183 | dimid = new int[nbdim](); |
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[686] | 184 | CNetCdfInterface::inqVarDimId(grpid, varid, dimid); |
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[219] | 185 | |
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| 186 | for (int i = 0; i < nbdim; i++) |
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| 187 | { |
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[686] | 188 | CNetCdfInterface::inqDimLen(grpid, dimid[i], size); |
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[219] | 189 | if (size == NC_UNLIMITED) |
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| 190 | size = UNLIMITED_DIM; |
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| 191 | retvalue.push_back(size); |
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| 192 | } |
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[401] | 193 | delete [] dimid; |
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[686] | 194 | return retvalue; |
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[219] | 195 | } |
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| 196 | |
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[686] | 197 | std::vector<std::string> CONetCDF4::getDimensionsIdList(const std::string* _varname) |
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[266] | 198 | { |
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[498] | 199 | int nDimNull = 0; |
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[266] | 200 | int nbdim = 0, *dimid = NULL; |
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| 201 | int grpid = this->getCurrentGroup(); |
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| 202 | int varid = (_varname != NULL) ? this->getVariable(*_varname) : NC_GLOBAL; |
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| 203 | std::vector<std::string> retvalue; |
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[498] | 204 | |
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[266] | 205 | if (_varname != NULL) |
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| 206 | { |
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[686] | 207 | CNetCdfInterface::inqVarNDims(grpid, varid, nbdim); |
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[266] | 208 | dimid = new int[nbdim](); |
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[686] | 209 | CNetCdfInterface::inqVarDimId(grpid, varid, dimid); |
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[266] | 210 | } |
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| 211 | else |
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| 212 | { |
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[686] | 213 | CNetCdfInterface::inqDimIds(grpid, nbdim, NULL, 1); |
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[266] | 214 | dimid = new int[nbdim](); |
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[686] | 215 | CNetCdfInterface::inqDimIds(grpid, nDimNull, dimid, 1); |
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[266] | 216 | } |
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[498] | 217 | |
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[266] | 218 | for (int i = 0; i < nbdim; i++) |
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| 219 | { |
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[498] | 220 | std::string dimname; |
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[686] | 221 | CNetCdfInterface::inqDimName(grpid, dimid[i], dimname); |
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[266] | 222 | retvalue.push_back(dimname); |
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| 223 | } |
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| 224 | delete [] dimid; |
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[498] | 225 | |
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[686] | 226 | return retvalue; |
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[266] | 227 | } |
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| 228 | |
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[219] | 229 | //--------------------------------------------------------------- |
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| 230 | |
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[707] | 231 | void CONetCDF4::getTimeAxisBounds(CArray<double,2>& timeAxisBounds, const StdString& name, bool collective) |
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| 232 | { |
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| 233 | int grpid = this->getCurrentGroup(); |
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| 234 | int varid = this->getVariable(name); |
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| 235 | |
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| 236 | std::vector<StdSize> start(2), count(2); |
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| 237 | start[0] = 0; |
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| 238 | // Find out how many temporal records have been written already to the file we are opening |
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| 239 | int ncUnlimitedDimId; |
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| 240 | CNetCdfInterface::inqUnLimDim(this->ncidp, ncUnlimitedDimId); |
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| 241 | CNetCdfInterface::inqDimLen(this->ncidp, ncUnlimitedDimId, count[0]); |
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| 242 | start[1] = 0; |
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| 243 | count[1] = 2; |
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| 244 | |
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| 245 | timeAxisBounds.resize(count[1], count[0]); |
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| 246 | |
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| 247 | if (this->wmpi && collective) |
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| 248 | CNetCdfInterface::varParAccess(grpid, varid, NC_COLLECTIVE); |
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| 249 | if (this->wmpi && !collective) |
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| 250 | CNetCdfInterface::varParAccess(grpid, varid, NC_INDEPENDENT); |
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| 251 | |
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| 252 | CNetCdfInterface::getVaraType(grpid, varid, &start[0], &count[0], timeAxisBounds.dataFirst()); |
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| 253 | } |
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| 254 | |
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[1158] | 255 | void CONetCDF4::getTimeAxisBounds(CArray<double,2>& timeAxisBounds, const StdString& name, bool collective, size_t record) |
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| 256 | { |
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| 257 | int grpid = this->getCurrentGroup(); |
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| 258 | int varid = this->getVariable(name); |
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[707] | 259 | |
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[1158] | 260 | std::vector<StdSize> start(2), count(2); |
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| 261 | start[0] = record; |
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| 262 | count[0] = 1 ; |
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| 263 | start[1] = 0; |
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| 264 | count[1] = 2; |
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| 265 | |
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| 266 | timeAxisBounds.resize(2, 1); |
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| 267 | |
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| 268 | if (this->wmpi && collective) |
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| 269 | CNetCdfInterface::varParAccess(grpid, varid, NC_COLLECTIVE); |
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| 270 | if (this->wmpi && !collective) |
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| 271 | CNetCdfInterface::varParAccess(grpid, varid, NC_INDEPENDENT); |
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| 272 | |
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| 273 | CNetCdfInterface::getVaraType(grpid, varid, &start[0], &count[0], timeAxisBounds.dataFirst()); |
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| 274 | } |
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| 275 | |
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| 276 | |
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| 277 | |
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[686] | 278 | const CONetCDF4::CONetCDF4Path& CONetCDF4::getCurrentPath(void) const |
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| 279 | { return this->path; } |
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[219] | 280 | |
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[686] | 281 | void CONetCDF4::setCurrentPath(const CONetCDF4Path& path) |
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[219] | 282 | { this->path = path; } |
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| 283 | |
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| 284 | //--------------------------------------------------------------- |
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| 285 | |
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[686] | 286 | int CONetCDF4::addGroup(const StdString& name) |
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[219] | 287 | { |
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| 288 | int retvalue = 0; |
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| 289 | int grpid = this->getCurrentGroup(); |
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[686] | 290 | CNetCdfInterface::defGrp(grpid, name, retvalue); |
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| 291 | return retvalue; |
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[219] | 292 | } |
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[498] | 293 | |
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[219] | 294 | //--------------------------------------------------------------- |
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[498] | 295 | |
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[219] | 296 | int CONetCDF4::addDimension(const StdString& name, const StdSize size) |
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| 297 | { |
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| 298 | int retvalue = 0; |
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| 299 | int grpid = this->getCurrentGroup(); |
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| 300 | if (size != UNLIMITED_DIM) |
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[686] | 301 | CNetCdfInterface::defDim(grpid, name, size, retvalue); |
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[219] | 302 | else |
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[686] | 303 | CNetCdfInterface::defDim(grpid, name, NC_UNLIMITED, retvalue); |
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| 304 | return retvalue; |
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[219] | 305 | } |
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[498] | 306 | |
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[219] | 307 | //--------------------------------------------------------------- |
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[498] | 308 | |
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[686] | 309 | int CONetCDF4::addVariable(const StdString& name, nc_type type, |
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[1456] | 310 | const std::vector<StdString>& dim, int compressionLevel) |
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[219] | 311 | { |
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[350] | 312 | int varid = 0; |
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[219] | 313 | std::vector<int> dimids; |
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[606] | 314 | std::vector<StdSize> dimsizes; |
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[857] | 315 | int dimSize = dim.size(); |
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[878] | 316 | |
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[606] | 317 | StdSize size; |
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| 318 | StdSize totalSize; |
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| 319 | StdSize maxSize = 1024 * 1024 * 256; // == 2GB/8 if output double |
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[498] | 320 | |
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[219] | 321 | int grpid = this->getCurrentGroup(); |
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[498] | 322 | |
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[606] | 323 | std::vector<StdString>::const_iterator it = dim.begin(), end = dim.end(); |
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[219] | 324 | |
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[878] | 325 | for (int idx = 0; it != end; it++, ++idx) |
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[219] | 326 | { |
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[686] | 327 | const StdString& dimid = *it; |
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[219] | 328 | dimids.push_back(this->getDimension(dimid)); |
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[606] | 329 | CNetCdfInterface::inqDimLen(grpid, this->getDimension(dimid), size); |
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| 330 | if (size == NC_UNLIMITED) size = 1; |
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| 331 | dimsizes.push_back(size); |
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[219] | 332 | } |
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[453] | 333 | |
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[606] | 334 | CNetCdfInterface::defVar(grpid, name, type, dimids.size(), &dimids[0], varid); |
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[498] | 335 | |
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[517] | 336 | // The classic NetCDF format does not support chunking nor fill parameters |
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| 337 | if (!useClassicFormat) |
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[453] | 338 | { |
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[517] | 339 | // set chunksize : size of one record |
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| 340 | // but must not be > 2GB (netcdf or HDF5 problem) |
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| 341 | totalSize = 1; |
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| 342 | for (vector<StdSize>::reverse_iterator it = dimsizes.rbegin(); it != dimsizes.rend(); ++it) |
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| 343 | { |
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| 344 | totalSize *= *it; |
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| 345 | if (totalSize >= maxSize) *it = 1; |
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| 346 | } |
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[857] | 347 | int storageType = (0 == dimSize) ? NC_CONTIGUOUS : NC_CHUNKED; |
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| 348 | CNetCdfInterface::defVarChunking(grpid, varid, storageType, &dimsizes[0]); |
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[517] | 349 | CNetCdfInterface::defVarFill(grpid, varid, true, NULL); |
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[453] | 350 | } |
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| 351 | |
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[1456] | 352 | setCompressionLevel(name, compressionLevel) ; |
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| 353 | |
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[606] | 354 | return varid; |
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[219] | 355 | } |
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| 356 | |
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| 357 | //--------------------------------------------------------------- |
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| 358 | |
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[606] | 359 | void CONetCDF4::setCompressionLevel(const StdString& varname, int compressionLevel) |
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| 360 | { |
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[607] | 361 | if (compressionLevel < 0 || compressionLevel > 9) |
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| 362 | ERROR("void CONetCDF4::setCompressionLevel(const StdString& varname, int compressionLevel)", |
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| 363 | "Invalid compression level for variable \"" << varname << "\", the value should range between 0 and 9."); |
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| 364 | if (compressionLevel && wmpi) |
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| 365 | ERROR("void CONetCDF4::setCompressionLevel(const StdString& varname, int compressionLevel)", |
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| 366 | "Impossible to use compression for variable \"" << varname << "\" when using parallel mode."); |
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| 367 | |
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[606] | 368 | int grpid = this->getCurrentGroup(); |
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| 369 | int varid = this->getVariable(varname); |
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| 370 | CNetCdfInterface::defVarDeflate(grpid, varid, compressionLevel); |
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| 371 | } |
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| 372 | |
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| 373 | //--------------------------------------------------------------- |
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| 374 | |
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[219] | 375 | template <> |
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[686] | 376 | void CONetCDF4::addAttribute(const StdString& name, const StdString& value, const StdString* varname) |
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[219] | 377 | { |
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| 378 | int grpid = this->getCurrentGroup(); |
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| 379 | int varid = (varname == NULL) ? NC_GLOBAL : this->getVariable(*varname); |
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[686] | 380 | CNetCdfInterface::putAttType(grpid, varid, name, value.size(), value.c_str()); |
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[219] | 381 | } |
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[498] | 382 | |
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[219] | 383 | //--------------------------------------------------------------- |
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[498] | 384 | |
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[219] | 385 | template <> |
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[686] | 386 | void CONetCDF4::addAttribute(const StdString& name, const double& value, const StdString* varname) |
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[219] | 387 | { |
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| 388 | int grpid = this->getCurrentGroup(); |
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| 389 | int varid = (varname == NULL) ? NC_GLOBAL : this->getVariable(*varname); |
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[686] | 390 | CNetCdfInterface::putAttType(grpid, varid, name, 1, &value); |
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[219] | 391 | } |
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[391] | 392 | |
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[686] | 393 | template <> |
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| 394 | void CONetCDF4::addAttribute(const StdString& name, const CArray<double,1>& value, const StdString* varname) |
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[391] | 395 | { |
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| 396 | int grpid = this->getCurrentGroup(); |
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| 397 | int varid = (varname == NULL) ? NC_GLOBAL : this->getVariable(*varname); |
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[686] | 398 | CNetCdfInterface::putAttType(grpid, varid, name, value.numElements(), value.dataFirst()); |
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[498] | 399 | } |
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[219] | 400 | //--------------------------------------------------------------- |
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[498] | 401 | |
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[219] | 402 | template <> |
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[686] | 403 | void CONetCDF4::addAttribute(const StdString& name, const float& value, const StdString* varname) |
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[219] | 404 | { |
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| 405 | int grpid = this->getCurrentGroup(); |
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| 406 | int varid = (varname == NULL) ? NC_GLOBAL : this->getVariable(*varname); |
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[686] | 407 | CNetCdfInterface::putAttType(grpid, varid, name, 1, &value); |
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[219] | 408 | } |
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[391] | 409 | |
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[686] | 410 | template <> |
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| 411 | void CONetCDF4::addAttribute(const StdString& name, const CArray<float,1>& value, const StdString* varname) |
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[391] | 412 | { |
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| 413 | int grpid = this->getCurrentGroup(); |
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| 414 | int varid = (varname == NULL) ? NC_GLOBAL : this->getVariable(*varname); |
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[686] | 415 | CNetCdfInterface::putAttType(grpid, varid, name, value.numElements(), value.dataFirst()); |
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[498] | 416 | } |
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| 417 | |
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[219] | 418 | //--------------------------------------------------------------- |
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[498] | 419 | |
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[219] | 420 | template <> |
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[686] | 421 | void CONetCDF4::addAttribute(const StdString& name, const int& value, const StdString* varname) |
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[219] | 422 | { |
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| 423 | int grpid = this->getCurrentGroup(); |
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| 424 | int varid = (varname == NULL) ? NC_GLOBAL : this->getVariable(*varname); |
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[686] | 425 | CNetCdfInterface::putAttType(grpid, varid, name, 1, &value); |
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[219] | 426 | } |
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| 427 | |
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[686] | 428 | template <> |
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| 429 | void CONetCDF4::addAttribute(const StdString& name, const CArray<int,1>& value, const StdString* varname) |
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[391] | 430 | { |
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| 431 | int grpid = this->getCurrentGroup(); |
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| 432 | int varid = (varname == NULL) ? NC_GLOBAL : this->getVariable(*varname); |
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[686] | 433 | CNetCdfInterface::putAttType(grpid, varid, name, value.numElements(), value.dataFirst()); |
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[498] | 434 | } |
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| 435 | |
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[472] | 436 | template <> |
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[686] | 437 | void CONetCDF4::addAttribute(const StdString& name, const short int& value, const StdString* varname) |
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[472] | 438 | { |
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| 439 | int grpid = this->getCurrentGroup(); |
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| 440 | int varid = (varname == NULL) ? NC_GLOBAL : this->getVariable(*varname); |
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[686] | 441 | CNetCdfInterface::putAttType(grpid, varid, name, 1, &value); |
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[472] | 442 | } |
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[219] | 443 | |
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[686] | 444 | template <> |
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| 445 | void CONetCDF4::addAttribute(const StdString& name, const CArray<short int,1>& value, const StdString* varname) |
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[472] | 446 | { |
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| 447 | int grpid = this->getCurrentGroup(); |
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| 448 | int varid = (varname == NULL) ? NC_GLOBAL : this->getVariable(*varname); |
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[686] | 449 | CNetCdfInterface::putAttType(grpid, varid, name, value.numElements(), value.dataFirst()); |
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[498] | 450 | } |
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| 451 | |
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[472] | 452 | template <> |
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[686] | 453 | void CONetCDF4::addAttribute(const StdString& name, const long int& value, const StdString* varname) |
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[472] | 454 | { |
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| 455 | int grpid = this->getCurrentGroup(); |
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| 456 | int varid = (varname == NULL) ? NC_GLOBAL : this->getVariable(*varname); |
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[686] | 457 | CNetCdfInterface::putAttType(grpid, varid, name, 1, &value); |
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[472] | 458 | } |
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| 459 | |
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[686] | 460 | template <> |
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| 461 | void CONetCDF4::addAttribute(const StdString& name, const CArray<long int,1>& value, const StdString* varname) |
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[472] | 462 | { |
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| 463 | int grpid = this->getCurrentGroup(); |
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| 464 | int varid = (varname == NULL) ? NC_GLOBAL : this->getVariable(*varname); |
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[686] | 465 | CNetCdfInterface::putAttType(grpid, varid, name, value.numElements(), value.dataFirst()); |
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[498] | 466 | } |
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| 467 | |
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[686] | 468 | //--------------------------------------------------------------- |
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[498] | 469 | |
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[686] | 470 | void CONetCDF4::getWriteDataInfos(const StdString& name, StdSize record, StdSize& array_size, |
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| 471 | std::vector<StdSize>& sstart, |
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| 472 | std::vector<StdSize>& scount, |
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| 473 | const std::vector<StdSize>* start, |
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| 474 | const std::vector<StdSize>* count) |
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[498] | 475 | { |
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[266] | 476 | std::vector<std::size_t> sizes = this->getDimensions(name); |
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[857] | 477 | if (sizes.size()==0) |
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[266] | 478 | { |
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[857] | 479 | array_size=1 ; |
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| 480 | sstart.push_back(0); |
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[606] | 481 | scount.push_back(1); |
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[266] | 482 | } |
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[857] | 483 | else |
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| 484 | { |
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| 485 | std::vector<std::string> iddims = this->getDimensionsIdList (&name); |
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| 486 | std::vector<std::size_t>::const_iterator |
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| 487 | it = sizes.begin(), end = sizes.end(); |
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| 488 | int i = 0; |
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[219] | 489 | |
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[857] | 490 | if (iddims.begin()->compare(timeCounterName) == 0) |
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| 491 | { |
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| 492 | sstart.push_back(record); |
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| 493 | scount.push_back(1); |
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| 494 | if ((start == NULL) && |
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| 495 | (count == NULL)) i++; |
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| 496 | it++; |
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| 497 | } |
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| 498 | |
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| 499 | for (;it != end; it++) |
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| 500 | { |
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| 501 | if ((start != NULL) && (count != NULL)) |
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| 502 | { |
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| 503 | sstart.push_back((*start)[i]); |
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| 504 | scount.push_back((*count)[i]); |
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| 505 | array_size *= (*count)[i]; |
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| 506 | i++; |
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| 507 | } |
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| 508 | else |
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| 509 | { |
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| 510 | sstart.push_back(0); |
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| 511 | scount.push_back(sizes[i]); |
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| 512 | array_size *= sizes[i]; |
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| 513 | i++; |
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| 514 | } |
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| 515 | } |
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| 516 | |
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[219] | 517 | } |
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| 518 | } |
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[498] | 519 | |
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[857] | 520 | |
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[219] | 521 | template <> |
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[686] | 522 | void CONetCDF4::writeData_(int grpid, int varid, |
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| 523 | const std::vector<StdSize>& sstart, |
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| 524 | const std::vector<StdSize>& scount, const double* data) |
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[219] | 525 | { |
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[686] | 526 | CNetCdfInterface::putVaraType(grpid, varid, &sstart[0], &scount[0], data); |
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[219] | 527 | } |
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[498] | 528 | |
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[219] | 529 | //--------------------------------------------------------------- |
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[498] | 530 | |
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[219] | 531 | template <> |
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[686] | 532 | void CONetCDF4::writeData_(int grpid, int varid, |
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| 533 | const std::vector<StdSize>& sstart, |
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[1158] | 534 | const std::vector<StdSize>& scount, char* data) |
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| 535 | { |
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| 536 | CNetCdfInterface::putVaraType(grpid, varid, &sstart[0], &scount[0], data); |
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| 537 | } |
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| 538 | |
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| 539 | template <> |
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[1201] | 540 | |
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[1158] | 541 | void CONetCDF4::writeData_(int grpid, int varid, |
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| 542 | const std::vector<StdSize>& sstart, |
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[686] | 543 | const std::vector<StdSize>& scount, const int* data) |
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[219] | 544 | { |
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[686] | 545 | CNetCdfInterface::putVaraType(grpid, varid, &sstart[0], &scount[0], data); |
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[219] | 546 | } |
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| 547 | //--------------------------------------------------------------- |
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[498] | 548 | |
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[219] | 549 | template <> |
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[686] | 550 | void CONetCDF4::writeData_(int grpid, int varid, |
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| 551 | const std::vector<StdSize>& sstart, |
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| 552 | const std::vector<StdSize>& scount, const float* data) |
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[219] | 553 | { |
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[686] | 554 | CNetCdfInterface::putVaraType(grpid, varid, &sstart[0], &scount[0], data); |
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[219] | 555 | } |
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| 556 | |
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| 557 | //--------------------------------------------------------------- |
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| 558 | |
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[686] | 559 | void CONetCDF4::writeData(const CArray<int, 2>& data, const StdString& name) |
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[219] | 560 | { |
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| 561 | int grpid = this->getCurrentGroup(); |
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| 562 | int varid = this->getVariable(name); |
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| 563 | StdSize array_size = 1; |
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| 564 | std::vector<StdSize> sstart, scount; |
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| 565 | |
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| 566 | this->getWriteDataInfos(name, 0, array_size, sstart, scount, NULL, NULL); |
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[1158] | 567 | |
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[369] | 568 | this->writeData_(grpid, varid, sstart, scount, data.dataFirst()); |
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[1158] | 569 | |
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[219] | 570 | } |
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| 571 | |
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[686] | 572 | void CONetCDF4::writeTimeAxisData(const CArray<double, 1>& data, const StdString& name, |
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[413] | 573 | bool collective, StdSize record, bool isRoot) |
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| 574 | { |
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| 575 | int grpid = this->getCurrentGroup(); |
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| 576 | int varid = this->getVariable(name); |
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[498] | 577 | |
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[686] | 578 | map<int,size_t>::iterator it=timeAxis.find(varid); |
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| 579 | if (it == timeAxis.end()) timeAxis[varid] = record; |
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[498] | 580 | else |
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[413] | 581 | { |
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[686] | 582 | if (it->second >= record) return; |
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| 583 | else it->second =record; |
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[413] | 584 | } |
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[498] | 585 | |
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[413] | 586 | StdSize array_size = 1; |
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| 587 | std::vector<StdSize> sstart, scount; |
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[498] | 588 | |
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[413] | 589 | if (this->wmpi && collective) |
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[686] | 590 | CNetCdfInterface::varParAccess(grpid, varid, NC_COLLECTIVE); |
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[413] | 591 | if (this->wmpi && !collective) |
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[686] | 592 | CNetCdfInterface::varParAccess(grpid, varid, NC_INDEPENDENT); |
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[498] | 593 | |
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[413] | 594 | this->getWriteDataInfos(name, record, array_size, sstart, scount, NULL, NULL); |
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[1158] | 595 | this->writeData_(grpid, varid, sstart, scount, data.dataFirst()); |
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| 596 | } |
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| 597 | |
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| 598 | void CONetCDF4::writeTimeAxisDataBounds(const CArray<double, 1>& data, const StdString& name, |
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| 599 | bool collective, StdSize record, bool isRoot) |
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| 600 | { |
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| 601 | int grpid = this->getCurrentGroup(); |
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| 602 | int varid = this->getVariable(name); |
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| 603 | |
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| 604 | map<int,size_t>::iterator it=timeAxis.find(varid); |
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| 605 | if (it == timeAxis.end()) timeAxis[varid] = record; |
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| 606 | else |
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[686] | 607 | { |
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[1158] | 608 | if (it->second >= record) return; |
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| 609 | else it->second =record; |
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[686] | 610 | } |
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[1158] | 611 | |
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| 612 | StdSize array_size = 1; |
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| 613 | std::vector<StdSize> sstart, scount; |
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| 614 | |
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| 615 | if (this->wmpi && collective) |
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| 616 | CNetCdfInterface::varParAccess(grpid, varid, NC_COLLECTIVE); |
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| 617 | if (this->wmpi && !collective) |
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| 618 | CNetCdfInterface::varParAccess(grpid, varid, NC_INDEPENDENT); |
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| 619 | |
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| 620 | this->getWriteDataInfos(name, record, array_size, sstart, scount, NULL, NULL); |
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[413] | 621 | this->writeData_(grpid, varid, sstart, scount, data.dataFirst()); |
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| 622 | } |
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| 623 | |
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[1158] | 624 | |
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[219] | 625 | //--------------------------------------------------------------- |
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[498] | 626 | |
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[686] | 627 | bool CONetCDF4::varExist(const StdString& varname) |
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[219] | 628 | { |
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| 629 | int grpid = this->getCurrentGroup(); |
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[686] | 630 | return CNetCdfInterface::isVarExisted(grpid, varname); |
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[219] | 631 | } |
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| 632 | |
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[878] | 633 | bool CONetCDF4::dimExist(const StdString& dimname) |
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| 634 | { |
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| 635 | int grpid = this->getCurrentGroup(); |
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| 636 | return CNetCdfInterface::isDimExisted(grpid, dimname); |
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| 637 | } |
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| 638 | |
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[286] | 639 | void CONetCDF4::sync(void) |
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| 640 | { |
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[686] | 641 | CNetCdfInterface::sync(this->ncidp); |
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[498] | 642 | } |
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[219] | 643 | ///-------------------------------------------------------------- |
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[337] | 644 | } // namespace xios |
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