[219] | 1 | #include "nc4_data_output.hpp" |
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| 2 | |
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[352] | 3 | #include "attribute_template.hpp" |
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| 4 | #include "group_template.hpp" |
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[219] | 5 | |
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| 6 | #include "file.hpp" |
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| 7 | #include "calendar.hpp" |
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[278] | 8 | #include "context.hpp" |
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[300] | 9 | #include "context_server.hpp" |
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[498] | 10 | #include "netCdfException.hpp" |
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| 11 | #include "exception.hpp" |
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[1158] | 12 | #include "timer.hpp" |
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| 13 | #include "uuid.hpp" |
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[335] | 14 | namespace xios |
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[219] | 15 | { |
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[878] | 16 | /// ////////////////////// Dfinitions ////////////////////// /// |
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[219] | 17 | CNc4DataOutput::CNc4DataOutput |
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[1158] | 18 | (CFile* file, const StdString & filename, bool exist) |
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[219] | 19 | : SuperClass() |
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| 20 | , SuperClassWriter(filename, exist) |
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| 21 | , filename(filename) |
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[2381] | 22 | , file(file),hasTimeInstant(false),hasTimeCentered(false), timeCounterType(none), relElements_() |
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[219] | 23 | { |
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[1158] | 24 | SuperClass::type = MULTI_FILE; |
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[1456] | 25 | compressionLevel= file->compression_level.isEmpty() ? 0 :file->compression_level ; |
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[219] | 26 | } |
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| 27 | |
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| 28 | CNc4DataOutput::CNc4DataOutput |
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[1158] | 29 | (CFile* file, const StdString & filename, bool exist, bool useClassicFormat, bool useCFConvention, |
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[1639] | 30 | MPI_Comm comm_file, bool multifile, bool isCollective, const StdString& timeCounterName) |
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[219] | 31 | : SuperClass() |
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[878] | 32 | , SuperClassWriter(filename, exist, useClassicFormat, useCFConvention, &comm_file, multifile, timeCounterName) |
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[379] | 33 | , comm_file(comm_file) |
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[219] | 34 | , filename(filename) |
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[335] | 35 | , isCollective(isCollective) |
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[2381] | 36 | , file(file),hasTimeInstant(false),hasTimeCentered(false), timeCounterType(none), relElements_() |
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[219] | 37 | { |
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[1158] | 38 | SuperClass::type = (multifile) ? MULTI_FILE : ONE_FILE; |
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[1459] | 39 | if (file==NULL) compressionLevel = 0 ; |
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| 40 | else compressionLevel= file->compression_level.isEmpty() ? 0 :file->compression_level ; |
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[219] | 41 | } |
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| 42 | |
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| 43 | CNc4DataOutput::~CNc4DataOutput(void) |
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[879] | 44 | { /* Ne rien faire de plus */ } |
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[219] | 45 | |
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| 46 | ///-------------------------------------------------------------- |
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| 47 | |
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| 48 | const StdString & CNc4DataOutput::getFileName(void) const |
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| 49 | { |
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| 50 | return (this->filename); |
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| 51 | } |
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| 52 | |
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| 53 | //--------------------------------------------------------------- |
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| 54 | |
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[347] | 55 | void CNc4DataOutput::writeDomain_(CDomain* domain) |
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[1622] | 56 | TRY |
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[219] | 57 | { |
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[1391] | 58 | StdString lonName,latName ; |
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[1249] | 59 | |
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[881] | 60 | if (domain->type == CDomain::type_attr::unstructured) |
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| 61 | { |
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| 62 | if (SuperClassWriter::useCFConvention) |
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| 63 | writeUnstructuredDomain(domain) ; |
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| 64 | else |
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| 65 | writeUnstructuredDomainUgrid(domain) ; |
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| 66 | return ; |
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| 67 | } |
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[488] | 68 | |
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[347] | 69 | CContext* context = CContext::getCurrent() ; |
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[219] | 70 | if (domain->IsWritten(this->filename)) return; |
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| 71 | domain->checkAttributes(); |
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[488] | 72 | |
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| 73 | if (domain->isEmpty()) |
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[881] | 74 | if (SuperClass::type==MULTI_FILE) return; |
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[219] | 75 | |
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[2381] | 76 | |
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| 77 | // Check that the name associated to the current element is not in conflict with an existing element (due to CGrid::duplicateSentGrid) |
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| 78 | if (!domain->lonvalue.isEmpty() ) |
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| 79 | { |
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| 80 | int comm_file_rank(0); |
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| 81 | MPI_Comm_rank( comm_file, &comm_file_rank ); |
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| 82 | int comm_file_size(1); |
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| 83 | MPI_Comm_size( comm_file, &comm_file_size ); |
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| 84 | |
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| 85 | // Get element current FULL view |
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| 86 | shared_ptr<CLocalView> srcView = domain->getLocalView(CElementView::FULL) ; |
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| 87 | vector<shared_ptr<CLocalView>> srcViews; |
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| 88 | srcViews.push_back( srcView ); |
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| 89 | |
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| 90 | // Compute a without redundancy element FULL view to enable a consistent hash computation |
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| 91 | vector<shared_ptr<CLocalView>> remoteViews; |
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| 92 | shared_ptr<CLocalView> remoteView; |
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| 93 | // define the remote view without redundancy (naive distribution of the remote view) |
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| 94 | int globalSize = domain->ni_glo.getValue()*domain->nj_glo.getValue(); |
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| 95 | int localSize = globalSize/comm_file_size; |
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| 96 | if ( (comm_file_rank==comm_file_size-1) && (localSize*comm_file_size != globalSize ) ) |
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| 97 | localSize += globalSize-localSize*comm_file_size; |
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| 98 | CArray<size_t,1> globalIndex( localSize ); |
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| 99 | CArray<int,1> index( localSize ); |
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| 100 | for (int iloc=0; iloc<localSize ; iloc++ ) |
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| 101 | { |
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| 102 | globalIndex(iloc) = comm_file_rank*(globalSize/comm_file_size) + iloc; |
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| 103 | index(iloc) = iloc; |
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| 104 | } |
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| 105 | shared_ptr<CLocalElement> localElement = make_shared<CLocalElement>(comm_file_rank, globalSize, globalIndex) ; |
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| 106 | localElement->addView(CElementView::FULL, index) ; |
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| 107 | remoteView = localElement->getView(CElementView::FULL) ; |
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| 108 | remoteViews.push_back( remoteView ); |
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| 109 | |
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| 110 | // Compute the connector between current and without redundancy FULL views |
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| 111 | shared_ptr<CGridTransformConnector> gridTransformConnector = make_shared<CGridTransformConnector>(srcViews, remoteViews, comm_file ) ; |
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| 112 | gridTransformConnector->computeConnector(true) ; // eliminateRedondant = true |
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| 113 | CArray<double,1> lon_distributedValue, lat_distributedValue ; |
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| 114 | gridTransformConnector->transfer(domain->lonvalue, lon_distributedValue ); |
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| 115 | gridTransformConnector->transfer(domain->latvalue, lat_distributedValue ); |
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| 116 | |
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| 117 | // Compute the distributed hash (v0) of the element |
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| 118 | // it will be associated to the default element name (= map key), and to the name really written |
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| 119 | int localHash = 0; |
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| 120 | for (int iloc=0; iloc<localSize ; iloc++ ) localHash+=globalIndex(iloc)*lon_distributedValue(iloc)*lat_distributedValue(iloc); |
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| 121 | int globalHash(0); |
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| 122 | globalHash = localHash; |
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| 123 | MPI_Allreduce( &localHash, &globalHash, 1, MPI_INT, MPI_SUM, comm_file ); |
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| 124 | |
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| 125 | StdString defaultNameKey = domain->getDomainOutputName(); |
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| 126 | if ( !relElements_.count ( defaultNameKey ) ) |
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| 127 | { |
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| 128 | // if defaultNameKey not in the map, write the element such as it is defined |
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| 129 | relElements_.insert( make_pair( defaultNameKey, make_pair(globalHash, defaultNameKey) ) ); |
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| 130 | } |
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| 131 | else // look if a hash associated this key is equal |
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| 132 | { |
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| 133 | bool elementIsInMap(false); |
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| 134 | auto defaultNameKeyElements = relElements_.equal_range( defaultNameKey ); |
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| 135 | for (auto it = defaultNameKeyElements.first; it != defaultNameKeyElements.second; it++) |
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| 136 | { |
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| 137 | if ( it->second.first == globalHash ) |
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| 138 | { |
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| 139 | // if yes, associate the same ids to current element |
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| 140 | domain->name = it->second.second; |
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| 141 | // lon/lat names must be updated too, check that its exist, if not "lon"/"lat" (default values) are used |
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| 142 | StdString lon_name = "lon_"+it->second.second; |
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| 143 | int ncid = SuperClassWriter::getCurrentGroup(); |
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| 144 | int varId = 0; |
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| 145 | nc_inq_varid(ncid, lon_name.c_str(), &varId); |
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| 146 | if (!varId) //lon_name = "lon" |
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| 147 | { |
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| 148 | domain->lon_name = "lon"; |
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| 149 | domain->lat_name = "lat"; |
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| 150 | } |
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| 151 | else |
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| 152 | { |
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| 153 | domain->lon_name = "lon_"+it->second.second; |
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| 154 | domain->lat_name = "lat_"+it->second.second; |
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| 155 | } |
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| 156 | elementIsInMap = true; |
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| 157 | } |
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| 158 | } |
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| 159 | // if no : inheritance has been excessive, define new names and store it (could be used by another grid) |
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| 160 | if (!elementIsInMap) // ! in MAP |
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| 161 | { |
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| 162 | domain->name = domain->getId(); |
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| 163 | domain->lon_name = "lon_"+domain->getId(); |
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| 164 | domain->lat_name = "lat_"+domain->getId(); |
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| 165 | relElements_.insert( make_pair( defaultNameKey, make_pair(globalHash, domain->getDomainOutputName()) ) ) ;// = domain->getId() |
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| 166 | } |
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| 167 | } |
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| 168 | } |
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| 169 | |
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| 170 | |
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[219] | 171 | std::vector<StdString> dim0, dim1; |
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[772] | 172 | StdString domid = domain->getDomainOutputName(); |
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[318] | 173 | StdString appendDomid = (singleDomain) ? "" : "_"+domid ; |
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[706] | 174 | if (isWrittenDomain(domid)) return ; |
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[774] | 175 | else setWrittenDomain(domid); |
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[1132] | 176 | |
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| 177 | int nvertex = (domain->nvertex.isEmpty()) ? 0 : domain->nvertex; |
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[449] | 178 | |
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[488] | 179 | |
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[1158] | 180 | StdString dimXid, dimYid ; |
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| 181 | |
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| 182 | nc_type typePrec ; |
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| 183 | if (domain->prec.isEmpty()) typePrec = NC_FLOAT ; |
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| 184 | else if (domain->prec==4) typePrec = NC_FLOAT ; |
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| 185 | else if (domain->prec==8) typePrec = NC_DOUBLE ; |
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| 186 | |
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[664] | 187 | bool isRegularDomain = (domain->type == CDomain::type_attr::rectilinear); |
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[449] | 188 | switch (domain->type) |
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[433] | 189 | { |
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[449] | 190 | case CDomain::type_attr::curvilinear : |
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[1391] | 191 | |
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| 192 | if (domain->lon_name.isEmpty()) lonName = "nav_lon"; |
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| 193 | else lonName = domain->lon_name; |
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| 194 | |
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| 195 | if (domain->lat_name.isEmpty()) latName = "nav_lat"; |
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| 196 | else latName = domain->lat_name; |
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| 197 | |
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[1430] | 198 | if (domain->dim_i_name.isEmpty()) dimXid=StdString("x").append(appendDomid); |
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| 199 | else dimXid=domain->dim_i_name.getValue() + appendDomid; |
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| 200 | |
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| 201 | if (domain->dim_j_name.isEmpty()) dimYid=StdString("y").append(appendDomid); |
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| 202 | else dimYid=domain->dim_j_name.getValue() + appendDomid; |
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| 203 | |
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[449] | 204 | break ; |
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[1391] | 205 | |
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[664] | 206 | case CDomain::type_attr::rectilinear : |
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[1391] | 207 | |
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[1430] | 208 | if (domain->lon_name.isEmpty()) |
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| 209 | { |
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| 210 | if (domain->dim_i_name.isEmpty()) |
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| 211 | lonName = "lon"; |
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| 212 | else |
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| 213 | lonName = domain->dim_i_name.getValue(); |
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| 214 | } |
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[1391] | 215 | else lonName = domain->lon_name; |
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| 216 | |
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[1430] | 217 | if (domain->lat_name.isEmpty()) |
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| 218 | { |
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| 219 | if (domain->dim_j_name.isEmpty()) |
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| 220 | latName = "lat"; |
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| 221 | else |
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| 222 | latName = domain->dim_j_name.getValue(); |
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| 223 | } |
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[1391] | 224 | else latName = domain->lat_name; |
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| 225 | |
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[1430] | 226 | if (domain->dim_i_name.isEmpty()) dimXid = lonName+appendDomid; |
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| 227 | else dimXid = domain->dim_i_name.getValue()+appendDomid; |
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| 228 | |
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| 229 | if (domain->dim_j_name.isEmpty()) dimYid = latName+appendDomid; |
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| 230 | else dimYid = domain->dim_j_name.getValue()+appendDomid; |
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[449] | 231 | break; |
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[488] | 232 | } |
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| 233 | |
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[617] | 234 | StdString dimVertId = StdString("nvertex").append(appendDomid); |
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| 235 | |
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[449] | 236 | string lonid,latid,bounds_lonid,bounds_latid ; |
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[611] | 237 | string areaId = "area" + appendDomid; |
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[219] | 238 | |
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[498] | 239 | try |
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[219] | 240 | { |
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[498] | 241 | switch (SuperClass::type) |
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| 242 | { |
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| 243 | case (MULTI_FILE) : |
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| 244 | { |
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| 245 | switch (domain->type) |
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| 246 | { |
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| 247 | case CDomain::type_attr::curvilinear : |
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| 248 | dim0.push_back(dimYid); dim0.push_back(dimXid); |
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[1415] | 249 | lonid = lonName+appendDomid; |
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| 250 | latid = latName+appendDomid; |
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[498] | 251 | break ; |
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[664] | 252 | case CDomain::type_attr::rectilinear : |
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[1415] | 253 | lonid = lonName+appendDomid; |
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| 254 | latid = latName+appendDomid; |
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[498] | 255 | dim0.push_back(dimYid); |
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| 256 | dim1.push_back(dimXid); |
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| 257 | break; |
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| 258 | } |
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[1430] | 259 | if (!domain->bounds_lon_name.isEmpty()) bounds_lonid = domain->bounds_lon_name; |
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| 260 | else bounds_lonid = "bounds_"+lonName+appendDomid; |
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| 261 | if (!domain->bounds_lat_name.isEmpty()) bounds_latid = domain->bounds_lat_name; |
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| 262 | else bounds_latid = "bounds_"+latName+appendDomid; |
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[488] | 263 | |
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[1553] | 264 | SuperClassWriter::addDimension(dimXid, domain->ni); |
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| 265 | SuperClassWriter::addDimension(dimYid, domain->nj); |
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[488] | 266 | |
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[617] | 267 | if (domain->hasBounds) |
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| 268 | SuperClassWriter::addDimension(dimVertId, domain->nvertex); |
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| 269 | |
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[1853] | 270 | if (context->intraCommSize_ > 1) |
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[498] | 271 | { |
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[1553] | 272 | this->writeLocalAttributes(domain->ibegin, |
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| 273 | domain->ni, |
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| 274 | domain->jbegin, |
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| 275 | domain->nj, |
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[616] | 276 | appendDomid); |
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[488] | 277 | |
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[628] | 278 | if (singleDomain) |
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| 279 | this->writeLocalAttributes_IOIPSL(dimXid, dimYid, |
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[1553] | 280 | domain->ibegin, |
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| 281 | domain->ni, |
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| 282 | domain->jbegin, |
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| 283 | domain->nj, |
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[628] | 284 | domain->ni_glo,domain->nj_glo, |
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[1853] | 285 | context->intraCommRank_,context->intraCommSize_); |
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[449] | 286 | } |
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[488] | 287 | |
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[665] | 288 | if (domain->hasLonLat) |
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[498] | 289 | { |
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[665] | 290 | switch (domain->type) |
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| 291 | { |
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| 292 | case CDomain::type_attr::curvilinear : |
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[1456] | 293 | SuperClassWriter::addVariable(latid, typePrec, dim0, compressionLevel); |
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| 294 | SuperClassWriter::addVariable(lonid, typePrec, dim0, compressionLevel); |
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[665] | 295 | break ; |
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| 296 | case CDomain::type_attr::rectilinear : |
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[1456] | 297 | SuperClassWriter::addVariable(latid, typePrec, dim0, compressionLevel); |
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| 298 | SuperClassWriter::addVariable(lonid, typePrec, dim1, compressionLevel); |
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[665] | 299 | break ; |
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| 300 | } |
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[488] | 301 | |
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[665] | 302 | this->writeAxisAttributes(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid); |
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| 303 | this->writeAxisAttributes(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid); |
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[219] | 304 | |
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[665] | 305 | if (domain->hasBounds) |
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| 306 | { |
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| 307 | SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid); |
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| 308 | SuperClassWriter::addAttribute("bounds", bounds_latid, &latid); |
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[617] | 309 | |
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[665] | 310 | dim0.clear(); |
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| 311 | dim0.push_back(dimYid); |
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| 312 | dim0.push_back(dimXid); |
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| 313 | dim0.push_back(dimVertId); |
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[1456] | 314 | SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0, compressionLevel); |
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| 315 | SuperClassWriter::addVariable(bounds_latid, typePrec, dim0, compressionLevel); |
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[665] | 316 | } |
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[617] | 317 | } |
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| 318 | |
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[498] | 319 | dim0.clear(); |
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[616] | 320 | dim0.push_back(dimYid); |
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[498] | 321 | dim0.push_back(dimXid); |
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[219] | 322 | |
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[611] | 323 | if (domain->hasArea) |
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| 324 | { |
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[1456] | 325 | SuperClassWriter::addVariable(areaId, typePrec, dim0, compressionLevel); |
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[614] | 326 | SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId); |
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[611] | 327 | SuperClassWriter::addAttribute("units", StdString("m2"), &areaId); |
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| 328 | } |
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| 329 | |
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[498] | 330 | SuperClassWriter::definition_end(); |
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[449] | 331 | |
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[665] | 332 | if (domain->hasLonLat) |
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[498] | 333 | { |
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[665] | 334 | switch (domain->type) |
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| 335 | { |
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[1129] | 336 | case CDomain::type_attr::curvilinear : |
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[1930] | 337 | SuperClassWriter::writeData(domain->latvalue, latid, isCollective, 0); |
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| 338 | SuperClassWriter::writeData(domain->lonvalue, lonid, isCollective, 0); |
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[665] | 339 | break; |
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| 340 | case CDomain::type_attr::rectilinear : |
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[1930] | 341 | CArray<double,1> lat = domain->latvalue(Range(fromStart,toEnd,domain->ni)) ; |
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[665] | 342 | SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0); |
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[1930] | 343 | CArray<double,1> lon = domain->lonvalue(Range(0,domain->ni-1)) ; |
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[665] | 344 | SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0); |
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| 345 | break; |
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| 346 | } |
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[611] | 347 | |
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[665] | 348 | if (domain->hasBounds) |
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| 349 | { |
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[1930] | 350 | SuperClassWriter::writeData(domain->bounds_lonvalue, bounds_lonid, isCollective, 0); |
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| 351 | SuperClassWriter::writeData(domain->bounds_latvalue, bounds_latid, isCollective, 0); |
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[665] | 352 | } |
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[617] | 353 | } |
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| 354 | |
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[611] | 355 | if (domain->hasArea) |
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[1129] | 356 | { |
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[1930] | 357 | SuperClassWriter::writeData(domain->areavalue, areaId, isCollective, 0); |
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[1129] | 358 | } |
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| 359 | |
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[498] | 360 | SuperClassWriter::definition_start(); |
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[219] | 361 | |
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[498] | 362 | break; |
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| 363 | } |
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| 364 | case (ONE_FILE) : |
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| 365 | { |
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[1553] | 366 | SuperClassWriter::addDimension(dimXid, domain->ni_glo); |
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| 367 | SuperClassWriter::addDimension(dimYid, domain->nj_glo); |
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[286] | 368 | |
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[617] | 369 | if (domain->hasBounds) |
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| 370 | SuperClassWriter::addDimension(dimVertId, domain->nvertex); |
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| 371 | |
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[665] | 372 | if (domain->hasLonLat) |
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[498] | 373 | { |
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[665] | 374 | switch (domain->type) |
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| 375 | { |
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| 376 | case CDomain::type_attr::curvilinear : |
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| 377 | dim0.push_back(dimYid); dim0.push_back(dimXid); |
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[1415] | 378 | lonid = lonName+appendDomid; |
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| 379 | latid = latName+appendDomid; |
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[1456] | 380 | SuperClassWriter::addVariable(latid, typePrec, dim0, compressionLevel); |
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| 381 | SuperClassWriter::addVariable(lonid, typePrec, dim0, compressionLevel); |
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[665] | 382 | break; |
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[449] | 383 | |
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[665] | 384 | case CDomain::type_attr::rectilinear : |
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| 385 | dim0.push_back(dimYid); |
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| 386 | dim1.push_back(dimXid); |
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[1415] | 387 | lonid = lonName+appendDomid; |
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| 388 | latid = latName+appendDomid; |
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[1456] | 389 | SuperClassWriter::addVariable(latid, typePrec, dim0, compressionLevel); |
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| 390 | SuperClassWriter::addVariable(lonid, typePrec, dim1, compressionLevel); |
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[665] | 391 | break; |
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| 392 | } |
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[1430] | 393 | if (!domain->bounds_lon_name.isEmpty()) bounds_lonid = domain->bounds_lon_name; |
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| 394 | else bounds_lonid = "bounds_"+lonName+appendDomid; |
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| 395 | if (!domain->bounds_lat_name.isEmpty()) bounds_latid = domain->bounds_lat_name; |
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| 396 | else bounds_latid = "bounds_"+latName+appendDomid; |
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[665] | 397 | |
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| 398 | this->writeAxisAttributes |
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| 399 | (lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid); |
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| 400 | this->writeAxisAttributes |
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| 401 | (latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid); |
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| 402 | |
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| 403 | if (domain->hasBounds) |
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| 404 | { |
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| 405 | SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid); |
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| 406 | SuperClassWriter::addAttribute("bounds", bounds_latid, &latid); |
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| 407 | |
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| 408 | dim0.clear(); |
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[498] | 409 | dim0.push_back(dimYid); |
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[665] | 410 | dim0.push_back(dimXid); |
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| 411 | dim0.push_back(dimVertId); |
---|
[1456] | 412 | SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0, compressionLevel); |
---|
| 413 | SuperClassWriter::addVariable(bounds_latid, typePrec, dim0, compressionLevel); |
---|
[665] | 414 | } |
---|
[498] | 415 | } |
---|
[611] | 416 | |
---|
| 417 | if (domain->hasArea) |
---|
| 418 | { |
---|
| 419 | dim0.clear(); |
---|
| 420 | dim0.push_back(dimYid); dim0.push_back(dimXid); |
---|
[1456] | 421 | SuperClassWriter::addVariable(areaId, typePrec, dim0, compressionLevel); |
---|
[614] | 422 | SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId); |
---|
[611] | 423 | SuperClassWriter::addAttribute("units", StdString("m2"), &areaId); |
---|
| 424 | dim0.clear(); |
---|
| 425 | } |
---|
| 426 | |
---|
| 427 | SuperClassWriter::definition_end(); |
---|
[286] | 428 | |
---|
[498] | 429 | switch (domain->type) |
---|
[384] | 430 | { |
---|
[498] | 431 | case CDomain::type_attr::curvilinear : |
---|
[449] | 432 | { |
---|
[498] | 433 | std::vector<StdSize> start(2) ; |
---|
| 434 | std::vector<StdSize> count(2) ; |
---|
[1959] | 435 | start[1]=domain->ibegin; |
---|
| 436 | start[0]=domain->jbegin; |
---|
| 437 | count[1]=domain->ni ; count[0]=domain->nj ; |
---|
[488] | 438 | |
---|
[665] | 439 | if (domain->hasLonLat) |
---|
| 440 | { |
---|
[1930] | 441 | SuperClassWriter::writeData(domain->latvalue, latid, isCollective, 0,&start,&count); |
---|
| 442 | SuperClassWriter::writeData(domain->lonvalue, lonid, isCollective, 0,&start,&count); |
---|
[665] | 443 | } |
---|
[498] | 444 | break; |
---|
| 445 | } |
---|
[664] | 446 | case CDomain::type_attr::rectilinear : |
---|
[449] | 447 | { |
---|
[665] | 448 | if (domain->hasLonLat) |
---|
[498] | 449 | { |
---|
[665] | 450 | std::vector<StdSize> start(1) ; |
---|
| 451 | std::vector<StdSize> count(1) ; |
---|
[1930] | 452 | |
---|
| 453 | start[0]=domain->jbegin; |
---|
| 454 | count[0]=domain->nj; |
---|
| 455 | CArray<double,1> lat = domain->latvalue(Range(fromStart,toEnd,domain->ni)); |
---|
| 456 | SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0,&start,&count); |
---|
[665] | 457 | |
---|
[1930] | 458 | start[0]=domain->ibegin; |
---|
| 459 | count[0]=domain->ni; |
---|
| 460 | CArray<double,1> lon = domain->lonvalue(Range(0,domain->ni-1)); |
---|
| 461 | SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0,&start,&count); |
---|
[498] | 462 | } |
---|
| 463 | break; |
---|
[449] | 464 | } |
---|
[384] | 465 | } |
---|
[611] | 466 | |
---|
[617] | 467 | if (domain->hasBounds) |
---|
| 468 | { |
---|
| 469 | std::vector<StdSize> start(3); |
---|
| 470 | std::vector<StdSize> count(3); |
---|
| 471 | if (domain->isEmpty()) |
---|
| 472 | { |
---|
| 473 | start[2] = start[1] = start[0] = 0; |
---|
| 474 | count[2] = count[1] = count[0] = 0; |
---|
| 475 | } |
---|
| 476 | else |
---|
| 477 | { |
---|
| 478 | start[2] = 0; |
---|
[1553] | 479 | start[1] = domain->ibegin; |
---|
| 480 | start[0] = domain->jbegin; |
---|
[1099] | 481 | count[2] = domain->nvertex; |
---|
[1553] | 482 | count[1] = domain->ni; |
---|
| 483 | count[0] = domain->nj; |
---|
[617] | 484 | } |
---|
[1143] | 485 | |
---|
[1930] | 486 | SuperClassWriter::writeData(domain->bounds_lonvalue, bounds_lonid, isCollective, 0, &start, &count); // will probably not working for rectilinear |
---|
| 487 | SuperClassWriter::writeData(domain->bounds_latvalue, bounds_latid, isCollective, 0, &start, &count); |
---|
[617] | 488 | } |
---|
| 489 | |
---|
[611] | 490 | if (domain->hasArea) |
---|
| 491 | { |
---|
| 492 | std::vector<StdSize> start(2); |
---|
| 493 | std::vector<StdSize> count(2); |
---|
| 494 | |
---|
[1930] | 495 | start[1] = domain->ibegin; |
---|
| 496 | start[0] = domain->jbegin; |
---|
| 497 | count[1] = domain->ni; |
---|
| 498 | count[0] = domain->nj; |
---|
[1143] | 499 | |
---|
[1930] | 500 | SuperClassWriter::writeData(domain->areavalue, areaId, isCollective, 0, &start, &count); |
---|
[611] | 501 | } |
---|
| 502 | |
---|
[498] | 503 | SuperClassWriter::definition_start(); |
---|
| 504 | break; |
---|
| 505 | } |
---|
| 506 | default : |
---|
| 507 | ERROR("CNc4DataOutput::writeDomain(domain)", |
---|
| 508 | << "[ type = " << SuperClass::type << "]" |
---|
| 509 | << " not implemented yet !"); |
---|
| 510 | } |
---|
[449] | 511 | } |
---|
[498] | 512 | catch (CNetCdfException& e) |
---|
| 513 | { |
---|
| 514 | StdString msg("On writing the domain : "); |
---|
| 515 | msg.append(domid); msg.append("\n"); |
---|
| 516 | msg.append("In the context : "); |
---|
| 517 | msg.append(context->getId()); msg.append("\n"); |
---|
| 518 | msg.append(e.what()); |
---|
| 519 | ERROR("CNc4DataOutput::writeDomain_(CDomain* domain)", << msg); |
---|
| 520 | } |
---|
| 521 | |
---|
[449] | 522 | domain->addRelFile(this->filename); |
---|
| 523 | } |
---|
[1622] | 524 | CATCH |
---|
[449] | 525 | |
---|
[879] | 526 | //-------------------------------------------------------------- |
---|
[878] | 527 | |
---|
[879] | 528 | void CNc4DataOutput::writeUnstructuredDomainUgrid(CDomain* domain) |
---|
| 529 | { |
---|
| 530 | CContext* context = CContext::getCurrent() ; |
---|
[878] | 531 | |
---|
[879] | 532 | if (domain->IsWritten(this->filename)) return; |
---|
[1494] | 533 | |
---|
| 534 | StdString domid = domain->getDomainOutputName(); |
---|
| 535 | |
---|
| 536 | // The first domain for the same mesh that will be written is that with the highest value of nvertex. |
---|
| 537 | // Thus the entire mesh connectivity will be generated at once. |
---|
| 538 | if (isWrittenDomain(domid)) return ; |
---|
| 539 | else setWrittenDomain(domid); |
---|
| 540 | |
---|
[879] | 541 | domain->checkAttributes(); |
---|
| 542 | if (domain->isEmpty()) |
---|
| 543 | if (SuperClass::type==MULTI_FILE) return ; |
---|
[878] | 544 | |
---|
[1158] | 545 | nc_type typePrec ; |
---|
| 546 | if (domain->prec.isEmpty()) typePrec = NC_FLOAT ; |
---|
| 547 | else if (domain->prec==4) typePrec = NC_FLOAT ; |
---|
| 548 | else if (domain->prec==8) typePrec = NC_DOUBLE ; |
---|
| 549 | |
---|
[879] | 550 | std::vector<StdString> dim0; |
---|
| 551 | StdString domainName = domain->name; |
---|
[924] | 552 | domain->assignMesh(domainName, domain->nvertex); |
---|
[1853] | 553 | domain->mesh->createMeshEpsilon(context->intraComm_, domain->lonvalue, domain->latvalue, domain->bounds_lonvalue, domain->bounds_latvalue); |
---|
[878] | 554 | |
---|
[879] | 555 | StdString node_x = domainName + "_node_x"; |
---|
| 556 | StdString node_y = domainName + "_node_y"; |
---|
[878] | 557 | |
---|
[879] | 558 | StdString edge_x = domainName + "_edge_x"; |
---|
| 559 | StdString edge_y = domainName + "_edge_y"; |
---|
| 560 | StdString edge_nodes = domainName + "_edge_nodes"; |
---|
[878] | 561 | |
---|
[879] | 562 | StdString face_x = domainName + "_face_x"; |
---|
| 563 | StdString face_y = domainName + "_face_y"; |
---|
| 564 | StdString face_nodes = domainName + "_face_nodes"; |
---|
[902] | 565 | StdString face_edges = domainName + "_face_edges"; |
---|
| 566 | StdString edge_faces = domainName + "_edge_face_links"; |
---|
| 567 | StdString face_faces = domainName + "_face_links"; |
---|
[878] | 568 | |
---|
[879] | 569 | StdString dimNode = "n" + domainName + "_node"; |
---|
| 570 | StdString dimEdge = "n" + domainName + "_edge"; |
---|
| 571 | StdString dimFace = "n" + domainName + "_face"; |
---|
| 572 | StdString dimVertex = "n" + domainName + "_vertex"; |
---|
| 573 | StdString dimTwo = "Two"; |
---|
[878] | 574 | |
---|
[879] | 575 | if (!SuperClassWriter::dimExist(dimTwo)) SuperClassWriter::addDimension(dimTwo, 2); |
---|
[1494] | 576 | dim0.clear(); |
---|
| 577 | SuperClassWriter::addVariable(domainName, NC_INT, dim0, compressionLevel); |
---|
| 578 | SuperClassWriter::addAttribute("cf_role", StdString("mesh_topology"), &domainName); |
---|
| 579 | SuperClassWriter::addAttribute("long_name", StdString("Topology data of 2D unstructured mesh"), &domainName); |
---|
| 580 | SuperClassWriter::addAttribute("topology_dimension", 2, &domainName); |
---|
| 581 | SuperClassWriter::addAttribute("node_coordinates", node_x + " " + node_y, &domainName); |
---|
[878] | 582 | |
---|
[879] | 583 | try |
---|
| 584 | { |
---|
| 585 | switch (SuperClass::type) |
---|
| 586 | { |
---|
| 587 | case (ONE_FILE) : |
---|
| 588 | { |
---|
| 589 | // Adding nodes |
---|
| 590 | if (domain->nvertex == 1) |
---|
| 591 | { |
---|
| 592 | if (!SuperClassWriter::varExist(node_x) || !SuperClassWriter::varExist(node_y)) |
---|
| 593 | { |
---|
[902] | 594 | SuperClassWriter::addDimension(dimNode, domain->ni_glo); |
---|
[879] | 595 | dim0.clear(); |
---|
| 596 | dim0.push_back(dimNode); |
---|
[1456] | 597 | SuperClassWriter::addVariable(node_x, typePrec, dim0, compressionLevel); |
---|
[879] | 598 | SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x); |
---|
[924] | 599 | SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x); |
---|
[879] | 600 | SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x); |
---|
[1456] | 601 | SuperClassWriter::addVariable(node_y, typePrec, dim0, compressionLevel); |
---|
[879] | 602 | SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y); |
---|
[924] | 603 | SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y); |
---|
[879] | 604 | SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y); |
---|
| 605 | } |
---|
| 606 | } // domain->nvertex == 1 |
---|
[878] | 607 | |
---|
[879] | 608 | // Adding edges and nodes, if nodes have not been defined previously |
---|
| 609 | if (domain->nvertex == 2) |
---|
| 610 | { |
---|
| 611 | if (!SuperClassWriter::varExist(node_x) || !SuperClassWriter::varExist(node_y)) |
---|
| 612 | { |
---|
[924] | 613 | SuperClassWriter::addDimension(dimNode, domain->mesh->nbNodesGlo); |
---|
[879] | 614 | dim0.clear(); |
---|
| 615 | dim0.push_back(dimNode); |
---|
[1456] | 616 | SuperClassWriter::addVariable(node_x, typePrec, dim0, compressionLevel); |
---|
[879] | 617 | SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x); |
---|
[924] | 618 | SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x); |
---|
[879] | 619 | SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x); |
---|
[1456] | 620 | SuperClassWriter::addVariable(node_y, typePrec, dim0, compressionLevel); |
---|
[879] | 621 | SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y); |
---|
[924] | 622 | SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y); |
---|
[879] | 623 | SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y); |
---|
| 624 | } |
---|
[924] | 625 | SuperClassWriter::addAttribute("edge_node_connectivity", edge_nodes, &domainName); |
---|
| 626 | SuperClassWriter::addAttribute("edge_coordinates", edge_x + " " + edge_y, &domainName); |
---|
| 627 | SuperClassWriter::addDimension(dimEdge, domain->ni_glo); |
---|
| 628 | dim0.clear(); |
---|
| 629 | dim0.push_back(dimEdge); |
---|
[1456] | 630 | SuperClassWriter::addVariable(edge_x, typePrec, dim0, compressionLevel); |
---|
[924] | 631 | SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &edge_x); |
---|
| 632 | SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh edges."), &edge_x); |
---|
| 633 | SuperClassWriter::addAttribute("units", StdString("degrees_east"), &edge_x); |
---|
[1456] | 634 | SuperClassWriter::addVariable(edge_y, typePrec, dim0, compressionLevel); |
---|
[924] | 635 | SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &edge_y); |
---|
| 636 | SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh edges."), &edge_y); |
---|
| 637 | SuperClassWriter::addAttribute("units", StdString("degrees_north"), &edge_y); |
---|
| 638 | dim0.clear(); |
---|
| 639 | dim0.push_back(dimEdge); |
---|
| 640 | dim0.push_back(dimTwo); |
---|
[1456] | 641 | SuperClassWriter::addVariable(edge_nodes, NC_INT, dim0, compressionLevel); |
---|
[924] | 642 | SuperClassWriter::addAttribute("cf_role", StdString("edge_node_connectivity"), &edge_nodes); |
---|
| 643 | SuperClassWriter::addAttribute("long_name", StdString("Maps every edge/link to two nodes that it connects."), &edge_nodes); |
---|
| 644 | SuperClassWriter::addAttribute("start_index", 0, &edge_nodes); |
---|
[879] | 645 | } // domain->nvertex == 2 |
---|
[878] | 646 | |
---|
[879] | 647 | // Adding faces, edges, and nodes, if edges and nodes have not been defined previously |
---|
| 648 | if (domain->nvertex > 2) |
---|
| 649 | { |
---|
| 650 | // Nodes |
---|
| 651 | if (!SuperClassWriter::varExist(node_x) || !SuperClassWriter::varExist(node_y)) |
---|
| 652 | { |
---|
[924] | 653 | SuperClassWriter::addDimension(dimNode, domain->mesh->nbNodesGlo); |
---|
[879] | 654 | dim0.clear(); |
---|
| 655 | dim0.push_back(dimNode); |
---|
[1456] | 656 | SuperClassWriter::addVariable(node_x, typePrec, dim0, compressionLevel); |
---|
[879] | 657 | SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x); |
---|
[924] | 658 | SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x); |
---|
[879] | 659 | SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x); |
---|
[1456] | 660 | SuperClassWriter::addVariable(node_y, typePrec, dim0, compressionLevel); |
---|
[879] | 661 | SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y); |
---|
[924] | 662 | SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y); |
---|
[879] | 663 | SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y); |
---|
| 664 | } |
---|
| 665 | if (!SuperClassWriter::varExist(edge_x) || !SuperClassWriter::varExist(edge_y)) |
---|
| 666 | { |
---|
| 667 | SuperClassWriter::addAttribute("edge_coordinates", edge_x + " " + edge_y, &domainName); |
---|
| 668 | SuperClassWriter::addAttribute("edge_node_connectivity", edge_nodes, &domainName); |
---|
[924] | 669 | SuperClassWriter::addDimension(dimEdge, domain->mesh->nbEdgesGlo); |
---|
[879] | 670 | dim0.clear(); |
---|
| 671 | dim0.push_back(dimEdge); |
---|
[1456] | 672 | SuperClassWriter::addVariable(edge_x, typePrec, dim0, compressionLevel); |
---|
[879] | 673 | SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &edge_x); |
---|
[924] | 674 | SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh edges."), &edge_x); |
---|
[879] | 675 | SuperClassWriter::addAttribute("units", StdString("degrees_east"), &edge_x); |
---|
[1456] | 676 | SuperClassWriter::addVariable(edge_y, typePrec, dim0, compressionLevel); |
---|
[879] | 677 | SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &edge_y); |
---|
[924] | 678 | SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh edges."), &edge_y); |
---|
[879] | 679 | SuperClassWriter::addAttribute("units", StdString("degrees_north"), &edge_y); |
---|
| 680 | dim0.clear(); |
---|
| 681 | dim0.push_back(dimEdge); |
---|
| 682 | dim0.push_back(dimTwo); |
---|
[1456] | 683 | SuperClassWriter::addVariable(edge_nodes, NC_INT, dim0, compressionLevel); |
---|
[879] | 684 | SuperClassWriter::addAttribute("cf_role", StdString("edge_node_connectivity"), &edge_nodes); |
---|
| 685 | SuperClassWriter::addAttribute("long_name", StdString("Maps every edge/link to two nodes that it connects."), &edge_nodes); |
---|
| 686 | SuperClassWriter::addAttribute("start_index", 0, &edge_nodes); |
---|
| 687 | } |
---|
[924] | 688 | SuperClassWriter::addAttribute("face_coordinates", face_x + " " + face_y, &domainName); |
---|
| 689 | SuperClassWriter::addAttribute("face_node_connectivity", face_nodes, &domainName); |
---|
| 690 | SuperClassWriter::addDimension(dimFace, domain->ni_glo); |
---|
| 691 | SuperClassWriter::addDimension(dimVertex, domain->nvertex); |
---|
| 692 | dim0.clear(); |
---|
| 693 | dim0.push_back(dimFace); |
---|
[1456] | 694 | SuperClassWriter::addVariable(face_x, typePrec, dim0, compressionLevel); |
---|
[924] | 695 | SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &face_x); |
---|
| 696 | SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh faces."), &face_x); |
---|
| 697 | SuperClassWriter::addAttribute("units", StdString("degrees_east"), &face_x); |
---|
[1456] | 698 | SuperClassWriter::addVariable(face_y, typePrec, dim0, compressionLevel); |
---|
[924] | 699 | SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &face_y); |
---|
| 700 | SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh faces."), &face_y); |
---|
| 701 | SuperClassWriter::addAttribute("units", StdString("degrees_north"), &face_y); |
---|
| 702 | dim0.clear(); |
---|
| 703 | dim0.push_back(dimFace); |
---|
| 704 | dim0.push_back(dimVertex); |
---|
[1456] | 705 | SuperClassWriter::addVariable(face_nodes, NC_INT, dim0, compressionLevel); |
---|
[924] | 706 | SuperClassWriter::addAttribute("cf_role", StdString("face_node_connectivity"), &face_nodes); |
---|
| 707 | SuperClassWriter::addAttribute("long_name", StdString("Maps every face to its corner nodes."), &face_nodes); |
---|
| 708 | SuperClassWriter::addAttribute("start_index", 0, &face_nodes); |
---|
| 709 | dim0.clear(); |
---|
| 710 | dim0.push_back(dimFace); |
---|
| 711 | dim0.push_back(dimVertex); |
---|
[1456] | 712 | SuperClassWriter::addVariable(face_edges, NC_INT, dim0, compressionLevel); |
---|
[924] | 713 | SuperClassWriter::addAttribute("cf_role", StdString("face_edge_connectivity"), &face_edges); |
---|
| 714 | SuperClassWriter::addAttribute("long_name", StdString("Maps every face to its edges."), &face_edges); |
---|
| 715 | SuperClassWriter::addAttribute("start_index", 0, &face_edges); |
---|
[929] | 716 | SuperClassWriter::addAttribute("_FillValue", 999999, &face_edges); |
---|
[924] | 717 | dim0.clear(); |
---|
| 718 | dim0.push_back(dimEdge); |
---|
| 719 | dim0.push_back(dimTwo); |
---|
[1456] | 720 | SuperClassWriter::addVariable(edge_faces, NC_INT, dim0, compressionLevel); |
---|
[924] | 721 | SuperClassWriter::addAttribute("cf_role", StdString("edge_face connectivity"), &edge_faces); |
---|
| 722 | SuperClassWriter::addAttribute("long_name", StdString("neighbor faces for edges"), &edge_faces); |
---|
| 723 | SuperClassWriter::addAttribute("start_index", 0, &edge_faces); |
---|
| 724 | SuperClassWriter::addAttribute("_FillValue", -999, &edge_faces); |
---|
| 725 | SuperClassWriter::addAttribute("comment", StdString("missing neighbor faces are indicated using _FillValue"), &edge_faces); |
---|
| 726 | dim0.clear(); |
---|
| 727 | dim0.push_back(dimFace); |
---|
| 728 | dim0.push_back(dimVertex); |
---|
[1456] | 729 | SuperClassWriter::addVariable(face_faces, NC_INT, dim0, compressionLevel); |
---|
[924] | 730 | SuperClassWriter::addAttribute("cf_role", StdString("face_face connectivity"), &face_faces); |
---|
| 731 | SuperClassWriter::addAttribute("long_name", StdString("Indicates which other faces neighbor each face"), &face_faces); |
---|
| 732 | SuperClassWriter::addAttribute("start_index", 0, &face_faces); |
---|
[929] | 733 | SuperClassWriter::addAttribute("_FillValue", 999999, &face_faces); |
---|
[924] | 734 | SuperClassWriter::addAttribute("flag_values", -1, &face_faces); |
---|
| 735 | SuperClassWriter::addAttribute("flag_meanings", StdString("out_of_mesh"), &face_faces); |
---|
[879] | 736 | } // domain->nvertex > 2 |
---|
[878] | 737 | |
---|
[879] | 738 | SuperClassWriter::definition_end(); |
---|
[878] | 739 | |
---|
[924] | 740 | std::vector<StdSize> startEdges(1) ; |
---|
| 741 | std::vector<StdSize> countEdges(1) ; |
---|
| 742 | std::vector<StdSize> startNodes(1) ; |
---|
| 743 | std::vector<StdSize> countNodes(1) ; |
---|
| 744 | std::vector<StdSize> startFaces(1) ; |
---|
| 745 | std::vector<StdSize> countFaces(1) ; |
---|
| 746 | std::vector<StdSize> startEdgeNodes(2) ; |
---|
| 747 | std::vector<StdSize> countEdgeNodes(2) ; |
---|
| 748 | std::vector<StdSize> startEdgeFaces(2) ; |
---|
| 749 | std::vector<StdSize> countEdgeFaces(2) ; |
---|
| 750 | std::vector<StdSize> startFaceConctv(2) ; |
---|
| 751 | std::vector<StdSize> countFaceConctv(2) ; |
---|
[902] | 752 | |
---|
[1494] | 753 | if (domain->nvertex == 1) |
---|
[879] | 754 | { |
---|
[1494] | 755 | if (domain->isEmpty()) |
---|
| 756 | { |
---|
| 757 | startNodes[0]=0 ; |
---|
| 758 | countNodes[0]=0 ; |
---|
| 759 | } |
---|
| 760 | else |
---|
| 761 | { |
---|
[1553] | 762 | startNodes[0] = domain->ibegin; |
---|
| 763 | countNodes[0] = domain->ni ; |
---|
[1494] | 764 | } |
---|
[924] | 765 | |
---|
[1494] | 766 | SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes); |
---|
| 767 | SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes); |
---|
| 768 | } |
---|
| 769 | else if (domain->nvertex == 2) |
---|
| 770 | { |
---|
| 771 | if (domain->isEmpty()) |
---|
| 772 | { |
---|
| 773 | startEdges[0]=0 ; |
---|
| 774 | countEdges[0]=0 ; |
---|
| 775 | startNodes[0]=0 ; |
---|
| 776 | countNodes[0]=0 ; |
---|
| 777 | startEdgeNodes[0]=0; |
---|
| 778 | startEdgeNodes[1]=0; |
---|
| 779 | countEdgeNodes[0]=0; |
---|
| 780 | countEdgeNodes[1]=0; |
---|
[924] | 781 | |
---|
[1494] | 782 | } |
---|
| 783 | else |
---|
| 784 | { |
---|
[1553] | 785 | startEdges[0] = domain->ibegin; |
---|
| 786 | countEdges[0] = domain->ni; |
---|
[1494] | 787 | startNodes[0] = domain->mesh->node_start; |
---|
| 788 | countNodes[0] = domain->mesh->node_count; |
---|
[1553] | 789 | startEdgeNodes[0] = domain->ibegin; |
---|
[1494] | 790 | startEdgeNodes[1] = 0; |
---|
[1553] | 791 | countEdgeNodes[0] = domain->ni; |
---|
[1494] | 792 | countEdgeNodes[1] = 2; |
---|
| 793 | } |
---|
| 794 | SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes); |
---|
| 795 | SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes); |
---|
| 796 | SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges); |
---|
| 797 | SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges); |
---|
| 798 | SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes); |
---|
| 799 | } |
---|
[879] | 800 | else |
---|
| 801 | { |
---|
[1494] | 802 | if (domain->isEmpty()) |
---|
| 803 | { |
---|
| 804 | startFaces[0] = 0 ; |
---|
| 805 | countFaces[0] = 0 ; |
---|
| 806 | startNodes[0] = 0; |
---|
| 807 | countNodes[0] = 0; |
---|
| 808 | startEdges[0] = 0; |
---|
| 809 | countEdges[0] = 0; |
---|
| 810 | startEdgeFaces[0] = 0; |
---|
| 811 | startEdgeFaces[1] = 0; |
---|
| 812 | countEdgeFaces[0] = 0; |
---|
| 813 | countEdgeFaces[1] = 0; |
---|
| 814 | startFaceConctv[0] = 0; |
---|
| 815 | startFaceConctv[1] = 0; |
---|
| 816 | countFaceConctv[0] = 0; |
---|
| 817 | countFaceConctv[1] = 0; |
---|
| 818 | } |
---|
| 819 | else |
---|
| 820 | { |
---|
[1553] | 821 | startFaces[0] = domain->ibegin; |
---|
| 822 | countFaces[0] = domain->ni ; |
---|
[1494] | 823 | startNodes[0] = domain->mesh->node_start; |
---|
| 824 | countNodes[0] = domain->mesh->node_count; |
---|
| 825 | startEdges[0] = domain->mesh->edge_start; |
---|
| 826 | countEdges[0] = domain->mesh->edge_count; |
---|
| 827 | startEdgeNodes[0] = domain->mesh->edge_start; |
---|
| 828 | startEdgeNodes[1] = 0; |
---|
| 829 | countEdgeNodes[0] = domain->mesh->edge_count; |
---|
| 830 | countEdgeNodes[1]= 2; |
---|
| 831 | startEdgeFaces[0] = domain->mesh->edge_start; |
---|
| 832 | startEdgeFaces[1]= 0; |
---|
| 833 | countEdgeFaces[0] = domain->mesh->edge_count; |
---|
| 834 | countEdgeFaces[1]= 2; |
---|
[1553] | 835 | startFaceConctv[0] = domain->ibegin; |
---|
[1494] | 836 | startFaceConctv[1] = 0; |
---|
[1553] | 837 | countFaceConctv[0] = domain->ni; |
---|
[1494] | 838 | countFaceConctv[1] = domain->nvertex; |
---|
| 839 | } |
---|
| 840 | SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes); |
---|
| 841 | SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes); |
---|
| 842 | SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges); |
---|
| 843 | SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges); |
---|
| 844 | SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes); |
---|
| 845 | SuperClassWriter::writeData(domain->mesh->face_lat, face_y, isCollective, 0, &startFaces, &countFaces); |
---|
| 846 | SuperClassWriter::writeData(domain->mesh->face_lon, face_x, isCollective, 0, &startFaces, &countFaces); |
---|
| 847 | SuperClassWriter::writeData(domain->mesh->face_nodes, face_nodes, isCollective, 0, &startFaceConctv, &countFaceConctv); |
---|
| 848 | SuperClassWriter::writeData(domain->mesh->face_edges, face_edges, isCollective, 0, &startFaceConctv, &countFaceConctv); |
---|
| 849 | SuperClassWriter::writeData(domain->mesh->edge_faces, edge_faces, isCollective, 0, &startEdgeFaces, &countEdgeFaces); |
---|
| 850 | SuperClassWriter::writeData(domain->mesh->face_faces, face_faces, isCollective, 0, &startFaceConctv, &countFaceConctv); |
---|
| 851 | } |
---|
[879] | 852 | SuperClassWriter::definition_start(); |
---|
[878] | 853 | |
---|
[879] | 854 | break; |
---|
| 855 | } // ONE_FILE |
---|
[878] | 856 | |
---|
[879] | 857 | case (MULTI_FILE) : |
---|
| 858 | { |
---|
[1637] | 859 | ERROR("CNc4DataOutput::writeDomain(domain)", |
---|
| 860 | << "[ type = multiple_file ]" |
---|
| 861 | << " is not yet implemented for UGRID files !"); |
---|
[879] | 862 | break; |
---|
| 863 | } |
---|
[878] | 864 | |
---|
[879] | 865 | default : |
---|
| 866 | ERROR("CNc4DataOutput::writeDomain(domain)", |
---|
| 867 | << "[ type = " << SuperClass::type << "]" |
---|
| 868 | << " not implemented yet !"); |
---|
| 869 | } // switch |
---|
| 870 | } // try |
---|
[878] | 871 | |
---|
[879] | 872 | catch (CNetCdfException& e) |
---|
| 873 | { |
---|
| 874 | StdString msg("On writing the domain : "); |
---|
| 875 | msg.append(domid); msg.append("\n"); |
---|
| 876 | msg.append("In the context : "); |
---|
| 877 | msg.append(context->getId()); msg.append("\n"); |
---|
| 878 | msg.append(e.what()); |
---|
[924] | 879 | ERROR("CNc4DataOutput::writeUnstructuredDomainUgrid(CDomain* domain)", << msg); |
---|
[879] | 880 | } |
---|
[878] | 881 | |
---|
[879] | 882 | domain->addRelFile(this->filename); |
---|
| 883 | } |
---|
[878] | 884 | |
---|
[879] | 885 | //-------------------------------------------------------------- |
---|
[878] | 886 | |
---|
[879] | 887 | void CNc4DataOutput::writeUnstructuredDomain(CDomain* domain) |
---|
[449] | 888 | { |
---|
| 889 | CContext* context = CContext::getCurrent() ; |
---|
[488] | 890 | |
---|
[449] | 891 | if (domain->IsWritten(this->filename)) return; |
---|
| 892 | domain->checkAttributes(); |
---|
[488] | 893 | |
---|
| 894 | if (domain->isEmpty()) |
---|
[449] | 895 | if (SuperClass::type==MULTI_FILE) return ; |
---|
| 896 | |
---|
| 897 | std::vector<StdString> dim0, dim1; |
---|
[772] | 898 | StdString domid = domain->getDomainOutputName(); |
---|
[705] | 899 | if (isWrittenDomain(domid)) return ; |
---|
[774] | 900 | else setWrittenDomain(domid); |
---|
[705] | 901 | |
---|
[449] | 902 | StdString appendDomid = (singleDomain) ? "" : "_"+domid ; |
---|
| 903 | |
---|
[1430] | 904 | StdString lonName,latName, cellName ; |
---|
[1391] | 905 | if (domain->lon_name.isEmpty()) lonName = "lon"; |
---|
| 906 | else lonName = domain->lon_name; |
---|
| 907 | |
---|
| 908 | if (domain->lat_name.isEmpty()) latName = "lat"; |
---|
| 909 | else latName = domain->lat_name; |
---|
| 910 | |
---|
[1430] | 911 | if (!domain->dim_i_name.isEmpty()) cellName=domain->dim_i_name; |
---|
| 912 | else cellName="cell"; |
---|
| 913 | StdString dimXid = cellName+appendDomid; |
---|
[449] | 914 | StdString dimVertId = StdString("nvertex").append(appendDomid); |
---|
[488] | 915 | |
---|
[449] | 916 | string lonid,latid,bounds_lonid,bounds_latid ; |
---|
[611] | 917 | string areaId = "area" + appendDomid; |
---|
[449] | 918 | |
---|
[1158] | 919 | nc_type typePrec ; |
---|
| 920 | if (domain->prec.isEmpty()) typePrec = NC_FLOAT ; |
---|
| 921 | else if (domain->prec==4) typePrec = NC_FLOAT ; |
---|
| 922 | else if (domain->prec==8) typePrec = NC_DOUBLE ; |
---|
| 923 | |
---|
[1132] | 924 | int nvertex = (domain->nvertex.isEmpty()) ? 0 : domain->nvertex; |
---|
[1025] | 925 | |
---|
[498] | 926 | try |
---|
[449] | 927 | { |
---|
[498] | 928 | switch (SuperClass::type) |
---|
| 929 | { |
---|
| 930 | case (MULTI_FILE) : |
---|
| 931 | { |
---|
| 932 | dim0.push_back(dimXid); |
---|
[1553] | 933 | SuperClassWriter::addDimension(dimXid, domain->ni); |
---|
[488] | 934 | |
---|
[1415] | 935 | lonid = lonName+appendDomid; |
---|
| 936 | latid = latName+appendDomid; |
---|
[1430] | 937 | if (!domain->bounds_lon_name.isEmpty()) bounds_lonid = domain->bounds_lon_name; |
---|
| 938 | else bounds_lonid = "bounds_"+lonName+appendDomid; |
---|
| 939 | if (!domain->bounds_lat_name.isEmpty()) bounds_latid = domain->bounds_lat_name; |
---|
| 940 | else bounds_latid = "bounds_"+latName+appendDomid; |
---|
| 941 | |
---|
[665] | 942 | if (domain->hasLonLat) |
---|
| 943 | { |
---|
[1456] | 944 | SuperClassWriter::addVariable(latid, typePrec, dim0, compressionLevel); |
---|
| 945 | SuperClassWriter::addVariable(lonid, typePrec, dim0, compressionLevel); |
---|
[665] | 946 | this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid); |
---|
| 947 | if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid); |
---|
| 948 | this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid); |
---|
| 949 | if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid); |
---|
| 950 | if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, domain->nvertex); |
---|
| 951 | } |
---|
[498] | 952 | dim0.clear(); |
---|
| 953 | if (domain->hasBounds) |
---|
| 954 | { |
---|
| 955 | dim0.push_back(dimXid); |
---|
| 956 | dim0.push_back(dimVertId); |
---|
[1456] | 957 | SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0, compressionLevel); |
---|
| 958 | SuperClassWriter::addVariable(bounds_latid, typePrec, dim0, compressionLevel); |
---|
[498] | 959 | } |
---|
| 960 | |
---|
| 961 | dim0.clear(); |
---|
[449] | 962 | dim0.push_back(dimXid); |
---|
[611] | 963 | if (domain->hasArea) |
---|
| 964 | { |
---|
[1456] | 965 | SuperClassWriter::addVariable(areaId, typePrec, dim0, compressionLevel); |
---|
[614] | 966 | SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId); |
---|
[611] | 967 | SuperClassWriter::addAttribute("units", StdString("m2"), &areaId); |
---|
| 968 | } |
---|
| 969 | |
---|
[498] | 970 | SuperClassWriter::definition_end(); |
---|
[449] | 971 | |
---|
[665] | 972 | if (domain->hasLonLat) |
---|
[498] | 973 | { |
---|
[1930] | 974 | SuperClassWriter::writeData(domain->latvalue, latid, isCollective, 0); |
---|
| 975 | SuperClassWriter::writeData(domain->lonvalue, lonid, isCollective, 0); |
---|
[665] | 976 | if (domain->hasBounds) |
---|
| 977 | { |
---|
[1930] | 978 | SuperClassWriter::writeData(domain->bounds_lonvalue, bounds_lonid, isCollective, 0); |
---|
| 979 | SuperClassWriter::writeData(domain->bounds_latvalue, bounds_latid, isCollective, 0); |
---|
[665] | 980 | } |
---|
[498] | 981 | } |
---|
[611] | 982 | |
---|
| 983 | if (domain->hasArea) |
---|
[1930] | 984 | SuperClassWriter::writeData(domain->areavalue, areaId, isCollective, 0); |
---|
[611] | 985 | |
---|
[498] | 986 | SuperClassWriter::definition_start(); |
---|
| 987 | break ; |
---|
| 988 | } |
---|
[488] | 989 | |
---|
[498] | 990 | case (ONE_FILE) : |
---|
| 991 | { |
---|
[1415] | 992 | lonid = lonName+appendDomid; |
---|
| 993 | latid = latName+appendDomid; |
---|
[1430] | 994 | if (!domain->bounds_lon_name.isEmpty()) bounds_lonid = domain->bounds_lon_name; |
---|
| 995 | else bounds_lonid = "bounds_"+lonName+appendDomid; |
---|
| 996 | if (!domain->bounds_lat_name.isEmpty()) bounds_latid = domain->bounds_lat_name; |
---|
| 997 | else bounds_latid = "bounds_"+latName+appendDomid; |
---|
[1391] | 998 | |
---|
[498] | 999 | dim0.push_back(dimXid); |
---|
[1132] | 1000 | SuperClassWriter::addDimension(dimXid, domain->ni_glo); |
---|
[665] | 1001 | if (domain->hasLonLat) |
---|
| 1002 | { |
---|
[1456] | 1003 | SuperClassWriter::addVariable(latid, typePrec, dim0, compressionLevel); |
---|
| 1004 | SuperClassWriter::addVariable(lonid, typePrec, dim0, compressionLevel); |
---|
[665] | 1005 | |
---|
| 1006 | this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid); |
---|
| 1007 | if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid); |
---|
| 1008 | this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid); |
---|
| 1009 | if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid); |
---|
[1025] | 1010 | if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, nvertex); |
---|
[665] | 1011 | } |
---|
[498] | 1012 | dim0.clear(); |
---|
[449] | 1013 | |
---|
[498] | 1014 | if (domain->hasBounds) |
---|
| 1015 | { |
---|
| 1016 | dim0.push_back(dimXid); |
---|
| 1017 | dim0.push_back(dimVertId); |
---|
[1456] | 1018 | SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0, compressionLevel); |
---|
| 1019 | SuperClassWriter::addVariable(bounds_latid, typePrec, dim0, compressionLevel); |
---|
[498] | 1020 | } |
---|
[488] | 1021 | |
---|
[611] | 1022 | if (domain->hasArea) |
---|
| 1023 | { |
---|
| 1024 | dim0.clear(); |
---|
| 1025 | dim0.push_back(dimXid); |
---|
[1456] | 1026 | SuperClassWriter::addVariable(areaId, typePrec, dim0, compressionLevel); |
---|
[614] | 1027 | SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId); |
---|
[611] | 1028 | SuperClassWriter::addAttribute("units", StdString("m2"), &areaId); |
---|
| 1029 | } |
---|
| 1030 | |
---|
[498] | 1031 | SuperClassWriter::definition_end(); |
---|
[488] | 1032 | |
---|
[498] | 1033 | std::vector<StdSize> start(1), startBounds(2) ; |
---|
| 1034 | std::vector<StdSize> count(1), countBounds(2) ; |
---|
| 1035 | if (domain->isEmpty()) |
---|
| 1036 | { |
---|
| 1037 | start[0]=0 ; |
---|
| 1038 | count[0]=0 ; |
---|
| 1039 | startBounds[1]=0 ; |
---|
[1025] | 1040 | countBounds[1]=nvertex ; |
---|
[498] | 1041 | startBounds[0]=0 ; |
---|
| 1042 | countBounds[0]=0 ; |
---|
| 1043 | } |
---|
| 1044 | else |
---|
| 1045 | { |
---|
[1553] | 1046 | start[0]=domain->ibegin; |
---|
| 1047 | count[0]=domain->ni; |
---|
| 1048 | startBounds[0]=domain->ibegin; |
---|
[498] | 1049 | startBounds[1]=0 ; |
---|
[1553] | 1050 | countBounds[0]=domain->ni; |
---|
[1025] | 1051 | countBounds[1]=nvertex ; |
---|
[498] | 1052 | } |
---|
[665] | 1053 | |
---|
| 1054 | if (domain->hasLonLat) |
---|
[498] | 1055 | { |
---|
[1930] | 1056 | SuperClassWriter::writeData(domain->latvalue, latid, isCollective, 0,&start,&count); |
---|
| 1057 | SuperClassWriter::writeData(domain->lonvalue, lonid, isCollective, 0,&start,&count); |
---|
[665] | 1058 | if (domain->hasBounds) |
---|
| 1059 | { |
---|
[1930] | 1060 | SuperClassWriter::writeData(domain->bounds_lonvalue, bounds_lonid, isCollective, 0,&startBounds,&countBounds); |
---|
| 1061 | SuperClassWriter::writeData(domain->bounds_latvalue, bounds_latid, isCollective, 0,&startBounds,&countBounds); |
---|
[665] | 1062 | } |
---|
[498] | 1063 | } |
---|
[488] | 1064 | |
---|
[611] | 1065 | if (domain->hasArea) |
---|
[1930] | 1066 | SuperClassWriter::writeData(domain->areavalue, areaId, isCollective, 0, &start, &count); |
---|
[488] | 1067 | |
---|
[498] | 1068 | SuperClassWriter::definition_start(); |
---|
[488] | 1069 | |
---|
[498] | 1070 | break; |
---|
| 1071 | } |
---|
| 1072 | default : |
---|
| 1073 | ERROR("CNc4DataOutput::writeDomain(domain)", |
---|
| 1074 | << "[ type = " << SuperClass::type << "]" |
---|
| 1075 | << " not implemented yet !"); |
---|
| 1076 | } |
---|
[219] | 1077 | } |
---|
[498] | 1078 | catch (CNetCdfException& e) |
---|
| 1079 | { |
---|
| 1080 | StdString msg("On writing the domain : "); |
---|
| 1081 | msg.append(domid); msg.append("\n"); |
---|
| 1082 | msg.append("In the context : "); |
---|
| 1083 | msg.append(context->getId()); msg.append("\n"); |
---|
| 1084 | msg.append(e.what()); |
---|
| 1085 | ERROR("CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)", << msg); |
---|
| 1086 | } |
---|
[219] | 1087 | domain->addRelFile(this->filename); |
---|
| 1088 | } |
---|
| 1089 | //-------------------------------------------------------------- |
---|
| 1090 | |
---|
[347] | 1091 | void CNc4DataOutput::writeAxis_(CAxis* axis) |
---|
[219] | 1092 | { |
---|
[1030] | 1093 | if (axis->IsWritten(this->filename)) return; |
---|
[2381] | 1094 | |
---|
| 1095 | // Check that the name associated to the current element is not in conflict with an existing element (due to CGrid::duplicateSentGrid) |
---|
| 1096 | if (!axis->value.isEmpty() ) |
---|
| 1097 | { |
---|
| 1098 | int comm_file_rank(0); |
---|
| 1099 | MPI_Comm_rank( comm_file, &comm_file_rank ); |
---|
| 1100 | int comm_file_size(1); |
---|
| 1101 | MPI_Comm_size( comm_file, &comm_file_size ); |
---|
| 1102 | |
---|
| 1103 | // Get element current FULL view |
---|
| 1104 | shared_ptr<CLocalView> srcView = axis->getLocalView(CElementView::FULL) ; |
---|
| 1105 | vector<shared_ptr<CLocalView>> srcViews; |
---|
| 1106 | srcViews.push_back( srcView ); |
---|
| 1107 | |
---|
| 1108 | // Compute a without redundancy element FULL view to enable a consistent hash computation |
---|
| 1109 | vector<shared_ptr<CLocalView>> remoteViews; |
---|
| 1110 | shared_ptr<CLocalView> remoteView; |
---|
| 1111 | // define the remote view without redundancy (naive distribution of the remote view) |
---|
| 1112 | int globalSize = axis->n_glo.getValue(); |
---|
| 1113 | int localSize = globalSize/comm_file_size; |
---|
| 1114 | if ( (comm_file_rank==comm_file_size-1) && (localSize*comm_file_size != globalSize ) ) |
---|
| 1115 | localSize += globalSize-localSize*comm_file_size; |
---|
| 1116 | CArray<size_t,1> globalIndex( localSize ); |
---|
| 1117 | CArray<int,1> index( localSize ); |
---|
| 1118 | for (int iloc=0; iloc<localSize ; iloc++ ) |
---|
| 1119 | { |
---|
| 1120 | globalIndex(iloc) = comm_file_rank*(globalSize/comm_file_size) + iloc; |
---|
| 1121 | index(iloc) = iloc; |
---|
| 1122 | } |
---|
| 1123 | shared_ptr<CLocalElement> localElement = make_shared<CLocalElement>(comm_file_rank, globalSize, globalIndex) ; |
---|
| 1124 | localElement->addView(CElementView::FULL, index) ; |
---|
| 1125 | remoteView = localElement->getView(CElementView::FULL) ; |
---|
| 1126 | remoteViews.push_back( remoteView ); |
---|
| 1127 | |
---|
| 1128 | // Compute the connector between current and without redundancy FULL views |
---|
| 1129 | shared_ptr<CGridTransformConnector> gridTransformConnector = make_shared<CGridTransformConnector>(srcViews, remoteViews, comm_file ) ; |
---|
| 1130 | gridTransformConnector->computeConnector(true) ; // eliminateRedondant = true |
---|
| 1131 | CArray<double,1> distributedValue ; |
---|
| 1132 | gridTransformConnector->transfer(axis->value, distributedValue ); |
---|
| 1133 | |
---|
| 1134 | // Compute the distributed hash (v0) of the element |
---|
| 1135 | // it will be associated to the default element name (= map key), and to the name really written |
---|
| 1136 | int localHash = 0; |
---|
| 1137 | for (int iloc=0; iloc<localSize ; iloc++ ) localHash+=globalIndex(iloc)*distributedValue(iloc); |
---|
| 1138 | int globalHash(0); |
---|
| 1139 | globalHash = localHash; |
---|
| 1140 | MPI_Allreduce( &localHash, &globalHash, 1, MPI_INT, MPI_SUM, comm_file ); |
---|
| 1141 | |
---|
| 1142 | StdString defaultNameKey = axis->getAxisOutputName(); |
---|
| 1143 | if ( !relElements_.count ( defaultNameKey ) ) |
---|
| 1144 | { |
---|
| 1145 | // if defaultNameKey not in the map, write the element such as it is defined |
---|
| 1146 | relElements_.insert( make_pair( defaultNameKey, make_pair(globalHash, defaultNameKey) ) ); |
---|
| 1147 | } |
---|
| 1148 | else // look if a hash associated this key is equal |
---|
| 1149 | { |
---|
| 1150 | bool elementIsInMap(false); |
---|
| 1151 | auto defaultNameKeyElements = relElements_.equal_range( defaultNameKey ); |
---|
| 1152 | for (auto it = defaultNameKeyElements.first; it != defaultNameKeyElements.second; it++) |
---|
| 1153 | { |
---|
| 1154 | if ( it->second.first == globalHash ) |
---|
| 1155 | { |
---|
| 1156 | // if yes, associate the same ids to current element |
---|
| 1157 | axis->name = it->second.second; |
---|
| 1158 | elementIsInMap = true; |
---|
| 1159 | } |
---|
| 1160 | } |
---|
| 1161 | // if no : inheritance has been excessive, define new names and store it (could be used by another grid) |
---|
| 1162 | if (!elementIsInMap) // ! in MAP |
---|
| 1163 | { |
---|
| 1164 | axis->name = axis->getId(); |
---|
| 1165 | relElements_.insert( make_pair( defaultNameKey, make_pair(globalHash, axis->getAxisOutputName()) ) ) ;// = axis->getId() |
---|
| 1166 | } |
---|
| 1167 | } |
---|
| 1168 | } |
---|
| 1169 | |
---|
[1030] | 1170 | axis->checkAttributes(); |
---|
[488] | 1171 | |
---|
[1559] | 1172 | int size = (MULTI_FILE == SuperClass::type) ? axis->n.getValue() |
---|
| 1173 | : axis->n_glo.getValue(); |
---|
[1099] | 1174 | |
---|
[1559] | 1175 | if ((0 == axis->n) && (MULTI_FILE == SuperClass::type)) return; |
---|
[1235] | 1176 | |
---|
[1030] | 1177 | std::vector<StdString> dims; |
---|
| 1178 | StdString axisid = axis->getAxisOutputName(); |
---|
[1435] | 1179 | StdString axisDim, axisBoundsId; |
---|
[1030] | 1180 | if (isWrittenAxis(axisid)) return ; |
---|
| 1181 | else setWrittenAxis(axisid); |
---|
[705] | 1182 | |
---|
[1158] | 1183 | nc_type typePrec ; |
---|
| 1184 | if (axis->prec.isEmpty()) typePrec = NC_FLOAT ; |
---|
[1235] | 1185 | else if (axis->prec==4) typePrec = NC_FLOAT ; |
---|
[1158] | 1186 | else if (axis->prec==8) typePrec = NC_DOUBLE ; |
---|
| 1187 | |
---|
| 1188 | if (!axis->label.isEmpty()) typePrec = NC_CHAR ; |
---|
| 1189 | string strId="str_len" ; |
---|
[1030] | 1190 | try |
---|
| 1191 | { |
---|
[1433] | 1192 | if (axis->dim_name.isEmpty()) axisDim = axisid; |
---|
| 1193 | else axisDim=axis->dim_name.getValue(); |
---|
[1559] | 1194 | SuperClassWriter::addDimension(axisDim, size); |
---|
[1433] | 1195 | dims.push_back(axisDim); |
---|
| 1196 | |
---|
[1439] | 1197 | if (!axis->label.isEmpty() && !SuperClassWriter::dimExist(strId)) SuperClassWriter::addDimension(strId, stringArrayLen); |
---|
[1433] | 1198 | |
---|
[1435] | 1199 | if (axis->hasValue || !axis->label.isEmpty()) |
---|
[816] | 1200 | { |
---|
[1158] | 1201 | if (!axis->label.isEmpty()) dims.push_back(strId); |
---|
[1430] | 1202 | |
---|
[1456] | 1203 | SuperClassWriter::addVariable(axisid, typePrec, dims, compressionLevel); |
---|
[219] | 1204 | |
---|
[1030] | 1205 | if (!axis->name.isEmpty()) |
---|
| 1206 | SuperClassWriter::addAttribute("name", axis->name.getValue(), &axisid); |
---|
[219] | 1207 | |
---|
[1030] | 1208 | if (!axis->standard_name.isEmpty()) |
---|
| 1209 | SuperClassWriter::addAttribute("standard_name", axis->standard_name.getValue(), &axisid); |
---|
[540] | 1210 | |
---|
[1030] | 1211 | if (!axis->long_name.isEmpty()) |
---|
| 1212 | SuperClassWriter::addAttribute("long_name", axis->long_name.getValue(), &axisid); |
---|
[219] | 1213 | |
---|
[1030] | 1214 | if (!axis->unit.isEmpty()) |
---|
| 1215 | SuperClassWriter::addAttribute("units", axis->unit.getValue(), &axisid); |
---|
[219] | 1216 | |
---|
[1430] | 1217 | if (!axis->axis_type.isEmpty()) |
---|
| 1218 | { |
---|
| 1219 | switch(axis->axis_type) |
---|
| 1220 | { |
---|
| 1221 | case CAxis::axis_type_attr::X : |
---|
| 1222 | SuperClassWriter::addAttribute("axis", string("X"), &axisid); |
---|
| 1223 | break; |
---|
| 1224 | case CAxis::axis_type_attr::Y : |
---|
| 1225 | SuperClassWriter::addAttribute("axis", string("Y"), &axisid); |
---|
| 1226 | break; |
---|
| 1227 | case CAxis::axis_type_attr::Z : |
---|
| 1228 | SuperClassWriter::addAttribute("axis", string("Z"), &axisid); |
---|
| 1229 | break; |
---|
| 1230 | case CAxis::axis_type_attr::T : |
---|
| 1231 | SuperClassWriter::addAttribute("axis", string("T"), &axisid); |
---|
| 1232 | break; |
---|
| 1233 | } |
---|
| 1234 | } |
---|
| 1235 | |
---|
[1030] | 1236 | if (!axis->positive.isEmpty()) |
---|
| 1237 | { |
---|
| 1238 | SuperClassWriter::addAttribute("positive", |
---|
| 1239 | (axis->positive == CAxis::positive_attr::up) ? string("up") : string("down"), |
---|
| 1240 | &axisid); |
---|
| 1241 | } |
---|
[399] | 1242 | |
---|
[1266] | 1243 | if (!axis->formula.isEmpty()) |
---|
| 1244 | SuperClassWriter::addAttribute("formula", axis->formula.getValue(), &axisid); |
---|
| 1245 | |
---|
| 1246 | if (!axis->formula_term.isEmpty()) |
---|
| 1247 | SuperClassWriter::addAttribute("formula_term", axis->formula_term.getValue(), &axisid); |
---|
| 1248 | |
---|
[1435] | 1249 | axisBoundsId = (axis->bounds_name.isEmpty()) ? axisid + "_bounds" : axis->bounds_name; |
---|
[1249] | 1250 | if (!axis->bounds.isEmpty() && axis->label.isEmpty()) |
---|
[1030] | 1251 | { |
---|
| 1252 | dims.push_back("axis_nbounds"); |
---|
[1456] | 1253 | SuperClassWriter::addVariable(axisBoundsId, typePrec, dims, compressionLevel); |
---|
[1030] | 1254 | SuperClassWriter::addAttribute("bounds", axisBoundsId, &axisid); |
---|
[1288] | 1255 | |
---|
| 1256 | if (!axis->standard_name.isEmpty()) |
---|
| 1257 | SuperClassWriter::addAttribute("standard_name", axis->standard_name.getValue(), &axisBoundsId); |
---|
| 1258 | |
---|
| 1259 | if (!axis->unit.isEmpty()) |
---|
| 1260 | SuperClassWriter::addAttribute("units", axis->unit.getValue(), &axisBoundsId); |
---|
| 1261 | |
---|
[1266] | 1262 | if (!axis->formula_bounds.isEmpty()) |
---|
[1288] | 1263 | SuperClassWriter::addAttribute("formula", axis->formula_bounds.getValue(), &axisBoundsId); |
---|
[1266] | 1264 | |
---|
| 1265 | if (!axis->formula_term_bounds.isEmpty()) |
---|
[1288] | 1266 | SuperClassWriter::addAttribute("formula_term", axis->formula_term_bounds.getValue(), &axisBoundsId); |
---|
[1030] | 1267 | } |
---|
[1435] | 1268 | } |
---|
[816] | 1269 | |
---|
[1435] | 1270 | SuperClassWriter::definition_end(); |
---|
[1950] | 1271 | |
---|
[1435] | 1272 | switch (SuperClass::type) |
---|
| 1273 | { |
---|
| 1274 | case MULTI_FILE: |
---|
[1030] | 1275 | { |
---|
[1435] | 1276 | if (axis->label.isEmpty()) |
---|
[1437] | 1277 | { |
---|
| 1278 | if (!axis->value.isEmpty()) |
---|
[1930] | 1279 | SuperClassWriter::writeData(axis->value, axisid, isCollective, 0); |
---|
[633] | 1280 | |
---|
[1437] | 1281 | if (!axis->bounds.isEmpty()) |
---|
[1930] | 1282 | SuperClassWriter::writeData(axis->bounds, axisBoundsId, isCollective, 0); |
---|
[1435] | 1283 | } |
---|
[1437] | 1284 | else |
---|
[1950] | 1285 | SuperClassWriter::writeData(axis->label, axisid, isCollective, 0); |
---|
[1435] | 1286 | |
---|
| 1287 | SuperClassWriter::definition_start(); |
---|
| 1288 | break; |
---|
| 1289 | } |
---|
| 1290 | case ONE_FILE: |
---|
| 1291 | { |
---|
| 1292 | std::vector<StdSize> start(1), startBounds(2) ; |
---|
| 1293 | std::vector<StdSize> count(1), countBounds(2) ; |
---|
[1559] | 1294 | start[0] = startBounds[0] = axis->begin; |
---|
| 1295 | count[0] = countBounds[0] = axis->n; |
---|
[1435] | 1296 | startBounds[1] = 0; |
---|
| 1297 | countBounds[1] = 2; |
---|
| 1298 | |
---|
| 1299 | if (axis->label.isEmpty()) |
---|
[1437] | 1300 | { |
---|
| 1301 | if (!axis->value.isEmpty()) |
---|
[1930] | 1302 | SuperClassWriter::writeData(axis->value, axisid, isCollective, 0, &start, &count); |
---|
[1435] | 1303 | |
---|
[1437] | 1304 | if (!axis->bounds.isEmpty()) |
---|
[1930] | 1305 | SuperClassWriter::writeData(axis->bounds, axisBoundsId, isCollective, 0, &startBounds, &countBounds); |
---|
[1435] | 1306 | } |
---|
[1437] | 1307 | else |
---|
[1435] | 1308 | { |
---|
| 1309 | std::vector<StdSize> startLabel(2), countLabel(2); |
---|
| 1310 | startLabel[0] = start[0]; startLabel[1] = 0; |
---|
| 1311 | countLabel[0] = count[0]; countLabel[1] = stringArrayLen; |
---|
[1950] | 1312 | SuperClassWriter::writeData(axis->label, axisid, isCollective, 0, &startLabel, &countLabel); |
---|
[1435] | 1313 | } |
---|
[609] | 1314 | |
---|
[1435] | 1315 | SuperClassWriter::definition_start(); |
---|
| 1316 | |
---|
| 1317 | break; |
---|
[609] | 1318 | } |
---|
[1435] | 1319 | default : |
---|
| 1320 | ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)", |
---|
| 1321 | << "[ type = " << SuperClass::type << "]" |
---|
| 1322 | << " not implemented yet !"); |
---|
[609] | 1323 | } |
---|
[1030] | 1324 | } |
---|
| 1325 | catch (CNetCdfException& e) |
---|
| 1326 | { |
---|
| 1327 | StdString msg("On writing the axis : "); |
---|
| 1328 | msg.append(axisid); msg.append("\n"); |
---|
| 1329 | msg.append("In the context : "); |
---|
| 1330 | CContext* context = CContext::getCurrent() ; |
---|
| 1331 | msg.append(context->getId()); msg.append("\n"); |
---|
| 1332 | msg.append(e.what()); |
---|
| 1333 | ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)", << msg); |
---|
| 1334 | } |
---|
[1158] | 1335 | axis->addRelFile(this->filename); |
---|
[391] | 1336 | } |
---|
[488] | 1337 | |
---|
[887] | 1338 | void CNc4DataOutput::writeScalar_(CScalar* scalar) |
---|
| 1339 | { |
---|
| 1340 | if (scalar->IsWritten(this->filename)) return; |
---|
| 1341 | scalar->checkAttributes(); |
---|
| 1342 | int scalarSize = 1; |
---|
| 1343 | |
---|
| 1344 | StdString scalaId = scalar->getScalarOutputName(); |
---|
[1430] | 1345 | StdString boundsId; |
---|
[887] | 1346 | if (isWrittenAxis(scalaId)) return ; |
---|
| 1347 | else setWrittenAxis(scalaId); |
---|
| 1348 | |
---|
[1158] | 1349 | nc_type typePrec ; |
---|
| 1350 | if (scalar->prec.isEmpty()) typePrec = NC_FLOAT ; |
---|
| 1351 | else if (scalar->prec==4) typePrec = NC_FLOAT ; |
---|
| 1352 | else if (scalar->prec==8) typePrec = NC_DOUBLE ; |
---|
| 1353 | |
---|
[1435] | 1354 | if (!scalar->label.isEmpty()) typePrec = NC_CHAR ; |
---|
| 1355 | string strId="str_len" ; |
---|
| 1356 | |
---|
[887] | 1357 | try |
---|
| 1358 | { |
---|
[1439] | 1359 | if (!scalar->label.isEmpty() && !SuperClassWriter::dimExist(strId)) SuperClassWriter::addDimension(strId, stringArrayLen); |
---|
[1435] | 1360 | |
---|
| 1361 | if (!scalar->value.isEmpty() || !scalar->label.isEmpty()) |
---|
[887] | 1362 | { |
---|
[1430] | 1363 | std::vector<StdString> dims; |
---|
| 1364 | StdString scalarDim = scalaId; |
---|
| 1365 | |
---|
[1435] | 1366 | if (!scalar->label.isEmpty()) dims.push_back(strId); |
---|
| 1367 | |
---|
[1158] | 1368 | SuperClassWriter::addVariable(scalaId, typePrec, dims); |
---|
[887] | 1369 | |
---|
| 1370 | if (!scalar->name.isEmpty()) |
---|
| 1371 | SuperClassWriter::addAttribute("name", scalar->name.getValue(), &scalaId); |
---|
| 1372 | |
---|
| 1373 | if (!scalar->standard_name.isEmpty()) |
---|
| 1374 | SuperClassWriter::addAttribute("standard_name", scalar->standard_name.getValue(), &scalaId); |
---|
| 1375 | |
---|
| 1376 | if (!scalar->long_name.isEmpty()) |
---|
| 1377 | SuperClassWriter::addAttribute("long_name", scalar->long_name.getValue(), &scalaId); |
---|
| 1378 | |
---|
| 1379 | if (!scalar->unit.isEmpty()) |
---|
| 1380 | SuperClassWriter::addAttribute("units", scalar->unit.getValue(), &scalaId); |
---|
| 1381 | |
---|
[1430] | 1382 | if (!scalar->axis_type.isEmpty()) |
---|
| 1383 | { |
---|
| 1384 | switch(scalar->axis_type) |
---|
| 1385 | { |
---|
| 1386 | case CScalar::axis_type_attr::X : |
---|
| 1387 | SuperClassWriter::addAttribute("axis", string("X"), &scalaId); |
---|
| 1388 | break; |
---|
| 1389 | case CScalar::axis_type_attr::Y : |
---|
| 1390 | SuperClassWriter::addAttribute("axis", string("Y"), &scalaId); |
---|
| 1391 | break; |
---|
| 1392 | case CScalar::axis_type_attr::Z : |
---|
| 1393 | SuperClassWriter::addAttribute("axis", string("Z"), &scalaId); |
---|
| 1394 | break; |
---|
| 1395 | case CScalar::axis_type_attr::T : |
---|
| 1396 | SuperClassWriter::addAttribute("axis", string("T"), &scalaId); |
---|
| 1397 | break; |
---|
| 1398 | } |
---|
| 1399 | } |
---|
| 1400 | |
---|
[1435] | 1401 | if (!scalar->positive.isEmpty()) |
---|
[1430] | 1402 | { |
---|
[1435] | 1403 | SuperClassWriter::addAttribute("positive", |
---|
| 1404 | (scalar->positive == CScalar::positive_attr::up) ? string("up") : string("down"), |
---|
| 1405 | &scalaId); |
---|
| 1406 | } |
---|
| 1407 | |
---|
| 1408 | if (!scalar->bounds.isEmpty() && scalar->label.isEmpty()) |
---|
| 1409 | { |
---|
[1436] | 1410 | dims.clear(); |
---|
| 1411 | dims.push_back("axis_nbounds"); |
---|
[1435] | 1412 | boundsId = (scalar->bounds_name.isEmpty()) ? (scalaId + "_bounds") : scalar->bounds_name.getValue(); |
---|
[1430] | 1413 | SuperClassWriter::addVariable(boundsId, typePrec, dims); |
---|
[1436] | 1414 | SuperClassWriter::addAttribute("bounds", boundsId, &scalaId); |
---|
[1430] | 1415 | } |
---|
| 1416 | |
---|
[887] | 1417 | SuperClassWriter::definition_end(); |
---|
| 1418 | |
---|
| 1419 | switch (SuperClass::type) |
---|
| 1420 | { |
---|
| 1421 | case MULTI_FILE: |
---|
| 1422 | { |
---|
| 1423 | CArray<double,1> scalarValue(scalarSize); |
---|
[1435] | 1424 | CArray<string,1> scalarLabel(scalarSize); |
---|
[1436] | 1425 | CArray<double,1> scalarBounds(scalarSize*2); |
---|
[1435] | 1426 | |
---|
| 1427 | if (!scalar->value.isEmpty() && scalar->label.isEmpty()) |
---|
[1430] | 1428 | { |
---|
[1435] | 1429 | scalarValue(0) = scalar->value; |
---|
| 1430 | SuperClassWriter::writeData(scalarValue, scalaId, isCollective, 0); |
---|
| 1431 | } |
---|
| 1432 | |
---|
| 1433 | if (!scalar->bounds.isEmpty() && scalar->label.isEmpty()) |
---|
| 1434 | { |
---|
[1436] | 1435 | scalarBounds(0) = scalar->bounds(0); |
---|
| 1436 | scalarBounds(1) = scalar->bounds(1); |
---|
| 1437 | SuperClassWriter::writeData(scalarBounds, boundsId, isCollective, 0); |
---|
[1430] | 1438 | } |
---|
[1435] | 1439 | |
---|
| 1440 | if (!scalar->label.isEmpty()) |
---|
| 1441 | { |
---|
| 1442 | scalarLabel(0) = scalar->label; |
---|
| 1443 | SuperClassWriter::writeData(scalarLabel, scalaId, isCollective, 0); |
---|
| 1444 | } |
---|
| 1445 | |
---|
[887] | 1446 | SuperClassWriter::definition_start(); |
---|
| 1447 | |
---|
| 1448 | break; |
---|
| 1449 | } |
---|
| 1450 | case ONE_FILE: |
---|
| 1451 | { |
---|
| 1452 | CArray<double,1> scalarValue(scalarSize); |
---|
[1435] | 1453 | CArray<string,1> scalarLabel(scalarSize); |
---|
[1436] | 1454 | CArray<double,1> scalarBounds(scalarSize*2); |
---|
[887] | 1455 | |
---|
| 1456 | std::vector<StdSize> start(1); |
---|
| 1457 | std::vector<StdSize> count(1); |
---|
| 1458 | start[0] = 0; |
---|
| 1459 | count[0] = 1; |
---|
[1435] | 1460 | if (!scalar->value.isEmpty() && scalar->label.isEmpty()) |
---|
[1430] | 1461 | { |
---|
[1435] | 1462 | scalarValue(0) = scalar->value; |
---|
| 1463 | SuperClassWriter::writeData(scalarValue, scalaId, isCollective, 0, &start, &count); |
---|
| 1464 | } |
---|
| 1465 | if (!scalar->bounds.isEmpty() && scalar->label.isEmpty()) |
---|
| 1466 | { |
---|
[1436] | 1467 | scalarBounds(0) = scalar->bounds(0); |
---|
| 1468 | scalarBounds(1) = scalar->bounds(1); |
---|
| 1469 | count[0] = 2; |
---|
| 1470 | SuperClassWriter::writeData(scalarBounds, boundsId, isCollective, 0, &start, &count); |
---|
[1430] | 1471 | } |
---|
[1435] | 1472 | if (!scalar->label.isEmpty()) |
---|
| 1473 | { |
---|
| 1474 | scalarLabel(0) = scalar->label; |
---|
| 1475 | count[0] = stringArrayLen; |
---|
| 1476 | SuperClassWriter::writeData(scalarLabel, scalaId, isCollective, 0, &start, &count); |
---|
| 1477 | } |
---|
| 1478 | |
---|
[887] | 1479 | SuperClassWriter::definition_start(); |
---|
| 1480 | |
---|
| 1481 | break; |
---|
| 1482 | } |
---|
| 1483 | default : |
---|
| 1484 | ERROR("CNc4DataOutput::writeAxis_(CAxis* scalar)", |
---|
| 1485 | << "[ type = " << SuperClass::type << "]" |
---|
| 1486 | << " not implemented yet !"); |
---|
| 1487 | } |
---|
| 1488 | } |
---|
| 1489 | } |
---|
| 1490 | catch (CNetCdfException& e) |
---|
| 1491 | { |
---|
| 1492 | StdString msg("On writing the scalar : "); |
---|
| 1493 | msg.append(scalaId); msg.append("\n"); |
---|
| 1494 | msg.append("In the context : "); |
---|
| 1495 | CContext* context = CContext::getCurrent() ; |
---|
| 1496 | msg.append(context->getId()); msg.append("\n"); |
---|
| 1497 | msg.append(e.what()); |
---|
| 1498 | ERROR("CNc4DataOutput::writeScalar_(CScalar* scalar)", << msg); |
---|
| 1499 | } |
---|
| 1500 | scalar->addRelFile(this->filename); |
---|
| 1501 | } |
---|
| 1502 | |
---|
[676] | 1503 | //-------------------------------------------------------------- |
---|
| 1504 | |
---|
| 1505 | void CNc4DataOutput::writeGridCompressed_(CGrid* grid) |
---|
| 1506 | { |
---|
[1957] | 1507 | if (grid->isScalarGrid() || grid->isWrittenCompressed(this->filename)) return; |
---|
| 1508 | |
---|
| 1509 | // NOTA : The cuurent algorithm to write compress elements of the grid |
---|
| 1510 | // will work pretting well when on server side you dont't get |
---|
| 1511 | // partial overlap on elements between differents participating process |
---|
| 1512 | // So the element must be totally distributed or non distributed |
---|
| 1513 | // If an element is partially overlaping betwwen process then the |
---|
| 1514 | // total compressed part will apear artificially greater than expected |
---|
| 1515 | // For the current implementation of writer which is decomposed only on |
---|
| 1516 | // one element, it will work as expected, but for future, it must be |
---|
| 1517 | // reconsidered again. |
---|
| 1518 | try |
---|
| 1519 | { |
---|
| 1520 | CArray<int,1> axisDomainOrder = grid->axis_domain_order; |
---|
| 1521 | std::vector<StdString> domainList = grid->getDomainList(); |
---|
| 1522 | std::vector<StdString> axisList = grid->getAxisList(); |
---|
| 1523 | std::vector<StdString> scalarList = grid->getScalarList(); |
---|
| 1524 | int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0, idxScalar = 0; |
---|
| 1525 | int commRank ; |
---|
| 1526 | MPI_Comm_rank(comm_file,&commRank) ; |
---|
[676] | 1527 | |
---|
[1957] | 1528 | std::vector<StdString> dims; |
---|
[676] | 1529 | |
---|
[1957] | 1530 | for (int i = 0; i < numElement; ++i) |
---|
| 1531 | { |
---|
| 1532 | StdString varId, compress; |
---|
| 1533 | CArray<size_t, 1> indexes; |
---|
| 1534 | bool isDistributed; |
---|
| 1535 | size_t nbIndexes, totalNbIndexes, offset; |
---|
| 1536 | size_t firstGlobalIndex; |
---|
| 1537 | |
---|
| 1538 | if (2 == axisDomainOrder(i)) |
---|
| 1539 | { |
---|
| 1540 | CDomain* domain = CDomain::get(domainList[idxDomain]); |
---|
| 1541 | StdString domId = domain->getDomainOutputName(); |
---|
[676] | 1542 | |
---|
[1957] | 1543 | if (!domain->isCompressible() |
---|
| 1544 | || domain->type == CDomain::type_attr::unstructured |
---|
| 1545 | || domain->isWrittenCompressed(this->filename) |
---|
| 1546 | || isWrittenCompressedDomain(domId)) |
---|
| 1547 | continue; |
---|
| 1548 | |
---|
| 1549 | // unstructured grid seems not be taken into account why ? |
---|
[676] | 1550 | |
---|
[1957] | 1551 | string lonName,latName ; |
---|
[676] | 1552 | |
---|
[1957] | 1553 | if (domain->lon_name.isEmpty()) |
---|
| 1554 | { |
---|
| 1555 | if (domain->type==CDomain::type_attr::curvilinear) lonName = "nav_lon"; |
---|
| 1556 | else lonName = "lon"; |
---|
| 1557 | } |
---|
| 1558 | else lonName = domain->lon_name; |
---|
[676] | 1559 | |
---|
[1957] | 1560 | if (domain->lat_name.isEmpty()) |
---|
| 1561 | { |
---|
| 1562 | if (domain->type==CDomain::type_attr::curvilinear) latName = "nav_lat"; |
---|
| 1563 | else latName = "lat"; |
---|
| 1564 | } |
---|
| 1565 | else latName = domain->lat_name; |
---|
| 1566 | |
---|
| 1567 | StdString appendDomId = singleDomain ? "" : "_" + domId; |
---|
[676] | 1568 | |
---|
[1957] | 1569 | varId = domId + "_points"; |
---|
| 1570 | compress = latName + appendDomId + " " + lonName + appendDomId; |
---|
| 1571 | |
---|
[2267] | 1572 | shared_ptr<CLocalView> workflowView = domain->getLocalView(CElementView::WORKFLOW) ; |
---|
[1957] | 1573 | workflowView->getGlobalIndexView(indexes) ; |
---|
| 1574 | nbIndexes = workflowView->getSize() ; |
---|
| 1575 | isDistributed = domain->isDistributed(); |
---|
| 1576 | if (isDistributed) |
---|
| 1577 | { |
---|
| 1578 | MPI_Exscan(&nbIndexes, &offset, 1, MPI_SIZE_T, MPI_SUM, comm_file) ; |
---|
| 1579 | if (commRank==0) offset=0 ; |
---|
| 1580 | MPI_Allreduce(&nbIndexes,&totalNbIndexes,1 , MPI_SIZE_T, MPI_SUM, comm_file) ; |
---|
| 1581 | } |
---|
| 1582 | else |
---|
| 1583 | { |
---|
| 1584 | offset=0 ; |
---|
| 1585 | totalNbIndexes = nbIndexes ; |
---|
| 1586 | } |
---|
[676] | 1587 | |
---|
[1957] | 1588 | firstGlobalIndex = domain->ibegin + domain->jbegin * domain->ni_glo; |
---|
[676] | 1589 | |
---|
[1957] | 1590 | domain->addRelFileCompressed(this->filename); |
---|
| 1591 | setWrittenCompressedDomain(domId); |
---|
| 1592 | ++idxDomain; |
---|
| 1593 | } |
---|
| 1594 | else if (1 == axisDomainOrder(i)) |
---|
| 1595 | { |
---|
| 1596 | CAxis* axis = CAxis::get(axisList[idxAxis]); |
---|
| 1597 | StdString axisId = axis->getAxisOutputName(); |
---|
[676] | 1598 | |
---|
[1957] | 1599 | if (!axis->isCompressible() |
---|
| 1600 | || axis->isWrittenCompressed(this->filename) |
---|
| 1601 | || isWrittenCompressedAxis(axisId)) |
---|
| 1602 | continue; |
---|
[676] | 1603 | |
---|
[1957] | 1604 | varId = axisId + "_points"; |
---|
| 1605 | compress = axisId; |
---|
[676] | 1606 | |
---|
[2267] | 1607 | shared_ptr<CLocalView> workflowView = axis->getLocalView(CElementView::WORKFLOW) ; |
---|
[1957] | 1608 | workflowView->getGlobalIndexView(indexes) ; |
---|
| 1609 | nbIndexes = workflowView->getSize() ; |
---|
| 1610 | isDistributed = axis->isDistributed(); |
---|
| 1611 | if (isDistributed) |
---|
| 1612 | { |
---|
| 1613 | MPI_Exscan(&nbIndexes, &offset, 1, MPI_SIZE_T, MPI_SUM, comm_file) ; |
---|
| 1614 | if (commRank==0) offset=0 ; |
---|
| 1615 | MPI_Allreduce(&nbIndexes,&totalNbIndexes,1 , MPI_SIZE_T, MPI_SUM, comm_file) ; |
---|
| 1616 | } |
---|
| 1617 | else |
---|
| 1618 | { |
---|
| 1619 | offset=0 ; |
---|
| 1620 | totalNbIndexes = nbIndexes ; |
---|
| 1621 | } |
---|
| 1622 | firstGlobalIndex = axis->begin; |
---|
| 1623 | |
---|
| 1624 | axis->addRelFileCompressed(this->filename); |
---|
| 1625 | setWrittenCompressedAxis(axisId); |
---|
| 1626 | ++idxAxis; |
---|
| 1627 | } |
---|
| 1628 | else |
---|
| 1629 | { |
---|
| 1630 | //for scalar |
---|
| 1631 | } |
---|
[676] | 1632 | |
---|
[1957] | 1633 | if (!varId.empty()) |
---|
| 1634 | { |
---|
| 1635 | SuperClassWriter::addDimension(varId, (SuperClass::type == MULTI_FILE) ? nbIndexes : totalNbIndexes); |
---|
[774] | 1636 | |
---|
[1957] | 1637 | dims.clear(); |
---|
| 1638 | dims.push_back(varId); |
---|
| 1639 | SuperClassWriter::addVariable(varId, NC_UINT64, dims); |
---|
[676] | 1640 | |
---|
[1957] | 1641 | SuperClassWriter::addAttribute("compress", compress, &varId); |
---|
[676] | 1642 | |
---|
[1957] | 1643 | switch (SuperClass::type) |
---|
| 1644 | { |
---|
| 1645 | case (MULTI_FILE): |
---|
| 1646 | { |
---|
| 1647 | indexes -= firstGlobalIndex; |
---|
| 1648 | SuperClassWriter::writeData(indexes, varId, isCollective, 0); |
---|
| 1649 | break; |
---|
| 1650 | } |
---|
| 1651 | case (ONE_FILE): |
---|
| 1652 | { |
---|
| 1653 | std::vector<StdSize> start, count; |
---|
| 1654 | start.push_back(offset); |
---|
| 1655 | count.push_back(nbIndexes); |
---|
[676] | 1656 | |
---|
[1957] | 1657 | SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count); |
---|
| 1658 | break; |
---|
| 1659 | } |
---|
| 1660 | } |
---|
[1144] | 1661 | } |
---|
[1957] | 1662 | } |
---|
[676] | 1663 | |
---|
[1957] | 1664 | grid->addRelFileCompressed(this->filename); |
---|
| 1665 | } |
---|
| 1666 | catch (CNetCdfException& e) |
---|
| 1667 | { |
---|
| 1668 | StdString msg("On writing compressed grid : "); |
---|
| 1669 | msg.append(grid->getId()); msg.append("\n"); |
---|
| 1670 | msg.append("In the context : "); |
---|
| 1671 | CContext* context = CContext::getCurrent(); |
---|
| 1672 | msg.append(context->getId()); msg.append("\n"); |
---|
| 1673 | msg.append(e.what()); |
---|
| 1674 | ERROR("CNc4DataOutput::writeGridCompressed_(CGrid* grid)", << msg); |
---|
| 1675 | } |
---|
| 1676 | } |
---|
[676] | 1677 | |
---|
| 1678 | //-------------------------------------------------------------- |
---|
| 1679 | |
---|
[391] | 1680 | void CNc4DataOutput::writeTimeDimension_(void) |
---|
| 1681 | { |
---|
[498] | 1682 | try |
---|
| 1683 | { |
---|
[802] | 1684 | SuperClassWriter::addDimension(getTimeCounterName()); |
---|
[498] | 1685 | } |
---|
| 1686 | catch (CNetCdfException& e) |
---|
| 1687 | { |
---|
[614] | 1688 | StdString msg("On writing time dimension : time_couter\n"); |
---|
[498] | 1689 | msg.append("In the context : "); |
---|
| 1690 | CContext* context = CContext::getCurrent() ; |
---|
| 1691 | msg.append(context->getId()); msg.append("\n"); |
---|
| 1692 | msg.append(e.what()); |
---|
| 1693 | ERROR("CNc4DataOutput::writeTimeDimension_(void)", << msg); |
---|
| 1694 | } |
---|
[391] | 1695 | } |
---|
[676] | 1696 | |
---|
[219] | 1697 | //-------------------------------------------------------------- |
---|
| 1698 | |
---|
[347] | 1699 | void CNc4DataOutput::writeField_(CField* field) |
---|
[219] | 1700 | { |
---|
[1158] | 1701 | CContext* context = CContext::getCurrent() ; |
---|
[300] | 1702 | |
---|
[1158] | 1703 | std::vector<StdString> dims, coodinates; |
---|
[1869] | 1704 | CGrid* grid = field->getGrid(); |
---|
[1158] | 1705 | if (!grid->doGridHaveDataToWrite()) |
---|
[567] | 1706 | if (SuperClass::type==MULTI_FILE) return ; |
---|
[488] | 1707 | |
---|
[1158] | 1708 | CArray<int,1> axisDomainOrder = grid->axis_domain_order; |
---|
| 1709 | int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0, idxScalar = 0; |
---|
| 1710 | std::vector<StdString> domainList = grid->getDomainList(); |
---|
| 1711 | std::vector<StdString> axisList = grid->getAxisList(); |
---|
| 1712 | std::vector<StdString> scalarList = grid->getScalarList(); |
---|
[219] | 1713 | |
---|
[1158] | 1714 | StdString timeid = getTimeCounterName(); |
---|
| 1715 | StdString dimXid,dimYid; |
---|
| 1716 | std::deque<StdString> dimIdList, dimCoordList; |
---|
| 1717 | bool hasArea = false; |
---|
| 1718 | StdString cellMeasures = "area:"; |
---|
| 1719 | bool compressedOutput = !field->indexed_output.isEmpty() && field->indexed_output; |
---|
[488] | 1720 | |
---|
[1158] | 1721 | for (int i = 0; i < numElement; ++i) |
---|
| 1722 | { |
---|
| 1723 | if (2 == axisDomainOrder(i)) |
---|
| 1724 | { |
---|
| 1725 | CDomain* domain = CDomain::get(domainList[idxDomain]); |
---|
| 1726 | StdString domId = domain->getDomainOutputName(); |
---|
| 1727 | StdString appendDomId = singleDomain ? "" : "_" + domId ; |
---|
[1391] | 1728 | StdString lonName,latName ; |
---|
[1430] | 1729 | StdString dimIname,dimJname ; |
---|
[676] | 1730 | |
---|
[1415] | 1731 | if (domain->lon_name.isEmpty()) |
---|
| 1732 | { |
---|
| 1733 | if (domain->type==CDomain::type_attr::curvilinear) lonName = "nav_lon"; |
---|
| 1734 | else lonName = "lon"; |
---|
| 1735 | } |
---|
[1391] | 1736 | else lonName = domain->lon_name; |
---|
| 1737 | |
---|
[1415] | 1738 | if (domain->lat_name.isEmpty()) |
---|
| 1739 | { |
---|
| 1740 | if (domain->type==CDomain::type_attr::curvilinear) latName = "nav_lat"; |
---|
| 1741 | else latName = "lat"; |
---|
| 1742 | } |
---|
[1391] | 1743 | else latName = domain->lat_name; |
---|
[1430] | 1744 | |
---|
| 1745 | if (domain->dim_i_name.isEmpty()) |
---|
| 1746 | { |
---|
| 1747 | if (domain->type==CDomain::type_attr::curvilinear) dimIname = "x"; |
---|
| 1748 | else if (domain->type==CDomain::type_attr::unstructured) dimIname = "cell"; |
---|
| 1749 | else dimIname = lonName; |
---|
| 1750 | } |
---|
| 1751 | else dimIname = domain->dim_i_name; |
---|
| 1752 | |
---|
| 1753 | if (domain->dim_j_name.isEmpty()) |
---|
| 1754 | { |
---|
| 1755 | if (domain->type==CDomain::type_attr::curvilinear) dimJname = "y"; |
---|
| 1756 | else dimJname = latName; |
---|
| 1757 | } |
---|
| 1758 | else dimJname = domain->dim_j_name; |
---|
[1391] | 1759 | |
---|
[1158] | 1760 | if (compressedOutput && domain->isCompressible() && domain->type != CDomain::type_attr::unstructured) |
---|
| 1761 | { |
---|
| 1762 | dimIdList.push_back(domId + "_points"); |
---|
| 1763 | field->setUseCompressedOutput(); |
---|
| 1764 | } |
---|
[676] | 1765 | |
---|
[1158] | 1766 | switch (domain->type) |
---|
[879] | 1767 | { |
---|
[1158] | 1768 | case CDomain::type_attr::curvilinear: |
---|
| 1769 | if (!compressedOutput || !domain->isCompressible()) |
---|
| 1770 | { |
---|
[1430] | 1771 | dimXid=dimIname+appendDomId; |
---|
| 1772 | dimYid=dimJname+appendDomId; |
---|
[1158] | 1773 | dimIdList.push_back(dimXid); |
---|
| 1774 | dimIdList.push_back(dimYid); |
---|
| 1775 | } |
---|
[1415] | 1776 | dimCoordList.push_back(lonName+appendDomId); |
---|
| 1777 | dimCoordList.push_back(latName+appendDomId); |
---|
[1158] | 1778 | break ; |
---|
| 1779 | case CDomain::type_attr::rectilinear: |
---|
| 1780 | if (!compressedOutput || !domain->isCompressible()) |
---|
| 1781 | { |
---|
[1430] | 1782 | dimXid = dimIname+appendDomId; |
---|
| 1783 | dimYid = dimJname+appendDomId; |
---|
[1158] | 1784 | dimIdList.push_back(dimXid); |
---|
| 1785 | dimIdList.push_back(dimYid); |
---|
| 1786 | } |
---|
[1430] | 1787 | if (lonName != dimIname) dimCoordList.push_back(lonName+appendDomId); |
---|
| 1788 | if (latName != dimJname) dimCoordList.push_back(latName+appendDomId); |
---|
| 1789 | |
---|
[1158] | 1790 | break ; |
---|
| 1791 | case CDomain::type_attr::unstructured: |
---|
| 1792 | { |
---|
| 1793 | if (SuperClassWriter::useCFConvention) |
---|
| 1794 | { |
---|
[1430] | 1795 | dimXid = dimIname + appendDomId; |
---|
[1158] | 1796 | dimIdList.push_back(dimXid); |
---|
[1415] | 1797 | dimCoordList.push_back(lonName+appendDomId); |
---|
| 1798 | dimCoordList.push_back(latName+appendDomId); |
---|
[1158] | 1799 | } |
---|
| 1800 | else |
---|
| 1801 | { |
---|
| 1802 | StdString domainName = domain->name; |
---|
| 1803 | if (domain->nvertex == 1) |
---|
| 1804 | { |
---|
| 1805 | dimXid = "n" + domainName + "_node"; |
---|
| 1806 | dimIdList.push_back(dimXid); |
---|
| 1807 | dimCoordList.push_back(StdString(domainName + "_node_x")); |
---|
| 1808 | dimCoordList.push_back(StdString(domainName + "_node_y")); |
---|
| 1809 | } |
---|
| 1810 | else if (domain->nvertex == 2) |
---|
| 1811 | { |
---|
| 1812 | dimXid = "n" + domainName + "_edge"; |
---|
| 1813 | dimIdList.push_back(dimXid); |
---|
| 1814 | dimCoordList.push_back(StdString(domainName + "_edge_x")); |
---|
| 1815 | dimCoordList.push_back(StdString(domainName + "_edge_y")); |
---|
| 1816 | } |
---|
| 1817 | else |
---|
| 1818 | { |
---|
| 1819 | dimXid = "n" + domainName + "_face"; |
---|
| 1820 | dimIdList.push_back(dimXid); |
---|
| 1821 | dimCoordList.push_back(StdString(domainName + "_face_x")); |
---|
| 1822 | dimCoordList.push_back(StdString(domainName + "_face_y")); |
---|
| 1823 | } |
---|
| 1824 | } // ugrid convention |
---|
| 1825 | } // case unstructured domain |
---|
[879] | 1826 | } |
---|
[1158] | 1827 | |
---|
| 1828 | if (domain->hasArea) |
---|
[879] | 1829 | { |
---|
[1158] | 1830 | hasArea = true; |
---|
| 1831 | cellMeasures += " area" + appendDomId; |
---|
[879] | 1832 | } |
---|
[1158] | 1833 | ++idxDomain; |
---|
| 1834 | } |
---|
| 1835 | else if (1 == axisDomainOrder(i)) |
---|
| 1836 | { |
---|
| 1837 | CAxis* axis = CAxis::get(axisList[idxAxis]); |
---|
| 1838 | StdString axisId = axis->getAxisOutputName(); |
---|
[1430] | 1839 | StdString axisDim; |
---|
[1158] | 1840 | |
---|
[1430] | 1841 | if (axis->dim_name.isEmpty()) axisDim = axisId; |
---|
| 1842 | else axisDim=axis->dim_name.getValue(); |
---|
| 1843 | |
---|
[1158] | 1844 | if (compressedOutput && axis->isCompressible()) |
---|
[879] | 1845 | { |
---|
[1430] | 1846 | dimIdList.push_back(axisDim + "_points"); |
---|
[1158] | 1847 | field->setUseCompressedOutput(); |
---|
[879] | 1848 | } |
---|
[1158] | 1849 | else |
---|
[1430] | 1850 | dimIdList.push_back(axisDim); |
---|
[878] | 1851 | |
---|
[1430] | 1852 | if (axisDim != axisId) dimCoordList.push_back(axisId); |
---|
[1158] | 1853 | ++idxAxis; |
---|
| 1854 | } |
---|
[1430] | 1855 | else |
---|
[1158] | 1856 | { |
---|
[1430] | 1857 | CScalar* scalar = CScalar::get(scalarList[idxScalar]); |
---|
| 1858 | StdString scalarId = scalar->getScalarOutputName(); |
---|
[1446] | 1859 | if (!scalar->value.isEmpty() || !scalar->label.isEmpty()) |
---|
| 1860 | dimCoordList.push_back(scalarId); |
---|
[1430] | 1861 | ++idxScalar; |
---|
[1158] | 1862 | } |
---|
| 1863 | } |
---|
[488] | 1864 | |
---|
[1158] | 1865 | StdString fieldid = field->getFieldOutputName(); |
---|
[219] | 1866 | |
---|
[1158] | 1867 | nc_type type ; |
---|
| 1868 | if (field->prec.isEmpty()) type = NC_FLOAT ; |
---|
| 1869 | else |
---|
| 1870 | { |
---|
| 1871 | if (field->prec==2) type = NC_SHORT ; |
---|
| 1872 | else if (field->prec==4) type = NC_FLOAT ; |
---|
| 1873 | else if (field->prec==8) type = NC_DOUBLE ; |
---|
| 1874 | } |
---|
[488] | 1875 | |
---|
[1158] | 1876 | bool wtime = !(!field->operation.isEmpty() && field->getOperationTimeType() == func::CFunctor::once); |
---|
[488] | 1877 | |
---|
[1158] | 1878 | if (wtime) |
---|
| 1879 | { |
---|
| 1880 | if (field->hasTimeInstant && hasTimeInstant) coodinates.push_back(string("time_instant")); |
---|
| 1881 | else if (field->hasTimeCentered && hasTimeCentered) coodinates.push_back(string("time_centered")); |
---|
| 1882 | dims.push_back(timeid); |
---|
| 1883 | } |
---|
[488] | 1884 | |
---|
[1961] | 1885 | while (!dimIdList.empty()) |
---|
[1158] | 1886 | { |
---|
[1961] | 1887 | dims.push_back(dimIdList.back()); |
---|
| 1888 | dimIdList.pop_back(); |
---|
[1158] | 1889 | } |
---|
[219] | 1890 | |
---|
[1158] | 1891 | while (!dimCoordList.empty()) |
---|
| 1892 | { |
---|
| 1893 | coodinates.push_back(dimCoordList.back()); |
---|
| 1894 | dimCoordList.pop_back(); |
---|
| 1895 | } |
---|
[219] | 1896 | |
---|
[1158] | 1897 | try |
---|
| 1898 | { |
---|
[498] | 1899 | SuperClassWriter::addVariable(fieldid, type, dims); |
---|
[488] | 1900 | |
---|
[498] | 1901 | if (!field->standard_name.isEmpty()) |
---|
| 1902 | SuperClassWriter::addAttribute |
---|
| 1903 | ("standard_name", field->standard_name.getValue(), &fieldid); |
---|
[219] | 1904 | |
---|
[498] | 1905 | if (!field->long_name.isEmpty()) |
---|
| 1906 | SuperClassWriter::addAttribute |
---|
| 1907 | ("long_name", field->long_name.getValue(), &fieldid); |
---|
[219] | 1908 | |
---|
[498] | 1909 | if (!field->unit.isEmpty()) |
---|
| 1910 | SuperClassWriter::addAttribute |
---|
| 1911 | ("units", field->unit.getValue(), &fieldid); |
---|
[463] | 1912 | |
---|
[1158] | 1913 | // Ugrid field attributes "mesh" and "location" |
---|
| 1914 | if (!SuperClassWriter::useCFConvention) |
---|
| 1915 | { |
---|
| 1916 | if (!domainList.empty()) |
---|
| 1917 | { |
---|
| 1918 | CDomain* domain = CDomain::get(domainList[0]); // Suppose that we have only domain |
---|
| 1919 | StdString mesh = domain->name; |
---|
| 1920 | SuperClassWriter::addAttribute("mesh", mesh, &fieldid); |
---|
| 1921 | StdString location; |
---|
| 1922 | if (domain->nvertex == 1) |
---|
| 1923 | location = "node"; |
---|
| 1924 | else if (domain->nvertex == 2) |
---|
| 1925 | location = "edge"; |
---|
| 1926 | else if (domain->nvertex > 2) |
---|
| 1927 | location = "face"; |
---|
| 1928 | SuperClassWriter::addAttribute("location", location, &fieldid); |
---|
| 1929 | } |
---|
| 1930 | |
---|
| 1931 | } |
---|
| 1932 | |
---|
| 1933 | if (!field->valid_min.isEmpty()) |
---|
[498] | 1934 | SuperClassWriter::addAttribute |
---|
| 1935 | ("valid_min", field->valid_min.getValue(), &fieldid); |
---|
[463] | 1936 | |
---|
[498] | 1937 | if (!field->valid_max.isEmpty()) |
---|
| 1938 | SuperClassWriter::addAttribute |
---|
| 1939 | ("valid_max", field->valid_max.getValue(), &fieldid); |
---|
[464] | 1940 | |
---|
[498] | 1941 | if (!field->scale_factor.isEmpty()) |
---|
| 1942 | SuperClassWriter::addAttribute |
---|
| 1943 | ("scale_factor", field->scale_factor.getValue(), &fieldid); |
---|
[464] | 1944 | |
---|
[498] | 1945 | if (!field->add_offset.isEmpty()) |
---|
| 1946 | SuperClassWriter::addAttribute |
---|
| 1947 | ("add_offset", field->add_offset.getValue(), &fieldid); |
---|
[488] | 1948 | |
---|
[498] | 1949 | SuperClassWriter::addAttribute |
---|
| 1950 | ("online_operation", field->operation.getValue(), &fieldid); |
---|
[472] | 1951 | |
---|
[498] | 1952 | // write child variables as attributes |
---|
[488] | 1953 | |
---|
| 1954 | |
---|
[1021] | 1955 | bool alreadyAddCellMethod = false; |
---|
| 1956 | StdString cellMethodsPrefix(""), cellMethodsSuffix(""); |
---|
| 1957 | if (!field->cell_methods.isEmpty()) |
---|
| 1958 | { |
---|
[1158] | 1959 | StdString cellMethodString = field->cell_methods; |
---|
| 1960 | if (field->cell_methods_mode.isEmpty() || |
---|
[1021] | 1961 | (CField::cell_methods_mode_attr::overwrite == field->cell_methods_mode)) |
---|
[1158] | 1962 | { |
---|
| 1963 | SuperClassWriter::addAttribute("cell_methods", cellMethodString, &fieldid); |
---|
| 1964 | alreadyAddCellMethod = true; |
---|
| 1965 | } |
---|
| 1966 | else |
---|
| 1967 | { |
---|
| 1968 | switch (field->cell_methods_mode) |
---|
| 1969 | { |
---|
| 1970 | case (CField::cell_methods_mode_attr::prefix): |
---|
| 1971 | cellMethodsPrefix = cellMethodString; |
---|
| 1972 | cellMethodsPrefix += " "; |
---|
| 1973 | break; |
---|
| 1974 | case (CField::cell_methods_mode_attr::suffix): |
---|
| 1975 | cellMethodsSuffix = " "; |
---|
| 1976 | cellMethodsSuffix += cellMethodString; |
---|
| 1977 | break; |
---|
| 1978 | case (CField::cell_methods_mode_attr::none): |
---|
| 1979 | break; |
---|
| 1980 | default: |
---|
| 1981 | break; |
---|
| 1982 | } |
---|
| 1983 | } |
---|
[1021] | 1984 | } |
---|
[488] | 1985 | |
---|
[1021] | 1986 | |
---|
[498] | 1987 | if (wtime) |
---|
| 1988 | { |
---|
[614] | 1989 | CDuration freqOp = field->freq_op.getValue(); |
---|
| 1990 | freqOp.solveTimeStep(*context->calendar); |
---|
| 1991 | StdString freqOpStr = freqOp.toStringUDUnits(); |
---|
[612] | 1992 | SuperClassWriter::addAttribute("interval_operation", freqOpStr, &fieldid); |
---|
[437] | 1993 | |
---|
[614] | 1994 | CDuration freqOut = field->getRelFile()->output_freq.getValue(); |
---|
| 1995 | freqOut.solveTimeStep(*context->calendar); |
---|
| 1996 | SuperClassWriter::addAttribute("interval_write", freqOut.toStringUDUnits(), &fieldid); |
---|
[612] | 1997 | |
---|
[1021] | 1998 | StdString cellMethods(cellMethodsPrefix + "time: "); |
---|
[612] | 1999 | if (field->operation.getValue() == "instant") cellMethods += "point"; |
---|
| 2000 | else if (field->operation.getValue() == "average") cellMethods += "mean"; |
---|
| 2001 | else if (field->operation.getValue() == "accumulate") cellMethods += "sum"; |
---|
| 2002 | else cellMethods += field->operation; |
---|
[614] | 2003 | if (freqOp.resolve(*context->calendar) != freqOut.resolve(*context->calendar)) |
---|
| 2004 | cellMethods += " (interval: " + freqOpStr + ")"; |
---|
[1021] | 2005 | cellMethods += cellMethodsSuffix; |
---|
| 2006 | if (!alreadyAddCellMethod) |
---|
| 2007 | SuperClassWriter::addAttribute("cell_methods", cellMethods, &fieldid); |
---|
[498] | 2008 | } |
---|
[488] | 2009 | |
---|
[611] | 2010 | if (hasArea) |
---|
| 2011 | SuperClassWriter::addAttribute("cell_measures", cellMeasures, &fieldid); |
---|
| 2012 | |
---|
[498] | 2013 | if (!field->default_value.isEmpty()) |
---|
| 2014 | { |
---|
[1424] | 2015 | double default_value = field->default_value.getValue(); |
---|
| 2016 | if (type == NC_DOUBLE) |
---|
| 2017 | { |
---|
| 2018 | SuperClassWriter::setDefaultValue(fieldid, &default_value); |
---|
| 2019 | } |
---|
| 2020 | else if (type == NC_SHORT) |
---|
| 2021 | { |
---|
| 2022 | short sdefault_value = (short)default_value; |
---|
| 2023 | SuperClassWriter::setDefaultValue(fieldid, &sdefault_value); |
---|
| 2024 | } |
---|
| 2025 | else |
---|
| 2026 | { |
---|
| 2027 | float fdefault_value = (float)default_value; |
---|
| 2028 | SuperClassWriter::setDefaultValue(fieldid, &fdefault_value); |
---|
| 2029 | } |
---|
[498] | 2030 | } |
---|
| 2031 | else |
---|
[517] | 2032 | SuperClassWriter::setDefaultValue(fieldid, (double*)NULL); |
---|
[219] | 2033 | |
---|
[606] | 2034 | if (field->compression_level.isEmpty()) |
---|
[1872] | 2035 | field->compression_level = field->getRelFile()->compression_level.isEmpty() ? 0 : field->getRelFile()->compression_level; |
---|
[606] | 2036 | SuperClassWriter::setCompressionLevel(fieldid, field->compression_level); |
---|
| 2037 | |
---|
[878] | 2038 | { // Ecriture des coordonnes |
---|
[488] | 2039 | |
---|
[498] | 2040 | StdString coordstr; //boost::algorithm::join(coodinates, " ") |
---|
| 2041 | std::vector<StdString>::iterator |
---|
| 2042 | itc = coodinates.begin(), endc = coodinates.end(); |
---|
[488] | 2043 | |
---|
[498] | 2044 | for (; itc!= endc; itc++) |
---|
| 2045 | { |
---|
| 2046 | StdString & coord = *itc; |
---|
| 2047 | if (itc+1 != endc) |
---|
| 2048 | coordstr.append(coord).append(" "); |
---|
| 2049 | else coordstr.append(coord); |
---|
| 2050 | } |
---|
[219] | 2051 | |
---|
[498] | 2052 | SuperClassWriter::addAttribute("coordinates", coordstr, &fieldid); |
---|
[219] | 2053 | |
---|
[498] | 2054 | } |
---|
[1222] | 2055 | |
---|
| 2056 | vector<CVariable*> listVars = field->getAllVariables() ; |
---|
| 2057 | for (vector<CVariable*>::iterator it = listVars.begin() ;it != listVars.end(); it++) writeAttribute_(*it, fieldid) ; |
---|
| 2058 | |
---|
[219] | 2059 | } |
---|
[498] | 2060 | catch (CNetCdfException& e) |
---|
| 2061 | { |
---|
| 2062 | StdString msg("On writing field : "); |
---|
| 2063 | msg.append(fieldid); msg.append("\n"); |
---|
| 2064 | msg.append("In the context : "); |
---|
| 2065 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2066 | msg.append(e.what()); |
---|
| 2067 | ERROR("CNc4DataOutput::writeField_(CField* field)", << msg); |
---|
| 2068 | } |
---|
[879] | 2069 | } // writeField_() |
---|
[219] | 2070 | |
---|
| 2071 | //-------------------------------------------------------------- |
---|
| 2072 | |
---|
[347] | 2073 | void CNc4DataOutput::writeFile_ (CFile* file) |
---|
[219] | 2074 | { |
---|
[773] | 2075 | StdString filename = file->getFileOutputName(); |
---|
[219] | 2076 | StdString description = (!file->description.isEmpty()) |
---|
| 2077 | ? file->description.getValue() |
---|
[335] | 2078 | : StdString("Created by xios"); |
---|
[609] | 2079 | |
---|
| 2080 | singleDomain = (file->nbDomains == 1); |
---|
| 2081 | |
---|
[1158] | 2082 | StdString conv_str ; |
---|
| 2083 | if (file->convention_str.isEmpty()) |
---|
| 2084 | { |
---|
| 2085 | if (SuperClassWriter::useCFConvention) conv_str="CF-1.6" ; |
---|
| 2086 | else conv_str="UGRID" ; |
---|
| 2087 | } |
---|
| 2088 | else conv_str=file->convention_str ; |
---|
| 2089 | |
---|
[498] | 2090 | try |
---|
| 2091 | { |
---|
[1309] | 2092 | if (!appendMode) this->writeFileAttributes(filename, description, |
---|
| 2093 | conv_str, |
---|
| 2094 | StdString("An IPSL model"), |
---|
| 2095 | this->getTimeStamp()); |
---|
[609] | 2096 | |
---|
[701] | 2097 | if (!appendMode) |
---|
| 2098 | SuperClassWriter::addDimension("axis_nbounds", 2); |
---|
[498] | 2099 | } |
---|
| 2100 | catch (CNetCdfException& e) |
---|
| 2101 | { |
---|
| 2102 | StdString msg("On writing file : "); |
---|
| 2103 | msg.append(filename); msg.append("\n"); |
---|
| 2104 | msg.append("In the context : "); |
---|
| 2105 | CContext* context = CContext::getCurrent() ; |
---|
| 2106 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2107 | msg.append(e.what()); |
---|
| 2108 | ERROR("CNc4DataOutput::writeFile_ (CFile* file)", << msg); |
---|
| 2109 | } |
---|
[219] | 2110 | } |
---|
[488] | 2111 | |
---|
[472] | 2112 | void CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId) |
---|
| 2113 | { |
---|
[773] | 2114 | StdString name = var->getVariableOutputName(); |
---|
[488] | 2115 | |
---|
[498] | 2116 | try |
---|
| 2117 | { |
---|
[527] | 2118 | if (var->type.getValue() == CVariable::type_attr::t_int || var->type.getValue() == CVariable::type_attr::t_int32) |
---|
| 2119 | addAttribute(name, var->getData<int>(), &fieldId); |
---|
| 2120 | else if (var->type.getValue() == CVariable::type_attr::t_int16) |
---|
| 2121 | addAttribute(name, var->getData<short int>(), &fieldId); |
---|
| 2122 | else if (var->type.getValue() == CVariable::type_attr::t_float) |
---|
| 2123 | addAttribute(name, var->getData<float>(), &fieldId); |
---|
| 2124 | else if (var->type.getValue() == CVariable::type_attr::t_double) |
---|
| 2125 | addAttribute(name, var->getData<double>(), &fieldId); |
---|
| 2126 | else if (var->type.getValue() == CVariable::type_attr::t_string) |
---|
| 2127 | addAttribute(name, var->getData<string>(), &fieldId); |
---|
| 2128 | else |
---|
| 2129 | ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)", |
---|
| 2130 | << "Unsupported variable of type " << var->type.getStringValue()); |
---|
[498] | 2131 | } |
---|
| 2132 | catch (CNetCdfException& e) |
---|
| 2133 | { |
---|
| 2134 | StdString msg("On writing attributes of variable with name : "); |
---|
| 2135 | msg.append(name); msg.append("in the field "); msg.append(fieldId); msg.append("\n"); |
---|
| 2136 | msg.append("In the context : "); |
---|
| 2137 | CContext* context = CContext::getCurrent() ; |
---|
| 2138 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2139 | msg.append(e.what()); |
---|
| 2140 | ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)", << msg); |
---|
| 2141 | } |
---|
[472] | 2142 | } |
---|
[488] | 2143 | |
---|
[472] | 2144 | void CNc4DataOutput::writeAttribute_ (CVariable* var) |
---|
| 2145 | { |
---|
[773] | 2146 | StdString name = var->getVariableOutputName(); |
---|
| 2147 | |
---|
[498] | 2148 | try |
---|
| 2149 | { |
---|
[527] | 2150 | if (var->type.getValue() == CVariable::type_attr::t_int || var->type.getValue() == CVariable::type_attr::t_int32) |
---|
| 2151 | addAttribute(name, var->getData<int>()); |
---|
| 2152 | else if (var->type.getValue() == CVariable::type_attr::t_int16) |
---|
| 2153 | addAttribute(name, var->getData<short int>()); |
---|
| 2154 | else if (var->type.getValue() == CVariable::type_attr::t_float) |
---|
| 2155 | addAttribute(name, var->getData<float>()); |
---|
| 2156 | else if (var->type.getValue() == CVariable::type_attr::t_double) |
---|
| 2157 | addAttribute(name, var->getData<double>()); |
---|
| 2158 | else if (var->type.getValue() == CVariable::type_attr::t_string) |
---|
| 2159 | addAttribute(name, var->getData<string>()); |
---|
| 2160 | else |
---|
| 2161 | ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)", |
---|
| 2162 | << "Unsupported variable of type " << var->type.getStringValue()); |
---|
[498] | 2163 | } |
---|
| 2164 | catch (CNetCdfException& e) |
---|
| 2165 | { |
---|
| 2166 | StdString msg("On writing attributes of variable with name : "); |
---|
| 2167 | msg.append(name); msg.append("\n"); |
---|
| 2168 | msg.append("In the context : "); |
---|
| 2169 | CContext* context = CContext::getCurrent() ; |
---|
| 2170 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2171 | msg.append(e.what()); |
---|
| 2172 | ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)", << msg); |
---|
| 2173 | } |
---|
[488] | 2174 | } |
---|
| 2175 | |
---|
[321] | 2176 | void CNc4DataOutput::syncFile_ (void) |
---|
| 2177 | { |
---|
[498] | 2178 | try |
---|
| 2179 | { |
---|
| 2180 | SuperClassWriter::sync() ; |
---|
| 2181 | } |
---|
| 2182 | catch (CNetCdfException& e) |
---|
| 2183 | { |
---|
| 2184 | StdString msg("On synchronizing the write among processes"); |
---|
| 2185 | msg.append("In the context : "); |
---|
| 2186 | CContext* context = CContext::getCurrent() ; |
---|
| 2187 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2188 | msg.append(e.what()); |
---|
| 2189 | ERROR("CNc4DataOutput::syncFile_ (void)", << msg); |
---|
| 2190 | } |
---|
[321] | 2191 | } |
---|
[219] | 2192 | |
---|
[286] | 2193 | void CNc4DataOutput::closeFile_ (void) |
---|
| 2194 | { |
---|
[498] | 2195 | try |
---|
| 2196 | { |
---|
| 2197 | SuperClassWriter::close() ; |
---|
| 2198 | } |
---|
| 2199 | catch (CNetCdfException& e) |
---|
| 2200 | { |
---|
| 2201 | StdString msg("On closing file"); |
---|
| 2202 | msg.append("In the context : "); |
---|
| 2203 | CContext* context = CContext::getCurrent() ; |
---|
| 2204 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2205 | msg.append(e.what()); |
---|
| 2206 | ERROR("CNc4DataOutput::syncFile_ (void)", << msg); |
---|
| 2207 | } |
---|
| 2208 | |
---|
[286] | 2209 | } |
---|
| 2210 | |
---|
[219] | 2211 | //--------------------------------------------------------------- |
---|
| 2212 | |
---|
| 2213 | StdString CNc4DataOutput::getTimeStamp(void) const |
---|
| 2214 | { |
---|
| 2215 | const int buffer_size = 100; |
---|
| 2216 | time_t rawtime; |
---|
| 2217 | struct tm * timeinfo = NULL; |
---|
| 2218 | char buffer [buffer_size]; |
---|
[1158] | 2219 | StdString formatStr; |
---|
| 2220 | if (file->time_stamp_format.isEmpty()) formatStr="%Y-%b-%d %H:%M:%S %Z" ; |
---|
| 2221 | else formatStr=file->time_stamp_format; |
---|
[219] | 2222 | |
---|
[1158] | 2223 | // time ( &rawtime ); |
---|
| 2224 | // timeinfo = localtime ( &rawtime ); |
---|
[219] | 2225 | time ( &rawtime ); |
---|
[1158] | 2226 | timeinfo = gmtime ( &rawtime ); |
---|
| 2227 | strftime (buffer, buffer_size, formatStr.c_str(), timeinfo); |
---|
[219] | 2228 | |
---|
| 2229 | return (StdString(buffer)); |
---|
| 2230 | } |
---|
[488] | 2231 | |
---|
[219] | 2232 | //--------------------------------------------------------------- |
---|
[488] | 2233 | |
---|
[1961] | 2234 | int CNc4DataOutput::writeFieldData_ (CField* field, const CArray<double,1>& data, const CDate& lastWrite, |
---|
| 2235 | const CDate& currentWrite, int nstep) |
---|
[219] | 2236 | { |
---|
[707] | 2237 | CContext* context = CContext::getCurrent(); |
---|
[1869] | 2238 | CGrid* grid = field->getGrid(); |
---|
[1961] | 2239 | |
---|
| 2240 | if (nstep<1) |
---|
[1158] | 2241 | { |
---|
[1961] | 2242 | return nstep; |
---|
[1158] | 2243 | } |
---|
[952] | 2244 | |
---|
[707] | 2245 | if (!grid->doGridHaveDataToWrite()) |
---|
[1158] | 2246 | if (SuperClass::type == MULTI_FILE || !isCollective) |
---|
| 2247 | { |
---|
[1961] | 2248 | return nstep; |
---|
[1158] | 2249 | } |
---|
[488] | 2250 | |
---|
[770] | 2251 | StdString fieldid = field->getFieldOutputName(); |
---|
[286] | 2252 | |
---|
[707] | 2253 | StdOStringStream oss; |
---|
| 2254 | string timeAxisId; |
---|
[1158] | 2255 | if (field->hasTimeInstant) timeAxisId = "time_instant"; |
---|
| 2256 | else if (field->hasTimeCentered) timeAxisId = "time_centered"; |
---|
[488] | 2257 | |
---|
[802] | 2258 | StdString timeBoundId = getTimeCounterName() + "_bounds"; |
---|
[449] | 2259 | |
---|
[707] | 2260 | StdString timeAxisBoundId; |
---|
[1158] | 2261 | if (field->hasTimeInstant) timeAxisBoundId = "time_instant_bounds"; |
---|
| 2262 | else if (field->hasTimeCentered) timeAxisBoundId = "time_centered_bounds"; |
---|
[488] | 2263 | |
---|
[707] | 2264 | if (!field->wasWritten()) |
---|
| 2265 | { |
---|
[1872] | 2266 | if (appendMode && field->getRelFile()->record_offset.isEmpty() && |
---|
[1158] | 2267 | field->getOperationTimeType() != func::CFunctor::once) |
---|
[707] | 2268 | { |
---|
[1158] | 2269 | double factorUnit; |
---|
[1872] | 2270 | if (!field->getRelFile()->time_units.isEmpty() && field->getRelFile()->time_units==CFile::time_units_attr::days) |
---|
[1158] | 2271 | factorUnit=context->getCalendar()->getDayLengthInSeconds() ; |
---|
| 2272 | else factorUnit=1 ; |
---|
[1962] | 2273 | nstep = getRecordFromTime(currentWrite,factorUnit) + 1; |
---|
[707] | 2274 | } |
---|
[488] | 2275 | |
---|
[707] | 2276 | field->setWritten(); |
---|
| 2277 | } |
---|
[488] | 2278 | |
---|
| 2279 | |
---|
[707] | 2280 | CArray<double,1> time_data(1); |
---|
| 2281 | CArray<double,1> time_data_bound(2); |
---|
| 2282 | CArray<double,1> time_counter(1); |
---|
| 2283 | CArray<double,1> time_counter_bound(2); |
---|
| 2284 | |
---|
| 2285 | bool wtime = (field->getOperationTimeType() != func::CFunctor::once); |
---|
[1158] | 2286 | bool wtimeCounter =false ; |
---|
| 2287 | bool wtimeData =false ; |
---|
| 2288 | |
---|
[707] | 2289 | |
---|
[444] | 2290 | if (wtime) |
---|
| 2291 | { |
---|
[1158] | 2292 | |
---|
| 2293 | if (field->hasTimeInstant) |
---|
| 2294 | { |
---|
[1961] | 2295 | time_data(0) = time_data_bound(1) = (Time) lastWrite; |
---|
| 2296 | time_data_bound(0) = time_data_bound(1) = (Time) currentWrite; |
---|
[1158] | 2297 | if (timeCounterType==instant) |
---|
| 2298 | { |
---|
| 2299 | time_counter(0) = time_data(0); |
---|
| 2300 | time_counter_bound(0) = time_data_bound(0); |
---|
| 2301 | time_counter_bound(1) = time_data_bound(1); |
---|
| 2302 | wtimeCounter=true ; |
---|
| 2303 | } |
---|
| 2304 | if (hasTimeInstant) wtimeData=true ; |
---|
| 2305 | } |
---|
| 2306 | else if (field->hasTimeCentered) |
---|
[488] | 2307 | { |
---|
[1961] | 2308 | time_data(0) = ((Time)currentWrite + (Time)lastWrite) / 2; |
---|
| 2309 | time_data_bound(0) = (Time)lastWrite; |
---|
| 2310 | time_data_bound(1) = (Time)currentWrite; |
---|
[1158] | 2311 | if (timeCounterType==centered) |
---|
| 2312 | { |
---|
| 2313 | time_counter(0) = time_data(0) ; |
---|
| 2314 | time_counter_bound(0) = time_data_bound(0) ; |
---|
| 2315 | time_counter_bound(1) = time_data_bound(1) ; |
---|
| 2316 | wtimeCounter=true ; |
---|
| 2317 | } |
---|
| 2318 | if (hasTimeCentered) wtimeData=true ; |
---|
[488] | 2319 | } |
---|
| 2320 | |
---|
[1158] | 2321 | if (timeCounterType==record) |
---|
| 2322 | { |
---|
[1961] | 2323 | time_counter(0) = nstep - 1; |
---|
| 2324 | time_counter_bound(0) = time_counter_bound(1) = nstep - 1; |
---|
[1158] | 2325 | wtimeCounter=true ; |
---|
| 2326 | } |
---|
[692] | 2327 | |
---|
[1872] | 2328 | if (!field->getRelFile()->time_units.isEmpty() && field->getRelFile()->time_units==CFile::time_units_attr::days) |
---|
[692] | 2329 | { |
---|
[1158] | 2330 | double secByDay=context->getCalendar()->getDayLengthInSeconds() ; |
---|
| 2331 | time_data/=secByDay; |
---|
| 2332 | time_data_bound/=secByDay; |
---|
| 2333 | time_counter/=secByDay; |
---|
| 2334 | time_counter_bound/=secByDay; |
---|
[692] | 2335 | } |
---|
| 2336 | } |
---|
| 2337 | |
---|
[1853] | 2338 | bool isRoot = (context->intraCommRank_ == 0); |
---|
[488] | 2339 | |
---|
[498] | 2340 | try |
---|
[219] | 2341 | { |
---|
[567] | 2342 | switch (SuperClass::type) |
---|
[498] | 2343 | { |
---|
[567] | 2344 | case (MULTI_FILE) : |
---|
| 2345 | { |
---|
[1158] | 2346 | CTimer::get("Files : writing data").resume(); |
---|
[1961] | 2347 | SuperClassWriter::writeData(data, fieldid, isCollective, nstep - 1); |
---|
[1158] | 2348 | CTimer::get("Files : writing data").suspend(); |
---|
[567] | 2349 | if (wtime) |
---|
| 2350 | { |
---|
[1158] | 2351 | CTimer::get("Files : writing time axis").resume(); |
---|
| 2352 | if ( wtimeData) |
---|
[692] | 2353 | { |
---|
[1961] | 2354 | SuperClassWriter::writeTimeAxisData(time_data, timeAxisId, isCollective, nstep - 1, isRoot); |
---|
| 2355 | SuperClassWriter::writeTimeAxisDataBounds(time_data_bound, timeAxisBoundId, isCollective, nstep - 1, isRoot); |
---|
[1158] | 2356 | } |
---|
| 2357 | if (wtimeCounter) |
---|
| 2358 | { |
---|
[1961] | 2359 | SuperClassWriter::writeTimeAxisData(time_counter, getTimeCounterName(), isCollective, nstep - 1,isRoot); |
---|
| 2360 | if (timeCounterType!=record) SuperClassWriter::writeTimeAxisDataBounds(time_counter_bound, timeBoundId, isCollective, nstep - 1, isRoot); |
---|
[692] | 2361 | } |
---|
[1158] | 2362 | CTimer::get("Files : writing time axis").suspend(); |
---|
[567] | 2363 | } |
---|
[707] | 2364 | break; |
---|
[567] | 2365 | } |
---|
| 2366 | case (ONE_FILE) : |
---|
| 2367 | { |
---|
[464] | 2368 | |
---|
[676] | 2369 | std::vector<StdSize> start, count; |
---|
[464] | 2370 | |
---|
[676] | 2371 | if (field->getUseCompressedOutput()) |
---|
| 2372 | { |
---|
[1957] | 2373 | CArray<int,1> axisDomainOrder = grid->axis_domain_order; |
---|
| 2374 | std::vector<StdString> domainList = grid->getDomainList(); |
---|
| 2375 | std::vector<StdString> axisList = grid->getAxisList(); |
---|
| 2376 | int numElement = axisDomainOrder.numElements(); |
---|
| 2377 | int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1; |
---|
| 2378 | int idx = domainList.size() * 2 + axisList.size() - 1; |
---|
| 2379 | int commRank ; |
---|
[464] | 2380 | |
---|
[1957] | 2381 | MPI_Comm_rank(comm_file,&commRank) ; |
---|
[676] | 2382 | |
---|
[1957] | 2383 | start.reserve(idx+1); |
---|
| 2384 | count.reserve(idx+1); |
---|
| 2385 | |
---|
| 2386 | for (int i = numElement - 1; i >= 0; --i) |
---|
| 2387 | { |
---|
| 2388 | if (2 == axisDomainOrder(i)) |
---|
[676] | 2389 | { |
---|
[1957] | 2390 | CDomain* domain = CDomain::get(domainList[idxDomain]); |
---|
| 2391 | |
---|
| 2392 | if (domain->isCompressible()) |
---|
[676] | 2393 | { |
---|
[1957] | 2394 | size_t offset ; |
---|
| 2395 | size_t nbIndexes = domain->getLocalView(CElementView::WORKFLOW)->getSize() ; |
---|
| 2396 | if (domain->isDistributed()) |
---|
[676] | 2397 | { |
---|
[1957] | 2398 | MPI_Exscan(&nbIndexes, &offset, 1, MPI_SIZE_T, MPI_SUM, comm_file) ; |
---|
| 2399 | if (commRank==0) offset=0 ; |
---|
[676] | 2400 | } |
---|
[1957] | 2401 | else offset=0 ; |
---|
| 2402 | |
---|
| 2403 | start.push_back(offset); |
---|
| 2404 | count.push_back(nbIndexes); |
---|
| 2405 | idx -= 2; |
---|
| 2406 | } |
---|
| 2407 | else |
---|
| 2408 | { |
---|
| 2409 | if ((domain->type) != CDomain::type_attr::unstructured) |
---|
[676] | 2410 | { |
---|
[1957] | 2411 | start.push_back(domain->jbegin); |
---|
| 2412 | count.push_back(domain->nj); |
---|
[676] | 2413 | } |
---|
[1957] | 2414 | --idx; |
---|
| 2415 | start.push_back(domain->ibegin); |
---|
| 2416 | count.push_back(domain->ni); |
---|
| 2417 | --idx; |
---|
[676] | 2418 | } |
---|
[1957] | 2419 | --idxDomain; |
---|
| 2420 | } |
---|
| 2421 | else if (1 == axisDomainOrder(i)) |
---|
| 2422 | { |
---|
| 2423 | CAxis* axis = CAxis::get(axisList[idxAxis]); |
---|
| 2424 | |
---|
| 2425 | if (axis->isCompressible()) |
---|
[676] | 2426 | { |
---|
[1957] | 2427 | size_t offset ; |
---|
| 2428 | size_t nbIndexes = axis->getLocalView(CElementView::WORKFLOW)->getSize() ; |
---|
| 2429 | if (axis->isDistributed()) |
---|
[676] | 2430 | { |
---|
[1957] | 2431 | MPI_Exscan(&nbIndexes, &offset, 1, MPI_SIZE_T, MPI_SUM, comm_file) ; |
---|
| 2432 | if (commRank==0) offset=0 ; |
---|
[676] | 2433 | } |
---|
[1957] | 2434 | else offset=0 ; |
---|
| 2435 | |
---|
| 2436 | start.push_back(offset); |
---|
| 2437 | count.push_back(nbIndexes); |
---|
[676] | 2438 | } |
---|
[1957] | 2439 | else |
---|
| 2440 | { |
---|
| 2441 | start.push_back(axis->begin); |
---|
| 2442 | count.push_back(axis->n); |
---|
| 2443 | } |
---|
| 2444 | --idxAxis; |
---|
| 2445 | --idx; |
---|
[676] | 2446 | } |
---|
[1158] | 2447 | } |
---|
[1961] | 2448 | } |
---|
[676] | 2449 | else |
---|
[498] | 2450 | { |
---|
[887] | 2451 | CArray<int,1> axisDomainOrder = grid->axis_domain_order; |
---|
[705] | 2452 | std::vector<StdString> domainList = grid->getDomainList(); |
---|
| 2453 | std::vector<StdString> axisList = grid->getAxisList(); |
---|
[2264] | 2454 | std::vector<StdString> scalarList = grid->getScalarList() ; |
---|
[705] | 2455 | int numElement = axisDomainOrder.numElements(); |
---|
| 2456 | int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1; |
---|
[1553] | 2457 | int idx = domainList.size() * 2 + axisList.size() - 1; |
---|
[705] | 2458 | |
---|
[1553] | 2459 | start.reserve(idx+1); |
---|
| 2460 | count.reserve(idx+1); |
---|
[705] | 2461 | |
---|
| 2462 | for (int i = numElement - 1; i >= 0; --i) |
---|
| 2463 | { |
---|
[887] | 2464 | if (2 == axisDomainOrder(i)) |
---|
[705] | 2465 | { |
---|
| 2466 | CDomain* domain = CDomain::get(domainList[idxDomain]); |
---|
[710] | 2467 | if ((domain->type) != CDomain::type_attr::unstructured) |
---|
[705] | 2468 | { |
---|
[1553] | 2469 | start.push_back(domain->jbegin); |
---|
| 2470 | count.push_back(domain->nj); |
---|
[705] | 2471 | } |
---|
| 2472 | --idx ; |
---|
[1143] | 2473 | |
---|
[1553] | 2474 | start.push_back(domain->ibegin); |
---|
| 2475 | count.push_back(domain->ni); |
---|
[705] | 2476 | --idx ; |
---|
| 2477 | --idxDomain; |
---|
| 2478 | } |
---|
[887] | 2479 | else if (1 == axisDomainOrder(i)) |
---|
[705] | 2480 | { |
---|
[1143] | 2481 | CAxis* axis = CAxis::get(axisList[idxAxis]); |
---|
[1559] | 2482 | start.push_back(axis->begin); |
---|
| 2483 | count.push_back(axis->n); |
---|
[705] | 2484 | --idx; |
---|
[1025] | 2485 | --idxAxis; |
---|
[887] | 2486 | } |
---|
| 2487 | else |
---|
| 2488 | { |
---|
| 2489 | if (1 == axisDomainOrder.numElements()) |
---|
| 2490 | { |
---|
[2264] | 2491 | CScalar* scalar = CScalar::get(scalarList[scalarList.size()-1]); |
---|
[887] | 2492 | start.push_back(0); |
---|
[2264] | 2493 | count.push_back(scalar->n); |
---|
[887] | 2494 | } |
---|
| 2495 | --idx; |
---|
| 2496 | } |
---|
[705] | 2497 | } |
---|
[498] | 2498 | } |
---|
[488] | 2499 | |
---|
[1158] | 2500 | |
---|
| 2501 | CTimer::get("Files : writing data").resume(); |
---|
[1961] | 2502 | SuperClassWriter::writeData(data, fieldid, isCollective, nstep - 1, &start, &count); |
---|
[1158] | 2503 | CTimer::get("Files : writing data").suspend(); |
---|
| 2504 | |
---|
| 2505 | if (wtime) |
---|
| 2506 | { |
---|
| 2507 | CTimer::get("Files : writing time axis").resume(); |
---|
| 2508 | if ( wtimeData) |
---|
[692] | 2509 | { |
---|
[1961] | 2510 | SuperClassWriter::writeTimeAxisData(time_data, timeAxisId, isCollective, nstep - 1, isRoot); |
---|
| 2511 | SuperClassWriter::writeTimeAxisDataBounds(time_data_bound, timeAxisBoundId, isCollective, nstep - 1, isRoot); |
---|
[692] | 2512 | } |
---|
[1158] | 2513 | if (wtimeCounter) |
---|
| 2514 | { |
---|
[1961] | 2515 | SuperClassWriter::writeTimeAxisData(time_counter, getTimeCounterName(), isCollective, nstep - 1,isRoot); |
---|
| 2516 | if (timeCounterType!=record) SuperClassWriter::writeTimeAxisDataBounds(time_counter_bound, timeBoundId, isCollective, nstep - 1, isRoot); |
---|
[586] | 2517 | |
---|
[1158] | 2518 | } |
---|
| 2519 | CTimer::get("Files : writing time axis").suspend(); |
---|
| 2520 | } |
---|
| 2521 | |
---|
[586] | 2522 | break; |
---|
[286] | 2523 | } |
---|
[567] | 2524 | } |
---|
[1961] | 2525 | return nstep ; |
---|
[219] | 2526 | } |
---|
[498] | 2527 | catch (CNetCdfException& e) |
---|
| 2528 | { |
---|
| 2529 | StdString msg("On writing field data: "); |
---|
| 2530 | msg.append(fieldid); msg.append("\n"); |
---|
| 2531 | msg.append("In the context : "); |
---|
| 2532 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2533 | msg.append(e.what()); |
---|
[1130] | 2534 | ERROR("CNc4DataOutput::writeFieldData_ (CField* field)", << msg); |
---|
[498] | 2535 | } |
---|
[219] | 2536 | } |
---|
| 2537 | |
---|
| 2538 | //--------------------------------------------------------------- |
---|
| 2539 | |
---|
| 2540 | void CNc4DataOutput::writeTimeAxis_ |
---|
[347] | 2541 | (CField* field, |
---|
[1542] | 2542 | const std::shared_ptr<CCalendar> cal) |
---|
[219] | 2543 | { |
---|
| 2544 | StdOStringStream oss; |
---|
[1158] | 2545 | bool createInstantAxis=false ; |
---|
| 2546 | bool createCenteredAxis=false ; |
---|
| 2547 | bool createTimeCounterAxis=false ; |
---|
| 2548 | |
---|
[645] | 2549 | if (field->getOperationTimeType() == func::CFunctor::once) return ; |
---|
[488] | 2550 | |
---|
| 2551 | |
---|
[1158] | 2552 | StdString axisId ; |
---|
| 2553 | StdString axisBoundId; |
---|
[802] | 2554 | StdString timeid(getTimeCounterName()); |
---|
[614] | 2555 | StdString timeBoundId("axis_nbounds"); |
---|
[488] | 2556 | |
---|
[1158] | 2557 | StdString strTimeUnits ; |
---|
[1872] | 2558 | if (!field->getRelFile()->time_units.isEmpty() && field->getRelFile()->time_units==CFile::time_units_attr::days) strTimeUnits="days since " ; |
---|
[1158] | 2559 | else strTimeUnits="seconds since " ; |
---|
| 2560 | |
---|
| 2561 | if (field->getOperationTimeType() == func::CFunctor::instant) field->hasTimeInstant = true; |
---|
| 2562 | if (field->getOperationTimeType() == func::CFunctor::centered) field->hasTimeCentered = true; |
---|
| 2563 | |
---|
| 2564 | |
---|
[1872] | 2565 | if (field->getRelFile()->time_counter.isEmpty()) |
---|
[488] | 2566 | { |
---|
[1158] | 2567 | if (timeCounterType==none) createTimeCounterAxis=true ; |
---|
| 2568 | if (field->hasTimeCentered) |
---|
| 2569 | { |
---|
| 2570 | timeCounterType=centered ; |
---|
| 2571 | if (!hasTimeCentered) createCenteredAxis=true ; |
---|
| 2572 | } |
---|
| 2573 | if (field->hasTimeInstant) |
---|
| 2574 | { |
---|
| 2575 | if (timeCounterType==none) timeCounterType=instant ; |
---|
| 2576 | if (!hasTimeInstant) createInstantAxis=true ; |
---|
| 2577 | } |
---|
[488] | 2578 | } |
---|
[1872] | 2579 | else if (field->getRelFile()->time_counter==CFile::time_counter_attr::instant) |
---|
[1158] | 2580 | { |
---|
| 2581 | if (field->hasTimeCentered) |
---|
| 2582 | { |
---|
| 2583 | if (!hasTimeCentered) createCenteredAxis=true ; |
---|
| 2584 | } |
---|
| 2585 | if (field->hasTimeInstant) |
---|
| 2586 | { |
---|
| 2587 | if (timeCounterType==none) createTimeCounterAxis=true ; |
---|
| 2588 | timeCounterType=instant ; |
---|
| 2589 | if (!hasTimeInstant) createInstantAxis=true ; |
---|
| 2590 | } |
---|
| 2591 | } |
---|
[1872] | 2592 | else if (field->getRelFile()->time_counter==CFile::time_counter_attr::centered) |
---|
[1158] | 2593 | { |
---|
| 2594 | if (field->hasTimeCentered) |
---|
| 2595 | { |
---|
| 2596 | if (timeCounterType==none) createTimeCounterAxis=true ; |
---|
| 2597 | timeCounterType=centered ; |
---|
| 2598 | if (!hasTimeCentered) createCenteredAxis=true ; |
---|
| 2599 | } |
---|
| 2600 | if (field->hasTimeInstant) |
---|
| 2601 | { |
---|
| 2602 | if (!hasTimeInstant) createInstantAxis=true ; |
---|
| 2603 | } |
---|
| 2604 | } |
---|
[1872] | 2605 | else if (field->getRelFile()->time_counter==CFile::time_counter_attr::instant_exclusive) |
---|
[1158] | 2606 | { |
---|
| 2607 | if (field->hasTimeCentered) |
---|
| 2608 | { |
---|
| 2609 | if (!hasTimeCentered) createCenteredAxis=true ; |
---|
| 2610 | } |
---|
| 2611 | if (field->hasTimeInstant) |
---|
| 2612 | { |
---|
| 2613 | if (timeCounterType==none) createTimeCounterAxis=true ; |
---|
| 2614 | timeCounterType=instant ; |
---|
| 2615 | } |
---|
| 2616 | } |
---|
[1872] | 2617 | else if (field->getRelFile()->time_counter==CFile::time_counter_attr::centered_exclusive) |
---|
[1158] | 2618 | { |
---|
| 2619 | if (field->hasTimeCentered) |
---|
| 2620 | { |
---|
| 2621 | if (timeCounterType==none) createTimeCounterAxis=true ; |
---|
| 2622 | timeCounterType=centered ; |
---|
| 2623 | } |
---|
| 2624 | if (field->hasTimeInstant) |
---|
| 2625 | { |
---|
| 2626 | if (!hasTimeInstant) createInstantAxis=true ; |
---|
| 2627 | } |
---|
| 2628 | } |
---|
[1872] | 2629 | else if (field->getRelFile()->time_counter==CFile::time_counter_attr::exclusive) |
---|
[1158] | 2630 | { |
---|
| 2631 | if (field->hasTimeCentered) |
---|
| 2632 | { |
---|
| 2633 | if (timeCounterType==none) createTimeCounterAxis=true ; |
---|
| 2634 | if (timeCounterType==instant) createInstantAxis=true ; |
---|
| 2635 | timeCounterType=centered ; |
---|
| 2636 | } |
---|
| 2637 | if (field->hasTimeInstant) |
---|
| 2638 | { |
---|
| 2639 | if (timeCounterType==none) |
---|
| 2640 | { |
---|
| 2641 | createTimeCounterAxis=true ; |
---|
| 2642 | timeCounterType=instant ; |
---|
| 2643 | } |
---|
| 2644 | if (timeCounterType==centered) |
---|
| 2645 | { |
---|
| 2646 | if (!hasTimeInstant) createInstantAxis=true ; |
---|
| 2647 | } |
---|
| 2648 | } |
---|
| 2649 | } |
---|
[1872] | 2650 | else if (field->getRelFile()->time_counter==CFile::time_counter_attr::none) |
---|
[1158] | 2651 | { |
---|
| 2652 | if (field->hasTimeCentered) |
---|
| 2653 | { |
---|
| 2654 | if (!hasTimeCentered) createCenteredAxis=true ; |
---|
| 2655 | } |
---|
| 2656 | if (field->hasTimeInstant) |
---|
| 2657 | { |
---|
| 2658 | if (!hasTimeInstant) createInstantAxis=true ; |
---|
| 2659 | } |
---|
| 2660 | } |
---|
[1872] | 2661 | else if (field->getRelFile()->time_counter==CFile::time_counter_attr::record) |
---|
[1158] | 2662 | { |
---|
| 2663 | if (timeCounterType==none) createTimeCounterAxis=true ; |
---|
| 2664 | timeCounterType=record ; |
---|
| 2665 | if (field->hasTimeCentered) |
---|
| 2666 | { |
---|
| 2667 | if (!hasTimeCentered) createCenteredAxis=true ; |
---|
| 2668 | } |
---|
| 2669 | if (field->hasTimeInstant) |
---|
| 2670 | { |
---|
| 2671 | if (!hasTimeInstant) createInstantAxis=true ; |
---|
| 2672 | } |
---|
| 2673 | } |
---|
| 2674 | |
---|
| 2675 | if (createInstantAxis) |
---|
| 2676 | { |
---|
| 2677 | axisId="time_instant" ; |
---|
| 2678 | axisBoundId="time_instant_bounds"; |
---|
| 2679 | hasTimeInstant=true ; |
---|
| 2680 | } |
---|
[488] | 2681 | |
---|
[1158] | 2682 | if (createCenteredAxis) |
---|
| 2683 | { |
---|
| 2684 | axisId="time_centered" ; |
---|
| 2685 | axisBoundId="time_centered_bounds"; |
---|
| 2686 | hasTimeCentered=true ; |
---|
| 2687 | } |
---|
| 2688 | |
---|
| 2689 | |
---|
[498] | 2690 | try |
---|
[219] | 2691 | { |
---|
[1158] | 2692 | std::vector<StdString> dims; |
---|
| 2693 | |
---|
| 2694 | if (createInstantAxis || createCenteredAxis) |
---|
| 2695 | { |
---|
| 2696 | // Adding time_instant or time_centered |
---|
| 2697 | dims.push_back(timeid); |
---|
| 2698 | if (!SuperClassWriter::varExist(axisId)) |
---|
| 2699 | { |
---|
| 2700 | SuperClassWriter::addVariable(axisId, NC_DOUBLE, dims); |
---|
[488] | 2701 | |
---|
[1158] | 2702 | CDate timeOrigin=cal->getTimeOrigin() ; |
---|
| 2703 | StdOStringStream oss2; |
---|
| 2704 | StdString strInitdate=oss2.str() ; |
---|
| 2705 | StdString strTimeOrigin=timeOrigin.toString() ; |
---|
| 2706 | this->writeTimeAxisAttributes(axisId, cal->getType(),strTimeUnits+strTimeOrigin, |
---|
| 2707 | strTimeOrigin, axisBoundId); |
---|
| 2708 | } |
---|
[219] | 2709 | |
---|
[1158] | 2710 | // Adding time_instant_bounds or time_centered_bounds variables |
---|
| 2711 | if (!SuperClassWriter::varExist(axisBoundId)) |
---|
| 2712 | { |
---|
| 2713 | dims.clear() ; |
---|
| 2714 | dims.push_back(timeid); |
---|
| 2715 | dims.push_back(timeBoundId); |
---|
| 2716 | SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims); |
---|
| 2717 | } |
---|
[498] | 2718 | } |
---|
[488] | 2719 | |
---|
[1158] | 2720 | if (createTimeCounterAxis) |
---|
[498] | 2721 | { |
---|
[692] | 2722 | // Adding time_counter |
---|
[1158] | 2723 | axisId = getTimeCounterName(); |
---|
[802] | 2724 | axisBoundId = getTimeCounterName() + "_bounds"; |
---|
[692] | 2725 | dims.clear(); |
---|
| 2726 | dims.push_back(timeid); |
---|
[1158] | 2727 | if (!SuperClassWriter::varExist(axisId)) |
---|
[692] | 2728 | { |
---|
[1158] | 2729 | SuperClassWriter::addVariable(axisId, NC_DOUBLE, dims); |
---|
| 2730 | SuperClassWriter::addAttribute("axis", string("T"), &axisId); |
---|
[488] | 2731 | |
---|
[1872] | 2732 | if (field->getRelFile()->time_counter.isEmpty() || |
---|
| 2733 | (field->getRelFile()->time_counter != CFile::time_counter_attr::record)) |
---|
[692] | 2734 | { |
---|
| 2735 | CDate timeOrigin = cal->getTimeOrigin(); |
---|
| 2736 | StdString strTimeOrigin = timeOrigin.toString(); |
---|
[498] | 2737 | |
---|
[1158] | 2738 | this->writeTimeAxisAttributes(axisId, cal->getType(), |
---|
| 2739 | strTimeUnits+strTimeOrigin, |
---|
[692] | 2740 | strTimeOrigin, axisBoundId); |
---|
| 2741 | } |
---|
| 2742 | } |
---|
| 2743 | |
---|
| 2744 | // Adding time_counter_bound dimension |
---|
[1872] | 2745 | if (field->getRelFile()->time_counter.isEmpty() || (field->getRelFile()->time_counter != CFile::time_counter_attr::record)) |
---|
[692] | 2746 | { |
---|
| 2747 | if (!SuperClassWriter::varExist(axisBoundId)) |
---|
| 2748 | { |
---|
| 2749 | dims.clear(); |
---|
| 2750 | dims.push_back(timeid); |
---|
| 2751 | dims.push_back(timeBoundId); |
---|
| 2752 | SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims); |
---|
| 2753 | } |
---|
| 2754 | } |
---|
[498] | 2755 | } |
---|
[488] | 2756 | } |
---|
[498] | 2757 | catch (CNetCdfException& e) |
---|
[488] | 2758 | { |
---|
[498] | 2759 | StdString msg("On writing time axis data: "); |
---|
| 2760 | msg.append("In the context : "); |
---|
| 2761 | CContext* context = CContext::getCurrent() ; |
---|
| 2762 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2763 | msg.append(e.what()); |
---|
| 2764 | ERROR("CNc4DataOutput::writeTimeAxis_ (CField* field, \ |
---|
[1542] | 2765 | const std::shared_ptr<CCalendar> cal)", << msg); |
---|
[488] | 2766 | } |
---|
[219] | 2767 | } |
---|
| 2768 | |
---|
| 2769 | //--------------------------------------------------------------- |
---|
[488] | 2770 | |
---|
[219] | 2771 | void CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name, |
---|
| 2772 | const StdString & calendar, |
---|
| 2773 | const StdString & units, |
---|
| 2774 | const StdString & time_origin, |
---|
[488] | 2775 | const StdString & time_bounds, |
---|
[219] | 2776 | const StdString & standard_name, |
---|
[613] | 2777 | const StdString & long_name) |
---|
[219] | 2778 | { |
---|
[498] | 2779 | try |
---|
| 2780 | { |
---|
| 2781 | SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name); |
---|
| 2782 | SuperClassWriter::addAttribute("long_name", long_name , &axis_name); |
---|
| 2783 | SuperClassWriter::addAttribute("calendar", calendar , &axis_name); |
---|
| 2784 | SuperClassWriter::addAttribute("units", units , &axis_name); |
---|
| 2785 | SuperClassWriter::addAttribute("time_origin", time_origin , &axis_name); |
---|
| 2786 | SuperClassWriter::addAttribute("bounds", time_bounds , &axis_name); |
---|
| 2787 | } |
---|
| 2788 | catch (CNetCdfException& e) |
---|
| 2789 | { |
---|
| 2790 | StdString msg("On writing time axis Attribute: "); |
---|
| 2791 | msg.append("In the context : "); |
---|
| 2792 | CContext* context = CContext::getCurrent() ; |
---|
| 2793 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2794 | msg.append(e.what()); |
---|
| 2795 | ERROR("CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name, \ |
---|
[613] | 2796 | const StdString & calendar,\ |
---|
| 2797 | const StdString & units, \ |
---|
| 2798 | const StdString & time_origin, \ |
---|
| 2799 | const StdString & time_bounds, \ |
---|
| 2800 | const StdString & standard_name, \ |
---|
| 2801 | const StdString & long_name)", << msg); |
---|
[498] | 2802 | } |
---|
[219] | 2803 | } |
---|
[488] | 2804 | |
---|
[219] | 2805 | //--------------------------------------------------------------- |
---|
| 2806 | |
---|
| 2807 | void CNc4DataOutput::writeAxisAttributes(const StdString & axis_name, |
---|
| 2808 | const StdString & axis, |
---|
| 2809 | const StdString & standard_name, |
---|
| 2810 | const StdString & long_name, |
---|
| 2811 | const StdString & units, |
---|
| 2812 | const StdString & nav_model) |
---|
| 2813 | { |
---|
[498] | 2814 | try |
---|
| 2815 | { |
---|
[613] | 2816 | if (!axis.empty()) |
---|
| 2817 | SuperClassWriter::addAttribute("axis" , axis , &axis_name); |
---|
| 2818 | |
---|
[498] | 2819 | SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name); |
---|
| 2820 | SuperClassWriter::addAttribute("long_name" , long_name , &axis_name); |
---|
| 2821 | SuperClassWriter::addAttribute("units" , units , &axis_name); |
---|
[973] | 2822 | // SuperClassWriter::addAttribute("nav_model" , nav_model , &axis_name); |
---|
[498] | 2823 | } |
---|
| 2824 | catch (CNetCdfException& e) |
---|
| 2825 | { |
---|
| 2826 | StdString msg("On writing Axis Attribute: "); |
---|
| 2827 | msg.append("In the context : "); |
---|
| 2828 | CContext* context = CContext::getCurrent() ; |
---|
| 2829 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2830 | msg.append(e.what()); |
---|
| 2831 | ERROR("CNc4DataOutput::writeAxisAttributes(const StdString & axis_name, \ |
---|
[613] | 2832 | const StdString & axis, \ |
---|
| 2833 | const StdString & standard_name, \ |
---|
| 2834 | const StdString & long_name, \ |
---|
| 2835 | const StdString & units, \ |
---|
| 2836 | const StdString & nav_model)", << msg); |
---|
[498] | 2837 | } |
---|
[219] | 2838 | } |
---|
| 2839 | |
---|
| 2840 | //--------------------------------------------------------------- |
---|
[488] | 2841 | |
---|
[219] | 2842 | void CNc4DataOutput::writeLocalAttributes |
---|
| 2843 | (int ibegin, int ni, int jbegin, int nj, StdString domid) |
---|
| 2844 | { |
---|
[498] | 2845 | try |
---|
| 2846 | { |
---|
[318] | 2847 | SuperClassWriter::addAttribute(StdString("ibegin").append(domid), ibegin); |
---|
| 2848 | SuperClassWriter::addAttribute(StdString("ni" ).append(domid), ni); |
---|
| 2849 | SuperClassWriter::addAttribute(StdString("jbegin").append(domid), jbegin); |
---|
| 2850 | SuperClassWriter::addAttribute(StdString("nj" ).append(domid), nj); |
---|
[498] | 2851 | } |
---|
| 2852 | catch (CNetCdfException& e) |
---|
| 2853 | { |
---|
| 2854 | StdString msg("On writing Local Attributes: "); |
---|
| 2855 | msg.append("In the context : "); |
---|
| 2856 | CContext* context = CContext::getCurrent() ; |
---|
| 2857 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2858 | msg.append(e.what()); |
---|
| 2859 | ERROR("CNc4DataOutput::writeLocalAttributes \ |
---|
| 2860 | (int ibegin, int ni, int jbegin, int nj, StdString domid)", << msg); |
---|
| 2861 | } |
---|
| 2862 | |
---|
[219] | 2863 | } |
---|
| 2864 | |
---|
[628] | 2865 | void CNc4DataOutput::writeLocalAttributes_IOIPSL(const StdString& dimXid, const StdString& dimYid, |
---|
| 2866 | int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size) |
---|
[391] | 2867 | { |
---|
| 2868 | CArray<int,1> array(2) ; |
---|
| 2869 | |
---|
[498] | 2870 | try |
---|
| 2871 | { |
---|
| 2872 | SuperClassWriter::addAttribute("DOMAIN_number_total",size ) ; |
---|
| 2873 | SuperClassWriter::addAttribute("DOMAIN_number", rank) ; |
---|
[629] | 2874 | array = SuperClassWriter::getDimension(dimXid) + 1, SuperClassWriter::getDimension(dimYid) + 1; |
---|
[498] | 2875 | SuperClassWriter::addAttribute("DOMAIN_dimensions_ids",array) ; |
---|
| 2876 | array=ni_glo,nj_glo ; |
---|
| 2877 | SuperClassWriter::addAttribute("DOMAIN_size_global", array) ; |
---|
| 2878 | array=ni,nj ; |
---|
| 2879 | SuperClassWriter::addAttribute("DOMAIN_size_local", array) ; |
---|
[819] | 2880 | array=ibegin+1,jbegin+1 ; |
---|
[498] | 2881 | SuperClassWriter::addAttribute("DOMAIN_position_first", array) ; |
---|
[819] | 2882 | array=ibegin+ni-1+1,jbegin+nj-1+1 ; |
---|
[498] | 2883 | SuperClassWriter::addAttribute("DOMAIN_position_last",array) ; |
---|
| 2884 | array=0,0 ; |
---|
| 2885 | SuperClassWriter::addAttribute("DOMAIN_halo_size_start", array) ; |
---|
| 2886 | SuperClassWriter::addAttribute("DOMAIN_halo_size_end", array); |
---|
| 2887 | SuperClassWriter::addAttribute("DOMAIN_type",string("box")) ; |
---|
| 2888 | /* |
---|
| 2889 | SuperClassWriter::addAttribute("DOMAIN_DIM_N001",string("x")) ; |
---|
| 2890 | SuperClassWriter::addAttribute("DOMAIN_DIM_N002",string("y")) ; |
---|
| 2891 | SuperClassWriter::addAttribute("DOMAIN_DIM_N003",string("axis_A")) ; |
---|
| 2892 | SuperClassWriter::addAttribute("DOMAIN_DIM_N004",string("time_counter")) ; |
---|
| 2893 | */ |
---|
| 2894 | } |
---|
| 2895 | catch (CNetCdfException& e) |
---|
| 2896 | { |
---|
[628] | 2897 | StdString msg("On writing Local Attributes IOIPSL \n"); |
---|
[498] | 2898 | msg.append("In the context : "); |
---|
| 2899 | CContext* context = CContext::getCurrent() ; |
---|
| 2900 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2901 | msg.append(e.what()); |
---|
| 2902 | ERROR("CNc4DataOutput::writeLocalAttributes_IOIPSL \ |
---|
| 2903 | (int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)", << msg); |
---|
| 2904 | } |
---|
[391] | 2905 | } |
---|
[219] | 2906 | //--------------------------------------------------------------- |
---|
| 2907 | |
---|
| 2908 | void CNc4DataOutput:: writeFileAttributes(const StdString & name, |
---|
| 2909 | const StdString & description, |
---|
| 2910 | const StdString & conventions, |
---|
| 2911 | const StdString & production, |
---|
| 2912 | const StdString & timeStamp) |
---|
| 2913 | { |
---|
[498] | 2914 | try |
---|
| 2915 | { |
---|
| 2916 | SuperClassWriter::addAttribute("name" , name); |
---|
| 2917 | SuperClassWriter::addAttribute("description", description); |
---|
[613] | 2918 | SuperClassWriter::addAttribute("title" , description); |
---|
| 2919 | SuperClassWriter::addAttribute("Conventions", conventions); |
---|
[1158] | 2920 | // SuperClassWriter::addAttribute("production" , production); |
---|
| 2921 | |
---|
| 2922 | StdString timeStampStr ; |
---|
| 2923 | if (file->time_stamp_name.isEmpty()) timeStampStr="timeStamp" ; |
---|
| 2924 | else timeStampStr=file->time_stamp_name ; |
---|
| 2925 | SuperClassWriter::addAttribute(timeStampStr, timeStamp); |
---|
| 2926 | |
---|
| 2927 | StdString uuidName ; |
---|
| 2928 | if (file->uuid_name.isEmpty()) uuidName="uuid" ; |
---|
| 2929 | else uuidName=file->uuid_name ; |
---|
| 2930 | |
---|
| 2931 | if (file->uuid_format.isEmpty()) SuperClassWriter::addAttribute(uuidName, getUuidStr()); |
---|
| 2932 | else SuperClassWriter::addAttribute(uuidName, getUuidStr(file->uuid_format)); |
---|
| 2933 | |
---|
[498] | 2934 | } |
---|
| 2935 | catch (CNetCdfException& e) |
---|
| 2936 | { |
---|
| 2937 | StdString msg("On writing File Attributes \n "); |
---|
| 2938 | msg.append("In the context : "); |
---|
| 2939 | CContext* context = CContext::getCurrent() ; |
---|
| 2940 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2941 | msg.append(e.what()); |
---|
| 2942 | ERROR("CNc4DataOutput:: writeFileAttributes(const StdString & name, \ |
---|
| 2943 | const StdString & description, \ |
---|
| 2944 | const StdString & conventions, \ |
---|
| 2945 | const StdString & production, \ |
---|
| 2946 | const StdString & timeStamp)", << msg); |
---|
| 2947 | } |
---|
[219] | 2948 | } |
---|
| 2949 | |
---|
| 2950 | //--------------------------------------------------------------- |
---|
| 2951 | |
---|
| 2952 | void CNc4DataOutput::writeMaskAttributes(const StdString & mask_name, |
---|
| 2953 | int data_dim, |
---|
| 2954 | int data_ni, |
---|
| 2955 | int data_nj, |
---|
| 2956 | int data_ibegin, |
---|
| 2957 | int data_jbegin) |
---|
| 2958 | { |
---|
[498] | 2959 | try |
---|
| 2960 | { |
---|
| 2961 | SuperClassWriter::addAttribute("data_dim" , data_dim , &mask_name); |
---|
| 2962 | SuperClassWriter::addAttribute("data_ni" , data_ni , &mask_name); |
---|
| 2963 | SuperClassWriter::addAttribute("data_nj" , data_nj , &mask_name); |
---|
| 2964 | SuperClassWriter::addAttribute("data_ibegin", data_ibegin, &mask_name); |
---|
| 2965 | SuperClassWriter::addAttribute("data_jbegin", data_jbegin, &mask_name); |
---|
| 2966 | } |
---|
| 2967 | catch (CNetCdfException& e) |
---|
| 2968 | { |
---|
| 2969 | StdString msg("On writing Mask Attributes \n "); |
---|
| 2970 | msg.append("In the context : "); |
---|
| 2971 | CContext* context = CContext::getCurrent() ; |
---|
| 2972 | msg.append(context->getId()); msg.append("\n"); |
---|
| 2973 | msg.append(e.what()); |
---|
| 2974 | ERROR("CNc4DataOutput::writeMaskAttributes(const StdString & mask_name, \ |
---|
| 2975 | int data_dim, \ |
---|
| 2976 | int data_ni, \ |
---|
| 2977 | int data_nj, \ |
---|
| 2978 | int data_ibegin, \ |
---|
| 2979 | int data_jbegin)", << msg); |
---|
| 2980 | } |
---|
[219] | 2981 | } |
---|
| 2982 | |
---|
| 2983 | ///-------------------------------------------------------------- |
---|
| 2984 | |
---|
[1158] | 2985 | StdSize CNc4DataOutput::getRecordFromTime(Time time, double factorUnit) |
---|
[707] | 2986 | { |
---|
| 2987 | std::map<Time, StdSize>::const_iterator it = timeToRecordCache.find(time); |
---|
| 2988 | if (it == timeToRecordCache.end()) |
---|
| 2989 | { |
---|
[802] | 2990 | StdString timeAxisBoundsId(getTimeCounterName() + "_bounds"); |
---|
[1158] | 2991 | if (!SuperClassWriter::varExist(timeAxisBoundsId)) timeAxisBoundsId = "time_centered_bounds"; |
---|
| 2992 | if (!SuperClassWriter::varExist(timeAxisBoundsId)) timeAxisBoundsId = "time_instant_bounds"; |
---|
[707] | 2993 | |
---|
| 2994 | CArray<double,2> timeAxisBounds; |
---|
[1158] | 2995 | std::vector<StdSize> dimSize(SuperClassWriter::getDimensions(timeAxisBoundsId)) ; |
---|
| 2996 | |
---|
[707] | 2997 | StdSize record = 0; |
---|
| 2998 | double dtime(time); |
---|
[1158] | 2999 | for (int n = dimSize[0] - 1; n >= 0; n--) |
---|
[707] | 3000 | { |
---|
[1158] | 3001 | SuperClassWriter::getTimeAxisBounds(timeAxisBounds, timeAxisBoundsId, isCollective, n); |
---|
| 3002 | timeAxisBounds*=factorUnit ; |
---|
| 3003 | if (timeAxisBounds(1, 0) < dtime) |
---|
[707] | 3004 | { |
---|
| 3005 | record = n + 1; |
---|
| 3006 | break; |
---|
| 3007 | } |
---|
| 3008 | } |
---|
| 3009 | it = timeToRecordCache.insert(std::make_pair(time, record)).first; |
---|
| 3010 | } |
---|
| 3011 | return it->second; |
---|
| 3012 | } |
---|
[774] | 3013 | |
---|
| 3014 | ///-------------------------------------------------------------- |
---|
| 3015 | |
---|
| 3016 | bool CNc4DataOutput::isWrittenDomain(const std::string& domainName) const |
---|
| 3017 | { |
---|
| 3018 | return (this->writtenDomains.find(domainName) != this->writtenDomains.end()); |
---|
| 3019 | } |
---|
| 3020 | |
---|
| 3021 | bool CNc4DataOutput::isWrittenCompressedDomain(const std::string& domainName) const |
---|
| 3022 | { |
---|
| 3023 | return (this->writtenCompressedDomains.find(domainName) != this->writtenCompressedDomains.end()); |
---|
| 3024 | } |
---|
| 3025 | |
---|
| 3026 | bool CNc4DataOutput::isWrittenAxis(const std::string& axisName) const |
---|
| 3027 | { |
---|
| 3028 | return (this->writtenAxis.find(axisName) != this->writtenAxis.end()); |
---|
| 3029 | } |
---|
| 3030 | |
---|
| 3031 | bool CNc4DataOutput::isWrittenCompressedAxis(const std::string& axisName) const |
---|
| 3032 | { |
---|
| 3033 | return (this->writtenCompressedAxis.find(axisName) != this->writtenCompressedAxis.end()); |
---|
| 3034 | } |
---|
| 3035 | |
---|
[887] | 3036 | bool CNc4DataOutput::isWrittenScalar(const std::string& scalarName) const |
---|
| 3037 | { |
---|
| 3038 | return (this->writtenScalar.find(scalarName) != this->writtenScalar.end()); |
---|
| 3039 | } |
---|
| 3040 | |
---|
[774] | 3041 | void CNc4DataOutput::setWrittenDomain(const std::string& domainName) |
---|
| 3042 | { |
---|
| 3043 | this->writtenDomains.insert(domainName); |
---|
| 3044 | } |
---|
| 3045 | |
---|
| 3046 | void CNc4DataOutput::setWrittenCompressedDomain(const std::string& domainName) |
---|
| 3047 | { |
---|
| 3048 | this->writtenCompressedDomains.insert(domainName); |
---|
| 3049 | } |
---|
| 3050 | |
---|
| 3051 | void CNc4DataOutput::setWrittenAxis(const std::string& axisName) |
---|
| 3052 | { |
---|
| 3053 | this->writtenAxis.insert(axisName); |
---|
| 3054 | } |
---|
| 3055 | |
---|
| 3056 | void CNc4DataOutput::setWrittenCompressedAxis(const std::string& axisName) |
---|
| 3057 | { |
---|
| 3058 | this->writtenCompressedAxis.insert(axisName); |
---|
| 3059 | } |
---|
[887] | 3060 | |
---|
| 3061 | void CNc4DataOutput::setWrittenScalar(const std::string& scalarName) |
---|
| 3062 | { |
---|
| 3063 | this->writtenScalar.insert(scalarName); |
---|
| 3064 | } |
---|
[335] | 3065 | } // namespace xios |
---|