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source: XIOS/dev/XIOS_DEV_CMIP6/src/io/nc4_data_output.cpp @ 1313

Last change on this file since 1313 was 1309, checked in by ymipsl, 7 years ago

Fix : Some netcdf global attribute defined by variable was overwrited in append mode by default value.

YM

Property copyright set to
Software name : XIOS (Xml I/O Server)
http://forge.ipsl.jussieu.fr/ioserver
Creation date : January 2009
Licence : CeCCIL version2
see license file in root directory : Licence_CeCILL_V2-en.txt
or http://www.cecill.info/licences/Licence_CeCILL_V2-en.html
Holder : CEA/LSCE (Laboratoire des Sciences du CLimat et de l'Environnement)
CNRS/IPSL (Institut Pierre Simon Laplace)
Project Manager : Yann Meurdesoif
yann.meurdesoif@cea.fr
Property svn:executable set to *

File size: 126.5 KB

Rev	Line
[219]	1	#include "nc4_data_output.hpp"
	2
	3	#include <boost/lexical_cast.hpp>
[352]	4	#include "attribute_template.hpp"
	5	#include "group_template.hpp"
[219]	6
	7	#include "file.hpp"
	8	#include "calendar.hpp"
[278]	9	#include "context.hpp"
[300]	10	#include "context_server.hpp"
[498]	11	#include "netCdfException.hpp"
	12	#include "exception.hpp"
[1158]	13	#include "timer.hpp"
	14	#include "uuid.hpp"
[335]	15	namespace xios
[219]	16	{
[878]	17	/// ////////////////////// Dfinitions ////////////////////// ///
[219]	18	CNc4DataOutput::CNc4DataOutput
[1158]	19	(CFile* file, const StdString & filename, bool exist)
[219]	20	: SuperClass()
	21	, SuperClassWriter(filename, exist)
	22	, filename(filename)
[1158]	23	, file(file),hasTimeInstant(false),hasTimeCentered(false), timeCounterType(none)
[219]	24	{
[1158]	25	SuperClass::type = MULTI_FILE;
[219]	26	}
	27
	28	CNc4DataOutput::CNc4DataOutput
[1158]	29	(CFile* file, const StdString & filename, bool exist, bool useClassicFormat, bool useCFConvention,
[924]	30	MPI_Comm comm_file, bool multifile, bool isCollective, const StdString& timeCounterName)
[219]	31	: SuperClass()
[878]	32	, SuperClassWriter(filename, exist, useClassicFormat, useCFConvention, &comm_file, multifile, timeCounterName)
[379]	33	, comm_file(comm_file)
[219]	34	, filename(filename)
[335]	35	, isCollective(isCollective)
[1158]	36	, file(file),hasTimeInstant(false),hasTimeCentered(false), timeCounterType(none)
[219]	37	{
[1158]	38	SuperClass::type = (multifile) ? MULTI_FILE : ONE_FILE;
[219]	39	}
	40
	41	CNc4DataOutput::~CNc4DataOutput(void)
[879]	42	{ /* Ne rien faire de plus */ }
[219]	43
	44	///--------------------------------------------------------------
	45
	46	const StdString & CNc4DataOutput::getFileName(void) const
	47	{
	48	return (this->filename);
	49	}
	50
	51	//---------------------------------------------------------------
	52
[347]	53	void CNc4DataOutput::writeDomain_(CDomain* domain)
[219]	54	{
[1129]	55	domain->computeWrittenIndex();
[1249]	56	domain->computeWrittenCompressedIndex(comm_file);
	57
[881]	58	if (domain->type == CDomain::type_attr::unstructured)
	59	{
	60	if (SuperClassWriter::useCFConvention)
	61	writeUnstructuredDomain(domain) ;
	62	else
	63	writeUnstructuredDomainUgrid(domain) ;
	64	return ;
	65	}
[488]	66
[347]	67	CContext* context = CContext::getCurrent() ;
[300]	68	CContextServer* server=context->server ;
[488]	69
[219]	70	if (domain->IsWritten(this->filename)) return;
	71	domain->checkAttributes();
[488]	72
	73	if (domain->isEmpty())
[881]	74	if (SuperClass::type==MULTI_FILE) return;
[219]	75
	76	std::vector<StdString> dim0, dim1;
[772]	77	StdString domid = domain->getDomainOutputName();
[318]	78	StdString appendDomid = (singleDomain) ? "" : "_"+domid ;
[706]	79	if (isWrittenDomain(domid)) return ;
[774]	80	else setWrittenDomain(domid);
[1132]	81
	82	int nvertex = (domain->nvertex.isEmpty()) ? 0 : domain->nvertex;
[449]	83
[488]	84
[1158]	85	StdString dimXid, dimYid ;
	86
	87	nc_type typePrec ;
	88	if (domain->prec.isEmpty()) typePrec = NC_FLOAT ;
	89	else if (domain->prec==4) typePrec = NC_FLOAT ;
	90	else if (domain->prec==8) typePrec = NC_DOUBLE ;
	91
[664]	92	bool isRegularDomain = (domain->type == CDomain::type_attr::rectilinear);
[449]	93	switch (domain->type)
[433]	94	{
[449]	95	case CDomain::type_attr::curvilinear :
	96	dimXid = StdString("x").append(appendDomid);
	97	dimYid = StdString("y").append(appendDomid);
	98	break ;
[664]	99	case CDomain::type_attr::rectilinear :
[449]	100	dimXid = StdString("lon").append(appendDomid);
	101	dimYid = StdString("lat").append(appendDomid);
	102	break;
[488]	103	}
	104
[617]	105	StdString dimVertId = StdString("nvertex").append(appendDomid);
	106
[449]	107	string lonid,latid,bounds_lonid,bounds_latid ;
[611]	108	string areaId = "area" + appendDomid;
[391]	109	/*
[300]	110	StdString lonid_loc = (server->intraCommSize > 1)
[318]	111	? StdString("lon").append(appendDomid).append("_local")
[278]	112	: lonid;
[300]	113	StdString latid_loc = (server->intraCommSize > 1)
[318]	114	? StdString("lat").append(appendDomid).append("_local")
[278]	115	: latid;
[391]	116	*/
[219]	117
[1129]	118	CArray<size_t, 1>& indexToWrite = domain->localIndexToWriteOnServer;
	119	int nbWritten = indexToWrite.numElements();
	120	CArray<double,1> writtenLat, writtenLon;
	121	CArray<double,2> writtenBndsLat, writtenBndsLon;
	122	CArray<double,1> writtenArea;
	123
	124	if (domain->hasLonLat)
	125	{
	126	writtenLat.resize(nbWritten);
	127	writtenLon.resize(nbWritten);
	128	for (int idx = 0; idx < nbWritten; ++idx)
	129	{
	130	writtenLat(idx) = domain->latvalue(indexToWrite(idx));
	131	writtenLon(idx) = domain->lonvalue(indexToWrite(idx));
	132	}
	133
	134
	135	if (domain->hasBounds)
	136	{
	137	int nvertex = domain->nvertex, idx;
	138	writtenBndsLat.resize(nvertex, nbWritten);
	139	writtenBndsLon.resize(nvertex, nbWritten);
	140	CArray<double,2>& boundslat = domain->bounds_latvalue;
	141	CArray<double,2>& boundslon = domain->bounds_lonvalue;
	142	for (idx = 0; idx < nbWritten; ++idx)
	143	for (int nv = 0; nv < nvertex; ++nv)
	144	{
	145	writtenBndsLat(nv, idx) = boundslat(nv, int(indexToWrite(idx)));
	146	writtenBndsLon(nv, idx) = boundslon(nv, int(indexToWrite(idx)));
	147	}
	148	}
	149	}
	150
	151	if (domain->hasArea)
	152	{
	153	writtenArea.resize(nbWritten);
	154	for (int idx = 0; idx < nbWritten; ++idx)
	155	{
	156	writtenArea(idx) = domain->areavalue(indexToWrite(idx));
	157	}
	158	}
	159
[498]	160	try
[219]	161	{
[498]	162	switch (SuperClass::type)
	163	{
	164	case (MULTI_FILE) :
	165	{
	166	// if (domain->isEmpty()) return;
[488]	167
[498]	168	if (server->intraCommSize > 1)
	169	{
	170	// SuperClassWriter::addDimension(lonid, domain->zoom_ni.getValue());
	171	// SuperClassWriter::addDimension(latid, domain->zoom_nj.getValue());
	172	}
[286]	173
[498]	174	switch (domain->type)
	175	{
	176	case CDomain::type_attr::curvilinear :
	177	dim0.push_back(dimYid); dim0.push_back(dimXid);
	178	lonid = StdString("nav_lon").append(appendDomid);
	179	latid = StdString("nav_lat").append(appendDomid);
	180	break ;
[664]	181	case CDomain::type_attr::rectilinear :
[498]	182	lonid = StdString("lon").append(appendDomid);
	183	latid = StdString("lat").append(appendDomid);
	184	dim0.push_back(dimYid);
	185	dim1.push_back(dimXid);
	186	break;
	187	}
[488]	188
[617]	189	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	190	bounds_latid = StdString("bounds_lat").append(appendDomid);
	191
[1099]	192	SuperClassWriter::addDimension(dimXid, domain->zoom_ni);
	193	SuperClassWriter::addDimension(dimYid, domain->zoom_nj);
[488]	194
[617]	195	if (domain->hasBounds)
	196	SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	197
[498]	198	if (server->intraCommSize > 1)
	199	{
[1099]	200	this->writeLocalAttributes(domain->zoom_ibegin,
	201	domain->zoom_ni,
	202	domain->zoom_jbegin,
	203	domain->zoom_nj,
[616]	204	appendDomid);
[488]	205
[628]	206	if (singleDomain)
	207	this->writeLocalAttributes_IOIPSL(dimXid, dimYid,
[1099]	208	domain->zoom_ibegin,
	209	domain->zoom_ni,
	210	domain->zoom_jbegin,
	211	domain->zoom_nj,
[628]	212	domain->ni_glo,domain->nj_glo,
	213	server->intraCommRank,server->intraCommSize);
[449]	214	}
[488]	215
[665]	216	if (domain->hasLonLat)
[498]	217	{
[665]	218	switch (domain->type)
	219	{
	220	case CDomain::type_attr::curvilinear :
[1158]	221	SuperClassWriter::addVariable(latid, typePrec, dim0);
	222	SuperClassWriter::addVariable(lonid, typePrec, dim0);
[665]	223	break ;
	224	case CDomain::type_attr::rectilinear :
[1158]	225	SuperClassWriter::addVariable(latid, typePrec, dim0);
	226	SuperClassWriter::addVariable(lonid, typePrec, dim1);
[665]	227	break ;
	228	}
[488]	229
[665]	230	this->writeAxisAttributes(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid);
	231	this->writeAxisAttributes(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid);
[219]	232
[665]	233	if (domain->hasBounds)
	234	{
	235	SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid);
	236	SuperClassWriter::addAttribute("bounds", bounds_latid, &latid);
[617]	237
[665]	238	dim0.clear();
	239	dim0.push_back(dimYid);
	240	dim0.push_back(dimXid);
	241	dim0.push_back(dimVertId);
[1158]	242	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0);
	243	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0);
[665]	244	}
[617]	245	}
	246
[498]	247	dim0.clear();
[616]	248	dim0.push_back(dimYid);
[498]	249	dim0.push_back(dimXid);
[219]	250
	251
[498]	252	// supress mask if (server->intraCommSize > 1)
	253	// supress mask {
	254	// supress mask SuperClassWriter::addVariable(maskid, NC_INT, dim0);
	255	// supress mask
	256	// supress mask this->writeMaskAttributes(maskid,
	257	// supress mask domain->data_dim.getValue()/*,
	258	// supress mask domain->data_ni.getValue(),
	259	// supress mask domain->data_nj.getValue(),
	260	// supress mask domain->data_ibegin.getValue(),
	261	// supress mask domain->data_jbegin.getValue()*/);
	262	// supress mask }
[488]	263
[498]	264	//SuperClassWriter::setDefaultValue(maskid, &dvm);
[219]	265
[611]	266	if (domain->hasArea)
	267	{
[1158]	268	SuperClassWriter::addVariable(areaId, typePrec, dim0);
[614]	269	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	270	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	271	}
	272
[498]	273	SuperClassWriter::definition_end();
[449]	274
[665]	275	if (domain->hasLonLat)
[498]	276	{
[665]	277	switch (domain->type)
	278	{
[1129]	279	case CDomain::type_attr::curvilinear :
	280	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0);
	281	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0);
[665]	282	break;
	283	case CDomain::type_attr::rectilinear :
[1129]	284	CArray<double,1> lat = writtenLat(Range(fromStart,toEnd,domain->zoom_ni)) ;
[665]	285	SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0);
[1129]	286	CArray<double,1> lon = writtenLon(Range(0,domain->zoom_ni-1)) ;
[665]	287	SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0);
	288	break;
	289	}
[611]	290
[665]	291	if (domain->hasBounds)
	292	{
[1129]	293	SuperClassWriter::writeData(writtenBndsLon, bounds_lonid, isCollective, 0);
	294	SuperClassWriter::writeData(writtenBndsLat, bounds_latid, isCollective, 0);
[665]	295	}
[617]	296	}
	297
[611]	298	if (domain->hasArea)
[1129]	299	{
[1132]	300	SuperClassWriter::writeData(writtenArea, areaId, isCollective, 0);
[1129]	301	}
	302
[498]	303	SuperClassWriter::definition_start();
[219]	304
[498]	305	break;
	306	}
	307	case (ONE_FILE) :
	308	{
[1099]	309	SuperClassWriter::addDimension(dimXid, domain->global_zoom_ni);
	310	SuperClassWriter::addDimension(dimYid, domain->global_zoom_nj);
[286]	311
[617]	312	if (domain->hasBounds)
	313	SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	314
[665]	315	if (domain->hasLonLat)
[498]	316	{
[665]	317	switch (domain->type)
	318	{
	319	case CDomain::type_attr::curvilinear :
	320	dim0.push_back(dimYid); dim0.push_back(dimXid);
	321	lonid = StdString("nav_lon").append(appendDomid);
	322	latid = StdString("nav_lat").append(appendDomid);
[1158]	323	SuperClassWriter::addVariable(latid, typePrec, dim0);
	324	SuperClassWriter::addVariable(lonid, typePrec, dim0);
[665]	325	break;
[449]	326
[665]	327	case CDomain::type_attr::rectilinear :
	328	dim0.push_back(dimYid);
	329	dim1.push_back(dimXid);
	330	lonid = StdString("lon").append(appendDomid);
	331	latid = StdString("lat").append(appendDomid);
[1158]	332	SuperClassWriter::addVariable(latid, typePrec, dim0);
	333	SuperClassWriter::addVariable(lonid, typePrec, dim1);
[665]	334	break;
	335	}
	336
	337	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	338	bounds_latid = StdString("bounds_lat").append(appendDomid);
	339
	340	this->writeAxisAttributes
	341	(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid);
	342	this->writeAxisAttributes
	343	(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid);
	344
	345	if (domain->hasBounds)
	346	{
	347	SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid);
	348	SuperClassWriter::addAttribute("bounds", bounds_latid, &latid);
	349
	350	dim0.clear();
[498]	351	dim0.push_back(dimYid);
[665]	352	dim0.push_back(dimXid);
	353	dim0.push_back(dimVertId);
[1158]	354	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0);
	355	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0);
[665]	356	}
[498]	357	}
[611]	358
	359	if (domain->hasArea)
	360	{
	361	dim0.clear();
	362	dim0.push_back(dimYid); dim0.push_back(dimXid);
[1158]	363	SuperClassWriter::addVariable(areaId, typePrec, dim0);
[614]	364	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	365	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	366	dim0.clear();
	367	}
	368
	369	SuperClassWriter::definition_end();
[286]	370
[498]	371	switch (domain->type)
[384]	372	{
[498]	373	case CDomain::type_attr::curvilinear :
[449]	374	{
[498]	375	std::vector<StdSize> start(2) ;
	376	std::vector<StdSize> count(2) ;
	377	if (domain->isEmpty())
	378	{
[611]	379	start[0]=0 ; start[1]=0 ;
[498]	380	count[0]=0 ; count[1]=0 ;
	381	}
	382	else
	383	{
[1099]	384	start[1]=domain->zoom_ibegin-domain->global_zoom_ibegin;
	385	start[0]=domain->zoom_jbegin-domain->global_zoom_jbegin;
	386	count[1]=domain->zoom_ni ; count[0]=domain->zoom_nj ;
[498]	387	}
[488]	388
[665]	389	if (domain->hasLonLat)
	390	{
[1129]	391	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0,&start,&count);
	392	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0,&start,&count);
[665]	393	}
[498]	394	break;
	395	}
[664]	396	case CDomain::type_attr::rectilinear :
[449]	397	{
[665]	398	if (domain->hasLonLat)
[498]	399	{
[665]	400	std::vector<StdSize> start(1) ;
	401	std::vector<StdSize> count(1) ;
	402	if (domain->isEmpty())
	403	{
	404	start[0]=0 ;
	405	count[0]=0 ;
[1129]	406	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0,&start,&count);
	407	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0,&start,&count);
[665]	408	}
	409	else
[1129]	410	{
[1099]	411	start[0]=domain->zoom_jbegin-domain->global_zoom_jbegin;
[1143]	412	count[0]=domain->zoom_nj;
[1129]	413	CArray<double,1> lat = writtenLat(Range(fromStart,toEnd,domain->zoom_ni));
[665]	414	SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0,&start,&count);
	415
[1099]	416	start[0]=domain->zoom_ibegin-domain->global_zoom_ibegin;
[1143]	417	count[0]=domain->zoom_ni;
[1129]	418	CArray<double,1> lon = writtenLon(Range(0,domain->zoom_ni-1));
[665]	419	SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0,&start,&count);
	420	}
[498]	421	}
	422	break;
[449]	423	}
[384]	424	}
[611]	425
[617]	426	if (domain->hasBounds)
	427	{
	428	std::vector<StdSize> start(3);
	429	std::vector<StdSize> count(3);
	430	if (domain->isEmpty())
	431	{
	432	start[2] = start[1] = start[0] = 0;
	433	count[2] = count[1] = count[0] = 0;
	434	}
	435	else
	436	{
	437	start[2] = 0;
[1099]	438	start[1] = domain->zoom_ibegin - domain->global_zoom_ibegin;
	439	start[0] = domain->zoom_jbegin - domain->global_zoom_jbegin;
	440	count[2] = domain->nvertex;
	441	count[1] = domain->zoom_ni;
	442	count[0] = domain->zoom_nj;
[617]	443	}
[1143]	444
[1129]	445	SuperClassWriter::writeData(writtenBndsLon, bounds_lonid, isCollective, 0, &start, &count);
	446	SuperClassWriter::writeData(writtenBndsLat, bounds_latid, isCollective, 0, &start, &count);
[617]	447	}
	448
[611]	449	if (domain->hasArea)
	450	{
	451	std::vector<StdSize> start(2);
	452	std::vector<StdSize> count(2);
	453
	454	if (domain->isEmpty())
	455	{
	456	start[0] = 0; start[1] = 0;
	457	count[0] = 0; count[1] = 0;
	458	}
	459	else
	460	{
[1099]	461	start[1] = domain->zoom_ibegin - domain->global_zoom_ibegin;
	462	start[0] = domain->zoom_jbegin - domain->global_zoom_jbegin;
	463	count[1] = domain->zoom_ni;
	464	count[0] = domain->zoom_nj;
[611]	465	}
[1143]	466
[1129]	467	SuperClassWriter::writeData(writtenArea, areaId, isCollective, 0, &start, &count);
[611]	468	}
	469
[498]	470	SuperClassWriter::definition_start();
	471	break;
	472	}
	473	default :
	474	ERROR("CNc4DataOutput::writeDomain(domain)",
	475	<< "[ type = " << SuperClass::type << "]"
	476	<< " not implemented yet !");
	477	}
[449]	478	}
[498]	479	catch (CNetCdfException& e)
	480	{
	481	StdString msg("On writing the domain : ");
	482	msg.append(domid); msg.append("\n");
	483	msg.append("In the context : ");
	484	msg.append(context->getId()); msg.append("\n");
	485	msg.append(e.what());
	486	ERROR("CNc4DataOutput::writeDomain_(CDomain* domain)", << msg);
	487	}
	488
[449]	489	domain->addRelFile(this->filename);
	490	}
	491
[879]	492	//--------------------------------------------------------------
[878]	493
[879]	494	void CNc4DataOutput::writeUnstructuredDomainUgrid(CDomain* domain)
	495	{
	496	CContext* context = CContext::getCurrent() ;
	497	CContextServer* server=context->server ;
[878]	498
[879]	499	if (domain->IsWritten(this->filename)) return;
	500	domain->checkAttributes();
	501	if (domain->isEmpty())
	502	if (SuperClass::type==MULTI_FILE) return ;
[878]	503
[1158]	504	nc_type typePrec ;
	505	if (domain->prec.isEmpty()) typePrec = NC_FLOAT ;
	506	else if (domain->prec==4) typePrec = NC_FLOAT ;
	507	else if (domain->prec==8) typePrec = NC_DOUBLE ;
	508
[879]	509	std::vector<StdString> dim0;
	510	StdString domid = domain->getDomainOutputName();
	511	StdString domainName = domain->name;
[924]	512	domain->assignMesh(domainName, domain->nvertex);
[1025]	513	domain->mesh->createMeshEpsilon(server->intraComm, domain->lonvalue, domain->latvalue, domain->bounds_lonvalue, domain->bounds_latvalue);
[878]	514
[879]	515	StdString node_x = domainName + "_node_x";
	516	StdString node_y = domainName + "_node_y";
[878]	517
[879]	518	StdString edge_x = domainName + "_edge_x";
	519	StdString edge_y = domainName + "_edge_y";
	520	StdString edge_nodes = domainName + "_edge_nodes";
[878]	521
[879]	522	StdString face_x = domainName + "_face_x";
	523	StdString face_y = domainName + "_face_y";
	524	StdString face_nodes = domainName + "_face_nodes";
[902]	525	StdString face_edges = domainName + "_face_edges";
	526	StdString edge_faces = domainName + "_edge_face_links";
	527	StdString face_faces = domainName + "_face_links";
[878]	528
[879]	529	StdString dimNode = "n" + domainName + "_node";
	530	StdString dimEdge = "n" + domainName + "_edge";
	531	StdString dimFace = "n" + domainName + "_face";
	532	StdString dimVertex = "n" + domainName + "_vertex";
	533	StdString dimTwo = "Two";
[878]	534
[879]	535	if (!SuperClassWriter::dimExist(dimTwo)) SuperClassWriter::addDimension(dimTwo, 2);
	536	if (!isWrittenDomain(domid))
	537	{
	538	dim0.clear();
	539	SuperClassWriter::addVariable(domainName, NC_INT, dim0);
	540	SuperClassWriter::addAttribute("cf_role", StdString("mesh_topology"), &domainName);
[924]	541	SuperClassWriter::addAttribute("long_name", StdString("Topology data of 2D unstructured mesh"), &domainName);
	542	SuperClassWriter::addAttribute("topology_dimension", 2, &domainName);
[879]	543	SuperClassWriter::addAttribute("node_coordinates", node_x + " " + node_y, &domainName);
	544	}
[878]	545
[879]	546	try
	547	{
	548	switch (SuperClass::type)
	549	{
	550	case (ONE_FILE) :
	551	{
	552	// Adding nodes
	553	if (domain->nvertex == 1)
	554	{
	555	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
	556	{
[902]	557	SuperClassWriter::addDimension(dimNode, domain->ni_glo);
[879]	558	dim0.clear();
	559	dim0.push_back(dimNode);
[1158]	560	SuperClassWriter::addVariable(node_x, typePrec, dim0);
[879]	561	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
[924]	562	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
[879]	563	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
[1158]	564	SuperClassWriter::addVariable(node_y, typePrec, dim0);
[879]	565	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
[924]	566	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
[879]	567	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
	568	}
	569	} // domain->nvertex == 1
[878]	570
[879]	571	// Adding edges and nodes, if nodes have not been defined previously
	572	if (domain->nvertex == 2)
	573	{
	574	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
	575	{
[924]	576	SuperClassWriter::addDimension(dimNode, domain->mesh->nbNodesGlo);
[879]	577	dim0.clear();
	578	dim0.push_back(dimNode);
[1158]	579	SuperClassWriter::addVariable(node_x, typePrec, dim0);
[879]	580	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
[924]	581	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
[879]	582	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
[1158]	583	SuperClassWriter::addVariable(node_y, typePrec, dim0);
[879]	584	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
[924]	585	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
[879]	586	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
	587	}
[924]	588	SuperClassWriter::addAttribute("edge_node_connectivity", edge_nodes, &domainName);
	589	SuperClassWriter::addAttribute("edge_coordinates", edge_x + " " + edge_y, &domainName);
	590	SuperClassWriter::addDimension(dimEdge, domain->ni_glo);
	591	dim0.clear();
	592	dim0.push_back(dimEdge);
[1158]	593	SuperClassWriter::addVariable(edge_x, typePrec, dim0);
[924]	594	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &edge_x);
	595	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh edges."), &edge_x);
	596	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &edge_x);
[1158]	597	SuperClassWriter::addVariable(edge_y, typePrec, dim0);
[924]	598	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &edge_y);
	599	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh edges."), &edge_y);
	600	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &edge_y);
	601	dim0.clear();
	602	dim0.push_back(dimEdge);
	603	dim0.push_back(dimTwo);
	604	SuperClassWriter::addVariable(edge_nodes, NC_INT, dim0);
	605	SuperClassWriter::addAttribute("cf_role", StdString("edge_node_connectivity"), &edge_nodes);
	606	SuperClassWriter::addAttribute("long_name", StdString("Maps every edge/link to two nodes that it connects."), &edge_nodes);
	607	SuperClassWriter::addAttribute("start_index", 0, &edge_nodes);
[879]	608	} // domain->nvertex == 2
[878]	609
[879]	610	// Adding faces, edges, and nodes, if edges and nodes have not been defined previously
	611	if (domain->nvertex > 2)
	612	{
	613	// Nodes
	614	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
	615	{
[924]	616	SuperClassWriter::addDimension(dimNode, domain->mesh->nbNodesGlo);
[879]	617	dim0.clear();
	618	dim0.push_back(dimNode);
[1158]	619	SuperClassWriter::addVariable(node_x, typePrec, dim0);
[879]	620	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
[924]	621	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
[879]	622	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
[1158]	623	SuperClassWriter::addVariable(node_y, typePrec, dim0);
[879]	624	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
[924]	625	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
[879]	626	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
	627	}
	628	if (!SuperClassWriter::varExist(edge_x) \|\| !SuperClassWriter::varExist(edge_y))
	629	{
	630	SuperClassWriter::addAttribute("edge_coordinates", edge_x + " " + edge_y, &domainName);
	631	SuperClassWriter::addAttribute("edge_node_connectivity", edge_nodes, &domainName);
[924]	632	SuperClassWriter::addDimension(dimEdge, domain->mesh->nbEdgesGlo);
[879]	633	dim0.clear();
	634	dim0.push_back(dimEdge);
[1158]	635	SuperClassWriter::addVariable(edge_x, typePrec, dim0);
[879]	636	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &edge_x);
[924]	637	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh edges."), &edge_x);
[879]	638	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &edge_x);
[1158]	639	SuperClassWriter::addVariable(edge_y, typePrec, dim0);
[879]	640	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &edge_y);
[924]	641	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh edges."), &edge_y);
[879]	642	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &edge_y);
	643	dim0.clear();
	644	dim0.push_back(dimEdge);
	645	dim0.push_back(dimTwo);
	646	SuperClassWriter::addVariable(edge_nodes, NC_INT, dim0);
	647	SuperClassWriter::addAttribute("cf_role", StdString("edge_node_connectivity"), &edge_nodes);
	648	SuperClassWriter::addAttribute("long_name", StdString("Maps every edge/link to two nodes that it connects."), &edge_nodes);
	649	SuperClassWriter::addAttribute("start_index", 0, &edge_nodes);
	650	}
[924]	651	SuperClassWriter::addAttribute("face_coordinates", face_x + " " + face_y, &domainName);
	652	SuperClassWriter::addAttribute("face_node_connectivity", face_nodes, &domainName);
	653	SuperClassWriter::addDimension(dimFace, domain->ni_glo);
	654	SuperClassWriter::addDimension(dimVertex, domain->nvertex);
	655	dim0.clear();
	656	dim0.push_back(dimFace);
[1158]	657	SuperClassWriter::addVariable(face_x, typePrec, dim0);
[924]	658	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &face_x);
	659	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh faces."), &face_x);
	660	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &face_x);
[1158]	661	SuperClassWriter::addVariable(face_y, typePrec, dim0);
[924]	662	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &face_y);
	663	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh faces."), &face_y);
	664	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &face_y);
	665	dim0.clear();
	666	dim0.push_back(dimFace);
	667	dim0.push_back(dimVertex);
	668	SuperClassWriter::addVariable(face_nodes, NC_INT, dim0);
	669	SuperClassWriter::addAttribute("cf_role", StdString("face_node_connectivity"), &face_nodes);
	670	SuperClassWriter::addAttribute("long_name", StdString("Maps every face to its corner nodes."), &face_nodes);
	671	SuperClassWriter::addAttribute("start_index", 0, &face_nodes);
	672	dim0.clear();
	673	dim0.push_back(dimFace);
	674	dim0.push_back(dimVertex);
	675	SuperClassWriter::addVariable(face_edges, NC_INT, dim0);
	676	SuperClassWriter::addAttribute("cf_role", StdString("face_edge_connectivity"), &face_edges);
	677	SuperClassWriter::addAttribute("long_name", StdString("Maps every face to its edges."), &face_edges);
	678	SuperClassWriter::addAttribute("start_index", 0, &face_edges);
[929]	679	SuperClassWriter::addAttribute("_FillValue", 999999, &face_edges);
[924]	680	dim0.clear();
	681	dim0.push_back(dimEdge);
	682	dim0.push_back(dimTwo);
	683	SuperClassWriter::addVariable(edge_faces, NC_INT, dim0);
	684	SuperClassWriter::addAttribute("cf_role", StdString("edge_face connectivity"), &edge_faces);
	685	SuperClassWriter::addAttribute("long_name", StdString("neighbor faces for edges"), &edge_faces);
	686	SuperClassWriter::addAttribute("start_index", 0, &edge_faces);
	687	SuperClassWriter::addAttribute("_FillValue", -999, &edge_faces);
	688	SuperClassWriter::addAttribute("comment", StdString("missing neighbor faces are indicated using _FillValue"), &edge_faces);
	689	dim0.clear();
	690	dim0.push_back(dimFace);
	691	dim0.push_back(dimVertex);
	692	SuperClassWriter::addVariable(face_faces, NC_INT, dim0);
	693	SuperClassWriter::addAttribute("cf_role", StdString("face_face connectivity"), &face_faces);
	694	SuperClassWriter::addAttribute("long_name", StdString("Indicates which other faces neighbor each face"), &face_faces);
	695	SuperClassWriter::addAttribute("start_index", 0, &face_faces);
[929]	696	SuperClassWriter::addAttribute("_FillValue", 999999, &face_faces);
[924]	697	SuperClassWriter::addAttribute("flag_values", -1, &face_faces);
	698	SuperClassWriter::addAttribute("flag_meanings", StdString("out_of_mesh"), &face_faces);
[879]	699	} // domain->nvertex > 2
[878]	700
[879]	701	SuperClassWriter::definition_end();
[878]	702
[924]	703	std::vector<StdSize> startEdges(1) ;
	704	std::vector<StdSize> countEdges(1) ;
	705	std::vector<StdSize> startNodes(1) ;
	706	std::vector<StdSize> countNodes(1) ;
	707	std::vector<StdSize> startFaces(1) ;
	708	std::vector<StdSize> countFaces(1) ;
	709	std::vector<StdSize> startEdgeNodes(2) ;
	710	std::vector<StdSize> countEdgeNodes(2) ;
	711	std::vector<StdSize> startEdgeFaces(2) ;
	712	std::vector<StdSize> countEdgeFaces(2) ;
	713	std::vector<StdSize> startFaceConctv(2) ;
	714	std::vector<StdSize> countFaceConctv(2) ;
[902]	715
[879]	716	if (!isWrittenDomain(domid))
	717	{
	718	if (domain->nvertex == 1)
	719	{
[924]	720	if (domain->isEmpty())
	721	{
	722	startNodes[0]=0 ;
	723	countNodes[0]=0 ;
	724	}
	725	else
	726	{
[1132]	727	startNodes[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	728	countNodes[0] = domain->zoom_ni ;
[924]	729	}
	730
	731	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
	732	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
[879]	733	}
	734	else if (domain->nvertex == 2)
[924]	735	{
	736	if (domain->isEmpty())
	737	{
	738	startEdges[0]=0 ;
	739	countEdges[0]=0 ;
	740	startNodes[0]=0 ;
	741	countNodes[0]=0 ;
	742	startEdgeNodes[0]=0;
	743	startEdgeNodes[1]=0;
	744	countEdgeNodes[0]=0;
	745	countEdgeNodes[1]=0;
	746
	747	}
	748	else
	749	{
[1132]	750	startEdges[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	751	countEdges[0] = domain->zoom_ni;
[924]	752	startNodes[0] = domain->mesh->node_start;
	753	countNodes[0] = domain->mesh->node_count;
[1132]	754	startEdgeNodes[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
[924]	755	startEdgeNodes[1] = 0;
[1132]	756	countEdgeNodes[0] = domain->zoom_ni;
	757	countEdgeNodes[1] = 2;
[924]	758	}
	759	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
	760	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
	761	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
	762	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
	763	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
	764	}
[879]	765	else
	766	{
[924]	767	if (domain->isEmpty())
	768	{
	769	startFaces[0] = 0 ;
	770	countFaces[0] = 0 ;
	771	startNodes[0] = 0;
	772	countNodes[0] = 0;
	773	startEdges[0] = 0;
	774	countEdges[0] = 0;
	775	startEdgeFaces[0] = 0;
	776	startEdgeFaces[1] = 0;
	777	countEdgeFaces[0] = 0;
	778	countEdgeFaces[1] = 0;
	779	startFaceConctv[0] = 0;
	780	startFaceConctv[1] = 0;
	781	countFaceConctv[0] = 0;
	782	countFaceConctv[1] = 0;
	783	}
	784	else
	785	{
[1132]	786	startFaces[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	787	countFaces[0] = domain->zoom_ni ;
[924]	788	startNodes[0] = domain->mesh->node_start;
	789	countNodes[0] = domain->mesh->node_count;
	790	startEdges[0] = domain->mesh->edge_start;
	791	countEdges[0] = domain->mesh->edge_count;
	792	startEdgeNodes[0] = domain->mesh->edge_start;
	793	startEdgeNodes[1] = 0;
	794	countEdgeNodes[0] = domain->mesh->edge_count;
	795	countEdgeNodes[1]= 2;
	796	startEdgeFaces[0] = domain->mesh->edge_start;
	797	startEdgeFaces[1]= 0;
	798	countEdgeFaces[0] = domain->mesh->edge_count;
	799	countEdgeFaces[1]= 2;
[1132]	800	startFaceConctv[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	801	startFaceConctv[1] = 0;
	802	countFaceConctv[0] = domain->zoom_ni;
[924]	803	countFaceConctv[1] = domain->nvertex;
	804	}
	805	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
	806	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
	807	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
	808	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
	809	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
	810	SuperClassWriter::writeData(domain->mesh->face_lat, face_y, isCollective, 0, &startFaces, &countFaces);
	811	SuperClassWriter::writeData(domain->mesh->face_lon, face_x, isCollective, 0, &startFaces, &countFaces);
	812	SuperClassWriter::writeData(domain->mesh->face_nodes, face_nodes, isCollective, 0, &startFaceConctv, &countFaceConctv);
	813	SuperClassWriter::writeData(domain->mesh->face_edges, face_edges, isCollective, 0, &startFaceConctv, &countFaceConctv);
	814	SuperClassWriter::writeData(domain->mesh->edge_faces, edge_faces, isCollective, 0, &startEdgeFaces, &countEdgeFaces);
	815	SuperClassWriter::writeData(domain->mesh->face_faces, face_faces, isCollective, 0, &startFaceConctv, &countFaceConctv);
[879]	816	}
	817	setWrittenDomain(domid);
	818	} // !isWrittenDomain
	819	else
	820	{
	821	if (domain->nvertex == 2)
	822	{
[1132]	823	startEdges[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	824	countEdges[0] = domain->zoom_ni;
	825	startEdgeNodes[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	826	startEdgeNodes[1] = 0;
	827	countEdgeNodes[0] = domain->zoom_ni;
[924]	828	countEdgeNodes[1]= 2;
	829	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
	830	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
	831	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
[879]	832	}
	833	if (domain->nvertex > 2)
	834	{
[924]	835
[879]	836	if (!domain->mesh->edgesAreWritten)
	837	{
[924]	838	startEdges[0] = domain->mesh->edge_start;
	839	countEdges[0] = domain->mesh->edge_count;
	840	startEdgeNodes[0] = domain->mesh->edge_start;
	841	startEdgeNodes[1] = 0;
	842	countEdgeNodes[0] = domain->mesh->edge_count;
	843	countEdgeNodes[1]= 2;
	844	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
	845	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
	846	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
[879]	847	}
[1132]	848	startFaces[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	849	countFaces[0] = domain->zoom_ni;
[924]	850	startEdgeFaces[0] = domain->mesh->edge_start;
	851	startEdgeFaces[1]= 0;
	852	countEdgeFaces[0] = domain->mesh->edge_count;
	853	countEdgeFaces[1]= 2;
[1132]	854	startFaceConctv[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	855	startFaceConctv[1] = 0;
	856	countFaceConctv[0] = domain->zoom_ni;
	857	countFaceConctv[1] = domain->nvertex;
[924]	858	SuperClassWriter::writeData(domain->mesh->face_lat, face_y, isCollective, 0, &startFaces, &countFaces);
	859	SuperClassWriter::writeData(domain->mesh->face_lon, face_x, isCollective, 0, &startFaces, &countFaces);
	860	SuperClassWriter::writeData(domain->mesh->face_nodes, face_nodes, isCollective, 0, &startFaceConctv, &countFaceConctv);
	861	SuperClassWriter::writeData(domain->mesh->face_edges, face_edges, isCollective, 0, &startFaceConctv, &countFaceConctv);
	862	SuperClassWriter::writeData(domain->mesh->edge_faces, edge_faces, isCollective, 0, &startEdgeFaces, &countEdgeFaces);
	863	SuperClassWriter::writeData(domain->mesh->face_faces, face_faces, isCollective, 0, &startFaceConctv, &countFaceConctv);
[879]	864	}
	865	}// isWrittenDomain
[878]	866
[879]	867	SuperClassWriter::definition_start();
[878]	868
[879]	869	break;
	870	} // ONE_FILE
[878]	871
[879]	872	case (MULTI_FILE) :
	873	{
	874	break;
	875	}
[878]	876
[879]	877	default :
	878	ERROR("CNc4DataOutput::writeDomain(domain)",
	879	<< "[ type = " << SuperClass::type << "]"
	880	<< " not implemented yet !");
	881	} // switch
	882	} // try
[878]	883
[879]	884	catch (CNetCdfException& e)
	885	{
	886	StdString msg("On writing the domain : ");
	887	msg.append(domid); msg.append("\n");
	888	msg.append("In the context : ");
	889	msg.append(context->getId()); msg.append("\n");
	890	msg.append(e.what());
[924]	891	ERROR("CNc4DataOutput::writeUnstructuredDomainUgrid(CDomain* domain)", << msg);
[879]	892	}
[878]	893
[879]	894	domain->addRelFile(this->filename);
	895	}
[878]	896
[879]	897	//--------------------------------------------------------------
[878]	898
[879]	899	void CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)
[449]	900	{
	901	CContext* context = CContext::getCurrent() ;
	902	CContextServer* server=context->server ;
[488]	903
[449]	904	if (domain->IsWritten(this->filename)) return;
	905	domain->checkAttributes();
[488]	906
	907	if (domain->isEmpty())
[449]	908	if (SuperClass::type==MULTI_FILE) return ;
	909
	910	std::vector<StdString> dim0, dim1;
[772]	911	StdString domid = domain->getDomainOutputName();
[705]	912	if (isWrittenDomain(domid)) return ;
[774]	913	else setWrittenDomain(domid);
[705]	914
[449]	915	StdString appendDomid = (singleDomain) ? "" : "_"+domid ;
	916
	917	StdString dimXid = StdString("cell").append(appendDomid);
	918	StdString dimVertId = StdString("nvertex").append(appendDomid);
[488]	919
[449]	920	string lonid,latid,bounds_lonid,bounds_latid ;
[611]	921	string areaId = "area" + appendDomid;
[449]	922
[1158]	923	nc_type typePrec ;
	924	if (domain->prec.isEmpty()) typePrec = NC_FLOAT ;
	925	else if (domain->prec==4) typePrec = NC_FLOAT ;
	926	else if (domain->prec==8) typePrec = NC_DOUBLE ;
	927
[1132]	928	int nvertex = (domain->nvertex.isEmpty()) ? 0 : domain->nvertex;
[1025]	929
[1132]	930	CArray<size_t, 1>& indexToWrite = domain->localIndexToWriteOnServer;
	931	int nbWritten = indexToWrite.numElements();
	932	CArray<double,1> writtenLat, writtenLon;
	933	CArray<double,2> writtenBndsLat, writtenBndsLon;
	934	CArray<double,1> writtenArea;
	935
	936	if (domain->hasLonLat)
	937	{
	938	writtenLat.resize(nbWritten);
	939	writtenLon.resize(nbWritten);
	940	for (int idx = 0; idx < nbWritten; ++idx)
	941	{
	942	writtenLat(idx) = domain->latvalue(indexToWrite(idx));
	943	writtenLon(idx) = domain->lonvalue(indexToWrite(idx));
	944	}
	945
	946
	947	if (domain->hasBounds)
	948	{
	949	int nvertex = domain->nvertex, idx;
	950	writtenBndsLat.resize(nvertex, nbWritten);
	951	writtenBndsLon.resize(nvertex, nbWritten);
	952	CArray<double,2>& boundslat = domain->bounds_latvalue;
	953	CArray<double,2>& boundslon = domain->bounds_lonvalue;
	954	for (idx = 0; idx < nbWritten; ++idx)
	955	for (int nv = 0; nv < nvertex; ++nv)
	956	{
	957	writtenBndsLat(nv, idx) = boundslat(nv, int(indexToWrite(idx)));
	958	writtenBndsLon(nv, idx) = boundslon(nv, int(indexToWrite(idx)));
	959	}
	960	}
	961	}
	962
	963	if (domain->hasArea)
	964	{
	965	writtenArea.resize(nbWritten);
	966	for (int idx = 0; idx < nbWritten; ++idx)
	967	{
	968	writtenArea(idx) = domain->areavalue(indexToWrite(idx));
	969	}
	970	}
	971
[498]	972	try
[449]	973	{
[498]	974	switch (SuperClass::type)
	975	{
	976	case (MULTI_FILE) :
	977	{
	978	dim0.push_back(dimXid);
[1132]	979	SuperClassWriter::addDimension(dimXid, domain->zoom_ni);
[488]	980
[665]	981	lonid = StdString("lon").append(appendDomid);
	982	latid = StdString("lat").append(appendDomid);
[498]	983	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	984	bounds_latid = StdString("bounds_lat").append(appendDomid);
[665]	985	if (domain->hasLonLat)
	986	{
[1158]	987	SuperClassWriter::addVariable(latid, typePrec, dim0);
	988	SuperClassWriter::addVariable(lonid, typePrec, dim0);
[665]	989	this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid);
	990	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid);
	991	this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid);
	992	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid);
	993	if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	994	}
[498]	995	dim0.clear();
	996	if (domain->hasBounds)
	997	{
	998	dim0.push_back(dimXid);
	999	dim0.push_back(dimVertId);
[1158]	1000	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0);
	1001	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0);
[498]	1002	}
	1003
	1004	dim0.clear();
[449]	1005	dim0.push_back(dimXid);
[611]	1006	if (domain->hasArea)
	1007	{
[1158]	1008	SuperClassWriter::addVariable(areaId, typePrec, dim0);
[614]	1009	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	1010	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	1011	}
	1012
[498]	1013	SuperClassWriter::definition_end();
[449]	1014
[665]	1015	if (domain->hasLonLat)
[498]	1016	{
[1132]	1017	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0);
	1018	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0);
[665]	1019	if (domain->hasBounds)
	1020	{
[1132]	1021	SuperClassWriter::writeData(writtenBndsLon, bounds_lonid, isCollective, 0);
	1022	SuperClassWriter::writeData(writtenBndsLat, bounds_latid, isCollective, 0);
[665]	1023	}
[498]	1024	}
[611]	1025
	1026	if (domain->hasArea)
[1132]	1027	SuperClassWriter::writeData(writtenArea, areaId, isCollective, 0);
[611]	1028
[498]	1029	SuperClassWriter::definition_start();
	1030	break ;
	1031	}
[488]	1032
[498]	1033	case (ONE_FILE) :
	1034	{
	1035	lonid = StdString("lon").append(appendDomid);
	1036	latid = StdString("lat").append(appendDomid);
	1037	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	1038	bounds_latid = StdString("bounds_lat").append(appendDomid);
	1039	dim0.push_back(dimXid);
[1132]	1040	SuperClassWriter::addDimension(dimXid, domain->ni_glo);
[665]	1041	if (domain->hasLonLat)
	1042	{
[1158]	1043	SuperClassWriter::addVariable(latid, typePrec, dim0);
	1044	SuperClassWriter::addVariable(lonid, typePrec, dim0);
[665]	1045
	1046	this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid);
	1047	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid);
	1048	this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid);
	1049	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid);
[1025]	1050	if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, nvertex);
[665]	1051	}
[498]	1052	dim0.clear();
[449]	1053
[498]	1054	if (domain->hasBounds)
	1055	{
	1056	dim0.push_back(dimXid);
	1057	dim0.push_back(dimVertId);
[1158]	1058	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0);
	1059	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0);
[498]	1060	}
[488]	1061
[611]	1062	if (domain->hasArea)
	1063	{
	1064	dim0.clear();
	1065	dim0.push_back(dimXid);
[1158]	1066	SuperClassWriter::addVariable(areaId, typePrec, dim0);
[614]	1067	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	1068	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	1069	}
	1070
[498]	1071	SuperClassWriter::definition_end();
[488]	1072
[498]	1073	std::vector<StdSize> start(1), startBounds(2) ;
	1074	std::vector<StdSize> count(1), countBounds(2) ;
	1075	if (domain->isEmpty())
	1076	{
	1077	start[0]=0 ;
	1078	count[0]=0 ;
	1079	startBounds[1]=0 ;
[1025]	1080	countBounds[1]=nvertex ;
[498]	1081	startBounds[0]=0 ;
	1082	countBounds[0]=0 ;
	1083	}
	1084	else
	1085	{
[1132]	1086	start[0]=domain->zoom_ibegin - domain->global_zoom_ibegin;
	1087	count[0]=domain->zoom_ni;
	1088	startBounds[0]=domain->zoom_ibegin-domain->global_zoom_ibegin;
[498]	1089	startBounds[1]=0 ;
[1132]	1090	countBounds[0]=domain->zoom_ni;
[1025]	1091	countBounds[1]=nvertex ;
[498]	1092	}
[665]	1093
	1094	if (domain->hasLonLat)
[498]	1095	{
[1132]	1096	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0,&start,&count);
	1097	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0,&start,&count);
[665]	1098	if (domain->hasBounds)
	1099	{
[1132]	1100	SuperClassWriter::writeData(writtenBndsLon, bounds_lonid, isCollective, 0,&startBounds,&countBounds);
	1101	SuperClassWriter::writeData(writtenBndsLat, bounds_latid, isCollective, 0,&startBounds,&countBounds);
[665]	1102	}
[498]	1103	}
[488]	1104
[611]	1105	if (domain->hasArea)
[1132]	1106	SuperClassWriter::writeData(writtenArea, areaId, isCollective, 0, &start, &count);
[488]	1107
[498]	1108	SuperClassWriter::definition_start();
[488]	1109
[498]	1110	break;
	1111	}
	1112	default :
	1113	ERROR("CNc4DataOutput::writeDomain(domain)",
	1114	<< "[ type = " << SuperClass::type << "]"
	1115	<< " not implemented yet !");
	1116	}
[219]	1117	}
[498]	1118	catch (CNetCdfException& e)
	1119	{
	1120	StdString msg("On writing the domain : ");
	1121	msg.append(domid); msg.append("\n");
	1122	msg.append("In the context : ");
	1123	msg.append(context->getId()); msg.append("\n");
	1124	msg.append(e.what());
	1125	ERROR("CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)", << msg);
	1126	}
[219]	1127	domain->addRelFile(this->filename);
	1128	}
	1129	//--------------------------------------------------------------
	1130
[347]	1131	void CNc4DataOutput::writeAxis_(CAxis* axis)
[219]	1132	{
[1030]	1133	if (axis->IsWritten(this->filename)) return;
	1134	axis->checkAttributes();
[488]	1135
[1129]	1136	axis->computeWrittenIndex();
[1249]	1137	axis->computeWrittenCompressedIndex(comm_file);
[1129]	1138
[1099]	1139	int zoom_size = (MULTI_FILE == SuperClass::type) ? axis->zoom_n
	1140	: axis->global_zoom_n;
	1141
[1235]	1142	int zoom_count = axis->zoom_n;
	1143	int zoom_begin = axis->zoom_begin;
	1144	// int zoom_begin = (MULTI_FILE == SuperClass::type) ? axis->global_zoom_begin
	1145	// : axis->zoom_begin;
	1146
[1099]	1147	if ((0 == axis->zoom_n) && (MULTI_FILE == SuperClass::type)) return;
	1148
[1030]	1149	std::vector<StdString> dims;
	1150	StdString axisid = axis->getAxisOutputName();
	1151	if (isWrittenAxis(axisid)) return ;
	1152	else setWrittenAxis(axisid);
[705]	1153
[1158]	1154	nc_type typePrec ;
	1155	if (axis->prec.isEmpty()) typePrec = NC_FLOAT ;
[1235]	1156	else if (axis->prec==4) typePrec = NC_FLOAT ;
[1158]	1157	else if (axis->prec==8) typePrec = NC_DOUBLE ;
	1158
	1159	if (!axis->label.isEmpty()) typePrec = NC_CHAR ;
	1160	string strId="str_len" ;
[1030]	1161	try
	1162	{
[1099]	1163	SuperClassWriter::addDimension(axisid, zoom_size);
[1158]	1164	if (!axis->label.isEmpty()) SuperClassWriter::addDimension(strId, stringArrayLen);
[1030]	1165	if (axis->hasValue)
[816]	1166	{
[1030]	1167	dims.push_back(axisid);
[1158]	1168	if (!axis->label.isEmpty()) dims.push_back(strId);
	1169	SuperClassWriter::addVariable(axisid, typePrec, dims);
[219]	1170
[1030]	1171	if (!axis->name.isEmpty())
	1172	SuperClassWriter::addAttribute("name", axis->name.getValue(), &axisid);
[219]	1173
[1030]	1174	if (!axis->standard_name.isEmpty())
	1175	SuperClassWriter::addAttribute("standard_name", axis->standard_name.getValue(), &axisid);
[540]	1176
[1030]	1177	if (!axis->long_name.isEmpty())
	1178	SuperClassWriter::addAttribute("long_name", axis->long_name.getValue(), &axisid);
[219]	1179
[1030]	1180	if (!axis->unit.isEmpty())
	1181	SuperClassWriter::addAttribute("units", axis->unit.getValue(), &axisid);
[219]	1182
[1030]	1183	if (!axis->positive.isEmpty())
	1184	{
	1185	SuperClassWriter::addAttribute("axis", string("Z"), &axisid);
	1186	SuperClassWriter::addAttribute("positive",
	1187	(axis->positive == CAxis::positive_attr::up) ? string("up") : string("down"),
	1188	&axisid);
	1189	}
[399]	1190
[1266]	1191	if (!axis->formula.isEmpty())
	1192	SuperClassWriter::addAttribute("formula", axis->formula.getValue(), &axisid);
	1193
	1194	if (!axis->formula_term.isEmpty())
	1195	SuperClassWriter::addAttribute("formula_term", axis->formula_term.getValue(), &axisid);
	1196
[1030]	1197	StdString axisBoundsId = axisid + "_bounds";
[1249]	1198	if (!axis->bounds.isEmpty() && axis->label.isEmpty())
[1030]	1199	{
	1200	dims.push_back("axis_nbounds");
[1158]	1201	SuperClassWriter::addVariable(axisBoundsId, typePrec, dims);
[1030]	1202	SuperClassWriter::addAttribute("bounds", axisBoundsId, &axisid);
[1288]	1203
	1204	if (!axis->standard_name.isEmpty())
	1205	SuperClassWriter::addAttribute("standard_name", axis->standard_name.getValue(), &axisBoundsId);
	1206
	1207	if (!axis->unit.isEmpty())
	1208	SuperClassWriter::addAttribute("units", axis->unit.getValue(), &axisBoundsId);
	1209
[1266]	1210	if (!axis->formula_bounds.isEmpty())
[1288]	1211	SuperClassWriter::addAttribute("formula", axis->formula_bounds.getValue(), &axisBoundsId);
[1266]	1212
	1213	if (!axis->formula_term_bounds.isEmpty())
[1288]	1214	SuperClassWriter::addAttribute("formula_term", axis->formula_term_bounds.getValue(), &axisBoundsId);
[1030]	1215	}
[488]	1216
[1266]	1217
[1030]	1218	SuperClassWriter::definition_end();
[816]	1219
[1129]	1220	CArray<size_t, 1>& indexToWrite = axis->localIndexToWriteOnServer;
	1221	int nbWritten = indexToWrite.numElements();
	1222	CArray<double,1> axis_value(indexToWrite.numElements());
	1223	for (int i = 0; i < nbWritten; i++) axis_value(i) = axis->value(indexToWrite(i));
	1224	CArray<double,2> axis_bounds;
[1235]	1225	CArray<string,1> axis_label;
	1226	if (!axis->label.isEmpty())
	1227	{
	1228	axis_label.resize(indexToWrite.numElements());
	1229	for (int i = 0; i < nbWritten; i++) axis_label(i) = axis->label(indexToWrite(i));
	1230	}
[1129]	1231
[1030]	1232	switch (SuperClass::type)
	1233	{
	1234	case MULTI_FILE:
[816]	1235	{
[1235]	1236	if (axis->label.isEmpty())
	1237	SuperClassWriter::writeData(axis_value, axisid, isCollective, 0);
[633]	1238
[1158]	1239	if (!axis->bounds.isEmpty() && axis->label.isEmpty())
[1030]	1240	SuperClassWriter::writeData(axis->bounds, axisBoundsId, isCollective, 0);
[488]	1241
[1158]	1242	// Need to check after
[1235]	1243	if (!axis->label.isEmpty())
	1244	SuperClassWriter::writeData(axis_label, axisid, isCollective, 0);
[1158]	1245
[1030]	1246	SuperClassWriter::definition_start();
	1247	break;
	1248	}
	1249	case ONE_FILE:
	1250	{
	1251	std::vector<StdSize> start(1), startBounds(2) ;
	1252	std::vector<StdSize> count(1), countBounds(2) ;
[1099]	1253	start[0] = startBounds[0] = zoom_begin - axis->global_zoom_begin;
[1235]	1254	count[0] = countBounds[0] = zoom_count; // zoom_size
[1030]	1255	startBounds[1] = 0;
	1256	countBounds[1] = 2;
[633]	1257
[1235]	1258	if (axis->label.isEmpty())
	1259	SuperClassWriter::writeData(axis_value, axisid, isCollective, 0, &start, &count);
	1260
	1261	if (!axis->bounds.isEmpty() && axis->label.isEmpty())
[1129]	1262	{
	1263	axis_bounds.resize(2, indexToWrite.numElements());
	1264	for (int i = 0; i < nbWritten; ++i)
	1265	{
	1266	axis_bounds(0, i) = axis->bounds(0, int(indexToWrite(i)));
	1267	axis_bounds(1, i) = axis->bounds(1, int(indexToWrite(i)));
	1268	}
[1030]	1269	SuperClassWriter::writeData(axis->bounds, axisBoundsId, isCollective, 0, &startBounds, &countBounds);
[1129]	1270	}
[609]	1271
[1158]	1272	// Need to check after
[1235]	1273	if (!axis->label.isEmpty())
	1274	{
	1275	std::vector<StdSize> startLabel(2), countLabel(2);
	1276	startLabel[0] = start[0]; startLabel[1] = 0;
	1277	countLabel[0] = count[0]; countLabel[1] = stringArrayLen;
	1278	SuperClassWriter::writeData(axis_label, axisid, isCollective, 0, &startLabel, &countLabel);
	1279	}
[1158]	1280
[1030]	1281	SuperClassWriter::definition_start();
[609]	1282
[1030]	1283	break;
[816]	1284	}
[1030]	1285	default :
	1286	ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)",
	1287	<< "[ type = " << SuperClass::type << "]"
	1288	<< " not implemented yet !");
[609]	1289	}
	1290	}
[1030]	1291	}
	1292	catch (CNetCdfException& e)
	1293	{
	1294	StdString msg("On writing the axis : ");
	1295	msg.append(axisid); msg.append("\n");
	1296	msg.append("In the context : ");
	1297	CContext* context = CContext::getCurrent() ;
	1298	msg.append(context->getId()); msg.append("\n");
	1299	msg.append(e.what());
	1300	ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)", << msg);
	1301	}
[1158]	1302	axis->addRelFile(this->filename);
[391]	1303	}
[488]	1304
[887]	1305	void CNc4DataOutput::writeScalar_(CScalar* scalar)
	1306	{
	1307	if (scalar->IsWritten(this->filename)) return;
	1308	scalar->checkAttributes();
	1309	int scalarSize = 1;
	1310
	1311	StdString scalaId = scalar->getScalarOutputName();
	1312	if (isWrittenAxis(scalaId)) return ;
	1313	else setWrittenAxis(scalaId);
	1314
[1158]	1315	nc_type typePrec ;
	1316	if (scalar->prec.isEmpty()) typePrec = NC_FLOAT ;
	1317	else if (scalar->prec==4) typePrec = NC_FLOAT ;
	1318	else if (scalar->prec==8) typePrec = NC_DOUBLE ;
	1319
	1320
[887]	1321	try
	1322	{
	1323	if (!scalar->value.isEmpty())
	1324	{
	1325	// dims.push_back(scalaId);
	1326	std::vector<StdString> dims;
[1158]	1327	SuperClassWriter::addVariable(scalaId, typePrec, dims);
[887]	1328
	1329	if (!scalar->name.isEmpty())
	1330	SuperClassWriter::addAttribute("name", scalar->name.getValue(), &scalaId);
	1331
	1332	if (!scalar->standard_name.isEmpty())
	1333	SuperClassWriter::addAttribute("standard_name", scalar->standard_name.getValue(), &scalaId);
	1334
	1335	if (!scalar->long_name.isEmpty())
	1336	SuperClassWriter::addAttribute("long_name", scalar->long_name.getValue(), &scalaId);
	1337
	1338	if (!scalar->unit.isEmpty())
	1339	SuperClassWriter::addAttribute("units", scalar->unit.getValue(), &scalaId);
	1340
	1341	SuperClassWriter::definition_end();
	1342
	1343	switch (SuperClass::type)
	1344	{
	1345	case MULTI_FILE:
	1346	{
	1347	CArray<double,1> scalarValue(scalarSize);
	1348	scalarValue(0) = scalar->value;
	1349	SuperClassWriter::writeData(scalarValue, scalaId, isCollective, 0);
	1350	SuperClassWriter::definition_start();
	1351
	1352	break;
	1353	}
	1354	case ONE_FILE:
	1355	{
	1356	CArray<double,1> scalarValue(scalarSize);
	1357	scalarValue(0) = scalar->value;
	1358
	1359	std::vector<StdSize> start(1);
	1360	std::vector<StdSize> count(1);
	1361	start[0] = 0;
	1362	count[0] = 1;
	1363	SuperClassWriter::writeData(scalarValue, scalaId, isCollective, 0, &start, &count);
	1364	SuperClassWriter::definition_start();
	1365
	1366	break;
	1367	}
	1368	default :
	1369	ERROR("CNc4DataOutput::writeAxis_(CAxis* scalar)",
	1370	<< "[ type = " << SuperClass::type << "]"
	1371	<< " not implemented yet !");
	1372	}
	1373	}
	1374	}
	1375	catch (CNetCdfException& e)
	1376	{
	1377	StdString msg("On writing the scalar : ");
	1378	msg.append(scalaId); msg.append("\n");
	1379	msg.append("In the context : ");
	1380	CContext* context = CContext::getCurrent() ;
	1381	msg.append(context->getId()); msg.append("\n");
	1382	msg.append(e.what());
	1383	ERROR("CNc4DataOutput::writeScalar_(CScalar* scalar)", << msg);
	1384	}
	1385	scalar->addRelFile(this->filename);
	1386	}
	1387
[676]	1388	//--------------------------------------------------------------
	1389
	1390	void CNc4DataOutput::writeGridCompressed_(CGrid* grid)
	1391	{
	1392	if (grid->isScalarGrid() \|\| grid->isWrittenCompressed(this->filename)) return;
	1393
	1394	try
	1395	{
[887]	1396	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
[676]	1397	std::vector<StdString> domainList = grid->getDomainList();
	1398	std::vector<StdString> axisList = grid->getAxisList();
[887]	1399	std::vector<StdString> scalarList = grid->getScalarList();
	1400	int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0, idxScalar = 0;
[676]	1401
	1402	std::vector<StdString> dims;
	1403
	1404	if (grid->isCompressible())
	1405	{
	1406	StdString varId = grid->getId() + "_points";
	1407
	1408	int nbIndexes = (SuperClass::type == MULTI_FILE) ? grid->getNumberWrittenIndexes() : grid->getTotalNumberWrittenIndexes();
	1409	SuperClassWriter::addDimension(varId, nbIndexes);
	1410
	1411	dims.push_back(varId);
	1412	SuperClassWriter::addVariable(varId, NC_INT, dims);
	1413
	1414	StdOStringStream compress;
	1415	for (int i = numElement - 1; i >= 0; --i)
	1416	{
[887]	1417	if (2 == axisDomainOrder(i))
[676]	1418	{
	1419	CDomain* domain = CDomain::get(domainList[domainList.size() - idxDomain - 1]);
[772]	1420	StdString domId = domain->getDomainOutputName();
[676]	1421	StdString appendDomId = singleDomain ? "" : "_" + domId;
	1422
	1423	switch (domain->type)
	1424	{
	1425	case CDomain::type_attr::curvilinear:
	1426	compress << "y" << appendDomId << " x" << appendDomId;
	1427	break;
	1428	case CDomain::type_attr::rectilinear:
	1429	compress << "lat" << appendDomId << " lon" << appendDomId;
	1430	break;
	1431	case CDomain::type_attr::unstructured:
	1432	compress << "cell" << appendDomId;
	1433	break;
	1434	}
	1435	++idxDomain;
	1436	}
[887]	1437	else if (1 == axisDomainOrder(i))
[676]	1438	{
	1439	CAxis* axis = CAxis::get(axisList[axisList.size() - idxAxis - 1]);
[772]	1440	compress << axis->getAxisOutputName();
[676]	1441	++idxAxis;
	1442	}
[887]	1443	else
	1444	{
	1445	CScalar* scalar = CScalar::get(scalarList[scalarList.size() - idxScalar - 1]);
	1446	compress << scalar->getScalarOutputName();
	1447	++idxScalar;
	1448	}
[676]	1449
	1450	if (i != 0) compress << ' ';
	1451	}
[1144]	1452	SuperClassWriter::addAttribute("compress", compress.str(), &varId);
[676]	1453
	1454	CArray<int, 1> indexes(grid->getNumberWrittenIndexes());
[1143]	1455	indexes = grid->localIndexToWriteOnServer;
[676]	1456
	1457	switch (SuperClass::type)
	1458	{
	1459	case (MULTI_FILE):
	1460	{
	1461	SuperClassWriter::writeData(indexes, varId, isCollective, 0);
	1462	break;
	1463	}
	1464	case (ONE_FILE):
	1465	{
	1466	if (grid->doGridHaveDataDistributed())
	1467	grid->getDistributionServer()->computeGlobalIndex(indexes);
	1468
	1469	std::vector<StdSize> start, count;
	1470	start.push_back(grid->getOffsetWrittenIndexes());
	1471	count.push_back(grid->getNumberWrittenIndexes());
	1472
	1473	SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count);
	1474	break;
	1475	}
	1476	}
	1477	}
	1478	else
	1479	{
	1480	for (int i = 0; i < numElement; ++i)
	1481	{
	1482	StdString varId, compress;
	1483	CArray<int, 1> indexes;
	1484	bool isDistributed;
	1485	StdSize nbIndexes, totalNbIndexes, offset;
	1486	int firstGlobalIndex;
	1487
[887]	1488	if (2 == axisDomainOrder(i))
[676]	1489	{
	1490	CDomain* domain = CDomain::get(domainList[idxDomain]);
[774]	1491	StdString domId = domain->getDomainOutputName();
	1492
[676]	1493	if (!domain->isCompressible()
	1494	\|\| domain->type == CDomain::type_attr::unstructured
[774]	1495	\|\| domain->isWrittenCompressed(this->filename)
	1496	\|\| isWrittenCompressedDomain(domId))
[676]	1497	continue;
	1498
	1499	StdString appendDomId = singleDomain ? "" : "_" + domId;
	1500
	1501	varId = domId + "_points";
	1502	switch (domain->type)
	1503	{
	1504	case CDomain::type_attr::curvilinear:
	1505	compress = "y" + appendDomId + " x" + appendDomId;
	1506	break;
	1507	case CDomain::type_attr::rectilinear:
	1508	compress = "lat" + appendDomId + " lon" + appendDomId;
	1509	break;
	1510	}
	1511
[1249]	1512	// indexes.resize(domain->compressedIndexToWriteOnServer[comm_file].numElements());
	1513	// indexes = domain->compressedIndexToWriteOnServer[com_file];
	1514	indexes.resize(domain->getCompressedIndexToWriteOnServer(comm_file).numElements());
	1515	indexes = domain->getCompressedIndexToWriteOnServer(comm_file);
[1143]	1516
[676]	1517	isDistributed = domain->isDistributed();
[1249]	1518	nbIndexes = domain->getNumberWrittenIndexes(comm_file);
	1519	totalNbIndexes = domain->getTotalNumberWrittenIndexes(comm_file);
	1520	offset = domain->getOffsetWrittenIndexes(comm_file);
[676]	1521	firstGlobalIndex = domain->ibegin + domain->jbegin * domain->ni_glo;
	1522
	1523	domain->addRelFileCompressed(this->filename);
[774]	1524	setWrittenCompressedDomain(domId);
[676]	1525	++idxDomain;
	1526	}
[887]	1527	else if (1 == axisDomainOrder(i))
[676]	1528	{
	1529	CAxis* axis = CAxis::get(axisList[idxAxis]);
[774]	1530	StdString axisId = axis->getAxisOutputName();
	1531
	1532	if (!axis->isCompressible()
	1533	\|\| axis->isWrittenCompressed(this->filename)
	1534	\|\| isWrittenCompressedAxis(axisId))
[676]	1535	continue;
	1536
	1537	varId = axisId + "_points";
	1538	compress = axisId;
	1539
[1249]	1540	// indexes.resize(axis->compressedIndexToWriteOnServer.numElements());
	1541	// indexes = axis->compressedIndexToWriteOnServer;
[1143]	1542
[1249]	1543	indexes.resize(axis->getCompressedIndexToWriteOnServer(comm_file).numElements());
	1544	indexes = axis->getCompressedIndexToWriteOnServer(comm_file);
	1545
[676]	1546	isDistributed = axis->isDistributed();
[1249]	1547	nbIndexes = axis->getNumberWrittenIndexes(comm_file);
	1548	totalNbIndexes = axis->getTotalNumberWrittenIndexes(comm_file);
	1549	offset = axis->getOffsetWrittenIndexes(comm_file);
[676]	1550	firstGlobalIndex = axis->begin;
	1551
	1552	axis->addRelFileCompressed(this->filename);
[774]	1553	setWrittenCompressedAxis(axisId);
[676]	1554	++idxAxis;
	1555	}
[887]	1556	else
	1557	{
	1558	}
[676]	1559
	1560	if (!varId.empty())
	1561	{
	1562	SuperClassWriter::addDimension(varId, (SuperClass::type == MULTI_FILE) ? nbIndexes : totalNbIndexes);
	1563
	1564	dims.clear();
	1565	dims.push_back(varId);
	1566	SuperClassWriter::addVariable(varId, NC_INT, dims);
	1567
	1568	SuperClassWriter::addAttribute("compress", compress, &varId);
	1569
	1570	switch (SuperClass::type)
	1571	{
	1572	case (MULTI_FILE):
	1573	{
	1574	indexes -= firstGlobalIndex;
	1575	SuperClassWriter::writeData(indexes, varId, isCollective, 0);
	1576	break;
	1577	}
	1578	case (ONE_FILE):
	1579	{
	1580	std::vector<StdSize> start, count;
	1581	start.push_back(offset);
	1582	count.push_back(nbIndexes);
	1583
	1584	SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count);
	1585	break;
	1586	}
	1587	}
	1588	}
[1144]	1589	}
[676]	1590	}
	1591
	1592	grid->addRelFileCompressed(this->filename);
	1593	}
	1594	catch (CNetCdfException& e)
	1595	{
	1596	StdString msg("On writing compressed grid : ");
	1597	msg.append(grid->getId()); msg.append("\n");
	1598	msg.append("In the context : ");
	1599	CContext* context = CContext::getCurrent();
	1600	msg.append(context->getId()); msg.append("\n");
	1601	msg.append(e.what());
	1602	ERROR("CNc4DataOutput::writeGridCompressed_(CGrid* grid)", << msg);
	1603	}
	1604	}
	1605
	1606	//--------------------------------------------------------------
	1607
[391]	1608	void CNc4DataOutput::writeTimeDimension_(void)
	1609	{
[498]	1610	try
	1611	{
[802]	1612	SuperClassWriter::addDimension(getTimeCounterName());
[498]	1613	}
	1614	catch (CNetCdfException& e)
	1615	{
[614]	1616	StdString msg("On writing time dimension : time_couter\n");
[498]	1617	msg.append("In the context : ");
	1618	CContext* context = CContext::getCurrent() ;
	1619	msg.append(context->getId()); msg.append("\n");
	1620	msg.append(e.what());
	1621	ERROR("CNc4DataOutput::writeTimeDimension_(void)", << msg);
	1622	}
[391]	1623	}
[676]	1624
[219]	1625	//--------------------------------------------------------------
	1626
[347]	1627	void CNc4DataOutput::writeField_(CField* field)
[219]	1628	{
[1158]	1629	CContext* context = CContext::getCurrent() ;
	1630	CContextServer* server=context->server ;
[300]	1631
[1158]	1632	std::vector<StdString> dims, coodinates;
	1633	CGrid* grid = field->grid;
	1634	if (!grid->doGridHaveDataToWrite())
[567]	1635	if (SuperClass::type==MULTI_FILE) return ;
[488]	1636
[1158]	1637	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
	1638	int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0, idxScalar = 0;
	1639	std::vector<StdString> domainList = grid->getDomainList();
	1640	std::vector<StdString> axisList = grid->getAxisList();
	1641	std::vector<StdString> scalarList = grid->getScalarList();
[219]	1642
[1158]	1643	StdString timeid = getTimeCounterName();
	1644	StdString dimXid,dimYid;
	1645	std::deque<StdString> dimIdList, dimCoordList;
	1646	bool hasArea = false;
	1647	StdString cellMeasures = "area:";
	1648	bool compressedOutput = !field->indexed_output.isEmpty() && field->indexed_output;
[488]	1649
[1158]	1650	for (int i = 0; i < numElement; ++i)
	1651	{
	1652	if (2 == axisDomainOrder(i))
	1653	{
	1654	CDomain* domain = CDomain::get(domainList[idxDomain]);
	1655	StdString domId = domain->getDomainOutputName();
	1656	StdString appendDomId = singleDomain ? "" : "_" + domId ;
[676]	1657
[1158]	1658	if (compressedOutput && domain->isCompressible() && domain->type != CDomain::type_attr::unstructured)
	1659	{
	1660	dimIdList.push_back(domId + "_points");
	1661	field->setUseCompressedOutput();
	1662	}
[676]	1663
[1158]	1664	switch (domain->type)
[879]	1665	{
[1158]	1666	case CDomain::type_attr::curvilinear:
	1667	if (!compressedOutput \|\| !domain->isCompressible())
	1668	{
	1669	dimXid = StdString("x").append(appendDomId);
	1670	dimIdList.push_back(dimXid);
	1671	dimYid = StdString("y").append(appendDomId);
	1672	dimIdList.push_back(dimYid);
	1673	}
	1674	dimCoordList.push_back(StdString("nav_lon").append(appendDomId));
	1675	dimCoordList.push_back(StdString("nav_lat").append(appendDomId));
	1676	break ;
	1677	case CDomain::type_attr::rectilinear:
	1678	if (!compressedOutput \|\| !domain->isCompressible())
	1679	{
	1680	dimXid = StdString("lon").append(appendDomId);
	1681	dimIdList.push_back(dimXid);
	1682	dimYid = StdString("lat").append(appendDomId);
	1683	dimIdList.push_back(dimYid);
	1684	}
	1685	break ;
	1686	case CDomain::type_attr::unstructured:
	1687	{
	1688	if (SuperClassWriter::useCFConvention)
	1689	{
	1690	dimXid = StdString("cell").append(appendDomId);
	1691	dimIdList.push_back(dimXid);
	1692	dimCoordList.push_back(StdString("lon").append(appendDomId));
	1693	dimCoordList.push_back(StdString("lat").append(appendDomId));
	1694	}
	1695	else
	1696	{
	1697	StdString domainName = domain->name;
	1698	if (domain->nvertex == 1)
	1699	{
	1700	dimXid = "n" + domainName + "_node";
	1701	dimIdList.push_back(dimXid);
	1702	dimCoordList.push_back(StdString(domainName + "_node_x"));
	1703	dimCoordList.push_back(StdString(domainName + "_node_y"));
	1704	}
	1705	else if (domain->nvertex == 2)
	1706	{
	1707	dimXid = "n" + domainName + "_edge";
	1708	dimIdList.push_back(dimXid);
	1709	dimCoordList.push_back(StdString(domainName + "_edge_x"));
	1710	dimCoordList.push_back(StdString(domainName + "_edge_y"));
	1711	}
	1712	else
	1713	{
	1714	dimXid = "n" + domainName + "_face";
	1715	dimIdList.push_back(dimXid);
	1716	dimCoordList.push_back(StdString(domainName + "_face_x"));
	1717	dimCoordList.push_back(StdString(domainName + "_face_y"));
	1718	}
	1719	} // ugrid convention
	1720	} // case unstructured domain
[879]	1721	}
[1158]	1722
	1723	if (domain->hasArea)
[879]	1724	{
[1158]	1725	hasArea = true;
	1726	cellMeasures += " area" + appendDomId;
[879]	1727	}
[1158]	1728	++idxDomain;
	1729	}
	1730	else if (1 == axisDomainOrder(i))
	1731	{
	1732	CAxis* axis = CAxis::get(axisList[idxAxis]);
	1733	StdString axisId = axis->getAxisOutputName();
	1734
	1735	if (compressedOutput && axis->isCompressible())
[879]	1736	{
[1158]	1737	dimIdList.push_back(axisId + "_points");
	1738	field->setUseCompressedOutput();
[879]	1739	}
[1158]	1740	else
	1741	dimIdList.push_back(axisId);
[878]	1742
[1158]	1743	dimCoordList.push_back(axisId);
	1744	++idxAxis;
	1745	}
	1746	else // scalar
	1747	{
[887]	1748	/* Do nothing here */
[1158]	1749	}
	1750	}
[488]	1751
[1158]	1752	StdString fieldid = field->getFieldOutputName();
[219]	1753
[1158]	1754	nc_type type ;
	1755	if (field->prec.isEmpty()) type = NC_FLOAT ;
	1756	else
	1757	{
	1758	if (field->prec==2) type = NC_SHORT ;
	1759	else if (field->prec==4) type = NC_FLOAT ;
	1760	else if (field->prec==8) type = NC_DOUBLE ;
	1761	}
[488]	1762
[1158]	1763	bool wtime = !(!field->operation.isEmpty() && field->getOperationTimeType() == func::CFunctor::once);
[488]	1764
[1158]	1765	if (wtime)
	1766	{
	1767	if (field->hasTimeInstant && hasTimeInstant) coodinates.push_back(string("time_instant"));
	1768	else if (field->hasTimeCentered && hasTimeCentered) coodinates.push_back(string("time_centered"));
	1769	dims.push_back(timeid);
	1770	}
[488]	1771
[1158]	1772	if (compressedOutput && grid->isCompressible())
	1773	{
	1774	dims.push_back(grid->getId() + "_points");
	1775	field->setUseCompressedOutput();
	1776	}
	1777	else
	1778	{
	1779	while (!dimIdList.empty())
	1780	{
	1781	dims.push_back(dimIdList.back());
	1782	dimIdList.pop_back();
	1783	}
	1784	}
[219]	1785
[1158]	1786	while (!dimCoordList.empty())
	1787	{
	1788	coodinates.push_back(dimCoordList.back());
	1789	dimCoordList.pop_back();
	1790	}
[219]	1791
[1158]	1792	try
	1793	{
[498]	1794	SuperClassWriter::addVariable(fieldid, type, dims);
[488]	1795
[498]	1796	if (!field->standard_name.isEmpty())
	1797	SuperClassWriter::addAttribute
	1798	("standard_name", field->standard_name.getValue(), &fieldid);
[219]	1799
[498]	1800	if (!field->long_name.isEmpty())
	1801	SuperClassWriter::addAttribute
	1802	("long_name", field->long_name.getValue(), &fieldid);
[219]	1803
[498]	1804	if (!field->unit.isEmpty())
	1805	SuperClassWriter::addAttribute
	1806	("units", field->unit.getValue(), &fieldid);
[463]	1807
[1158]	1808	// Ugrid field attributes "mesh" and "location"
	1809	if (!SuperClassWriter::useCFConvention)
	1810	{
	1811	if (!domainList.empty())
	1812	{
	1813	CDomain* domain = CDomain::get(domainList[0]); // Suppose that we have only domain
	1814	StdString mesh = domain->name;
	1815	SuperClassWriter::addAttribute("mesh", mesh, &fieldid);
	1816	StdString location;
	1817	if (domain->nvertex == 1)
	1818	location = "node";
	1819	else if (domain->nvertex == 2)
	1820	location = "edge";
	1821	else if (domain->nvertex > 2)
	1822	location = "face";
	1823	SuperClassWriter::addAttribute("location", location, &fieldid);
	1824	}
	1825
	1826	}
	1827
	1828	if (!field->valid_min.isEmpty())
[498]	1829	SuperClassWriter::addAttribute
	1830	("valid_min", field->valid_min.getValue(), &fieldid);
[463]	1831
[498]	1832	if (!field->valid_max.isEmpty())
	1833	SuperClassWriter::addAttribute
	1834	("valid_max", field->valid_max.getValue(), &fieldid);
[464]	1835
[498]	1836	if (!field->scale_factor.isEmpty())
	1837	SuperClassWriter::addAttribute
	1838	("scale_factor", field->scale_factor.getValue(), &fieldid);
[464]	1839
[498]	1840	if (!field->add_offset.isEmpty())
	1841	SuperClassWriter::addAttribute
	1842	("add_offset", field->add_offset.getValue(), &fieldid);
[488]	1843
[498]	1844	SuperClassWriter::addAttribute
	1845	("online_operation", field->operation.getValue(), &fieldid);
[472]	1846
[498]	1847	// write child variables as attributes
[488]	1848
	1849
[1021]	1850	bool alreadyAddCellMethod = false;
	1851	StdString cellMethodsPrefix(""), cellMethodsSuffix("");
	1852	if (!field->cell_methods.isEmpty())
	1853	{
[1158]	1854	StdString cellMethodString = field->cell_methods;
	1855	if (field->cell_methods_mode.isEmpty() \|\|
[1021]	1856	(CField::cell_methods_mode_attr::overwrite == field->cell_methods_mode))
[1158]	1857	{
	1858	SuperClassWriter::addAttribute("cell_methods", cellMethodString, &fieldid);
	1859	alreadyAddCellMethod = true;
	1860	}
	1861	else
	1862	{
	1863	switch (field->cell_methods_mode)
	1864	{
	1865	case (CField::cell_methods_mode_attr::prefix):
	1866	cellMethodsPrefix = cellMethodString;
	1867	cellMethodsPrefix += " ";
	1868	break;
	1869	case (CField::cell_methods_mode_attr::suffix):
	1870	cellMethodsSuffix = " ";
	1871	cellMethodsSuffix += cellMethodString;
	1872	break;
	1873	case (CField::cell_methods_mode_attr::none):
	1874	break;
	1875	default:
	1876	break;
	1877	}
	1878	}
[1021]	1879	}
[488]	1880
[1021]	1881
[498]	1882	if (wtime)
	1883	{
[614]	1884	CDuration freqOp = field->freq_op.getValue();
	1885	freqOp.solveTimeStep(*context->calendar);
	1886	StdString freqOpStr = freqOp.toStringUDUnits();
[612]	1887	SuperClassWriter::addAttribute("interval_operation", freqOpStr, &fieldid);
[437]	1888
[614]	1889	CDuration freqOut = field->getRelFile()->output_freq.getValue();
	1890	freqOut.solveTimeStep(*context->calendar);
	1891	SuperClassWriter::addAttribute("interval_write", freqOut.toStringUDUnits(), &fieldid);
[612]	1892
[1021]	1893	StdString cellMethods(cellMethodsPrefix + "time: ");
[612]	1894	if (field->operation.getValue() == "instant") cellMethods += "point";
	1895	else if (field->operation.getValue() == "average") cellMethods += "mean";
	1896	else if (field->operation.getValue() == "accumulate") cellMethods += "sum";
	1897	else cellMethods += field->operation;
[614]	1898	if (freqOp.resolve(context->calendar) != freqOut.resolve(context->calendar))
	1899	cellMethods += " (interval: " + freqOpStr + ")";
[1021]	1900	cellMethods += cellMethodsSuffix;
	1901	if (!alreadyAddCellMethod)
	1902	SuperClassWriter::addAttribute("cell_methods", cellMethods, &fieldid);
[498]	1903	}
[488]	1904
[611]	1905	if (hasArea)
	1906	SuperClassWriter::addAttribute("cell_measures", cellMeasures, &fieldid);
	1907
[498]	1908	if (!field->default_value.isEmpty())
	1909	{
	1910	double default_value = field->default_value.getValue();
	1911	float fdefault_value = (float)default_value;
	1912	if (type == NC_DOUBLE)
	1913	SuperClassWriter::setDefaultValue(fieldid, &default_value);
	1914	else
	1915	SuperClassWriter::setDefaultValue(fieldid, &fdefault_value);
	1916	}
	1917	else
[517]	1918	SuperClassWriter::setDefaultValue(fieldid, (double*)NULL);
[219]	1919
[606]	1920	if (field->compression_level.isEmpty())
	1921	field->compression_level = field->file->compression_level.isEmpty() ? 0 : field->file->compression_level;
	1922	SuperClassWriter::setCompressionLevel(fieldid, field->compression_level);
	1923
[878]	1924	{ // Ecriture des coordonnes
[488]	1925
[498]	1926	StdString coordstr; //boost::algorithm::join(coodinates, " ")
	1927	std::vector<StdString>::iterator
	1928	itc = coodinates.begin(), endc = coodinates.end();
[488]	1929
[498]	1930	for (; itc!= endc; itc++)
	1931	{
	1932	StdString & coord = *itc;
	1933	if (itc+1 != endc)
	1934	coordstr.append(coord).append(" ");
	1935	else coordstr.append(coord);
	1936	}
[219]	1937
[498]	1938	SuperClassWriter::addAttribute("coordinates", coordstr, &fieldid);
[219]	1939
[498]	1940	}
[1222]	1941
	1942	vector<CVariable*> listVars = field->getAllVariables() ;
	1943	for (vector<CVariable>::iterator it = listVars.begin() ;it != listVars.end(); it++) writeAttribute_(it, fieldid) ;
	1944
[219]	1945	}
[498]	1946	catch (CNetCdfException& e)
	1947	{
	1948	StdString msg("On writing field : ");
	1949	msg.append(fieldid); msg.append("\n");
	1950	msg.append("In the context : ");
	1951	msg.append(context->getId()); msg.append("\n");
	1952	msg.append(e.what());
	1953	ERROR("CNc4DataOutput::writeField_(CField* field)", << msg);
	1954	}
[879]	1955	} // writeField_()
[219]	1956
	1957	//--------------------------------------------------------------
	1958
[347]	1959	void CNc4DataOutput::writeFile_ (CFile* file)
[219]	1960	{
[773]	1961	StdString filename = file->getFileOutputName();
[219]	1962	StdString description = (!file->description.isEmpty())
	1963	? file->description.getValue()
[335]	1964	: StdString("Created by xios");
[609]	1965
	1966	singleDomain = (file->nbDomains == 1);
	1967
[1158]	1968	StdString conv_str ;
	1969	if (file->convention_str.isEmpty())
	1970	{
	1971	if (SuperClassWriter::useCFConvention) conv_str="CF-1.6" ;
	1972	else conv_str="UGRID" ;
	1973	}
	1974	else conv_str=file->convention_str ;
	1975
[498]	1976	try
	1977	{
[1309]	1978	if (!appendMode) this->writeFileAttributes(filename, description,
	1979	conv_str,
	1980	StdString("An IPSL model"),
	1981	this->getTimeStamp());
[609]	1982
[701]	1983	if (!appendMode)
	1984	SuperClassWriter::addDimension("axis_nbounds", 2);
[498]	1985	}
	1986	catch (CNetCdfException& e)
	1987	{
	1988	StdString msg("On writing file : ");
	1989	msg.append(filename); msg.append("\n");
	1990	msg.append("In the context : ");
	1991	CContext* context = CContext::getCurrent() ;
	1992	msg.append(context->getId()); msg.append("\n");
	1993	msg.append(e.what());
	1994	ERROR("CNc4DataOutput::writeFile_ (CFile* file)", << msg);
	1995	}
[219]	1996	}
[488]	1997
[472]	1998	void CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)
	1999	{
[773]	2000	StdString name = var->getVariableOutputName();
[488]	2001
[498]	2002	try
	2003	{
[527]	2004	if (var->type.getValue() == CVariable::type_attr::t_int \|\| var->type.getValue() == CVariable::type_attr::t_int32)
	2005	addAttribute(name, var->getData<int>(), &fieldId);
	2006	else if (var->type.getValue() == CVariable::type_attr::t_int16)
	2007	addAttribute(name, var->getData<short int>(), &fieldId);
	2008	else if (var->type.getValue() == CVariable::type_attr::t_float)
	2009	addAttribute(name, var->getData<float>(), &fieldId);
	2010	else if (var->type.getValue() == CVariable::type_attr::t_double)
	2011	addAttribute(name, var->getData<double>(), &fieldId);
	2012	else if (var->type.getValue() == CVariable::type_attr::t_string)
	2013	addAttribute(name, var->getData<string>(), &fieldId);
	2014	else
	2015	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)",
	2016	<< "Unsupported variable of type " << var->type.getStringValue());
[498]	2017	}
	2018	catch (CNetCdfException& e)
	2019	{
	2020	StdString msg("On writing attributes of variable with name : ");
	2021	msg.append(name); msg.append("in the field "); msg.append(fieldId); msg.append("\n");
	2022	msg.append("In the context : ");
	2023	CContext* context = CContext::getCurrent() ;
	2024	msg.append(context->getId()); msg.append("\n");
	2025	msg.append(e.what());
	2026	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)", << msg);
	2027	}
[472]	2028	}
[488]	2029
[472]	2030	void CNc4DataOutput::writeAttribute_ (CVariable* var)
	2031	{
[773]	2032	StdString name = var->getVariableOutputName();
	2033
[498]	2034	try
	2035	{
[527]	2036	if (var->type.getValue() == CVariable::type_attr::t_int \|\| var->type.getValue() == CVariable::type_attr::t_int32)
	2037	addAttribute(name, var->getData<int>());
	2038	else if (var->type.getValue() == CVariable::type_attr::t_int16)
	2039	addAttribute(name, var->getData<short int>());
	2040	else if (var->type.getValue() == CVariable::type_attr::t_float)
	2041	addAttribute(name, var->getData<float>());
	2042	else if (var->type.getValue() == CVariable::type_attr::t_double)
	2043	addAttribute(name, var->getData<double>());
	2044	else if (var->type.getValue() == CVariable::type_attr::t_string)
	2045	addAttribute(name, var->getData<string>());
	2046	else
	2047	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)",
	2048	<< "Unsupported variable of type " << var->type.getStringValue());
[498]	2049	}
	2050	catch (CNetCdfException& e)
	2051	{
	2052	StdString msg("On writing attributes of variable with name : ");
	2053	msg.append(name); msg.append("\n");
	2054	msg.append("In the context : ");
	2055	CContext* context = CContext::getCurrent() ;
	2056	msg.append(context->getId()); msg.append("\n");
	2057	msg.append(e.what());
	2058	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)", << msg);
	2059	}
[488]	2060	}
	2061
[321]	2062	void CNc4DataOutput::syncFile_ (void)
	2063	{
[498]	2064	try
	2065	{
	2066	SuperClassWriter::sync() ;
	2067	}
	2068	catch (CNetCdfException& e)
	2069	{
	2070	StdString msg("On synchronizing the write among processes");
	2071	msg.append("In the context : ");
	2072	CContext* context = CContext::getCurrent() ;
	2073	msg.append(context->getId()); msg.append("\n");
	2074	msg.append(e.what());
	2075	ERROR("CNc4DataOutput::syncFile_ (void)", << msg);
	2076	}
[321]	2077	}
[219]	2078
[286]	2079	void CNc4DataOutput::closeFile_ (void)
	2080	{
[498]	2081	try
	2082	{
	2083	SuperClassWriter::close() ;
	2084	}
	2085	catch (CNetCdfException& e)
	2086	{
	2087	StdString msg("On closing file");
	2088	msg.append("In the context : ");
	2089	CContext* context = CContext::getCurrent() ;
	2090	msg.append(context->getId()); msg.append("\n");
	2091	msg.append(e.what());
	2092	ERROR("CNc4DataOutput::syncFile_ (void)", << msg);
	2093	}
	2094
[286]	2095	}
	2096
[219]	2097	//---------------------------------------------------------------
	2098
	2099	StdString CNc4DataOutput::getTimeStamp(void) const
	2100	{
	2101	const int buffer_size = 100;
	2102	time_t rawtime;
	2103	struct tm * timeinfo = NULL;
	2104	char buffer [buffer_size];
[1158]	2105	StdString formatStr;
	2106	if (file->time_stamp_format.isEmpty()) formatStr="%Y-%b-%d %H:%M:%S %Z" ;
	2107	else formatStr=file->time_stamp_format;
[219]	2108
[1158]	2109	// time ( &rawtime );
	2110	// timeinfo = localtime ( &rawtime );
[219]	2111	time ( &rawtime );
[1158]	2112	timeinfo = gmtime ( &rawtime );
	2113	strftime (buffer, buffer_size, formatStr.c_str(), timeinfo);
[219]	2114
	2115	return (StdString(buffer));
	2116	}
[488]	2117
[219]	2118	//---------------------------------------------------------------
[488]	2119
[347]	2120	void CNc4DataOutput::writeFieldData_ (CField* field)
[219]	2121	{
[707]	2122	CContext* context = CContext::getCurrent();
	2123	CContextServer* server = context->server;
	2124	CGrid* grid = field->grid;
[300]	2125
[1158]	2126	if (field->getNStep()<1)
	2127	{
	2128	return;
	2129	}
[952]	2130
[707]	2131	if (!grid->doGridHaveDataToWrite())
[1158]	2132	if (SuperClass::type == MULTI_FILE \|\| !isCollective)
	2133	{
	2134	return;
	2135	}
[488]	2136
[770]	2137	StdString fieldid = field->getFieldOutputName();
[286]	2138
[707]	2139	StdOStringStream oss;
	2140	string timeAxisId;
[1158]	2141	if (field->hasTimeInstant) timeAxisId = "time_instant";
	2142	else if (field->hasTimeCentered) timeAxisId = "time_centered";
[488]	2143
[802]	2144	StdString timeBoundId = getTimeCounterName() + "_bounds";
[449]	2145
[707]	2146	StdString timeAxisBoundId;
[1158]	2147	if (field->hasTimeInstant) timeAxisBoundId = "time_instant_bounds";
	2148	else if (field->hasTimeCentered) timeAxisBoundId = "time_centered_bounds";
[488]	2149
[707]	2150	if (!field->wasWritten())
	2151	{
[1158]	2152	if (appendMode && field->file->record_offset.isEmpty() &&
	2153	field->getOperationTimeType() != func::CFunctor::once)
[707]	2154	{
[1158]	2155	double factorUnit;
	2156	if (!field->file->time_units.isEmpty() && field->file->time_units==CFile::time_units_attr::days)
	2157	factorUnit=context->getCalendar()->getDayLengthInSeconds() ;
	2158	else factorUnit=1 ;
	2159	field->resetNStep(getRecordFromTime(field->last_Write_srv,factorUnit) + 1);
[707]	2160	}
[488]	2161
[707]	2162	field->setWritten();
	2163	}
[488]	2164
	2165
[707]	2166	CArray<double,1> time_data(1);
	2167	CArray<double,1> time_data_bound(2);
	2168	CArray<double,1> time_counter(1);
	2169	CArray<double,1> time_counter_bound(2);
	2170
	2171	bool wtime = (field->getOperationTimeType() != func::CFunctor::once);
[1158]	2172	bool wtimeCounter =false ;
	2173	bool wtimeData =false ;
	2174
[707]	2175
[444]	2176	if (wtime)
	2177	{
[692]	2178	Time lastWrite = field->last_Write_srv;
	2179	Time lastLastWrite = field->lastlast_Write_srv;
	2180
[1158]	2181
	2182	if (field->hasTimeInstant)
	2183	{
	2184	time_data(0) = time_data_bound(1) = lastWrite;
[692]	2185	time_data_bound(0) = time_data_bound(1) = lastWrite;
[1158]	2186	if (timeCounterType==instant)
	2187	{
	2188	time_counter(0) = time_data(0);
	2189	time_counter_bound(0) = time_data_bound(0);
	2190	time_counter_bound(1) = time_data_bound(1);
	2191	wtimeCounter=true ;
	2192	}
	2193	if (hasTimeInstant) wtimeData=true ;
	2194	}
	2195	else if (field->hasTimeCentered)
[488]	2196	{
[1158]	2197	time_data(0) = (lastWrite + lastLastWrite) / 2;
[692]	2198	time_data_bound(0) = lastLastWrite;
	2199	time_data_bound(1) = lastWrite;
[1158]	2200	if (timeCounterType==centered)
	2201	{
	2202	time_counter(0) = time_data(0) ;
	2203	time_counter_bound(0) = time_data_bound(0) ;
	2204	time_counter_bound(1) = time_data_bound(1) ;
	2205	wtimeCounter=true ;
	2206	}
	2207	if (hasTimeCentered) wtimeData=true ;
[488]	2208	}
	2209
[1158]	2210	if (timeCounterType==record)
	2211	{
[692]	2212	time_counter(0) = field->getNStep() - 1;
[1158]	2213	time_counter_bound(0) = time_counter_bound(1) = field->getNStep() - 1;
	2214	wtimeCounter=true ;
	2215	}
[692]	2216
[1158]	2217	if (!field->file->time_units.isEmpty() && field->file->time_units==CFile::time_units_attr::days)
[692]	2218	{
[1158]	2219	double secByDay=context->getCalendar()->getDayLengthInSeconds() ;
	2220	time_data/=secByDay;
	2221	time_data_bound/=secByDay;
	2222	time_counter/=secByDay;
	2223	time_counter_bound/=secByDay;
[692]	2224	}
	2225	}
	2226
[707]	2227	bool isRoot = (server->intraCommRank == 0);
[488]	2228
[464]	2229	if (!field->scale_factor.isEmpty() \|\| !field->add_offset.isEmpty())
	2230	{
[707]	2231	double scaleFactor = 1.0;
	2232	double addOffset = 0.0;
	2233	if (!field->scale_factor.isEmpty()) scaleFactor = field->scale_factor;
	2234	if (!field->add_offset.isEmpty()) addOffset = field->add_offset;
	2235	field->scaleFactorAddOffset(scaleFactor, addOffset);
[464]	2236	}
[488]	2237
[498]	2238	try
[219]	2239	{
[676]	2240	size_t writtenSize;
	2241	if (field->getUseCompressedOutput())
	2242	writtenSize = grid->getNumberWrittenIndexes();
	2243	else
	2244	writtenSize = grid->getWrittenDataSize();
	2245
	2246	CArray<double,1> fieldData(writtenSize);
[567]	2247	if (!field->default_value.isEmpty()) fieldData = field->default_value;
[676]	2248
	2249	if (field->getUseCompressedOutput())
	2250	field->outputCompressedField(fieldData);
	2251	else
	2252	field->outputField(fieldData);
	2253
[707]	2254	if (!field->prec.isEmpty() && field->prec == 2) fieldData = round(fieldData);
[567]	2255
	2256	switch (SuperClass::type)
[498]	2257	{
[567]	2258	case (MULTI_FILE) :
	2259	{
[1158]	2260	CTimer::get("Files : writing data").resume();
[692]	2261	SuperClassWriter::writeData(fieldData, fieldid, isCollective, field->getNStep() - 1);
[1158]	2262	CTimer::get("Files : writing data").suspend();
[567]	2263	if (wtime)
	2264	{
[1158]	2265	CTimer::get("Files : writing time axis").resume();
	2266	if ( wtimeData)
[692]	2267	{
[1158]	2268	// SuperClassWriter::writeData(time_data, timeAxisId, isCollective, field->getNStep() - 1);
	2269	// SuperClassWriter::writeData(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1);
	2270	SuperClassWriter::writeTimeAxisData(time_data, timeAxisId, isCollective, field->getNStep() - 1, isRoot);
	2271	SuperClassWriter::writeTimeAxisDataBounds(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1, isRoot);
	2272	}
	2273	if (wtimeCounter)
	2274	{
	2275	// SuperClassWriter::writeData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1);
	2276	// if (timeCounterType!=record) SuperClassWriter::writeData(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1);
	2277	SuperClassWriter::writeTimeAxisData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1,isRoot);
	2278	if (timeCounterType!=record) SuperClassWriter::writeTimeAxisDataBounds(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1, isRoot);
[692]	2279	}
[1158]	2280	CTimer::get("Files : writing time axis").suspend();
[567]	2281	}
[707]	2282	break;
[567]	2283	}
	2284	case (ONE_FILE) :
	2285	{
[676]	2286	const std::vector<int>& nZoomBeginGlobal = grid->getDistributionServer()->getZoomBeginGlobal();
	2287	const std::vector<int>& nZoomBeginServer = grid->getDistributionServer()->getZoomBeginServer();
	2288	const std::vector<int>& nZoomSizeServer = grid->getDistributionServer()->getZoomSizeServer();
[464]	2289
[676]	2290	std::vector<StdSize> start, count;
[464]	2291
[676]	2292	if (field->getUseCompressedOutput())
	2293	{
	2294	if (grid->isCompressible())
	2295	{
	2296	start.push_back(grid->getOffsetWrittenIndexes());
	2297	count.push_back(grid->getNumberWrittenIndexes());
	2298	}
	2299	else
	2300	{
[887]	2301	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
[676]	2302	std::vector<StdString> domainList = grid->getDomainList();
	2303	std::vector<StdString> axisList = grid->getAxisList();
	2304	int numElement = axisDomainOrder.numElements();
	2305	int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1;
	2306	int idx = nZoomBeginGlobal.size() - 1;
[464]	2307
[676]	2308	start.reserve(nZoomBeginGlobal.size());
	2309	count.reserve(nZoomBeginGlobal.size());
	2310
	2311
	2312	for (int i = numElement - 1; i >= 0; --i)
	2313	{
[887]	2314	if (2 == axisDomainOrder(i))
[676]	2315	{
	2316	CDomain* domain = CDomain::get(domainList[idxDomain]);
	2317
	2318	if (domain->isCompressible())
	2319	{
[1249]	2320	start.push_back(domain->getOffsetWrittenIndexes(comm_file));
	2321	count.push_back(domain->getNumberWrittenIndexes(comm_file));
[710]	2322	idx -= 2;
[676]	2323	}
	2324	else
	2325	{
[710]	2326	if ((domain->type) != CDomain::type_attr::unstructured)
	2327	{
	2328	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	2329	count.push_back(nZoomSizeServer[idx]);
	2330	}
	2331	--idx;
[676]	2332	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	2333	count.push_back(nZoomSizeServer[idx]);
[710]	2334	--idx;
[676]	2335	}
	2336	--idxDomain;
	2337	}
[887]	2338	else if (1 == axisDomainOrder(i))
[676]	2339	{
	2340	CAxis* axis = CAxis::get(axisList[idxAxis]);
	2341
	2342	if (axis->isCompressible())
	2343	{
[1249]	2344	start.push_back(axis->getOffsetWrittenIndexes(comm_file));
	2345	count.push_back(axis->getNumberWrittenIndexes(comm_file));
[676]	2346	}
	2347	else
	2348	{
	2349	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	2350	count.push_back(nZoomSizeServer[idx]);
	2351	}
	2352
	2353	--idxAxis;
	2354	--idx;
	2355	}
	2356	}
[1158]	2357	}
[676]	2358	}
	2359	else
[498]	2360	{
[887]	2361	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
[705]	2362	std::vector<StdString> domainList = grid->getDomainList();
	2363	std::vector<StdString> axisList = grid->getAxisList();
	2364	int numElement = axisDomainOrder.numElements();
	2365	int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1;
[1025]	2366	int idx = domainList.size() * 2 + axisList.size() - 1;// nZoomBeginGlobal.size() - 1;
[705]	2367
	2368	start.reserve(nZoomBeginGlobal.size());
	2369	count.reserve(nZoomBeginGlobal.size());
	2370
	2371	for (int i = numElement - 1; i >= 0; --i)
	2372	{
[887]	2373	if (2 == axisDomainOrder(i))
[705]	2374	{
	2375	CDomain* domain = CDomain::get(domainList[idxDomain]);
[710]	2376	if ((domain->type) != CDomain::type_attr::unstructured)
[705]	2377	{
[1099]	2378	start.push_back(domain->zoom_jbegin - domain->global_zoom_jbegin);
	2379	count.push_back(domain->zoom_nj);
[705]	2380	}
	2381	--idx ;
[1143]	2382
[1099]	2383	start.push_back(domain->zoom_ibegin - domain->global_zoom_ibegin);
	2384	count.push_back(domain->zoom_ni);
[705]	2385	--idx ;
	2386	--idxDomain;
	2387	}
[887]	2388	else if (1 == axisDomainOrder(i))
[705]	2389	{
[1143]	2390	CAxis* axis = CAxis::get(axisList[idxAxis]);
[1099]	2391	start.push_back(axis->zoom_begin - axis->global_zoom_begin);
	2392	count.push_back(axis->zoom_n);
[705]	2393	--idx;
[1025]	2394	--idxAxis;
[887]	2395	}
	2396	else
	2397	{
	2398	if (1 == axisDomainOrder.numElements())
	2399	{
	2400	start.push_back(0);
	2401	count.push_back(1);
	2402	}
	2403	--idx;
	2404	}
[705]	2405	}
[498]	2406	}
[488]	2407
[1158]	2408
	2409	CTimer::get("Files : writing data").resume();
[676]	2410	SuperClassWriter::writeData(fieldData, fieldid, isCollective, field->getNStep() - 1, &start, &count);
[1158]	2411	CTimer::get("Files : writing data").suspend();
	2412
	2413	if (wtime)
	2414	{
	2415	CTimer::get("Files : writing time axis").resume();
	2416	if ( wtimeData)
[692]	2417	{
[1158]	2418	// SuperClassWriter::writeData(time_data, timeAxisId, isCollective, field->getNStep() - 1);
	2419	// SuperClassWriter::writeData(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1);
	2420	SuperClassWriter::writeTimeAxisData(time_data, timeAxisId, isCollective, field->getNStep() - 1, isRoot);
	2421	SuperClassWriter::writeTimeAxisDataBounds(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1, isRoot);
[692]	2422	}
[1158]	2423	if (wtimeCounter)
	2424	{
	2425	// SuperClassWriter::writeData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1);
	2426	// if (timeCounterType!=record) SuperClassWriter::writeData(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1);
	2427	SuperClassWriter::writeTimeAxisData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1,isRoot);
	2428	if (timeCounterType!=record) SuperClassWriter::writeTimeAxisDataBounds(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1, isRoot);
[586]	2429
[1158]	2430	}
	2431	CTimer::get("Files : writing time axis").suspend();
	2432	}
	2433
[586]	2434	break;
[286]	2435	}
[567]	2436	}
[219]	2437	}
[498]	2438	catch (CNetCdfException& e)
	2439	{
	2440	StdString msg("On writing field data: ");
	2441	msg.append(fieldid); msg.append("\n");
	2442	msg.append("In the context : ");
	2443	msg.append(context->getId()); msg.append("\n");
	2444	msg.append(e.what());
[1130]	2445	ERROR("CNc4DataOutput::writeFieldData_ (CField* field)", << msg);
[498]	2446	}
[219]	2447	}
	2448
	2449	//---------------------------------------------------------------
	2450
	2451	void CNc4DataOutput::writeTimeAxis_
[347]	2452	(CField* field,
[343]	2453	const boost::shared_ptr<CCalendar> cal)
[219]	2454	{
	2455	StdOStringStream oss;
[1158]	2456	bool createInstantAxis=false ;
	2457	bool createCenteredAxis=false ;
	2458	bool createTimeCounterAxis=false ;
	2459
[645]	2460	if (field->getOperationTimeType() == func::CFunctor::once) return ;
[488]	2461
	2462
[1158]	2463	StdString axisId ;
	2464	StdString axisBoundId;
[802]	2465	StdString timeid(getTimeCounterName());
[614]	2466	StdString timeBoundId("axis_nbounds");
[488]	2467
[1158]	2468	StdString strTimeUnits ;
	2469	if (!field->file->time_units.isEmpty() && field->file->time_units==CFile::time_units_attr::days) strTimeUnits="days since " ;
	2470	else strTimeUnits="seconds since " ;
	2471
	2472	if (field->getOperationTimeType() == func::CFunctor::instant) field->hasTimeInstant = true;
	2473	if (field->getOperationTimeType() == func::CFunctor::centered) field->hasTimeCentered = true;
	2474
	2475
	2476	if (field->file->time_counter.isEmpty())
[488]	2477	{
[1158]	2478	if (timeCounterType==none) createTimeCounterAxis=true ;
	2479	if (field->hasTimeCentered)
	2480	{
	2481	timeCounterType=centered ;
	2482	if (!hasTimeCentered) createCenteredAxis=true ;
	2483	}
	2484	if (field->hasTimeInstant)
	2485	{
	2486	if (timeCounterType==none) timeCounterType=instant ;
	2487	if (!hasTimeInstant) createInstantAxis=true ;
	2488	}
[488]	2489	}
[1158]	2490	else if (field->file->time_counter==CFile::time_counter_attr::instant)
	2491	{
	2492	if (field->hasTimeCentered)
	2493	{
	2494	if (!hasTimeCentered) createCenteredAxis=true ;
	2495	}
	2496	if (field->hasTimeInstant)
	2497	{
	2498	if (timeCounterType==none) createTimeCounterAxis=true ;
	2499	timeCounterType=instant ;
	2500	if (!hasTimeInstant) createInstantAxis=true ;
	2501	}
	2502	}
	2503	else if (field->file->time_counter==CFile::time_counter_attr::centered)
	2504	{
	2505	if (field->hasTimeCentered)
	2506	{
	2507	if (timeCounterType==none) createTimeCounterAxis=true ;
	2508	timeCounterType=centered ;
	2509	if (!hasTimeCentered) createCenteredAxis=true ;
	2510	}
	2511	if (field->hasTimeInstant)
	2512	{
	2513	if (!hasTimeInstant) createInstantAxis=true ;
	2514	}
	2515	}
	2516	else if (field->file->time_counter==CFile::time_counter_attr::instant_exclusive)
	2517	{
	2518	if (field->hasTimeCentered)
	2519	{
	2520	if (!hasTimeCentered) createCenteredAxis=true ;
	2521	}
	2522	if (field->hasTimeInstant)
	2523	{
	2524	if (timeCounterType==none) createTimeCounterAxis=true ;
	2525	timeCounterType=instant ;
	2526	}
	2527	}
	2528	else if (field->file->time_counter==CFile::time_counter_attr::centered_exclusive)
	2529	{
	2530	if (field->hasTimeCentered)
	2531	{
	2532	if (timeCounterType==none) createTimeCounterAxis=true ;
	2533	timeCounterType=centered ;
	2534	}
	2535	if (field->hasTimeInstant)
	2536	{
	2537	if (!hasTimeInstant) createInstantAxis=true ;
	2538	}
	2539	}
	2540	else if (field->file->time_counter==CFile::time_counter_attr::exclusive)
	2541	{
	2542	if (field->hasTimeCentered)
	2543	{
	2544	if (timeCounterType==none) createTimeCounterAxis=true ;
	2545	if (timeCounterType==instant) createInstantAxis=true ;
	2546	timeCounterType=centered ;
	2547	}
	2548	if (field->hasTimeInstant)
	2549	{
	2550	if (timeCounterType==none)
	2551	{
	2552	createTimeCounterAxis=true ;
	2553	timeCounterType=instant ;
	2554	}
	2555	if (timeCounterType==centered)
	2556	{
	2557	if (!hasTimeInstant) createInstantAxis=true ;
	2558	}
	2559	}
	2560	}
	2561	else if (field->file->time_counter==CFile::time_counter_attr::none)
	2562	{
	2563	if (field->hasTimeCentered)
	2564	{
	2565	if (!hasTimeCentered) createCenteredAxis=true ;
	2566	}
	2567	if (field->hasTimeInstant)
	2568	{
	2569	if (!hasTimeInstant) createInstantAxis=true ;
	2570	}
	2571	}
	2572	else if (field->file->time_counter==CFile::time_counter_attr::record)
	2573	{
	2574	if (timeCounterType==none) createTimeCounterAxis=true ;
	2575	timeCounterType=record ;
	2576	if (field->hasTimeCentered)
	2577	{
	2578	if (!hasTimeCentered) createCenteredAxis=true ;
	2579	}
	2580	if (field->hasTimeInstant)
	2581	{
	2582	if (!hasTimeInstant) createInstantAxis=true ;
	2583	}
	2584	}
	2585
	2586	if (createInstantAxis)
	2587	{
	2588	axisId="time_instant" ;
	2589	axisBoundId="time_instant_bounds";
	2590	hasTimeInstant=true ;
	2591	}
[488]	2592
[1158]	2593	if (createCenteredAxis)
	2594	{
	2595	axisId="time_centered" ;
	2596	axisBoundId="time_centered_bounds";
	2597	hasTimeCentered=true ;
	2598	}
	2599
	2600
[498]	2601	try
[219]	2602	{
[1158]	2603	std::vector<StdString> dims;
	2604
	2605	if (createInstantAxis \|\| createCenteredAxis)
	2606	{
	2607	// Adding time_instant or time_centered
	2608	dims.push_back(timeid);
	2609	if (!SuperClassWriter::varExist(axisId))
	2610	{
	2611	SuperClassWriter::addVariable(axisId, NC_DOUBLE, dims);
[488]	2612
[1158]	2613	CDate timeOrigin=cal->getTimeOrigin() ;
	2614	StdOStringStream oss2;
	2615	StdString strInitdate=oss2.str() ;
	2616	StdString strTimeOrigin=timeOrigin.toString() ;
	2617	this->writeTimeAxisAttributes(axisId, cal->getType(),strTimeUnits+strTimeOrigin,
	2618	strTimeOrigin, axisBoundId);
	2619	}
[219]	2620
[1158]	2621	// Adding time_instant_bounds or time_centered_bounds variables
	2622	if (!SuperClassWriter::varExist(axisBoundId))
	2623	{
	2624	dims.clear() ;
	2625	dims.push_back(timeid);
	2626	dims.push_back(timeBoundId);
	2627	SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims);
	2628	}
[498]	2629	}
[488]	2630
[1158]	2631	if (createTimeCounterAxis)
[498]	2632	{
[692]	2633	// Adding time_counter
[1158]	2634	axisId = getTimeCounterName();
[802]	2635	axisBoundId = getTimeCounterName() + "_bounds";
[692]	2636	dims.clear();
	2637	dims.push_back(timeid);
[1158]	2638	if (!SuperClassWriter::varExist(axisId))
[692]	2639	{
[1158]	2640	SuperClassWriter::addVariable(axisId, NC_DOUBLE, dims);
	2641	SuperClassWriter::addAttribute("axis", string("T"), &axisId);
[488]	2642
[1158]	2643	if (field->file->time_counter.isEmpty() \|\|
	2644	(field->file->time_counter != CFile::time_counter_attr::record))
[692]	2645	{
	2646	CDate timeOrigin = cal->getTimeOrigin();
	2647	StdString strTimeOrigin = timeOrigin.toString();
[498]	2648
[1158]	2649	this->writeTimeAxisAttributes(axisId, cal->getType(),
	2650	strTimeUnits+strTimeOrigin,
[692]	2651	strTimeOrigin, axisBoundId);
	2652	}
	2653	}
	2654
	2655	// Adding time_counter_bound dimension
[1158]	2656	if (field->file->time_counter.isEmpty() \|\| (field->file->time_counter != CFile::time_counter_attr::record))
[692]	2657	{
	2658	if (!SuperClassWriter::varExist(axisBoundId))
	2659	{
	2660	dims.clear();
	2661	dims.push_back(timeid);
	2662	dims.push_back(timeBoundId);
	2663	SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims);
	2664	}
	2665	}
[498]	2666	}
[488]	2667	}
[498]	2668	catch (CNetCdfException& e)
[488]	2669	{
[498]	2670	StdString msg("On writing time axis data: ");
	2671	msg.append("In the context : ");
	2672	CContext* context = CContext::getCurrent() ;
	2673	msg.append(context->getId()); msg.append("\n");
	2674	msg.append(e.what());
	2675	ERROR("CNc4DataOutput::writeTimeAxis_ (CField* field, \
	2676	const boost::shared_ptr<CCalendar> cal)", << msg);
[488]	2677	}
[219]	2678	}
	2679
	2680	//---------------------------------------------------------------
[488]	2681
[219]	2682	void CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name,
	2683	const StdString & calendar,
	2684	const StdString & units,
	2685	const StdString & time_origin,
[488]	2686	const StdString & time_bounds,
[219]	2687	const StdString & standard_name,
[613]	2688	const StdString & long_name)
[219]	2689	{
[498]	2690	try
	2691	{
	2692	SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name);
	2693	SuperClassWriter::addAttribute("long_name", long_name , &axis_name);
	2694	SuperClassWriter::addAttribute("calendar", calendar , &axis_name);
	2695	SuperClassWriter::addAttribute("units", units , &axis_name);
	2696	SuperClassWriter::addAttribute("time_origin", time_origin , &axis_name);
	2697	SuperClassWriter::addAttribute("bounds", time_bounds , &axis_name);
	2698	}
	2699	catch (CNetCdfException& e)
	2700	{
	2701	StdString msg("On writing time axis Attribute: ");
	2702	msg.append("In the context : ");
	2703	CContext* context = CContext::getCurrent() ;
	2704	msg.append(context->getId()); msg.append("\n");
	2705	msg.append(e.what());
	2706	ERROR("CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name, \
[613]	2707	const StdString & calendar,\
	2708	const StdString & units, \
	2709	const StdString & time_origin, \
	2710	const StdString & time_bounds, \
	2711	const StdString & standard_name, \
	2712	const StdString & long_name)", << msg);
[498]	2713	}
[219]	2714	}
[488]	2715
[219]	2716	//---------------------------------------------------------------
	2717
	2718	void CNc4DataOutput::writeAxisAttributes(const StdString & axis_name,
	2719	const StdString & axis,
	2720	const StdString & standard_name,
	2721	const StdString & long_name,
	2722	const StdString & units,
	2723	const StdString & nav_model)
	2724	{
[498]	2725	try
	2726	{
[613]	2727	if (!axis.empty())
	2728	SuperClassWriter::addAttribute("axis" , axis , &axis_name);
	2729
[498]	2730	SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name);
	2731	SuperClassWriter::addAttribute("long_name" , long_name , &axis_name);
	2732	SuperClassWriter::addAttribute("units" , units , &axis_name);
[973]	2733	// SuperClassWriter::addAttribute("nav_model" , nav_model , &axis_name);
[498]	2734	}
	2735	catch (CNetCdfException& e)
	2736	{
	2737	StdString msg("On writing Axis Attribute: ");
	2738	msg.append("In the context : ");
	2739	CContext* context = CContext::getCurrent() ;
	2740	msg.append(context->getId()); msg.append("\n");
	2741	msg.append(e.what());
	2742	ERROR("CNc4DataOutput::writeAxisAttributes(const StdString & axis_name, \
[613]	2743	const StdString & axis, \
	2744	const StdString & standard_name, \
	2745	const StdString & long_name, \
	2746	const StdString & units, \
	2747	const StdString & nav_model)", << msg);
[498]	2748	}
[219]	2749	}
	2750
	2751	//---------------------------------------------------------------
[488]	2752
[219]	2753	void CNc4DataOutput::writeLocalAttributes
	2754	(int ibegin, int ni, int jbegin, int nj, StdString domid)
	2755	{
[498]	2756	try
	2757	{
[318]	2758	SuperClassWriter::addAttribute(StdString("ibegin").append(domid), ibegin);
	2759	SuperClassWriter::addAttribute(StdString("ni" ).append(domid), ni);
	2760	SuperClassWriter::addAttribute(StdString("jbegin").append(domid), jbegin);
	2761	SuperClassWriter::addAttribute(StdString("nj" ).append(domid), nj);
[498]	2762	}
	2763	catch (CNetCdfException& e)
	2764	{
	2765	StdString msg("On writing Local Attributes: ");
	2766	msg.append("In the context : ");
	2767	CContext* context = CContext::getCurrent() ;
	2768	msg.append(context->getId()); msg.append("\n");
	2769	msg.append(e.what());
	2770	ERROR("CNc4DataOutput::writeLocalAttributes \
	2771	(int ibegin, int ni, int jbegin, int nj, StdString domid)", << msg);
	2772	}
	2773
[219]	2774	}
	2775
[628]	2776	void CNc4DataOutput::writeLocalAttributes_IOIPSL(const StdString& dimXid, const StdString& dimYid,
	2777	int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)
[391]	2778	{
	2779	CArray<int,1> array(2) ;
	2780
[498]	2781	try
	2782	{
	2783	SuperClassWriter::addAttribute("DOMAIN_number_total",size ) ;
	2784	SuperClassWriter::addAttribute("DOMAIN_number", rank) ;
[629]	2785	array = SuperClassWriter::getDimension(dimXid) + 1, SuperClassWriter::getDimension(dimYid) + 1;
[498]	2786	SuperClassWriter::addAttribute("DOMAIN_dimensions_ids",array) ;
	2787	array=ni_glo,nj_glo ;
	2788	SuperClassWriter::addAttribute("DOMAIN_size_global", array) ;
	2789	array=ni,nj ;
	2790	SuperClassWriter::addAttribute("DOMAIN_size_local", array) ;
[819]	2791	array=ibegin+1,jbegin+1 ;
[498]	2792	SuperClassWriter::addAttribute("DOMAIN_position_first", array) ;
[819]	2793	array=ibegin+ni-1+1,jbegin+nj-1+1 ;
[498]	2794	SuperClassWriter::addAttribute("DOMAIN_position_last",array) ;
	2795	array=0,0 ;
	2796	SuperClassWriter::addAttribute("DOMAIN_halo_size_start", array) ;
	2797	SuperClassWriter::addAttribute("DOMAIN_halo_size_end", array);
	2798	SuperClassWriter::addAttribute("DOMAIN_type",string("box")) ;
	2799	/*
	2800	SuperClassWriter::addAttribute("DOMAIN_DIM_N001",string("x")) ;
	2801	SuperClassWriter::addAttribute("DOMAIN_DIM_N002",string("y")) ;
	2802	SuperClassWriter::addAttribute("DOMAIN_DIM_N003",string("axis_A")) ;
	2803	SuperClassWriter::addAttribute("DOMAIN_DIM_N004",string("time_counter")) ;
	2804	*/
	2805	}
	2806	catch (CNetCdfException& e)
	2807	{
[628]	2808	StdString msg("On writing Local Attributes IOIPSL \n");
[498]	2809	msg.append("In the context : ");
	2810	CContext* context = CContext::getCurrent() ;
	2811	msg.append(context->getId()); msg.append("\n");
	2812	msg.append(e.what());
	2813	ERROR("CNc4DataOutput::writeLocalAttributes_IOIPSL \
	2814	(int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)", << msg);
	2815	}
[391]	2816	}
[219]	2817	//---------------------------------------------------------------
	2818
	2819	void CNc4DataOutput:: writeFileAttributes(const StdString & name,
	2820	const StdString & description,
	2821	const StdString & conventions,
	2822	const StdString & production,
	2823	const StdString & timeStamp)
	2824	{
[498]	2825	try
	2826	{
	2827	SuperClassWriter::addAttribute("name" , name);
	2828	SuperClassWriter::addAttribute("description", description);
[613]	2829	SuperClassWriter::addAttribute("title" , description);
	2830	SuperClassWriter::addAttribute("Conventions", conventions);
[1158]	2831	// SuperClassWriter::addAttribute("production" , production);
	2832
	2833	StdString timeStampStr ;
	2834	if (file->time_stamp_name.isEmpty()) timeStampStr="timeStamp" ;
	2835	else timeStampStr=file->time_stamp_name ;
	2836	SuperClassWriter::addAttribute(timeStampStr, timeStamp);
	2837
	2838	StdString uuidName ;
	2839	if (file->uuid_name.isEmpty()) uuidName="uuid" ;
	2840	else uuidName=file->uuid_name ;
	2841
	2842	if (file->uuid_format.isEmpty()) SuperClassWriter::addAttribute(uuidName, getUuidStr());
	2843	else SuperClassWriter::addAttribute(uuidName, getUuidStr(file->uuid_format));
	2844
[498]	2845	}
	2846	catch (CNetCdfException& e)
	2847	{
	2848	StdString msg("On writing File Attributes \n ");
	2849	msg.append("In the context : ");
	2850	CContext* context = CContext::getCurrent() ;
	2851	msg.append(context->getId()); msg.append("\n");
	2852	msg.append(e.what());
	2853	ERROR("CNc4DataOutput:: writeFileAttributes(const StdString & name, \
	2854	const StdString & description, \
	2855	const StdString & conventions, \
	2856	const StdString & production, \
	2857	const StdString & timeStamp)", << msg);
	2858	}
[219]	2859	}
	2860
	2861	//---------------------------------------------------------------
	2862
	2863	void CNc4DataOutput::writeMaskAttributes(const StdString & mask_name,
	2864	int data_dim,
	2865	int data_ni,
	2866	int data_nj,
	2867	int data_ibegin,
	2868	int data_jbegin)
	2869	{
[498]	2870	try
	2871	{
	2872	SuperClassWriter::addAttribute("data_dim" , data_dim , &mask_name);
	2873	SuperClassWriter::addAttribute("data_ni" , data_ni , &mask_name);
	2874	SuperClassWriter::addAttribute("data_nj" , data_nj , &mask_name);
	2875	SuperClassWriter::addAttribute("data_ibegin", data_ibegin, &mask_name);
	2876	SuperClassWriter::addAttribute("data_jbegin", data_jbegin, &mask_name);
	2877	}
	2878	catch (CNetCdfException& e)
	2879	{
	2880	StdString msg("On writing Mask Attributes \n ");
	2881	msg.append("In the context : ");
	2882	CContext* context = CContext::getCurrent() ;
	2883	msg.append(context->getId()); msg.append("\n");
	2884	msg.append(e.what());
	2885	ERROR("CNc4DataOutput::writeMaskAttributes(const StdString & mask_name, \
	2886	int data_dim, \
	2887	int data_ni, \
	2888	int data_nj, \
	2889	int data_ibegin, \
	2890	int data_jbegin)", << msg);
	2891	}
[219]	2892	}
	2893
	2894	///--------------------------------------------------------------
	2895
[1158]	2896	StdSize CNc4DataOutput::getRecordFromTime(Time time, double factorUnit)
[707]	2897	{
	2898	std::map<Time, StdSize>::const_iterator it = timeToRecordCache.find(time);
	2899	if (it == timeToRecordCache.end())
	2900	{
[802]	2901	StdString timeAxisBoundsId(getTimeCounterName() + "_bounds");
[1158]	2902	if (!SuperClassWriter::varExist(timeAxisBoundsId)) timeAxisBoundsId = "time_centered_bounds";
	2903	if (!SuperClassWriter::varExist(timeAxisBoundsId)) timeAxisBoundsId = "time_instant_bounds";
[707]	2904
	2905	CArray<double,2> timeAxisBounds;
[1158]	2906	std::vector<StdSize> dimSize(SuperClassWriter::getDimensions(timeAxisBoundsId)) ;
	2907
[707]	2908	StdSize record = 0;
	2909	double dtime(time);
[1158]	2910	for (int n = dimSize[0] - 1; n >= 0; n--)
[707]	2911	{
[1158]	2912	SuperClassWriter::getTimeAxisBounds(timeAxisBounds, timeAxisBoundsId, isCollective, n);
	2913	timeAxisBounds*=factorUnit ;
	2914	if (timeAxisBounds(1, 0) < dtime)
[707]	2915	{
	2916	record = n + 1;
	2917	break;
	2918	}
	2919	}
	2920	it = timeToRecordCache.insert(std::make_pair(time, record)).first;
	2921	}
	2922	return it->second;
	2923	}
[774]	2924
	2925	///--------------------------------------------------------------
	2926
	2927	bool CNc4DataOutput::isWrittenDomain(const std::string& domainName) const
	2928	{
	2929	return (this->writtenDomains.find(domainName) != this->writtenDomains.end());
	2930	}
	2931
	2932	bool CNc4DataOutput::isWrittenCompressedDomain(const std::string& domainName) const
	2933	{
	2934	return (this->writtenCompressedDomains.find(domainName) != this->writtenCompressedDomains.end());
	2935	}
	2936
	2937	bool CNc4DataOutput::isWrittenAxis(const std::string& axisName) const
	2938	{
	2939	return (this->writtenAxis.find(axisName) != this->writtenAxis.end());
	2940	}
	2941
	2942	bool CNc4DataOutput::isWrittenCompressedAxis(const std::string& axisName) const
	2943	{
	2944	return (this->writtenCompressedAxis.find(axisName) != this->writtenCompressedAxis.end());
	2945	}
	2946
[887]	2947	bool CNc4DataOutput::isWrittenScalar(const std::string& scalarName) const
	2948	{
	2949	return (this->writtenScalar.find(scalarName) != this->writtenScalar.end());
	2950	}
	2951
[774]	2952	void CNc4DataOutput::setWrittenDomain(const std::string& domainName)
	2953	{
	2954	this->writtenDomains.insert(domainName);
	2955	}
	2956
	2957	void CNc4DataOutput::setWrittenCompressedDomain(const std::string& domainName)
	2958	{
	2959	this->writtenCompressedDomains.insert(domainName);
	2960	}
	2961
	2962	void CNc4DataOutput::setWrittenAxis(const std::string& axisName)
	2963	{
	2964	this->writtenAxis.insert(axisName);
	2965	}
	2966
	2967	void CNc4DataOutput::setWrittenCompressedAxis(const std::string& axisName)
	2968	{
	2969	this->writtenCompressedAxis.insert(axisName);
	2970	}
[887]	2971
	2972	void CNc4DataOutput::setWrittenScalar(const std::string& scalarName)
	2973	{
	2974	this->writtenScalar.insert(scalarName);
	2975	}
[335]	2976	} // namespace xios

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