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nc4_data_output.cpp @ 1243

Last change on this file since 1243 was 1235, checked in by mhnguyen, 7 years ago

Fixing a bug on writting axis label

+) Axis label is correctly processed before being written
+) Do some code cleaning and add some comments

Test
+) On Curie
+) OK

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: 124.9 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();
[881]	56	if (domain->type == CDomain::type_attr::unstructured)
	57	{
	58	if (SuperClassWriter::useCFConvention)
	59	writeUnstructuredDomain(domain) ;
	60	else
	61	writeUnstructuredDomainUgrid(domain) ;
	62	return ;
	63	}
[488]	64
[347]	65	CContext* context = CContext::getCurrent() ;
[300]	66	CContextServer* server=context->server ;
[488]	67
[219]	68	if (domain->IsWritten(this->filename)) return;
	69	domain->checkAttributes();
[488]	70
	71	if (domain->isEmpty())
[881]	72	if (SuperClass::type==MULTI_FILE) return;
[219]	73
	74	std::vector<StdString> dim0, dim1;
[772]	75	StdString domid = domain->getDomainOutputName();
[318]	76	StdString appendDomid = (singleDomain) ? "" : "_"+domid ;
[706]	77	if (isWrittenDomain(domid)) return ;
[774]	78	else setWrittenDomain(domid);
[1132]	79
	80	int nvertex = (domain->nvertex.isEmpty()) ? 0 : domain->nvertex;
[449]	81
[488]	82
[1158]	83	StdString dimXid, dimYid ;
	84
	85	nc_type typePrec ;
	86	if (domain->prec.isEmpty()) typePrec = NC_FLOAT ;
	87	else if (domain->prec==4) typePrec = NC_FLOAT ;
	88	else if (domain->prec==8) typePrec = NC_DOUBLE ;
	89
[664]	90	bool isRegularDomain = (domain->type == CDomain::type_attr::rectilinear);
[449]	91	switch (domain->type)
[433]	92	{
[449]	93	case CDomain::type_attr::curvilinear :
	94	dimXid = StdString("x").append(appendDomid);
	95	dimYid = StdString("y").append(appendDomid);
	96	break ;
[664]	97	case CDomain::type_attr::rectilinear :
[449]	98	dimXid = StdString("lon").append(appendDomid);
	99	dimYid = StdString("lat").append(appendDomid);
	100	break;
[488]	101	}
	102
[617]	103	StdString dimVertId = StdString("nvertex").append(appendDomid);
	104
[449]	105	string lonid,latid,bounds_lonid,bounds_latid ;
[611]	106	string areaId = "area" + appendDomid;
[391]	107	/*
[300]	108	StdString lonid_loc = (server->intraCommSize > 1)
[318]	109	? StdString("lon").append(appendDomid).append("_local")
[278]	110	: lonid;
[300]	111	StdString latid_loc = (server->intraCommSize > 1)
[318]	112	? StdString("lat").append(appendDomid).append("_local")
[278]	113	: latid;
[391]	114	*/
[219]	115
[1129]	116	CArray<size_t, 1>& indexToWrite = domain->localIndexToWriteOnServer;
	117	int nbWritten = indexToWrite.numElements();
	118	CArray<double,1> writtenLat, writtenLon;
	119	CArray<double,2> writtenBndsLat, writtenBndsLon;
	120	CArray<double,1> writtenArea;
	121
	122	if (domain->hasLonLat)
	123	{
	124	writtenLat.resize(nbWritten);
	125	writtenLon.resize(nbWritten);
	126	for (int idx = 0; idx < nbWritten; ++idx)
	127	{
	128	writtenLat(idx) = domain->latvalue(indexToWrite(idx));
	129	writtenLon(idx) = domain->lonvalue(indexToWrite(idx));
	130	}
	131
	132
	133	if (domain->hasBounds)
	134	{
	135	int nvertex = domain->nvertex, idx;
	136	writtenBndsLat.resize(nvertex, nbWritten);
	137	writtenBndsLon.resize(nvertex, nbWritten);
	138	CArray<double,2>& boundslat = domain->bounds_latvalue;
	139	CArray<double,2>& boundslon = domain->bounds_lonvalue;
	140	for (idx = 0; idx < nbWritten; ++idx)
	141	for (int nv = 0; nv < nvertex; ++nv)
	142	{
	143	writtenBndsLat(nv, idx) = boundslat(nv, int(indexToWrite(idx)));
	144	writtenBndsLon(nv, idx) = boundslon(nv, int(indexToWrite(idx)));
	145	}
	146	}
	147	}
	148
	149	if (domain->hasArea)
	150	{
	151	writtenArea.resize(nbWritten);
	152	for (int idx = 0; idx < nbWritten; ++idx)
	153	{
	154	writtenArea(idx) = domain->areavalue(indexToWrite(idx));
	155	}
	156	}
	157
[498]	158	try
[219]	159	{
[498]	160	switch (SuperClass::type)
	161	{
	162	case (MULTI_FILE) :
	163	{
	164	// if (domain->isEmpty()) return;
[488]	165
[498]	166	if (server->intraCommSize > 1)
	167	{
	168	// SuperClassWriter::addDimension(lonid, domain->zoom_ni.getValue());
	169	// SuperClassWriter::addDimension(latid, domain->zoom_nj.getValue());
	170	}
[286]	171
[498]	172	switch (domain->type)
	173	{
	174	case CDomain::type_attr::curvilinear :
	175	dim0.push_back(dimYid); dim0.push_back(dimXid);
	176	lonid = StdString("nav_lon").append(appendDomid);
	177	latid = StdString("nav_lat").append(appendDomid);
	178	break ;
[664]	179	case CDomain::type_attr::rectilinear :
[498]	180	lonid = StdString("lon").append(appendDomid);
	181	latid = StdString("lat").append(appendDomid);
	182	dim0.push_back(dimYid);
	183	dim1.push_back(dimXid);
	184	break;
	185	}
[488]	186
[617]	187	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	188	bounds_latid = StdString("bounds_lat").append(appendDomid);
	189
[1099]	190	SuperClassWriter::addDimension(dimXid, domain->zoom_ni);
	191	SuperClassWriter::addDimension(dimYid, domain->zoom_nj);
[488]	192
[617]	193	if (domain->hasBounds)
	194	SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	195
[498]	196	if (server->intraCommSize > 1)
	197	{
[1099]	198	this->writeLocalAttributes(domain->zoom_ibegin,
	199	domain->zoom_ni,
	200	domain->zoom_jbegin,
	201	domain->zoom_nj,
[616]	202	appendDomid);
[488]	203
[628]	204	if (singleDomain)
	205	this->writeLocalAttributes_IOIPSL(dimXid, dimYid,
[1099]	206	domain->zoom_ibegin,
	207	domain->zoom_ni,
	208	domain->zoom_jbegin,
	209	domain->zoom_nj,
[628]	210	domain->ni_glo,domain->nj_glo,
	211	server->intraCommRank,server->intraCommSize);
[449]	212	}
[488]	213
[665]	214	if (domain->hasLonLat)
[498]	215	{
[665]	216	switch (domain->type)
	217	{
	218	case CDomain::type_attr::curvilinear :
[1158]	219	SuperClassWriter::addVariable(latid, typePrec, dim0);
	220	SuperClassWriter::addVariable(lonid, typePrec, dim0);
[665]	221	break ;
	222	case CDomain::type_attr::rectilinear :
[1158]	223	SuperClassWriter::addVariable(latid, typePrec, dim0);
	224	SuperClassWriter::addVariable(lonid, typePrec, dim1);
[665]	225	break ;
	226	}
[488]	227
[665]	228	this->writeAxisAttributes(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid);
	229	this->writeAxisAttributes(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid);
[219]	230
[665]	231	if (domain->hasBounds)
	232	{
	233	SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid);
	234	SuperClassWriter::addAttribute("bounds", bounds_latid, &latid);
[617]	235
[665]	236	dim0.clear();
	237	dim0.push_back(dimYid);
	238	dim0.push_back(dimXid);
	239	dim0.push_back(dimVertId);
[1158]	240	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0);
	241	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0);
[665]	242	}
[617]	243	}
	244
[498]	245	dim0.clear();
[616]	246	dim0.push_back(dimYid);
[498]	247	dim0.push_back(dimXid);
[219]	248
	249
[498]	250	// supress mask if (server->intraCommSize > 1)
	251	// supress mask {
	252	// supress mask SuperClassWriter::addVariable(maskid, NC_INT, dim0);
	253	// supress mask
	254	// supress mask this->writeMaskAttributes(maskid,
	255	// supress mask domain->data_dim.getValue()/*,
	256	// supress mask domain->data_ni.getValue(),
	257	// supress mask domain->data_nj.getValue(),
	258	// supress mask domain->data_ibegin.getValue(),
	259	// supress mask domain->data_jbegin.getValue()*/);
	260	// supress mask }
[488]	261
[498]	262	//SuperClassWriter::setDefaultValue(maskid, &dvm);
[219]	263
[611]	264	if (domain->hasArea)
	265	{
[1158]	266	SuperClassWriter::addVariable(areaId, typePrec, dim0);
[614]	267	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	268	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	269	}
	270
[498]	271	SuperClassWriter::definition_end();
[449]	272
[665]	273	if (domain->hasLonLat)
[498]	274	{
[665]	275	switch (domain->type)
	276	{
[1129]	277	case CDomain::type_attr::curvilinear :
	278	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0);
	279	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0);
[665]	280	break;
	281	case CDomain::type_attr::rectilinear :
[1129]	282	CArray<double,1> lat = writtenLat(Range(fromStart,toEnd,domain->zoom_ni)) ;
[665]	283	SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0);
[1129]	284	CArray<double,1> lon = writtenLon(Range(0,domain->zoom_ni-1)) ;
[665]	285	SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0);
	286	break;
	287	}
[611]	288
[665]	289	if (domain->hasBounds)
	290	{
[1129]	291	SuperClassWriter::writeData(writtenBndsLon, bounds_lonid, isCollective, 0);
	292	SuperClassWriter::writeData(writtenBndsLat, bounds_latid, isCollective, 0);
[665]	293	}
[617]	294	}
	295
[611]	296	if (domain->hasArea)
[1129]	297	{
[1132]	298	SuperClassWriter::writeData(writtenArea, areaId, isCollective, 0);
[1129]	299	}
	300
[498]	301	SuperClassWriter::definition_start();
[219]	302
[498]	303	break;
	304	}
	305	case (ONE_FILE) :
	306	{
[1099]	307	SuperClassWriter::addDimension(dimXid, domain->global_zoom_ni);
	308	SuperClassWriter::addDimension(dimYid, domain->global_zoom_nj);
[286]	309
[617]	310	if (domain->hasBounds)
	311	SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	312
[665]	313	if (domain->hasLonLat)
[498]	314	{
[665]	315	switch (domain->type)
	316	{
	317	case CDomain::type_attr::curvilinear :
	318	dim0.push_back(dimYid); dim0.push_back(dimXid);
	319	lonid = StdString("nav_lon").append(appendDomid);
	320	latid = StdString("nav_lat").append(appendDomid);
[1158]	321	SuperClassWriter::addVariable(latid, typePrec, dim0);
	322	SuperClassWriter::addVariable(lonid, typePrec, dim0);
[665]	323	break;
[449]	324
[665]	325	case CDomain::type_attr::rectilinear :
	326	dim0.push_back(dimYid);
	327	dim1.push_back(dimXid);
	328	lonid = StdString("lon").append(appendDomid);
	329	latid = StdString("lat").append(appendDomid);
[1158]	330	SuperClassWriter::addVariable(latid, typePrec, dim0);
	331	SuperClassWriter::addVariable(lonid, typePrec, dim1);
[665]	332	break;
	333	}
	334
	335	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	336	bounds_latid = StdString("bounds_lat").append(appendDomid);
	337
	338	this->writeAxisAttributes
	339	(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid);
	340	this->writeAxisAttributes
	341	(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid);
	342
	343	if (domain->hasBounds)
	344	{
	345	SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid);
	346	SuperClassWriter::addAttribute("bounds", bounds_latid, &latid);
	347
	348	dim0.clear();
[498]	349	dim0.push_back(dimYid);
[665]	350	dim0.push_back(dimXid);
	351	dim0.push_back(dimVertId);
[1158]	352	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0);
	353	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0);
[665]	354	}
[498]	355	}
[611]	356
	357	if (domain->hasArea)
	358	{
	359	dim0.clear();
	360	dim0.push_back(dimYid); dim0.push_back(dimXid);
[1158]	361	SuperClassWriter::addVariable(areaId, typePrec, dim0);
[614]	362	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	363	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	364	dim0.clear();
	365	}
	366
	367	SuperClassWriter::definition_end();
[286]	368
[498]	369	switch (domain->type)
[384]	370	{
[498]	371	case CDomain::type_attr::curvilinear :
[449]	372	{
[498]	373	std::vector<StdSize> start(2) ;
	374	std::vector<StdSize> count(2) ;
	375	if (domain->isEmpty())
	376	{
[611]	377	start[0]=0 ; start[1]=0 ;
[498]	378	count[0]=0 ; count[1]=0 ;
	379	}
	380	else
	381	{
[1099]	382	start[1]=domain->zoom_ibegin-domain->global_zoom_ibegin;
	383	start[0]=domain->zoom_jbegin-domain->global_zoom_jbegin;
	384	count[1]=domain->zoom_ni ; count[0]=domain->zoom_nj ;
[498]	385	}
[488]	386
[665]	387	if (domain->hasLonLat)
	388	{
[1129]	389	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0,&start,&count);
	390	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0,&start,&count);
[665]	391	}
[498]	392	break;
	393	}
[664]	394	case CDomain::type_attr::rectilinear :
[449]	395	{
[665]	396	if (domain->hasLonLat)
[498]	397	{
[665]	398	std::vector<StdSize> start(1) ;
	399	std::vector<StdSize> count(1) ;
	400	if (domain->isEmpty())
	401	{
	402	start[0]=0 ;
	403	count[0]=0 ;
[1129]	404	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0,&start,&count);
	405	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0,&start,&count);
[665]	406	}
	407	else
[1129]	408	{
[1099]	409	start[0]=domain->zoom_jbegin-domain->global_zoom_jbegin;
[1143]	410	count[0]=domain->zoom_nj;
[1129]	411	CArray<double,1> lat = writtenLat(Range(fromStart,toEnd,domain->zoom_ni));
[665]	412	SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0,&start,&count);
	413
[1099]	414	start[0]=domain->zoom_ibegin-domain->global_zoom_ibegin;
[1143]	415	count[0]=domain->zoom_ni;
[1129]	416	CArray<double,1> lon = writtenLon(Range(0,domain->zoom_ni-1));
[665]	417	SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0,&start,&count);
	418	}
[498]	419	}
	420	break;
[449]	421	}
[384]	422	}
[611]	423
[617]	424	if (domain->hasBounds)
	425	{
	426	std::vector<StdSize> start(3);
	427	std::vector<StdSize> count(3);
	428	if (domain->isEmpty())
	429	{
	430	start[2] = start[1] = start[0] = 0;
	431	count[2] = count[1] = count[0] = 0;
	432	}
	433	else
	434	{
	435	start[2] = 0;
[1099]	436	start[1] = domain->zoom_ibegin - domain->global_zoom_ibegin;
	437	start[0] = domain->zoom_jbegin - domain->global_zoom_jbegin;
	438	count[2] = domain->nvertex;
	439	count[1] = domain->zoom_ni;
	440	count[0] = domain->zoom_nj;
[617]	441	}
[1143]	442
[1129]	443	SuperClassWriter::writeData(writtenBndsLon, bounds_lonid, isCollective, 0, &start, &count);
	444	SuperClassWriter::writeData(writtenBndsLat, bounds_latid, isCollective, 0, &start, &count);
[617]	445	}
	446
[611]	447	if (domain->hasArea)
	448	{
	449	std::vector<StdSize> start(2);
	450	std::vector<StdSize> count(2);
	451
	452	if (domain->isEmpty())
	453	{
	454	start[0] = 0; start[1] = 0;
	455	count[0] = 0; count[1] = 0;
	456	}
	457	else
	458	{
[1099]	459	start[1] = domain->zoom_ibegin - domain->global_zoom_ibegin;
	460	start[0] = domain->zoom_jbegin - domain->global_zoom_jbegin;
	461	count[1] = domain->zoom_ni;
	462	count[0] = domain->zoom_nj;
[611]	463	}
[1143]	464
[1129]	465	SuperClassWriter::writeData(writtenArea, areaId, isCollective, 0, &start, &count);
[611]	466	}
	467
[498]	468	SuperClassWriter::definition_start();
	469	break;
	470	}
	471	default :
	472	ERROR("CNc4DataOutput::writeDomain(domain)",
	473	<< "[ type = " << SuperClass::type << "]"
	474	<< " not implemented yet !");
	475	}
[449]	476	}
[498]	477	catch (CNetCdfException& e)
	478	{
	479	StdString msg("On writing the domain : ");
	480	msg.append(domid); msg.append("\n");
	481	msg.append("In the context : ");
	482	msg.append(context->getId()); msg.append("\n");
	483	msg.append(e.what());
	484	ERROR("CNc4DataOutput::writeDomain_(CDomain* domain)", << msg);
	485	}
	486
[449]	487	domain->addRelFile(this->filename);
	488	}
	489
[879]	490	//--------------------------------------------------------------
[878]	491
[879]	492	void CNc4DataOutput::writeUnstructuredDomainUgrid(CDomain* domain)
	493	{
	494	CContext* context = CContext::getCurrent() ;
	495	CContextServer* server=context->server ;
[878]	496
[879]	497	if (domain->IsWritten(this->filename)) return;
	498	domain->checkAttributes();
	499	if (domain->isEmpty())
	500	if (SuperClass::type==MULTI_FILE) return ;
[878]	501
[1158]	502	nc_type typePrec ;
	503	if (domain->prec.isEmpty()) typePrec = NC_FLOAT ;
	504	else if (domain->prec==4) typePrec = NC_FLOAT ;
	505	else if (domain->prec==8) typePrec = NC_DOUBLE ;
	506
[879]	507	std::vector<StdString> dim0;
	508	StdString domid = domain->getDomainOutputName();
	509	StdString domainName = domain->name;
[924]	510	domain->assignMesh(domainName, domain->nvertex);
[1025]	511	domain->mesh->createMeshEpsilon(server->intraComm, domain->lonvalue, domain->latvalue, domain->bounds_lonvalue, domain->bounds_latvalue);
[878]	512
[879]	513	StdString node_x = domainName + "_node_x";
	514	StdString node_y = domainName + "_node_y";
[878]	515
[879]	516	StdString edge_x = domainName + "_edge_x";
	517	StdString edge_y = domainName + "_edge_y";
	518	StdString edge_nodes = domainName + "_edge_nodes";
[878]	519
[879]	520	StdString face_x = domainName + "_face_x";
	521	StdString face_y = domainName + "_face_y";
	522	StdString face_nodes = domainName + "_face_nodes";
[902]	523	StdString face_edges = domainName + "_face_edges";
	524	StdString edge_faces = domainName + "_edge_face_links";
	525	StdString face_faces = domainName + "_face_links";
[878]	526
[879]	527	StdString dimNode = "n" + domainName + "_node";
	528	StdString dimEdge = "n" + domainName + "_edge";
	529	StdString dimFace = "n" + domainName + "_face";
	530	StdString dimVertex = "n" + domainName + "_vertex";
	531	StdString dimTwo = "Two";
[878]	532
[879]	533	if (!SuperClassWriter::dimExist(dimTwo)) SuperClassWriter::addDimension(dimTwo, 2);
	534	if (!isWrittenDomain(domid))
	535	{
	536	dim0.clear();
	537	SuperClassWriter::addVariable(domainName, NC_INT, dim0);
	538	SuperClassWriter::addAttribute("cf_role", StdString("mesh_topology"), &domainName);
[924]	539	SuperClassWriter::addAttribute("long_name", StdString("Topology data of 2D unstructured mesh"), &domainName);
	540	SuperClassWriter::addAttribute("topology_dimension", 2, &domainName);
[879]	541	SuperClassWriter::addAttribute("node_coordinates", node_x + " " + node_y, &domainName);
	542	}
[878]	543
[879]	544	try
	545	{
	546	switch (SuperClass::type)
	547	{
	548	case (ONE_FILE) :
	549	{
	550	// Adding nodes
	551	if (domain->nvertex == 1)
	552	{
	553	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
	554	{
[902]	555	SuperClassWriter::addDimension(dimNode, domain->ni_glo);
[879]	556	dim0.clear();
	557	dim0.push_back(dimNode);
[1158]	558	SuperClassWriter::addVariable(node_x, typePrec, dim0);
[879]	559	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
[924]	560	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
[879]	561	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
[1158]	562	SuperClassWriter::addVariable(node_y, typePrec, dim0);
[879]	563	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
[924]	564	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
[879]	565	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
	566	}
	567	} // domain->nvertex == 1
[878]	568
[879]	569	// Adding edges and nodes, if nodes have not been defined previously
	570	if (domain->nvertex == 2)
	571	{
	572	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
	573	{
[924]	574	SuperClassWriter::addDimension(dimNode, domain->mesh->nbNodesGlo);
[879]	575	dim0.clear();
	576	dim0.push_back(dimNode);
[1158]	577	SuperClassWriter::addVariable(node_x, typePrec, dim0);
[879]	578	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
[924]	579	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
[879]	580	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
[1158]	581	SuperClassWriter::addVariable(node_y, typePrec, dim0);
[879]	582	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
[924]	583	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
[879]	584	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
	585	}
[924]	586	SuperClassWriter::addAttribute("edge_node_connectivity", edge_nodes, &domainName);
	587	SuperClassWriter::addAttribute("edge_coordinates", edge_x + " " + edge_y, &domainName);
	588	SuperClassWriter::addDimension(dimEdge, domain->ni_glo);
	589	dim0.clear();
	590	dim0.push_back(dimEdge);
[1158]	591	SuperClassWriter::addVariable(edge_x, typePrec, dim0);
[924]	592	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &edge_x);
	593	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh edges."), &edge_x);
	594	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &edge_x);
[1158]	595	SuperClassWriter::addVariable(edge_y, typePrec, dim0);
[924]	596	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &edge_y);
	597	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh edges."), &edge_y);
	598	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &edge_y);
	599	dim0.clear();
	600	dim0.push_back(dimEdge);
	601	dim0.push_back(dimTwo);
	602	SuperClassWriter::addVariable(edge_nodes, NC_INT, dim0);
	603	SuperClassWriter::addAttribute("cf_role", StdString("edge_node_connectivity"), &edge_nodes);
	604	SuperClassWriter::addAttribute("long_name", StdString("Maps every edge/link to two nodes that it connects."), &edge_nodes);
	605	SuperClassWriter::addAttribute("start_index", 0, &edge_nodes);
[879]	606	} // domain->nvertex == 2
[878]	607
[879]	608	// Adding faces, edges, and nodes, if edges and nodes have not been defined previously
	609	if (domain->nvertex > 2)
	610	{
	611	// Nodes
	612	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
	613	{
[924]	614	SuperClassWriter::addDimension(dimNode, domain->mesh->nbNodesGlo);
[879]	615	dim0.clear();
	616	dim0.push_back(dimNode);
[1158]	617	SuperClassWriter::addVariable(node_x, typePrec, dim0);
[879]	618	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
[924]	619	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
[879]	620	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
[1158]	621	SuperClassWriter::addVariable(node_y, typePrec, dim0);
[879]	622	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
[924]	623	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
[879]	624	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
	625	}
	626	if (!SuperClassWriter::varExist(edge_x) \|\| !SuperClassWriter::varExist(edge_y))
	627	{
	628	SuperClassWriter::addAttribute("edge_coordinates", edge_x + " " + edge_y, &domainName);
	629	SuperClassWriter::addAttribute("edge_node_connectivity", edge_nodes, &domainName);
[924]	630	SuperClassWriter::addDimension(dimEdge, domain->mesh->nbEdgesGlo);
[879]	631	dim0.clear();
	632	dim0.push_back(dimEdge);
[1158]	633	SuperClassWriter::addVariable(edge_x, typePrec, dim0);
[879]	634	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &edge_x);
[924]	635	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh edges."), &edge_x);
[879]	636	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &edge_x);
[1158]	637	SuperClassWriter::addVariable(edge_y, typePrec, dim0);
[879]	638	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &edge_y);
[924]	639	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh edges."), &edge_y);
[879]	640	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &edge_y);
	641	dim0.clear();
	642	dim0.push_back(dimEdge);
	643	dim0.push_back(dimTwo);
	644	SuperClassWriter::addVariable(edge_nodes, NC_INT, dim0);
	645	SuperClassWriter::addAttribute("cf_role", StdString("edge_node_connectivity"), &edge_nodes);
	646	SuperClassWriter::addAttribute("long_name", StdString("Maps every edge/link to two nodes that it connects."), &edge_nodes);
	647	SuperClassWriter::addAttribute("start_index", 0, &edge_nodes);
	648	}
[924]	649	SuperClassWriter::addAttribute("face_coordinates", face_x + " " + face_y, &domainName);
	650	SuperClassWriter::addAttribute("face_node_connectivity", face_nodes, &domainName);
	651	SuperClassWriter::addDimension(dimFace, domain->ni_glo);
	652	SuperClassWriter::addDimension(dimVertex, domain->nvertex);
	653	dim0.clear();
	654	dim0.push_back(dimFace);
[1158]	655	SuperClassWriter::addVariable(face_x, typePrec, dim0);
[924]	656	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &face_x);
	657	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh faces."), &face_x);
	658	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &face_x);
[1158]	659	SuperClassWriter::addVariable(face_y, typePrec, dim0);
[924]	660	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &face_y);
	661	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh faces."), &face_y);
	662	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &face_y);
	663	dim0.clear();
	664	dim0.push_back(dimFace);
	665	dim0.push_back(dimVertex);
	666	SuperClassWriter::addVariable(face_nodes, NC_INT, dim0);
	667	SuperClassWriter::addAttribute("cf_role", StdString("face_node_connectivity"), &face_nodes);
	668	SuperClassWriter::addAttribute("long_name", StdString("Maps every face to its corner nodes."), &face_nodes);
	669	SuperClassWriter::addAttribute("start_index", 0, &face_nodes);
	670	dim0.clear();
	671	dim0.push_back(dimFace);
	672	dim0.push_back(dimVertex);
	673	SuperClassWriter::addVariable(face_edges, NC_INT, dim0);
	674	SuperClassWriter::addAttribute("cf_role", StdString("face_edge_connectivity"), &face_edges);
	675	SuperClassWriter::addAttribute("long_name", StdString("Maps every face to its edges."), &face_edges);
	676	SuperClassWriter::addAttribute("start_index", 0, &face_edges);
[929]	677	SuperClassWriter::addAttribute("_FillValue", 999999, &face_edges);
[924]	678	dim0.clear();
	679	dim0.push_back(dimEdge);
	680	dim0.push_back(dimTwo);
	681	SuperClassWriter::addVariable(edge_faces, NC_INT, dim0);
	682	SuperClassWriter::addAttribute("cf_role", StdString("edge_face connectivity"), &edge_faces);
	683	SuperClassWriter::addAttribute("long_name", StdString("neighbor faces for edges"), &edge_faces);
	684	SuperClassWriter::addAttribute("start_index", 0, &edge_faces);
	685	SuperClassWriter::addAttribute("_FillValue", -999, &edge_faces);
	686	SuperClassWriter::addAttribute("comment", StdString("missing neighbor faces are indicated using _FillValue"), &edge_faces);
	687	dim0.clear();
	688	dim0.push_back(dimFace);
	689	dim0.push_back(dimVertex);
	690	SuperClassWriter::addVariable(face_faces, NC_INT, dim0);
	691	SuperClassWriter::addAttribute("cf_role", StdString("face_face connectivity"), &face_faces);
	692	SuperClassWriter::addAttribute("long_name", StdString("Indicates which other faces neighbor each face"), &face_faces);
	693	SuperClassWriter::addAttribute("start_index", 0, &face_faces);
[929]	694	SuperClassWriter::addAttribute("_FillValue", 999999, &face_faces);
[924]	695	SuperClassWriter::addAttribute("flag_values", -1, &face_faces);
	696	SuperClassWriter::addAttribute("flag_meanings", StdString("out_of_mesh"), &face_faces);
[879]	697	} // domain->nvertex > 2
[878]	698
[879]	699	SuperClassWriter::definition_end();
[878]	700
[924]	701	std::vector<StdSize> startEdges(1) ;
	702	std::vector<StdSize> countEdges(1) ;
	703	std::vector<StdSize> startNodes(1) ;
	704	std::vector<StdSize> countNodes(1) ;
	705	std::vector<StdSize> startFaces(1) ;
	706	std::vector<StdSize> countFaces(1) ;
	707	std::vector<StdSize> startEdgeNodes(2) ;
	708	std::vector<StdSize> countEdgeNodes(2) ;
	709	std::vector<StdSize> startEdgeFaces(2) ;
	710	std::vector<StdSize> countEdgeFaces(2) ;
	711	std::vector<StdSize> startFaceConctv(2) ;
	712	std::vector<StdSize> countFaceConctv(2) ;
[902]	713
[879]	714	if (!isWrittenDomain(domid))
	715	{
	716	if (domain->nvertex == 1)
	717	{
[924]	718	if (domain->isEmpty())
	719	{
	720	startNodes[0]=0 ;
	721	countNodes[0]=0 ;
	722	}
	723	else
	724	{
[1132]	725	startNodes[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	726	countNodes[0] = domain->zoom_ni ;
[924]	727	}
	728
	729	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
	730	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
[879]	731	}
	732	else if (domain->nvertex == 2)
[924]	733	{
	734	if (domain->isEmpty())
	735	{
	736	startEdges[0]=0 ;
	737	countEdges[0]=0 ;
	738	startNodes[0]=0 ;
	739	countNodes[0]=0 ;
	740	startEdgeNodes[0]=0;
	741	startEdgeNodes[1]=0;
	742	countEdgeNodes[0]=0;
	743	countEdgeNodes[1]=0;
	744
	745	}
	746	else
	747	{
[1132]	748	startEdges[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	749	countEdges[0] = domain->zoom_ni;
[924]	750	startNodes[0] = domain->mesh->node_start;
	751	countNodes[0] = domain->mesh->node_count;
[1132]	752	startEdgeNodes[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
[924]	753	startEdgeNodes[1] = 0;
[1132]	754	countEdgeNodes[0] = domain->zoom_ni;
	755	countEdgeNodes[1] = 2;
[924]	756	}
	757	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
	758	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
	759	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
	760	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
	761	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
	762	}
[879]	763	else
	764	{
[924]	765	if (domain->isEmpty())
	766	{
	767	startFaces[0] = 0 ;
	768	countFaces[0] = 0 ;
	769	startNodes[0] = 0;
	770	countNodes[0] = 0;
	771	startEdges[0] = 0;
	772	countEdges[0] = 0;
	773	startEdgeFaces[0] = 0;
	774	startEdgeFaces[1] = 0;
	775	countEdgeFaces[0] = 0;
	776	countEdgeFaces[1] = 0;
	777	startFaceConctv[0] = 0;
	778	startFaceConctv[1] = 0;
	779	countFaceConctv[0] = 0;
	780	countFaceConctv[1] = 0;
	781	}
	782	else
	783	{
[1132]	784	startFaces[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	785	countFaces[0] = domain->zoom_ni ;
[924]	786	startNodes[0] = domain->mesh->node_start;
	787	countNodes[0] = domain->mesh->node_count;
	788	startEdges[0] = domain->mesh->edge_start;
	789	countEdges[0] = domain->mesh->edge_count;
	790	startEdgeNodes[0] = domain->mesh->edge_start;
	791	startEdgeNodes[1] = 0;
	792	countEdgeNodes[0] = domain->mesh->edge_count;
	793	countEdgeNodes[1]= 2;
	794	startEdgeFaces[0] = domain->mesh->edge_start;
	795	startEdgeFaces[1]= 0;
	796	countEdgeFaces[0] = domain->mesh->edge_count;
	797	countEdgeFaces[1]= 2;
[1132]	798	startFaceConctv[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	799	startFaceConctv[1] = 0;
	800	countFaceConctv[0] = domain->zoom_ni;
[924]	801	countFaceConctv[1] = domain->nvertex;
	802	}
	803	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
	804	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
	805	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
	806	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
	807	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
	808	SuperClassWriter::writeData(domain->mesh->face_lat, face_y, isCollective, 0, &startFaces, &countFaces);
	809	SuperClassWriter::writeData(domain->mesh->face_lon, face_x, isCollective, 0, &startFaces, &countFaces);
	810	SuperClassWriter::writeData(domain->mesh->face_nodes, face_nodes, isCollective, 0, &startFaceConctv, &countFaceConctv);
	811	SuperClassWriter::writeData(domain->mesh->face_edges, face_edges, isCollective, 0, &startFaceConctv, &countFaceConctv);
	812	SuperClassWriter::writeData(domain->mesh->edge_faces, edge_faces, isCollective, 0, &startEdgeFaces, &countEdgeFaces);
	813	SuperClassWriter::writeData(domain->mesh->face_faces, face_faces, isCollective, 0, &startFaceConctv, &countFaceConctv);
[879]	814	}
	815	setWrittenDomain(domid);
	816	} // !isWrittenDomain
	817	else
	818	{
	819	if (domain->nvertex == 2)
	820	{
[1132]	821	startEdges[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	822	countEdges[0] = domain->zoom_ni;
	823	startEdgeNodes[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	824	startEdgeNodes[1] = 0;
	825	countEdgeNodes[0] = domain->zoom_ni;
[924]	826	countEdgeNodes[1]= 2;
	827	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
	828	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
	829	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
[879]	830	}
	831	if (domain->nvertex > 2)
	832	{
[924]	833
[879]	834	if (!domain->mesh->edgesAreWritten)
	835	{
[924]	836	startEdges[0] = domain->mesh->edge_start;
	837	countEdges[0] = domain->mesh->edge_count;
	838	startEdgeNodes[0] = domain->mesh->edge_start;
	839	startEdgeNodes[1] = 0;
	840	countEdgeNodes[0] = domain->mesh->edge_count;
	841	countEdgeNodes[1]= 2;
	842	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
	843	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
	844	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
[879]	845	}
[1132]	846	startFaces[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	847	countFaces[0] = domain->zoom_ni;
[924]	848	startEdgeFaces[0] = domain->mesh->edge_start;
	849	startEdgeFaces[1]= 0;
	850	countEdgeFaces[0] = domain->mesh->edge_count;
	851	countEdgeFaces[1]= 2;
[1132]	852	startFaceConctv[0] = domain->zoom_ibegin-domain->global_zoom_ibegin;
	853	startFaceConctv[1] = 0;
	854	countFaceConctv[0] = domain->zoom_ni;
	855	countFaceConctv[1] = domain->nvertex;
[924]	856	SuperClassWriter::writeData(domain->mesh->face_lat, face_y, isCollective, 0, &startFaces, &countFaces);
	857	SuperClassWriter::writeData(domain->mesh->face_lon, face_x, isCollective, 0, &startFaces, &countFaces);
	858	SuperClassWriter::writeData(domain->mesh->face_nodes, face_nodes, isCollective, 0, &startFaceConctv, &countFaceConctv);
	859	SuperClassWriter::writeData(domain->mesh->face_edges, face_edges, isCollective, 0, &startFaceConctv, &countFaceConctv);
	860	SuperClassWriter::writeData(domain->mesh->edge_faces, edge_faces, isCollective, 0, &startEdgeFaces, &countEdgeFaces);
	861	SuperClassWriter::writeData(domain->mesh->face_faces, face_faces, isCollective, 0, &startFaceConctv, &countFaceConctv);
[879]	862	}
	863	}// isWrittenDomain
[878]	864
[879]	865	SuperClassWriter::definition_start();
[878]	866
[879]	867	break;
	868	} // ONE_FILE
[878]	869
[879]	870	case (MULTI_FILE) :
	871	{
	872	break;
	873	}
[878]	874
[879]	875	default :
	876	ERROR("CNc4DataOutput::writeDomain(domain)",
	877	<< "[ type = " << SuperClass::type << "]"
	878	<< " not implemented yet !");
	879	} // switch
	880	} // try
[878]	881
[879]	882	catch (CNetCdfException& e)
	883	{
	884	StdString msg("On writing the domain : ");
	885	msg.append(domid); msg.append("\n");
	886	msg.append("In the context : ");
	887	msg.append(context->getId()); msg.append("\n");
	888	msg.append(e.what());
[924]	889	ERROR("CNc4DataOutput::writeUnstructuredDomainUgrid(CDomain* domain)", << msg);
[879]	890	}
[878]	891
[879]	892	domain->addRelFile(this->filename);
	893	}
[878]	894
[879]	895	//--------------------------------------------------------------
[878]	896
[879]	897	void CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)
[449]	898	{
	899	CContext* context = CContext::getCurrent() ;
	900	CContextServer* server=context->server ;
[488]	901
[449]	902	if (domain->IsWritten(this->filename)) return;
	903	domain->checkAttributes();
[488]	904
	905	if (domain->isEmpty())
[449]	906	if (SuperClass::type==MULTI_FILE) return ;
	907
	908	std::vector<StdString> dim0, dim1;
[772]	909	StdString domid = domain->getDomainOutputName();
[705]	910	if (isWrittenDomain(domid)) return ;
[774]	911	else setWrittenDomain(domid);
[705]	912
[449]	913	StdString appendDomid = (singleDomain) ? "" : "_"+domid ;
	914
	915	StdString dimXid = StdString("cell").append(appendDomid);
	916	StdString dimVertId = StdString("nvertex").append(appendDomid);
[488]	917
[449]	918	string lonid,latid,bounds_lonid,bounds_latid ;
[611]	919	string areaId = "area" + appendDomid;
[449]	920
[1158]	921	nc_type typePrec ;
	922	if (domain->prec.isEmpty()) typePrec = NC_FLOAT ;
	923	else if (domain->prec==4) typePrec = NC_FLOAT ;
	924	else if (domain->prec==8) typePrec = NC_DOUBLE ;
	925
[1132]	926	int nvertex = (domain->nvertex.isEmpty()) ? 0 : domain->nvertex;
[1025]	927
[1132]	928	CArray<size_t, 1>& indexToWrite = domain->localIndexToWriteOnServer;
	929	int nbWritten = indexToWrite.numElements();
	930	CArray<double,1> writtenLat, writtenLon;
	931	CArray<double,2> writtenBndsLat, writtenBndsLon;
	932	CArray<double,1> writtenArea;
	933
	934	if (domain->hasLonLat)
	935	{
	936	writtenLat.resize(nbWritten);
	937	writtenLon.resize(nbWritten);
	938	for (int idx = 0; idx < nbWritten; ++idx)
	939	{
	940	writtenLat(idx) = domain->latvalue(indexToWrite(idx));
	941	writtenLon(idx) = domain->lonvalue(indexToWrite(idx));
	942	}
	943
	944
	945	if (domain->hasBounds)
	946	{
	947	int nvertex = domain->nvertex, idx;
	948	writtenBndsLat.resize(nvertex, nbWritten);
	949	writtenBndsLon.resize(nvertex, nbWritten);
	950	CArray<double,2>& boundslat = domain->bounds_latvalue;
	951	CArray<double,2>& boundslon = domain->bounds_lonvalue;
	952	for (idx = 0; idx < nbWritten; ++idx)
	953	for (int nv = 0; nv < nvertex; ++nv)
	954	{
	955	writtenBndsLat(nv, idx) = boundslat(nv, int(indexToWrite(idx)));
	956	writtenBndsLon(nv, idx) = boundslon(nv, int(indexToWrite(idx)));
	957	}
	958	}
	959	}
	960
	961	if (domain->hasArea)
	962	{
	963	writtenArea.resize(nbWritten);
	964	for (int idx = 0; idx < nbWritten; ++idx)
	965	{
	966	writtenArea(idx) = domain->areavalue(indexToWrite(idx));
	967	}
	968	}
	969
[498]	970	try
[449]	971	{
[498]	972	switch (SuperClass::type)
	973	{
	974	case (MULTI_FILE) :
	975	{
	976	dim0.push_back(dimXid);
[1132]	977	SuperClassWriter::addDimension(dimXid, domain->zoom_ni);
[488]	978
[665]	979	lonid = StdString("lon").append(appendDomid);
	980	latid = StdString("lat").append(appendDomid);
[498]	981	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	982	bounds_latid = StdString("bounds_lat").append(appendDomid);
[665]	983	if (domain->hasLonLat)
	984	{
[1158]	985	SuperClassWriter::addVariable(latid, typePrec, dim0);
	986	SuperClassWriter::addVariable(lonid, typePrec, dim0);
[665]	987	this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid);
	988	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid);
	989	this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid);
	990	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid);
	991	if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	992	}
[498]	993	dim0.clear();
	994	if (domain->hasBounds)
	995	{
	996	dim0.push_back(dimXid);
	997	dim0.push_back(dimVertId);
[1158]	998	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0);
	999	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0);
[498]	1000	}
	1001
	1002	dim0.clear();
[449]	1003	dim0.push_back(dimXid);
[611]	1004	if (domain->hasArea)
	1005	{
[1158]	1006	SuperClassWriter::addVariable(areaId, typePrec, dim0);
[614]	1007	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	1008	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	1009	}
	1010
[498]	1011	SuperClassWriter::definition_end();
[449]	1012
[665]	1013	if (domain->hasLonLat)
[498]	1014	{
[1132]	1015	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0);
	1016	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0);
[665]	1017	if (domain->hasBounds)
	1018	{
[1132]	1019	SuperClassWriter::writeData(writtenBndsLon, bounds_lonid, isCollective, 0);
	1020	SuperClassWriter::writeData(writtenBndsLat, bounds_latid, isCollective, 0);
[665]	1021	}
[498]	1022	}
[611]	1023
	1024	if (domain->hasArea)
[1132]	1025	SuperClassWriter::writeData(writtenArea, areaId, isCollective, 0);
[611]	1026
[498]	1027	SuperClassWriter::definition_start();
	1028	break ;
	1029	}
[488]	1030
[498]	1031	case (ONE_FILE) :
	1032	{
	1033	lonid = StdString("lon").append(appendDomid);
	1034	latid = StdString("lat").append(appendDomid);
	1035	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	1036	bounds_latid = StdString("bounds_lat").append(appendDomid);
	1037	dim0.push_back(dimXid);
[1132]	1038	SuperClassWriter::addDimension(dimXid, domain->ni_glo);
[665]	1039	if (domain->hasLonLat)
	1040	{
[1158]	1041	SuperClassWriter::addVariable(latid, typePrec, dim0);
	1042	SuperClassWriter::addVariable(lonid, typePrec, dim0);
[665]	1043
	1044	this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid);
	1045	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid);
	1046	this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid);
	1047	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid);
[1025]	1048	if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, nvertex);
[665]	1049	}
[498]	1050	dim0.clear();
[449]	1051
[498]	1052	if (domain->hasBounds)
	1053	{
	1054	dim0.push_back(dimXid);
	1055	dim0.push_back(dimVertId);
[1158]	1056	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0);
	1057	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0);
[498]	1058	}
[488]	1059
[611]	1060	if (domain->hasArea)
	1061	{
	1062	dim0.clear();
	1063	dim0.push_back(dimXid);
[1158]	1064	SuperClassWriter::addVariable(areaId, typePrec, dim0);
[614]	1065	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	1066	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	1067	}
	1068
[498]	1069	SuperClassWriter::definition_end();
[488]	1070
[498]	1071	std::vector<StdSize> start(1), startBounds(2) ;
	1072	std::vector<StdSize> count(1), countBounds(2) ;
	1073	if (domain->isEmpty())
	1074	{
	1075	start[0]=0 ;
	1076	count[0]=0 ;
	1077	startBounds[1]=0 ;
[1025]	1078	countBounds[1]=nvertex ;
[498]	1079	startBounds[0]=0 ;
	1080	countBounds[0]=0 ;
	1081	}
	1082	else
	1083	{
[1132]	1084	start[0]=domain->zoom_ibegin - domain->global_zoom_ibegin;
	1085	count[0]=domain->zoom_ni;
	1086	startBounds[0]=domain->zoom_ibegin-domain->global_zoom_ibegin;
[498]	1087	startBounds[1]=0 ;
[1132]	1088	countBounds[0]=domain->zoom_ni;
[1025]	1089	countBounds[1]=nvertex ;
[498]	1090	}
[665]	1091
	1092	if (domain->hasLonLat)
[498]	1093	{
[1132]	1094	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0,&start,&count);
	1095	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0,&start,&count);
[665]	1096	if (domain->hasBounds)
	1097	{
[1132]	1098	SuperClassWriter::writeData(writtenBndsLon, bounds_lonid, isCollective, 0,&startBounds,&countBounds);
	1099	SuperClassWriter::writeData(writtenBndsLat, bounds_latid, isCollective, 0,&startBounds,&countBounds);
[665]	1100	}
[498]	1101	}
[488]	1102
[611]	1103	if (domain->hasArea)
[1132]	1104	SuperClassWriter::writeData(writtenArea, areaId, isCollective, 0, &start, &count);
[488]	1105
[498]	1106	SuperClassWriter::definition_start();
[488]	1107
[498]	1108	break;
	1109	}
	1110	default :
	1111	ERROR("CNc4DataOutput::writeDomain(domain)",
	1112	<< "[ type = " << SuperClass::type << "]"
	1113	<< " not implemented yet !");
	1114	}
[219]	1115	}
[498]	1116	catch (CNetCdfException& e)
	1117	{
	1118	StdString msg("On writing the domain : ");
	1119	msg.append(domid); msg.append("\n");
	1120	msg.append("In the context : ");
	1121	msg.append(context->getId()); msg.append("\n");
	1122	msg.append(e.what());
	1123	ERROR("CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)", << msg);
	1124	}
[219]	1125	domain->addRelFile(this->filename);
	1126	}
	1127	//--------------------------------------------------------------
	1128
[347]	1129	void CNc4DataOutput::writeAxis_(CAxis* axis)
[219]	1130	{
[1030]	1131	if (axis->IsWritten(this->filename)) return;
	1132	axis->checkAttributes();
[488]	1133
[1129]	1134	axis->computeWrittenIndex();
	1135
[1099]	1136	int zoom_size = (MULTI_FILE == SuperClass::type) ? axis->zoom_n
	1137	: axis->global_zoom_n;
	1138
[1235]	1139	int zoom_count = axis->zoom_n;
	1140	int zoom_begin = axis->zoom_begin;
	1141	// int zoom_begin = (MULTI_FILE == SuperClass::type) ? axis->global_zoom_begin
	1142	// : axis->zoom_begin;
	1143
[1099]	1144	if ((0 == axis->zoom_n) && (MULTI_FILE == SuperClass::type)) return;
	1145
[1030]	1146	std::vector<StdString> dims;
	1147	StdString axisid = axis->getAxisOutputName();
	1148	if (isWrittenAxis(axisid)) return ;
	1149	else setWrittenAxis(axisid);
[705]	1150
[1158]	1151	nc_type typePrec ;
	1152	if (axis->prec.isEmpty()) typePrec = NC_FLOAT ;
[1235]	1153	else if (axis->prec==4) typePrec = NC_FLOAT ;
[1158]	1154	else if (axis->prec==8) typePrec = NC_DOUBLE ;
	1155
	1156	if (!axis->label.isEmpty()) typePrec = NC_CHAR ;
	1157	string strId="str_len" ;
[1030]	1158	try
	1159	{
[1099]	1160	SuperClassWriter::addDimension(axisid, zoom_size);
[1158]	1161	if (!axis->label.isEmpty()) SuperClassWriter::addDimension(strId, stringArrayLen);
[1030]	1162	if (axis->hasValue)
[816]	1163	{
[1030]	1164	dims.push_back(axisid);
[1158]	1165	if (!axis->label.isEmpty()) dims.push_back(strId);
	1166	SuperClassWriter::addVariable(axisid, typePrec, dims);
[219]	1167
[1030]	1168	if (!axis->name.isEmpty())
	1169	SuperClassWriter::addAttribute("name", axis->name.getValue(), &axisid);
[219]	1170
[1030]	1171	if (!axis->standard_name.isEmpty())
	1172	SuperClassWriter::addAttribute("standard_name", axis->standard_name.getValue(), &axisid);
[540]	1173
[1030]	1174	if (!axis->long_name.isEmpty())
	1175	SuperClassWriter::addAttribute("long_name", axis->long_name.getValue(), &axisid);
[219]	1176
[1030]	1177	if (!axis->unit.isEmpty())
	1178	SuperClassWriter::addAttribute("units", axis->unit.getValue(), &axisid);
[219]	1179
[1030]	1180	if (!axis->positive.isEmpty())
	1181	{
	1182	SuperClassWriter::addAttribute("axis", string("Z"), &axisid);
	1183	SuperClassWriter::addAttribute("positive",
	1184	(axis->positive == CAxis::positive_attr::up) ? string("up") : string("down"),
	1185	&axisid);
	1186	}
[399]	1187
[1030]	1188	StdString axisBoundsId = axisid + "_bounds";
	1189	if (!axis->bounds.isEmpty())
	1190	{
	1191	dims.push_back("axis_nbounds");
[1158]	1192	SuperClassWriter::addVariable(axisBoundsId, typePrec, dims);
[1030]	1193	SuperClassWriter::addAttribute("bounds", axisBoundsId, &axisid);
	1194	}
[488]	1195
[1030]	1196	SuperClassWriter::definition_end();
[816]	1197
[1129]	1198	CArray<size_t, 1>& indexToWrite = axis->localIndexToWriteOnServer;
	1199	int nbWritten = indexToWrite.numElements();
	1200	CArray<double,1> axis_value(indexToWrite.numElements());
	1201	for (int i = 0; i < nbWritten; i++) axis_value(i) = axis->value(indexToWrite(i));
	1202	CArray<double,2> axis_bounds;
[1235]	1203	CArray<string,1> axis_label;
	1204	if (!axis->label.isEmpty())
	1205	{
	1206	axis_label.resize(indexToWrite.numElements());
	1207	for (int i = 0; i < nbWritten; i++) axis_label(i) = axis->label(indexToWrite(i));
	1208	}
[1129]	1209
[1030]	1210	switch (SuperClass::type)
	1211	{
	1212	case MULTI_FILE:
[816]	1213	{
[1235]	1214	if (axis->label.isEmpty())
	1215	SuperClassWriter::writeData(axis_value, axisid, isCollective, 0);
[633]	1216
[1158]	1217	if (!axis->bounds.isEmpty() && axis->label.isEmpty())
[1030]	1218	SuperClassWriter::writeData(axis->bounds, axisBoundsId, isCollective, 0);
[488]	1219
[1158]	1220	// Need to check after
[1235]	1221	if (!axis->label.isEmpty())
	1222	SuperClassWriter::writeData(axis_label, axisid, isCollective, 0);
[1158]	1223
[1030]	1224	SuperClassWriter::definition_start();
	1225	break;
	1226	}
	1227	case ONE_FILE:
	1228	{
	1229	std::vector<StdSize> start(1), startBounds(2) ;
	1230	std::vector<StdSize> count(1), countBounds(2) ;
[1099]	1231	start[0] = startBounds[0] = zoom_begin - axis->global_zoom_begin;
[1235]	1232	count[0] = countBounds[0] = zoom_count; // zoom_size
[1030]	1233	startBounds[1] = 0;
	1234	countBounds[1] = 2;
[633]	1235
[1235]	1236	if (axis->label.isEmpty())
	1237	SuperClassWriter::writeData(axis_value, axisid, isCollective, 0, &start, &count);
	1238
	1239	if (!axis->bounds.isEmpty() && axis->label.isEmpty())
[1129]	1240	{
	1241	axis_bounds.resize(2, indexToWrite.numElements());
	1242	for (int i = 0; i < nbWritten; ++i)
	1243	{
	1244	axis_bounds(0, i) = axis->bounds(0, int(indexToWrite(i)));
	1245	axis_bounds(1, i) = axis->bounds(1, int(indexToWrite(i)));
	1246	}
[1030]	1247	SuperClassWriter::writeData(axis->bounds, axisBoundsId, isCollective, 0, &startBounds, &countBounds);
[1129]	1248	}
[609]	1249
[1158]	1250	// Need to check after
[1235]	1251	if (!axis->label.isEmpty())
	1252	{
	1253	std::vector<StdSize> startLabel(2), countLabel(2);
	1254	startLabel[0] = start[0]; startLabel[1] = 0;
	1255	countLabel[0] = count[0]; countLabel[1] = stringArrayLen;
	1256	SuperClassWriter::writeData(axis_label, axisid, isCollective, 0, &startLabel, &countLabel);
	1257	}
[1158]	1258
[1030]	1259	SuperClassWriter::definition_start();
[609]	1260
[1030]	1261	break;
[816]	1262	}
[1030]	1263	default :
	1264	ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)",
	1265	<< "[ type = " << SuperClass::type << "]"
	1266	<< " not implemented yet !");
[609]	1267	}
	1268	}
[1030]	1269	}
	1270	catch (CNetCdfException& e)
	1271	{
	1272	StdString msg("On writing the axis : ");
	1273	msg.append(axisid); msg.append("\n");
	1274	msg.append("In the context : ");
	1275	CContext* context = CContext::getCurrent() ;
	1276	msg.append(context->getId()); msg.append("\n");
	1277	msg.append(e.what());
	1278	ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)", << msg);
	1279	}
[1158]	1280	axis->addRelFile(this->filename);
[391]	1281	}
[488]	1282
[887]	1283	void CNc4DataOutput::writeScalar_(CScalar* scalar)
	1284	{
	1285	if (scalar->IsWritten(this->filename)) return;
	1286	scalar->checkAttributes();
	1287	int scalarSize = 1;
	1288
	1289	StdString scalaId = scalar->getScalarOutputName();
	1290	if (isWrittenAxis(scalaId)) return ;
	1291	else setWrittenAxis(scalaId);
	1292
[1158]	1293	nc_type typePrec ;
	1294	if (scalar->prec.isEmpty()) typePrec = NC_FLOAT ;
	1295	else if (scalar->prec==4) typePrec = NC_FLOAT ;
	1296	else if (scalar->prec==8) typePrec = NC_DOUBLE ;
	1297
	1298
[887]	1299	try
	1300	{
	1301	if (!scalar->value.isEmpty())
	1302	{
	1303	// dims.push_back(scalaId);
	1304	std::vector<StdString> dims;
[1158]	1305	SuperClassWriter::addVariable(scalaId, typePrec, dims);
[887]	1306
	1307	if (!scalar->name.isEmpty())
	1308	SuperClassWriter::addAttribute("name", scalar->name.getValue(), &scalaId);
	1309
	1310	if (!scalar->standard_name.isEmpty())
	1311	SuperClassWriter::addAttribute("standard_name", scalar->standard_name.getValue(), &scalaId);
	1312
	1313	if (!scalar->long_name.isEmpty())
	1314	SuperClassWriter::addAttribute("long_name", scalar->long_name.getValue(), &scalaId);
	1315
	1316	if (!scalar->unit.isEmpty())
	1317	SuperClassWriter::addAttribute("units", scalar->unit.getValue(), &scalaId);
	1318
	1319	SuperClassWriter::definition_end();
	1320
	1321	switch (SuperClass::type)
	1322	{
	1323	case MULTI_FILE:
	1324	{
	1325	CArray<double,1> scalarValue(scalarSize);
	1326	scalarValue(0) = scalar->value;
	1327	SuperClassWriter::writeData(scalarValue, scalaId, isCollective, 0);
	1328	SuperClassWriter::definition_start();
	1329
	1330	break;
	1331	}
	1332	case ONE_FILE:
	1333	{
	1334	CArray<double,1> scalarValue(scalarSize);
	1335	scalarValue(0) = scalar->value;
	1336
	1337	std::vector<StdSize> start(1);
	1338	std::vector<StdSize> count(1);
	1339	start[0] = 0;
	1340	count[0] = 1;
	1341	SuperClassWriter::writeData(scalarValue, scalaId, isCollective, 0, &start, &count);
	1342	SuperClassWriter::definition_start();
	1343
	1344	break;
	1345	}
	1346	default :
	1347	ERROR("CNc4DataOutput::writeAxis_(CAxis* scalar)",
	1348	<< "[ type = " << SuperClass::type << "]"
	1349	<< " not implemented yet !");
	1350	}
	1351	}
	1352	}
	1353	catch (CNetCdfException& e)
	1354	{
	1355	StdString msg("On writing the scalar : ");
	1356	msg.append(scalaId); msg.append("\n");
	1357	msg.append("In the context : ");
	1358	CContext* context = CContext::getCurrent() ;
	1359	msg.append(context->getId()); msg.append("\n");
	1360	msg.append(e.what());
	1361	ERROR("CNc4DataOutput::writeScalar_(CScalar* scalar)", << msg);
	1362	}
	1363	scalar->addRelFile(this->filename);
	1364	}
	1365
[676]	1366	//--------------------------------------------------------------
	1367
	1368	void CNc4DataOutput::writeGridCompressed_(CGrid* grid)
	1369	{
	1370	if (grid->isScalarGrid() \|\| grid->isWrittenCompressed(this->filename)) return;
	1371
	1372	try
	1373	{
[887]	1374	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
[676]	1375	std::vector<StdString> domainList = grid->getDomainList();
	1376	std::vector<StdString> axisList = grid->getAxisList();
[887]	1377	std::vector<StdString> scalarList = grid->getScalarList();
	1378	int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0, idxScalar = 0;
[676]	1379
	1380	std::vector<StdString> dims;
	1381
	1382	if (grid->isCompressible())
	1383	{
	1384	StdString varId = grid->getId() + "_points";
	1385
	1386	int nbIndexes = (SuperClass::type == MULTI_FILE) ? grid->getNumberWrittenIndexes() : grid->getTotalNumberWrittenIndexes();
	1387	SuperClassWriter::addDimension(varId, nbIndexes);
	1388
	1389	dims.push_back(varId);
	1390	SuperClassWriter::addVariable(varId, NC_INT, dims);
	1391
	1392	StdOStringStream compress;
	1393	for (int i = numElement - 1; i >= 0; --i)
	1394	{
[887]	1395	if (2 == axisDomainOrder(i))
[676]	1396	{
	1397	CDomain* domain = CDomain::get(domainList[domainList.size() - idxDomain - 1]);
[772]	1398	StdString domId = domain->getDomainOutputName();
[676]	1399	StdString appendDomId = singleDomain ? "" : "_" + domId;
	1400
	1401	switch (domain->type)
	1402	{
	1403	case CDomain::type_attr::curvilinear:
	1404	compress << "y" << appendDomId << " x" << appendDomId;
	1405	break;
	1406	case CDomain::type_attr::rectilinear:
	1407	compress << "lat" << appendDomId << " lon" << appendDomId;
	1408	break;
	1409	case CDomain::type_attr::unstructured:
	1410	compress << "cell" << appendDomId;
	1411	break;
	1412	}
	1413	++idxDomain;
	1414	}
[887]	1415	else if (1 == axisDomainOrder(i))
[676]	1416	{
	1417	CAxis* axis = CAxis::get(axisList[axisList.size() - idxAxis - 1]);
[772]	1418	compress << axis->getAxisOutputName();
[676]	1419	++idxAxis;
	1420	}
[887]	1421	else
	1422	{
	1423	CScalar* scalar = CScalar::get(scalarList[scalarList.size() - idxScalar - 1]);
	1424	compress << scalar->getScalarOutputName();
	1425	++idxScalar;
	1426	}
[676]	1427
	1428	if (i != 0) compress << ' ';
	1429	}
[1144]	1430	SuperClassWriter::addAttribute("compress", compress.str(), &varId);
[676]	1431
	1432	CArray<int, 1> indexes(grid->getNumberWrittenIndexes());
[1143]	1433	indexes = grid->localIndexToWriteOnServer;
[676]	1434
	1435	switch (SuperClass::type)
	1436	{
	1437	case (MULTI_FILE):
	1438	{
	1439	SuperClassWriter::writeData(indexes, varId, isCollective, 0);
	1440	break;
	1441	}
	1442	case (ONE_FILE):
	1443	{
	1444	if (grid->doGridHaveDataDistributed())
	1445	grid->getDistributionServer()->computeGlobalIndex(indexes);
	1446
	1447	std::vector<StdSize> start, count;
	1448	start.push_back(grid->getOffsetWrittenIndexes());
	1449	count.push_back(grid->getNumberWrittenIndexes());
	1450
	1451	SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count);
	1452	break;
	1453	}
	1454	}
	1455	}
	1456	else
	1457	{
	1458	for (int i = 0; i < numElement; ++i)
	1459	{
	1460	StdString varId, compress;
	1461	CArray<int, 1> indexes;
	1462	bool isDistributed;
	1463	StdSize nbIndexes, totalNbIndexes, offset;
	1464	int firstGlobalIndex;
	1465
[887]	1466	if (2 == axisDomainOrder(i))
[676]	1467	{
	1468	CDomain* domain = CDomain::get(domainList[idxDomain]);
[774]	1469	StdString domId = domain->getDomainOutputName();
	1470
[676]	1471	if (!domain->isCompressible()
	1472	\|\| domain->type == CDomain::type_attr::unstructured
[774]	1473	\|\| domain->isWrittenCompressed(this->filename)
	1474	\|\| isWrittenCompressedDomain(domId))
[676]	1475	continue;
	1476
	1477	StdString appendDomId = singleDomain ? "" : "_" + domId;
	1478
	1479	varId = domId + "_points";
	1480	switch (domain->type)
	1481	{
	1482	case CDomain::type_attr::curvilinear:
	1483	compress = "y" + appendDomId + " x" + appendDomId;
	1484	break;
	1485	case CDomain::type_attr::rectilinear:
	1486	compress = "lat" + appendDomId + " lon" + appendDomId;
	1487	break;
	1488	}
	1489
[1143]	1490	indexes.resize(domain->compressedIndexToWriteOnServer.numElements());
	1491	indexes = domain->compressedIndexToWriteOnServer;
	1492
[676]	1493	isDistributed = domain->isDistributed();
	1494	nbIndexes = domain->getNumberWrittenIndexes();
	1495	totalNbIndexes = domain->getTotalNumberWrittenIndexes();
	1496	offset = domain->getOffsetWrittenIndexes();
	1497	firstGlobalIndex = domain->ibegin + domain->jbegin * domain->ni_glo;
	1498
	1499	domain->addRelFileCompressed(this->filename);
[774]	1500	setWrittenCompressedDomain(domId);
[676]	1501	++idxDomain;
	1502	}
[887]	1503	else if (1 == axisDomainOrder(i))
[676]	1504	{
	1505	CAxis* axis = CAxis::get(axisList[idxAxis]);
[774]	1506	StdString axisId = axis->getAxisOutputName();
	1507
	1508	if (!axis->isCompressible()
	1509	\|\| axis->isWrittenCompressed(this->filename)
	1510	\|\| isWrittenCompressedAxis(axisId))
[676]	1511	continue;
	1512
	1513	varId = axisId + "_points";
	1514	compress = axisId;
	1515
[1143]	1516	indexes.resize(axis->compressedIndexToWriteOnServer.numElements());
	1517	indexes = axis->compressedIndexToWriteOnServer;
	1518
[676]	1519	isDistributed = axis->isDistributed();
	1520	nbIndexes = axis->getNumberWrittenIndexes();
	1521	totalNbIndexes = axis->getTotalNumberWrittenIndexes();
	1522	offset = axis->getOffsetWrittenIndexes();
	1523	firstGlobalIndex = axis->begin;
	1524
	1525	axis->addRelFileCompressed(this->filename);
[774]	1526	setWrittenCompressedAxis(axisId);
[676]	1527	++idxAxis;
	1528	}
[887]	1529	else
	1530	{
	1531	}
[676]	1532
	1533	if (!varId.empty())
	1534	{
	1535	SuperClassWriter::addDimension(varId, (SuperClass::type == MULTI_FILE) ? nbIndexes : totalNbIndexes);
	1536
	1537	dims.clear();
	1538	dims.push_back(varId);
	1539	SuperClassWriter::addVariable(varId, NC_INT, dims);
	1540
	1541	SuperClassWriter::addAttribute("compress", compress, &varId);
	1542
	1543	switch (SuperClass::type)
	1544	{
	1545	case (MULTI_FILE):
	1546	{
	1547	indexes -= firstGlobalIndex;
	1548	SuperClassWriter::writeData(indexes, varId, isCollective, 0);
	1549	break;
	1550	}
	1551	case (ONE_FILE):
	1552	{
	1553	std::vector<StdSize> start, count;
	1554	start.push_back(offset);
	1555	count.push_back(nbIndexes);
	1556
	1557	SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count);
	1558	break;
	1559	}
	1560	}
	1561	}
[1144]	1562	}
[676]	1563	}
	1564
	1565	grid->addRelFileCompressed(this->filename);
	1566	}
	1567	catch (CNetCdfException& e)
	1568	{
	1569	StdString msg("On writing compressed grid : ");
	1570	msg.append(grid->getId()); msg.append("\n");
	1571	msg.append("In the context : ");
	1572	CContext* context = CContext::getCurrent();
	1573	msg.append(context->getId()); msg.append("\n");
	1574	msg.append(e.what());
	1575	ERROR("CNc4DataOutput::writeGridCompressed_(CGrid* grid)", << msg);
	1576	}
	1577	}
	1578
	1579	//--------------------------------------------------------------
	1580
[391]	1581	void CNc4DataOutput::writeTimeDimension_(void)
	1582	{
[498]	1583	try
	1584	{
[802]	1585	SuperClassWriter::addDimension(getTimeCounterName());
[498]	1586	}
	1587	catch (CNetCdfException& e)
	1588	{
[614]	1589	StdString msg("On writing time dimension : time_couter\n");
[498]	1590	msg.append("In the context : ");
	1591	CContext* context = CContext::getCurrent() ;
	1592	msg.append(context->getId()); msg.append("\n");
	1593	msg.append(e.what());
	1594	ERROR("CNc4DataOutput::writeTimeDimension_(void)", << msg);
	1595	}
[391]	1596	}
[676]	1597
[219]	1598	//--------------------------------------------------------------
	1599
[347]	1600	void CNc4DataOutput::writeField_(CField* field)
[219]	1601	{
[1158]	1602	CContext* context = CContext::getCurrent() ;
	1603	CContextServer* server=context->server ;
[300]	1604
[1158]	1605	std::vector<StdString> dims, coodinates;
	1606	CGrid* grid = field->grid;
	1607	if (!grid->doGridHaveDataToWrite())
[567]	1608	if (SuperClass::type==MULTI_FILE) return ;
[488]	1609
[1158]	1610	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
	1611	int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0, idxScalar = 0;
	1612	std::vector<StdString> domainList = grid->getDomainList();
	1613	std::vector<StdString> axisList = grid->getAxisList();
	1614	std::vector<StdString> scalarList = grid->getScalarList();
[219]	1615
[1158]	1616	StdString timeid = getTimeCounterName();
	1617	StdString dimXid,dimYid;
	1618	std::deque<StdString> dimIdList, dimCoordList;
	1619	bool hasArea = false;
	1620	StdString cellMeasures = "area:";
	1621	bool compressedOutput = !field->indexed_output.isEmpty() && field->indexed_output;
[488]	1622
[1158]	1623	for (int i = 0; i < numElement; ++i)
	1624	{
	1625	if (2 == axisDomainOrder(i))
	1626	{
	1627	CDomain* domain = CDomain::get(domainList[idxDomain]);
	1628	StdString domId = domain->getDomainOutputName();
	1629	StdString appendDomId = singleDomain ? "" : "_" + domId ;
[676]	1630
[1158]	1631	if (compressedOutput && domain->isCompressible() && domain->type != CDomain::type_attr::unstructured)
	1632	{
	1633	dimIdList.push_back(domId + "_points");
	1634	field->setUseCompressedOutput();
	1635	}
[676]	1636
[1158]	1637	switch (domain->type)
[879]	1638	{
[1158]	1639	case CDomain::type_attr::curvilinear:
	1640	if (!compressedOutput \|\| !domain->isCompressible())
	1641	{
	1642	dimXid = StdString("x").append(appendDomId);
	1643	dimIdList.push_back(dimXid);
	1644	dimYid = StdString("y").append(appendDomId);
	1645	dimIdList.push_back(dimYid);
	1646	}
	1647	dimCoordList.push_back(StdString("nav_lon").append(appendDomId));
	1648	dimCoordList.push_back(StdString("nav_lat").append(appendDomId));
	1649	break ;
	1650	case CDomain::type_attr::rectilinear:
	1651	if (!compressedOutput \|\| !domain->isCompressible())
	1652	{
	1653	dimXid = StdString("lon").append(appendDomId);
	1654	dimIdList.push_back(dimXid);
	1655	dimYid = StdString("lat").append(appendDomId);
	1656	dimIdList.push_back(dimYid);
	1657	}
	1658	break ;
	1659	case CDomain::type_attr::unstructured:
	1660	{
	1661	if (SuperClassWriter::useCFConvention)
	1662	{
	1663	dimXid = StdString("cell").append(appendDomId);
	1664	dimIdList.push_back(dimXid);
	1665	dimCoordList.push_back(StdString("lon").append(appendDomId));
	1666	dimCoordList.push_back(StdString("lat").append(appendDomId));
	1667	}
	1668	else
	1669	{
	1670	StdString domainName = domain->name;
	1671	if (domain->nvertex == 1)
	1672	{
	1673	dimXid = "n" + domainName + "_node";
	1674	dimIdList.push_back(dimXid);
	1675	dimCoordList.push_back(StdString(domainName + "_node_x"));
	1676	dimCoordList.push_back(StdString(domainName + "_node_y"));
	1677	}
	1678	else if (domain->nvertex == 2)
	1679	{
	1680	dimXid = "n" + domainName + "_edge";
	1681	dimIdList.push_back(dimXid);
	1682	dimCoordList.push_back(StdString(domainName + "_edge_x"));
	1683	dimCoordList.push_back(StdString(domainName + "_edge_y"));
	1684	}
	1685	else
	1686	{
	1687	dimXid = "n" + domainName + "_face";
	1688	dimIdList.push_back(dimXid);
	1689	dimCoordList.push_back(StdString(domainName + "_face_x"));
	1690	dimCoordList.push_back(StdString(domainName + "_face_y"));
	1691	}
	1692	} // ugrid convention
	1693	} // case unstructured domain
[879]	1694	}
[1158]	1695
	1696	if (domain->hasArea)
[879]	1697	{
[1158]	1698	hasArea = true;
	1699	cellMeasures += " area" + appendDomId;
[879]	1700	}
[1158]	1701	++idxDomain;
	1702	}
	1703	else if (1 == axisDomainOrder(i))
	1704	{
	1705	CAxis* axis = CAxis::get(axisList[idxAxis]);
	1706	StdString axisId = axis->getAxisOutputName();
	1707
	1708	if (compressedOutput && axis->isCompressible())
[879]	1709	{
[1158]	1710	dimIdList.push_back(axisId + "_points");
	1711	field->setUseCompressedOutput();
[879]	1712	}
[1158]	1713	else
	1714	dimIdList.push_back(axisId);
[878]	1715
[1158]	1716	dimCoordList.push_back(axisId);
	1717	++idxAxis;
	1718	}
	1719	else // scalar
	1720	{
[887]	1721	/* Do nothing here */
[1158]	1722	}
	1723	}
[488]	1724
[1158]	1725	StdString fieldid = field->getFieldOutputName();
[219]	1726
[1158]	1727	nc_type type ;
	1728	if (field->prec.isEmpty()) type = NC_FLOAT ;
	1729	else
	1730	{
	1731	if (field->prec==2) type = NC_SHORT ;
	1732	else if (field->prec==4) type = NC_FLOAT ;
	1733	else if (field->prec==8) type = NC_DOUBLE ;
	1734	}
[488]	1735
[1158]	1736	bool wtime = !(!field->operation.isEmpty() && field->getOperationTimeType() == func::CFunctor::once);
[488]	1737
[1158]	1738	if (wtime)
	1739	{
	1740	if (field->hasTimeInstant && hasTimeInstant) coodinates.push_back(string("time_instant"));
	1741	else if (field->hasTimeCentered && hasTimeCentered) coodinates.push_back(string("time_centered"));
	1742	dims.push_back(timeid);
	1743	}
[488]	1744
[1158]	1745	if (compressedOutput && grid->isCompressible())
	1746	{
	1747	dims.push_back(grid->getId() + "_points");
	1748	field->setUseCompressedOutput();
	1749	}
	1750	else
	1751	{
	1752	while (!dimIdList.empty())
	1753	{
	1754	dims.push_back(dimIdList.back());
	1755	dimIdList.pop_back();
	1756	}
	1757	}
[219]	1758
[1158]	1759	while (!dimCoordList.empty())
	1760	{
	1761	coodinates.push_back(dimCoordList.back());
	1762	dimCoordList.pop_back();
	1763	}
[219]	1764
[1158]	1765	try
	1766	{
[498]	1767	SuperClassWriter::addVariable(fieldid, type, dims);
[488]	1768
[498]	1769	if (!field->standard_name.isEmpty())
	1770	SuperClassWriter::addAttribute
	1771	("standard_name", field->standard_name.getValue(), &fieldid);
[219]	1772
[498]	1773	if (!field->long_name.isEmpty())
	1774	SuperClassWriter::addAttribute
	1775	("long_name", field->long_name.getValue(), &fieldid);
[219]	1776
[498]	1777	if (!field->unit.isEmpty())
	1778	SuperClassWriter::addAttribute
	1779	("units", field->unit.getValue(), &fieldid);
[463]	1780
[1158]	1781	// Ugrid field attributes "mesh" and "location"
	1782	if (!SuperClassWriter::useCFConvention)
	1783	{
	1784	if (!domainList.empty())
	1785	{
	1786	CDomain* domain = CDomain::get(domainList[0]); // Suppose that we have only domain
	1787	StdString mesh = domain->name;
	1788	SuperClassWriter::addAttribute("mesh", mesh, &fieldid);
	1789	StdString location;
	1790	if (domain->nvertex == 1)
	1791	location = "node";
	1792	else if (domain->nvertex == 2)
	1793	location = "edge";
	1794	else if (domain->nvertex > 2)
	1795	location = "face";
	1796	SuperClassWriter::addAttribute("location", location, &fieldid);
	1797	}
	1798
	1799	}
	1800
	1801	if (!field->valid_min.isEmpty())
[498]	1802	SuperClassWriter::addAttribute
	1803	("valid_min", field->valid_min.getValue(), &fieldid);
[463]	1804
[498]	1805	if (!field->valid_max.isEmpty())
	1806	SuperClassWriter::addAttribute
	1807	("valid_max", field->valid_max.getValue(), &fieldid);
[464]	1808
[498]	1809	if (!field->scale_factor.isEmpty())
	1810	SuperClassWriter::addAttribute
	1811	("scale_factor", field->scale_factor.getValue(), &fieldid);
[464]	1812
[498]	1813	if (!field->add_offset.isEmpty())
	1814	SuperClassWriter::addAttribute
	1815	("add_offset", field->add_offset.getValue(), &fieldid);
[488]	1816
[498]	1817	SuperClassWriter::addAttribute
	1818	("online_operation", field->operation.getValue(), &fieldid);
[472]	1819
[498]	1820	// write child variables as attributes
[488]	1821
	1822
[1021]	1823	bool alreadyAddCellMethod = false;
	1824	StdString cellMethodsPrefix(""), cellMethodsSuffix("");
	1825	if (!field->cell_methods.isEmpty())
	1826	{
[1158]	1827	StdString cellMethodString = field->cell_methods;
	1828	if (field->cell_methods_mode.isEmpty() \|\|
[1021]	1829	(CField::cell_methods_mode_attr::overwrite == field->cell_methods_mode))
[1158]	1830	{
	1831	SuperClassWriter::addAttribute("cell_methods", cellMethodString, &fieldid);
	1832	alreadyAddCellMethod = true;
	1833	}
	1834	else
	1835	{
	1836	switch (field->cell_methods_mode)
	1837	{
	1838	case (CField::cell_methods_mode_attr::prefix):
	1839	cellMethodsPrefix = cellMethodString;
	1840	cellMethodsPrefix += " ";
	1841	break;
	1842	case (CField::cell_methods_mode_attr::suffix):
	1843	cellMethodsSuffix = " ";
	1844	cellMethodsSuffix += cellMethodString;
	1845	break;
	1846	case (CField::cell_methods_mode_attr::none):
	1847	break;
	1848	default:
	1849	break;
	1850	}
	1851	}
[1021]	1852	}
[488]	1853
[1021]	1854
[498]	1855	if (wtime)
	1856	{
[614]	1857	CDuration freqOp = field->freq_op.getValue();
	1858	freqOp.solveTimeStep(*context->calendar);
	1859	StdString freqOpStr = freqOp.toStringUDUnits();
[612]	1860	SuperClassWriter::addAttribute("interval_operation", freqOpStr, &fieldid);
[437]	1861
[614]	1862	CDuration freqOut = field->getRelFile()->output_freq.getValue();
	1863	freqOut.solveTimeStep(*context->calendar);
	1864	SuperClassWriter::addAttribute("interval_write", freqOut.toStringUDUnits(), &fieldid);
[612]	1865
[1021]	1866	StdString cellMethods(cellMethodsPrefix + "time: ");
[612]	1867	if (field->operation.getValue() == "instant") cellMethods += "point";
	1868	else if (field->operation.getValue() == "average") cellMethods += "mean";
	1869	else if (field->operation.getValue() == "accumulate") cellMethods += "sum";
	1870	else cellMethods += field->operation;
[614]	1871	if (freqOp.resolve(context->calendar) != freqOut.resolve(context->calendar))
	1872	cellMethods += " (interval: " + freqOpStr + ")";
[1021]	1873	cellMethods += cellMethodsSuffix;
	1874	if (!alreadyAddCellMethod)
	1875	SuperClassWriter::addAttribute("cell_methods", cellMethods, &fieldid);
[498]	1876	}
[488]	1877
[611]	1878	if (hasArea)
	1879	SuperClassWriter::addAttribute("cell_measures", cellMeasures, &fieldid);
	1880
[498]	1881	if (!field->default_value.isEmpty())
	1882	{
	1883	double default_value = field->default_value.getValue();
	1884	float fdefault_value = (float)default_value;
	1885	if (type == NC_DOUBLE)
	1886	SuperClassWriter::setDefaultValue(fieldid, &default_value);
	1887	else
	1888	SuperClassWriter::setDefaultValue(fieldid, &fdefault_value);
	1889	}
	1890	else
[517]	1891	SuperClassWriter::setDefaultValue(fieldid, (double*)NULL);
[219]	1892
[606]	1893	if (field->compression_level.isEmpty())
	1894	field->compression_level = field->file->compression_level.isEmpty() ? 0 : field->file->compression_level;
	1895	SuperClassWriter::setCompressionLevel(fieldid, field->compression_level);
	1896
[878]	1897	{ // Ecriture des coordonnes
[488]	1898
[498]	1899	StdString coordstr; //boost::algorithm::join(coodinates, " ")
	1900	std::vector<StdString>::iterator
	1901	itc = coodinates.begin(), endc = coodinates.end();
[488]	1902
[498]	1903	for (; itc!= endc; itc++)
	1904	{
	1905	StdString & coord = *itc;
	1906	if (itc+1 != endc)
	1907	coordstr.append(coord).append(" ");
	1908	else coordstr.append(coord);
	1909	}
[219]	1910
[498]	1911	SuperClassWriter::addAttribute("coordinates", coordstr, &fieldid);
[219]	1912
[498]	1913	}
[1222]	1914
	1915	vector<CVariable*> listVars = field->getAllVariables() ;
	1916	for (vector<CVariable>::iterator it = listVars.begin() ;it != listVars.end(); it++) writeAttribute_(it, fieldid) ;
	1917
[219]	1918	}
[498]	1919	catch (CNetCdfException& e)
	1920	{
	1921	StdString msg("On writing field : ");
	1922	msg.append(fieldid); msg.append("\n");
	1923	msg.append("In the context : ");
	1924	msg.append(context->getId()); msg.append("\n");
	1925	msg.append(e.what());
	1926	ERROR("CNc4DataOutput::writeField_(CField* field)", << msg);
	1927	}
[879]	1928	} // writeField_()
[219]	1929
	1930	//--------------------------------------------------------------
	1931
[347]	1932	void CNc4DataOutput::writeFile_ (CFile* file)
[219]	1933	{
[773]	1934	StdString filename = file->getFileOutputName();
[219]	1935	StdString description = (!file->description.isEmpty())
	1936	? file->description.getValue()
[335]	1937	: StdString("Created by xios");
[609]	1938
	1939	singleDomain = (file->nbDomains == 1);
	1940
[1158]	1941	StdString conv_str ;
	1942	if (file->convention_str.isEmpty())
	1943	{
	1944	if (SuperClassWriter::useCFConvention) conv_str="CF-1.6" ;
	1945	else conv_str="UGRID" ;
	1946	}
	1947	else conv_str=file->convention_str ;
	1948
[498]	1949	try
	1950	{
[1158]	1951	this->writeFileAttributes(filename, description,
	1952	conv_str,
	1953	StdString("An IPSL model"),
	1954	this->getTimeStamp());
[609]	1955
[701]	1956	if (!appendMode)
	1957	SuperClassWriter::addDimension("axis_nbounds", 2);
[498]	1958	}
	1959	catch (CNetCdfException& e)
	1960	{
	1961	StdString msg("On writing file : ");
	1962	msg.append(filename); msg.append("\n");
	1963	msg.append("In the context : ");
	1964	CContext* context = CContext::getCurrent() ;
	1965	msg.append(context->getId()); msg.append("\n");
	1966	msg.append(e.what());
	1967	ERROR("CNc4DataOutput::writeFile_ (CFile* file)", << msg);
	1968	}
[219]	1969	}
[488]	1970
[472]	1971	void CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)
	1972	{
[773]	1973	StdString name = var->getVariableOutputName();
[488]	1974
[498]	1975	try
	1976	{
[527]	1977	if (var->type.getValue() == CVariable::type_attr::t_int \|\| var->type.getValue() == CVariable::type_attr::t_int32)
	1978	addAttribute(name, var->getData<int>(), &fieldId);
	1979	else if (var->type.getValue() == CVariable::type_attr::t_int16)
	1980	addAttribute(name, var->getData<short int>(), &fieldId);
	1981	else if (var->type.getValue() == CVariable::type_attr::t_float)
	1982	addAttribute(name, var->getData<float>(), &fieldId);
	1983	else if (var->type.getValue() == CVariable::type_attr::t_double)
	1984	addAttribute(name, var->getData<double>(), &fieldId);
	1985	else if (var->type.getValue() == CVariable::type_attr::t_string)
	1986	addAttribute(name, var->getData<string>(), &fieldId);
	1987	else
	1988	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)",
	1989	<< "Unsupported variable of type " << var->type.getStringValue());
[498]	1990	}
	1991	catch (CNetCdfException& e)
	1992	{
	1993	StdString msg("On writing attributes of variable with name : ");
	1994	msg.append(name); msg.append("in the field "); msg.append(fieldId); msg.append("\n");
	1995	msg.append("In the context : ");
	1996	CContext* context = CContext::getCurrent() ;
	1997	msg.append(context->getId()); msg.append("\n");
	1998	msg.append(e.what());
	1999	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)", << msg);
	2000	}
[472]	2001	}
[488]	2002
[472]	2003	void CNc4DataOutput::writeAttribute_ (CVariable* var)
	2004	{
[773]	2005	StdString name = var->getVariableOutputName();
	2006
[498]	2007	try
	2008	{
[527]	2009	if (var->type.getValue() == CVariable::type_attr::t_int \|\| var->type.getValue() == CVariable::type_attr::t_int32)
	2010	addAttribute(name, var->getData<int>());
	2011	else if (var->type.getValue() == CVariable::type_attr::t_int16)
	2012	addAttribute(name, var->getData<short int>());
	2013	else if (var->type.getValue() == CVariable::type_attr::t_float)
	2014	addAttribute(name, var->getData<float>());
	2015	else if (var->type.getValue() == CVariable::type_attr::t_double)
	2016	addAttribute(name, var->getData<double>());
	2017	else if (var->type.getValue() == CVariable::type_attr::t_string)
	2018	addAttribute(name, var->getData<string>());
	2019	else
	2020	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)",
	2021	<< "Unsupported variable of type " << var->type.getStringValue());
[498]	2022	}
	2023	catch (CNetCdfException& e)
	2024	{
	2025	StdString msg("On writing attributes of variable with name : ");
	2026	msg.append(name); msg.append("\n");
	2027	msg.append("In the context : ");
	2028	CContext* context = CContext::getCurrent() ;
	2029	msg.append(context->getId()); msg.append("\n");
	2030	msg.append(e.what());
	2031	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)", << msg);
	2032	}
[488]	2033	}
	2034
[321]	2035	void CNc4DataOutput::syncFile_ (void)
	2036	{
[498]	2037	try
	2038	{
	2039	SuperClassWriter::sync() ;
	2040	}
	2041	catch (CNetCdfException& e)
	2042	{
	2043	StdString msg("On synchronizing the write among processes");
	2044	msg.append("In the context : ");
	2045	CContext* context = CContext::getCurrent() ;
	2046	msg.append(context->getId()); msg.append("\n");
	2047	msg.append(e.what());
	2048	ERROR("CNc4DataOutput::syncFile_ (void)", << msg);
	2049	}
[321]	2050	}
[219]	2051
[286]	2052	void CNc4DataOutput::closeFile_ (void)
	2053	{
[498]	2054	try
	2055	{
	2056	SuperClassWriter::close() ;
	2057	}
	2058	catch (CNetCdfException& e)
	2059	{
	2060	StdString msg("On closing file");
	2061	msg.append("In the context : ");
	2062	CContext* context = CContext::getCurrent() ;
	2063	msg.append(context->getId()); msg.append("\n");
	2064	msg.append(e.what());
	2065	ERROR("CNc4DataOutput::syncFile_ (void)", << msg);
	2066	}
	2067
[286]	2068	}
	2069
[219]	2070	//---------------------------------------------------------------
	2071
	2072	StdString CNc4DataOutput::getTimeStamp(void) const
	2073	{
	2074	const int buffer_size = 100;
	2075	time_t rawtime;
	2076	struct tm * timeinfo = NULL;
	2077	char buffer [buffer_size];
[1158]	2078	StdString formatStr;
	2079	if (file->time_stamp_format.isEmpty()) formatStr="%Y-%b-%d %H:%M:%S %Z" ;
	2080	else formatStr=file->time_stamp_format;
[219]	2081
[1158]	2082	// time ( &rawtime );
	2083	// timeinfo = localtime ( &rawtime );
[219]	2084	time ( &rawtime );
[1158]	2085	timeinfo = gmtime ( &rawtime );
	2086	strftime (buffer, buffer_size, formatStr.c_str(), timeinfo);
[219]	2087
	2088	return (StdString(buffer));
	2089	}
[488]	2090
[219]	2091	//---------------------------------------------------------------
[488]	2092
[347]	2093	void CNc4DataOutput::writeFieldData_ (CField* field)
[219]	2094	{
[707]	2095	CContext* context = CContext::getCurrent();
	2096	CContextServer* server = context->server;
	2097	CGrid* grid = field->grid;
[300]	2098
[1158]	2099	if (field->getNStep()<1)
	2100	{
	2101	return;
	2102	}
[952]	2103
[707]	2104	if (!grid->doGridHaveDataToWrite())
[1158]	2105	if (SuperClass::type == MULTI_FILE \|\| !isCollective)
	2106	{
	2107	return;
	2108	}
[488]	2109
[770]	2110	StdString fieldid = field->getFieldOutputName();
[286]	2111
[707]	2112	StdOStringStream oss;
	2113	string timeAxisId;
[1158]	2114	if (field->hasTimeInstant) timeAxisId = "time_instant";
	2115	else if (field->hasTimeCentered) timeAxisId = "time_centered";
[488]	2116
[802]	2117	StdString timeBoundId = getTimeCounterName() + "_bounds";
[449]	2118
[707]	2119	StdString timeAxisBoundId;
[1158]	2120	if (field->hasTimeInstant) timeAxisBoundId = "time_instant_bounds";
	2121	else if (field->hasTimeCentered) timeAxisBoundId = "time_centered_bounds";
[488]	2122
[707]	2123	if (!field->wasWritten())
	2124	{
[1158]	2125	if (appendMode && field->file->record_offset.isEmpty() &&
	2126	field->getOperationTimeType() != func::CFunctor::once)
[707]	2127	{
[1158]	2128	double factorUnit;
	2129	if (!field->file->time_units.isEmpty() && field->file->time_units==CFile::time_units_attr::days)
	2130	factorUnit=context->getCalendar()->getDayLengthInSeconds() ;
	2131	else factorUnit=1 ;
	2132	field->resetNStep(getRecordFromTime(field->last_Write_srv,factorUnit) + 1);
[707]	2133	}
[488]	2134
[707]	2135	field->setWritten();
	2136	}
[488]	2137
	2138
[707]	2139	CArray<double,1> time_data(1);
	2140	CArray<double,1> time_data_bound(2);
	2141	CArray<double,1> time_counter(1);
	2142	CArray<double,1> time_counter_bound(2);
	2143
	2144	bool wtime = (field->getOperationTimeType() != func::CFunctor::once);
[1158]	2145	bool wtimeCounter =false ;
	2146	bool wtimeData =false ;
	2147
[707]	2148
[444]	2149	if (wtime)
	2150	{
[692]	2151	Time lastWrite = field->last_Write_srv;
	2152	Time lastLastWrite = field->lastlast_Write_srv;
	2153
[1158]	2154
	2155	if (field->hasTimeInstant)
	2156	{
	2157	time_data(0) = time_data_bound(1) = lastWrite;
[692]	2158	time_data_bound(0) = time_data_bound(1) = lastWrite;
[1158]	2159	if (timeCounterType==instant)
	2160	{
	2161	time_counter(0) = time_data(0);
	2162	time_counter_bound(0) = time_data_bound(0);
	2163	time_counter_bound(1) = time_data_bound(1);
	2164	wtimeCounter=true ;
	2165	}
	2166	if (hasTimeInstant) wtimeData=true ;
	2167	}
	2168	else if (field->hasTimeCentered)
[488]	2169	{
[1158]	2170	time_data(0) = (lastWrite + lastLastWrite) / 2;
[692]	2171	time_data_bound(0) = lastLastWrite;
	2172	time_data_bound(1) = lastWrite;
[1158]	2173	if (timeCounterType==centered)
	2174	{
	2175	time_counter(0) = time_data(0) ;
	2176	time_counter_bound(0) = time_data_bound(0) ;
	2177	time_counter_bound(1) = time_data_bound(1) ;
	2178	wtimeCounter=true ;
	2179	}
	2180	if (hasTimeCentered) wtimeData=true ;
[488]	2181	}
	2182
[1158]	2183	if (timeCounterType==record)
	2184	{
[692]	2185	time_counter(0) = field->getNStep() - 1;
[1158]	2186	time_counter_bound(0) = time_counter_bound(1) = field->getNStep() - 1;
	2187	wtimeCounter=true ;
	2188	}
[692]	2189
[1158]	2190	if (!field->file->time_units.isEmpty() && field->file->time_units==CFile::time_units_attr::days)
[692]	2191	{
[1158]	2192	double secByDay=context->getCalendar()->getDayLengthInSeconds() ;
	2193	time_data/=secByDay;
	2194	time_data_bound/=secByDay;
	2195	time_counter/=secByDay;
	2196	time_counter_bound/=secByDay;
[692]	2197	}
	2198	}
	2199
[707]	2200	bool isRoot = (server->intraCommRank == 0);
[488]	2201
[464]	2202	if (!field->scale_factor.isEmpty() \|\| !field->add_offset.isEmpty())
	2203	{
[707]	2204	double scaleFactor = 1.0;
	2205	double addOffset = 0.0;
	2206	if (!field->scale_factor.isEmpty()) scaleFactor = field->scale_factor;
	2207	if (!field->add_offset.isEmpty()) addOffset = field->add_offset;
	2208	field->scaleFactorAddOffset(scaleFactor, addOffset);
[464]	2209	}
[488]	2210
[498]	2211	try
[219]	2212	{
[676]	2213	size_t writtenSize;
	2214	if (field->getUseCompressedOutput())
	2215	writtenSize = grid->getNumberWrittenIndexes();
	2216	else
	2217	writtenSize = grid->getWrittenDataSize();
	2218
	2219	CArray<double,1> fieldData(writtenSize);
[567]	2220	if (!field->default_value.isEmpty()) fieldData = field->default_value;
[676]	2221
	2222	if (field->getUseCompressedOutput())
	2223	field->outputCompressedField(fieldData);
	2224	else
	2225	field->outputField(fieldData);
	2226
[707]	2227	if (!field->prec.isEmpty() && field->prec == 2) fieldData = round(fieldData);
[567]	2228
	2229	switch (SuperClass::type)
[498]	2230	{
[567]	2231	case (MULTI_FILE) :
	2232	{
[1158]	2233	CTimer::get("Files : writing data").resume();
[692]	2234	SuperClassWriter::writeData(fieldData, fieldid, isCollective, field->getNStep() - 1);
[1158]	2235	CTimer::get("Files : writing data").suspend();
[567]	2236	if (wtime)
	2237	{
[1158]	2238	CTimer::get("Files : writing time axis").resume();
	2239	if ( wtimeData)
[692]	2240	{
[1158]	2241	// SuperClassWriter::writeData(time_data, timeAxisId, isCollective, field->getNStep() - 1);
	2242	// SuperClassWriter::writeData(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1);
	2243	SuperClassWriter::writeTimeAxisData(time_data, timeAxisId, isCollective, field->getNStep() - 1, isRoot);
	2244	SuperClassWriter::writeTimeAxisDataBounds(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1, isRoot);
	2245	}
	2246	if (wtimeCounter)
	2247	{
	2248	// SuperClassWriter::writeData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1);
	2249	// if (timeCounterType!=record) SuperClassWriter::writeData(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1);
	2250	SuperClassWriter::writeTimeAxisData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1,isRoot);
	2251	if (timeCounterType!=record) SuperClassWriter::writeTimeAxisDataBounds(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1, isRoot);
[692]	2252	}
[1158]	2253	CTimer::get("Files : writing time axis").suspend();
[567]	2254	}
[707]	2255	break;
[567]	2256	}
	2257	case (ONE_FILE) :
	2258	{
[676]	2259	const std::vector<int>& nZoomBeginGlobal = grid->getDistributionServer()->getZoomBeginGlobal();
	2260	const std::vector<int>& nZoomBeginServer = grid->getDistributionServer()->getZoomBeginServer();
	2261	const std::vector<int>& nZoomSizeServer = grid->getDistributionServer()->getZoomSizeServer();
[464]	2262
[676]	2263	std::vector<StdSize> start, count;
[464]	2264
[676]	2265	if (field->getUseCompressedOutput())
	2266	{
	2267	if (grid->isCompressible())
	2268	{
	2269	start.push_back(grid->getOffsetWrittenIndexes());
	2270	count.push_back(grid->getNumberWrittenIndexes());
	2271	}
	2272	else
	2273	{
[887]	2274	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
[676]	2275	std::vector<StdString> domainList = grid->getDomainList();
	2276	std::vector<StdString> axisList = grid->getAxisList();
	2277	int numElement = axisDomainOrder.numElements();
	2278	int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1;
	2279	int idx = nZoomBeginGlobal.size() - 1;
[464]	2280
[676]	2281	start.reserve(nZoomBeginGlobal.size());
	2282	count.reserve(nZoomBeginGlobal.size());
	2283
	2284
	2285	for (int i = numElement - 1; i >= 0; --i)
	2286	{
[887]	2287	if (2 == axisDomainOrder(i))
[676]	2288	{
	2289	CDomain* domain = CDomain::get(domainList[idxDomain]);
	2290
	2291	if (domain->isCompressible())
	2292	{
	2293	start.push_back(domain->getOffsetWrittenIndexes());
	2294	count.push_back(domain->getNumberWrittenIndexes());
[710]	2295	idx -= 2;
[676]	2296	}
	2297	else
	2298	{
[710]	2299	if ((domain->type) != CDomain::type_attr::unstructured)
	2300	{
	2301	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	2302	count.push_back(nZoomSizeServer[idx]);
	2303	}
	2304	--idx;
[676]	2305	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	2306	count.push_back(nZoomSizeServer[idx]);
[710]	2307	--idx;
[676]	2308	}
	2309	--idxDomain;
	2310	}
[887]	2311	else if (1 == axisDomainOrder(i))
[676]	2312	{
	2313	CAxis* axis = CAxis::get(axisList[idxAxis]);
	2314
	2315	if (axis->isCompressible())
	2316	{
	2317	start.push_back(axis->getOffsetWrittenIndexes());
	2318	count.push_back(axis->getNumberWrittenIndexes());
	2319	}
	2320	else
	2321	{
	2322	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	2323	count.push_back(nZoomSizeServer[idx]);
	2324	}
	2325
	2326	--idxAxis;
	2327	--idx;
	2328	}
	2329	}
[1158]	2330	}
[676]	2331	}
	2332	else
[498]	2333	{
[887]	2334	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
[705]	2335	std::vector<StdString> domainList = grid->getDomainList();
	2336	std::vector<StdString> axisList = grid->getAxisList();
	2337	int numElement = axisDomainOrder.numElements();
	2338	int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1;
[1025]	2339	int idx = domainList.size() * 2 + axisList.size() - 1;// nZoomBeginGlobal.size() - 1;
[705]	2340
	2341	start.reserve(nZoomBeginGlobal.size());
	2342	count.reserve(nZoomBeginGlobal.size());
	2343
	2344	for (int i = numElement - 1; i >= 0; --i)
	2345	{
[887]	2346	if (2 == axisDomainOrder(i))
[705]	2347	{
	2348	CDomain* domain = CDomain::get(domainList[idxDomain]);
[710]	2349	if ((domain->type) != CDomain::type_attr::unstructured)
[705]	2350	{
[1099]	2351	start.push_back(domain->zoom_jbegin - domain->global_zoom_jbegin);
	2352	count.push_back(domain->zoom_nj);
[705]	2353	}
	2354	--idx ;
[1143]	2355
[1099]	2356	start.push_back(domain->zoom_ibegin - domain->global_zoom_ibegin);
	2357	count.push_back(domain->zoom_ni);
[705]	2358	--idx ;
	2359	--idxDomain;
	2360	}
[887]	2361	else if (1 == axisDomainOrder(i))
[705]	2362	{
[1143]	2363	CAxis* axis = CAxis::get(axisList[idxAxis]);
[1099]	2364	start.push_back(axis->zoom_begin - axis->global_zoom_begin);
	2365	count.push_back(axis->zoom_n);
[705]	2366	--idx;
[1025]	2367	--idxAxis;
[887]	2368	}
	2369	else
	2370	{
	2371	if (1 == axisDomainOrder.numElements())
	2372	{
	2373	start.push_back(0);
	2374	count.push_back(1);
	2375	}
	2376	--idx;
	2377	}
[705]	2378	}
[498]	2379	}
[488]	2380
[1158]	2381
	2382	CTimer::get("Files : writing data").resume();
[676]	2383	SuperClassWriter::writeData(fieldData, fieldid, isCollective, field->getNStep() - 1, &start, &count);
[1158]	2384	CTimer::get("Files : writing data").suspend();
	2385
	2386	if (wtime)
	2387	{
	2388	CTimer::get("Files : writing time axis").resume();
	2389	if ( wtimeData)
[692]	2390	{
[1158]	2391	// SuperClassWriter::writeData(time_data, timeAxisId, isCollective, field->getNStep() - 1);
	2392	// SuperClassWriter::writeData(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1);
	2393	SuperClassWriter::writeTimeAxisData(time_data, timeAxisId, isCollective, field->getNStep() - 1, isRoot);
	2394	SuperClassWriter::writeTimeAxisDataBounds(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1, isRoot);
[692]	2395	}
[1158]	2396	if (wtimeCounter)
	2397	{
	2398	// SuperClassWriter::writeData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1);
	2399	// if (timeCounterType!=record) SuperClassWriter::writeData(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1);
	2400	SuperClassWriter::writeTimeAxisData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1,isRoot);
	2401	if (timeCounterType!=record) SuperClassWriter::writeTimeAxisDataBounds(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1, isRoot);
[586]	2402
[1158]	2403	}
	2404	CTimer::get("Files : writing time axis").suspend();
	2405	}
	2406
[586]	2407	break;
[286]	2408	}
[567]	2409	}
[219]	2410	}
[498]	2411	catch (CNetCdfException& e)
	2412	{
	2413	StdString msg("On writing field data: ");
	2414	msg.append(fieldid); msg.append("\n");
	2415	msg.append("In the context : ");
	2416	msg.append(context->getId()); msg.append("\n");
	2417	msg.append(e.what());
[1130]	2418	ERROR("CNc4DataOutput::writeFieldData_ (CField* field)", << msg);
[498]	2419	}
[219]	2420	}
	2421
	2422	//---------------------------------------------------------------
	2423
	2424	void CNc4DataOutput::writeTimeAxis_
[347]	2425	(CField* field,
[343]	2426	const boost::shared_ptr<CCalendar> cal)
[219]	2427	{
	2428	StdOStringStream oss;
[1158]	2429	bool createInstantAxis=false ;
	2430	bool createCenteredAxis=false ;
	2431	bool createTimeCounterAxis=false ;
	2432
[645]	2433	if (field->getOperationTimeType() == func::CFunctor::once) return ;
[488]	2434
	2435
[1158]	2436	StdString axisId ;
	2437	StdString axisBoundId;
[802]	2438	StdString timeid(getTimeCounterName());
[614]	2439	StdString timeBoundId("axis_nbounds");
[488]	2440
[1158]	2441	StdString strTimeUnits ;
	2442	if (!field->file->time_units.isEmpty() && field->file->time_units==CFile::time_units_attr::days) strTimeUnits="days since " ;
	2443	else strTimeUnits="seconds since " ;
	2444
	2445	if (field->getOperationTimeType() == func::CFunctor::instant) field->hasTimeInstant = true;
	2446	if (field->getOperationTimeType() == func::CFunctor::centered) field->hasTimeCentered = true;
	2447
	2448
	2449	if (field->file->time_counter.isEmpty())
[488]	2450	{
[1158]	2451	if (timeCounterType==none) createTimeCounterAxis=true ;
	2452	if (field->hasTimeCentered)
	2453	{
	2454	timeCounterType=centered ;
	2455	if (!hasTimeCentered) createCenteredAxis=true ;
	2456	}
	2457	if (field->hasTimeInstant)
	2458	{
	2459	if (timeCounterType==none) timeCounterType=instant ;
	2460	if (!hasTimeInstant) createInstantAxis=true ;
	2461	}
[488]	2462	}
[1158]	2463	else if (field->file->time_counter==CFile::time_counter_attr::instant)
	2464	{
	2465	if (field->hasTimeCentered)
	2466	{
	2467	if (!hasTimeCentered) createCenteredAxis=true ;
	2468	}
	2469	if (field->hasTimeInstant)
	2470	{
	2471	if (timeCounterType==none) createTimeCounterAxis=true ;
	2472	timeCounterType=instant ;
	2473	if (!hasTimeInstant) createInstantAxis=true ;
	2474	}
	2475	}
	2476	else if (field->file->time_counter==CFile::time_counter_attr::centered)
	2477	{
	2478	if (field->hasTimeCentered)
	2479	{
	2480	if (timeCounterType==none) createTimeCounterAxis=true ;
	2481	timeCounterType=centered ;
	2482	if (!hasTimeCentered) createCenteredAxis=true ;
	2483	}
	2484	if (field->hasTimeInstant)
	2485	{
	2486	if (!hasTimeInstant) createInstantAxis=true ;
	2487	}
	2488	}
	2489	else if (field->file->time_counter==CFile::time_counter_attr::instant_exclusive)
	2490	{
	2491	if (field->hasTimeCentered)
	2492	{
	2493	if (!hasTimeCentered) createCenteredAxis=true ;
	2494	}
	2495	if (field->hasTimeInstant)
	2496	{
	2497	if (timeCounterType==none) createTimeCounterAxis=true ;
	2498	timeCounterType=instant ;
	2499	}
	2500	}
	2501	else if (field->file->time_counter==CFile::time_counter_attr::centered_exclusive)
	2502	{
	2503	if (field->hasTimeCentered)
	2504	{
	2505	if (timeCounterType==none) createTimeCounterAxis=true ;
	2506	timeCounterType=centered ;
	2507	}
	2508	if (field->hasTimeInstant)
	2509	{
	2510	if (!hasTimeInstant) createInstantAxis=true ;
	2511	}
	2512	}
	2513	else if (field->file->time_counter==CFile::time_counter_attr::exclusive)
	2514	{
	2515	if (field->hasTimeCentered)
	2516	{
	2517	if (timeCounterType==none) createTimeCounterAxis=true ;
	2518	if (timeCounterType==instant) createInstantAxis=true ;
	2519	timeCounterType=centered ;
	2520	}
	2521	if (field->hasTimeInstant)
	2522	{
	2523	if (timeCounterType==none)
	2524	{
	2525	createTimeCounterAxis=true ;
	2526	timeCounterType=instant ;
	2527	}
	2528	if (timeCounterType==centered)
	2529	{
	2530	if (!hasTimeInstant) createInstantAxis=true ;
	2531	}
	2532	}
	2533	}
	2534	else if (field->file->time_counter==CFile::time_counter_attr::none)
	2535	{
	2536	if (field->hasTimeCentered)
	2537	{
	2538	if (!hasTimeCentered) createCenteredAxis=true ;
	2539	}
	2540	if (field->hasTimeInstant)
	2541	{
	2542	if (!hasTimeInstant) createInstantAxis=true ;
	2543	}
	2544	}
	2545	else if (field->file->time_counter==CFile::time_counter_attr::record)
	2546	{
	2547	if (timeCounterType==none) createTimeCounterAxis=true ;
	2548	timeCounterType=record ;
	2549	if (field->hasTimeCentered)
	2550	{
	2551	if (!hasTimeCentered) createCenteredAxis=true ;
	2552	}
	2553	if (field->hasTimeInstant)
	2554	{
	2555	if (!hasTimeInstant) createInstantAxis=true ;
	2556	}
	2557	}
	2558
	2559	if (createInstantAxis)
	2560	{
	2561	axisId="time_instant" ;
	2562	axisBoundId="time_instant_bounds";
	2563	hasTimeInstant=true ;
	2564	}
[488]	2565
[1158]	2566	if (createCenteredAxis)
	2567	{
	2568	axisId="time_centered" ;
	2569	axisBoundId="time_centered_bounds";
	2570	hasTimeCentered=true ;
	2571	}
	2572
	2573
[498]	2574	try
[219]	2575	{
[1158]	2576	std::vector<StdString> dims;
	2577
	2578	if (createInstantAxis \|\| createCenteredAxis)
	2579	{
	2580	// Adding time_instant or time_centered
	2581	dims.push_back(timeid);
	2582	if (!SuperClassWriter::varExist(axisId))
	2583	{
	2584	SuperClassWriter::addVariable(axisId, NC_DOUBLE, dims);
[488]	2585
[1158]	2586	CDate timeOrigin=cal->getTimeOrigin() ;
	2587	StdOStringStream oss2;
	2588	StdString strInitdate=oss2.str() ;
	2589	StdString strTimeOrigin=timeOrigin.toString() ;
	2590	this->writeTimeAxisAttributes(axisId, cal->getType(),strTimeUnits+strTimeOrigin,
	2591	strTimeOrigin, axisBoundId);
	2592	}
[219]	2593
[1158]	2594	// Adding time_instant_bounds or time_centered_bounds variables
	2595	if (!SuperClassWriter::varExist(axisBoundId))
	2596	{
	2597	dims.clear() ;
	2598	dims.push_back(timeid);
	2599	dims.push_back(timeBoundId);
	2600	SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims);
	2601	}
[498]	2602	}
[488]	2603
[1158]	2604	if (createTimeCounterAxis)
[498]	2605	{
[692]	2606	// Adding time_counter
[1158]	2607	axisId = getTimeCounterName();
[802]	2608	axisBoundId = getTimeCounterName() + "_bounds";
[692]	2609	dims.clear();
	2610	dims.push_back(timeid);
[1158]	2611	if (!SuperClassWriter::varExist(axisId))
[692]	2612	{
[1158]	2613	SuperClassWriter::addVariable(axisId, NC_DOUBLE, dims);
	2614	SuperClassWriter::addAttribute("axis", string("T"), &axisId);
[488]	2615
[1158]	2616	if (field->file->time_counter.isEmpty() \|\|
	2617	(field->file->time_counter != CFile::time_counter_attr::record))
[692]	2618	{
	2619	CDate timeOrigin = cal->getTimeOrigin();
	2620	StdString strTimeOrigin = timeOrigin.toString();
[498]	2621
[1158]	2622	this->writeTimeAxisAttributes(axisId, cal->getType(),
	2623	strTimeUnits+strTimeOrigin,
[692]	2624	strTimeOrigin, axisBoundId);
	2625	}
	2626	}
	2627
	2628	// Adding time_counter_bound dimension
[1158]	2629	if (field->file->time_counter.isEmpty() \|\| (field->file->time_counter != CFile::time_counter_attr::record))
[692]	2630	{
	2631	if (!SuperClassWriter::varExist(axisBoundId))
	2632	{
	2633	dims.clear();
	2634	dims.push_back(timeid);
	2635	dims.push_back(timeBoundId);
	2636	SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims);
	2637	}
	2638	}
[498]	2639	}
[488]	2640	}
[498]	2641	catch (CNetCdfException& e)
[488]	2642	{
[498]	2643	StdString msg("On writing time axis data: ");
	2644	msg.append("In the context : ");
	2645	CContext* context = CContext::getCurrent() ;
	2646	msg.append(context->getId()); msg.append("\n");
	2647	msg.append(e.what());
	2648	ERROR("CNc4DataOutput::writeTimeAxis_ (CField* field, \
	2649	const boost::shared_ptr<CCalendar> cal)", << msg);
[488]	2650	}
[219]	2651	}
	2652
	2653	//---------------------------------------------------------------
[488]	2654
[219]	2655	void CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name,
	2656	const StdString & calendar,
	2657	const StdString & units,
	2658	const StdString & time_origin,
[488]	2659	const StdString & time_bounds,
[219]	2660	const StdString & standard_name,
[613]	2661	const StdString & long_name)
[219]	2662	{
[498]	2663	try
	2664	{
	2665	SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name);
	2666	SuperClassWriter::addAttribute("long_name", long_name , &axis_name);
	2667	SuperClassWriter::addAttribute("calendar", calendar , &axis_name);
	2668	SuperClassWriter::addAttribute("units", units , &axis_name);
	2669	SuperClassWriter::addAttribute("time_origin", time_origin , &axis_name);
	2670	SuperClassWriter::addAttribute("bounds", time_bounds , &axis_name);
	2671	}
	2672	catch (CNetCdfException& e)
	2673	{
	2674	StdString msg("On writing time axis Attribute: ");
	2675	msg.append("In the context : ");
	2676	CContext* context = CContext::getCurrent() ;
	2677	msg.append(context->getId()); msg.append("\n");
	2678	msg.append(e.what());
	2679	ERROR("CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name, \
[613]	2680	const StdString & calendar,\
	2681	const StdString & units, \
	2682	const StdString & time_origin, \
	2683	const StdString & time_bounds, \
	2684	const StdString & standard_name, \
	2685	const StdString & long_name)", << msg);
[498]	2686	}
[219]	2687	}
[488]	2688
[219]	2689	//---------------------------------------------------------------
	2690
	2691	void CNc4DataOutput::writeAxisAttributes(const StdString & axis_name,
	2692	const StdString & axis,
	2693	const StdString & standard_name,
	2694	const StdString & long_name,
	2695	const StdString & units,
	2696	const StdString & nav_model)
	2697	{
[498]	2698	try
	2699	{
[613]	2700	if (!axis.empty())
	2701	SuperClassWriter::addAttribute("axis" , axis , &axis_name);
	2702
[498]	2703	SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name);
	2704	SuperClassWriter::addAttribute("long_name" , long_name , &axis_name);
	2705	SuperClassWriter::addAttribute("units" , units , &axis_name);
[973]	2706	// SuperClassWriter::addAttribute("nav_model" , nav_model , &axis_name);
[498]	2707	}
	2708	catch (CNetCdfException& e)
	2709	{
	2710	StdString msg("On writing Axis Attribute: ");
	2711	msg.append("In the context : ");
	2712	CContext* context = CContext::getCurrent() ;
	2713	msg.append(context->getId()); msg.append("\n");
	2714	msg.append(e.what());
	2715	ERROR("CNc4DataOutput::writeAxisAttributes(const StdString & axis_name, \
[613]	2716	const StdString & axis, \
	2717	const StdString & standard_name, \
	2718	const StdString & long_name, \
	2719	const StdString & units, \
	2720	const StdString & nav_model)", << msg);
[498]	2721	}
[219]	2722	}
	2723
	2724	//---------------------------------------------------------------
[488]	2725
[219]	2726	void CNc4DataOutput::writeLocalAttributes
	2727	(int ibegin, int ni, int jbegin, int nj, StdString domid)
	2728	{
[498]	2729	try
	2730	{
[318]	2731	SuperClassWriter::addAttribute(StdString("ibegin").append(domid), ibegin);
	2732	SuperClassWriter::addAttribute(StdString("ni" ).append(domid), ni);
	2733	SuperClassWriter::addAttribute(StdString("jbegin").append(domid), jbegin);
	2734	SuperClassWriter::addAttribute(StdString("nj" ).append(domid), nj);
[498]	2735	}
	2736	catch (CNetCdfException& e)
	2737	{
	2738	StdString msg("On writing Local Attributes: ");
	2739	msg.append("In the context : ");
	2740	CContext* context = CContext::getCurrent() ;
	2741	msg.append(context->getId()); msg.append("\n");
	2742	msg.append(e.what());
	2743	ERROR("CNc4DataOutput::writeLocalAttributes \
	2744	(int ibegin, int ni, int jbegin, int nj, StdString domid)", << msg);
	2745	}
	2746
[219]	2747	}
	2748
[628]	2749	void CNc4DataOutput::writeLocalAttributes_IOIPSL(const StdString& dimXid, const StdString& dimYid,
	2750	int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)
[391]	2751	{
	2752	CArray<int,1> array(2) ;
	2753
[498]	2754	try
	2755	{
	2756	SuperClassWriter::addAttribute("DOMAIN_number_total",size ) ;
	2757	SuperClassWriter::addAttribute("DOMAIN_number", rank) ;
[629]	2758	array = SuperClassWriter::getDimension(dimXid) + 1, SuperClassWriter::getDimension(dimYid) + 1;
[498]	2759	SuperClassWriter::addAttribute("DOMAIN_dimensions_ids",array) ;
	2760	array=ni_glo,nj_glo ;
	2761	SuperClassWriter::addAttribute("DOMAIN_size_global", array) ;
	2762	array=ni,nj ;
	2763	SuperClassWriter::addAttribute("DOMAIN_size_local", array) ;
[819]	2764	array=ibegin+1,jbegin+1 ;
[498]	2765	SuperClassWriter::addAttribute("DOMAIN_position_first", array) ;
[819]	2766	array=ibegin+ni-1+1,jbegin+nj-1+1 ;
[498]	2767	SuperClassWriter::addAttribute("DOMAIN_position_last",array) ;
	2768	array=0,0 ;
	2769	SuperClassWriter::addAttribute("DOMAIN_halo_size_start", array) ;
	2770	SuperClassWriter::addAttribute("DOMAIN_halo_size_end", array);
	2771	SuperClassWriter::addAttribute("DOMAIN_type",string("box")) ;
	2772	/*
	2773	SuperClassWriter::addAttribute("DOMAIN_DIM_N001",string("x")) ;
	2774	SuperClassWriter::addAttribute("DOMAIN_DIM_N002",string("y")) ;
	2775	SuperClassWriter::addAttribute("DOMAIN_DIM_N003",string("axis_A")) ;
	2776	SuperClassWriter::addAttribute("DOMAIN_DIM_N004",string("time_counter")) ;
	2777	*/
	2778	}
	2779	catch (CNetCdfException& e)
	2780	{
[628]	2781	StdString msg("On writing Local Attributes IOIPSL \n");
[498]	2782	msg.append("In the context : ");
	2783	CContext* context = CContext::getCurrent() ;
	2784	msg.append(context->getId()); msg.append("\n");
	2785	msg.append(e.what());
	2786	ERROR("CNc4DataOutput::writeLocalAttributes_IOIPSL \
	2787	(int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)", << msg);
	2788	}
[391]	2789	}
[219]	2790	//---------------------------------------------------------------
	2791
	2792	void CNc4DataOutput:: writeFileAttributes(const StdString & name,
	2793	const StdString & description,
	2794	const StdString & conventions,
	2795	const StdString & production,
	2796	const StdString & timeStamp)
	2797	{
[498]	2798	try
	2799	{
	2800	SuperClassWriter::addAttribute("name" , name);
	2801	SuperClassWriter::addAttribute("description", description);
[613]	2802	SuperClassWriter::addAttribute("title" , description);
	2803	SuperClassWriter::addAttribute("Conventions", conventions);
[1158]	2804	// SuperClassWriter::addAttribute("production" , production);
	2805
	2806	StdString timeStampStr ;
	2807	if (file->time_stamp_name.isEmpty()) timeStampStr="timeStamp" ;
	2808	else timeStampStr=file->time_stamp_name ;
	2809	SuperClassWriter::addAttribute(timeStampStr, timeStamp);
	2810
	2811	StdString uuidName ;
	2812	if (file->uuid_name.isEmpty()) uuidName="uuid" ;
	2813	else uuidName=file->uuid_name ;
	2814
	2815	if (file->uuid_format.isEmpty()) SuperClassWriter::addAttribute(uuidName, getUuidStr());
	2816	else SuperClassWriter::addAttribute(uuidName, getUuidStr(file->uuid_format));
	2817
[498]	2818	}
	2819	catch (CNetCdfException& e)
	2820	{
	2821	StdString msg("On writing File Attributes \n ");
	2822	msg.append("In the context : ");
	2823	CContext* context = CContext::getCurrent() ;
	2824	msg.append(context->getId()); msg.append("\n");
	2825	msg.append(e.what());
	2826	ERROR("CNc4DataOutput:: writeFileAttributes(const StdString & name, \
	2827	const StdString & description, \
	2828	const StdString & conventions, \
	2829	const StdString & production, \
	2830	const StdString & timeStamp)", << msg);
	2831	}
[219]	2832	}
	2833
	2834	//---------------------------------------------------------------
	2835
	2836	void CNc4DataOutput::writeMaskAttributes(const StdString & mask_name,
	2837	int data_dim,
	2838	int data_ni,
	2839	int data_nj,
	2840	int data_ibegin,
	2841	int data_jbegin)
	2842	{
[498]	2843	try
	2844	{
	2845	SuperClassWriter::addAttribute("data_dim" , data_dim , &mask_name);
	2846	SuperClassWriter::addAttribute("data_ni" , data_ni , &mask_name);
	2847	SuperClassWriter::addAttribute("data_nj" , data_nj , &mask_name);
	2848	SuperClassWriter::addAttribute("data_ibegin", data_ibegin, &mask_name);
	2849	SuperClassWriter::addAttribute("data_jbegin", data_jbegin, &mask_name);
	2850	}
	2851	catch (CNetCdfException& e)
	2852	{
	2853	StdString msg("On writing Mask Attributes \n ");
	2854	msg.append("In the context : ");
	2855	CContext* context = CContext::getCurrent() ;
	2856	msg.append(context->getId()); msg.append("\n");
	2857	msg.append(e.what());
	2858	ERROR("CNc4DataOutput::writeMaskAttributes(const StdString & mask_name, \
	2859	int data_dim, \
	2860	int data_ni, \
	2861	int data_nj, \
	2862	int data_ibegin, \
	2863	int data_jbegin)", << msg);
	2864	}
[219]	2865	}
	2866
	2867	///--------------------------------------------------------------
	2868
[1158]	2869	StdSize CNc4DataOutput::getRecordFromTime(Time time, double factorUnit)
[707]	2870	{
	2871	std::map<Time, StdSize>::const_iterator it = timeToRecordCache.find(time);
	2872	if (it == timeToRecordCache.end())
	2873	{
[802]	2874	StdString timeAxisBoundsId(getTimeCounterName() + "_bounds");
[1158]	2875	if (!SuperClassWriter::varExist(timeAxisBoundsId)) timeAxisBoundsId = "time_centered_bounds";
	2876	if (!SuperClassWriter::varExist(timeAxisBoundsId)) timeAxisBoundsId = "time_instant_bounds";
[707]	2877
	2878	CArray<double,2> timeAxisBounds;
[1158]	2879	std::vector<StdSize> dimSize(SuperClassWriter::getDimensions(timeAxisBoundsId)) ;
	2880
[707]	2881	StdSize record = 0;
	2882	double dtime(time);
[1158]	2883	for (int n = dimSize[0] - 1; n >= 0; n--)
[707]	2884	{
[1158]	2885	SuperClassWriter::getTimeAxisBounds(timeAxisBounds, timeAxisBoundsId, isCollective, n);
	2886	timeAxisBounds*=factorUnit ;
	2887	if (timeAxisBounds(1, 0) < dtime)
[707]	2888	{
	2889	record = n + 1;
	2890	break;
	2891	}
	2892	}
	2893	it = timeToRecordCache.insert(std::make_pair(time, record)).first;
	2894	}
	2895	return it->second;
	2896	}
[774]	2897
	2898	///--------------------------------------------------------------
	2899
	2900	bool CNc4DataOutput::isWrittenDomain(const std::string& domainName) const
	2901	{
	2902	return (this->writtenDomains.find(domainName) != this->writtenDomains.end());
	2903	}
	2904
	2905	bool CNc4DataOutput::isWrittenCompressedDomain(const std::string& domainName) const
	2906	{
	2907	return (this->writtenCompressedDomains.find(domainName) != this->writtenCompressedDomains.end());
	2908	}
	2909
	2910	bool CNc4DataOutput::isWrittenAxis(const std::string& axisName) const
	2911	{
	2912	return (this->writtenAxis.find(axisName) != this->writtenAxis.end());
	2913	}
	2914
	2915	bool CNc4DataOutput::isWrittenCompressedAxis(const std::string& axisName) const
	2916	{
	2917	return (this->writtenCompressedAxis.find(axisName) != this->writtenCompressedAxis.end());
	2918	}
	2919
[887]	2920	bool CNc4DataOutput::isWrittenScalar(const std::string& scalarName) const
	2921	{
	2922	return (this->writtenScalar.find(scalarName) != this->writtenScalar.end());
	2923	}
	2924
[774]	2925	void CNc4DataOutput::setWrittenDomain(const std::string& domainName)
	2926	{
	2927	this->writtenDomains.insert(domainName);
	2928	}
	2929
	2930	void CNc4DataOutput::setWrittenCompressedDomain(const std::string& domainName)
	2931	{
	2932	this->writtenCompressedDomains.insert(domainName);
	2933	}
	2934
	2935	void CNc4DataOutput::setWrittenAxis(const std::string& axisName)
	2936	{
	2937	this->writtenAxis.insert(axisName);
	2938	}
	2939
	2940	void CNc4DataOutput::setWrittenCompressedAxis(const std::string& axisName)
	2941	{
	2942	this->writtenCompressedAxis.insert(axisName);
	2943	}
[887]	2944
	2945	void CNc4DataOutput::setWrittenScalar(const std::string& scalarName)
	2946	{
	2947	this->writtenScalar.insert(scalarName);
	2948	}
[335]	2949	} // namespace xios

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source: XIOS/dev/XIOS_DEV_CMIP6/src/io/nc4_data_output.cpp @ 1243

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