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nc4_data_output.cpp @ 1135

Last change on this file since 1135 was 1135, checked in by ymipsl, 7 years ago

Add new timer for better profiling. The full timer output will be provided only for info_level=100
Add new file attribute : convention_str (string) : this string will overide the default value wrote in the file (CF-1.6 or UGRID)

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: 121.3 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"
[1135]	13	#include "timer.hpp"
[1048]	14	#include "uuid.hpp"
[335]	15	namespace xios
[219]	16	{
[878]	17	/// ////////////////////// Dfinitions ////////////////////// ///
[219]	18	CNc4DataOutput::CNc4DataOutput
[1046]	19	(CFile* file, const StdString & filename, bool exist)
[219]	20	: SuperClass()
	21	, SuperClassWriter(filename, exist)
	22	, filename(filename)
[1096]	23	, file(file),hasTimeInstant(false),hasTimeCentered(false), timeCounterType(none)
[219]	24	{
[989]	25	SuperClass::type = MULTI_FILE;
[219]	26	}
	27
	28	CNc4DataOutput::CNc4DataOutput
[1046]	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)
[1096]	36	, file(file),hasTimeInstant(false),hasTimeCentered(false), timeCounterType(none)
[219]	37	{
[989]	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	{
[881]	55	if (domain->type == CDomain::type_attr::unstructured)
	56	{
	57	if (SuperClassWriter::useCFConvention)
	58	writeUnstructuredDomain(domain) ;
	59	else
	60	writeUnstructuredDomainUgrid(domain) ;
	61	return ;
	62	}
[488]	63
[347]	64	CContext* context = CContext::getCurrent() ;
[300]	65	CContextServer* server=context->server ;
[488]	66
[219]	67	if (domain->IsWritten(this->filename)) return;
	68	domain->checkAttributes();
[488]	69
	70	if (domain->isEmpty())
[881]	71	if (SuperClass::type==MULTI_FILE) return;
[219]	72
	73	std::vector<StdString> dim0, dim1;
[772]	74	StdString domid = domain->getDomainOutputName();
[318]	75	StdString appendDomid = (singleDomain) ? "" : "_"+domid ;
[706]	76	if (isWrittenDomain(domid)) return ;
[774]	77	else setWrittenDomain(domid);
[449]	78
	79
[1045]	80	StdString dimXid, dimYid ;
[488]	81
[1045]	82	nc_type typePrec ;
	83	if (domain->prec.isEmpty()) typePrec = NC_FLOAT ;
	84	else if (domain->prec==4) typePrec = NC_FLOAT ;
	85	else if (domain->prec==8) typePrec = NC_DOUBLE ;
	86
[664]	87	bool isRegularDomain = (domain->type == CDomain::type_attr::rectilinear);
[449]	88	switch (domain->type)
[433]	89	{
[449]	90	case CDomain::type_attr::curvilinear :
	91	dimXid = StdString("x").append(appendDomid);
	92	dimYid = StdString("y").append(appendDomid);
	93	break ;
[664]	94	case CDomain::type_attr::rectilinear :
[449]	95	dimXid = StdString("lon").append(appendDomid);
	96	dimYid = StdString("lat").append(appendDomid);
	97	break;
[488]	98	}
	99
[617]	100	StdString dimVertId = StdString("nvertex").append(appendDomid);
	101
[449]	102	string lonid,latid,bounds_lonid,bounds_latid ;
[611]	103	string areaId = "area" + appendDomid;
[391]	104	/*
[300]	105	StdString lonid_loc = (server->intraCommSize > 1)
[318]	106	? StdString("lon").append(appendDomid).append("_local")
[278]	107	: lonid;
[300]	108	StdString latid_loc = (server->intraCommSize > 1)
[318]	109	? StdString("lat").append(appendDomid).append("_local")
[278]	110	: latid;
[391]	111	*/
[219]	112
[498]	113	try
[219]	114	{
[498]	115	switch (SuperClass::type)
	116	{
	117	case (MULTI_FILE) :
	118	{
	119	// if (domain->isEmpty()) return;
[488]	120
[498]	121	if (server->intraCommSize > 1)
	122	{
	123	// SuperClassWriter::addDimension(lonid, domain->zoom_ni.getValue());
	124	// SuperClassWriter::addDimension(latid, domain->zoom_nj.getValue());
	125	}
[286]	126
[498]	127	switch (domain->type)
	128	{
	129	case CDomain::type_attr::curvilinear :
	130	dim0.push_back(dimYid); dim0.push_back(dimXid);
	131	lonid = StdString("nav_lon").append(appendDomid);
	132	latid = StdString("nav_lat").append(appendDomid);
	133	break ;
[664]	134	case CDomain::type_attr::rectilinear :
[498]	135	lonid = StdString("lon").append(appendDomid);
	136	latid = StdString("lat").append(appendDomid);
	137	dim0.push_back(dimYid);
	138	dim1.push_back(dimXid);
	139	break;
	140	}
[488]	141
[617]	142	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	143	bounds_latid = StdString("bounds_lat").append(appendDomid);
	144
[616]	145	SuperClassWriter::addDimension(dimXid, domain->zoom_ni_srv);
	146	SuperClassWriter::addDimension(dimYid, domain->zoom_nj_srv);
[488]	147
[617]	148	if (domain->hasBounds)
	149	SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	150
[498]	151	if (server->intraCommSize > 1)
	152	{
[616]	153	this->writeLocalAttributes(domain->zoom_ibegin_srv,
	154	domain->zoom_ni_srv,
	155	domain->zoom_jbegin_srv,
	156	domain->zoom_nj_srv,
	157	appendDomid);
[488]	158
[628]	159	if (singleDomain)
	160	this->writeLocalAttributes_IOIPSL(dimXid, dimYid,
	161	domain->zoom_ibegin_srv,
	162	domain->zoom_ni_srv,
	163	domain->zoom_jbegin_srv,
	164	domain->zoom_nj_srv,
	165	domain->ni_glo,domain->nj_glo,
	166	server->intraCommRank,server->intraCommSize);
[449]	167	}
[488]	168
[665]	169	if (domain->hasLonLat)
[498]	170	{
[665]	171	switch (domain->type)
	172	{
	173	case CDomain::type_attr::curvilinear :
[1045]	174	SuperClassWriter::addVariable(latid, typePrec, dim0);
	175	SuperClassWriter::addVariable(lonid, typePrec, dim0);
[665]	176	break ;
	177	case CDomain::type_attr::rectilinear :
[1045]	178	SuperClassWriter::addVariable(latid, typePrec, dim0);
	179	SuperClassWriter::addVariable(lonid, typePrec, dim1);
[665]	180	break ;
	181	}
[488]	182
[665]	183	this->writeAxisAttributes(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid);
	184	this->writeAxisAttributes(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid);
[219]	185
[665]	186	if (domain->hasBounds)
	187	{
	188	SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid);
	189	SuperClassWriter::addAttribute("bounds", bounds_latid, &latid);
[617]	190
[665]	191	dim0.clear();
	192	dim0.push_back(dimYid);
	193	dim0.push_back(dimXid);
	194	dim0.push_back(dimVertId);
[1045]	195	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0);
	196	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0);
[665]	197	}
[617]	198	}
	199
[498]	200	dim0.clear();
[616]	201	dim0.push_back(dimYid);
[498]	202	dim0.push_back(dimXid);
[219]	203
	204
[498]	205	// supress mask if (server->intraCommSize > 1)
	206	// supress mask {
	207	// supress mask SuperClassWriter::addVariable(maskid, NC_INT, dim0);
	208	// supress mask
	209	// supress mask this->writeMaskAttributes(maskid,
	210	// supress mask domain->data_dim.getValue()/*,
	211	// supress mask domain->data_ni.getValue(),
	212	// supress mask domain->data_nj.getValue(),
	213	// supress mask domain->data_ibegin.getValue(),
	214	// supress mask domain->data_jbegin.getValue()*/);
	215	// supress mask }
[488]	216
[498]	217	//SuperClassWriter::setDefaultValue(maskid, &dvm);
[219]	218
[611]	219	if (domain->hasArea)
	220	{
[1045]	221	SuperClassWriter::addVariable(areaId, typePrec, dim0);
[614]	222	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	223	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	224	}
	225
[498]	226	SuperClassWriter::definition_end();
[449]	227
[665]	228	if (domain->hasLonLat)
[498]	229	{
[665]	230	switch (domain->type)
	231	{
	232	case CDomain::type_attr::curvilinear :
	233	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0);
	234	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0);
	235	break;
	236	case CDomain::type_attr::rectilinear :
	237	CArray<double,1> lat = domain->latvalue_srv(Range(fromStart,toEnd,domain->zoom_ni_srv)) ;
	238	SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0);
	239	CArray<double,1> lon=domain->lonvalue_srv(Range(0,domain->zoom_ni_srv-1)) ;
	240	SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0);
	241	break;
	242	}
[611]	243
[665]	244	if (domain->hasBounds)
	245	{
	246	SuperClassWriter::writeData(domain->bounds_lon_srv, bounds_lonid, isCollective, 0);
	247	SuperClassWriter::writeData(domain->bounds_lat_srv, bounds_latid, isCollective, 0);
	248	}
[617]	249	}
	250
[611]	251	if (domain->hasArea)
	252	SuperClassWriter::writeData(domain->area_srv, areaId, isCollective, 0);
	253
[498]	254	SuperClassWriter::definition_start();
[219]	255
[498]	256	break;
	257	}
	258	case (ONE_FILE) :
	259	{
[631]	260	SuperClassWriter::addDimension(dimXid, domain->global_zoom_ni);
	261	SuperClassWriter::addDimension(dimYid, domain->global_zoom_nj);
[286]	262
[617]	263	if (domain->hasBounds)
	264	SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	265
[665]	266	if (domain->hasLonLat)
[498]	267	{
[665]	268	switch (domain->type)
	269	{
	270	case CDomain::type_attr::curvilinear :
	271	dim0.push_back(dimYid); dim0.push_back(dimXid);
	272	lonid = StdString("nav_lon").append(appendDomid);
	273	latid = StdString("nav_lat").append(appendDomid);
[1045]	274	SuperClassWriter::addVariable(latid, typePrec, dim0);
	275	SuperClassWriter::addVariable(lonid, typePrec, dim0);
[665]	276	break;
[449]	277
[665]	278	case CDomain::type_attr::rectilinear :
	279	dim0.push_back(dimYid);
	280	dim1.push_back(dimXid);
	281	lonid = StdString("lon").append(appendDomid);
	282	latid = StdString("lat").append(appendDomid);
[1045]	283	SuperClassWriter::addVariable(latid, typePrec, dim0);
	284	SuperClassWriter::addVariable(lonid, typePrec, dim1);
[665]	285	break;
	286	}
	287
	288	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	289	bounds_latid = StdString("bounds_lat").append(appendDomid);
	290
	291	this->writeAxisAttributes
	292	(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid);
	293	this->writeAxisAttributes
	294	(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid);
	295
	296	if (domain->hasBounds)
	297	{
	298	SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid);
	299	SuperClassWriter::addAttribute("bounds", bounds_latid, &latid);
	300
	301	dim0.clear();
[498]	302	dim0.push_back(dimYid);
[665]	303	dim0.push_back(dimXid);
	304	dim0.push_back(dimVertId);
[1045]	305	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0);
	306	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0);
[665]	307	}
[498]	308	}
[611]	309
	310	if (domain->hasArea)
	311	{
	312	dim0.clear();
	313	dim0.push_back(dimYid); dim0.push_back(dimXid);
[1045]	314	SuperClassWriter::addVariable(areaId, typePrec, dim0);
[614]	315	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	316	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	317	dim0.clear();
	318	}
	319
	320	SuperClassWriter::definition_end();
[286]	321
[498]	322	switch (domain->type)
[384]	323	{
[498]	324	case CDomain::type_attr::curvilinear :
[449]	325	{
[498]	326	std::vector<StdSize> start(2) ;
	327	std::vector<StdSize> count(2) ;
	328	if (domain->isEmpty())
	329	{
[611]	330	start[0]=0 ; start[1]=0 ;
[498]	331	count[0]=0 ; count[1]=0 ;
	332	}
	333	else
	334	{
[631]	335	start[1]=domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	336	start[0]=domain->zoom_jbegin_srv-domain->global_zoom_jbegin;
[498]	337	count[1]=domain->zoom_ni_srv ; count[0]=domain->zoom_nj_srv ;
	338	}
[488]	339
[665]	340	if (domain->hasLonLat)
	341	{
	342	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0,&start,&count);
	343	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0,&start,&count);
	344	}
[498]	345	break;
	346	}
[664]	347	case CDomain::type_attr::rectilinear :
[449]	348	{
[665]	349	if (domain->hasLonLat)
[498]	350	{
[665]	351	std::vector<StdSize> start(1) ;
	352	std::vector<StdSize> count(1) ;
	353	if (domain->isEmpty())
	354	{
	355	start[0]=0 ;
	356	count[0]=0 ;
	357	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0,&start,&count);
	358	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0,&start,&count);
[449]	359
[665]	360	}
	361	else
	362	{
	363	start[0]=domain->zoom_jbegin_srv-domain->global_zoom_jbegin;
	364	count[0]=domain->zoom_nj_srv ;
	365	CArray<double,1> lat = domain->latvalue_srv(Range(fromStart,toEnd,domain->zoom_ni_srv)) ;
	366	SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0,&start,&count);
	367
	368	start[0]=domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	369	count[0]=domain->zoom_ni_srv ;
	370	CArray<double,1> lon=domain->lonvalue_srv(Range(0,domain->zoom_ni_srv-1)) ;
	371	SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0,&start,&count);
	372	}
[498]	373	}
	374	break;
[449]	375	}
[384]	376	}
[611]	377
[617]	378	if (domain->hasBounds)
	379	{
	380	std::vector<StdSize> start(3);
	381	std::vector<StdSize> count(3);
	382	if (domain->isEmpty())
	383	{
	384	start[2] = start[1] = start[0] = 0;
	385	count[2] = count[1] = count[0] = 0;
	386	}
	387	else
	388	{
	389	start[2] = 0;
[631]	390	start[1] = domain->zoom_ibegin_srv - domain->global_zoom_ibegin;
	391	start[0] = domain->zoom_jbegin_srv - domain->global_zoom_jbegin;
[617]	392	count[2] = domain->nvertex;
	393	count[1] = domain->zoom_ni_srv;
	394	count[0] = domain->zoom_nj_srv;
	395	}
[625]	396
[878]	397	SuperClassWriter::writeData(domain->bounds_lon_srv, bounds_lonid, isCollective, 0, &start, &count);
	398	SuperClassWriter::writeData(domain->bounds_lat_srv, bounds_latid, isCollective, 0, &start, &count);
[617]	399	}
	400
[611]	401	if (domain->hasArea)
	402	{
	403	std::vector<StdSize> start(2);
	404	std::vector<StdSize> count(2);
	405
	406	if (domain->isEmpty())
	407	{
	408	start[0] = 0; start[1] = 0;
	409	count[0] = 0; count[1] = 0;
	410	}
	411	else
	412	{
[631]	413	start[1] = domain->zoom_ibegin_srv - domain->global_zoom_ibegin;
	414	start[0] = domain->zoom_jbegin_srv - domain->global_zoom_jbegin;
[611]	415	count[1] = domain->zoom_ni_srv;
	416	count[0] = domain->zoom_nj_srv;
	417	}
	418
	419	SuperClassWriter::writeData(domain->area_srv, areaId, isCollective, 0, &start, &count);
	420	}
	421
[498]	422	SuperClassWriter::definition_start();
	423	break;
	424	}
	425	default :
	426	ERROR("CNc4DataOutput::writeDomain(domain)",
	427	<< "[ type = " << SuperClass::type << "]"
	428	<< " not implemented yet !");
	429	}
[449]	430	}
[498]	431	catch (CNetCdfException& e)
	432	{
	433	StdString msg("On writing the domain : ");
	434	msg.append(domid); msg.append("\n");
	435	msg.append("In the context : ");
	436	msg.append(context->getId()); msg.append("\n");
	437	msg.append(e.what());
	438	ERROR("CNc4DataOutput::writeDomain_(CDomain* domain)", << msg);
	439	}
	440
[449]	441	domain->addRelFile(this->filename);
	442	}
	443
[879]	444	//--------------------------------------------------------------
[878]	445
[879]	446	void CNc4DataOutput::writeUnstructuredDomainUgrid(CDomain* domain)
	447	{
	448	CContext* context = CContext::getCurrent() ;
	449	CContextServer* server=context->server ;
[878]	450
[879]	451	if (domain->IsWritten(this->filename)) return;
	452	domain->checkAttributes();
	453	if (domain->isEmpty())
	454	if (SuperClass::type==MULTI_FILE) return ;
[878]	455
[1045]	456	nc_type typePrec ;
	457	if (domain->prec.isEmpty()) typePrec = NC_FLOAT ;
	458	else if (domain->prec==4) typePrec = NC_FLOAT ;
	459	else if (domain->prec==8) typePrec = NC_DOUBLE ;
	460
[879]	461	std::vector<StdString> dim0;
	462	StdString domid = domain->getDomainOutputName();
	463	StdString domainName = domain->name;
[924]	464	domain->assignMesh(domainName, domain->nvertex);
	465	domain->mesh->createMeshEpsilon(server->intraComm, domain->lonvalue_srv, domain->latvalue_srv, domain->bounds_lon_srv, domain->bounds_lat_srv);
[878]	466
[879]	467	StdString node_x = domainName + "_node_x";
	468	StdString node_y = domainName + "_node_y";
[878]	469
[879]	470	StdString edge_x = domainName + "_edge_x";
	471	StdString edge_y = domainName + "_edge_y";
	472	StdString edge_nodes = domainName + "_edge_nodes";
[878]	473
[879]	474	StdString face_x = domainName + "_face_x";
	475	StdString face_y = domainName + "_face_y";
	476	StdString face_nodes = domainName + "_face_nodes";
[902]	477	StdString face_edges = domainName + "_face_edges";
	478	StdString edge_faces = domainName + "_edge_face_links";
	479	StdString face_faces = domainName + "_face_links";
[878]	480
[879]	481	StdString dimNode = "n" + domainName + "_node";
	482	StdString dimEdge = "n" + domainName + "_edge";
	483	StdString dimFace = "n" + domainName + "_face";
	484	StdString dimVertex = "n" + domainName + "_vertex";
	485	StdString dimTwo = "Two";
[878]	486
[879]	487	if (!SuperClassWriter::dimExist(dimTwo)) SuperClassWriter::addDimension(dimTwo, 2);
	488	if (!isWrittenDomain(domid))
	489	{
	490	dim0.clear();
	491	SuperClassWriter::addVariable(domainName, NC_INT, dim0);
	492	SuperClassWriter::addAttribute("cf_role", StdString("mesh_topology"), &domainName);
[924]	493	SuperClassWriter::addAttribute("long_name", StdString("Topology data of 2D unstructured mesh"), &domainName);
	494	SuperClassWriter::addAttribute("topology_dimension", 2, &domainName);
[879]	495	SuperClassWriter::addAttribute("node_coordinates", node_x + " " + node_y, &domainName);
	496	}
[878]	497
[879]	498	try
	499	{
	500	switch (SuperClass::type)
	501	{
	502	case (ONE_FILE) :
	503	{
	504	// Adding nodes
	505	if (domain->nvertex == 1)
	506	{
	507	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
	508	{
[902]	509	SuperClassWriter::addDimension(dimNode, domain->ni_glo);
[879]	510	dim0.clear();
	511	dim0.push_back(dimNode);
[1045]	512	SuperClassWriter::addVariable(node_x, typePrec, dim0);
[879]	513	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
[924]	514	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
[879]	515	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
[1045]	516	SuperClassWriter::addVariable(node_y, typePrec, dim0);
[879]	517	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
[924]	518	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
[879]	519	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
	520	}
	521	} // domain->nvertex == 1
[878]	522
[879]	523	// Adding edges and nodes, if nodes have not been defined previously
	524	if (domain->nvertex == 2)
	525	{
	526	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
	527	{
[924]	528	SuperClassWriter::addDimension(dimNode, domain->mesh->nbNodesGlo);
[879]	529	dim0.clear();
	530	dim0.push_back(dimNode);
[1045]	531	SuperClassWriter::addVariable(node_x, typePrec, dim0);
[879]	532	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
[924]	533	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
[879]	534	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
[1045]	535	SuperClassWriter::addVariable(node_y, typePrec, dim0);
[879]	536	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
[924]	537	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
[879]	538	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
	539	}
[924]	540	SuperClassWriter::addAttribute("edge_node_connectivity", edge_nodes, &domainName);
	541	SuperClassWriter::addAttribute("edge_coordinates", edge_x + " " + edge_y, &domainName);
	542	SuperClassWriter::addDimension(dimEdge, domain->ni_glo);
	543	dim0.clear();
	544	dim0.push_back(dimEdge);
[1045]	545	SuperClassWriter::addVariable(edge_x, typePrec, dim0);
[924]	546	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &edge_x);
	547	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh edges."), &edge_x);
	548	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &edge_x);
[1045]	549	SuperClassWriter::addVariable(edge_y, typePrec, dim0);
[924]	550	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &edge_y);
	551	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh edges."), &edge_y);
	552	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &edge_y);
	553	dim0.clear();
	554	dim0.push_back(dimEdge);
	555	dim0.push_back(dimTwo);
	556	SuperClassWriter::addVariable(edge_nodes, NC_INT, dim0);
	557	SuperClassWriter::addAttribute("cf_role", StdString("edge_node_connectivity"), &edge_nodes);
	558	SuperClassWriter::addAttribute("long_name", StdString("Maps every edge/link to two nodes that it connects."), &edge_nodes);
	559	SuperClassWriter::addAttribute("start_index", 0, &edge_nodes);
[879]	560	} // domain->nvertex == 2
[878]	561
[879]	562	// Adding faces, edges, and nodes, if edges and nodes have not been defined previously
	563	if (domain->nvertex > 2)
	564	{
	565	// Nodes
	566	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
	567	{
[924]	568	SuperClassWriter::addDimension(dimNode, domain->mesh->nbNodesGlo);
[879]	569	dim0.clear();
	570	dim0.push_back(dimNode);
[1045]	571	SuperClassWriter::addVariable(node_x, typePrec, dim0);
[879]	572	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
[924]	573	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
[879]	574	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
[1045]	575	SuperClassWriter::addVariable(node_y, typePrec, dim0);
[879]	576	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
[924]	577	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
[879]	578	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
	579	}
	580	if (!SuperClassWriter::varExist(edge_x) \|\| !SuperClassWriter::varExist(edge_y))
	581	{
	582	SuperClassWriter::addAttribute("edge_coordinates", edge_x + " " + edge_y, &domainName);
	583	SuperClassWriter::addAttribute("edge_node_connectivity", edge_nodes, &domainName);
[924]	584	SuperClassWriter::addDimension(dimEdge, domain->mesh->nbEdgesGlo);
[879]	585	dim0.clear();
	586	dim0.push_back(dimEdge);
[1045]	587	SuperClassWriter::addVariable(edge_x, typePrec, dim0);
[879]	588	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &edge_x);
[924]	589	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh edges."), &edge_x);
[879]	590	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &edge_x);
[1045]	591	SuperClassWriter::addVariable(edge_y, typePrec, dim0);
[879]	592	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &edge_y);
[924]	593	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh edges."), &edge_y);
[879]	594	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &edge_y);
	595	dim0.clear();
	596	dim0.push_back(dimEdge);
	597	dim0.push_back(dimTwo);
	598	SuperClassWriter::addVariable(edge_nodes, NC_INT, dim0);
	599	SuperClassWriter::addAttribute("cf_role", StdString("edge_node_connectivity"), &edge_nodes);
	600	SuperClassWriter::addAttribute("long_name", StdString("Maps every edge/link to two nodes that it connects."), &edge_nodes);
	601	SuperClassWriter::addAttribute("start_index", 0, &edge_nodes);
	602	}
[924]	603	SuperClassWriter::addAttribute("face_coordinates", face_x + " " + face_y, &domainName);
	604	SuperClassWriter::addAttribute("face_node_connectivity", face_nodes, &domainName);
	605	SuperClassWriter::addDimension(dimFace, domain->ni_glo);
	606	SuperClassWriter::addDimension(dimVertex, domain->nvertex);
	607	dim0.clear();
	608	dim0.push_back(dimFace);
[1045]	609	SuperClassWriter::addVariable(face_x, typePrec, dim0);
[924]	610	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &face_x);
	611	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh faces."), &face_x);
	612	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &face_x);
[1045]	613	SuperClassWriter::addVariable(face_y, typePrec, dim0);
[924]	614	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &face_y);
	615	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh faces."), &face_y);
	616	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &face_y);
	617	dim0.clear();
	618	dim0.push_back(dimFace);
	619	dim0.push_back(dimVertex);
	620	SuperClassWriter::addVariable(face_nodes, NC_INT, dim0);
	621	SuperClassWriter::addAttribute("cf_role", StdString("face_node_connectivity"), &face_nodes);
	622	SuperClassWriter::addAttribute("long_name", StdString("Maps every face to its corner nodes."), &face_nodes);
	623	SuperClassWriter::addAttribute("start_index", 0, &face_nodes);
	624	dim0.clear();
	625	dim0.push_back(dimFace);
	626	dim0.push_back(dimVertex);
	627	SuperClassWriter::addVariable(face_edges, NC_INT, dim0);
	628	SuperClassWriter::addAttribute("cf_role", StdString("face_edge_connectivity"), &face_edges);
	629	SuperClassWriter::addAttribute("long_name", StdString("Maps every face to its edges."), &face_edges);
	630	SuperClassWriter::addAttribute("start_index", 0, &face_edges);
[929]	631	SuperClassWriter::addAttribute("_FillValue", 999999, &face_edges);
[924]	632	dim0.clear();
	633	dim0.push_back(dimEdge);
	634	dim0.push_back(dimTwo);
	635	SuperClassWriter::addVariable(edge_faces, NC_INT, dim0);
	636	SuperClassWriter::addAttribute("cf_role", StdString("edge_face connectivity"), &edge_faces);
	637	SuperClassWriter::addAttribute("long_name", StdString("neighbor faces for edges"), &edge_faces);
	638	SuperClassWriter::addAttribute("start_index", 0, &edge_faces);
	639	SuperClassWriter::addAttribute("_FillValue", -999, &edge_faces);
	640	SuperClassWriter::addAttribute("comment", StdString("missing neighbor faces are indicated using _FillValue"), &edge_faces);
	641	dim0.clear();
	642	dim0.push_back(dimFace);
	643	dim0.push_back(dimVertex);
	644	SuperClassWriter::addVariable(face_faces, NC_INT, dim0);
	645	SuperClassWriter::addAttribute("cf_role", StdString("face_face connectivity"), &face_faces);
	646	SuperClassWriter::addAttribute("long_name", StdString("Indicates which other faces neighbor each face"), &face_faces);
	647	SuperClassWriter::addAttribute("start_index", 0, &face_faces);
[929]	648	SuperClassWriter::addAttribute("_FillValue", 999999, &face_faces);
[924]	649	SuperClassWriter::addAttribute("flag_values", -1, &face_faces);
	650	SuperClassWriter::addAttribute("flag_meanings", StdString("out_of_mesh"), &face_faces);
[879]	651	} // domain->nvertex > 2
[878]	652
[879]	653	SuperClassWriter::definition_end();
[878]	654
[924]	655	std::vector<StdSize> startEdges(1) ;
	656	std::vector<StdSize> countEdges(1) ;
	657	std::vector<StdSize> startNodes(1) ;
	658	std::vector<StdSize> countNodes(1) ;
	659	std::vector<StdSize> startFaces(1) ;
	660	std::vector<StdSize> countFaces(1) ;
	661	std::vector<StdSize> startEdgeNodes(2) ;
	662	std::vector<StdSize> countEdgeNodes(2) ;
	663	std::vector<StdSize> startEdgeFaces(2) ;
	664	std::vector<StdSize> countEdgeFaces(2) ;
	665	std::vector<StdSize> startFaceConctv(2) ;
	666	std::vector<StdSize> countFaceConctv(2) ;
[902]	667
[879]	668	if (!isWrittenDomain(domid))
	669	{
	670	if (domain->nvertex == 1)
	671	{
[924]	672	if (domain->isEmpty())
	673	{
	674	startNodes[0]=0 ;
	675	countNodes[0]=0 ;
	676	}
	677	else
	678	{
	679	startNodes[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	680	countNodes[0] = domain->zoom_ni_srv ;
	681	}
	682
	683	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
	684	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
[879]	685	}
	686	else if (domain->nvertex == 2)
[924]	687	{
	688	if (domain->isEmpty())
	689	{
	690	startEdges[0]=0 ;
	691	countEdges[0]=0 ;
	692	startNodes[0]=0 ;
	693	countNodes[0]=0 ;
	694	startEdgeNodes[0]=0;
	695	startEdgeNodes[1]=0;
	696	countEdgeNodes[0]=0;
	697	countEdgeNodes[1]=0;
	698
	699	}
	700	else
	701	{
	702	startEdges[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	703	countEdges[0] = domain->zoom_ni_srv ;
	704	startNodes[0] = domain->mesh->node_start;
	705	countNodes[0] = domain->mesh->node_count;
	706	startEdgeNodes[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	707	startEdgeNodes[1] = 0;
	708	countEdgeNodes[0] = domain->zoom_ni_srv;
	709	countEdgeNodes[1]= 2;
	710	}
	711	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
	712	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
	713	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
	714	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
	715	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
	716	}
[879]	717	else
	718	{
[924]	719	if (domain->isEmpty())
	720	{
	721	startFaces[0] = 0 ;
	722	countFaces[0] = 0 ;
	723	startNodes[0] = 0;
	724	countNodes[0] = 0;
	725	startEdges[0] = 0;
	726	countEdges[0] = 0;
	727	startEdgeFaces[0] = 0;
	728	startEdgeFaces[1] = 0;
	729	countEdgeFaces[0] = 0;
	730	countEdgeFaces[1] = 0;
	731	startFaceConctv[0] = 0;
	732	startFaceConctv[1] = 0;
	733	countFaceConctv[0] = 0;
	734	countFaceConctv[1] = 0;
	735	}
	736	else
	737	{
	738	startFaces[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	739	countFaces[0] = domain->zoom_ni_srv ;
	740	startNodes[0] = domain->mesh->node_start;
	741	countNodes[0] = domain->mesh->node_count;
	742	startEdges[0] = domain->mesh->edge_start;
	743	countEdges[0] = domain->mesh->edge_count;
	744	startEdgeNodes[0] = domain->mesh->edge_start;
	745	startEdgeNodes[1] = 0;
	746	countEdgeNodes[0] = domain->mesh->edge_count;
	747	countEdgeNodes[1]= 2;
	748	startEdgeFaces[0] = domain->mesh->edge_start;
	749	startEdgeFaces[1]= 0;
	750	countEdgeFaces[0] = domain->mesh->edge_count;
	751	countEdgeFaces[1]= 2;
	752	startFaceConctv[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	753	startFaceConctv[1] = 0;
	754	countFaceConctv[0] = domain->zoom_ni_srv;
	755	countFaceConctv[1] = domain->nvertex;
	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	SuperClassWriter::writeData(domain->mesh->face_lat, face_y, isCollective, 0, &startFaces, &countFaces);
	763	SuperClassWriter::writeData(domain->mesh->face_lon, face_x, isCollective, 0, &startFaces, &countFaces);
	764	SuperClassWriter::writeData(domain->mesh->face_nodes, face_nodes, isCollective, 0, &startFaceConctv, &countFaceConctv);
	765	SuperClassWriter::writeData(domain->mesh->face_edges, face_edges, isCollective, 0, &startFaceConctv, &countFaceConctv);
	766	SuperClassWriter::writeData(domain->mesh->edge_faces, edge_faces, isCollective, 0, &startEdgeFaces, &countEdgeFaces);
	767	SuperClassWriter::writeData(domain->mesh->face_faces, face_faces, isCollective, 0, &startFaceConctv, &countFaceConctv);
[879]	768	}
	769	setWrittenDomain(domid);
	770	} // !isWrittenDomain
	771	else
	772	{
	773	if (domain->nvertex == 2)
	774	{
[924]	775	startEdges[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	776	countEdges[0] = domain->zoom_ni_srv ;
	777	startEdgeNodes[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	778	startEdgeNodes[1] = 0;
	779	countEdgeNodes[0] = domain->zoom_ni_srv;
	780	countEdgeNodes[1]= 2;
	781	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
	782	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
	783	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
[879]	784	}
	785	if (domain->nvertex > 2)
	786	{
[924]	787
[879]	788	if (!domain->mesh->edgesAreWritten)
	789	{
[924]	790	startEdges[0] = domain->mesh->edge_start;
	791	countEdges[0] = domain->mesh->edge_count;
	792	startEdgeNodes[0] = domain->mesh->edge_start;
	793	startEdgeNodes[1] = 0;
	794	countEdgeNodes[0] = domain->mesh->edge_count;
	795	countEdgeNodes[1]= 2;
	796	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
	797	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
	798	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
[879]	799	}
[924]	800	startFaces[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	801	countFaces[0] = domain->zoom_ni_srv;
	802	startEdgeFaces[0] = domain->mesh->edge_start;
	803	startEdgeFaces[1]= 0;
	804	countEdgeFaces[0] = domain->mesh->edge_count;
	805	countEdgeFaces[1]= 2;
	806	startFaceConctv[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	807	startFaceConctv[1] = 0;
	808	countFaceConctv[0] = domain->zoom_ni_srv;
	809	countFaceConctv[1]= domain->nvertex;
	810	SuperClassWriter::writeData(domain->mesh->face_lat, face_y, isCollective, 0, &startFaces, &countFaces);
	811	SuperClassWriter::writeData(domain->mesh->face_lon, face_x, isCollective, 0, &startFaces, &countFaces);
	812	SuperClassWriter::writeData(domain->mesh->face_nodes, face_nodes, isCollective, 0, &startFaceConctv, &countFaceConctv);
	813	SuperClassWriter::writeData(domain->mesh->face_edges, face_edges, isCollective, 0, &startFaceConctv, &countFaceConctv);
	814	SuperClassWriter::writeData(domain->mesh->edge_faces, edge_faces, isCollective, 0, &startEdgeFaces, &countEdgeFaces);
	815	SuperClassWriter::writeData(domain->mesh->face_faces, face_faces, isCollective, 0, &startFaceConctv, &countFaceConctv);
[879]	816	}
	817	}// isWrittenDomain
[878]	818
[879]	819	SuperClassWriter::definition_start();
[878]	820
[879]	821	break;
	822	} // ONE_FILE
[878]	823
[879]	824	case (MULTI_FILE) :
	825	{
	826	break;
	827	}
[878]	828
[879]	829	default :
	830	ERROR("CNc4DataOutput::writeDomain(domain)",
	831	<< "[ type = " << SuperClass::type << "]"
	832	<< " not implemented yet !");
	833	} // switch
	834	} // try
[878]	835
[879]	836	catch (CNetCdfException& e)
	837	{
	838	StdString msg("On writing the domain : ");
	839	msg.append(domid); msg.append("\n");
	840	msg.append("In the context : ");
	841	msg.append(context->getId()); msg.append("\n");
	842	msg.append(e.what());
[924]	843	ERROR("CNc4DataOutput::writeUnstructuredDomainUgrid(CDomain* domain)", << msg);
[879]	844	}
[878]	845
[879]	846	domain->addRelFile(this->filename);
	847	}
[878]	848
[879]	849	//--------------------------------------------------------------
[878]	850
[879]	851	void CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)
[449]	852	{
	853	CContext* context = CContext::getCurrent() ;
	854	CContextServer* server=context->server ;
[488]	855
[449]	856	if (domain->IsWritten(this->filename)) return;
	857	domain->checkAttributes();
[488]	858
	859	if (domain->isEmpty())
[449]	860	if (SuperClass::type==MULTI_FILE) return ;
	861
	862	std::vector<StdString> dim0, dim1;
[772]	863	StdString domid = domain->getDomainOutputName();
[705]	864	if (isWrittenDomain(domid)) return ;
[774]	865	else setWrittenDomain(domid);
[705]	866
[449]	867	StdString appendDomid = (singleDomain) ? "" : "_"+domid ;
	868
	869	StdString dimXid = StdString("cell").append(appendDomid);
	870	StdString dimVertId = StdString("nvertex").append(appendDomid);
[488]	871
[449]	872	string lonid,latid,bounds_lonid,bounds_latid ;
[611]	873	string areaId = "area" + appendDomid;
[449]	874
[1045]	875	nc_type typePrec ;
	876	if (domain->prec.isEmpty()) typePrec = NC_FLOAT ;
	877	else if (domain->prec==4) typePrec = NC_FLOAT ;
	878	else if (domain->prec==8) typePrec = NC_DOUBLE ;
	879
[498]	880	try
[449]	881	{
[498]	882	switch (SuperClass::type)
	883	{
	884	case (MULTI_FILE) :
	885	{
	886	dim0.push_back(dimXid);
[657]	887	SuperClassWriter::addDimension(dimXid, domain->zoom_ni_srv);
[488]	888
[665]	889	lonid = StdString("lon").append(appendDomid);
	890	latid = StdString("lat").append(appendDomid);
[498]	891	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	892	bounds_latid = StdString("bounds_lat").append(appendDomid);
[665]	893	if (domain->hasLonLat)
	894	{
[1045]	895	SuperClassWriter::addVariable(latid, typePrec, dim0);
	896	SuperClassWriter::addVariable(lonid, typePrec, dim0);
[665]	897	this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid);
	898	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid);
	899	this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid);
	900	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid);
	901	if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	902	}
[498]	903	dim0.clear();
	904	if (domain->hasBounds)
	905	{
	906	dim0.push_back(dimXid);
	907	dim0.push_back(dimVertId);
[1045]	908	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0);
	909	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0);
[498]	910	}
	911
	912	dim0.clear();
[449]	913	dim0.push_back(dimXid);
[611]	914	if (domain->hasArea)
	915	{
[1045]	916	SuperClassWriter::addVariable(areaId, typePrec, dim0);
[614]	917	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	918	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	919	}
	920
[498]	921	SuperClassWriter::definition_end();
[449]	922
[665]	923	if (domain->hasLonLat)
[498]	924	{
[665]	925	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0);
	926	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0);
	927	if (domain->hasBounds)
	928	{
	929	SuperClassWriter::writeData(domain->bounds_lon_srv, bounds_lonid, isCollective, 0);
	930	SuperClassWriter::writeData(domain->bounds_lat_srv, bounds_latid, isCollective, 0);
	931	}
[498]	932	}
[611]	933
	934	if (domain->hasArea)
	935	SuperClassWriter::writeData(domain->area_srv, areaId, isCollective, 0);
	936
[498]	937	SuperClassWriter::definition_start();
	938	break ;
	939	}
[488]	940
[498]	941	case (ONE_FILE) :
	942	{
	943	lonid = StdString("lon").append(appendDomid);
	944	latid = StdString("lat").append(appendDomid);
	945	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	946	bounds_latid = StdString("bounds_lat").append(appendDomid);
	947	dim0.push_back(dimXid);
[705]	948	SuperClassWriter::addDimension(dimXid, domain->ni_glo);
[665]	949	if (domain->hasLonLat)
	950	{
[1045]	951	SuperClassWriter::addVariable(latid, typePrec, dim0);
	952	SuperClassWriter::addVariable(lonid, typePrec, dim0);
[665]	953
	954	this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid);
	955	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid);
	956	this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid);
	957	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid);
	958	if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	959	}
[498]	960	dim0.clear();
[449]	961
[498]	962	if (domain->hasBounds)
	963	{
	964	dim0.push_back(dimXid);
	965	dim0.push_back(dimVertId);
[1045]	966	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0);
	967	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0);
[498]	968	}
[488]	969
[611]	970	if (domain->hasArea)
	971	{
	972	dim0.clear();
	973	dim0.push_back(dimXid);
[1045]	974	SuperClassWriter::addVariable(areaId, typePrec, dim0);
[614]	975	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	976	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	977	}
	978
[498]	979	SuperClassWriter::definition_end();
[488]	980
[498]	981	std::vector<StdSize> start(1), startBounds(2) ;
	982	std::vector<StdSize> count(1), countBounds(2) ;
	983	if (domain->isEmpty())
	984	{
	985	start[0]=0 ;
	986	count[0]=0 ;
	987	startBounds[1]=0 ;
	988	countBounds[1]=domain->nvertex ;
	989	startBounds[0]=0 ;
	990	countBounds[0]=0 ;
	991	}
	992	else
	993	{
[705]	994	start[0]=domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	995	count[0]=domain->zoom_ni_srv ;
	996	startBounds[0]=domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
[498]	997	startBounds[1]=0 ;
[705]	998	countBounds[0]=domain->zoom_ni_srv ;
[498]	999	countBounds[1]=domain->nvertex ;
	1000	}
[665]	1001
	1002	if (domain->hasLonLat)
[498]	1003	{
[665]	1004	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0,&start,&count);
	1005	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0,&start,&count);
	1006	if (domain->hasBounds)
	1007	{
	1008	SuperClassWriter::writeData(domain->bounds_lon_srv, bounds_lonid, isCollective, 0,&startBounds,&countBounds);
	1009	SuperClassWriter::writeData(domain->bounds_lat_srv, bounds_latid, isCollective, 0,&startBounds,&countBounds);
	1010	}
[498]	1011	}
[488]	1012
[611]	1013	if (domain->hasArea)
	1014	SuperClassWriter::writeData(domain->area_srv, areaId, isCollective, 0, &start, &count);
[488]	1015
[498]	1016	SuperClassWriter::definition_start();
[488]	1017
[498]	1018	break;
	1019	}
	1020	default :
	1021	ERROR("CNc4DataOutput::writeDomain(domain)",
	1022	<< "[ type = " << SuperClass::type << "]"
	1023	<< " not implemented yet !");
	1024	}
[219]	1025	}
[498]	1026	catch (CNetCdfException& e)
	1027	{
	1028	StdString msg("On writing the domain : ");
	1029	msg.append(domid); msg.append("\n");
	1030	msg.append("In the context : ");
	1031	msg.append(context->getId()); msg.append("\n");
	1032	msg.append(e.what());
	1033	ERROR("CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)", << msg);
	1034	}
[219]	1035	domain->addRelFile(this->filename);
	1036	}
	1037	//--------------------------------------------------------------
	1038
[347]	1039	void CNc4DataOutput::writeAxis_(CAxis* axis)
[219]	1040	{
[609]	1041	if (axis->IsWritten(this->filename)) return;
	1042	axis->checkAttributes();
	1043	int zoom_size_srv = axis->zoom_size_srv;
	1044	int zoom_begin_srv = axis->zoom_begin_srv;
[633]	1045	int zoom_size = (MULTI_FILE == SuperClass::type) ? zoom_size_srv
[821]	1046	: axis->global_zoom_n;
[633]	1047	int zoom_begin = (MULTI_FILE == SuperClass::type) ? zoom_begin_srv
[623]	1048	: axis->global_zoom_begin;
[488]	1049
[633]	1050	if ((0 == zoom_size_srv) && (MULTI_FILE == SuperClass::type)) return;
[498]	1051
[609]	1052	std::vector<StdString> dims;
[772]	1053	StdString axisid = axis->getAxisOutputName();
[705]	1054	if (isWrittenAxis(axisid)) return ;
[774]	1055	else setWrittenAxis(axisid);
[705]	1056
[1045]	1057	nc_type typePrec ;
	1058	if (axis->prec.isEmpty()) typePrec = NC_FLOAT ;
	1059	else if (axis->prec==4) typePrec = NC_FLOAT ;
	1060	else if (axis->prec==8) typePrec = NC_DOUBLE ;
	1061
[1050]	1062	if (!axis->label.isEmpty()) typePrec = NC_CHAR ;
	1063	string strId="str_len" ;
[609]	1064	try
	1065	{
	1066	SuperClassWriter::addDimension(axisid, zoom_size);
[1050]	1067	if (!axis->label.isEmpty()) SuperClassWriter::addDimension(strId, stringArrayLen);
[816]	1068	if (axis->hasValue)
	1069	{
	1070	dims.push_back(axisid);
[1050]	1071	if (!axis->label.isEmpty()) dims.push_back(strId);
[1045]	1072	SuperClassWriter::addVariable(axisid, typePrec, dims);
[219]	1073
[816]	1074	if (!axis->name.isEmpty())
	1075	SuperClassWriter::addAttribute("name", axis->name.getValue(), &axisid);
[219]	1076
[816]	1077	if (!axis->standard_name.isEmpty())
	1078	SuperClassWriter::addAttribute("standard_name", axis->standard_name.getValue(), &axisid);
[540]	1079
[816]	1080	if (!axis->long_name.isEmpty())
	1081	SuperClassWriter::addAttribute("long_name", axis->long_name.getValue(), &axisid);
[219]	1082
[816]	1083	if (!axis->unit.isEmpty())
	1084	SuperClassWriter::addAttribute("units", axis->unit.getValue(), &axisid);
[219]	1085
[816]	1086	if (!axis->positive.isEmpty())
	1087	{
	1088	SuperClassWriter::addAttribute("axis", string("Z"), &axisid);
	1089	SuperClassWriter::addAttribute("positive",
	1090	(axis->positive == CAxis::positive_attr::up) ? string("up") : string("down"),
	1091	&axisid);
	1092	}
[399]	1093
[816]	1094	StdString axisBoundsId = axisid + "_bounds";
	1095	if (!axis->bounds.isEmpty())
	1096	{
	1097	dims.push_back("axis_nbounds");
[1045]	1098	SuperClassWriter::addVariable(axisBoundsId, typePrec, dims);
[816]	1099	SuperClassWriter::addAttribute("bounds", axisBoundsId, &axisid);
	1100	}
[488]	1101
[816]	1102	SuperClassWriter::definition_end();
	1103
	1104	switch (SuperClass::type)
[633]	1105	{
[816]	1106	case MULTI_FILE:
	1107	{
	1108	CArray<double,1> axis_value(zoom_size_srv);
	1109	for (int i = 0; i < zoom_size_srv; i++) axis_value(i) = axis->value_srv(i);
[1050]	1110	if (axis->label.isEmpty()) SuperClassWriter::writeData(axis_value, axisid, isCollective, 0);
[633]	1111
[1050]	1112	if (!axis->bounds.isEmpty() && axis->label.isEmpty())
[816]	1113	SuperClassWriter::writeData(axis->bound_srv, axisBoundsId, isCollective, 0);
[488]	1114
[1050]	1115	if (! axis->label.isEmpty()) SuperClassWriter::writeData(axis->label_srv, axisid, isCollective, 0);
	1116
[816]	1117	SuperClassWriter::definition_start();
	1118	break;
	1119	}
	1120	case ONE_FILE:
	1121	{
	1122	CArray<double,1> axis_value(zoom_size_srv);
	1123	axis_value = axis->value_srv;
[498]	1124
[816]	1125	std::vector<StdSize> start(1), startBounds(2) ;
	1126	std::vector<StdSize> count(1), countBounds(2) ;
	1127	start[0] = startBounds[0] = zoom_begin_srv-axis->global_zoom_begin;
	1128	count[0] = countBounds[0] = zoom_size_srv;
	1129	startBounds[1] = 0;
	1130	countBounds[1] = 2;
[1050]	1131	if (axis->label.isEmpty()) SuperClassWriter::writeData(axis_value, axisid, isCollective, 0, &start, &count);
[633]	1132
[1050]	1133	if (!axis->bounds.isEmpty()&& axis->label.isEmpty())
[816]	1134	SuperClassWriter::writeData(axis->bound_srv, axisBoundsId, isCollective, 0, &startBounds, &countBounds);
[609]	1135
[1050]	1136	if (! axis->label.isEmpty()) SuperClassWriter::writeData(axis->label_srv, axisid, isCollective, 0);
	1137
[816]	1138	SuperClassWriter::definition_start();
[609]	1139
[816]	1140	break;
	1141	}
	1142	default :
	1143	ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)",
	1144	<< "[ type = " << SuperClass::type << "]"
	1145	<< " not implemented yet !");
[609]	1146	}
	1147	}
	1148	}
	1149	catch (CNetCdfException& e)
	1150	{
	1151	StdString msg("On writing the axis : ");
	1152	msg.append(axisid); msg.append("\n");
	1153	msg.append("In the context : ");
	1154	CContext* context = CContext::getCurrent() ;
	1155	msg.append(context->getId()); msg.append("\n");
	1156	msg.append(e.what());
	1157	ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)", << msg);
	1158	}
	1159	axis->addRelFile(this->filename);
[391]	1160	}
[488]	1161
[887]	1162	void CNc4DataOutput::writeScalar_(CScalar* scalar)
	1163	{
	1164	if (scalar->IsWritten(this->filename)) return;
	1165	scalar->checkAttributes();
	1166	int scalarSize = 1;
	1167
	1168	StdString scalaId = scalar->getScalarOutputName();
	1169	if (isWrittenAxis(scalaId)) return ;
	1170	else setWrittenAxis(scalaId);
	1171
[1045]	1172	nc_type typePrec ;
	1173	if (scalar->prec.isEmpty()) typePrec = NC_FLOAT ;
	1174	else if (scalar->prec==4) typePrec = NC_FLOAT ;
	1175	else if (scalar->prec==8) typePrec = NC_DOUBLE ;
	1176
	1177
[887]	1178	try
	1179	{
	1180	if (!scalar->value.isEmpty())
	1181	{
	1182	// dims.push_back(scalaId);
	1183	std::vector<StdString> dims;
[1045]	1184	SuperClassWriter::addVariable(scalaId, typePrec, dims);
[887]	1185
	1186	if (!scalar->name.isEmpty())
	1187	SuperClassWriter::addAttribute("name", scalar->name.getValue(), &scalaId);
	1188
	1189	if (!scalar->standard_name.isEmpty())
	1190	SuperClassWriter::addAttribute("standard_name", scalar->standard_name.getValue(), &scalaId);
	1191
	1192	if (!scalar->long_name.isEmpty())
	1193	SuperClassWriter::addAttribute("long_name", scalar->long_name.getValue(), &scalaId);
	1194
	1195	if (!scalar->unit.isEmpty())
	1196	SuperClassWriter::addAttribute("units", scalar->unit.getValue(), &scalaId);
	1197
	1198	SuperClassWriter::definition_end();
	1199
	1200	switch (SuperClass::type)
	1201	{
	1202	case MULTI_FILE:
	1203	{
	1204	CArray<double,1> scalarValue(scalarSize);
	1205	scalarValue(0) = scalar->value;
	1206	SuperClassWriter::writeData(scalarValue, scalaId, isCollective, 0);
	1207	SuperClassWriter::definition_start();
	1208
	1209	break;
	1210	}
	1211	case ONE_FILE:
	1212	{
	1213	CArray<double,1> scalarValue(scalarSize);
	1214	scalarValue(0) = scalar->value;
	1215
	1216	std::vector<StdSize> start(1);
	1217	std::vector<StdSize> count(1);
	1218	start[0] = 0;
	1219	count[0] = 1;
	1220	SuperClassWriter::writeData(scalarValue, scalaId, isCollective, 0, &start, &count);
	1221	SuperClassWriter::definition_start();
	1222
	1223	break;
	1224	}
	1225	default :
	1226	ERROR("CNc4DataOutput::writeAxis_(CAxis* scalar)",
	1227	<< "[ type = " << SuperClass::type << "]"
	1228	<< " not implemented yet !");
	1229	}
	1230	}
	1231	}
	1232	catch (CNetCdfException& e)
	1233	{
	1234	StdString msg("On writing the scalar : ");
	1235	msg.append(scalaId); msg.append("\n");
	1236	msg.append("In the context : ");
	1237	CContext* context = CContext::getCurrent() ;
	1238	msg.append(context->getId()); msg.append("\n");
	1239	msg.append(e.what());
	1240	ERROR("CNc4DataOutput::writeScalar_(CScalar* scalar)", << msg);
	1241	}
	1242	scalar->addRelFile(this->filename);
	1243	}
	1244
[676]	1245	//--------------------------------------------------------------
	1246
	1247	void CNc4DataOutput::writeGridCompressed_(CGrid* grid)
	1248	{
	1249	if (grid->isScalarGrid() \|\| grid->isWrittenCompressed(this->filename)) return;
	1250
	1251	try
	1252	{
[887]	1253	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
[676]	1254	std::vector<StdString> domainList = grid->getDomainList();
	1255	std::vector<StdString> axisList = grid->getAxisList();
[887]	1256	std::vector<StdString> scalarList = grid->getScalarList();
	1257	int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0, idxScalar = 0;
[676]	1258
	1259	std::vector<StdString> dims;
	1260
	1261	if (grid->isCompressible())
	1262	{
	1263	StdString varId = grid->getId() + "_points";
	1264
	1265	int nbIndexes = (SuperClass::type == MULTI_FILE) ? grid->getNumberWrittenIndexes() : grid->getTotalNumberWrittenIndexes();
	1266	SuperClassWriter::addDimension(varId, nbIndexes);
	1267
	1268	dims.push_back(varId);
	1269	SuperClassWriter::addVariable(varId, NC_INT, dims);
	1270
	1271	StdOStringStream compress;
	1272	for (int i = numElement - 1; i >= 0; --i)
	1273	{
[887]	1274	if (2 == axisDomainOrder(i))
[676]	1275	{
	1276	CDomain* domain = CDomain::get(domainList[domainList.size() - idxDomain - 1]);
[772]	1277	StdString domId = domain->getDomainOutputName();
[676]	1278	StdString appendDomId = singleDomain ? "" : "_" + domId;
	1279
	1280	switch (domain->type)
	1281	{
	1282	case CDomain::type_attr::curvilinear:
	1283	compress << "y" << appendDomId << " x" << appendDomId;
	1284	break;
	1285	case CDomain::type_attr::rectilinear:
	1286	compress << "lat" << appendDomId << " lon" << appendDomId;
	1287	break;
	1288	case CDomain::type_attr::unstructured:
	1289	compress << "cell" << appendDomId;
	1290	break;
	1291	}
	1292	++idxDomain;
	1293	}
[887]	1294	else if (1 == axisDomainOrder(i))
[676]	1295	{
	1296	CAxis* axis = CAxis::get(axisList[axisList.size() - idxAxis - 1]);
[772]	1297	compress << axis->getAxisOutputName();
[676]	1298	++idxAxis;
	1299	}
[887]	1300	else
	1301	{
	1302	CScalar* scalar = CScalar::get(scalarList[scalarList.size() - idxScalar - 1]);
	1303	compress << scalar->getScalarOutputName();
	1304	++idxScalar;
	1305	}
[676]	1306
	1307	if (i != 0) compress << ' ';
	1308	}
	1309	SuperClassWriter::addAttribute("compress", compress.str(), &varId);
	1310
	1311	grid->computeCompressedIndex();
	1312
	1313	CArray<int, 1> indexes(grid->getNumberWrittenIndexes());
	1314	std::map<int, CArray<size_t, 1> >::const_iterator it;
	1315	for (it = grid->outIndexFromClient.begin(); it != grid->outIndexFromClient.end(); ++it)
	1316	{
	1317	const CArray<size_t, 1> compressedIndexes = grid->compressedOutIndexFromClient[it->first];
	1318	for (int i = 0; i < it->second.numElements(); i++)
	1319	indexes(compressedIndexes(i)) = it->second(i);
	1320	}
	1321
	1322	switch (SuperClass::type)
	1323	{
	1324	case (MULTI_FILE):
	1325	{
	1326	SuperClassWriter::writeData(indexes, varId, isCollective, 0);
	1327	break;
	1328	}
	1329	case (ONE_FILE):
	1330	{
	1331	if (grid->doGridHaveDataDistributed())
	1332	grid->getDistributionServer()->computeGlobalIndex(indexes);
	1333
	1334	std::vector<StdSize> start, count;
	1335	start.push_back(grid->getOffsetWrittenIndexes());
	1336	count.push_back(grid->getNumberWrittenIndexes());
	1337
	1338	SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count);
	1339	break;
	1340	}
	1341	}
	1342	}
	1343	else
	1344	{
	1345	for (int i = 0; i < numElement; ++i)
	1346	{
	1347	StdString varId, compress;
	1348	CArray<int, 1> indexes;
	1349	bool isDistributed;
	1350	StdSize nbIndexes, totalNbIndexes, offset;
	1351	int firstGlobalIndex;
	1352
[887]	1353	if (2 == axisDomainOrder(i))
[676]	1354	{
	1355	CDomain* domain = CDomain::get(domainList[idxDomain]);
[774]	1356	StdString domId = domain->getDomainOutputName();
	1357
[676]	1358	if (!domain->isCompressible()
	1359	\|\| domain->type == CDomain::type_attr::unstructured
[774]	1360	\|\| domain->isWrittenCompressed(this->filename)
	1361	\|\| isWrittenCompressedDomain(domId))
[676]	1362	continue;
	1363
	1364	StdString appendDomId = singleDomain ? "" : "_" + domId;
	1365
	1366	varId = domId + "_points";
	1367	switch (domain->type)
	1368	{
	1369	case CDomain::type_attr::curvilinear:
	1370	compress = "y" + appendDomId + " x" + appendDomId;
	1371	break;
	1372	case CDomain::type_attr::rectilinear:
	1373	compress = "lat" + appendDomId + " lon" + appendDomId;
	1374	break;
	1375	}
	1376
	1377	const std::vector<int>& indexesToWrite = domain->getIndexesToWrite();
	1378	indexes.resize(indexesToWrite.size());
	1379	for (int n = 0; n < indexes.numElements(); ++n)
	1380	indexes(n) = indexesToWrite[n];
	1381
	1382	isDistributed = domain->isDistributed();
	1383	nbIndexes = domain->getNumberWrittenIndexes();
	1384	totalNbIndexes = domain->getTotalNumberWrittenIndexes();
	1385	offset = domain->getOffsetWrittenIndexes();
	1386	firstGlobalIndex = domain->ibegin + domain->jbegin * domain->ni_glo;
	1387
	1388	domain->addRelFileCompressed(this->filename);
[774]	1389	setWrittenCompressedDomain(domId);
[676]	1390	++idxDomain;
	1391	}
[887]	1392	else if (1 == axisDomainOrder(i))
[676]	1393	{
	1394	CAxis* axis = CAxis::get(axisList[idxAxis]);
[774]	1395	StdString axisId = axis->getAxisOutputName();
	1396
	1397	if (!axis->isCompressible()
	1398	\|\| axis->isWrittenCompressed(this->filename)
	1399	\|\| isWrittenCompressedAxis(axisId))
[676]	1400	continue;
	1401
	1402	varId = axisId + "_points";
	1403	compress = axisId;
	1404
	1405	const std::vector<int>& indexesToWrite = axis->getIndexesToWrite();
	1406	indexes.resize(indexesToWrite.size());
	1407	for (int n = 0; n < indexes.numElements(); ++n)
	1408	indexes(n) = indexesToWrite[n];
	1409
	1410	isDistributed = axis->isDistributed();
	1411	nbIndexes = axis->getNumberWrittenIndexes();
	1412	totalNbIndexes = axis->getTotalNumberWrittenIndexes();
	1413	offset = axis->getOffsetWrittenIndexes();
	1414	firstGlobalIndex = axis->begin;
	1415
	1416	axis->addRelFileCompressed(this->filename);
[774]	1417	setWrittenCompressedAxis(axisId);
[676]	1418	++idxAxis;
	1419	}
[887]	1420	else
	1421	{
	1422	}
[676]	1423
	1424	if (!varId.empty())
	1425	{
	1426	SuperClassWriter::addDimension(varId, (SuperClass::type == MULTI_FILE) ? nbIndexes : totalNbIndexes);
	1427
	1428	dims.clear();
	1429	dims.push_back(varId);
	1430	SuperClassWriter::addVariable(varId, NC_INT, dims);
	1431
	1432	SuperClassWriter::addAttribute("compress", compress, &varId);
	1433
	1434	switch (SuperClass::type)
	1435	{
	1436	case (MULTI_FILE):
	1437	{
	1438	indexes -= firstGlobalIndex;
	1439	SuperClassWriter::writeData(indexes, varId, isCollective, 0);
	1440	break;
	1441	}
	1442	case (ONE_FILE):
	1443	{
	1444	std::vector<StdSize> start, count;
	1445	start.push_back(offset);
	1446	count.push_back(nbIndexes);
	1447
	1448	SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count);
	1449	break;
	1450	}
	1451	}
	1452	}
	1453	}
	1454
	1455	if (!dims.empty())
	1456	grid->computeCompressedIndex();
	1457	}
	1458
	1459	grid->addRelFileCompressed(this->filename);
	1460	}
	1461	catch (CNetCdfException& e)
	1462	{
	1463	StdString msg("On writing compressed grid : ");
	1464	msg.append(grid->getId()); msg.append("\n");
	1465	msg.append("In the context : ");
	1466	CContext* context = CContext::getCurrent();
	1467	msg.append(context->getId()); msg.append("\n");
	1468	msg.append(e.what());
	1469	ERROR("CNc4DataOutput::writeGridCompressed_(CGrid* grid)", << msg);
	1470	}
	1471	}
	1472
	1473	//--------------------------------------------------------------
	1474
[391]	1475	void CNc4DataOutput::writeTimeDimension_(void)
	1476	{
[498]	1477	try
	1478	{
[802]	1479	SuperClassWriter::addDimension(getTimeCounterName());
[498]	1480	}
	1481	catch (CNetCdfException& e)
	1482	{
[614]	1483	StdString msg("On writing time dimension : time_couter\n");
[498]	1484	msg.append("In the context : ");
	1485	CContext* context = CContext::getCurrent() ;
	1486	msg.append(context->getId()); msg.append("\n");
	1487	msg.append(e.what());
	1488	ERROR("CNc4DataOutput::writeTimeDimension_(void)", << msg);
	1489	}
[391]	1490	}
[676]	1491
[219]	1492	//--------------------------------------------------------------
	1493
[347]	1494	void CNc4DataOutput::writeField_(CField* field)
[219]	1495	{
[993]	1496	CContext* context = CContext::getCurrent() ;
	1497	CContextServer* server=context->server ;
[300]	1498
[993]	1499	std::vector<StdString> dims, coodinates;
	1500	CGrid* grid = field->grid;
	1501	if (!grid->doGridHaveDataToWrite())
[567]	1502	if (SuperClass::type==MULTI_FILE) return ;
[488]	1503
[993]	1504	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
	1505	int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0, idxScalar = 0;
	1506	std::vector<StdString> domainList = grid->getDomainList();
	1507	std::vector<StdString> axisList = grid->getAxisList();
[999]	1508	std::vector<StdString> scalarList = grid->getScalarList();
[219]	1509
[993]	1510	StdString timeid = getTimeCounterName();
	1511	StdString dimXid,dimYid;
	1512	std::deque<StdString> dimIdList, dimCoordList;
	1513	bool hasArea = false;
	1514	StdString cellMeasures = "area:";
	1515	bool compressedOutput = !field->indexed_output.isEmpty() && field->indexed_output;
[676]	1516
[993]	1517	for (int i = 0; i < numElement; ++i)
	1518	{
	1519	if (2 == axisDomainOrder(i))
	1520	{
[999]	1521	CDomain* domain = CDomain::get(domainList[idxDomain]);
[993]	1522	StdString domId = domain->getDomainOutputName();
	1523	StdString appendDomId = singleDomain ? "" : "_" + domId ;
[676]	1524
[993]	1525	if (compressedOutput && domain->isCompressible() && domain->type != CDomain::type_attr::unstructured)
[879]	1526	{
[993]	1527	dimIdList.push_back(domId + "_points");
	1528	field->setUseCompressedOutput();
[879]	1529	}
[993]	1530
	1531	switch (domain->type)
[879]	1532	{
[993]	1533	case CDomain::type_attr::curvilinear:
	1534	if (!compressedOutput \|\| !domain->isCompressible())
	1535	{
	1536	dimXid = StdString("x").append(appendDomId);
	1537	dimIdList.push_back(dimXid);
	1538	dimYid = StdString("y").append(appendDomId);
	1539	dimIdList.push_back(dimYid);
	1540	}
	1541	dimCoordList.push_back(StdString("nav_lon").append(appendDomId));
	1542	dimCoordList.push_back(StdString("nav_lat").append(appendDomId));
	1543	break ;
	1544	case CDomain::type_attr::rectilinear:
	1545	if (!compressedOutput \|\| !domain->isCompressible())
	1546	{
	1547	dimXid = StdString("lon").append(appendDomId);
	1548	dimIdList.push_back(dimXid);
	1549	dimYid = StdString("lat").append(appendDomId);
	1550	dimIdList.push_back(dimYid);
	1551	}
	1552	break ;
	1553	case CDomain::type_attr::unstructured:
	1554	{
	1555	if (SuperClassWriter::useCFConvention)
	1556	{
	1557	dimXid = StdString("cell").append(appendDomId);
	1558	dimIdList.push_back(dimXid);
	1559	dimCoordList.push_back(StdString("lon").append(appendDomId));
	1560	dimCoordList.push_back(StdString("lat").append(appendDomId));
	1561	}
	1562	else
	1563	{
	1564	StdString domainName = domain->name;
	1565	if (domain->nvertex == 1)
	1566	{
	1567	dimXid = "n" + domainName + "_node";
	1568	dimIdList.push_back(dimXid);
	1569	dimCoordList.push_back(StdString(domainName + "_node_x"));
	1570	dimCoordList.push_back(StdString(domainName + "_node_y"));
	1571	}
	1572	else if (domain->nvertex == 2)
	1573	{
	1574	dimXid = "n" + domainName + "_edge";
	1575	dimIdList.push_back(dimXid);
	1576	dimCoordList.push_back(StdString(domainName + "_edge_x"));
	1577	dimCoordList.push_back(StdString(domainName + "_edge_y"));
	1578	}
	1579	else
	1580	{
	1581	dimXid = "n" + domainName + "_face";
	1582	dimIdList.push_back(dimXid);
	1583	dimCoordList.push_back(StdString(domainName + "_face_x"));
	1584	dimCoordList.push_back(StdString(domainName + "_face_y"));
	1585	}
	1586	} // ugrid convention
	1587	} // case unstructured domain
[879]	1588	}
[993]	1589
	1590	if (domain->hasArea)
[879]	1591	{
[993]	1592	hasArea = true;
	1593	cellMeasures += " area" + appendDomId;
[879]	1594	}
[993]	1595	++idxDomain;
	1596	}
	1597	else if (1 == axisDomainOrder(i))
	1598	{
	1599	CAxis* axis = CAxis::get(axisList[idxAxis]);
	1600	StdString axisId = axis->getAxisOutputName();
[878]	1601
[993]	1602	if (compressedOutput && axis->isCompressible())
	1603	{
	1604	dimIdList.push_back(axisId + "_points");
	1605	field->setUseCompressedOutput();
	1606	}
	1607	else
	1608	dimIdList.push_back(axisId);
[676]	1609
[993]	1610	dimCoordList.push_back(axisId);
	1611	++idxAxis;
	1612	}
	1613	else // scalar
	1614	{
[887]	1615	/* Do nothing here */
[993]	1616	}
	1617	}
[488]	1618
[993]	1619	StdString fieldid = field->getFieldOutputName();
[219]	1620
[993]	1621	nc_type type ;
	1622	if (field->prec.isEmpty()) type = NC_FLOAT ;
	1623	else
	1624	{
	1625	if (field->prec==2) type = NC_SHORT ;
	1626	else if (field->prec==4) type = NC_FLOAT ;
	1627	else if (field->prec==8) type = NC_DOUBLE ;
	1628	}
[488]	1629
[993]	1630	bool wtime = !(!field->operation.isEmpty() && field->getOperationTimeType() == func::CFunctor::once);
[488]	1631
[993]	1632	if (wtime)
	1633	{
[1096]	1634	if (field->hasTimeInstant && hasTimeInstant) coodinates.push_back(string("time_instant"));
	1635	else if (field->hasTimeCentered && hasTimeCentered) coodinates.push_back(string("time_centered"));
[993]	1636	dims.push_back(timeid);
	1637	}
[219]	1638
[993]	1639	if (compressedOutput && grid->isCompressible())
	1640	{
	1641	dims.push_back(grid->getId() + "_points");
	1642	field->setUseCompressedOutput();
	1643	}
	1644	else
	1645	{
	1646	while (!dimIdList.empty())
	1647	{
	1648	dims.push_back(dimIdList.back());
	1649	dimIdList.pop_back();
	1650	}
	1651	}
[219]	1652
[993]	1653	while (!dimCoordList.empty())
	1654	{
	1655	coodinates.push_back(dimCoordList.back());
	1656	dimCoordList.pop_back();
	1657	}
[219]	1658
[993]	1659	try
	1660	{
[498]	1661	SuperClassWriter::addVariable(fieldid, type, dims);
[488]	1662
[498]	1663	if (!field->standard_name.isEmpty())
	1664	SuperClassWriter::addAttribute
	1665	("standard_name", field->standard_name.getValue(), &fieldid);
[219]	1666
[498]	1667	if (!field->long_name.isEmpty())
	1668	SuperClassWriter::addAttribute
	1669	("long_name", field->long_name.getValue(), &fieldid);
[219]	1670
[498]	1671	if (!field->unit.isEmpty())
	1672	SuperClassWriter::addAttribute
	1673	("units", field->unit.getValue(), &fieldid);
[463]	1674
[993]	1675	// Ugrid field attributes "mesh" and "location"
	1676	if (!SuperClassWriter::useCFConvention)
	1677	{
[999]	1678	if (!domainList.empty())
	1679	{
	1680	CDomain* domain = CDomain::get(domainList[0]); // Suppose that we have only domain
	1681	StdString mesh = domain->name;
	1682	SuperClassWriter::addAttribute("mesh", mesh, &fieldid);
	1683	StdString location;
	1684	if (domain->nvertex == 1)
	1685	location = "node";
	1686	else if (domain->nvertex == 2)
	1687	location = "edge";
	1688	else if (domain->nvertex > 2)
	1689	location = "face";
	1690	SuperClassWriter::addAttribute("location", location, &fieldid);
	1691	}
	1692
[993]	1693	}
	1694
	1695	if (!field->valid_min.isEmpty())
[498]	1696	SuperClassWriter::addAttribute
	1697	("valid_min", field->valid_min.getValue(), &fieldid);
[463]	1698
[498]	1699	if (!field->valid_max.isEmpty())
	1700	SuperClassWriter::addAttribute
	1701	("valid_max", field->valid_max.getValue(), &fieldid);
[464]	1702
[498]	1703	if (!field->scale_factor.isEmpty())
	1704	SuperClassWriter::addAttribute
	1705	("scale_factor", field->scale_factor.getValue(), &fieldid);
[464]	1706
[498]	1707	if (!field->add_offset.isEmpty())
	1708	SuperClassWriter::addAttribute
	1709	("add_offset", field->add_offset.getValue(), &fieldid);
[488]	1710
[498]	1711	SuperClassWriter::addAttribute
	1712	("online_operation", field->operation.getValue(), &fieldid);
[472]	1713
[498]	1714	// write child variables as attributes
[488]	1715
	1716
[498]	1717	vector<CVariable*> listVars = field->getAllVariables() ;
	1718	for (vector<CVariable>::iterator it = listVars.begin() ;it != listVars.end(); it++) writeAttribute_(it, fieldid) ;
[472]	1719
[990]	1720	bool alreadyAddCellMethod = false;
	1721	StdString cellMethodsPrefix(""), cellMethodsSuffix("");
	1722	if (!field->cell_methods.isEmpty())
	1723	{
	1724	StdString cellMethodString = field->cell_methods;
	1725	if (field->cell_methods_mode.isEmpty() \|\|
	1726	(CField::cell_methods_mode_attr::overwrite == field->cell_methods_mode))
	1727	{
	1728	SuperClassWriter::addAttribute("cell_methods", cellMethodString, &fieldid);
	1729	alreadyAddCellMethod = true;
	1730	}
	1731	else
	1732	{
	1733	switch (field->cell_methods_mode)
	1734	{
	1735	case (CField::cell_methods_mode_attr::prefix):
	1736	cellMethodsPrefix = cellMethodString;
	1737	cellMethodsPrefix += " ";
	1738	break;
	1739	case (CField::cell_methods_mode_attr::suffix):
	1740	cellMethodsSuffix = " ";
	1741	cellMethodsSuffix += cellMethodString;
	1742	break;
	1743	case (CField::cell_methods_mode_attr::none):
	1744	break;
	1745	default:
	1746	break;
	1747	}
	1748	}
	1749	}
[488]	1750
[990]	1751
[498]	1752	if (wtime)
	1753	{
[614]	1754	CDuration freqOp = field->freq_op.getValue();
	1755	freqOp.solveTimeStep(*context->calendar);
	1756	StdString freqOpStr = freqOp.toStringUDUnits();
[612]	1757	SuperClassWriter::addAttribute("interval_operation", freqOpStr, &fieldid);
[437]	1758
[614]	1759	CDuration freqOut = field->getRelFile()->output_freq.getValue();
	1760	freqOut.solveTimeStep(*context->calendar);
	1761	SuperClassWriter::addAttribute("interval_write", freqOut.toStringUDUnits(), &fieldid);
[612]	1762
[990]	1763	StdString cellMethods(cellMethodsPrefix + "time: ");
[612]	1764	if (field->operation.getValue() == "instant") cellMethods += "point";
	1765	else if (field->operation.getValue() == "average") cellMethods += "mean";
	1766	else if (field->operation.getValue() == "accumulate") cellMethods += "sum";
	1767	else cellMethods += field->operation;
[614]	1768	if (freqOp.resolve(context->calendar) != freqOut.resolve(context->calendar))
	1769	cellMethods += " (interval: " + freqOpStr + ")";
[990]	1770	cellMethods += cellMethodsSuffix;
	1771	if (!alreadyAddCellMethod)
	1772	SuperClassWriter::addAttribute("cell_methods", cellMethods, &fieldid);
[498]	1773	}
[488]	1774
[611]	1775	if (hasArea)
	1776	SuperClassWriter::addAttribute("cell_measures", cellMeasures, &fieldid);
	1777
[498]	1778	if (!field->default_value.isEmpty())
	1779	{
	1780	double default_value = field->default_value.getValue();
	1781	float fdefault_value = (float)default_value;
	1782	if (type == NC_DOUBLE)
	1783	SuperClassWriter::setDefaultValue(fieldid, &default_value);
	1784	else
	1785	SuperClassWriter::setDefaultValue(fieldid, &fdefault_value);
	1786	}
	1787	else
[517]	1788	SuperClassWriter::setDefaultValue(fieldid, (double*)NULL);
[219]	1789
[606]	1790	if (field->compression_level.isEmpty())
	1791	field->compression_level = field->file->compression_level.isEmpty() ? 0 : field->file->compression_level;
	1792	SuperClassWriter::setCompressionLevel(fieldid, field->compression_level);
	1793
[878]	1794	{ // Ecriture des coordonnes
[488]	1795
[498]	1796	StdString coordstr; //boost::algorithm::join(coodinates, " ")
	1797	std::vector<StdString>::iterator
	1798	itc = coodinates.begin(), endc = coodinates.end();
[488]	1799
[498]	1800	for (; itc!= endc; itc++)
	1801	{
	1802	StdString & coord = *itc;
	1803	if (itc+1 != endc)
	1804	coordstr.append(coord).append(" ");
	1805	else coordstr.append(coord);
	1806	}
[219]	1807
[498]	1808	SuperClassWriter::addAttribute("coordinates", coordstr, &fieldid);
[219]	1809
[498]	1810	}
[219]	1811	}
[498]	1812	catch (CNetCdfException& e)
	1813	{
	1814	StdString msg("On writing field : ");
	1815	msg.append(fieldid); msg.append("\n");
	1816	msg.append("In the context : ");
	1817	msg.append(context->getId()); msg.append("\n");
	1818	msg.append(e.what());
	1819	ERROR("CNc4DataOutput::writeField_(CField* field)", << msg);
	1820	}
[879]	1821	} // writeField_()
[219]	1822
	1823	//--------------------------------------------------------------
	1824
[347]	1825	void CNc4DataOutput::writeFile_ (CFile* file)
[219]	1826	{
[773]	1827	StdString filename = file->getFileOutputName();
[219]	1828	StdString description = (!file->description.isEmpty())
	1829	? file->description.getValue()
[335]	1830	: StdString("Created by xios");
[609]	1831
	1832	singleDomain = (file->nbDomains == 1);
	1833
[1135]	1834	StdString conv_str ;
	1835	if (file->convention_str.isEmpty())
	1836	{
	1837	if (SuperClassWriter::useCFConvention) conv_str="CF-1.6" ;
	1838	else conv_str="UGRID" ;
	1839	}
	1840	else conv_str=file->convention_str ;
	1841
[498]	1842	try
	1843	{
[1135]	1844	this->writeFileAttributes(filename, description,
	1845	conv_str,
	1846	StdString("An IPSL model"),
	1847	this->getTimeStamp());
[609]	1848
[701]	1849	if (!appendMode)
	1850	SuperClassWriter::addDimension("axis_nbounds", 2);
[498]	1851	}
	1852	catch (CNetCdfException& e)
	1853	{
	1854	StdString msg("On writing file : ");
	1855	msg.append(filename); msg.append("\n");
	1856	msg.append("In the context : ");
	1857	CContext* context = CContext::getCurrent() ;
	1858	msg.append(context->getId()); msg.append("\n");
	1859	msg.append(e.what());
	1860	ERROR("CNc4DataOutput::writeFile_ (CFile* file)", << msg);
	1861	}
[219]	1862	}
[488]	1863
[472]	1864	void CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)
	1865	{
[773]	1866	StdString name = var->getVariableOutputName();
[488]	1867
[498]	1868	try
	1869	{
[527]	1870	if (var->type.getValue() == CVariable::type_attr::t_int \|\| var->type.getValue() == CVariable::type_attr::t_int32)
	1871	addAttribute(name, var->getData<int>(), &fieldId);
	1872	else if (var->type.getValue() == CVariable::type_attr::t_int16)
	1873	addAttribute(name, var->getData<short int>(), &fieldId);
	1874	else if (var->type.getValue() == CVariable::type_attr::t_float)
	1875	addAttribute(name, var->getData<float>(), &fieldId);
	1876	else if (var->type.getValue() == CVariable::type_attr::t_double)
	1877	addAttribute(name, var->getData<double>(), &fieldId);
	1878	else if (var->type.getValue() == CVariable::type_attr::t_string)
	1879	addAttribute(name, var->getData<string>(), &fieldId);
	1880	else
	1881	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)",
	1882	<< "Unsupported variable of type " << var->type.getStringValue());
[498]	1883	}
	1884	catch (CNetCdfException& e)
	1885	{
	1886	StdString msg("On writing attributes of variable with name : ");
	1887	msg.append(name); msg.append("in the field "); msg.append(fieldId); msg.append("\n");
	1888	msg.append("In the context : ");
	1889	CContext* context = CContext::getCurrent() ;
	1890	msg.append(context->getId()); msg.append("\n");
	1891	msg.append(e.what());
	1892	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)", << msg);
	1893	}
[472]	1894	}
[488]	1895
[472]	1896	void CNc4DataOutput::writeAttribute_ (CVariable* var)
	1897	{
[773]	1898	StdString name = var->getVariableOutputName();
	1899
[498]	1900	try
	1901	{
[527]	1902	if (var->type.getValue() == CVariable::type_attr::t_int \|\| var->type.getValue() == CVariable::type_attr::t_int32)
	1903	addAttribute(name, var->getData<int>());
	1904	else if (var->type.getValue() == CVariable::type_attr::t_int16)
	1905	addAttribute(name, var->getData<short int>());
	1906	else if (var->type.getValue() == CVariable::type_attr::t_float)
	1907	addAttribute(name, var->getData<float>());
	1908	else if (var->type.getValue() == CVariable::type_attr::t_double)
	1909	addAttribute(name, var->getData<double>());
	1910	else if (var->type.getValue() == CVariable::type_attr::t_string)
	1911	addAttribute(name, var->getData<string>());
	1912	else
	1913	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)",
	1914	<< "Unsupported variable of type " << var->type.getStringValue());
[498]	1915	}
	1916	catch (CNetCdfException& e)
	1917	{
	1918	StdString msg("On writing attributes of variable with name : ");
	1919	msg.append(name); msg.append("\n");
	1920	msg.append("In the context : ");
	1921	CContext* context = CContext::getCurrent() ;
	1922	msg.append(context->getId()); msg.append("\n");
	1923	msg.append(e.what());
	1924	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)", << msg);
	1925	}
[488]	1926	}
	1927
[321]	1928	void CNc4DataOutput::syncFile_ (void)
	1929	{
[498]	1930	try
	1931	{
	1932	SuperClassWriter::sync() ;
	1933	}
	1934	catch (CNetCdfException& e)
	1935	{
	1936	StdString msg("On synchronizing the write among processes");
	1937	msg.append("In the context : ");
	1938	CContext* context = CContext::getCurrent() ;
	1939	msg.append(context->getId()); msg.append("\n");
	1940	msg.append(e.what());
	1941	ERROR("CNc4DataOutput::syncFile_ (void)", << msg);
	1942	}
[321]	1943	}
[219]	1944
[286]	1945	void CNc4DataOutput::closeFile_ (void)
	1946	{
[498]	1947	try
	1948	{
	1949	SuperClassWriter::close() ;
	1950	}
	1951	catch (CNetCdfException& e)
	1952	{
	1953	StdString msg("On closing file");
	1954	msg.append("In the context : ");
	1955	CContext* context = CContext::getCurrent() ;
	1956	msg.append(context->getId()); msg.append("\n");
	1957	msg.append(e.what());
	1958	ERROR("CNc4DataOutput::syncFile_ (void)", << msg);
	1959	}
	1960
[286]	1961	}
	1962
[219]	1963	//---------------------------------------------------------------
	1964
	1965	StdString CNc4DataOutput::getTimeStamp(void) const
	1966	{
	1967	const int buffer_size = 100;
	1968	time_t rawtime;
	1969	struct tm * timeinfo = NULL;
	1970	char buffer [buffer_size];
[1046]	1971	StdString formatStr;
	1972	if (file->time_stamp_format.isEmpty()) formatStr="%Y-%b-%d %H:%M:%S %Z" ;
	1973	else formatStr=file->time_stamp_format;
[219]	1974
[1046]	1975	// time ( &rawtime );
	1976	// timeinfo = localtime ( &rawtime );
[219]	1977	time ( &rawtime );
[1046]	1978	timeinfo = gmtime ( &rawtime );
	1979	strftime (buffer, buffer_size, formatStr.c_str(), timeinfo);
[219]	1980
	1981	return (StdString(buffer));
	1982	}
[488]	1983
[219]	1984	//---------------------------------------------------------------
[488]	1985
[347]	1986	void CNc4DataOutput::writeFieldData_ (CField* field)
[219]	1987	{
[707]	1988	CContext* context = CContext::getCurrent();
	1989	CContextServer* server = context->server;
	1990	CGrid* grid = field->grid;
[300]	1991
[1135]	1992	if (field->getNStep()<1)
	1993	{
	1994	return;
	1995	}
[952]	1996
[707]	1997	if (!grid->doGridHaveDataToWrite())
[1135]	1998	if (SuperClass::type == MULTI_FILE \|\| !isCollective)
	1999	{
	2000	return;
	2001	}
[488]	2002
[1135]	2003
[770]	2004	StdString fieldid = field->getFieldOutputName();
[286]	2005
[707]	2006	StdOStringStream oss;
	2007	string timeAxisId;
[1096]	2008	if (field->hasTimeInstant) timeAxisId = "time_instant";
	2009	else if (field->hasTimeCentered) timeAxisId = "time_centered";
[488]	2010
[802]	2011	StdString timeBoundId = getTimeCounterName() + "_bounds";
[449]	2012
[707]	2013	StdString timeAxisBoundId;
[1096]	2014	if (field->hasTimeInstant) timeAxisBoundId = "time_instant_bounds";
	2015	else if (field->hasTimeCentered) timeAxisBoundId = "time_centered_bounds";
[488]	2016
[707]	2017	if (!field->wasWritten())
	2018	{
[1012]	2019	if (appendMode && field->file->record_offset.isEmpty() &&
	2020	field->getOperationTimeType() != func::CFunctor::once)
[707]	2021	{
[1046]	2022	double factorUnit;
	2023	if (!field->file->time_units.isEmpty() && field->file->time_units==CFile::time_units_attr::days)
	2024	factorUnit=context->getCalendar()->getDayLengthInSeconds() ;
	2025	else factorUnit=1 ;
[1044]	2026	field->resetNStep(getRecordFromTime(field->last_Write_srv,factorUnit) + 1);
[707]	2027	}
[488]	2028
[707]	2029	field->setWritten();
	2030	}
[488]	2031
	2032
[707]	2033	CArray<double,1> time_data(1);
	2034	CArray<double,1> time_data_bound(2);
	2035	CArray<double,1> time_counter(1);
	2036	CArray<double,1> time_counter_bound(2);
	2037
	2038	bool wtime = (field->getOperationTimeType() != func::CFunctor::once);
[1096]	2039	bool wtimeCounter =false ;
	2040	bool wtimeData =false ;
	2041
[707]	2042
[444]	2043	if (wtime)
	2044	{
[1059]	2045
[692]	2046	Time lastWrite = field->last_Write_srv;
	2047	Time lastLastWrite = field->lastlast_Write_srv;
	2048
[1096]	2049
	2050	if (field->hasTimeInstant)
	2051	{
	2052	time_data(0) = time_data_bound(1) = lastWrite;
[692]	2053	time_data_bound(0) = time_data_bound(1) = lastWrite;
[1096]	2054	if (timeCounterType==instant)
	2055	{
	2056	time_counter(0) = time_data(0);
	2057	time_counter_bound(0) = time_data_bound(0);
	2058	time_counter_bound(1) = time_data_bound(1);
	2059	wtimeCounter=true ;
	2060	}
	2061	if (hasTimeInstant) wtimeData=true ;
	2062	}
	2063	else if (field->hasTimeCentered)
[488]	2064	{
[1096]	2065	time_data(0) = (lastWrite + lastLastWrite) / 2;
[692]	2066	time_data_bound(0) = lastLastWrite;
	2067	time_data_bound(1) = lastWrite;
[1096]	2068	if (timeCounterType==centered)
	2069	{
	2070	time_counter(0) = time_data(0) ;
	2071	time_counter_bound(0) = time_data_bound(0) ;
	2072	time_counter_bound(1) = time_data_bound(1) ;
	2073	wtimeCounter=true ;
	2074	}
	2075	if (hasTimeCentered) wtimeData=true ;
[488]	2076	}
	2077
[1096]	2078	if (timeCounterType==record)
	2079	{
[692]	2080	time_counter(0) = field->getNStep() - 1;
[1096]	2081	time_counter_bound(0) = time_counter_bound(1) = field->getNStep() - 1;
	2082	wtimeCounter=true ;
[692]	2083	}
[1044]	2084
	2085	if (!field->file->time_units.isEmpty() && field->file->time_units==CFile::time_units_attr::days)
	2086	{
	2087	double secByDay=context->getCalendar()->getDayLengthInSeconds() ;
	2088	time_data/=secByDay;
	2089	time_data_bound/=secByDay;
	2090	time_counter/=secByDay;
	2091	time_counter_bound/=secByDay;
	2092	}
[692]	2093	}
	2094
[707]	2095	bool isRoot = (server->intraCommRank == 0);
[488]	2096
[464]	2097	if (!field->scale_factor.isEmpty() \|\| !field->add_offset.isEmpty())
	2098	{
[707]	2099	double scaleFactor = 1.0;
	2100	double addOffset = 0.0;
	2101	if (!field->scale_factor.isEmpty()) scaleFactor = field->scale_factor;
	2102	if (!field->add_offset.isEmpty()) addOffset = field->add_offset;
	2103	field->scaleFactorAddOffset(scaleFactor, addOffset);
[464]	2104	}
[488]	2105
[498]	2106	try
[219]	2107	{
[676]	2108	size_t writtenSize;
	2109	if (field->getUseCompressedOutput())
	2110	writtenSize = grid->getNumberWrittenIndexes();
	2111	else
	2112	writtenSize = grid->getWrittenDataSize();
	2113
	2114	CArray<double,1> fieldData(writtenSize);
[567]	2115	if (!field->default_value.isEmpty()) fieldData = field->default_value;
[676]	2116
	2117	if (field->getUseCompressedOutput())
	2118	field->outputCompressedField(fieldData);
	2119	else
	2120	field->outputField(fieldData);
	2121
[707]	2122	if (!field->prec.isEmpty() && field->prec == 2) fieldData = round(fieldData);
[567]	2123
	2124	switch (SuperClass::type)
[498]	2125	{
[567]	2126	case (MULTI_FILE) :
	2127	{
[1135]	2128	CTimer::get("Files : writing data").resume();
[692]	2129	SuperClassWriter::writeData(fieldData, fieldid, isCollective, field->getNStep() - 1);
[1135]	2130	CTimer::get("Files : writing data").suspend();
[567]	2131	if (wtime)
	2132	{
[1135]	2133	CTimer::get("Files : writing time axis").resume();
[1096]	2134	if ( wtimeData)
[692]	2135	{
[1135]	2136	// SuperClassWriter::writeData(time_data, timeAxisId, isCollective, field->getNStep() - 1);
	2137	// SuperClassWriter::writeData(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1);
	2138	SuperClassWriter::writeTimeAxisData(time_data, timeAxisId, isCollective, field->getNStep() - 1, isRoot);
	2139	SuperClassWriter::writeTimeAxisDataBounds(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1, isRoot);
	2140	}
[1096]	2141	if (wtimeCounter)
	2142	{
[1135]	2143	// SuperClassWriter::writeData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1);
	2144	// if (timeCounterType!=record) SuperClassWriter::writeData(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1);
	2145	SuperClassWriter::writeTimeAxisData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1,isRoot);
	2146	if (timeCounterType!=record) SuperClassWriter::writeTimeAxisDataBounds(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1, isRoot);
[692]	2147	}
[1135]	2148	CTimer::get("Files : writing time axis").suspend();
[567]	2149	}
[707]	2150	break;
[567]	2151	}
	2152	case (ONE_FILE) :
	2153	{
[676]	2154	const std::vector<int>& nZoomBeginGlobal = grid->getDistributionServer()->getZoomBeginGlobal();
	2155	const std::vector<int>& nZoomBeginServer = grid->getDistributionServer()->getZoomBeginServer();
	2156	const std::vector<int>& nZoomSizeServer = grid->getDistributionServer()->getZoomSizeServer();
[464]	2157
[676]	2158	std::vector<StdSize> start, count;
[464]	2159
[676]	2160	if (field->getUseCompressedOutput())
	2161	{
	2162	if (grid->isCompressible())
	2163	{
	2164	start.push_back(grid->getOffsetWrittenIndexes());
	2165	count.push_back(grid->getNumberWrittenIndexes());
	2166	}
	2167	else
	2168	{
[887]	2169	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
[676]	2170	std::vector<StdString> domainList = grid->getDomainList();
	2171	std::vector<StdString> axisList = grid->getAxisList();
	2172	int numElement = axisDomainOrder.numElements();
	2173	int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1;
	2174	int idx = nZoomBeginGlobal.size() - 1;
[464]	2175
[676]	2176	start.reserve(nZoomBeginGlobal.size());
	2177	count.reserve(nZoomBeginGlobal.size());
	2178
	2179
	2180	for (int i = numElement - 1; i >= 0; --i)
	2181	{
[887]	2182	if (2 == axisDomainOrder(i))
[676]	2183	{
	2184	CDomain* domain = CDomain::get(domainList[idxDomain]);
	2185
	2186	if (domain->isCompressible())
	2187	{
	2188	start.push_back(domain->getOffsetWrittenIndexes());
	2189	count.push_back(domain->getNumberWrittenIndexes());
[710]	2190	idx -= 2;
[676]	2191	}
	2192	else
	2193	{
[710]	2194	if ((domain->type) != CDomain::type_attr::unstructured)
	2195	{
	2196	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	2197	count.push_back(nZoomSizeServer[idx]);
	2198	}
	2199	--idx;
[676]	2200	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	2201	count.push_back(nZoomSizeServer[idx]);
[710]	2202	--idx;
[676]	2203	}
	2204	--idxDomain;
	2205	}
[887]	2206	else if (1 == axisDomainOrder(i))
[676]	2207	{
	2208	CAxis* axis = CAxis::get(axisList[idxAxis]);
	2209
	2210	if (axis->isCompressible())
	2211	{
	2212	start.push_back(axis->getOffsetWrittenIndexes());
	2213	count.push_back(axis->getNumberWrittenIndexes());
	2214	}
	2215	else
	2216	{
	2217	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	2218	count.push_back(nZoomSizeServer[idx]);
	2219	}
	2220
	2221	--idxAxis;
	2222	--idx;
	2223	}
	2224	}
	2225	}
	2226	}
	2227	else
[498]	2228	{
[705]	2229
[887]	2230	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
[705]	2231	std::vector<StdString> domainList = grid->getDomainList();
	2232	std::vector<StdString> axisList = grid->getAxisList();
	2233	int numElement = axisDomainOrder.numElements();
	2234	int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1;
	2235	int idx = nZoomBeginGlobal.size() - 1;
	2236
	2237	start.reserve(nZoomBeginGlobal.size());
	2238	count.reserve(nZoomBeginGlobal.size());
	2239
	2240	for (int i = numElement - 1; i >= 0; --i)
	2241	{
[887]	2242	if (2 == axisDomainOrder(i))
[705]	2243	{
	2244	CDomain* domain = CDomain::get(domainList[idxDomain]);
[710]	2245	if ((domain->type) != CDomain::type_attr::unstructured)
[705]	2246	{
	2247	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	2248	count.push_back(nZoomSizeServer[idx]);
	2249	}
	2250	--idx ;
	2251	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	2252	count.push_back(nZoomSizeServer[idx]);
	2253	--idx ;
	2254	--idxDomain;
	2255	}
[887]	2256	else if (1 == axisDomainOrder(i))
[705]	2257	{
	2258	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	2259	count.push_back(nZoomSizeServer[idx]);
	2260	--idx;
[887]	2261	}
	2262	else
	2263	{
	2264	if (1 == axisDomainOrder.numElements())
	2265	{
	2266	start.push_back(0);
	2267	count.push_back(1);
	2268	}
	2269	--idx;
	2270	}
[705]	2271	}
[498]	2272	}
[488]	2273
[1135]	2274
	2275	CTimer::get("Files : writing data").resume();
[676]	2276	SuperClassWriter::writeData(fieldData, fieldid, isCollective, field->getNStep() - 1, &start, &count);
[1135]	2277	CTimer::get("Files : writing data").suspend();
	2278
[1096]	2279	if (wtime)
	2280	{
[1135]	2281	CTimer::get("Files : writing time axis").resume();
[1096]	2282	if ( wtimeData)
[692]	2283	{
[1135]	2284	// SuperClassWriter::writeData(time_data, timeAxisId, isCollective, field->getNStep() - 1);
	2285	// SuperClassWriter::writeData(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1);
	2286	SuperClassWriter::writeTimeAxisData(time_data, timeAxisId, isCollective, field->getNStep() - 1, isRoot);
	2287	SuperClassWriter::writeTimeAxisDataBounds(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1, isRoot);
[692]	2288	}
[1096]	2289	if (wtimeCounter)
	2290	{
[1135]	2291	// SuperClassWriter::writeData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1);
	2292	// if (timeCounterType!=record) SuperClassWriter::writeData(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1);
	2293	SuperClassWriter::writeTimeAxisData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1,isRoot);
	2294	if (timeCounterType!=record) SuperClassWriter::writeTimeAxisDataBounds(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1, isRoot);
	2295
[1096]	2296	}
[1135]	2297	CTimer::get("Files : writing time axis").suspend();
[1096]	2298	}
[586]	2299
	2300	break;
[286]	2301	}
[567]	2302	}
[219]	2303	}
[498]	2304	catch (CNetCdfException& e)
	2305	{
	2306	StdString msg("On writing field data: ");
	2307	msg.append(fieldid); msg.append("\n");
	2308	msg.append("In the context : ");
	2309	msg.append(context->getId()); msg.append("\n");
	2310	msg.append(e.what());
	2311	ERROR("CNc4DataOutput::writeFieldData_ (CField* field)", << msg);
	2312	}
[219]	2313	}
	2314
	2315	//---------------------------------------------------------------
	2316
	2317	void CNc4DataOutput::writeTimeAxis_
[347]	2318	(CField* field,
[343]	2319	const boost::shared_ptr<CCalendar> cal)
[219]	2320	{
	2321	StdOStringStream oss;
[1096]	2322	bool createInstantAxis=false ;
	2323	bool createCenteredAxis=false ;
	2324	bool createTimeCounterAxis=false ;
	2325
[645]	2326	if (field->getOperationTimeType() == func::CFunctor::once) return ;
[488]	2327
	2328
[1096]	2329	StdString axisId ;
	2330	StdString axisBoundId;
[802]	2331	StdString timeid(getTimeCounterName());
[614]	2332	StdString timeBoundId("axis_nbounds");
[1044]	2333
	2334	StdString strTimeUnits ;
	2335	if (!field->file->time_units.isEmpty() && field->file->time_units==CFile::time_units_attr::days) strTimeUnits="days since " ;
	2336	else strTimeUnits="seconds since " ;
[989]	2337
[1096]	2338	if (field->getOperationTimeType() == func::CFunctor::instant) field->hasTimeInstant = true;
	2339	if (field->getOperationTimeType() == func::CFunctor::centered) field->hasTimeCentered = true;
	2340
	2341
	2342	if (field->file->time_counter.isEmpty())
[488]	2343	{
[1096]	2344	if (timeCounterType==none) createTimeCounterAxis=true ;
	2345	if (field->hasTimeCentered)
	2346	{
	2347	timeCounterType=centered ;
	2348	if (!hasTimeCentered) createCenteredAxis=true ;
	2349	}
	2350	if (field->hasTimeInstant)
	2351	{
	2352	if (timeCounterType==none) timeCounterType=instant ;
	2353	if (!hasTimeInstant) createInstantAxis=true ;
	2354	}
[488]	2355	}
[1096]	2356	else if (field->file->time_counter==CFile::time_counter_attr::instant)
	2357	{
	2358	if (field->hasTimeCentered)
	2359	{
	2360	if (!hasTimeCentered) createCenteredAxis=true ;
	2361	}
	2362	if (field->hasTimeInstant)
	2363	{
	2364	if (timeCounterType==none) createTimeCounterAxis=true ;
	2365	timeCounterType=instant ;
	2366	if (!hasTimeInstant) createInstantAxis=true ;
	2367	}
	2368	}
	2369	else if (field->file->time_counter==CFile::time_counter_attr::centered)
	2370	{
	2371	if (field->hasTimeCentered)
	2372	{
	2373	if (timeCounterType==none) createTimeCounterAxis=true ;
	2374	timeCounterType=centered ;
	2375	if (!hasTimeCentered) createCenteredAxis=true ;
	2376	}
	2377	if (field->hasTimeInstant)
	2378	{
	2379	if (!hasTimeInstant) createInstantAxis=true ;
	2380	}
	2381	}
	2382	else if (field->file->time_counter==CFile::time_counter_attr::instant_exclusive)
	2383	{
	2384	if (field->hasTimeCentered)
	2385	{
	2386	if (!hasTimeCentered) createCenteredAxis=true ;
	2387	}
	2388	if (field->hasTimeInstant)
	2389	{
	2390	if (timeCounterType==none) createTimeCounterAxis=true ;
	2391	timeCounterType=instant ;
	2392	}
	2393	}
	2394	else if (field->file->time_counter==CFile::time_counter_attr::centered_exclusive)
	2395	{
	2396	if (field->hasTimeCentered)
	2397	{
	2398	if (timeCounterType==none) createTimeCounterAxis=true ;
	2399	timeCounterType=centered ;
	2400	}
	2401	if (field->hasTimeInstant)
	2402	{
	2403	if (!hasTimeInstant) createInstantAxis=true ;
	2404	}
	2405	}
	2406	else if (field->file->time_counter==CFile::time_counter_attr::exclusive)
	2407	{
	2408	if (field->hasTimeCentered)
	2409	{
	2410	if (timeCounterType==none) createTimeCounterAxis=true ;
	2411	if (timeCounterType==instant) createInstantAxis=true ;
	2412	timeCounterType=centered ;
	2413	}
	2414	if (field->hasTimeInstant)
	2415	{
	2416	if (timeCounterType==none)
	2417	{
	2418	createTimeCounterAxis=true ;
	2419	timeCounterType=instant ;
	2420	}
	2421	if (timeCounterType==centered)
	2422	{
	2423	if (!hasTimeInstant) createInstantAxis=true ;
	2424	}
	2425	}
	2426	}
	2427	else if (field->file->time_counter==CFile::time_counter_attr::none)
	2428	{
	2429	if (field->hasTimeCentered)
	2430	{
	2431	if (!hasTimeCentered) createCenteredAxis=true ;
	2432	}
	2433	if (field->hasTimeInstant)
	2434	{
	2435	if (!hasTimeInstant) createInstantAxis=true ;
	2436	}
	2437	}
	2438	else if (field->file->time_counter==CFile::time_counter_attr::record)
	2439	{
	2440	if (timeCounterType==none) createTimeCounterAxis=true ;
	2441	timeCounterType=record ;
	2442	if (field->hasTimeCentered)
	2443	{
	2444	if (!hasTimeCentered) createCenteredAxis=true ;
	2445	}
	2446	if (field->hasTimeInstant)
	2447	{
	2448	if (!hasTimeInstant) createInstantAxis=true ;
	2449	}
	2450	}
	2451
	2452	if (createInstantAxis)
	2453	{
	2454	axisId="time_instant" ;
	2455	axisBoundId="time_instant_bounds";
	2456	hasTimeInstant=true ;
	2457	}
[488]	2458
[1096]	2459	if (createCenteredAxis)
[989]	2460	{
[1096]	2461	axisId="time_centered" ;
	2462	axisBoundId="time_centered_bounds";
	2463	hasTimeCentered=true ;
	2464	}
[989]	2465
[1096]	2466
[498]	2467	try
[219]	2468	{
[1096]	2469	std::vector<StdString> dims;
	2470
	2471	if (createInstantAxis \|\| createCenteredAxis)
	2472	{
	2473	// Adding time_instant or time_centered
	2474	dims.push_back(timeid);
	2475	if (!SuperClassWriter::varExist(axisId))
	2476	{
	2477	SuperClassWriter::addVariable(axisId, NC_DOUBLE, dims);
[488]	2478
[1096]	2479	CDate timeOrigin=cal->getTimeOrigin() ;
	2480	StdOStringStream oss2;
	2481	StdString strInitdate=oss2.str() ;
	2482	StdString strTimeOrigin=timeOrigin.toString() ;
	2483	this->writeTimeAxisAttributes(axisId, cal->getType(),strTimeUnits+strTimeOrigin,
	2484	strTimeOrigin, axisBoundId);
	2485	}
[219]	2486
[1096]	2487	// Adding time_instant_bounds or time_centered_bounds variables
	2488	if (!SuperClassWriter::varExist(axisBoundId))
	2489	{
	2490	dims.clear() ;
	2491	dims.push_back(timeid);
	2492	dims.push_back(timeBoundId);
	2493	SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims);
	2494	}
[498]	2495	}
[488]	2496
[1096]	2497	if (createTimeCounterAxis)
[498]	2498	{
[692]	2499	// Adding time_counter
[1096]	2500	axisId = getTimeCounterName();
[802]	2501	axisBoundId = getTimeCounterName() + "_bounds";
[692]	2502	dims.clear();
	2503	dims.push_back(timeid);
[1096]	2504	if (!SuperClassWriter::varExist(axisId))
[692]	2505	{
[1096]	2506	SuperClassWriter::addVariable(axisId, NC_DOUBLE, dims);
	2507	SuperClassWriter::addAttribute("axis", string("T"), &axisId);
[488]	2508
[989]	2509	if (field->file->time_counter.isEmpty() \|\|
	2510	(field->file->time_counter != CFile::time_counter_attr::record))
[692]	2511	{
	2512	CDate timeOrigin = cal->getTimeOrigin();
	2513	StdString strTimeOrigin = timeOrigin.toString();
[498]	2514
[1096]	2515	this->writeTimeAxisAttributes(axisId, cal->getType(),
[1044]	2516	strTimeUnits+strTimeOrigin,
[692]	2517	strTimeOrigin, axisBoundId);
	2518	}
	2519	}
	2520
	2521	// Adding time_counter_bound dimension
[1096]	2522	if (field->file->time_counter.isEmpty() \|\| (field->file->time_counter != CFile::time_counter_attr::record))
[692]	2523	{
	2524	if (!SuperClassWriter::varExist(axisBoundId))
	2525	{
	2526	dims.clear();
	2527	dims.push_back(timeid);
	2528	dims.push_back(timeBoundId);
	2529	SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims);
	2530	}
	2531	}
[498]	2532	}
[488]	2533	}
[498]	2534	catch (CNetCdfException& e)
[488]	2535	{
[498]	2536	StdString msg("On writing time axis data: ");
	2537	msg.append("In the context : ");
	2538	CContext* context = CContext::getCurrent() ;
	2539	msg.append(context->getId()); msg.append("\n");
	2540	msg.append(e.what());
	2541	ERROR("CNc4DataOutput::writeTimeAxis_ (CField* field, \
	2542	const boost::shared_ptr<CCalendar> cal)", << msg);
[488]	2543	}
[219]	2544	}
	2545
	2546	//---------------------------------------------------------------
[488]	2547
[219]	2548	void CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name,
	2549	const StdString & calendar,
	2550	const StdString & units,
	2551	const StdString & time_origin,
[488]	2552	const StdString & time_bounds,
[219]	2553	const StdString & standard_name,
[613]	2554	const StdString & long_name)
[219]	2555	{
[498]	2556	try
	2557	{
	2558	SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name);
	2559	SuperClassWriter::addAttribute("long_name", long_name , &axis_name);
	2560	SuperClassWriter::addAttribute("calendar", calendar , &axis_name);
	2561	SuperClassWriter::addAttribute("units", units , &axis_name);
	2562	SuperClassWriter::addAttribute("time_origin", time_origin , &axis_name);
	2563	SuperClassWriter::addAttribute("bounds", time_bounds , &axis_name);
	2564	}
	2565	catch (CNetCdfException& e)
	2566	{
	2567	StdString msg("On writing time axis Attribute: ");
	2568	msg.append("In the context : ");
	2569	CContext* context = CContext::getCurrent() ;
	2570	msg.append(context->getId()); msg.append("\n");
	2571	msg.append(e.what());
	2572	ERROR("CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name, \
[613]	2573	const StdString & calendar,\
	2574	const StdString & units, \
	2575	const StdString & time_origin, \
	2576	const StdString & time_bounds, \
	2577	const StdString & standard_name, \
	2578	const StdString & long_name)", << msg);
[498]	2579	}
[219]	2580	}
[488]	2581
[219]	2582	//---------------------------------------------------------------
	2583
	2584	void CNc4DataOutput::writeAxisAttributes(const StdString & axis_name,
	2585	const StdString & axis,
	2586	const StdString & standard_name,
	2587	const StdString & long_name,
	2588	const StdString & units,
	2589	const StdString & nav_model)
	2590	{
[498]	2591	try
	2592	{
[613]	2593	if (!axis.empty())
	2594	SuperClassWriter::addAttribute("axis" , axis , &axis_name);
	2595
[498]	2596	SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name);
	2597	SuperClassWriter::addAttribute("long_name" , long_name , &axis_name);
	2598	SuperClassWriter::addAttribute("units" , units , &axis_name);
[973]	2599	// SuperClassWriter::addAttribute("nav_model" , nav_model , &axis_name);
[498]	2600	}
	2601	catch (CNetCdfException& e)
	2602	{
	2603	StdString msg("On writing Axis Attribute: ");
	2604	msg.append("In the context : ");
	2605	CContext* context = CContext::getCurrent() ;
	2606	msg.append(context->getId()); msg.append("\n");
	2607	msg.append(e.what());
	2608	ERROR("CNc4DataOutput::writeAxisAttributes(const StdString & axis_name, \
[613]	2609	const StdString & axis, \
	2610	const StdString & standard_name, \
	2611	const StdString & long_name, \
	2612	const StdString & units, \
	2613	const StdString & nav_model)", << msg);
[498]	2614	}
[219]	2615	}
	2616
	2617	//---------------------------------------------------------------
[488]	2618
[219]	2619	void CNc4DataOutput::writeLocalAttributes
	2620	(int ibegin, int ni, int jbegin, int nj, StdString domid)
	2621	{
[498]	2622	try
	2623	{
[318]	2624	SuperClassWriter::addAttribute(StdString("ibegin").append(domid), ibegin);
	2625	SuperClassWriter::addAttribute(StdString("ni" ).append(domid), ni);
	2626	SuperClassWriter::addAttribute(StdString("jbegin").append(domid), jbegin);
	2627	SuperClassWriter::addAttribute(StdString("nj" ).append(domid), nj);
[498]	2628	}
	2629	catch (CNetCdfException& e)
	2630	{
	2631	StdString msg("On writing Local Attributes: ");
	2632	msg.append("In the context : ");
	2633	CContext* context = CContext::getCurrent() ;
	2634	msg.append(context->getId()); msg.append("\n");
	2635	msg.append(e.what());
	2636	ERROR("CNc4DataOutput::writeLocalAttributes \
	2637	(int ibegin, int ni, int jbegin, int nj, StdString domid)", << msg);
	2638	}
	2639
[219]	2640	}
	2641
[628]	2642	void CNc4DataOutput::writeLocalAttributes_IOIPSL(const StdString& dimXid, const StdString& dimYid,
	2643	int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)
[391]	2644	{
	2645	CArray<int,1> array(2) ;
	2646
[498]	2647	try
	2648	{
	2649	SuperClassWriter::addAttribute("DOMAIN_number_total",size ) ;
	2650	SuperClassWriter::addAttribute("DOMAIN_number", rank) ;
[629]	2651	array = SuperClassWriter::getDimension(dimXid) + 1, SuperClassWriter::getDimension(dimYid) + 1;
[498]	2652	SuperClassWriter::addAttribute("DOMAIN_dimensions_ids",array) ;
	2653	array=ni_glo,nj_glo ;
	2654	SuperClassWriter::addAttribute("DOMAIN_size_global", array) ;
	2655	array=ni,nj ;
	2656	SuperClassWriter::addAttribute("DOMAIN_size_local", array) ;
[819]	2657	array=ibegin+1,jbegin+1 ;
[498]	2658	SuperClassWriter::addAttribute("DOMAIN_position_first", array) ;
[819]	2659	array=ibegin+ni-1+1,jbegin+nj-1+1 ;
[498]	2660	SuperClassWriter::addAttribute("DOMAIN_position_last",array) ;
	2661	array=0,0 ;
	2662	SuperClassWriter::addAttribute("DOMAIN_halo_size_start", array) ;
	2663	SuperClassWriter::addAttribute("DOMAIN_halo_size_end", array);
	2664	SuperClassWriter::addAttribute("DOMAIN_type",string("box")) ;
	2665	/*
	2666	SuperClassWriter::addAttribute("DOMAIN_DIM_N001",string("x")) ;
	2667	SuperClassWriter::addAttribute("DOMAIN_DIM_N002",string("y")) ;
	2668	SuperClassWriter::addAttribute("DOMAIN_DIM_N003",string("axis_A")) ;
	2669	SuperClassWriter::addAttribute("DOMAIN_DIM_N004",string("time_counter")) ;
	2670	*/
	2671	}
	2672	catch (CNetCdfException& e)
	2673	{
[628]	2674	StdString msg("On writing Local Attributes IOIPSL \n");
[498]	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::writeLocalAttributes_IOIPSL \
	2680	(int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)", << msg);
	2681	}
[391]	2682	}
[219]	2683	//---------------------------------------------------------------
	2684
	2685	void CNc4DataOutput:: writeFileAttributes(const StdString & name,
	2686	const StdString & description,
	2687	const StdString & conventions,
	2688	const StdString & production,
	2689	const StdString & timeStamp)
	2690	{
[498]	2691	try
	2692	{
	2693	SuperClassWriter::addAttribute("name" , name);
	2694	SuperClassWriter::addAttribute("description", description);
[613]	2695	SuperClassWriter::addAttribute("title" , description);
	2696	SuperClassWriter::addAttribute("Conventions", conventions);
[989]	2697	// SuperClassWriter::addAttribute("production" , production);
[1048]	2698
[1046]	2699	StdString timeStampStr ;
	2700	if (file->time_stamp_name.isEmpty()) timeStampStr="timeStamp" ;
	2701	else timeStampStr=file->time_stamp_name ;
	2702	SuperClassWriter::addAttribute(timeStampStr, timeStamp);
[1048]	2703
	2704	StdString uuidName ;
	2705	if (file->uuid_name.isEmpty()) uuidName="uuid" ;
	2706	else uuidName=file->uuid_name ;
	2707
	2708	if (file->uuid_format.isEmpty()) SuperClassWriter::addAttribute(uuidName, getUuidStr());
	2709	else SuperClassWriter::addAttribute(uuidName, getUuidStr(file->uuid_format));
	2710
[498]	2711	}
	2712	catch (CNetCdfException& e)
	2713	{
	2714	StdString msg("On writing File Attributes \n ");
	2715	msg.append("In the context : ");
	2716	CContext* context = CContext::getCurrent() ;
	2717	msg.append(context->getId()); msg.append("\n");
	2718	msg.append(e.what());
	2719	ERROR("CNc4DataOutput:: writeFileAttributes(const StdString & name, \
	2720	const StdString & description, \
	2721	const StdString & conventions, \
	2722	const StdString & production, \
	2723	const StdString & timeStamp)", << msg);
	2724	}
[219]	2725	}
	2726
	2727	//---------------------------------------------------------------
	2728
	2729	void CNc4DataOutput::writeMaskAttributes(const StdString & mask_name,
	2730	int data_dim,
	2731	int data_ni,
	2732	int data_nj,
	2733	int data_ibegin,
	2734	int data_jbegin)
	2735	{
[498]	2736	try
	2737	{
	2738	SuperClassWriter::addAttribute("data_dim" , data_dim , &mask_name);
	2739	SuperClassWriter::addAttribute("data_ni" , data_ni , &mask_name);
	2740	SuperClassWriter::addAttribute("data_nj" , data_nj , &mask_name);
	2741	SuperClassWriter::addAttribute("data_ibegin", data_ibegin, &mask_name);
	2742	SuperClassWriter::addAttribute("data_jbegin", data_jbegin, &mask_name);
	2743	}
	2744	catch (CNetCdfException& e)
	2745	{
	2746	StdString msg("On writing Mask Attributes \n ");
	2747	msg.append("In the context : ");
	2748	CContext* context = CContext::getCurrent() ;
	2749	msg.append(context->getId()); msg.append("\n");
	2750	msg.append(e.what());
	2751	ERROR("CNc4DataOutput::writeMaskAttributes(const StdString & mask_name, \
	2752	int data_dim, \
	2753	int data_ni, \
	2754	int data_nj, \
	2755	int data_ibegin, \
	2756	int data_jbegin)", << msg);
	2757	}
[219]	2758	}
	2759
	2760	///--------------------------------------------------------------
	2761
[1044]	2762	StdSize CNc4DataOutput::getRecordFromTime(Time time, double factorUnit)
[707]	2763	{
	2764	std::map<Time, StdSize>::const_iterator it = timeToRecordCache.find(time);
	2765	if (it == timeToRecordCache.end())
	2766	{
[802]	2767	StdString timeAxisBoundsId(getTimeCounterName() + "_bounds");
[1061]	2768	if (!SuperClassWriter::varExist(timeAxisBoundsId)) timeAxisBoundsId = "time_centered_bounds";
	2769	if (!SuperClassWriter::varExist(timeAxisBoundsId)) timeAxisBoundsId = "time_instant_bounds";
[707]	2770
	2771	CArray<double,2> timeAxisBounds;
[1097]	2772	std::vector<StdSize> dimSize(SuperClassWriter::getDimensions(timeAxisBoundsId)) ;
[1044]	2773
[707]	2774	StdSize record = 0;
	2775	double dtime(time);
[1108]	2776	for (int n = dimSize[0] - 1; n >= 0; n--)
[707]	2777	{
[1097]	2778	SuperClassWriter::getTimeAxisBounds(timeAxisBounds, timeAxisBoundsId, isCollective, n);
	2779	timeAxisBounds*=factorUnit ;
	2780	if (timeAxisBounds(1, 0) < dtime)
[707]	2781	{
	2782	record = n + 1;
[1108]	2783	break;
[707]	2784	}
	2785	}
	2786	it = timeToRecordCache.insert(std::make_pair(time, record)).first;
	2787	}
[1108]	2788	return it->second;
[707]	2789	}
[774]	2790
	2791	///--------------------------------------------------------------
	2792
	2793	bool CNc4DataOutput::isWrittenDomain(const std::string& domainName) const
	2794	{
	2795	return (this->writtenDomains.find(domainName) != this->writtenDomains.end());
	2796	}
	2797
	2798	bool CNc4DataOutput::isWrittenCompressedDomain(const std::string& domainName) const
	2799	{
	2800	return (this->writtenCompressedDomains.find(domainName) != this->writtenCompressedDomains.end());
	2801	}
	2802
	2803	bool CNc4DataOutput::isWrittenAxis(const std::string& axisName) const
	2804	{
	2805	return (this->writtenAxis.find(axisName) != this->writtenAxis.end());
	2806	}
	2807
	2808	bool CNc4DataOutput::isWrittenCompressedAxis(const std::string& axisName) const
	2809	{
	2810	return (this->writtenCompressedAxis.find(axisName) != this->writtenCompressedAxis.end());
	2811	}
	2812
[887]	2813	bool CNc4DataOutput::isWrittenScalar(const std::string& scalarName) const
	2814	{
	2815	return (this->writtenScalar.find(scalarName) != this->writtenScalar.end());
	2816	}
	2817
[774]	2818	void CNc4DataOutput::setWrittenDomain(const std::string& domainName)
	2819	{
	2820	this->writtenDomains.insert(domainName);
	2821	}
	2822
	2823	void CNc4DataOutput::setWrittenCompressedDomain(const std::string& domainName)
	2824	{
	2825	this->writtenCompressedDomains.insert(domainName);
	2826	}
	2827
	2828	void CNc4DataOutput::setWrittenAxis(const std::string& axisName)
	2829	{
	2830	this->writtenAxis.insert(axisName);
	2831	}
	2832
	2833	void CNc4DataOutput::setWrittenCompressedAxis(const std::string& axisName)
	2834	{
	2835	this->writtenCompressedAxis.insert(axisName);
	2836	}
[887]	2837
	2838	void CNc4DataOutput::setWrittenScalar(const std::string& scalarName)
	2839	{
	2840	this->writtenScalar.insert(scalarName);
	2841	}
[335]	2842	} // namespace xios

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source: XIOS/trunk/src/io/nc4_data_output.cpp @ 1135

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