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source: XIOS/trunk/src/io/nc4_data_output.cpp @ 773

Last change on this file since 773 was 773, checked in by rlacroix, 8 years ago
File/Variable?: Add an helper function to get the output name.
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: 81.1 KB

Rev	Line
[266]	1
[219]	2	#include "nc4_data_output.hpp"
	3
	4	#include <boost/lexical_cast.hpp>
[352]	5	#include "attribute_template.hpp"
	6	#include "group_template.hpp"
[219]	7
	8	#include "file.hpp"
	9	#include "calendar.hpp"
[278]	10	#include "context.hpp"
[300]	11	#include "context_server.hpp"
[498]	12	#include "netCdfException.hpp"
	13	#include "exception.hpp"
[219]	14
[335]	15	namespace xios
[219]	16	{
	17	/// ////////////////////// DÃ©finitions ////////////////////// ///
	18	CNc4DataOutput::CNc4DataOutput
	19	(const StdString & filename, bool exist)
	20	: SuperClass()
	21	, SuperClassWriter(filename, exist)
	22	, filename(filename)
	23	{
	24	StdString timeid = StdString("time_counter");
	25	SuperClass::type = MULTI_FILE;
	26	}
	27
	28	CNc4DataOutput::CNc4DataOutput
[517]	29	(const StdString & filename, bool exist, bool useClassicFormat,
	30	MPI_Comm comm_file,bool multifile, bool isCollective)
[219]	31	: SuperClass()
[517]	32	, SuperClassWriter(filename, exist, useClassicFormat, &comm_file, multifile)
[379]	33	, comm_file(comm_file)
[219]	34	, filename(filename)
[335]	35	, isCollective(isCollective)
[219]	36	{
	37	StdString timeid = StdString("time_counter");
	38
[286]	39	SuperClass::type = (multifile) ? MULTI_FILE : ONE_FILE;
[219]	40	}
	41
[286]	42
[219]	43	CNc4DataOutput::~CNc4DataOutput(void)
	44	{ /* Ne rien faire de plus */ }
	45
	46	///--------------------------------------------------------------
	47
	48	const StdString & CNc4DataOutput::getFileName(void) const
	49	{
	50	return (this->filename);
	51	}
	52
	53	//---------------------------------------------------------------
	54
[347]	55	void CNc4DataOutput::writeDomain_(CDomain* domain)
[219]	56	{
[449]	57	if (domain->type == CDomain::type_attr::unstructured)
	58	{
	59	writeUnstructuredDomain(domain) ;
	60	return ;
	61	}
[488]	62
[347]	63	CContext* context = CContext::getCurrent() ;
[300]	64	CContextServer* server=context->server ;
[488]	65
[219]	66	if (domain->IsWritten(this->filename)) return;
	67	domain->checkAttributes();
[488]	68
	69	if (domain->isEmpty())
[300]	70	if (SuperClass::type==MULTI_FILE) return ;
[219]	71
	72	std::vector<StdString> dim0, dim1;
[772]	73	StdString domid = domain->getDomainOutputName();
[318]	74	StdString appendDomid = (singleDomain) ? "" : "_"+domid ;
[706]	75	if (isWrittenDomain(domid)) return ;
[710]	76	else writtenDomains.insert(domid) ;
[449]	77
	78
	79	StdString dimXid, dimYid ;
[488]	80
[664]	81	bool isRegularDomain = (domain->type == CDomain::type_attr::rectilinear);
[449]	82	switch (domain->type)
[433]	83	{
[449]	84	case CDomain::type_attr::curvilinear :
	85	dimXid = StdString("x").append(appendDomid);
	86	dimYid = StdString("y").append(appendDomid);
	87	break ;
[664]	88	case CDomain::type_attr::rectilinear :
[449]	89	dimXid = StdString("lon").append(appendDomid);
	90	dimYid = StdString("lat").append(appendDomid);
	91	break;
[488]	92	}
	93
[617]	94	StdString dimVertId = StdString("nvertex").append(appendDomid);
	95
[449]	96	string lonid,latid,bounds_lonid,bounds_latid ;
[611]	97	string areaId = "area" + appendDomid;
[391]	98	/*
[300]	99	StdString lonid_loc = (server->intraCommSize > 1)
[318]	100	? StdString("lon").append(appendDomid).append("_local")
[278]	101	: lonid;
[300]	102	StdString latid_loc = (server->intraCommSize > 1)
[318]	103	? StdString("lat").append(appendDomid).append("_local")
[278]	104	: latid;
[391]	105	*/
[219]	106
[498]	107	try
[219]	108	{
[498]	109	switch (SuperClass::type)
	110	{
	111	case (MULTI_FILE) :
	112	{
	113	// if (domain->isEmpty()) return;
[488]	114
[498]	115	if (server->intraCommSize > 1)
	116	{
	117	// SuperClassWriter::addDimension(lonid, domain->zoom_ni.getValue());
	118	// SuperClassWriter::addDimension(latid, domain->zoom_nj.getValue());
	119	}
[286]	120
[498]	121	switch (domain->type)
	122	{
	123	case CDomain::type_attr::curvilinear :
	124	dim0.push_back(dimYid); dim0.push_back(dimXid);
	125	lonid = StdString("nav_lon").append(appendDomid);
	126	latid = StdString("nav_lat").append(appendDomid);
	127	break ;
[664]	128	case CDomain::type_attr::rectilinear :
[498]	129	lonid = StdString("lon").append(appendDomid);
	130	latid = StdString("lat").append(appendDomid);
	131	dim0.push_back(dimYid);
	132	dim1.push_back(dimXid);
	133	break;
	134	}
[488]	135
[617]	136	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	137	bounds_latid = StdString("bounds_lat").append(appendDomid);
	138
[616]	139	SuperClassWriter::addDimension(dimXid, domain->zoom_ni_srv);
	140	SuperClassWriter::addDimension(dimYid, domain->zoom_nj_srv);
[488]	141
[617]	142	if (domain->hasBounds)
	143	SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	144
[498]	145	if (server->intraCommSize > 1)
	146	{
[616]	147	this->writeLocalAttributes(domain->zoom_ibegin_srv,
	148	domain->zoom_ni_srv,
	149	domain->zoom_jbegin_srv,
	150	domain->zoom_nj_srv,
	151	appendDomid);
[488]	152
[628]	153	if (singleDomain)
	154	this->writeLocalAttributes_IOIPSL(dimXid, dimYid,
	155	domain->zoom_ibegin_srv,
	156	domain->zoom_ni_srv,
	157	domain->zoom_jbegin_srv,
	158	domain->zoom_nj_srv,
	159	domain->ni_glo,domain->nj_glo,
	160	server->intraCommRank,server->intraCommSize);
[449]	161	}
[488]	162
[665]	163	if (domain->hasLonLat)
[498]	164	{
[665]	165	switch (domain->type)
	166	{
	167	case CDomain::type_attr::curvilinear :
	168	SuperClassWriter::addVariable(latid, NC_FLOAT, dim0);
	169	SuperClassWriter::addVariable(lonid, NC_FLOAT, dim0);
	170	break ;
	171	case CDomain::type_attr::rectilinear :
	172	SuperClassWriter::addVariable(latid, NC_FLOAT, dim0);
	173	SuperClassWriter::addVariable(lonid, NC_FLOAT, dim1);
	174	break ;
	175	}
[488]	176
[665]	177	this->writeAxisAttributes(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid);
	178	this->writeAxisAttributes(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid);
[219]	179
[665]	180	if (domain->hasBounds)
	181	{
	182	SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid);
	183	SuperClassWriter::addAttribute("bounds", bounds_latid, &latid);
[617]	184
[665]	185	dim0.clear();
	186	dim0.push_back(dimYid);
	187	dim0.push_back(dimXid);
	188	dim0.push_back(dimVertId);
	189	SuperClassWriter::addVariable(bounds_lonid, NC_FLOAT, dim0);
	190	SuperClassWriter::addVariable(bounds_latid, NC_FLOAT, dim0);
	191	}
[617]	192	}
	193
[498]	194	dim0.clear();
[616]	195	dim0.push_back(dimYid);
[498]	196	dim0.push_back(dimXid);
[219]	197
	198
[498]	199	// supress mask if (server->intraCommSize > 1)
	200	// supress mask {
	201	// supress mask SuperClassWriter::addVariable(maskid, NC_INT, dim0);
	202	// supress mask
	203	// supress mask this->writeMaskAttributes(maskid,
	204	// supress mask domain->data_dim.getValue()/*,
	205	// supress mask domain->data_ni.getValue(),
	206	// supress mask domain->data_nj.getValue(),
	207	// supress mask domain->data_ibegin.getValue(),
	208	// supress mask domain->data_jbegin.getValue()*/);
	209	// supress mask }
[488]	210
[498]	211	//SuperClassWriter::setDefaultValue(maskid, &dvm);
[219]	212
[611]	213	if (domain->hasArea)
	214	{
	215	SuperClassWriter::addVariable(areaId, NC_FLOAT, dim0);
[614]	216	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	217	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	218	}
	219
[498]	220	SuperClassWriter::definition_end();
[449]	221
[665]	222	if (domain->hasLonLat)
[498]	223	{
[665]	224	switch (domain->type)
	225	{
	226	case CDomain::type_attr::curvilinear :
	227	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0);
	228	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0);
	229	break;
	230	case CDomain::type_attr::rectilinear :
	231	CArray<double,1> lat = domain->latvalue_srv(Range(fromStart,toEnd,domain->zoom_ni_srv)) ;
	232	SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0);
	233	CArray<double,1> lon=domain->lonvalue_srv(Range(0,domain->zoom_ni_srv-1)) ;
	234	SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0);
	235	break;
	236	}
[611]	237
[665]	238	if (domain->hasBounds)
	239	{
	240	SuperClassWriter::writeData(domain->bounds_lon_srv, bounds_lonid, isCollective, 0);
	241	SuperClassWriter::writeData(domain->bounds_lat_srv, bounds_latid, isCollective, 0);
	242	}
[617]	243	}
	244
[611]	245	if (domain->hasArea)
	246	SuperClassWriter::writeData(domain->area_srv, areaId, isCollective, 0);
	247
[498]	248	SuperClassWriter::definition_start();
[219]	249
[498]	250	break;
	251	}
	252	case (ONE_FILE) :
	253	{
[631]	254	SuperClassWriter::addDimension(dimXid, domain->global_zoom_ni);
	255	SuperClassWriter::addDimension(dimYid, domain->global_zoom_nj);
[286]	256
[617]	257	if (domain->hasBounds)
	258	SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	259
[665]	260	if (domain->hasLonLat)
[498]	261	{
[665]	262	switch (domain->type)
	263	{
	264	case CDomain::type_attr::curvilinear :
	265	dim0.push_back(dimYid); dim0.push_back(dimXid);
	266	lonid = StdString("nav_lon").append(appendDomid);
	267	latid = StdString("nav_lat").append(appendDomid);
	268	SuperClassWriter::addVariable(latid, NC_FLOAT, dim0);
	269	SuperClassWriter::addVariable(lonid, NC_FLOAT, dim0);
	270	break;
[449]	271
[665]	272	case CDomain::type_attr::rectilinear :
	273	dim0.push_back(dimYid);
	274	dim1.push_back(dimXid);
	275	lonid = StdString("lon").append(appendDomid);
	276	latid = StdString("lat").append(appendDomid);
	277	SuperClassWriter::addVariable(latid, NC_FLOAT, dim0);
	278	SuperClassWriter::addVariable(lonid, NC_FLOAT, dim1);
	279	break;
	280	}
	281
	282	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	283	bounds_latid = StdString("bounds_lat").append(appendDomid);
	284
	285	this->writeAxisAttributes
	286	(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid);
	287	this->writeAxisAttributes
	288	(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid);
	289
	290	if (domain->hasBounds)
	291	{
	292	SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid);
	293	SuperClassWriter::addAttribute("bounds", bounds_latid, &latid);
	294
	295	dim0.clear();
[498]	296	dim0.push_back(dimYid);
[665]	297	dim0.push_back(dimXid);
	298	dim0.push_back(dimVertId);
	299	SuperClassWriter::addVariable(bounds_lonid, NC_FLOAT, dim0);
	300	SuperClassWriter::addVariable(bounds_latid, NC_FLOAT, dim0);
	301	}
[498]	302	}
[611]	303
	304	if (domain->hasArea)
	305	{
	306	dim0.clear();
	307	dim0.push_back(dimYid); dim0.push_back(dimXid);
	308	SuperClassWriter::addVariable(areaId, NC_FLOAT, dim0);
[614]	309	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	310	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	311	dim0.clear();
	312	}
	313
	314	SuperClassWriter::definition_end();
[286]	315
[498]	316	switch (domain->type)
[384]	317	{
[498]	318	case CDomain::type_attr::curvilinear :
[449]	319	{
[498]	320	std::vector<StdSize> start(2) ;
	321	std::vector<StdSize> count(2) ;
	322	if (domain->isEmpty())
	323	{
[611]	324	start[0]=0 ; start[1]=0 ;
[498]	325	count[0]=0 ; count[1]=0 ;
	326	}
	327	else
	328	{
[631]	329	start[1]=domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	330	start[0]=domain->zoom_jbegin_srv-domain->global_zoom_jbegin;
[498]	331	count[1]=domain->zoom_ni_srv ; count[0]=domain->zoom_nj_srv ;
	332	}
[488]	333
[665]	334	if (domain->hasLonLat)
	335	{
	336	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0,&start,&count);
	337	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0,&start,&count);
	338	}
[498]	339	break;
	340	}
[664]	341	case CDomain::type_attr::rectilinear :
[449]	342	{
[665]	343	if (domain->hasLonLat)
[498]	344	{
[665]	345	std::vector<StdSize> start(1) ;
	346	std::vector<StdSize> count(1) ;
	347	if (domain->isEmpty())
	348	{
	349	start[0]=0 ;
	350	count[0]=0 ;
	351	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0,&start,&count);
	352	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0,&start,&count);
[449]	353
[665]	354	}
	355	else
	356	{
	357	start[0]=domain->zoom_jbegin_srv-domain->global_zoom_jbegin;
	358	count[0]=domain->zoom_nj_srv ;
	359	CArray<double,1> lat = domain->latvalue_srv(Range(fromStart,toEnd,domain->zoom_ni_srv)) ;
	360	SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0,&start,&count);
	361
	362	start[0]=domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	363	count[0]=domain->zoom_ni_srv ;
	364	CArray<double,1> lon=domain->lonvalue_srv(Range(0,domain->zoom_ni_srv-1)) ;
	365	SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0,&start,&count);
	366	}
[498]	367	}
	368	break;
[449]	369	}
[384]	370	}
[611]	371
[617]	372	if (domain->hasBounds)
	373	{
	374	std::vector<StdSize> start(3);
	375	std::vector<StdSize> count(3);
	376	if (domain->isEmpty())
	377	{
	378	start[2] = start[1] = start[0] = 0;
	379	count[2] = count[1] = count[0] = 0;
	380	}
	381	else
	382	{
	383	start[2] = 0;
[631]	384	start[1] = domain->zoom_ibegin_srv - domain->global_zoom_ibegin;
	385	start[0] = domain->zoom_jbegin_srv - domain->global_zoom_jbegin;
[617]	386	count[2] = domain->nvertex;
	387	count[1] = domain->zoom_ni_srv;
	388	count[0] = domain->zoom_nj_srv;
	389	}
[625]	390
[617]	391	SuperClassWriter::writeData(domain->bounds_lon_srv, bounds_lonid, isCollective, 0, &start, &count);
	392	SuperClassWriter::writeData(domain->bounds_lat_srv, bounds_latid, isCollective, 0, &start, &count);
	393	}
	394
[611]	395	if (domain->hasArea)
	396	{
	397	std::vector<StdSize> start(2);
	398	std::vector<StdSize> count(2);
	399
	400	if (domain->isEmpty())
	401	{
	402	start[0] = 0; start[1] = 0;
	403	count[0] = 0; count[1] = 0;
	404	}
	405	else
	406	{
[631]	407	start[1] = domain->zoom_ibegin_srv - domain->global_zoom_ibegin;
	408	start[0] = domain->zoom_jbegin_srv - domain->global_zoom_jbegin;
[611]	409	count[1] = domain->zoom_ni_srv;
	410	count[0] = domain->zoom_nj_srv;
	411	}
	412
	413	SuperClassWriter::writeData(domain->area_srv, areaId, isCollective, 0, &start, &count);
	414	}
	415
[498]	416	SuperClassWriter::definition_start();
	417	break;
	418	}
	419	default :
	420	ERROR("CNc4DataOutput::writeDomain(domain)",
	421	<< "[ type = " << SuperClass::type << "]"
	422	<< " not implemented yet !");
	423	}
[449]	424	}
[498]	425	catch (CNetCdfException& e)
	426	{
	427	StdString msg("On writing the domain : ");
	428	msg.append(domid); msg.append("\n");
	429	msg.append("In the context : ");
	430	msg.append(context->getId()); msg.append("\n");
	431	msg.append(e.what());
	432	ERROR("CNc4DataOutput::writeDomain_(CDomain* domain)", << msg);
	433	}
	434
[449]	435	domain->addRelFile(this->filename);
	436	}
	437
	438	void CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)
	439	{
	440	CContext* context = CContext::getCurrent() ;
	441	CContextServer* server=context->server ;
[488]	442
[449]	443	if (domain->IsWritten(this->filename)) return;
	444	domain->checkAttributes();
[488]	445
	446	if (domain->isEmpty())
[449]	447	if (SuperClass::type==MULTI_FILE) return ;
	448
	449	std::vector<StdString> dim0, dim1;
[772]	450	StdString domid = domain->getDomainOutputName();
[705]	451	if (isWrittenDomain(domid)) return ;
[710]	452	else writtenDomains.insert(domid) ;
[705]	453
[449]	454	StdString appendDomid = (singleDomain) ? "" : "_"+domid ;
	455
	456
	457	StdString dimXid = StdString("cell").append(appendDomid);
	458	StdString dimVertId = StdString("nvertex").append(appendDomid);
[488]	459
[449]	460	string lonid,latid,bounds_lonid,bounds_latid ;
[611]	461	string areaId = "area" + appendDomid;
[449]	462
[498]	463	try
[449]	464	{
[498]	465	switch (SuperClass::type)
	466	{
	467	case (MULTI_FILE) :
	468	{
	469	dim0.push_back(dimXid);
[657]	470	SuperClassWriter::addDimension(dimXid, domain->zoom_ni_srv);
[488]	471
[665]	472	lonid = StdString("lon").append(appendDomid);
	473	latid = StdString("lat").append(appendDomid);
[498]	474	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	475	bounds_latid = StdString("bounds_lat").append(appendDomid);
[665]	476	if (domain->hasLonLat)
	477	{
	478	SuperClassWriter::addVariable(latid, NC_FLOAT, dim0);
	479	SuperClassWriter::addVariable(lonid, NC_FLOAT, dim0);
	480	this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid);
	481	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid);
	482	this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid);
	483	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid);
	484	if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	485	}
[488]	486
[498]	487	dim0.clear();
	488	if (domain->hasBounds)
	489	{
	490	dim0.push_back(dimXid);
	491	dim0.push_back(dimVertId);
	492	SuperClassWriter::addVariable(bounds_lonid, NC_FLOAT, dim0);
	493	SuperClassWriter::addVariable(bounds_latid, NC_FLOAT, dim0);
	494	}
	495
	496	dim0.clear();
[449]	497	dim0.push_back(dimXid);
[611]	498	if (domain->hasArea)
	499	{
	500	SuperClassWriter::addVariable(areaId, NC_FLOAT, dim0);
[614]	501	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	502	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	503	}
	504
[498]	505	SuperClassWriter::definition_end();
[449]	506
[665]	507	if (domain->hasLonLat)
[498]	508	{
[665]	509	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0);
	510	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0);
	511	if (domain->hasBounds)
	512	{
	513	SuperClassWriter::writeData(domain->bounds_lon_srv, bounds_lonid, isCollective, 0);
	514	SuperClassWriter::writeData(domain->bounds_lat_srv, bounds_latid, isCollective, 0);
	515	}
[498]	516	}
[611]	517
	518	if (domain->hasArea)
	519	SuperClassWriter::writeData(domain->area_srv, areaId, isCollective, 0);
	520
[498]	521	SuperClassWriter::definition_start();
	522	break ;
	523	}
[488]	524
[498]	525	case (ONE_FILE) :
	526	{
	527	lonid = StdString("lon").append(appendDomid);
	528	latid = StdString("lat").append(appendDomid);
	529	bounds_lonid = StdString("bounds_lon").append(appendDomid);
	530	bounds_latid = StdString("bounds_lat").append(appendDomid);
	531	dim0.push_back(dimXid);
[705]	532	SuperClassWriter::addDimension(dimXid, domain->ni_glo);
[665]	533	if (domain->hasLonLat)
	534	{
	535	SuperClassWriter::addVariable(latid, NC_FLOAT, dim0);
	536	SuperClassWriter::addVariable(lonid, NC_FLOAT, dim0);
	537
	538	this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid);
	539	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid);
	540	this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid);
	541	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid);
	542	if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, domain->nvertex);
	543	}
[498]	544	dim0.clear();
[449]	545
[498]	546	if (domain->hasBounds)
	547	{
	548	dim0.push_back(dimXid);
	549	dim0.push_back(dimVertId);
	550	SuperClassWriter::addVariable(bounds_lonid, NC_FLOAT, dim0);
	551	SuperClassWriter::addVariable(bounds_latid, NC_FLOAT, dim0);
	552	}
[488]	553
[611]	554	if (domain->hasArea)
	555	{
	556	dim0.clear();
	557	dim0.push_back(dimXid);
	558	SuperClassWriter::addVariable(areaId, NC_FLOAT, dim0);
[614]	559	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
[611]	560	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
	561	}
	562
[498]	563	SuperClassWriter::definition_end();
[488]	564
[498]	565	std::vector<StdSize> start(1), startBounds(2) ;
	566	std::vector<StdSize> count(1), countBounds(2) ;
	567	if (domain->isEmpty())
	568	{
	569	start[0]=0 ;
	570	count[0]=0 ;
	571	startBounds[1]=0 ;
	572	countBounds[1]=domain->nvertex ;
	573	startBounds[0]=0 ;
	574	countBounds[0]=0 ;
	575	}
	576	else
	577	{
[705]	578	start[0]=domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
	579	count[0]=domain->zoom_ni_srv ;
	580	startBounds[0]=domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
[498]	581	startBounds[1]=0 ;
[705]	582	countBounds[0]=domain->zoom_ni_srv ;
[498]	583	countBounds[1]=domain->nvertex ;
	584	}
[665]	585
	586	if (domain->hasLonLat)
[498]	587	{
[665]	588	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0,&start,&count);
	589	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0,&start,&count);
	590	if (domain->hasBounds)
	591	{
	592	SuperClassWriter::writeData(domain->bounds_lon_srv, bounds_lonid, isCollective, 0,&startBounds,&countBounds);
	593	SuperClassWriter::writeData(domain->bounds_lat_srv, bounds_latid, isCollective, 0,&startBounds,&countBounds);
	594	}
[498]	595	}
[488]	596
[611]	597	if (domain->hasArea)
	598	SuperClassWriter::writeData(domain->area_srv, areaId, isCollective, 0, &start, &count);
[488]	599
[498]	600	SuperClassWriter::definition_start();
[488]	601
[498]	602	break;
	603	}
	604	default :
	605	ERROR("CNc4DataOutput::writeDomain(domain)",
	606	<< "[ type = " << SuperClass::type << "]"
	607	<< " not implemented yet !");
	608	}
[219]	609	}
[498]	610	catch (CNetCdfException& e)
	611	{
	612	StdString msg("On writing the domain : ");
	613	msg.append(domid); msg.append("\n");
	614	msg.append("In the context : ");
	615	msg.append(context->getId()); msg.append("\n");
	616	msg.append(e.what());
	617	ERROR("CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)", << msg);
	618	}
[219]	619	domain->addRelFile(this->filename);
	620	}
	621	//--------------------------------------------------------------
	622
[347]	623	void CNc4DataOutput::writeAxis_(CAxis* axis)
[219]	624	{
[609]	625	if (axis->IsWritten(this->filename)) return;
	626	axis->checkAttributes();
	627	int zoom_size_srv = axis->zoom_size_srv;
	628	int zoom_begin_srv = axis->zoom_begin_srv;
[633]	629	int zoom_size = (MULTI_FILE == SuperClass::type) ? zoom_size_srv
[623]	630	: axis->global_zoom_size;
[633]	631	int zoom_begin = (MULTI_FILE == SuperClass::type) ? zoom_begin_srv
[623]	632	: axis->global_zoom_begin;
[488]	633
[633]	634	if ((0 == zoom_size_srv) && (MULTI_FILE == SuperClass::type)) return;
[498]	635
[609]	636	std::vector<StdString> dims;
[772]	637	StdString axisid = axis->getAxisOutputName();
[705]	638	if (isWrittenAxis(axisid)) return ;
[710]	639	else writtenAxis.insert(axisid) ;
[705]	640
[609]	641	try
	642	{
	643	SuperClassWriter::addDimension(axisid, zoom_size);
	644	dims.push_back(axisid);
[633]	645	SuperClassWriter::addVariable(axisid, NC_FLOAT, dims);
[219]	646
[633]	647	if (!axis->name.isEmpty())
	648	SuperClassWriter::addAttribute("name", axis->name.getValue(), &axisid);
[219]	649
[633]	650	if (!axis->standard_name.isEmpty())
	651	SuperClassWriter::addAttribute("standard_name", axis->standard_name.getValue(), &axisid);
[540]	652
[633]	653	if (!axis->long_name.isEmpty())
	654	SuperClassWriter::addAttribute("long_name", axis->long_name.getValue(), &axisid);
[219]	655
[633]	656	if (!axis->unit.isEmpty())
	657	SuperClassWriter::addAttribute("units", axis->unit.getValue(), &axisid);
[219]	658
[633]	659	if (!axis->positive.isEmpty())
	660	{
	661	SuperClassWriter::addAttribute("axis", string("Z"), &axisid);
	662	SuperClassWriter::addAttribute("positive",
	663	(axis->positive == CAxis::positive_attr::up) ? string("up") : string("down"),
	664	&axisid);
	665	}
[399]	666
[633]	667	StdString axisBoundsId = axisid + "_bounds";
	668	if (!axis->bounds.isEmpty())
	669	{
	670	dims.push_back("axis_nbounds");
	671	SuperClassWriter::addVariable(axisBoundsId, NC_FLOAT, dims);
	672	SuperClassWriter::addAttribute("bounds", axisBoundsId, &axisid);
	673	}
[488]	674
[633]	675	SuperClassWriter::definition_end();
	676	switch (SuperClass::type)
	677	{
	678	case MULTI_FILE:
	679	{
	680	CArray<double,1> axis_value(zoom_size_srv);
	681	for (int i = 0; i < zoom_size_srv; i++) axis_value(i) = axis->value_srv(i);
	682	SuperClassWriter::writeData(axis_value, axisid, isCollective, 0);
	683
[609]	684	if (!axis->bounds.isEmpty())
[713]	685	SuperClassWriter::writeData(axis->bound_srv, axisBoundsId, isCollective, 0);
[488]	686
[633]	687	SuperClassWriter::definition_start();
[219]	688
[633]	689	break;
	690	}
	691	case ONE_FILE:
	692	{
	693	CArray<double,1> axis_value(zoom_size_srv);
	694	axis_value = axis->value_srv;
[498]	695
[633]	696	std::vector<StdSize> start(1) ;
	697	std::vector<StdSize> count(1) ;
	698	start[0] = zoom_begin_srv-axis->global_zoom_begin;
	699	count[0] = zoom_size_srv;
	700	SuperClassWriter::writeData(axis_value, axisid, isCollective, 0, &start, &count);
	701
[609]	702	if (!axis->bounds.isEmpty())
[713]	703	SuperClassWriter::writeData(axis->bound_srv, axisBoundsId, isCollective, 0, &start, &count);
[609]	704
	705	SuperClassWriter::definition_start();
	706
	707	break;
	708	}
	709	default :
	710	ERROR("CNc4DataOutput::writeDomain(domain)",
	711	<< "[ type = " << SuperClass::type << "]"
	712	<< " not implemented yet !");
	713	}
	714	}
	715	catch (CNetCdfException& e)
	716	{
	717	StdString msg("On writing the axis : ");
	718	msg.append(axisid); msg.append("\n");
	719	msg.append("In the context : ");
	720	CContext* context = CContext::getCurrent() ;
	721	msg.append(context->getId()); msg.append("\n");
	722	msg.append(e.what());
	723	ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)", << msg);
	724	}
	725	axis->addRelFile(this->filename);
[391]	726	}
[488]	727
[676]	728	//--------------------------------------------------------------
	729
	730	void CNc4DataOutput::writeGridCompressed_(CGrid* grid)
	731	{
	732	if (grid->isScalarGrid() \|\| grid->isWrittenCompressed(this->filename)) return;
	733
	734	try
	735	{
	736	CArray<bool,1> axisDomainOrder = grid->axis_domain_order;
	737	std::vector<StdString> domainList = grid->getDomainList();
	738	std::vector<StdString> axisList = grid->getAxisList();
	739	int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0;
	740
	741	std::vector<StdString> dims;
	742
	743	if (grid->isCompressible())
	744	{
	745	StdString varId = grid->getId() + "_points";
	746
	747	int nbIndexes = (SuperClass::type == MULTI_FILE) ? grid->getNumberWrittenIndexes() : grid->getTotalNumberWrittenIndexes();
	748	SuperClassWriter::addDimension(varId, nbIndexes);
	749
	750	dims.push_back(varId);
	751	SuperClassWriter::addVariable(varId, NC_INT, dims);
	752
	753	StdOStringStream compress;
	754	for (int i = numElement - 1; i >= 0; --i)
	755	{
	756	if (axisDomainOrder(i))
	757	{
	758	CDomain* domain = CDomain::get(domainList[domainList.size() - idxDomain - 1]);
[772]	759	StdString domId = domain->getDomainOutputName();
[676]	760	StdString appendDomId = singleDomain ? "" : "_" + domId;
	761
	762	switch (domain->type)
	763	{
	764	case CDomain::type_attr::curvilinear:
	765	compress << "y" << appendDomId << " x" << appendDomId;
	766	break;
	767	case CDomain::type_attr::rectilinear:
	768	compress << "lat" << appendDomId << " lon" << appendDomId;
	769	break;
	770	case CDomain::type_attr::unstructured:
	771	compress << "cell" << appendDomId;
	772	break;
	773	}
	774	++idxDomain;
	775	}
	776	else
	777	{
	778	CAxis* axis = CAxis::get(axisList[axisList.size() - idxAxis - 1]);
[772]	779	compress << axis->getAxisOutputName();
[676]	780	++idxAxis;
	781	}
	782
	783	if (i != 0) compress << ' ';
	784	}
	785	SuperClassWriter::addAttribute("compress", compress.str(), &varId);
	786
	787	grid->computeCompressedIndex();
	788
	789	CArray<int, 1> indexes(grid->getNumberWrittenIndexes());
	790	std::map<int, CArray<size_t, 1> >::const_iterator it;
	791	for (it = grid->outIndexFromClient.begin(); it != grid->outIndexFromClient.end(); ++it)
	792	{
	793	const CArray<size_t, 1> compressedIndexes = grid->compressedOutIndexFromClient[it->first];
	794	for (int i = 0; i < it->second.numElements(); i++)
	795	indexes(compressedIndexes(i)) = it->second(i);
	796	}
	797
	798	switch (SuperClass::type)
	799	{
	800	case (MULTI_FILE):
	801	{
	802	SuperClassWriter::writeData(indexes, varId, isCollective, 0);
	803	break;
	804	}
	805	case (ONE_FILE):
	806	{
	807	if (grid->doGridHaveDataDistributed())
	808	grid->getDistributionServer()->computeGlobalIndex(indexes);
	809
	810	std::vector<StdSize> start, count;
	811	start.push_back(grid->getOffsetWrittenIndexes());
	812	count.push_back(grid->getNumberWrittenIndexes());
	813
	814	SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count);
	815	break;
	816	}
	817	}
	818	}
	819	else
	820	{
	821	for (int i = 0; i < numElement; ++i)
	822	{
	823	StdString varId, compress;
	824	CArray<int, 1> indexes;
	825	bool isDistributed;
	826	StdSize nbIndexes, totalNbIndexes, offset;
	827	int firstGlobalIndex;
	828
	829	if (axisDomainOrder(i))
	830	{
	831	CDomain* domain = CDomain::get(domainList[idxDomain]);
	832	if (!domain->isCompressible()
	833	\|\| domain->type == CDomain::type_attr::unstructured
	834	\|\| domain->isWrittenCompressed(this->filename))
	835	continue;
	836
[772]	837	StdString domId = domain->getDomainOutputName();
[676]	838	StdString appendDomId = singleDomain ? "" : "_" + domId;
	839
	840	varId = domId + "_points";
	841	switch (domain->type)
	842	{
	843	case CDomain::type_attr::curvilinear:
	844	compress = "y" + appendDomId + " x" + appendDomId;
	845	break;
	846	case CDomain::type_attr::rectilinear:
	847	compress = "lat" + appendDomId + " lon" + appendDomId;
	848	break;
	849	}
	850
	851	const std::vector<int>& indexesToWrite = domain->getIndexesToWrite();
	852	indexes.resize(indexesToWrite.size());
	853	for (int n = 0; n < indexes.numElements(); ++n)
	854	indexes(n) = indexesToWrite[n];
	855
	856	isDistributed = domain->isDistributed();
	857	nbIndexes = domain->getNumberWrittenIndexes();
	858	totalNbIndexes = domain->getTotalNumberWrittenIndexes();
	859	offset = domain->getOffsetWrittenIndexes();
	860	firstGlobalIndex = domain->ibegin + domain->jbegin * domain->ni_glo;
	861
	862	domain->addRelFileCompressed(this->filename);
	863	++idxDomain;
	864	}
	865	else
	866	{
	867	CAxis* axis = CAxis::get(axisList[idxAxis]);
	868	if (!axis->isCompressible() \|\| axis->isWrittenCompressed(this->filename))
	869	continue;
	870
[772]	871	StdString axisId = axis->getAxisOutputName();
[676]	872	varId = axisId + "_points";
	873	compress = axisId;
	874
	875	const std::vector<int>& indexesToWrite = axis->getIndexesToWrite();
	876	indexes.resize(indexesToWrite.size());
	877	for (int n = 0; n < indexes.numElements(); ++n)
	878	indexes(n) = indexesToWrite[n];
	879
	880	isDistributed = axis->isDistributed();
	881	nbIndexes = axis->getNumberWrittenIndexes();
	882	totalNbIndexes = axis->getTotalNumberWrittenIndexes();
	883	offset = axis->getOffsetWrittenIndexes();
	884	firstGlobalIndex = axis->begin;
	885
	886	axis->addRelFileCompressed(this->filename);
	887	++idxAxis;
	888	}
	889
	890	if (!varId.empty())
	891	{
	892	SuperClassWriter::addDimension(varId, (SuperClass::type == MULTI_FILE) ? nbIndexes : totalNbIndexes);
	893
	894	dims.clear();
	895	dims.push_back(varId);
	896	SuperClassWriter::addVariable(varId, NC_INT, dims);
	897
	898	SuperClassWriter::addAttribute("compress", compress, &varId);
	899
	900	switch (SuperClass::type)
	901	{
	902	case (MULTI_FILE):
	903	{
	904	indexes -= firstGlobalIndex;
	905	SuperClassWriter::writeData(indexes, varId, isCollective, 0);
	906	break;
	907	}
	908	case (ONE_FILE):
	909	{
	910	std::vector<StdSize> start, count;
	911	start.push_back(offset);
	912	count.push_back(nbIndexes);
	913
	914	SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count);
	915	break;
	916	}
	917	}
	918	}
	919	}
	920
	921	if (!dims.empty())
	922	grid->computeCompressedIndex();
	923	}
	924
	925	grid->addRelFileCompressed(this->filename);
	926	}
	927	catch (CNetCdfException& e)
	928	{
	929	StdString msg("On writing compressed grid : ");
	930	msg.append(grid->getId()); msg.append("\n");
	931	msg.append("In the context : ");
	932	CContext* context = CContext::getCurrent();
	933	msg.append(context->getId()); msg.append("\n");
	934	msg.append(e.what());
	935	ERROR("CNc4DataOutput::writeGridCompressed_(CGrid* grid)", << msg);
	936	}
	937	}
	938
	939	//--------------------------------------------------------------
	940
[391]	941	void CNc4DataOutput::writeTimeDimension_(void)
	942	{
[498]	943	try
	944	{
	945	SuperClassWriter::addDimension("time_counter");
	946	}
	947	catch (CNetCdfException& e)
	948	{
[614]	949	StdString msg("On writing time dimension : time_couter\n");
[498]	950	msg.append("In the context : ");
	951	CContext* context = CContext::getCurrent() ;
	952	msg.append(context->getId()); msg.append("\n");
	953	msg.append(e.what());
	954	ERROR("CNc4DataOutput::writeTimeDimension_(void)", << msg);
	955	}
[391]	956	}
[676]	957
[219]	958	//--------------------------------------------------------------
	959
[347]	960	void CNc4DataOutput::writeField_(CField* field)
[219]	961	{
[347]	962	CContext* context = CContext::getCurrent() ;
[300]	963	CContextServer* server=context->server ;
	964
[219]	965	std::vector<StdString> dims, coodinates;
[347]	966	CGrid* grid = field->grid;
[567]	967	if (!grid->doGridHaveDataToWrite())
	968	if (SuperClass::type==MULTI_FILE) return ;
[488]	969
[575]	970	CArray<bool,1> axisDomainOrder = grid->axis_domain_order;
[567]	971	int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0;
	972	std::vector<StdString> domainList = grid->getDomainList();
	973	std::vector<StdString> axisList = grid->getAxisList();
[219]	974
[567]	975	StdString timeid = StdString("time_counter");
	976	StdString dimXid,dimYid;
	977	std::deque<StdString> dimIdList, dimCoordList;
[611]	978	bool hasArea = false;
	979	StdString cellMeasures = "area:";
[676]	980	bool compressedOutput = !field->indexed_output.isEmpty() && field->indexed_output;
[488]	981
[567]	982	for (int i = 0; i < numElement; ++i)
[434]	983	{
[567]	984	if (axisDomainOrder(i))
	985	{
	986	CDomain* domain = CDomain::get(domainList[idxDomain]);
[772]	987	StdString domId = domain->getDomainOutputName();
[676]	988	StdString appendDomId = singleDomain ? "" : "_" + domId ;
	989
	990	if (compressedOutput && domain->isCompressible() && domain->type != CDomain::type_attr::unstructured)
	991	{
	992	dimIdList.push_back(domId + "_points");
	993	field->setUseCompressedOutput();
	994	}
	995
[567]	996	switch (domain->type)
	997	{
[676]	998	case CDomain::type_attr::curvilinear:
	999	if (!compressedOutput \|\| !domain->isCompressible())
	1000	{
	1001	dimXid = StdString("x").append(appendDomId);
	1002	dimIdList.push_back(dimXid);
	1003	dimYid = StdString("y").append(appendDomId);
	1004	dimIdList.push_back(dimYid);
	1005	}
	1006	dimCoordList.push_back(StdString("nav_lon").append(appendDomId));
	1007	dimCoordList.push_back(StdString("nav_lat").append(appendDomId));
[567]	1008	break ;
[676]	1009	case CDomain::type_attr::rectilinear:
	1010	if (!compressedOutput \|\| !domain->isCompressible())
	1011	{
	1012	dimXid = StdString("lon").append(appendDomId);
	1013	dimIdList.push_back(dimXid);
	1014	dimYid = StdString("lat").append(appendDomId);
	1015	dimIdList.push_back(dimYid);
	1016	}
[567]	1017	break ;
[676]	1018	case CDomain::type_attr::unstructured:
	1019	dimXid = StdString("cell").append(appendDomId);
[567]	1020	dimIdList.push_back(dimXid);
[676]	1021	dimCoordList.push_back(StdString("lon").append(appendDomId));
	1022	dimCoordList.push_back(StdString("lat").append(appendDomId));
[567]	1023	break ;
[676]	1024	}
	1025	if (domain->hasArea)
	1026	{
	1027	hasArea = true;
	1028	cellMeasures += " area" + appendDomId;
	1029	}
	1030	++idxDomain;
[567]	1031	}
	1032	else
	1033	{
	1034	CAxis* axis = CAxis::get(axisList[idxAxis]);
[772]	1035	StdString axisId = axis->getAxisOutputName();
[676]	1036
	1037	if (compressedOutput && axis->isCompressible())
	1038	{
	1039	dimIdList.push_back(axisId + "_points");
	1040	field->setUseCompressedOutput();
	1041	}
	1042	else
	1043	dimIdList.push_back(axisId);
	1044
	1045	dimCoordList.push_back(axisId);
	1046	++idxAxis;
[567]	1047	}
	1048	}
[488]	1049
	1050	/*
[300]	1051	StdString lonid_loc = (server->intraCommSize > 1)
[318]	1052	? StdString("lon").append(appendDomid).append("_local")
[278]	1053	: lonid;
[300]	1054	StdString latid_loc = (server->intraCommSize > 1)
[318]	1055	? StdString("lat").append(appendDomid).append("_local")
[278]	1056	: latid;
[391]	1057	*/
[770]	1058	StdString fieldid = field->getFieldOutputName();
[219]	1059
[300]	1060	// unsigned int ssize = domain->zoom_ni_loc.getValue() * domain->zoom_nj_loc.getValue();
	1061	// bool isCurvilinear = (domain->lonvalue.getValue()->size() == ssize);
[488]	1062	// bool isCurvilinear = domain->isCurvilinear ;
	1063
[464]	1064	nc_type type ;
	1065	if (field->prec.isEmpty()) type = NC_FLOAT ;
	1066	else
	1067	{
	1068	if (field->prec==2) type = NC_SHORT ;
	1069	else if (field->prec==4) type = NC_FLOAT ;
[488]	1070	else if (field->prec==8) type = NC_DOUBLE ;
[464]	1071	}
[488]	1072
[645]	1073	bool wtime = !(!field->operation.isEmpty() && field->getOperationTimeType() == func::CFunctor::once);
[488]	1074
[219]	1075	if (wtime)
	1076	{
[488]	1077
[449]	1078	//StdOStringStream oss;
	1079	// oss << "time_" << field->operation.getValue()
	1080	// << "_" << field->getRelFile()->output_freq.getValue();
[488]	1081	//oss
[645]	1082	if (field->getOperationTimeType() == func::CFunctor::instant) coodinates.push_back(string("time_instant"));
	1083	else if (field->getOperationTimeType() == func::CFunctor::centered) coodinates.push_back(string("time_centered"));
[219]	1084	dims.push_back(timeid);
	1085	}
	1086
[676]	1087	if (compressedOutput && grid->isCompressible())
[219]	1088	{
[676]	1089	dims.push_back(grid->getId() + "_points");
	1090	field->setUseCompressedOutput();
[219]	1091	}
[676]	1092	else
	1093	{
	1094	while (!dimIdList.empty())
	1095	{
	1096	dims.push_back(dimIdList.back());
	1097	dimIdList.pop_back();
	1098	}
	1099	}
[219]	1100
[567]	1101	while (!dimCoordList.empty())
[219]	1102	{
[567]	1103	coodinates.push_back(dimCoordList.back());
	1104	dimCoordList.pop_back();
[219]	1105	}
	1106
[498]	1107	try
	1108	{
	1109	SuperClassWriter::addVariable(fieldid, type, dims);
[488]	1110
[498]	1111	if (!field->standard_name.isEmpty())
	1112	SuperClassWriter::addAttribute
	1113	("standard_name", field->standard_name.getValue(), &fieldid);
[219]	1114
[498]	1115	if (!field->long_name.isEmpty())
	1116	SuperClassWriter::addAttribute
	1117	("long_name", field->long_name.getValue(), &fieldid);
[219]	1118
[498]	1119	if (!field->unit.isEmpty())
	1120	SuperClassWriter::addAttribute
	1121	("units", field->unit.getValue(), &fieldid);
[463]	1122
[498]	1123	if (!field->valid_min.isEmpty())
	1124	SuperClassWriter::addAttribute
	1125	("valid_min", field->valid_min.getValue(), &fieldid);
[463]	1126
[498]	1127	if (!field->valid_max.isEmpty())
	1128	SuperClassWriter::addAttribute
	1129	("valid_max", field->valid_max.getValue(), &fieldid);
[464]	1130
[498]	1131	if (!field->scale_factor.isEmpty())
	1132	SuperClassWriter::addAttribute
	1133	("scale_factor", field->scale_factor.getValue(), &fieldid);
[464]	1134
[498]	1135	if (!field->add_offset.isEmpty())
	1136	SuperClassWriter::addAttribute
	1137	("add_offset", field->add_offset.getValue(), &fieldid);
[488]	1138
[498]	1139	SuperClassWriter::addAttribute
	1140	("online_operation", field->operation.getValue(), &fieldid);
[472]	1141
[498]	1142	// write child variables as attributes
[488]	1143
	1144
[498]	1145	vector<CVariable*> listVars = field->getAllVariables() ;
	1146	for (vector<CVariable>::iterator it = listVars.begin() ;it != listVars.end(); it++) writeAttribute_(it, fieldid) ;
[472]	1147
[488]	1148
[498]	1149	if (wtime)
	1150	{
[614]	1151	CDuration freqOp = field->freq_op.getValue();
	1152	freqOp.solveTimeStep(*context->calendar);
	1153	StdString freqOpStr = freqOp.toStringUDUnits();
[612]	1154	SuperClassWriter::addAttribute("interval_operation", freqOpStr, &fieldid);
[437]	1155
[614]	1156	CDuration freqOut = field->getRelFile()->output_freq.getValue();
	1157	freqOut.solveTimeStep(*context->calendar);
	1158	SuperClassWriter::addAttribute("interval_write", freqOut.toStringUDUnits(), &fieldid);
[612]	1159
[618]	1160	StdString cellMethods = "time: ";
[612]	1161	if (field->operation.getValue() == "instant") cellMethods += "point";
	1162	else if (field->operation.getValue() == "average") cellMethods += "mean";
	1163	else if (field->operation.getValue() == "accumulate") cellMethods += "sum";
	1164	else cellMethods += field->operation;
[614]	1165	if (freqOp.resolve(context->calendar) != freqOut.resolve(context->calendar))
	1166	cellMethods += " (interval: " + freqOpStr + ")";
[612]	1167	SuperClassWriter::addAttribute("cell_methods", cellMethods, &fieldid);
[498]	1168	}
[488]	1169
[611]	1170	if (hasArea)
	1171	SuperClassWriter::addAttribute("cell_measures", cellMeasures, &fieldid);
	1172
[498]	1173	if (!field->default_value.isEmpty())
	1174	{
	1175	double default_value = field->default_value.getValue();
	1176	float fdefault_value = (float)default_value;
	1177	if (type == NC_DOUBLE)
	1178	SuperClassWriter::setDefaultValue(fieldid, &default_value);
	1179	else
	1180	SuperClassWriter::setDefaultValue(fieldid, &fdefault_value);
	1181	}
	1182	else
[517]	1183	SuperClassWriter::setDefaultValue(fieldid, (double*)NULL);
[219]	1184
[606]	1185	if (field->compression_level.isEmpty())
	1186	field->compression_level = field->file->compression_level.isEmpty() ? 0 : field->file->compression_level;
	1187	SuperClassWriter::setCompressionLevel(fieldid, field->compression_level);
	1188
[498]	1189	{ // Ecriture des coordonnÃ©es
[488]	1190
[498]	1191	StdString coordstr; //boost::algorithm::join(coodinates, " ")
	1192	std::vector<StdString>::iterator
	1193	itc = coodinates.begin(), endc = coodinates.end();
[488]	1194
[498]	1195	for (; itc!= endc; itc++)
	1196	{
	1197	StdString & coord = *itc;
	1198	if (itc+1 != endc)
	1199	coordstr.append(coord).append(" ");
	1200	else coordstr.append(coord);
	1201	}
[219]	1202
[498]	1203	SuperClassWriter::addAttribute("coordinates", coordstr, &fieldid);
[219]	1204
[498]	1205	}
[219]	1206	}
[498]	1207	catch (CNetCdfException& e)
	1208	{
	1209	StdString msg("On writing field : ");
	1210	msg.append(fieldid); msg.append("\n");
	1211	msg.append("In the context : ");
	1212	msg.append(context->getId()); msg.append("\n");
	1213	msg.append(e.what());
	1214	ERROR("CNc4DataOutput::writeField_(CField* field)", << msg);
	1215	}
[219]	1216	}
	1217
	1218	//--------------------------------------------------------------
	1219
[347]	1220	void CNc4DataOutput::writeFile_ (CFile* file)
[219]	1221	{
[773]	1222	StdString filename = file->getFileOutputName();
[219]	1223	StdString description = (!file->description.isEmpty())
	1224	? file->description.getValue()
[335]	1225	: StdString("Created by xios");
[609]	1226
	1227	singleDomain = (file->nbDomains == 1);
	1228
[498]	1229	try
	1230	{
	1231	this->writeFileAttributes(filename, description,
[614]	1232	StdString("CF-1.5"),
[498]	1233	StdString("An IPSL model"),
	1234	this->getTimeStamp());
[609]	1235
[701]	1236	if (!appendMode)
	1237	SuperClassWriter::addDimension("axis_nbounds", 2);
[498]	1238	}
	1239	catch (CNetCdfException& e)
	1240	{
	1241	StdString msg("On writing file : ");
	1242	msg.append(filename); msg.append("\n");
	1243	msg.append("In the context : ");
	1244	CContext* context = CContext::getCurrent() ;
	1245	msg.append(context->getId()); msg.append("\n");
	1246	msg.append(e.what());
	1247	ERROR("CNc4DataOutput::writeFile_ (CFile* file)", << msg);
	1248	}
[219]	1249	}
[488]	1250
[472]	1251	void CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)
	1252	{
[773]	1253	StdString name = var->getVariableOutputName();
[488]	1254
[498]	1255	try
	1256	{
[527]	1257	if (var->type.getValue() == CVariable::type_attr::t_int \|\| var->type.getValue() == CVariable::type_attr::t_int32)
	1258	addAttribute(name, var->getData<int>(), &fieldId);
	1259	else if (var->type.getValue() == CVariable::type_attr::t_int16)
	1260	addAttribute(name, var->getData<short int>(), &fieldId);
	1261	else if (var->type.getValue() == CVariable::type_attr::t_float)
	1262	addAttribute(name, var->getData<float>(), &fieldId);
	1263	else if (var->type.getValue() == CVariable::type_attr::t_double)
	1264	addAttribute(name, var->getData<double>(), &fieldId);
	1265	else if (var->type.getValue() == CVariable::type_attr::t_string)
	1266	addAttribute(name, var->getData<string>(), &fieldId);
	1267	else
	1268	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)",
	1269	<< "Unsupported variable of type " << var->type.getStringValue());
[498]	1270	}
	1271	catch (CNetCdfException& e)
	1272	{
	1273	StdString msg("On writing attributes of variable with name : ");
	1274	msg.append(name); msg.append("in the field "); msg.append(fieldId); msg.append("\n");
	1275	msg.append("In the context : ");
	1276	CContext* context = CContext::getCurrent() ;
	1277	msg.append(context->getId()); msg.append("\n");
	1278	msg.append(e.what());
	1279	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)", << msg);
	1280	}
[472]	1281	}
[488]	1282
[472]	1283	void CNc4DataOutput::writeAttribute_ (CVariable* var)
	1284	{
[773]	1285	StdString name = var->getVariableOutputName();
	1286
[498]	1287	try
	1288	{
[527]	1289	if (var->type.getValue() == CVariable::type_attr::t_int \|\| var->type.getValue() == CVariable::type_attr::t_int32)
	1290	addAttribute(name, var->getData<int>());
	1291	else if (var->type.getValue() == CVariable::type_attr::t_int16)
	1292	addAttribute(name, var->getData<short int>());
	1293	else if (var->type.getValue() == CVariable::type_attr::t_float)
	1294	addAttribute(name, var->getData<float>());
	1295	else if (var->type.getValue() == CVariable::type_attr::t_double)
	1296	addAttribute(name, var->getData<double>());
	1297	else if (var->type.getValue() == CVariable::type_attr::t_string)
	1298	addAttribute(name, var->getData<string>());
	1299	else
	1300	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)",
	1301	<< "Unsupported variable of type " << var->type.getStringValue());
[498]	1302	}
	1303	catch (CNetCdfException& e)
	1304	{
	1305	StdString msg("On writing attributes of variable with name : ");
	1306	msg.append(name); msg.append("\n");
	1307	msg.append("In the context : ");
	1308	CContext* context = CContext::getCurrent() ;
	1309	msg.append(context->getId()); msg.append("\n");
	1310	msg.append(e.what());
	1311	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)", << msg);
	1312	}
[488]	1313	}
	1314
[321]	1315	void CNc4DataOutput::syncFile_ (void)
	1316	{
[498]	1317	try
	1318	{
	1319	SuperClassWriter::sync() ;
	1320	}
	1321	catch (CNetCdfException& e)
	1322	{
	1323	StdString msg("On synchronizing the write among processes");
	1324	msg.append("In the context : ");
	1325	CContext* context = CContext::getCurrent() ;
	1326	msg.append(context->getId()); msg.append("\n");
	1327	msg.append(e.what());
	1328	ERROR("CNc4DataOutput::syncFile_ (void)", << msg);
	1329	}
[321]	1330	}
[219]	1331
[286]	1332	void CNc4DataOutput::closeFile_ (void)
	1333	{
[498]	1334	try
	1335	{
	1336	SuperClassWriter::close() ;
	1337	}
	1338	catch (CNetCdfException& e)
	1339	{
	1340	StdString msg("On closing file");
	1341	msg.append("In the context : ");
	1342	CContext* context = CContext::getCurrent() ;
	1343	msg.append(context->getId()); msg.append("\n");
	1344	msg.append(e.what());
	1345	ERROR("CNc4DataOutput::syncFile_ (void)", << msg);
	1346	}
	1347
[286]	1348	}
	1349
[219]	1350	//---------------------------------------------------------------
	1351
	1352	StdString CNc4DataOutput::getTimeStamp(void) const
	1353	{
	1354	const int buffer_size = 100;
	1355	time_t rawtime;
	1356	struct tm * timeinfo = NULL;
	1357	char buffer [buffer_size];
	1358
	1359	time ( &rawtime );
	1360	timeinfo = localtime ( &rawtime );
	1361	strftime (buffer, buffer_size, "%Y-%b-%d %H:%M:%S %Z", timeinfo);
	1362
	1363	return (StdString(buffer));
	1364	}
[488]	1365
[219]	1366	//---------------------------------------------------------------
[488]	1367
[347]	1368	void CNc4DataOutput::writeFieldData_ (CField* field)
[219]	1369	{
[707]	1370	CContext* context = CContext::getCurrent();
	1371	CContextServer* server = context->server;
	1372	CGrid* grid = field->grid;
[300]	1373
[707]	1374	if (!grid->doGridHaveDataToWrite())
	1375	if (SuperClass::type == MULTI_FILE \|\| !isCollective) return;
[488]	1376
[770]	1377	StdString fieldid = field->getFieldOutputName();
[286]	1378
[707]	1379	StdOStringStream oss;
	1380	string timeAxisId;
	1381	if (field->getOperationTimeType() == func::CFunctor::instant) timeAxisId = "time_instant";
	1382	else if (field->getOperationTimeType() == func::CFunctor::centered) timeAxisId = "time_centered";
[488]	1383
[707]	1384	StdString timeBoundId("time_counter_bounds");
[449]	1385
[707]	1386	StdString timeAxisBoundId;
	1387	if (field->getOperationTimeType() == func::CFunctor::instant) timeAxisBoundId = "time_instant_bounds";
	1388	else if (field->getOperationTimeType() == func::CFunctor::centered) timeAxisBoundId = "time_centered_bounds";
[488]	1389
[707]	1390	if (!field->wasWritten())
	1391	{
[757]	1392	if (appendMode && field->file->record_offset.isEmpty())
[707]	1393	{
	1394	field->resetNStep(getRecordFromTime(field->last_Write_srv) + 1);
	1395	}
[488]	1396
[707]	1397	field->setWritten();
	1398	}
[488]	1399
	1400
[707]	1401	CArray<double,1> time_data(1);
	1402	CArray<double,1> time_data_bound(2);
	1403	CArray<double,1> time_counter(1);
	1404	CArray<double,1> time_counter_bound(2);
	1405
	1406	bool wtime = (field->getOperationTimeType() != func::CFunctor::once);
	1407
[444]	1408	if (wtime)
	1409	{
[692]	1410	Time lastWrite = field->last_Write_srv;
	1411	Time lastLastWrite = field->lastlast_Write_srv;
	1412
[645]	1413	if (field->getOperationTimeType() == func::CFunctor::instant)
[692]	1414	time_data(0) = lastWrite;
	1415	else if (field->getOperationTimeType() == func::CFunctor::centered)
	1416	time_data(0) = (lastWrite + lastLastWrite) / 2;
[488]	1417
[645]	1418	if (field->getOperationTimeType() == func::CFunctor::instant)
[692]	1419	time_data_bound(0) = time_data_bound(1) = lastWrite;
[645]	1420	else if (field->getOperationTimeType() == func::CFunctor::centered)
[488]	1421	{
[692]	1422	time_data_bound(0) = lastLastWrite;
	1423	time_data_bound(1) = lastWrite;
[488]	1424	}
	1425
[692]	1426	if (field->file->time_counter == CFile::time_counter_attr::instant)
	1427	time_counter(0) = lastWrite;
	1428	else if (field->file->time_counter == CFile::time_counter_attr::centered)
	1429	time_counter(0) = (lastWrite + lastLastWrite) / 2;
	1430	else if (field->file->time_counter == CFile::time_counter_attr::record)
	1431	time_counter(0) = field->getNStep() - 1;
	1432
	1433
	1434	if (field->file->time_counter == CFile::time_counter_attr::instant)
	1435	time_counter_bound(0) = time_counter_bound(1) = lastWrite;
	1436	else if (field->file->time_counter == CFile::time_counter_attr::centered)
	1437	{
	1438	time_counter_bound(0) = lastLastWrite;
	1439	time_counter_bound(1) = lastWrite;
	1440	}
	1441	else if (field->file->time_counter == CFile::time_counter_attr::record)
	1442	time_counter_bound(0) = time_counter_bound(1) = field->getNStep() - 1;
	1443	}
	1444
[707]	1445	bool isRoot = (server->intraCommRank == 0);
[488]	1446
[464]	1447	if (!field->scale_factor.isEmpty() \|\| !field->add_offset.isEmpty())
	1448	{
[707]	1449	double scaleFactor = 1.0;
	1450	double addOffset = 0.0;
	1451	if (!field->scale_factor.isEmpty()) scaleFactor = field->scale_factor;
	1452	if (!field->add_offset.isEmpty()) addOffset = field->add_offset;
	1453	field->scaleFactorAddOffset(scaleFactor, addOffset);
[464]	1454	}
[488]	1455
[498]	1456	try
[219]	1457	{
[676]	1458	size_t writtenSize;
	1459	if (field->getUseCompressedOutput())
	1460	writtenSize = grid->getNumberWrittenIndexes();
	1461	else
	1462	writtenSize = grid->getWrittenDataSize();
	1463
	1464	CArray<double,1> fieldData(writtenSize);
[567]	1465	if (!field->default_value.isEmpty()) fieldData = field->default_value;
[676]	1466
	1467	if (field->getUseCompressedOutput())
	1468	field->outputCompressedField(fieldData);
	1469	else
	1470	field->outputField(fieldData);
	1471
[707]	1472	if (!field->prec.isEmpty() && field->prec == 2) fieldData = round(fieldData);
[567]	1473
	1474	switch (SuperClass::type)
[498]	1475	{
[567]	1476	case (MULTI_FILE) :
	1477	{
[692]	1478	SuperClassWriter::writeData(fieldData, fieldid, isCollective, field->getNStep() - 1);
[567]	1479	if (wtime)
	1480	{
[692]	1481	SuperClassWriter::writeData(time_data, timeAxisId, isCollective, field->getNStep() - 1);
	1482	SuperClassWriter::writeData(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1);
	1483	if (field->file->time_counter != CFile::time_counter_attr::none)
	1484	{
	1485	SuperClassWriter::writeData(time_counter, string("time_counter"), isCollective, field->getNStep() - 1);
	1486	if (field->file->time_counter != CFile::time_counter_attr::record)
	1487	SuperClassWriter::writeData(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1);
	1488	}
[567]	1489	}
[707]	1490	break;
[567]	1491	}
	1492	case (ONE_FILE) :
	1493	{
[676]	1494	const std::vector<int>& nZoomBeginGlobal = grid->getDistributionServer()->getZoomBeginGlobal();
	1495	const std::vector<int>& nZoomBeginServer = grid->getDistributionServer()->getZoomBeginServer();
	1496	const std::vector<int>& nZoomSizeServer = grid->getDistributionServer()->getZoomSizeServer();
[464]	1497
[676]	1498	std::vector<StdSize> start, count;
[464]	1499
[676]	1500	if (field->getUseCompressedOutput())
	1501	{
	1502	if (grid->isCompressible())
	1503	{
	1504	start.push_back(grid->getOffsetWrittenIndexes());
	1505	count.push_back(grid->getNumberWrittenIndexes());
	1506	}
	1507	else
	1508	{
	1509	CArray<bool,1> axisDomainOrder = grid->axis_domain_order;
	1510	std::vector<StdString> domainList = grid->getDomainList();
	1511	std::vector<StdString> axisList = grid->getAxisList();
	1512	int numElement = axisDomainOrder.numElements();
	1513	int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1;
	1514	int idx = nZoomBeginGlobal.size() - 1;
[464]	1515
[676]	1516	start.reserve(nZoomBeginGlobal.size());
	1517	count.reserve(nZoomBeginGlobal.size());
	1518
	1519
	1520	for (int i = numElement - 1; i >= 0; --i)
	1521	{
	1522	if (axisDomainOrder(i))
	1523	{
	1524	CDomain* domain = CDomain::get(domainList[idxDomain]);
	1525
	1526	if (domain->isCompressible())
	1527	{
	1528	start.push_back(domain->getOffsetWrittenIndexes());
	1529	count.push_back(domain->getNumberWrittenIndexes());
[710]	1530	idx -= 2;
[676]	1531	}
	1532	else
	1533	{
[710]	1534	if ((domain->type) != CDomain::type_attr::unstructured)
	1535	{
	1536	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	1537	count.push_back(nZoomSizeServer[idx]);
	1538	}
	1539	--idx;
[676]	1540	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	1541	count.push_back(nZoomSizeServer[idx]);
[710]	1542	--idx;
[676]	1543	}
	1544	--idxDomain;
	1545	}
	1546	else
	1547	{
	1548	CAxis* axis = CAxis::get(axisList[idxAxis]);
	1549
	1550	if (axis->isCompressible())
	1551	{
	1552	start.push_back(axis->getOffsetWrittenIndexes());
	1553	count.push_back(axis->getNumberWrittenIndexes());
	1554	}
	1555	else
	1556	{
	1557	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	1558	count.push_back(nZoomSizeServer[idx]);
	1559	}
	1560
	1561	--idxAxis;
	1562	--idx;
	1563	}
	1564	}
	1565	}
	1566	}
	1567	else
[498]	1568	{
[705]	1569
	1570	CArray<bool,1> axisDomainOrder = grid->axis_domain_order;
	1571	std::vector<StdString> domainList = grid->getDomainList();
	1572	std::vector<StdString> axisList = grid->getAxisList();
	1573	int numElement = axisDomainOrder.numElements();
	1574	int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1;
	1575	int idx = nZoomBeginGlobal.size() - 1;
	1576
	1577	start.reserve(nZoomBeginGlobal.size());
	1578	count.reserve(nZoomBeginGlobal.size());
	1579
	1580	for (int i = numElement - 1; i >= 0; --i)
	1581	{
	1582	if (axisDomainOrder(i))
	1583	{
	1584	CDomain* domain = CDomain::get(domainList[idxDomain]);
[710]	1585	if ((domain->type) != CDomain::type_attr::unstructured)
[705]	1586	{
	1587	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	1588	count.push_back(nZoomSizeServer[idx]);
	1589	}
	1590	--idx ;
	1591	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	1592	count.push_back(nZoomSizeServer[idx]);
	1593	--idx ;
	1594	--idxDomain;
	1595	}
	1596	else
	1597	{
	1598	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
	1599	count.push_back(nZoomSizeServer[idx]);
	1600	--idx;
	1601	}
	1602	}
[498]	1603	}
[488]	1604
[676]	1605	SuperClassWriter::writeData(fieldData, fieldid, isCollective, field->getNStep() - 1, &start, &count);
[586]	1606	if (wtime)
	1607	{
[692]	1608	SuperClassWriter::writeTimeAxisData(time_data, timeAxisId, isCollective, field->getNStep() - 1, isRoot);
	1609	SuperClassWriter::writeTimeAxisData(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1, isRoot);
	1610	if (field->file->time_counter != CFile::time_counter_attr::none)
	1611	{
	1612	SuperClassWriter::writeTimeAxisData(time_counter, string("time_counter"), isCollective, field->getNStep() - 1, isRoot);
	1613	if (field->file->time_counter != CFile::time_counter_attr::record)
	1614	SuperClassWriter::writeTimeAxisData(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1, isRoot);
	1615	}
[586]	1616	}
	1617
	1618	break;
[286]	1619	}
[567]	1620	}
[219]	1621	}
[498]	1622	catch (CNetCdfException& e)
	1623	{
	1624	StdString msg("On writing field data: ");
	1625	msg.append(fieldid); msg.append("\n");
	1626	msg.append("In the context : ");
	1627	msg.append(context->getId()); msg.append("\n");
	1628	msg.append(e.what());
	1629	ERROR("CNc4DataOutput::writeFieldData_ (CField* field)", << msg);
	1630	}
[219]	1631	}
	1632
	1633	//---------------------------------------------------------------
	1634
	1635	void CNc4DataOutput::writeTimeAxis_
[347]	1636	(CField* field,
[343]	1637	const boost::shared_ptr<CCalendar> cal)
[219]	1638	{
	1639	StdOStringStream oss;
[488]	1640
[645]	1641	if (field->getOperationTimeType() == func::CFunctor::once) return ;
[488]	1642
[449]	1643	// oss << "time_" << field->operation.getValue()
	1644	// << "_" << field->getRelFile()->output_freq.getValue();
[488]	1645
[449]	1646	// StdString axisid = oss.str();
[645]	1647	// if (field->getOperationTimeType() == func::CFunctor::centered) axisid="time_centered" ;
	1648	// else if (field->getOperationTimeType() == func::CFunctor::instant) axisid="time_instant" ;
[219]	1649
[488]	1650	StdString axisid("time_centered") ;
	1651	StdString axisBoundId("time_centered_bounds");
	1652	StdString timeid("time_counter");
[614]	1653	StdString timeBoundId("axis_nbounds");
[488]	1654
[645]	1655	if (field->getOperationTimeType() == func::CFunctor::instant)
[488]	1656	{
	1657	axisid = "time_instant";
	1658	axisBoundId = "time_instant_bounds";
	1659	}
	1660
[498]	1661	try
[219]	1662	{
[498]	1663	// Adding time_instant or time_centered
	1664	std::vector<StdString> dims;
	1665	dims.push_back(timeid);
	1666	if (!SuperClassWriter::varExist(axisid))
	1667	{
	1668	SuperClassWriter::addVariable(axisid, NC_DOUBLE, dims);
[488]	1669
[498]	1670	CDate timeOrigin=cal->getTimeOrigin() ;
	1671	StdOStringStream oss2;
	1672	// oss2<<initDate.getYear()<<"-"<<initDate.getMonth()<<"-"<<initDate.getDay()<<" "
	1673	// <<initDate.getHour()<<"-"<<initDate.getMinute()<<"-"<<initDate.getSecond() ;
	1674	StdString strInitdate=oss2.str() ;
	1675	StdString strTimeOrigin=timeOrigin.toString() ;
	1676	this->writeTimeAxisAttributes
	1677	(axisid, cal->getType(),
	1678	StdString("seconds since ").append(strTimeOrigin),
	1679	strTimeOrigin, axisBoundId);
	1680	}
[219]	1681
[498]	1682	// Adding time_instant_bounds or time_centered_bounds variables
	1683	if (!SuperClassWriter::varExist(axisBoundId))
	1684	{
	1685	dims.clear() ;
	1686	dims.push_back(timeid);
	1687	dims.push_back(timeBoundId);
	1688	SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims);
	1689	}
[488]	1690
[692]	1691	if (field->file->time_counter != CFile::time_counter_attr::none)
[498]	1692	{
[692]	1693	// Adding time_counter
	1694	axisid = "time_counter";
	1695	axisBoundId = "time_counter_bounds";
	1696	dims.clear();
	1697	dims.push_back(timeid);
	1698	if (!SuperClassWriter::varExist(axisid))
	1699	{
	1700	SuperClassWriter::addVariable(axisid, NC_DOUBLE, dims);
	1701	SuperClassWriter::addAttribute("axis", string("T"), &axisid);
[488]	1702
[692]	1703	if (field->file->time_counter != CFile::time_counter_attr::record)
	1704	{
	1705	CDate timeOrigin = cal->getTimeOrigin();
	1706	StdString strTimeOrigin = timeOrigin.toString();
[498]	1707
[692]	1708	this->writeTimeAxisAttributes(axisid, cal->getType(),
	1709	StdString("seconds since ").append(strTimeOrigin),
	1710	strTimeOrigin, axisBoundId);
	1711	}
	1712	}
	1713
	1714	// Adding time_counter_bound dimension
	1715	if (field->file->time_counter != CFile::time_counter_attr::record)
	1716	{
	1717	if (!SuperClassWriter::varExist(axisBoundId))
	1718	{
	1719	dims.clear();
	1720	dims.push_back(timeid);
	1721	dims.push_back(timeBoundId);
	1722	SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims);
	1723	}
	1724	}
[498]	1725	}
[488]	1726	}
[498]	1727	catch (CNetCdfException& e)
[488]	1728	{
[498]	1729	StdString msg("On writing time axis data: ");
	1730	msg.append("In the context : ");
	1731	CContext* context = CContext::getCurrent() ;
	1732	msg.append(context->getId()); msg.append("\n");
	1733	msg.append(e.what());
	1734	ERROR("CNc4DataOutput::writeTimeAxis_ (CField* field, \
	1735	const boost::shared_ptr<CCalendar> cal)", << msg);
[488]	1736	}
[219]	1737	}
	1738
	1739	//---------------------------------------------------------------
[488]	1740
[219]	1741	void CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name,
	1742	const StdString & calendar,
	1743	const StdString & units,
	1744	const StdString & time_origin,
[488]	1745	const StdString & time_bounds,
[219]	1746	const StdString & standard_name,
[613]	1747	const StdString & long_name)
[219]	1748	{
[498]	1749	try
	1750	{
	1751	SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name);
	1752	SuperClassWriter::addAttribute("long_name", long_name , &axis_name);
	1753	SuperClassWriter::addAttribute("calendar", calendar , &axis_name);
	1754	SuperClassWriter::addAttribute("units", units , &axis_name);
	1755	SuperClassWriter::addAttribute("time_origin", time_origin , &axis_name);
	1756	SuperClassWriter::addAttribute("bounds", time_bounds , &axis_name);
	1757	}
	1758	catch (CNetCdfException& e)
	1759	{
	1760	StdString msg("On writing time axis Attribute: ");
	1761	msg.append("In the context : ");
	1762	CContext* context = CContext::getCurrent() ;
	1763	msg.append(context->getId()); msg.append("\n");
	1764	msg.append(e.what());
	1765	ERROR("CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name, \
[613]	1766	const StdString & calendar,\
	1767	const StdString & units, \
	1768	const StdString & time_origin, \
	1769	const StdString & time_bounds, \
	1770	const StdString & standard_name, \
	1771	const StdString & long_name)", << msg);
[498]	1772	}
[219]	1773	}
[488]	1774
[219]	1775	//---------------------------------------------------------------
	1776
	1777	void CNc4DataOutput::writeAxisAttributes(const StdString & axis_name,
	1778	const StdString & axis,
	1779	const StdString & standard_name,
	1780	const StdString & long_name,
	1781	const StdString & units,
	1782	const StdString & nav_model)
	1783	{
[498]	1784	try
	1785	{
[613]	1786	if (!axis.empty())
	1787	SuperClassWriter::addAttribute("axis" , axis , &axis_name);
	1788
[498]	1789	SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name);
	1790	SuperClassWriter::addAttribute("long_name" , long_name , &axis_name);
	1791	SuperClassWriter::addAttribute("units" , units , &axis_name);
	1792	SuperClassWriter::addAttribute("nav_model" , nav_model , &axis_name);
	1793	}
	1794	catch (CNetCdfException& e)
	1795	{
	1796	StdString msg("On writing Axis Attribute: ");
	1797	msg.append("In the context : ");
	1798	CContext* context = CContext::getCurrent() ;
	1799	msg.append(context->getId()); msg.append("\n");
	1800	msg.append(e.what());
	1801	ERROR("CNc4DataOutput::writeAxisAttributes(const StdString & axis_name, \
[613]	1802	const StdString & axis, \
	1803	const StdString & standard_name, \
	1804	const StdString & long_name, \
	1805	const StdString & units, \
	1806	const StdString & nav_model)", << msg);
[498]	1807	}
[219]	1808	}
	1809
	1810	//---------------------------------------------------------------
[488]	1811
[219]	1812	void CNc4DataOutput::writeLocalAttributes
	1813	(int ibegin, int ni, int jbegin, int nj, StdString domid)
	1814	{
[498]	1815	try
	1816	{
[318]	1817	SuperClassWriter::addAttribute(StdString("ibegin").append(domid), ibegin);
	1818	SuperClassWriter::addAttribute(StdString("ni" ).append(domid), ni);
	1819	SuperClassWriter::addAttribute(StdString("jbegin").append(domid), jbegin);
	1820	SuperClassWriter::addAttribute(StdString("nj" ).append(domid), nj);
[498]	1821	}
	1822	catch (CNetCdfException& e)
	1823	{
	1824	StdString msg("On writing Local Attributes: ");
	1825	msg.append("In the context : ");
	1826	CContext* context = CContext::getCurrent() ;
	1827	msg.append(context->getId()); msg.append("\n");
	1828	msg.append(e.what());
	1829	ERROR("CNc4DataOutput::writeLocalAttributes \
	1830	(int ibegin, int ni, int jbegin, int nj, StdString domid)", << msg);
	1831	}
	1832
[219]	1833	}
	1834
[628]	1835	void CNc4DataOutput::writeLocalAttributes_IOIPSL(const StdString& dimXid, const StdString& dimYid,
	1836	int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)
[391]	1837	{
	1838	CArray<int,1> array(2) ;
	1839
[498]	1840	try
	1841	{
	1842	SuperClassWriter::addAttribute("DOMAIN_number_total",size ) ;
	1843	SuperClassWriter::addAttribute("DOMAIN_number", rank) ;
[629]	1844	array = SuperClassWriter::getDimension(dimXid) + 1, SuperClassWriter::getDimension(dimYid) + 1;
[498]	1845	SuperClassWriter::addAttribute("DOMAIN_dimensions_ids",array) ;
	1846	array=ni_glo,nj_glo ;
	1847	SuperClassWriter::addAttribute("DOMAIN_size_global", array) ;
	1848	array=ni,nj ;
	1849	SuperClassWriter::addAttribute("DOMAIN_size_local", array) ;
	1850	array=ibegin,jbegin ;
	1851	SuperClassWriter::addAttribute("DOMAIN_position_first", array) ;
	1852	array=ibegin+ni-1,jbegin+nj-1 ;
	1853	SuperClassWriter::addAttribute("DOMAIN_position_last",array) ;
	1854	array=0,0 ;
	1855	SuperClassWriter::addAttribute("DOMAIN_halo_size_start", array) ;
	1856	SuperClassWriter::addAttribute("DOMAIN_halo_size_end", array);
	1857	SuperClassWriter::addAttribute("DOMAIN_type",string("box")) ;
	1858	/*
	1859	SuperClassWriter::addAttribute("DOMAIN_DIM_N001",string("x")) ;
	1860	SuperClassWriter::addAttribute("DOMAIN_DIM_N002",string("y")) ;
	1861	SuperClassWriter::addAttribute("DOMAIN_DIM_N003",string("axis_A")) ;
	1862	SuperClassWriter::addAttribute("DOMAIN_DIM_N004",string("time_counter")) ;
	1863	*/
	1864	}
	1865	catch (CNetCdfException& e)
	1866	{
[628]	1867	StdString msg("On writing Local Attributes IOIPSL \n");
[498]	1868	msg.append("In the context : ");
	1869	CContext* context = CContext::getCurrent() ;
	1870	msg.append(context->getId()); msg.append("\n");
	1871	msg.append(e.what());
	1872	ERROR("CNc4DataOutput::writeLocalAttributes_IOIPSL \
	1873	(int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)", << msg);
	1874	}
[391]	1875	}
[219]	1876	//---------------------------------------------------------------
	1877
	1878	void CNc4DataOutput:: writeFileAttributes(const StdString & name,
	1879	const StdString & description,
	1880	const StdString & conventions,
	1881	const StdString & production,
	1882	const StdString & timeStamp)
	1883	{
[498]	1884	try
	1885	{
	1886	SuperClassWriter::addAttribute("name" , name);
	1887	SuperClassWriter::addAttribute("description", description);
[613]	1888	SuperClassWriter::addAttribute("title" , description);
	1889	SuperClassWriter::addAttribute("Conventions", conventions);
[498]	1890	SuperClassWriter::addAttribute("production" , production);
	1891	SuperClassWriter::addAttribute("timeStamp" , timeStamp);
	1892	}
	1893	catch (CNetCdfException& e)
	1894	{
	1895	StdString msg("On writing File Attributes \n ");
	1896	msg.append("In the context : ");
	1897	CContext* context = CContext::getCurrent() ;
	1898	msg.append(context->getId()); msg.append("\n");
	1899	msg.append(e.what());
	1900	ERROR("CNc4DataOutput:: writeFileAttributes(const StdString & name, \
	1901	const StdString & description, \
	1902	const StdString & conventions, \
	1903	const StdString & production, \
	1904	const StdString & timeStamp)", << msg);
	1905	}
[219]	1906	}
	1907
	1908	//---------------------------------------------------------------
	1909
	1910	void CNc4DataOutput::writeMaskAttributes(const StdString & mask_name,
	1911	int data_dim,
	1912	int data_ni,
	1913	int data_nj,
	1914	int data_ibegin,
	1915	int data_jbegin)
	1916	{
[498]	1917	try
	1918	{
	1919	SuperClassWriter::addAttribute("data_dim" , data_dim , &mask_name);
	1920	SuperClassWriter::addAttribute("data_ni" , data_ni , &mask_name);
	1921	SuperClassWriter::addAttribute("data_nj" , data_nj , &mask_name);
	1922	SuperClassWriter::addAttribute("data_ibegin", data_ibegin, &mask_name);
	1923	SuperClassWriter::addAttribute("data_jbegin", data_jbegin, &mask_name);
	1924	}
	1925	catch (CNetCdfException& e)
	1926	{
	1927	StdString msg("On writing Mask Attributes \n ");
	1928	msg.append("In the context : ");
	1929	CContext* context = CContext::getCurrent() ;
	1930	msg.append(context->getId()); msg.append("\n");
	1931	msg.append(e.what());
	1932	ERROR("CNc4DataOutput::writeMaskAttributes(const StdString & mask_name, \
	1933	int data_dim, \
	1934	int data_ni, \
	1935	int data_nj, \
	1936	int data_ibegin, \
	1937	int data_jbegin)", << msg);
	1938	}
[219]	1939	}
	1940
	1941	///--------------------------------------------------------------
	1942
[707]	1943	StdSize CNc4DataOutput::getRecordFromTime(Time time)
	1944	{
	1945	std::map<Time, StdSize>::const_iterator it = timeToRecordCache.find(time);
	1946	if (it == timeToRecordCache.end())
	1947	{
	1948	StdString timeAxisBoundsId("time_counter_bounds");
	1949	if (!SuperClassWriter::varExist(timeAxisBoundsId))
	1950	timeAxisBoundsId = "time_instant_bounds";
	1951
	1952	CArray<double,2> timeAxisBounds;
	1953	SuperClassWriter::getTimeAxisBounds(timeAxisBounds, timeAxisBoundsId, isCollective);
	1954
	1955	StdSize record = 0;
	1956	double dtime(time);
	1957	for (int n = timeAxisBounds.extent(1) - 1; n >= 0; n--)
	1958	{
	1959	if (timeAxisBounds(1, n) < dtime)
	1960	{
	1961	record = n + 1;
	1962	break;
	1963	}
	1964	}
	1965	it = timeToRecordCache.insert(std::make_pair(time, record)).first;
	1966	}
	1967	return it->second;
	1968	}
[335]	1969	} // namespace xios

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