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source: XIOS3/trunk/src/io/nc4_data_output.cpp @ 2391

Last change on this file since 2391 was 2391, checked in by ymipsl, 22 months ago
Solvue issue when trying to output scalar in nectdf file coming from a grid composed of multiple scalar tensor product. YM
Property copyright set to Software name : XIOS (Xml I/O Server) http://forge.ipsl.jussieu.fr/ioserver Creation date : January 2009 Licence : CeCCIL version2 see license file in root directory : Licence_CeCILL_V2-en.txt or http://www.cecill.info/licences/Licence_CeCILL_V2-en.html Holder : CEA/LSCE (Laboratoire des Sciences du CLimat et de l'Environnement) CNRS/IPSL (Institut Pierre Simon Laplace) Project Manager : Yann Meurdesoif yann.meurdesoif@cea.fr Property svn:executable set to ``*
File size: 125.1 KB

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

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