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source: XIOS/trunk/src/io/nc4_data_output.cpp @ 1559

Last change on this file since 1559 was 1559, checked in by oabramkina, 6 years ago
Replacing axis zoom by axis extract. Zoom private attributes are gone for good.
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: 131.7 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)
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)
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	{
57	StdString lonName,latName ;
58
59	domain->computeWrittenIndex();
60	domain->computeWrittenCompressedIndex(comm_file);
61
62	if (domain->type == CDomain::type_attr::unstructured)
63	{
64	if (SuperClassWriter::useCFConvention)
65	writeUnstructuredDomain(domain) ;
66	else
67	writeUnstructuredDomainUgrid(domain) ;
68	return ;
69	}
70
71	CContext* context = CContext::getCurrent() ;
72	CContextServer* server=context->server ;
73
74	if (domain->IsWritten(this->filename)) return;
75	domain->checkAttributes();
76
77	if (domain->isEmpty())
78	if (SuperClass::type==MULTI_FILE) return;
79
80	std::vector<StdString> dim0, dim1;
81	StdString domid = domain->getDomainOutputName();
82	StdString appendDomid = (singleDomain) ? "" : "_"+domid ;
83	if (isWrittenDomain(domid)) return ;
84	else setWrittenDomain(domid);
85
86	int nvertex = (domain->nvertex.isEmpty()) ? 0 : domain->nvertex;
87
88
89	StdString dimXid, dimYid ;
90
91	nc_type typePrec ;
92	if (domain->prec.isEmpty()) typePrec = NC_FLOAT ;
93	else if (domain->prec==4) typePrec = NC_FLOAT ;
94	else if (domain->prec==8) typePrec = NC_DOUBLE ;
95
96	bool isRegularDomain = (domain->type == CDomain::type_attr::rectilinear);
97	switch (domain->type)
98	{
99	case CDomain::type_attr::curvilinear :
100
101	if (domain->lon_name.isEmpty()) lonName = "nav_lon";
102	else lonName = domain->lon_name;
103
104	if (domain->lat_name.isEmpty()) latName = "nav_lat";
105	else latName = domain->lat_name;
106
107	if (domain->dim_i_name.isEmpty()) dimXid=StdString("x").append(appendDomid);
108	else dimXid=domain->dim_i_name.getValue() + appendDomid;
109
110	if (domain->dim_j_name.isEmpty()) dimYid=StdString("y").append(appendDomid);
111	else dimYid=domain->dim_j_name.getValue() + appendDomid;
112
113	break ;
114
115	case CDomain::type_attr::rectilinear :
116
117	if (domain->lon_name.isEmpty())
118	{
119	if (domain->dim_i_name.isEmpty())
120	lonName = "lon";
121	else
122	lonName = domain->dim_i_name.getValue();
123	}
124	else lonName = domain->lon_name;
125
126	if (domain->lat_name.isEmpty())
127	{
128	if (domain->dim_j_name.isEmpty())
129	latName = "lat";
130	else
131	latName = domain->dim_j_name.getValue();
132	}
133	else latName = domain->lat_name;
134
135	if (domain->dim_i_name.isEmpty()) dimXid = lonName+appendDomid;
136	else dimXid = domain->dim_i_name.getValue()+appendDomid;
137
138	if (domain->dim_j_name.isEmpty()) dimYid = latName+appendDomid;
139	else dimYid = domain->dim_j_name.getValue()+appendDomid;
140	break;
141	}
142
143	StdString dimVertId = StdString("nvertex").append(appendDomid);
144
145	string lonid,latid,bounds_lonid,bounds_latid ;
146	string areaId = "area" + appendDomid;
147	/*
148	StdString lonid_loc = (server->intraCommSize > 1)
149	? StdString("lon").append(appendDomid).append("_local")
150	: lonid;
151	StdString latid_loc = (server->intraCommSize > 1)
152	? StdString("lat").append(appendDomid).append("_local")
153	: latid;
154	*/
155
156	CArray<size_t, 1>& indexToWrite = domain->localIndexToWriteOnServer;
157	int nbWritten = indexToWrite.numElements();
158	CArray<double,1> writtenLat, writtenLon;
159	CArray<double,2> writtenBndsLat, writtenBndsLon;
160	CArray<double,1> writtenArea;
161
162	if (domain->hasLonLat)
163	{
164	writtenLat.resize(nbWritten);
165	writtenLon.resize(nbWritten);
166	for (int idx = 0; idx < nbWritten; ++idx)
167	{
168	if (idx < domain->latvalue.numElements())
169	{
170	writtenLat(idx) = domain->latvalue(indexToWrite(idx));
171	writtenLon(idx) = domain->lonvalue(indexToWrite(idx));
172	}
173	else
174	{
175	writtenLat(idx) = 0.;
176	writtenLon(idx) = 0.;
177	}
178	}
179
180
181	if (domain->hasBounds)
182	{
183	int nvertex = domain->nvertex, idx;
184	writtenBndsLat.resize(nvertex, nbWritten);
185	writtenBndsLon.resize(nvertex, nbWritten);
186	CArray<double,2>& boundslat = domain->bounds_latvalue;
187	CArray<double,2>& boundslon = domain->bounds_lonvalue;
188	for (idx = 0; idx < nbWritten; ++idx)
189	for (int nv = 0; nv < nvertex; ++nv)
190	{
191	if (idx < boundslat.columns())
192	{
193	writtenBndsLat(nv, idx) = boundslat(nv, int(indexToWrite(idx)));
194	writtenBndsLon(nv, idx) = boundslon(nv, int(indexToWrite(idx)));
195	}
196	else
197	{
198	writtenBndsLat(nv, idx) = 0.;
199	writtenBndsLon(nv, idx) = 0.;
200	}
201	}
202	}
203	}
204
205	if (domain->hasArea)
206	{
207	writtenArea.resize(nbWritten);
208	for (int idx = 0; idx < nbWritten; ++idx)
209	{
210	if (idx < domain->areavalue.numElements())
211	writtenArea(idx) = domain->areavalue(indexToWrite(idx));
212	else
213	writtenArea(idx) = 0.;
214	}
215	}
216
217	try
218	{
219	switch (SuperClass::type)
220	{
221	case (MULTI_FILE) :
222	{
223	switch (domain->type)
224	{
225	case CDomain::type_attr::curvilinear :
226	dim0.push_back(dimYid); dim0.push_back(dimXid);
227	lonid = lonName+appendDomid;
228	latid = latName+appendDomid;
229	break ;
230	case CDomain::type_attr::rectilinear :
231	lonid = lonName+appendDomid;
232	latid = latName+appendDomid;
233	dim0.push_back(dimYid);
234	dim1.push_back(dimXid);
235	break;
236	}
237	if (!domain->bounds_lon_name.isEmpty()) bounds_lonid = domain->bounds_lon_name;
238	else bounds_lonid = "bounds_"+lonName+appendDomid;
239	if (!domain->bounds_lat_name.isEmpty()) bounds_latid = domain->bounds_lat_name;
240	else bounds_latid = "bounds_"+latName+appendDomid;
241
242	SuperClassWriter::addDimension(dimXid, domain->ni);
243	SuperClassWriter::addDimension(dimYid, domain->nj);
244
245	if (domain->hasBounds)
246	SuperClassWriter::addDimension(dimVertId, domain->nvertex);
247
248	if (server->intraCommSize > 1)
249	{
250	this->writeLocalAttributes(domain->ibegin,
251	domain->ni,
252	domain->jbegin,
253	domain->nj,
254	appendDomid);
255
256	if (singleDomain)
257	this->writeLocalAttributes_IOIPSL(dimXid, dimYid,
258	domain->ibegin,
259	domain->ni,
260	domain->jbegin,
261	domain->nj,
262	domain->ni_glo,domain->nj_glo,
263	server->intraCommRank,server->intraCommSize);
264	}
265
266	if (domain->hasLonLat)
267	{
268	switch (domain->type)
269	{
270	case CDomain::type_attr::curvilinear :
271	SuperClassWriter::addVariable(latid, typePrec, dim0, compressionLevel);
272	SuperClassWriter::addVariable(lonid, typePrec, dim0, compressionLevel);
273	break ;
274	case CDomain::type_attr::rectilinear :
275	SuperClassWriter::addVariable(latid, typePrec, dim0, compressionLevel);
276	SuperClassWriter::addVariable(lonid, typePrec, dim1, compressionLevel);
277	break ;
278	}
279
280	this->writeAxisAttributes(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid);
281	this->writeAxisAttributes(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid);
282
283	if (domain->hasBounds)
284	{
285	SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid);
286	SuperClassWriter::addAttribute("bounds", bounds_latid, &latid);
287
288	dim0.clear();
289	dim0.push_back(dimYid);
290	dim0.push_back(dimXid);
291	dim0.push_back(dimVertId);
292	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0, compressionLevel);
293	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0, compressionLevel);
294	}
295	}
296
297	dim0.clear();
298	dim0.push_back(dimYid);
299	dim0.push_back(dimXid);
300
301
302	// supress mask if (server->intraCommSize > 1)
303	// supress mask {
304	// supress mask SuperClassWriter::addVariable(maskid, NC_INT, dim0);
305	// supress mask
306	// supress mask this->writeMaskAttributes(maskid,
307	// supress mask domain->data_dim.getValue()/*,
308	// supress mask domain->data_ni.getValue(),
309	// supress mask domain->data_nj.getValue(),
310	// supress mask domain->data_ibegin.getValue(),
311	// supress mask domain->data_jbegin.getValue()*/);
312	// supress mask }
313
314	//SuperClassWriter::setDefaultValue(maskid, &dvm);
315
316	if (domain->hasArea)
317	{
318	SuperClassWriter::addVariable(areaId, typePrec, dim0, compressionLevel);
319	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
320	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
321	}
322
323	SuperClassWriter::definition_end();
324
325	if (domain->hasLonLat)
326	{
327	switch (domain->type)
328	{
329	case CDomain::type_attr::curvilinear :
330	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0);
331	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0);
332	break;
333	case CDomain::type_attr::rectilinear :
334	CArray<double,1> lat = writtenLat(Range(fromStart,toEnd,domain->ni)) ;
335	SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0);
336	CArray<double,1> lon = writtenLon(Range(0,domain->ni-1)) ;
337	SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0);
338	break;
339	}
340
341	if (domain->hasBounds)
342	{
343	SuperClassWriter::writeData(writtenBndsLon, bounds_lonid, isCollective, 0);
344	SuperClassWriter::writeData(writtenBndsLat, bounds_latid, isCollective, 0);
345	}
346	}
347
348	if (domain->hasArea)
349	{
350	SuperClassWriter::writeData(writtenArea, areaId, isCollective, 0);
351	}
352
353	SuperClassWriter::definition_start();
354
355	break;
356	}
357	case (ONE_FILE) :
358	{
359	SuperClassWriter::addDimension(dimXid, domain->ni_glo);
360	SuperClassWriter::addDimension(dimYid, domain->nj_glo);
361
362	if (domain->hasBounds)
363	SuperClassWriter::addDimension(dimVertId, domain->nvertex);
364
365	if (domain->hasLonLat)
366	{
367	switch (domain->type)
368	{
369	case CDomain::type_attr::curvilinear :
370	dim0.push_back(dimYid); dim0.push_back(dimXid);
371	lonid = lonName+appendDomid;
372	latid = latName+appendDomid;
373	SuperClassWriter::addVariable(latid, typePrec, dim0, compressionLevel);
374	SuperClassWriter::addVariable(lonid, typePrec, dim0, compressionLevel);
375	break;
376
377	case CDomain::type_attr::rectilinear :
378	dim0.push_back(dimYid);
379	dim1.push_back(dimXid);
380	lonid = lonName+appendDomid;
381	latid = latName+appendDomid;
382	SuperClassWriter::addVariable(latid, typePrec, dim0, compressionLevel);
383	SuperClassWriter::addVariable(lonid, typePrec, dim1, compressionLevel);
384	break;
385	}
386	if (!domain->bounds_lon_name.isEmpty()) bounds_lonid = domain->bounds_lon_name;
387	else bounds_lonid = "bounds_"+lonName+appendDomid;
388	if (!domain->bounds_lat_name.isEmpty()) bounds_latid = domain->bounds_lat_name;
389	else bounds_latid = "bounds_"+latName+appendDomid;
390
391	this->writeAxisAttributes
392	(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid);
393	this->writeAxisAttributes
394	(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid);
395
396	if (domain->hasBounds)
397	{
398	SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid);
399	SuperClassWriter::addAttribute("bounds", bounds_latid, &latid);
400
401	dim0.clear();
402	dim0.push_back(dimYid);
403	dim0.push_back(dimXid);
404	dim0.push_back(dimVertId);
405	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0, compressionLevel);
406	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0, compressionLevel);
407	}
408	}
409
410	if (domain->hasArea)
411	{
412	dim0.clear();
413	dim0.push_back(dimYid); dim0.push_back(dimXid);
414	SuperClassWriter::addVariable(areaId, typePrec, dim0, compressionLevel);
415	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
416	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
417	dim0.clear();
418	}
419
420	SuperClassWriter::definition_end();
421
422	switch (domain->type)
423	{
424	case CDomain::type_attr::curvilinear :
425	{
426	std::vector<StdSize> start(2) ;
427	std::vector<StdSize> count(2) ;
428	if (domain->isEmpty())
429	{
430	start[0]=0 ; start[1]=0 ;
431	count[0]=0 ; count[1]=0 ;
432	}
433	else
434	{
435	start[1]=domain->ibegin;
436	start[0]=domain->jbegin;
437	count[1]=domain->ni ; count[0]=domain->nj ;
438	}
439
440	if (domain->hasLonLat)
441	{
442	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0,&start,&count);
443	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0,&start,&count);
444	}
445	break;
446	}
447	case CDomain::type_attr::rectilinear :
448	{
449	if (domain->hasLonLat)
450	{
451	std::vector<StdSize> start(1) ;
452	std::vector<StdSize> count(1) ;
453	if (domain->isEmpty())
454	{
455	start[0]=0 ;
456	count[0]=0 ;
457	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0,&start,&count);
458	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0,&start,&count);
459	}
460	else
461	{
462	start[0]=domain->jbegin;
463	count[0]=domain->nj;
464	CArray<double,1> lat = writtenLat(Range(fromStart,toEnd,domain->ni));
465	SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0,&start,&count);
466
467	start[0]=domain->ibegin;
468	count[0]=domain->ni;
469	CArray<double,1> lon = writtenLon(Range(0,domain->ni-1));
470	SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0,&start,&count);
471	}
472	}
473	break;
474	}
475	}
476
477	if (domain->hasBounds)
478	{
479	std::vector<StdSize> start(3);
480	std::vector<StdSize> count(3);
481	if (domain->isEmpty())
482	{
483	start[2] = start[1] = start[0] = 0;
484	count[2] = count[1] = count[0] = 0;
485	}
486	else
487	{
488	start[2] = 0;
489	start[1] = domain->ibegin;
490	start[0] = domain->jbegin;
491	count[2] = domain->nvertex;
492	count[1] = domain->ni;
493	count[0] = domain->nj;
494	}
495
496	SuperClassWriter::writeData(writtenBndsLon, bounds_lonid, isCollective, 0, &start, &count);
497	SuperClassWriter::writeData(writtenBndsLat, bounds_latid, isCollective, 0, &start, &count);
498	}
499
500	if (domain->hasArea)
501	{
502	std::vector<StdSize> start(2);
503	std::vector<StdSize> count(2);
504
505	if (domain->isEmpty())
506	{
507	start[0] = 0; start[1] = 0;
508	count[0] = 0; count[1] = 0;
509	}
510	else
511	{
512	start[1] = domain->ibegin;
513	start[0] = domain->jbegin;
514	count[1] = domain->ni;
515	count[0] = domain->nj;
516	}
517
518	SuperClassWriter::writeData(writtenArea, areaId, isCollective, 0, &start, &count);
519	}
520
521	SuperClassWriter::definition_start();
522	break;
523	}
524	default :
525	ERROR("CNc4DataOutput::writeDomain(domain)",
526	<< "[ type = " << SuperClass::type << "]"
527	<< " not implemented yet !");
528	}
529	}
530	catch (CNetCdfException& e)
531	{
532	StdString msg("On writing the domain : ");
533	msg.append(domid); msg.append("\n");
534	msg.append("In the context : ");
535	msg.append(context->getId()); msg.append("\n");
536	msg.append(e.what());
537	ERROR("CNc4DataOutput::writeDomain_(CDomain* domain)", << msg);
538	}
539
540	domain->addRelFile(this->filename);
541	}
542
543	//--------------------------------------------------------------
544
545	void CNc4DataOutput::writeUnstructuredDomainUgrid(CDomain* domain)
546	{
547	CContext* context = CContext::getCurrent() ;
548	CContextServer* server=context->server ;
549
550	if (domain->IsWritten(this->filename)) return;
551
552	StdString domid = domain->getDomainOutputName();
553
554	// The first domain for the same mesh that will be written is that with the highest value of nvertex.
555	// Thus the entire mesh connectivity will be generated at once.
556	if (isWrittenDomain(domid)) return ;
557	else setWrittenDomain(domid);
558
559	domain->checkAttributes();
560	if (domain->isEmpty())
561	if (SuperClass::type==MULTI_FILE) return ;
562
563	nc_type typePrec ;
564	if (domain->prec.isEmpty()) typePrec = NC_FLOAT ;
565	else if (domain->prec==4) typePrec = NC_FLOAT ;
566	else if (domain->prec==8) typePrec = NC_DOUBLE ;
567
568	std::vector<StdString> dim0;
569	StdString domainName = domain->name;
570	domain->assignMesh(domainName, domain->nvertex);
571	domain->mesh->createMeshEpsilon(server->intraComm, domain->lonvalue, domain->latvalue, domain->bounds_lonvalue, domain->bounds_latvalue);
572
573	StdString node_x = domainName + "_node_x";
574	StdString node_y = domainName + "_node_y";
575
576	StdString edge_x = domainName + "_edge_x";
577	StdString edge_y = domainName + "_edge_y";
578	StdString edge_nodes = domainName + "_edge_nodes";
579
580	StdString face_x = domainName + "_face_x";
581	StdString face_y = domainName + "_face_y";
582	StdString face_nodes = domainName + "_face_nodes";
583	StdString face_edges = domainName + "_face_edges";
584	StdString edge_faces = domainName + "_edge_face_links";
585	StdString face_faces = domainName + "_face_links";
586
587	StdString dimNode = "n" + domainName + "_node";
588	StdString dimEdge = "n" + domainName + "_edge";
589	StdString dimFace = "n" + domainName + "_face";
590	StdString dimVertex = "n" + domainName + "_vertex";
591	StdString dimTwo = "Two";
592
593	if (!SuperClassWriter::dimExist(dimTwo)) SuperClassWriter::addDimension(dimTwo, 2);
594	dim0.clear();
595	SuperClassWriter::addVariable(domainName, NC_INT, dim0, compressionLevel);
596	SuperClassWriter::addAttribute("cf_role", StdString("mesh_topology"), &domainName);
597	SuperClassWriter::addAttribute("long_name", StdString("Topology data of 2D unstructured mesh"), &domainName);
598	SuperClassWriter::addAttribute("topology_dimension", 2, &domainName);
599	SuperClassWriter::addAttribute("node_coordinates", node_x + " " + node_y, &domainName);
600
601	try
602	{
603	switch (SuperClass::type)
604	{
605	case (ONE_FILE) :
606	{
607	// Adding nodes
608	if (domain->nvertex == 1)
609	{
610	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
611	{
612	SuperClassWriter::addDimension(dimNode, domain->ni_glo);
613	dim0.clear();
614	dim0.push_back(dimNode);
615	SuperClassWriter::addVariable(node_x, typePrec, dim0, compressionLevel);
616	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
617	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
618	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
619	SuperClassWriter::addVariable(node_y, typePrec, dim0, compressionLevel);
620	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
621	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
622	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
623	}
624	} // domain->nvertex == 1
625
626	// Adding edges and nodes, if nodes have not been defined previously
627	if (domain->nvertex == 2)
628	{
629	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
630	{
631	SuperClassWriter::addDimension(dimNode, domain->mesh->nbNodesGlo);
632	dim0.clear();
633	dim0.push_back(dimNode);
634	SuperClassWriter::addVariable(node_x, typePrec, dim0, compressionLevel);
635	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
636	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
637	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
638	SuperClassWriter::addVariable(node_y, typePrec, dim0, compressionLevel);
639	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
640	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
641	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
642	}
643	SuperClassWriter::addAttribute("edge_node_connectivity", edge_nodes, &domainName);
644	SuperClassWriter::addAttribute("edge_coordinates", edge_x + " " + edge_y, &domainName);
645	SuperClassWriter::addDimension(dimEdge, domain->ni_glo);
646	dim0.clear();
647	dim0.push_back(dimEdge);
648	SuperClassWriter::addVariable(edge_x, typePrec, dim0, compressionLevel);
649	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &edge_x);
650	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh edges."), &edge_x);
651	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &edge_x);
652	SuperClassWriter::addVariable(edge_y, typePrec, dim0, compressionLevel);
653	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &edge_y);
654	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh edges."), &edge_y);
655	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &edge_y);
656	dim0.clear();
657	dim0.push_back(dimEdge);
658	dim0.push_back(dimTwo);
659	SuperClassWriter::addVariable(edge_nodes, NC_INT, dim0, compressionLevel);
660	SuperClassWriter::addAttribute("cf_role", StdString("edge_node_connectivity"), &edge_nodes);
661	SuperClassWriter::addAttribute("long_name", StdString("Maps every edge/link to two nodes that it connects."), &edge_nodes);
662	SuperClassWriter::addAttribute("start_index", 0, &edge_nodes);
663	} // domain->nvertex == 2
664
665	// Adding faces, edges, and nodes, if edges and nodes have not been defined previously
666	if (domain->nvertex > 2)
667	{
668	// Nodes
669	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
670	{
671	SuperClassWriter::addDimension(dimNode, domain->mesh->nbNodesGlo);
672	dim0.clear();
673	dim0.push_back(dimNode);
674	SuperClassWriter::addVariable(node_x, typePrec, dim0, compressionLevel);
675	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
676	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
677	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
678	SuperClassWriter::addVariable(node_y, typePrec, dim0, compressionLevel);
679	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
680	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
681	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
682	}
683	if (!SuperClassWriter::varExist(edge_x) \|\| !SuperClassWriter::varExist(edge_y))
684	{
685	SuperClassWriter::addAttribute("edge_coordinates", edge_x + " " + edge_y, &domainName);
686	SuperClassWriter::addAttribute("edge_node_connectivity", edge_nodes, &domainName);
687	SuperClassWriter::addDimension(dimEdge, domain->mesh->nbEdgesGlo);
688	dim0.clear();
689	dim0.push_back(dimEdge);
690	SuperClassWriter::addVariable(edge_x, typePrec, dim0, compressionLevel);
691	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &edge_x);
692	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh edges."), &edge_x);
693	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &edge_x);
694	SuperClassWriter::addVariable(edge_y, typePrec, dim0, compressionLevel);
695	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &edge_y);
696	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh edges."), &edge_y);
697	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &edge_y);
698	dim0.clear();
699	dim0.push_back(dimEdge);
700	dim0.push_back(dimTwo);
701	SuperClassWriter::addVariable(edge_nodes, NC_INT, dim0, compressionLevel);
702	SuperClassWriter::addAttribute("cf_role", StdString("edge_node_connectivity"), &edge_nodes);
703	SuperClassWriter::addAttribute("long_name", StdString("Maps every edge/link to two nodes that it connects."), &edge_nodes);
704	SuperClassWriter::addAttribute("start_index", 0, &edge_nodes);
705	}
706	SuperClassWriter::addAttribute("face_coordinates", face_x + " " + face_y, &domainName);
707	SuperClassWriter::addAttribute("face_node_connectivity", face_nodes, &domainName);
708	SuperClassWriter::addDimension(dimFace, domain->ni_glo);
709	SuperClassWriter::addDimension(dimVertex, domain->nvertex);
710	dim0.clear();
711	dim0.push_back(dimFace);
712	SuperClassWriter::addVariable(face_x, typePrec, dim0, compressionLevel);
713	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &face_x);
714	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh faces."), &face_x);
715	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &face_x);
716	SuperClassWriter::addVariable(face_y, typePrec, dim0, compressionLevel);
717	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &face_y);
718	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh faces."), &face_y);
719	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &face_y);
720	dim0.clear();
721	dim0.push_back(dimFace);
722	dim0.push_back(dimVertex);
723	SuperClassWriter::addVariable(face_nodes, NC_INT, dim0, compressionLevel);
724	SuperClassWriter::addAttribute("cf_role", StdString("face_node_connectivity"), &face_nodes);
725	SuperClassWriter::addAttribute("long_name", StdString("Maps every face to its corner nodes."), &face_nodes);
726	SuperClassWriter::addAttribute("start_index", 0, &face_nodes);
727	dim0.clear();
728	dim0.push_back(dimFace);
729	dim0.push_back(dimVertex);
730	SuperClassWriter::addVariable(face_edges, NC_INT, dim0, compressionLevel);
731	SuperClassWriter::addAttribute("cf_role", StdString("face_edge_connectivity"), &face_edges);
732	SuperClassWriter::addAttribute("long_name", StdString("Maps every face to its edges."), &face_edges);
733	SuperClassWriter::addAttribute("start_index", 0, &face_edges);
734	SuperClassWriter::addAttribute("_FillValue", 999999, &face_edges);
735	dim0.clear();
736	dim0.push_back(dimEdge);
737	dim0.push_back(dimTwo);
738	SuperClassWriter::addVariable(edge_faces, NC_INT, dim0, compressionLevel);
739	SuperClassWriter::addAttribute("cf_role", StdString("edge_face connectivity"), &edge_faces);
740	SuperClassWriter::addAttribute("long_name", StdString("neighbor faces for edges"), &edge_faces);
741	SuperClassWriter::addAttribute("start_index", 0, &edge_faces);
742	SuperClassWriter::addAttribute("_FillValue", -999, &edge_faces);
743	SuperClassWriter::addAttribute("comment", StdString("missing neighbor faces are indicated using _FillValue"), &edge_faces);
744	dim0.clear();
745	dim0.push_back(dimFace);
746	dim0.push_back(dimVertex);
747	SuperClassWriter::addVariable(face_faces, NC_INT, dim0, compressionLevel);
748	SuperClassWriter::addAttribute("cf_role", StdString("face_face connectivity"), &face_faces);
749	SuperClassWriter::addAttribute("long_name", StdString("Indicates which other faces neighbor each face"), &face_faces);
750	SuperClassWriter::addAttribute("start_index", 0, &face_faces);
751	SuperClassWriter::addAttribute("_FillValue", 999999, &face_faces);
752	SuperClassWriter::addAttribute("flag_values", -1, &face_faces);
753	SuperClassWriter::addAttribute("flag_meanings", StdString("out_of_mesh"), &face_faces);
754	} // domain->nvertex > 2
755
756	SuperClassWriter::definition_end();
757
758	std::vector<StdSize> startEdges(1) ;
759	std::vector<StdSize> countEdges(1) ;
760	std::vector<StdSize> startNodes(1) ;
761	std::vector<StdSize> countNodes(1) ;
762	std::vector<StdSize> startFaces(1) ;
763	std::vector<StdSize> countFaces(1) ;
764	std::vector<StdSize> startEdgeNodes(2) ;
765	std::vector<StdSize> countEdgeNodes(2) ;
766	std::vector<StdSize> startEdgeFaces(2) ;
767	std::vector<StdSize> countEdgeFaces(2) ;
768	std::vector<StdSize> startFaceConctv(2) ;
769	std::vector<StdSize> countFaceConctv(2) ;
770
771	if (domain->nvertex == 1)
772	{
773	if (domain->isEmpty())
774	{
775	startNodes[0]=0 ;
776	countNodes[0]=0 ;
777	}
778	else
779	{
780	startNodes[0] = domain->ibegin;
781	countNodes[0] = domain->ni ;
782	}
783
784	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
785	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
786	}
787	else if (domain->nvertex == 2)
788	{
789	if (domain->isEmpty())
790	{
791	startEdges[0]=0 ;
792	countEdges[0]=0 ;
793	startNodes[0]=0 ;
794	countNodes[0]=0 ;
795	startEdgeNodes[0]=0;
796	startEdgeNodes[1]=0;
797	countEdgeNodes[0]=0;
798	countEdgeNodes[1]=0;
799
800	}
801	else
802	{
803	startEdges[0] = domain->ibegin;
804	countEdges[0] = domain->ni;
805	startNodes[0] = domain->mesh->node_start;
806	countNodes[0] = domain->mesh->node_count;
807	startEdgeNodes[0] = domain->ibegin;
808	startEdgeNodes[1] = 0;
809	countEdgeNodes[0] = domain->ni;
810	countEdgeNodes[1] = 2;
811	}
812	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
813	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
814	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
815	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
816	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
817	}
818	else
819	{
820	if (domain->isEmpty())
821	{
822	startFaces[0] = 0 ;
823	countFaces[0] = 0 ;
824	startNodes[0] = 0;
825	countNodes[0] = 0;
826	startEdges[0] = 0;
827	countEdges[0] = 0;
828	startEdgeFaces[0] = 0;
829	startEdgeFaces[1] = 0;
830	countEdgeFaces[0] = 0;
831	countEdgeFaces[1] = 0;
832	startFaceConctv[0] = 0;
833	startFaceConctv[1] = 0;
834	countFaceConctv[0] = 0;
835	countFaceConctv[1] = 0;
836	}
837	else
838	{
839	startFaces[0] = domain->ibegin;
840	countFaces[0] = domain->ni ;
841	startNodes[0] = domain->mesh->node_start;
842	countNodes[0] = domain->mesh->node_count;
843	startEdges[0] = domain->mesh->edge_start;
844	countEdges[0] = domain->mesh->edge_count;
845	startEdgeNodes[0] = domain->mesh->edge_start;
846	startEdgeNodes[1] = 0;
847	countEdgeNodes[0] = domain->mesh->edge_count;
848	countEdgeNodes[1]= 2;
849	startEdgeFaces[0] = domain->mesh->edge_start;
850	startEdgeFaces[1]= 0;
851	countEdgeFaces[0] = domain->mesh->edge_count;
852	countEdgeFaces[1]= 2;
853	startFaceConctv[0] = domain->ibegin;
854	startFaceConctv[1] = 0;
855	countFaceConctv[0] = domain->ni;
856	countFaceConctv[1] = domain->nvertex;
857	}
858	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
859	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
860	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
861	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
862	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
863	SuperClassWriter::writeData(domain->mesh->face_lat, face_y, isCollective, 0, &startFaces, &countFaces);
864	SuperClassWriter::writeData(domain->mesh->face_lon, face_x, isCollective, 0, &startFaces, &countFaces);
865	SuperClassWriter::writeData(domain->mesh->face_nodes, face_nodes, isCollective, 0, &startFaceConctv, &countFaceConctv);
866	SuperClassWriter::writeData(domain->mesh->face_edges, face_edges, isCollective, 0, &startFaceConctv, &countFaceConctv);
867	SuperClassWriter::writeData(domain->mesh->edge_faces, edge_faces, isCollective, 0, &startEdgeFaces, &countEdgeFaces);
868	SuperClassWriter::writeData(domain->mesh->face_faces, face_faces, isCollective, 0, &startFaceConctv, &countFaceConctv);
869	}
870	SuperClassWriter::definition_start();
871
872	break;
873	} // ONE_FILE
874
875	case (MULTI_FILE) :
876	{
877	break;
878	}
879
880	default :
881	ERROR("CNc4DataOutput::writeDomain(domain)",
882	<< "[ type = " << SuperClass::type << "]"
883	<< " not implemented yet !");
884	} // switch
885	} // try
886
887	catch (CNetCdfException& e)
888	{
889	StdString msg("On writing the domain : ");
890	msg.append(domid); msg.append("\n");
891	msg.append("In the context : ");
892	msg.append(context->getId()); msg.append("\n");
893	msg.append(e.what());
894	ERROR("CNc4DataOutput::writeUnstructuredDomainUgrid(CDomain* domain)", << msg);
895	}
896
897	domain->addRelFile(this->filename);
898	}
899
900	//--------------------------------------------------------------
901
902	void CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)
903	{
904	CContext* context = CContext::getCurrent() ;
905	CContextServer* server=context->server ;
906
907	if (domain->IsWritten(this->filename)) return;
908	domain->checkAttributes();
909
910	if (domain->isEmpty())
911	if (SuperClass::type==MULTI_FILE) return ;
912
913	std::vector<StdString> dim0, dim1;
914	StdString domid = domain->getDomainOutputName();
915	if (isWrittenDomain(domid)) return ;
916	else setWrittenDomain(domid);
917
918	StdString appendDomid = (singleDomain) ? "" : "_"+domid ;
919
920	StdString lonName,latName, cellName ;
921	if (domain->lon_name.isEmpty()) lonName = "lon";
922	else lonName = domain->lon_name;
923
924	if (domain->lat_name.isEmpty()) latName = "lat";
925	else latName = domain->lat_name;
926
927	if (!domain->dim_i_name.isEmpty()) cellName=domain->dim_i_name;
928	else cellName="cell";
929	StdString dimXid = cellName+appendDomid;
930	StdString dimVertId = StdString("nvertex").append(appendDomid);
931
932	string lonid,latid,bounds_lonid,bounds_latid ;
933	string areaId = "area" + appendDomid;
934
935	nc_type typePrec ;
936	if (domain->prec.isEmpty()) typePrec = NC_FLOAT ;
937	else if (domain->prec==4) typePrec = NC_FLOAT ;
938	else if (domain->prec==8) typePrec = NC_DOUBLE ;
939
940	int nvertex = (domain->nvertex.isEmpty()) ? 0 : domain->nvertex;
941
942	CArray<size_t, 1>& indexToWrite = domain->localIndexToWriteOnServer;
943	int nbWritten = indexToWrite.numElements();
944	CArray<double,1> writtenLat, writtenLon;
945	CArray<double,2> writtenBndsLat, writtenBndsLon;
946	CArray<double,1> writtenArea;
947
948	if (domain->hasLonLat)
949	{
950	writtenLat.resize(nbWritten);
951	writtenLon.resize(nbWritten);
952	for (int idx = 0; idx < nbWritten; ++idx)
953	{
954	if (idx < domain->latvalue.numElements())
955	{
956	writtenLat(idx) = domain->latvalue(indexToWrite(idx));
957	writtenLon(idx) = domain->lonvalue(indexToWrite(idx));
958	}
959	else
960	{
961	writtenLat(idx) = 0.;
962	writtenLon(idx) = 0.;
963	}
964	}
965	}
966
967	if (domain->hasBounds)
968	{
969	int nvertex = domain->nvertex, idx;
970	writtenBndsLat.resize(nvertex, nbWritten);
971	writtenBndsLon.resize(nvertex, nbWritten);
972	CArray<double,2>& boundslat = domain->bounds_latvalue;
973	CArray<double,2>& boundslon = domain->bounds_lonvalue;
974	for (idx = 0; idx < nbWritten; ++idx)
975	{
976	for (int nv = 0; nv < nvertex; ++nv)
977	{
978	if (idx < boundslat.columns())
979	{
980	writtenBndsLat(nv, idx) = boundslat(nv, int(indexToWrite(idx)));
981	writtenBndsLon(nv, idx) = boundslon(nv, int(indexToWrite(idx)));
982	}
983	else
984	{
985	writtenBndsLat(nv, idx) = 0.;
986	writtenBndsLon(nv, idx) = 0.;
987	}
988	}
989	}
990	}
991
992	if (domain->hasArea)
993	{
994	writtenArea.resize(nbWritten);
995	for (int idx = 0; idx < nbWritten; ++idx)
996	{
997	if (idx < domain->areavalue.numElements())
998	writtenArea(idx) = domain->areavalue(indexToWrite(idx));
999	else
1000	writtenArea(idx) = 0.;
1001	}
1002	}
1003
1004	try
1005	{
1006	switch (SuperClass::type)
1007	{
1008	case (MULTI_FILE) :
1009	{
1010	dim0.push_back(dimXid);
1011	SuperClassWriter::addDimension(dimXid, domain->ni);
1012
1013	lonid = lonName+appendDomid;
1014	latid = latName+appendDomid;
1015	if (!domain->bounds_lon_name.isEmpty()) bounds_lonid = domain->bounds_lon_name;
1016	else bounds_lonid = "bounds_"+lonName+appendDomid;
1017	if (!domain->bounds_lat_name.isEmpty()) bounds_latid = domain->bounds_lat_name;
1018	else bounds_latid = "bounds_"+latName+appendDomid;
1019
1020	if (domain->hasLonLat)
1021	{
1022	SuperClassWriter::addVariable(latid, typePrec, dim0, compressionLevel);
1023	SuperClassWriter::addVariable(lonid, typePrec, dim0, compressionLevel);
1024	this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid);
1025	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid);
1026	this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid);
1027	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid);
1028	if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, domain->nvertex);
1029	}
1030	dim0.clear();
1031	if (domain->hasBounds)
1032	{
1033	dim0.push_back(dimXid);
1034	dim0.push_back(dimVertId);
1035	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0, compressionLevel);
1036	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0, compressionLevel);
1037	}
1038
1039	dim0.clear();
1040	dim0.push_back(dimXid);
1041	if (domain->hasArea)
1042	{
1043	SuperClassWriter::addVariable(areaId, typePrec, dim0, compressionLevel);
1044	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
1045	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
1046	}
1047
1048	SuperClassWriter::definition_end();
1049
1050	if (domain->hasLonLat)
1051	{
1052	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0);
1053	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0);
1054	if (domain->hasBounds)
1055	{
1056	SuperClassWriter::writeData(writtenBndsLon, bounds_lonid, isCollective, 0);
1057	SuperClassWriter::writeData(writtenBndsLat, bounds_latid, isCollective, 0);
1058	}
1059	}
1060
1061	if (domain->hasArea)
1062	SuperClassWriter::writeData(writtenArea, areaId, isCollective, 0);
1063
1064	SuperClassWriter::definition_start();
1065	break ;
1066	}
1067
1068	case (ONE_FILE) :
1069	{
1070	lonid = lonName+appendDomid;
1071	latid = latName+appendDomid;
1072	if (!domain->bounds_lon_name.isEmpty()) bounds_lonid = domain->bounds_lon_name;
1073	else bounds_lonid = "bounds_"+lonName+appendDomid;
1074	if (!domain->bounds_lat_name.isEmpty()) bounds_latid = domain->bounds_lat_name;
1075	else bounds_latid = "bounds_"+latName+appendDomid;
1076
1077	dim0.push_back(dimXid);
1078	SuperClassWriter::addDimension(dimXid, domain->ni_glo);
1079	if (domain->hasLonLat)
1080	{
1081	SuperClassWriter::addVariable(latid, typePrec, dim0, compressionLevel);
1082	SuperClassWriter::addVariable(lonid, typePrec, dim0, compressionLevel);
1083
1084	this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid);
1085	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid);
1086	this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid);
1087	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid);
1088	if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, nvertex);
1089	}
1090	dim0.clear();
1091
1092	if (domain->hasBounds)
1093	{
1094	dim0.push_back(dimXid);
1095	dim0.push_back(dimVertId);
1096	SuperClassWriter::addVariable(bounds_lonid, typePrec, dim0, compressionLevel);
1097	SuperClassWriter::addVariable(bounds_latid, typePrec, dim0, compressionLevel);
1098	}
1099
1100	if (domain->hasArea)
1101	{
1102	dim0.clear();
1103	dim0.push_back(dimXid);
1104	SuperClassWriter::addVariable(areaId, typePrec, dim0, compressionLevel);
1105	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
1106	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
1107	}
1108
1109	SuperClassWriter::definition_end();
1110
1111	std::vector<StdSize> start(1), startBounds(2) ;
1112	std::vector<StdSize> count(1), countBounds(2) ;
1113	if (domain->isEmpty())
1114	{
1115	start[0]=0 ;
1116	count[0]=0 ;
1117	startBounds[1]=0 ;
1118	countBounds[1]=nvertex ;
1119	startBounds[0]=0 ;
1120	countBounds[0]=0 ;
1121	}
1122	else
1123	{
1124	start[0]=domain->ibegin;
1125	count[0]=domain->ni;
1126	startBounds[0]=domain->ibegin;
1127	startBounds[1]=0 ;
1128	countBounds[0]=domain->ni;
1129	countBounds[1]=nvertex ;
1130	}
1131
1132	if (domain->hasLonLat)
1133	{
1134	SuperClassWriter::writeData(writtenLat, latid, isCollective, 0,&start,&count);
1135	SuperClassWriter::writeData(writtenLon, lonid, isCollective, 0,&start,&count);
1136	if (domain->hasBounds)
1137	{
1138	SuperClassWriter::writeData(writtenBndsLon, bounds_lonid, isCollective, 0,&startBounds,&countBounds);
1139	SuperClassWriter::writeData(writtenBndsLat, bounds_latid, isCollective, 0,&startBounds,&countBounds);
1140	}
1141	}
1142
1143	if (domain->hasArea)
1144	SuperClassWriter::writeData(writtenArea, areaId, isCollective, 0, &start, &count);
1145
1146	SuperClassWriter::definition_start();
1147
1148	break;
1149	}
1150	default :
1151	ERROR("CNc4DataOutput::writeDomain(domain)",
1152	<< "[ type = " << SuperClass::type << "]"
1153	<< " not implemented yet !");
1154	}
1155	}
1156	catch (CNetCdfException& e)
1157	{
1158	StdString msg("On writing the domain : ");
1159	msg.append(domid); msg.append("\n");
1160	msg.append("In the context : ");
1161	msg.append(context->getId()); msg.append("\n");
1162	msg.append(e.what());
1163	ERROR("CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)", << msg);
1164	}
1165	domain->addRelFile(this->filename);
1166	}
1167	//--------------------------------------------------------------
1168
1169	void CNc4DataOutput::writeAxis_(CAxis* axis)
1170	{
1171	if (axis->IsWritten(this->filename)) return;
1172	axis->checkAttributes();
1173
1174	axis->computeWrittenIndex();
1175	axis->computeWrittenCompressedIndex(comm_file);
1176
1177	int size = (MULTI_FILE == SuperClass::type) ? axis->n.getValue()
1178	: axis->n_glo.getValue();
1179
1180	if ((0 == axis->n) && (MULTI_FILE == SuperClass::type)) return;
1181
1182	std::vector<StdString> dims;
1183	StdString axisid = axis->getAxisOutputName();
1184	StdString axisDim, axisBoundsId;
1185	if (isWrittenAxis(axisid)) return ;
1186	else setWrittenAxis(axisid);
1187
1188	nc_type typePrec ;
1189	if (axis->prec.isEmpty()) typePrec = NC_FLOAT ;
1190	else if (axis->prec==4) typePrec = NC_FLOAT ;
1191	else if (axis->prec==8) typePrec = NC_DOUBLE ;
1192
1193	if (!axis->label.isEmpty()) typePrec = NC_CHAR ;
1194	string strId="str_len" ;
1195	try
1196	{
1197	if (axis->dim_name.isEmpty()) axisDim = axisid;
1198	else axisDim=axis->dim_name.getValue();
1199	SuperClassWriter::addDimension(axisDim, size);
1200	dims.push_back(axisDim);
1201
1202	if (!axis->label.isEmpty() && !SuperClassWriter::dimExist(strId)) SuperClassWriter::addDimension(strId, stringArrayLen);
1203
1204	if (axis->hasValue \|\| !axis->label.isEmpty())
1205	{
1206	if (!axis->label.isEmpty()) dims.push_back(strId);
1207
1208	SuperClassWriter::addVariable(axisid, typePrec, dims, compressionLevel);
1209
1210	if (!axis->name.isEmpty())
1211	SuperClassWriter::addAttribute("name", axis->name.getValue(), &axisid);
1212
1213	if (!axis->standard_name.isEmpty())
1214	SuperClassWriter::addAttribute("standard_name", axis->standard_name.getValue(), &axisid);
1215
1216	if (!axis->long_name.isEmpty())
1217	SuperClassWriter::addAttribute("long_name", axis->long_name.getValue(), &axisid);
1218
1219	if (!axis->unit.isEmpty())
1220	SuperClassWriter::addAttribute("units", axis->unit.getValue(), &axisid);
1221
1222	if (!axis->axis_type.isEmpty())
1223	{
1224	switch(axis->axis_type)
1225	{
1226	case CAxis::axis_type_attr::X :
1227	SuperClassWriter::addAttribute("axis", string("X"), &axisid);
1228	break;
1229	case CAxis::axis_type_attr::Y :
1230	SuperClassWriter::addAttribute("axis", string("Y"), &axisid);
1231	break;
1232	case CAxis::axis_type_attr::Z :
1233	SuperClassWriter::addAttribute("axis", string("Z"), &axisid);
1234	break;
1235	case CAxis::axis_type_attr::T :
1236	SuperClassWriter::addAttribute("axis", string("T"), &axisid);
1237	break;
1238	}
1239	}
1240
1241	if (!axis->positive.isEmpty())
1242	{
1243	SuperClassWriter::addAttribute("positive",
1244	(axis->positive == CAxis::positive_attr::up) ? string("up") : string("down"),
1245	&axisid);
1246	}
1247
1248	if (!axis->formula.isEmpty())
1249	SuperClassWriter::addAttribute("formula", axis->formula.getValue(), &axisid);
1250
1251	if (!axis->formula_term.isEmpty())
1252	SuperClassWriter::addAttribute("formula_term", axis->formula_term.getValue(), &axisid);
1253
1254	axisBoundsId = (axis->bounds_name.isEmpty()) ? axisid + "_bounds" : axis->bounds_name;
1255	if (!axis->bounds.isEmpty() && axis->label.isEmpty())
1256	{
1257	dims.push_back("axis_nbounds");
1258	SuperClassWriter::addVariable(axisBoundsId, typePrec, dims, compressionLevel);
1259	SuperClassWriter::addAttribute("bounds", axisBoundsId, &axisid);
1260
1261	if (!axis->standard_name.isEmpty())
1262	SuperClassWriter::addAttribute("standard_name", axis->standard_name.getValue(), &axisBoundsId);
1263
1264	if (!axis->unit.isEmpty())
1265	SuperClassWriter::addAttribute("units", axis->unit.getValue(), &axisBoundsId);
1266
1267	if (!axis->formula_bounds.isEmpty())
1268	SuperClassWriter::addAttribute("formula", axis->formula_bounds.getValue(), &axisBoundsId);
1269
1270	if (!axis->formula_term_bounds.isEmpty())
1271	SuperClassWriter::addAttribute("formula_term", axis->formula_term_bounds.getValue(), &axisBoundsId);
1272	}
1273	}
1274
1275	SuperClassWriter::definition_end();
1276
1277	CArray<size_t, 1>& indexToWrite = axis->localIndexToWriteOnServer;
1278	int nbWritten = indexToWrite.numElements();
1279	CArray<double,1> axis_value(indexToWrite.numElements());
1280	if (!axis->value.isEmpty())
1281	{
1282	for (int i = 0; i < nbWritten; i++)
1283	{
1284	if (i < axis->value.numElements())
1285	axis_value(i) = axis->value(indexToWrite(i));
1286	else
1287	axis_value(i) = 0.;
1288	}
1289	}
1290	CArray<double,2> axis_bounds;
1291	CArray<string,1> axis_label;
1292	if (!axis->label.isEmpty())
1293	{
1294	axis_label.resize(indexToWrite.numElements());
1295	for (int i = 0; i < nbWritten; i++)
1296	{
1297	if (i < axis->label.numElements())
1298	axis_label(i) = axis->label(indexToWrite(i));
1299	else
1300	axis_label(i) = boost::lexical_cast<string>(0); // Write 0 as a label
1301	}
1302	}
1303
1304	switch (SuperClass::type)
1305	{
1306	case MULTI_FILE:
1307	{
1308	if (axis->label.isEmpty())
1309	{
1310	if (!axis->value.isEmpty())
1311	SuperClassWriter::writeData(axis_value, axisid, isCollective, 0);
1312
1313	if (!axis->bounds.isEmpty())
1314	{
1315	axis_bounds.resize(2, indexToWrite.numElements());
1316	for (int i = 0; i < nbWritten; ++i)
1317	{
1318	if (i < axis->bounds.columns())
1319	{
1320	axis_bounds(0, i) = axis->bounds(0, int(indexToWrite(i)));
1321	axis_bounds(1, i) = axis->bounds(1, int(indexToWrite(i)));
1322	}
1323	else
1324	{
1325	axis_bounds(0, i) = 0.;
1326	axis_bounds(1, i) = 0.;
1327
1328	}
1329	}
1330	SuperClassWriter::writeData(axis_bounds, axisBoundsId, isCollective, 0);
1331	}
1332	}
1333	else
1334	SuperClassWriter::writeData(axis_label, axisid, isCollective, 0);
1335
1336	SuperClassWriter::definition_start();
1337	break;
1338	}
1339	case ONE_FILE:
1340	{
1341	std::vector<StdSize> start(1), startBounds(2) ;
1342	std::vector<StdSize> count(1), countBounds(2) ;
1343	start[0] = startBounds[0] = axis->begin;
1344	count[0] = countBounds[0] = axis->n;
1345	startBounds[1] = 0;
1346	countBounds[1] = 2;
1347
1348	if (axis->label.isEmpty())
1349	{
1350	if (!axis->value.isEmpty())
1351	SuperClassWriter::writeData(axis_value, axisid, isCollective, 0, &start, &count);
1352
1353	if (!axis->bounds.isEmpty())
1354	{
1355	axis_bounds.resize(2, indexToWrite.numElements());
1356	for (int i = 0; i < nbWritten; ++i)
1357	{
1358	if (i < axis->bounds.columns())
1359	{
1360	axis_bounds(0, i) = axis->bounds(0, int(indexToWrite(i)));
1361	axis_bounds(1, i) = axis->bounds(1, int(indexToWrite(i)));
1362	}
1363	else
1364	{
1365	axis_bounds(0, i) = 0.;
1366	axis_bounds(1, i) = 0.;
1367	}
1368	}
1369	SuperClassWriter::writeData(axis_bounds, axisBoundsId, isCollective, 0, &startBounds, &countBounds);
1370	}
1371	}
1372	else
1373	{
1374	std::vector<StdSize> startLabel(2), countLabel(2);
1375	startLabel[0] = start[0]; startLabel[1] = 0;
1376	countLabel[0] = count[0]; countLabel[1] = stringArrayLen;
1377	SuperClassWriter::writeData(axis_label, axisid, isCollective, 0, &startLabel, &countLabel);
1378	}
1379
1380	SuperClassWriter::definition_start();
1381
1382	break;
1383	}
1384	default :
1385	ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)",
1386	<< "[ type = " << SuperClass::type << "]"
1387	<< " not implemented yet !");
1388	}
1389	}
1390	catch (CNetCdfException& e)
1391	{
1392	StdString msg("On writing the axis : ");
1393	msg.append(axisid); msg.append("\n");
1394	msg.append("In the context : ");
1395	CContext* context = CContext::getCurrent() ;
1396	msg.append(context->getId()); msg.append("\n");
1397	msg.append(e.what());
1398	ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)", << msg);
1399	}
1400	axis->addRelFile(this->filename);
1401	}
1402
1403	void CNc4DataOutput::writeScalar_(CScalar* scalar)
1404	{
1405	if (scalar->IsWritten(this->filename)) return;
1406	scalar->checkAttributes();
1407	int scalarSize = 1;
1408
1409	StdString scalaId = scalar->getScalarOutputName();
1410	StdString boundsId;
1411	if (isWrittenAxis(scalaId)) return ;
1412	else setWrittenAxis(scalaId);
1413
1414	nc_type typePrec ;
1415	if (scalar->prec.isEmpty()) typePrec = NC_FLOAT ;
1416	else if (scalar->prec==4) typePrec = NC_FLOAT ;
1417	else if (scalar->prec==8) typePrec = NC_DOUBLE ;
1418
1419	if (!scalar->label.isEmpty()) typePrec = NC_CHAR ;
1420	string strId="str_len" ;
1421
1422	try
1423	{
1424	if (!scalar->label.isEmpty() && !SuperClassWriter::dimExist(strId)) SuperClassWriter::addDimension(strId, stringArrayLen);
1425
1426	if (!scalar->value.isEmpty() \|\| !scalar->label.isEmpty())
1427	{
1428	std::vector<StdString> dims;
1429	StdString scalarDim = scalaId;
1430
1431	if (!scalar->label.isEmpty()) dims.push_back(strId);
1432
1433	SuperClassWriter::addVariable(scalaId, typePrec, dims);
1434
1435	if (!scalar->name.isEmpty())
1436	SuperClassWriter::addAttribute("name", scalar->name.getValue(), &scalaId);
1437
1438	if (!scalar->standard_name.isEmpty())
1439	SuperClassWriter::addAttribute("standard_name", scalar->standard_name.getValue(), &scalaId);
1440
1441	if (!scalar->long_name.isEmpty())
1442	SuperClassWriter::addAttribute("long_name", scalar->long_name.getValue(), &scalaId);
1443
1444	if (!scalar->unit.isEmpty())
1445	SuperClassWriter::addAttribute("units", scalar->unit.getValue(), &scalaId);
1446
1447	if (!scalar->axis_type.isEmpty())
1448	{
1449	switch(scalar->axis_type)
1450	{
1451	case CScalar::axis_type_attr::X :
1452	SuperClassWriter::addAttribute("axis", string("X"), &scalaId);
1453	break;
1454	case CScalar::axis_type_attr::Y :
1455	SuperClassWriter::addAttribute("axis", string("Y"), &scalaId);
1456	break;
1457	case CScalar::axis_type_attr::Z :
1458	SuperClassWriter::addAttribute("axis", string("Z"), &scalaId);
1459	break;
1460	case CScalar::axis_type_attr::T :
1461	SuperClassWriter::addAttribute("axis", string("T"), &scalaId);
1462	break;
1463	}
1464	}
1465
1466	if (!scalar->positive.isEmpty())
1467	{
1468	SuperClassWriter::addAttribute("positive",
1469	(scalar->positive == CScalar::positive_attr::up) ? string("up") : string("down"),
1470	&scalaId);
1471	}
1472
1473	if (!scalar->bounds.isEmpty() && scalar->label.isEmpty())
1474	{
1475	dims.clear();
1476	dims.push_back("axis_nbounds");
1477	boundsId = (scalar->bounds_name.isEmpty()) ? (scalaId + "_bounds") : scalar->bounds_name.getValue();
1478	SuperClassWriter::addVariable(boundsId, typePrec, dims);
1479	SuperClassWriter::addAttribute("bounds", boundsId, &scalaId);
1480	}
1481
1482	SuperClassWriter::definition_end();
1483
1484	switch (SuperClass::type)
1485	{
1486	case MULTI_FILE:
1487	{
1488	CArray<double,1> scalarValue(scalarSize);
1489	CArray<string,1> scalarLabel(scalarSize);
1490	CArray<double,1> scalarBounds(scalarSize*2);
1491
1492	if (!scalar->value.isEmpty() && scalar->label.isEmpty())
1493	{
1494	scalarValue(0) = scalar->value;
1495	SuperClassWriter::writeData(scalarValue, scalaId, isCollective, 0);
1496	}
1497
1498	if (!scalar->bounds.isEmpty() && scalar->label.isEmpty())
1499	{
1500	scalarBounds(0) = scalar->bounds(0);
1501	scalarBounds(1) = scalar->bounds(1);
1502	SuperClassWriter::writeData(scalarBounds, boundsId, isCollective, 0);
1503	}
1504
1505	if (!scalar->label.isEmpty())
1506	{
1507	scalarLabel(0) = scalar->label;
1508	SuperClassWriter::writeData(scalarLabel, scalaId, isCollective, 0);
1509	}
1510
1511	SuperClassWriter::definition_start();
1512
1513	break;
1514	}
1515	case ONE_FILE:
1516	{
1517	CArray<double,1> scalarValue(scalarSize);
1518	CArray<string,1> scalarLabel(scalarSize);
1519	CArray<double,1> scalarBounds(scalarSize*2);
1520
1521	std::vector<StdSize> start(1);
1522	std::vector<StdSize> count(1);
1523	start[0] = 0;
1524	count[0] = 1;
1525	if (!scalar->value.isEmpty() && scalar->label.isEmpty())
1526	{
1527	scalarValue(0) = scalar->value;
1528	SuperClassWriter::writeData(scalarValue, scalaId, isCollective, 0, &start, &count);
1529	}
1530	if (!scalar->bounds.isEmpty() && scalar->label.isEmpty())
1531	{
1532	scalarBounds(0) = scalar->bounds(0);
1533	scalarBounds(1) = scalar->bounds(1);
1534	count[0] = 2;
1535	SuperClassWriter::writeData(scalarBounds, boundsId, isCollective, 0, &start, &count);
1536	}
1537	if (!scalar->label.isEmpty())
1538	{
1539	scalarLabel(0) = scalar->label;
1540	count[0] = stringArrayLen;
1541	SuperClassWriter::writeData(scalarLabel, scalaId, isCollective, 0, &start, &count);
1542	}
1543
1544	SuperClassWriter::definition_start();
1545
1546	break;
1547	}
1548	default :
1549	ERROR("CNc4DataOutput::writeAxis_(CAxis* scalar)",
1550	<< "[ type = " << SuperClass::type << "]"
1551	<< " not implemented yet !");
1552	}
1553	}
1554	}
1555	catch (CNetCdfException& e)
1556	{
1557	StdString msg("On writing the scalar : ");
1558	msg.append(scalaId); msg.append("\n");
1559	msg.append("In the context : ");
1560	CContext* context = CContext::getCurrent() ;
1561	msg.append(context->getId()); msg.append("\n");
1562	msg.append(e.what());
1563	ERROR("CNc4DataOutput::writeScalar_(CScalar* scalar)", << msg);
1564	}
1565	scalar->addRelFile(this->filename);
1566	}
1567
1568	//--------------------------------------------------------------
1569
1570	void CNc4DataOutput::writeGridCompressed_(CGrid* grid)
1571	{
1572	if (grid->isScalarGrid() \|\| grid->isWrittenCompressed(this->filename)) return;
1573
1574	try
1575	{
1576	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
1577	std::vector<StdString> domainList = grid->getDomainList();
1578	std::vector<StdString> axisList = grid->getAxisList();
1579	std::vector<StdString> scalarList = grid->getScalarList();
1580	int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0, idxScalar = 0;
1581
1582	std::vector<StdString> dims;
1583
1584	if (grid->isCompressible())
1585	{
1586	StdString varId = grid->getId() + "_points";
1587
1588	int nbIndexes = (SuperClass::type == MULTI_FILE) ? grid->getNumberWrittenIndexes() : grid->getTotalNumberWrittenIndexes();
1589	SuperClassWriter::addDimension(varId, nbIndexes);
1590
1591	dims.push_back(varId);
1592	SuperClassWriter::addVariable(varId, NC_INT, dims);
1593
1594	StdOStringStream compress;
1595	for (int i = numElement - 1; i >= 0; --i)
1596	{
1597	if (2 == axisDomainOrder(i))
1598	{
1599	CDomain* domain = CDomain::get(domainList[domainList.size() - idxDomain - 1]);
1600	StdString domId = domain->getDomainOutputName();
1601	StdString appendDomId = singleDomain ? "" : "_" + domId;
1602
1603	switch (domain->type)
1604	{
1605	case CDomain::type_attr::curvilinear:
1606	compress << "y" << appendDomId << " x" << appendDomId;
1607	break;
1608	case CDomain::type_attr::rectilinear:
1609	compress << "lat" << appendDomId << " lon" << appendDomId;
1610	break;
1611	case CDomain::type_attr::unstructured:
1612	StdString cellName = (!domain->dim_i_name.isEmpty()) ? cellName=domain->dim_i_name : "cell";
1613	compress << cellName << appendDomId;
1614	// compress << "cell" << appendDomId;
1615	break;
1616	}
1617	++idxDomain;
1618	}
1619	else if (1 == axisDomainOrder(i))
1620	{
1621	CAxis* axis = CAxis::get(axisList[axisList.size() - idxAxis - 1]);
1622	compress << axis->getAxisOutputName();
1623	++idxAxis;
1624	}
1625	else
1626	{
1627	CScalar* scalar = CScalar::get(scalarList[scalarList.size() - idxScalar - 1]);
1628	compress << scalar->getScalarOutputName();
1629	++idxScalar;
1630	}
1631
1632	if (i != 0) compress << ' ';
1633	}
1634	SuperClassWriter::addAttribute("compress", compress.str(), &varId);
1635
1636	CArray<int, 1> indexes(grid->getNumberWrittenIndexes());
1637	indexes = grid->localIndexToWriteOnServer;
1638
1639	switch (SuperClass::type)
1640	{
1641	case (MULTI_FILE):
1642	{
1643	SuperClassWriter::writeData(indexes, varId, isCollective, 0);
1644	break;
1645	}
1646	case (ONE_FILE):
1647	{
1648	if (grid->doGridHaveDataDistributed())
1649	grid->getDistributionServer()->computeGlobalIndex(indexes);
1650
1651	std::vector<StdSize> start, count;
1652	start.push_back(grid->getOffsetWrittenIndexes());
1653	count.push_back(grid->getNumberWrittenIndexes());
1654
1655	SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count);
1656	break;
1657	}
1658	}
1659	}
1660	else
1661	{
1662	for (int i = 0; i < numElement; ++i)
1663	{
1664	StdString varId, compress;
1665	CArray<int, 1> indexes;
1666	bool isDistributed;
1667	StdSize nbIndexes, totalNbIndexes, offset;
1668	int firstGlobalIndex;
1669
1670	if (2 == axisDomainOrder(i))
1671	{
1672	CDomain* domain = CDomain::get(domainList[idxDomain]);
1673	StdString domId = domain->getDomainOutputName();
1674
1675	if (!domain->isCompressible()
1676	\|\| domain->type == CDomain::type_attr::unstructured
1677	\|\| domain->isWrittenCompressed(this->filename)
1678	\|\| isWrittenCompressedDomain(domId))
1679	continue;
1680
1681	StdString appendDomId = singleDomain ? "" : "_" + domId;
1682
1683	varId = domId + "_points";
1684	switch (domain->type)
1685	{
1686	case CDomain::type_attr::curvilinear:
1687	compress = "y" + appendDomId + " x" + appendDomId;
1688	break;
1689	case CDomain::type_attr::rectilinear:
1690	compress = "lat" + appendDomId + " lon" + appendDomId;
1691	break;
1692	}
1693
1694	// indexes.resize(domain->compressedIndexToWriteOnServer[comm_file].numElements());
1695	// indexes = domain->compressedIndexToWriteOnServer[com_file];
1696	indexes.resize(domain->getCompressedIndexToWriteOnServer(comm_file).numElements());
1697	indexes = domain->getCompressedIndexToWriteOnServer(comm_file);
1698
1699	isDistributed = domain->isDistributed();
1700	nbIndexes = domain->getNumberWrittenIndexes(comm_file);
1701	totalNbIndexes = domain->getTotalNumberWrittenIndexes(comm_file);
1702	offset = domain->getOffsetWrittenIndexes(comm_file);
1703	firstGlobalIndex = domain->ibegin + domain->jbegin * domain->ni_glo;
1704
1705	domain->addRelFileCompressed(this->filename);
1706	setWrittenCompressedDomain(domId);
1707	++idxDomain;
1708	}
1709	else if (1 == axisDomainOrder(i))
1710	{
1711	CAxis* axis = CAxis::get(axisList[idxAxis]);
1712	StdString axisId = axis->getAxisOutputName();
1713
1714	if (!axis->isCompressible()
1715	\|\| axis->isWrittenCompressed(this->filename)
1716	\|\| isWrittenCompressedAxis(axisId))
1717	continue;
1718
1719	varId = axisId + "_points";
1720	compress = axisId;
1721
1722	// indexes.resize(axis->compressedIndexToWriteOnServer.numElements());
1723	// indexes = axis->compressedIndexToWriteOnServer;
1724
1725	indexes.resize(axis->getCompressedIndexToWriteOnServer(comm_file).numElements());
1726	indexes = axis->getCompressedIndexToWriteOnServer(comm_file);
1727
1728	isDistributed = axis->isDistributed();
1729	nbIndexes = axis->getNumberWrittenIndexes(comm_file);
1730	totalNbIndexes = axis->getTotalNumberWrittenIndexes(comm_file);
1731	offset = axis->getOffsetWrittenIndexes(comm_file);
1732	firstGlobalIndex = axis->begin;
1733
1734	axis->addRelFileCompressed(this->filename);
1735	setWrittenCompressedAxis(axisId);
1736	++idxAxis;
1737	}
1738	else
1739	{
1740	}
1741
1742	if (!varId.empty())
1743	{
1744	SuperClassWriter::addDimension(varId, (SuperClass::type == MULTI_FILE) ? nbIndexes : totalNbIndexes);
1745
1746	dims.clear();
1747	dims.push_back(varId);
1748	SuperClassWriter::addVariable(varId, NC_INT, dims);
1749
1750	SuperClassWriter::addAttribute("compress", compress, &varId);
1751
1752	switch (SuperClass::type)
1753	{
1754	case (MULTI_FILE):
1755	{
1756	indexes -= firstGlobalIndex;
1757	SuperClassWriter::writeData(indexes, varId, isCollective, 0);
1758	break;
1759	}
1760	case (ONE_FILE):
1761	{
1762	std::vector<StdSize> start, count;
1763	start.push_back(offset);
1764	count.push_back(nbIndexes);
1765
1766	SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count);
1767	break;
1768	}
1769	}
1770	}
1771	}
1772	}
1773
1774	grid->addRelFileCompressed(this->filename);
1775	}
1776	catch (CNetCdfException& e)
1777	{
1778	StdString msg("On writing compressed grid : ");
1779	msg.append(grid->getId()); msg.append("\n");
1780	msg.append("In the context : ");
1781	CContext* context = CContext::getCurrent();
1782	msg.append(context->getId()); msg.append("\n");
1783	msg.append(e.what());
1784	ERROR("CNc4DataOutput::writeGridCompressed_(CGrid* grid)", << msg);
1785	}
1786	}
1787
1788	//--------------------------------------------------------------
1789
1790	void CNc4DataOutput::writeTimeDimension_(void)
1791	{
1792	try
1793	{
1794	SuperClassWriter::addDimension(getTimeCounterName());
1795	}
1796	catch (CNetCdfException& e)
1797	{
1798	StdString msg("On writing time dimension : time_couter\n");
1799	msg.append("In the context : ");
1800	CContext* context = CContext::getCurrent() ;
1801	msg.append(context->getId()); msg.append("\n");
1802	msg.append(e.what());
1803	ERROR("CNc4DataOutput::writeTimeDimension_(void)", << msg);
1804	}
1805	}
1806
1807	//--------------------------------------------------------------
1808
1809	void CNc4DataOutput::writeField_(CField* field)
1810	{
1811	CContext* context = CContext::getCurrent() ;
1812	CContextServer* server=context->server ;
1813
1814	std::vector<StdString> dims, coodinates;
1815	CGrid* grid = field->grid;
1816	if (!grid->doGridHaveDataToWrite())
1817	if (SuperClass::type==MULTI_FILE) return ;
1818
1819	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
1820	int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0, idxScalar = 0;
1821	std::vector<StdString> domainList = grid->getDomainList();
1822	std::vector<StdString> axisList = grid->getAxisList();
1823	std::vector<StdString> scalarList = grid->getScalarList();
1824
1825	StdString timeid = getTimeCounterName();
1826	StdString dimXid,dimYid;
1827	std::deque<StdString> dimIdList, dimCoordList;
1828	bool hasArea = false;
1829	StdString cellMeasures = "area:";
1830	bool compressedOutput = !field->indexed_output.isEmpty() && field->indexed_output;
1831
1832	for (int i = 0; i < numElement; ++i)
1833	{
1834	if (2 == axisDomainOrder(i))
1835	{
1836	CDomain* domain = CDomain::get(domainList[idxDomain]);
1837	StdString domId = domain->getDomainOutputName();
1838	StdString appendDomId = singleDomain ? "" : "_" + domId ;
1839	StdString lonName,latName ;
1840	StdString dimIname,dimJname ;
1841
1842	if (domain->lon_name.isEmpty())
1843	{
1844	if (domain->type==CDomain::type_attr::curvilinear) lonName = "nav_lon";
1845	else lonName = "lon";
1846	}
1847	else lonName = domain->lon_name;
1848
1849	if (domain->lat_name.isEmpty())
1850	{
1851	if (domain->type==CDomain::type_attr::curvilinear) latName = "nav_lat";
1852	else latName = "lat";
1853	}
1854	else latName = domain->lat_name;
1855
1856	if (domain->dim_i_name.isEmpty())
1857	{
1858	if (domain->type==CDomain::type_attr::curvilinear) dimIname = "x";
1859	else if (domain->type==CDomain::type_attr::unstructured) dimIname = "cell";
1860	else dimIname = lonName;
1861	}
1862	else dimIname = domain->dim_i_name;
1863
1864	if (domain->dim_j_name.isEmpty())
1865	{
1866	if (domain->type==CDomain::type_attr::curvilinear) dimJname = "y";
1867	else dimJname = latName;
1868	}
1869	else dimJname = domain->dim_j_name;
1870
1871	if (compressedOutput && domain->isCompressible() && domain->type != CDomain::type_attr::unstructured)
1872	{
1873	dimIdList.push_back(domId + "_points");
1874	field->setUseCompressedOutput();
1875	}
1876
1877	switch (domain->type)
1878	{
1879	case CDomain::type_attr::curvilinear:
1880	if (!compressedOutput \|\| !domain->isCompressible())
1881	{
1882	dimXid=dimIname+appendDomId;
1883	dimYid=dimJname+appendDomId;
1884	dimIdList.push_back(dimXid);
1885	dimIdList.push_back(dimYid);
1886	}
1887	dimCoordList.push_back(lonName+appendDomId);
1888	dimCoordList.push_back(latName+appendDomId);
1889	break ;
1890	case CDomain::type_attr::rectilinear:
1891	if (!compressedOutput \|\| !domain->isCompressible())
1892	{
1893	dimXid = dimIname+appendDomId;
1894	dimYid = dimJname+appendDomId;
1895	dimIdList.push_back(dimXid);
1896	dimIdList.push_back(dimYid);
1897	}
1898	if (lonName != dimIname) dimCoordList.push_back(lonName+appendDomId);
1899	if (latName != dimJname) dimCoordList.push_back(latName+appendDomId);
1900
1901	break ;
1902	case CDomain::type_attr::unstructured:
1903	{
1904	if (SuperClassWriter::useCFConvention)
1905	{
1906	dimXid = dimIname + appendDomId;
1907	dimIdList.push_back(dimXid);
1908	dimCoordList.push_back(lonName+appendDomId);
1909	dimCoordList.push_back(latName+appendDomId);
1910	}
1911	else
1912	{
1913	StdString domainName = domain->name;
1914	if (domain->nvertex == 1)
1915	{
1916	dimXid = "n" + domainName + "_node";
1917	dimIdList.push_back(dimXid);
1918	dimCoordList.push_back(StdString(domainName + "_node_x"));
1919	dimCoordList.push_back(StdString(domainName + "_node_y"));
1920	}
1921	else if (domain->nvertex == 2)
1922	{
1923	dimXid = "n" + domainName + "_edge";
1924	dimIdList.push_back(dimXid);
1925	dimCoordList.push_back(StdString(domainName + "_edge_x"));
1926	dimCoordList.push_back(StdString(domainName + "_edge_y"));
1927	}
1928	else
1929	{
1930	dimXid = "n" + domainName + "_face";
1931	dimIdList.push_back(dimXid);
1932	dimCoordList.push_back(StdString(domainName + "_face_x"));
1933	dimCoordList.push_back(StdString(domainName + "_face_y"));
1934	}
1935	} // ugrid convention
1936	} // case unstructured domain
1937	}
1938
1939	if (domain->hasArea)
1940	{
1941	hasArea = true;
1942	cellMeasures += " area" + appendDomId;
1943	}
1944	++idxDomain;
1945	}
1946	else if (1 == axisDomainOrder(i))
1947	{
1948	CAxis* axis = CAxis::get(axisList[idxAxis]);
1949	StdString axisId = axis->getAxisOutputName();
1950	StdString axisDim;
1951
1952	if (axis->dim_name.isEmpty()) axisDim = axisId;
1953	else axisDim=axis->dim_name.getValue();
1954
1955	if (compressedOutput && axis->isCompressible())
1956	{
1957	dimIdList.push_back(axisDim + "_points");
1958	field->setUseCompressedOutput();
1959	}
1960	else
1961	dimIdList.push_back(axisDim);
1962
1963	if (axisDim != axisId) dimCoordList.push_back(axisId);
1964	++idxAxis;
1965	}
1966	else
1967	{
1968	CScalar* scalar = CScalar::get(scalarList[idxScalar]);
1969	StdString scalarId = scalar->getScalarOutputName();
1970	if (!scalar->value.isEmpty() \|\| !scalar->label.isEmpty())
1971	dimCoordList.push_back(scalarId);
1972	++idxScalar;
1973	}
1974	}
1975
1976	StdString fieldid = field->getFieldOutputName();
1977
1978	nc_type type ;
1979	if (field->prec.isEmpty()) type = NC_FLOAT ;
1980	else
1981	{
1982	if (field->prec==2) type = NC_SHORT ;
1983	else if (field->prec==4) type = NC_FLOAT ;
1984	else if (field->prec==8) type = NC_DOUBLE ;
1985	}
1986
1987	bool wtime = !(!field->operation.isEmpty() && field->getOperationTimeType() == func::CFunctor::once);
1988
1989	if (wtime)
1990	{
1991	if (field->hasTimeInstant && hasTimeInstant) coodinates.push_back(string("time_instant"));
1992	else if (field->hasTimeCentered && hasTimeCentered) coodinates.push_back(string("time_centered"));
1993	dims.push_back(timeid);
1994	}
1995
1996	if (compressedOutput && grid->isCompressible())
1997	{
1998	dims.push_back(grid->getId() + "_points");
1999	field->setUseCompressedOutput();
2000	}
2001	else
2002	{
2003	while (!dimIdList.empty())
2004	{
2005	dims.push_back(dimIdList.back());
2006	dimIdList.pop_back();
2007	}
2008	}
2009
2010	while (!dimCoordList.empty())
2011	{
2012	coodinates.push_back(dimCoordList.back());
2013	dimCoordList.pop_back();
2014	}
2015
2016	try
2017	{
2018	SuperClassWriter::addVariable(fieldid, type, dims);
2019
2020	if (!field->standard_name.isEmpty())
2021	SuperClassWriter::addAttribute
2022	("standard_name", field->standard_name.getValue(), &fieldid);
2023
2024	if (!field->long_name.isEmpty())
2025	SuperClassWriter::addAttribute
2026	("long_name", field->long_name.getValue(), &fieldid);
2027
2028	if (!field->unit.isEmpty())
2029	SuperClassWriter::addAttribute
2030	("units", field->unit.getValue(), &fieldid);
2031
2032	// Ugrid field attributes "mesh" and "location"
2033	if (!SuperClassWriter::useCFConvention)
2034	{
2035	if (!domainList.empty())
2036	{
2037	CDomain* domain = CDomain::get(domainList[0]); // Suppose that we have only domain
2038	StdString mesh = domain->name;
2039	SuperClassWriter::addAttribute("mesh", mesh, &fieldid);
2040	StdString location;
2041	if (domain->nvertex == 1)
2042	location = "node";
2043	else if (domain->nvertex == 2)
2044	location = "edge";
2045	else if (domain->nvertex > 2)
2046	location = "face";
2047	SuperClassWriter::addAttribute("location", location, &fieldid);
2048	}
2049
2050	}
2051
2052	if (!field->valid_min.isEmpty())
2053	SuperClassWriter::addAttribute
2054	("valid_min", field->valid_min.getValue(), &fieldid);
2055
2056	if (!field->valid_max.isEmpty())
2057	SuperClassWriter::addAttribute
2058	("valid_max", field->valid_max.getValue(), &fieldid);
2059
2060	if (!field->scale_factor.isEmpty())
2061	SuperClassWriter::addAttribute
2062	("scale_factor", field->scale_factor.getValue(), &fieldid);
2063
2064	if (!field->add_offset.isEmpty())
2065	SuperClassWriter::addAttribute
2066	("add_offset", field->add_offset.getValue(), &fieldid);
2067
2068	SuperClassWriter::addAttribute
2069	("online_operation", field->operation.getValue(), &fieldid);
2070
2071	// write child variables as attributes
2072
2073
2074	bool alreadyAddCellMethod = false;
2075	StdString cellMethodsPrefix(""), cellMethodsSuffix("");
2076	if (!field->cell_methods.isEmpty())
2077	{
2078	StdString cellMethodString = field->cell_methods;
2079	if (field->cell_methods_mode.isEmpty() \|\|
2080	(CField::cell_methods_mode_attr::overwrite == field->cell_methods_mode))
2081	{
2082	SuperClassWriter::addAttribute("cell_methods", cellMethodString, &fieldid);
2083	alreadyAddCellMethod = true;
2084	}
2085	else
2086	{
2087	switch (field->cell_methods_mode)
2088	{
2089	case (CField::cell_methods_mode_attr::prefix):
2090	cellMethodsPrefix = cellMethodString;
2091	cellMethodsPrefix += " ";
2092	break;
2093	case (CField::cell_methods_mode_attr::suffix):
2094	cellMethodsSuffix = " ";
2095	cellMethodsSuffix += cellMethodString;
2096	break;
2097	case (CField::cell_methods_mode_attr::none):
2098	break;
2099	default:
2100	break;
2101	}
2102	}
2103	}
2104
2105
2106	if (wtime)
2107	{
2108	CDuration freqOp = field->freq_op.getValue();
2109	freqOp.solveTimeStep(*context->calendar);
2110	StdString freqOpStr = freqOp.toStringUDUnits();
2111	SuperClassWriter::addAttribute("interval_operation", freqOpStr, &fieldid);
2112
2113	CDuration freqOut = field->getRelFile()->output_freq.getValue();
2114	freqOut.solveTimeStep(*context->calendar);
2115	SuperClassWriter::addAttribute("interval_write", freqOut.toStringUDUnits(), &fieldid);
2116
2117	StdString cellMethods(cellMethodsPrefix + "time: ");
2118	if (field->operation.getValue() == "instant") cellMethods += "point";
2119	else if (field->operation.getValue() == "average") cellMethods += "mean";
2120	else if (field->operation.getValue() == "accumulate") cellMethods += "sum";
2121	else cellMethods += field->operation;
2122	if (freqOp.resolve(context->calendar) != freqOut.resolve(context->calendar))
2123	cellMethods += " (interval: " + freqOpStr + ")";
2124	cellMethods += cellMethodsSuffix;
2125	if (!alreadyAddCellMethod)
2126	SuperClassWriter::addAttribute("cell_methods", cellMethods, &fieldid);
2127	}
2128
2129	if (hasArea)
2130	SuperClassWriter::addAttribute("cell_measures", cellMeasures, &fieldid);
2131
2132	if (!field->default_value.isEmpty())
2133	{
2134	double default_value = field->default_value.getValue();
2135	if (type == NC_DOUBLE)
2136	{
2137	SuperClassWriter::setDefaultValue(fieldid, &default_value);
2138	}
2139	else if (type == NC_SHORT)
2140	{
2141	short sdefault_value = (short)default_value;
2142	SuperClassWriter::setDefaultValue(fieldid, &sdefault_value);
2143	}
2144	else
2145	{
2146	float fdefault_value = (float)default_value;
2147	SuperClassWriter::setDefaultValue(fieldid, &fdefault_value);
2148	}
2149	}
2150	else
2151	SuperClassWriter::setDefaultValue(fieldid, (double*)NULL);
2152
2153	if (field->compression_level.isEmpty())
2154	field->compression_level = field->file->compression_level.isEmpty() ? 0 : field->file->compression_level;
2155	SuperClassWriter::setCompressionLevel(fieldid, field->compression_level);
2156
2157	{ // Ecriture des coordonnes
2158
2159	StdString coordstr; //boost::algorithm::join(coodinates, " ")
2160	std::vector<StdString>::iterator
2161	itc = coodinates.begin(), endc = coodinates.end();
2162
2163	for (; itc!= endc; itc++)
2164	{
2165	StdString & coord = *itc;
2166	if (itc+1 != endc)
2167	coordstr.append(coord).append(" ");
2168	else coordstr.append(coord);
2169	}
2170
2171	SuperClassWriter::addAttribute("coordinates", coordstr, &fieldid);
2172
2173	}
2174
2175	vector<CVariable*> listVars = field->getAllVariables() ;
2176	for (vector<CVariable>::iterator it = listVars.begin() ;it != listVars.end(); it++) writeAttribute_(it, fieldid) ;
2177
2178	}
2179	catch (CNetCdfException& e)
2180	{
2181	StdString msg("On writing field : ");
2182	msg.append(fieldid); msg.append("\n");
2183	msg.append("In the context : ");
2184	msg.append(context->getId()); msg.append("\n");
2185	msg.append(e.what());
2186	ERROR("CNc4DataOutput::writeField_(CField* field)", << msg);
2187	}
2188	} // writeField_()
2189
2190	//--------------------------------------------------------------
2191
2192	void CNc4DataOutput::writeFile_ (CFile* file)
2193	{
2194	StdString filename = file->getFileOutputName();
2195	StdString description = (!file->description.isEmpty())
2196	? file->description.getValue()
2197	: StdString("Created by xios");
2198
2199	singleDomain = (file->nbDomains == 1);
2200
2201	StdString conv_str ;
2202	if (file->convention_str.isEmpty())
2203	{
2204	if (SuperClassWriter::useCFConvention) conv_str="CF-1.6" ;
2205	else conv_str="UGRID" ;
2206	}
2207	else conv_str=file->convention_str ;
2208
2209	try
2210	{
2211	if (!appendMode) this->writeFileAttributes(filename, description,
2212	conv_str,
2213	StdString("An IPSL model"),
2214	this->getTimeStamp());
2215
2216	if (!appendMode)
2217	SuperClassWriter::addDimension("axis_nbounds", 2);
2218	}
2219	catch (CNetCdfException& e)
2220	{
2221	StdString msg("On writing file : ");
2222	msg.append(filename); msg.append("\n");
2223	msg.append("In the context : ");
2224	CContext* context = CContext::getCurrent() ;
2225	msg.append(context->getId()); msg.append("\n");
2226	msg.append(e.what());
2227	ERROR("CNc4DataOutput::writeFile_ (CFile* file)", << msg);
2228	}
2229	}
2230
2231	void CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)
2232	{
2233	StdString name = var->getVariableOutputName();
2234
2235	try
2236	{
2237	if (var->type.getValue() == CVariable::type_attr::t_int \|\| var->type.getValue() == CVariable::type_attr::t_int32)
2238	addAttribute(name, var->getData<int>(), &fieldId);
2239	else if (var->type.getValue() == CVariable::type_attr::t_int16)
2240	addAttribute(name, var->getData<short int>(), &fieldId);
2241	else if (var->type.getValue() == CVariable::type_attr::t_float)
2242	addAttribute(name, var->getData<float>(), &fieldId);
2243	else if (var->type.getValue() == CVariable::type_attr::t_double)
2244	addAttribute(name, var->getData<double>(), &fieldId);
2245	else if (var->type.getValue() == CVariable::type_attr::t_string)
2246	addAttribute(name, var->getData<string>(), &fieldId);
2247	else
2248	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)",
2249	<< "Unsupported variable of type " << var->type.getStringValue());
2250	}
2251	catch (CNetCdfException& e)
2252	{
2253	StdString msg("On writing attributes of variable with name : ");
2254	msg.append(name); msg.append("in the field "); msg.append(fieldId); msg.append("\n");
2255	msg.append("In the context : ");
2256	CContext* context = CContext::getCurrent() ;
2257	msg.append(context->getId()); msg.append("\n");
2258	msg.append(e.what());
2259	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)", << msg);
2260	}
2261	}
2262
2263	void CNc4DataOutput::writeAttribute_ (CVariable* var)
2264	{
2265	StdString name = var->getVariableOutputName();
2266
2267	try
2268	{
2269	if (var->type.getValue() == CVariable::type_attr::t_int \|\| var->type.getValue() == CVariable::type_attr::t_int32)
2270	addAttribute(name, var->getData<int>());
2271	else if (var->type.getValue() == CVariable::type_attr::t_int16)
2272	addAttribute(name, var->getData<short int>());
2273	else if (var->type.getValue() == CVariable::type_attr::t_float)
2274	addAttribute(name, var->getData<float>());
2275	else if (var->type.getValue() == CVariable::type_attr::t_double)
2276	addAttribute(name, var->getData<double>());
2277	else if (var->type.getValue() == CVariable::type_attr::t_string)
2278	addAttribute(name, var->getData<string>());
2279	else
2280	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)",
2281	<< "Unsupported variable of type " << var->type.getStringValue());
2282	}
2283	catch (CNetCdfException& e)
2284	{
2285	StdString msg("On writing attributes of variable with name : ");
2286	msg.append(name); msg.append("\n");
2287	msg.append("In the context : ");
2288	CContext* context = CContext::getCurrent() ;
2289	msg.append(context->getId()); msg.append("\n");
2290	msg.append(e.what());
2291	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)", << msg);
2292	}
2293	}
2294
2295	void CNc4DataOutput::syncFile_ (void)
2296	{
2297	try
2298	{
2299	SuperClassWriter::sync() ;
2300	}
2301	catch (CNetCdfException& e)
2302	{
2303	StdString msg("On synchronizing the write among processes");
2304	msg.append("In the context : ");
2305	CContext* context = CContext::getCurrent() ;
2306	msg.append(context->getId()); msg.append("\n");
2307	msg.append(e.what());
2308	ERROR("CNc4DataOutput::syncFile_ (void)", << msg);
2309	}
2310	}
2311
2312	void CNc4DataOutput::closeFile_ (void)
2313	{
2314	try
2315	{
2316	SuperClassWriter::close() ;
2317	}
2318	catch (CNetCdfException& e)
2319	{
2320	StdString msg("On closing file");
2321	msg.append("In the context : ");
2322	CContext* context = CContext::getCurrent() ;
2323	msg.append(context->getId()); msg.append("\n");
2324	msg.append(e.what());
2325	ERROR("CNc4DataOutput::syncFile_ (void)", << msg);
2326	}
2327
2328	}
2329
2330	//---------------------------------------------------------------
2331
2332	StdString CNc4DataOutput::getTimeStamp(void) const
2333	{
2334	const int buffer_size = 100;
2335	time_t rawtime;
2336	struct tm * timeinfo = NULL;
2337	char buffer [buffer_size];
2338	StdString formatStr;
2339	if (file->time_stamp_format.isEmpty()) formatStr="%Y-%b-%d %H:%M:%S %Z" ;
2340	else formatStr=file->time_stamp_format;
2341
2342	// time ( &rawtime );
2343	// timeinfo = localtime ( &rawtime );
2344	time ( &rawtime );
2345	timeinfo = gmtime ( &rawtime );
2346	strftime (buffer, buffer_size, formatStr.c_str(), timeinfo);
2347
2348	return (StdString(buffer));
2349	}
2350
2351	//---------------------------------------------------------------
2352
2353	void CNc4DataOutput::writeFieldData_ (CField* field)
2354	{
2355	CContext* context = CContext::getCurrent();
2356	CContextServer* server = context->server;
2357	CGrid* grid = field->grid;
2358
2359	if (field->getNStep()<1)
2360	{
2361	return;
2362	}
2363
2364	if (!grid->doGridHaveDataToWrite())
2365	if (SuperClass::type == MULTI_FILE \|\| !isCollective)
2366	{
2367	return;
2368	}
2369
2370	StdString fieldid = field->getFieldOutputName();
2371
2372	StdOStringStream oss;
2373	string timeAxisId;
2374	if (field->hasTimeInstant) timeAxisId = "time_instant";
2375	else if (field->hasTimeCentered) timeAxisId = "time_centered";
2376
2377	StdString timeBoundId = getTimeCounterName() + "_bounds";
2378
2379	StdString timeAxisBoundId;
2380	if (field->hasTimeInstant) timeAxisBoundId = "time_instant_bounds";
2381	else if (field->hasTimeCentered) timeAxisBoundId = "time_centered_bounds";
2382
2383	if (!field->wasWritten())
2384	{
2385	if (appendMode && field->file->record_offset.isEmpty() &&
2386	field->getOperationTimeType() != func::CFunctor::once)
2387	{
2388	double factorUnit;
2389	if (!field->file->time_units.isEmpty() && field->file->time_units==CFile::time_units_attr::days)
2390	factorUnit=context->getCalendar()->getDayLengthInSeconds() ;
2391	else factorUnit=1 ;
2392	field->resetNStep(getRecordFromTime(field->last_Write_srv,factorUnit) + 1);
2393	}
2394
2395	field->setWritten();
2396	}
2397
2398
2399	CArray<double,1> time_data(1);
2400	CArray<double,1> time_data_bound(2);
2401	CArray<double,1> time_counter(1);
2402	CArray<double,1> time_counter_bound(2);
2403
2404	bool wtime = (field->getOperationTimeType() != func::CFunctor::once);
2405	bool wtimeCounter =false ;
2406	bool wtimeData =false ;
2407
2408
2409	if (wtime)
2410	{
2411	Time lastWrite = field->last_Write_srv;
2412	Time lastLastWrite = field->lastlast_Write_srv;
2413
2414
2415	if (field->hasTimeInstant)
2416	{
2417	time_data(0) = time_data_bound(1) = lastWrite;
2418	time_data_bound(0) = time_data_bound(1) = lastWrite;
2419	if (timeCounterType==instant)
2420	{
2421	time_counter(0) = time_data(0);
2422	time_counter_bound(0) = time_data_bound(0);
2423	time_counter_bound(1) = time_data_bound(1);
2424	wtimeCounter=true ;
2425	}
2426	if (hasTimeInstant) wtimeData=true ;
2427	}
2428	else if (field->hasTimeCentered)
2429	{
2430	time_data(0) = (lastWrite + lastLastWrite) / 2;
2431	time_data_bound(0) = lastLastWrite;
2432	time_data_bound(1) = lastWrite;
2433	if (timeCounterType==centered)
2434	{
2435	time_counter(0) = time_data(0) ;
2436	time_counter_bound(0) = time_data_bound(0) ;
2437	time_counter_bound(1) = time_data_bound(1) ;
2438	wtimeCounter=true ;
2439	}
2440	if (hasTimeCentered) wtimeData=true ;
2441	}
2442
2443	if (timeCounterType==record)
2444	{
2445	time_counter(0) = field->getNStep() - 1;
2446	time_counter_bound(0) = time_counter_bound(1) = field->getNStep() - 1;
2447	wtimeCounter=true ;
2448	}
2449
2450	if (!field->file->time_units.isEmpty() && field->file->time_units==CFile::time_units_attr::days)
2451	{
2452	double secByDay=context->getCalendar()->getDayLengthInSeconds() ;
2453	time_data/=secByDay;
2454	time_data_bound/=secByDay;
2455	time_counter/=secByDay;
2456	time_counter_bound/=secByDay;
2457	}
2458	}
2459
2460	bool isRoot = (server->intraCommRank == 0);
2461
2462	if (!field->scale_factor.isEmpty() \|\| !field->add_offset.isEmpty())
2463	{
2464	double scaleFactor = 1.0;
2465	double addOffset = 0.0;
2466	if (!field->scale_factor.isEmpty()) scaleFactor = field->scale_factor;
2467	if (!field->add_offset.isEmpty()) addOffset = field->add_offset;
2468	field->scaleFactorAddOffset(scaleFactor, addOffset);
2469	}
2470
2471	try
2472	{
2473	size_t writtenSize;
2474	if (field->getUseCompressedOutput())
2475	writtenSize = grid->getNumberWrittenIndexes();
2476	else
2477	writtenSize = grid->getWrittenDataSize();
2478
2479	CArray<double,1> fieldData(writtenSize);
2480	if (!field->default_value.isEmpty()) fieldData = field->default_value;
2481
2482	if (field->getUseCompressedOutput())
2483	field->outputCompressedField(fieldData);
2484	else
2485	field->outputField(fieldData);
2486
2487	if (!field->prec.isEmpty() && field->prec == 2) fieldData = round(fieldData);
2488
2489	switch (SuperClass::type)
2490	{
2491	case (MULTI_FILE) :
2492	{
2493	CTimer::get("Files : writing data").resume();
2494	SuperClassWriter::writeData(fieldData, fieldid, isCollective, field->getNStep() - 1);
2495	CTimer::get("Files : writing data").suspend();
2496	if (wtime)
2497	{
2498	CTimer::get("Files : writing time axis").resume();
2499	if ( wtimeData)
2500	{
2501	SuperClassWriter::writeTimeAxisData(time_data, timeAxisId, isCollective, field->getNStep() - 1, isRoot);
2502	SuperClassWriter::writeTimeAxisDataBounds(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1, isRoot);
2503	}
2504	if (wtimeCounter)
2505	{
2506	SuperClassWriter::writeTimeAxisData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1,isRoot);
2507	if (timeCounterType!=record) SuperClassWriter::writeTimeAxisDataBounds(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1, isRoot);
2508	}
2509	CTimer::get("Files : writing time axis").suspend();
2510	}
2511	break;
2512	}
2513	case (ONE_FILE) :
2514	{
2515
2516	std::vector<StdSize> start, count;
2517
2518	if (field->getUseCompressedOutput())
2519	{
2520	if (grid->isCompressible())
2521	{
2522	start.push_back(grid->getOffsetWrittenIndexes());
2523	count.push_back(grid->getNumberWrittenIndexes());
2524	}
2525	else
2526	{
2527	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
2528	std::vector<StdString> domainList = grid->getDomainList();
2529	std::vector<StdString> axisList = grid->getAxisList();
2530	int numElement = axisDomainOrder.numElements();
2531	int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1;
2532	int idx = domainList.size() * 2 + axisList.size() - 1;
2533
2534	start.reserve(idx+1);
2535	count.reserve(idx+1);
2536
2537	for (int i = numElement - 1; i >= 0; --i)
2538	{
2539	if (2 == axisDomainOrder(i))
2540	{
2541	CDomain* domain = CDomain::get(domainList[idxDomain]);
2542
2543	if (domain->isCompressible())
2544	{
2545	start.push_back(domain->getOffsetWrittenIndexes(comm_file));
2546	count.push_back(domain->getNumberWrittenIndexes(comm_file));
2547	idx -= 2;
2548	}
2549	else
2550	{
2551	if ((domain->type) != CDomain::type_attr::unstructured)
2552	{
2553	start.push_back(domain->jbegin);
2554	count.push_back(domain->nj);
2555	}
2556	--idx;
2557	start.push_back(domain->ibegin);
2558	count.push_back(domain->ni);
2559	--idx;
2560	}
2561	--idxDomain;
2562	}
2563	else if (1 == axisDomainOrder(i))
2564	{
2565	CAxis* axis = CAxis::get(axisList[idxAxis]);
2566
2567	if (axis->isCompressible())
2568	{
2569	start.push_back(axis->getOffsetWrittenIndexes(comm_file));
2570	count.push_back(axis->getNumberWrittenIndexes(comm_file));
2571	}
2572	else
2573	{
2574	start.push_back(axis->begin);
2575	count.push_back(axis->n);
2576	}
2577	--idxAxis;
2578	--idx;
2579	}
2580	}
2581	}
2582	}
2583	else
2584	{
2585	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
2586	std::vector<StdString> domainList = grid->getDomainList();
2587	std::vector<StdString> axisList = grid->getAxisList();
2588	int numElement = axisDomainOrder.numElements();
2589	int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1;
2590	int idx = domainList.size() * 2 + axisList.size() - 1;
2591
2592	start.reserve(idx+1);
2593	count.reserve(idx+1);
2594
2595	for (int i = numElement - 1; i >= 0; --i)
2596	{
2597	if (2 == axisDomainOrder(i))
2598	{
2599	CDomain* domain = CDomain::get(domainList[idxDomain]);
2600	if ((domain->type) != CDomain::type_attr::unstructured)
2601	{
2602	start.push_back(domain->jbegin);
2603	count.push_back(domain->nj);
2604	}
2605	--idx ;
2606
2607	start.push_back(domain->ibegin);
2608	count.push_back(domain->ni);
2609	--idx ;
2610	--idxDomain;
2611	}
2612	else if (1 == axisDomainOrder(i))
2613	{
2614	CAxis* axis = CAxis::get(axisList[idxAxis]);
2615	start.push_back(axis->begin);
2616	count.push_back(axis->n);
2617	--idx;
2618	--idxAxis;
2619	}
2620	else
2621	{
2622	if (1 == axisDomainOrder.numElements())
2623	{
2624	start.push_back(0);
2625	count.push_back(1);
2626	}
2627	--idx;
2628	}
2629	}
2630	}
2631
2632
2633	CTimer::get("Files : writing data").resume();
2634	SuperClassWriter::writeData(fieldData, fieldid, isCollective, field->getNStep() - 1, &start, &count);
2635	CTimer::get("Files : writing data").suspend();
2636
2637	if (wtime)
2638	{
2639	CTimer::get("Files : writing time axis").resume();
2640	if ( wtimeData)
2641	{
2642	SuperClassWriter::writeTimeAxisData(time_data, timeAxisId, isCollective, field->getNStep() - 1, isRoot);
2643	SuperClassWriter::writeTimeAxisDataBounds(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1, isRoot);
2644	}
2645	if (wtimeCounter)
2646	{
2647	SuperClassWriter::writeTimeAxisData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1,isRoot);
2648	if (timeCounterType!=record) SuperClassWriter::writeTimeAxisDataBounds(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1, isRoot);
2649
2650	}
2651	CTimer::get("Files : writing time axis").suspend();
2652	}
2653
2654	break;
2655	}
2656	}
2657	}
2658	catch (CNetCdfException& e)
2659	{
2660	StdString msg("On writing field data: ");
2661	msg.append(fieldid); msg.append("\n");
2662	msg.append("In the context : ");
2663	msg.append(context->getId()); msg.append("\n");
2664	msg.append(e.what());
2665	ERROR("CNc4DataOutput::writeFieldData_ (CField* field)", << msg);
2666	}
2667	}
2668
2669	//---------------------------------------------------------------
2670
2671	void CNc4DataOutput::writeTimeAxis_
2672	(CField* field,
2673	const std::shared_ptr<CCalendar> cal)
2674	{
2675	StdOStringStream oss;
2676	bool createInstantAxis=false ;
2677	bool createCenteredAxis=false ;
2678	bool createTimeCounterAxis=false ;
2679
2680	if (field->getOperationTimeType() == func::CFunctor::once) return ;
2681
2682
2683	StdString axisId ;
2684	StdString axisBoundId;
2685	StdString timeid(getTimeCounterName());
2686	StdString timeBoundId("axis_nbounds");
2687
2688	StdString strTimeUnits ;
2689	if (!field->file->time_units.isEmpty() && field->file->time_units==CFile::time_units_attr::days) strTimeUnits="days since " ;
2690	else strTimeUnits="seconds since " ;
2691
2692	if (field->getOperationTimeType() == func::CFunctor::instant) field->hasTimeInstant = true;
2693	if (field->getOperationTimeType() == func::CFunctor::centered) field->hasTimeCentered = true;
2694
2695
2696	if (field->file->time_counter.isEmpty())
2697	{
2698	if (timeCounterType==none) createTimeCounterAxis=true ;
2699	if (field->hasTimeCentered)
2700	{
2701	timeCounterType=centered ;
2702	if (!hasTimeCentered) createCenteredAxis=true ;
2703	}
2704	if (field->hasTimeInstant)
2705	{
2706	if (timeCounterType==none) timeCounterType=instant ;
2707	if (!hasTimeInstant) createInstantAxis=true ;
2708	}
2709	}
2710	else if (field->file->time_counter==CFile::time_counter_attr::instant)
2711	{
2712	if (field->hasTimeCentered)
2713	{
2714	if (!hasTimeCentered) createCenteredAxis=true ;
2715	}
2716	if (field->hasTimeInstant)
2717	{
2718	if (timeCounterType==none) createTimeCounterAxis=true ;
2719	timeCounterType=instant ;
2720	if (!hasTimeInstant) createInstantAxis=true ;
2721	}
2722	}
2723	else if (field->file->time_counter==CFile::time_counter_attr::centered)
2724	{
2725	if (field->hasTimeCentered)
2726	{
2727	if (timeCounterType==none) createTimeCounterAxis=true ;
2728	timeCounterType=centered ;
2729	if (!hasTimeCentered) createCenteredAxis=true ;
2730	}
2731	if (field->hasTimeInstant)
2732	{
2733	if (!hasTimeInstant) createInstantAxis=true ;
2734	}
2735	}
2736	else if (field->file->time_counter==CFile::time_counter_attr::instant_exclusive)
2737	{
2738	if (field->hasTimeCentered)
2739	{
2740	if (!hasTimeCentered) createCenteredAxis=true ;
2741	}
2742	if (field->hasTimeInstant)
2743	{
2744	if (timeCounterType==none) createTimeCounterAxis=true ;
2745	timeCounterType=instant ;
2746	}
2747	}
2748	else if (field->file->time_counter==CFile::time_counter_attr::centered_exclusive)
2749	{
2750	if (field->hasTimeCentered)
2751	{
2752	if (timeCounterType==none) createTimeCounterAxis=true ;
2753	timeCounterType=centered ;
2754	}
2755	if (field->hasTimeInstant)
2756	{
2757	if (!hasTimeInstant) createInstantAxis=true ;
2758	}
2759	}
2760	else if (field->file->time_counter==CFile::time_counter_attr::exclusive)
2761	{
2762	if (field->hasTimeCentered)
2763	{
2764	if (timeCounterType==none) createTimeCounterAxis=true ;
2765	if (timeCounterType==instant) createInstantAxis=true ;
2766	timeCounterType=centered ;
2767	}
2768	if (field->hasTimeInstant)
2769	{
2770	if (timeCounterType==none)
2771	{
2772	createTimeCounterAxis=true ;
2773	timeCounterType=instant ;
2774	}
2775	if (timeCounterType==centered)
2776	{
2777	if (!hasTimeInstant) createInstantAxis=true ;
2778	}
2779	}
2780	}
2781	else if (field->file->time_counter==CFile::time_counter_attr::none)
2782	{
2783	if (field->hasTimeCentered)
2784	{
2785	if (!hasTimeCentered) createCenteredAxis=true ;
2786	}
2787	if (field->hasTimeInstant)
2788	{
2789	if (!hasTimeInstant) createInstantAxis=true ;
2790	}
2791	}
2792	else if (field->file->time_counter==CFile::time_counter_attr::record)
2793	{
2794	if (timeCounterType==none) createTimeCounterAxis=true ;
2795	timeCounterType=record ;
2796	if (field->hasTimeCentered)
2797	{
2798	if (!hasTimeCentered) createCenteredAxis=true ;
2799	}
2800	if (field->hasTimeInstant)
2801	{
2802	if (!hasTimeInstant) createInstantAxis=true ;
2803	}
2804	}
2805
2806	if (createInstantAxis)
2807	{
2808	axisId="time_instant" ;
2809	axisBoundId="time_instant_bounds";
2810	hasTimeInstant=true ;
2811	}
2812
2813	if (createCenteredAxis)
2814	{
2815	axisId="time_centered" ;
2816	axisBoundId="time_centered_bounds";
2817	hasTimeCentered=true ;
2818	}
2819
2820
2821	try
2822	{
2823	std::vector<StdString> dims;
2824
2825	if (createInstantAxis \|\| createCenteredAxis)
2826	{
2827	// Adding time_instant or time_centered
2828	dims.push_back(timeid);
2829	if (!SuperClassWriter::varExist(axisId))
2830	{
2831	SuperClassWriter::addVariable(axisId, NC_DOUBLE, dims);
2832
2833	CDate timeOrigin=cal->getTimeOrigin() ;
2834	StdOStringStream oss2;
2835	StdString strInitdate=oss2.str() ;
2836	StdString strTimeOrigin=timeOrigin.toString() ;
2837	this->writeTimeAxisAttributes(axisId, cal->getType(),strTimeUnits+strTimeOrigin,
2838	strTimeOrigin, axisBoundId);
2839	}
2840
2841	// Adding time_instant_bounds or time_centered_bounds variables
2842	if (!SuperClassWriter::varExist(axisBoundId))
2843	{
2844	dims.clear() ;
2845	dims.push_back(timeid);
2846	dims.push_back(timeBoundId);
2847	SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims);
2848	}
2849	}
2850
2851	if (createTimeCounterAxis)
2852	{
2853	// Adding time_counter
2854	axisId = getTimeCounterName();
2855	axisBoundId = getTimeCounterName() + "_bounds";
2856	dims.clear();
2857	dims.push_back(timeid);
2858	if (!SuperClassWriter::varExist(axisId))
2859	{
2860	SuperClassWriter::addVariable(axisId, NC_DOUBLE, dims);
2861	SuperClassWriter::addAttribute("axis", string("T"), &axisId);
2862
2863	if (field->file->time_counter.isEmpty() \|\|
2864	(field->file->time_counter != CFile::time_counter_attr::record))
2865	{
2866	CDate timeOrigin = cal->getTimeOrigin();
2867	StdString strTimeOrigin = timeOrigin.toString();
2868
2869	this->writeTimeAxisAttributes(axisId, cal->getType(),
2870	strTimeUnits+strTimeOrigin,
2871	strTimeOrigin, axisBoundId);
2872	}
2873	}
2874
2875	// Adding time_counter_bound dimension
2876	if (field->file->time_counter.isEmpty() \|\| (field->file->time_counter != CFile::time_counter_attr::record))
2877	{
2878	if (!SuperClassWriter::varExist(axisBoundId))
2879	{
2880	dims.clear();
2881	dims.push_back(timeid);
2882	dims.push_back(timeBoundId);
2883	SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims);
2884	}
2885	}
2886	}
2887	}
2888	catch (CNetCdfException& e)
2889	{
2890	StdString msg("On writing time axis data: ");
2891	msg.append("In the context : ");
2892	CContext* context = CContext::getCurrent() ;
2893	msg.append(context->getId()); msg.append("\n");
2894	msg.append(e.what());
2895	ERROR("CNc4DataOutput::writeTimeAxis_ (CField* field, \
2896	const std::shared_ptr<CCalendar> cal)", << msg);
2897	}
2898	}
2899
2900	//---------------------------------------------------------------
2901
2902	void CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name,
2903	const StdString & calendar,
2904	const StdString & units,
2905	const StdString & time_origin,
2906	const StdString & time_bounds,
2907	const StdString & standard_name,
2908	const StdString & long_name)
2909	{
2910	try
2911	{
2912	SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name);
2913	SuperClassWriter::addAttribute("long_name", long_name , &axis_name);
2914	SuperClassWriter::addAttribute("calendar", calendar , &axis_name);
2915	SuperClassWriter::addAttribute("units", units , &axis_name);
2916	SuperClassWriter::addAttribute("time_origin", time_origin , &axis_name);
2917	SuperClassWriter::addAttribute("bounds", time_bounds , &axis_name);
2918	}
2919	catch (CNetCdfException& e)
2920	{
2921	StdString msg("On writing time axis Attribute: ");
2922	msg.append("In the context : ");
2923	CContext* context = CContext::getCurrent() ;
2924	msg.append(context->getId()); msg.append("\n");
2925	msg.append(e.what());
2926	ERROR("CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name, \
2927	const StdString & calendar,\
2928	const StdString & units, \
2929	const StdString & time_origin, \
2930	const StdString & time_bounds, \
2931	const StdString & standard_name, \
2932	const StdString & long_name)", << msg);
2933	}
2934	}
2935
2936	//---------------------------------------------------------------
2937
2938	void CNc4DataOutput::writeAxisAttributes(const StdString & axis_name,
2939	const StdString & axis,
2940	const StdString & standard_name,
2941	const StdString & long_name,
2942	const StdString & units,
2943	const StdString & nav_model)
2944	{
2945	try
2946	{
2947	if (!axis.empty())
2948	SuperClassWriter::addAttribute("axis" , axis , &axis_name);
2949
2950	SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name);
2951	SuperClassWriter::addAttribute("long_name" , long_name , &axis_name);
2952	SuperClassWriter::addAttribute("units" , units , &axis_name);
2953	// SuperClassWriter::addAttribute("nav_model" , nav_model , &axis_name);
2954	}
2955	catch (CNetCdfException& e)
2956	{
2957	StdString msg("On writing Axis Attribute: ");
2958	msg.append("In the context : ");
2959	CContext* context = CContext::getCurrent() ;
2960	msg.append(context->getId()); msg.append("\n");
2961	msg.append(e.what());
2962	ERROR("CNc4DataOutput::writeAxisAttributes(const StdString & axis_name, \
2963	const StdString & axis, \
2964	const StdString & standard_name, \
2965	const StdString & long_name, \
2966	const StdString & units, \
2967	const StdString & nav_model)", << msg);
2968	}
2969	}
2970
2971	//---------------------------------------------------------------
2972
2973	void CNc4DataOutput::writeLocalAttributes
2974	(int ibegin, int ni, int jbegin, int nj, StdString domid)
2975	{
2976	try
2977	{
2978	SuperClassWriter::addAttribute(StdString("ibegin").append(domid), ibegin);
2979	SuperClassWriter::addAttribute(StdString("ni" ).append(domid), ni);
2980	SuperClassWriter::addAttribute(StdString("jbegin").append(domid), jbegin);
2981	SuperClassWriter::addAttribute(StdString("nj" ).append(domid), nj);
2982	}
2983	catch (CNetCdfException& e)
2984	{
2985	StdString msg("On writing Local Attributes: ");
2986	msg.append("In the context : ");
2987	CContext* context = CContext::getCurrent() ;
2988	msg.append(context->getId()); msg.append("\n");
2989	msg.append(e.what());
2990	ERROR("CNc4DataOutput::writeLocalAttributes \
2991	(int ibegin, int ni, int jbegin, int nj, StdString domid)", << msg);
2992	}
2993
2994	}
2995
2996	void CNc4DataOutput::writeLocalAttributes_IOIPSL(const StdString& dimXid, const StdString& dimYid,
2997	int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)
2998	{
2999	CArray<int,1> array(2) ;
3000
3001	try
3002	{
3003	SuperClassWriter::addAttribute("DOMAIN_number_total",size ) ;
3004	SuperClassWriter::addAttribute("DOMAIN_number", rank) ;
3005	array = SuperClassWriter::getDimension(dimXid) + 1, SuperClassWriter::getDimension(dimYid) + 1;
3006	SuperClassWriter::addAttribute("DOMAIN_dimensions_ids",array) ;
3007	array=ni_glo,nj_glo ;
3008	SuperClassWriter::addAttribute("DOMAIN_size_global", array) ;
3009	array=ni,nj ;
3010	SuperClassWriter::addAttribute("DOMAIN_size_local", array) ;
3011	array=ibegin+1,jbegin+1 ;
3012	SuperClassWriter::addAttribute("DOMAIN_position_first", array) ;
3013	array=ibegin+ni-1+1,jbegin+nj-1+1 ;
3014	SuperClassWriter::addAttribute("DOMAIN_position_last",array) ;
3015	array=0,0 ;
3016	SuperClassWriter::addAttribute("DOMAIN_halo_size_start", array) ;
3017	SuperClassWriter::addAttribute("DOMAIN_halo_size_end", array);
3018	SuperClassWriter::addAttribute("DOMAIN_type",string("box")) ;
3019	/*
3020	SuperClassWriter::addAttribute("DOMAIN_DIM_N001",string("x")) ;
3021	SuperClassWriter::addAttribute("DOMAIN_DIM_N002",string("y")) ;
3022	SuperClassWriter::addAttribute("DOMAIN_DIM_N003",string("axis_A")) ;
3023	SuperClassWriter::addAttribute("DOMAIN_DIM_N004",string("time_counter")) ;
3024	*/
3025	}
3026	catch (CNetCdfException& e)
3027	{
3028	StdString msg("On writing Local Attributes IOIPSL \n");
3029	msg.append("In the context : ");
3030	CContext* context = CContext::getCurrent() ;
3031	msg.append(context->getId()); msg.append("\n");
3032	msg.append(e.what());
3033	ERROR("CNc4DataOutput::writeLocalAttributes_IOIPSL \
3034	(int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)", << msg);
3035	}
3036	}
3037	//---------------------------------------------------------------
3038
3039	void CNc4DataOutput:: writeFileAttributes(const StdString & name,
3040	const StdString & description,
3041	const StdString & conventions,
3042	const StdString & production,
3043	const StdString & timeStamp)
3044	{
3045	try
3046	{
3047	SuperClassWriter::addAttribute("name" , name);
3048	SuperClassWriter::addAttribute("description", description);
3049	SuperClassWriter::addAttribute("title" , description);
3050	SuperClassWriter::addAttribute("Conventions", conventions);
3051	// SuperClassWriter::addAttribute("production" , production);
3052
3053	StdString timeStampStr ;
3054	if (file->time_stamp_name.isEmpty()) timeStampStr="timeStamp" ;
3055	else timeStampStr=file->time_stamp_name ;
3056	SuperClassWriter::addAttribute(timeStampStr, timeStamp);
3057
3058	StdString uuidName ;
3059	if (file->uuid_name.isEmpty()) uuidName="uuid" ;
3060	else uuidName=file->uuid_name ;
3061
3062	if (file->uuid_format.isEmpty()) SuperClassWriter::addAttribute(uuidName, getUuidStr());
3063	else SuperClassWriter::addAttribute(uuidName, getUuidStr(file->uuid_format));
3064
3065	}
3066	catch (CNetCdfException& e)
3067	{
3068	StdString msg("On writing File Attributes \n ");
3069	msg.append("In the context : ");
3070	CContext* context = CContext::getCurrent() ;
3071	msg.append(context->getId()); msg.append("\n");
3072	msg.append(e.what());
3073	ERROR("CNc4DataOutput:: writeFileAttributes(const StdString & name, \
3074	const StdString & description, \
3075	const StdString & conventions, \
3076	const StdString & production, \
3077	const StdString & timeStamp)", << msg);
3078	}
3079	}
3080
3081	//---------------------------------------------------------------
3082
3083	void CNc4DataOutput::writeMaskAttributes(const StdString & mask_name,
3084	int data_dim,
3085	int data_ni,
3086	int data_nj,
3087	int data_ibegin,
3088	int data_jbegin)
3089	{
3090	try
3091	{
3092	SuperClassWriter::addAttribute("data_dim" , data_dim , &mask_name);
3093	SuperClassWriter::addAttribute("data_ni" , data_ni , &mask_name);
3094	SuperClassWriter::addAttribute("data_nj" , data_nj , &mask_name);
3095	SuperClassWriter::addAttribute("data_ibegin", data_ibegin, &mask_name);
3096	SuperClassWriter::addAttribute("data_jbegin", data_jbegin, &mask_name);
3097	}
3098	catch (CNetCdfException& e)
3099	{
3100	StdString msg("On writing Mask Attributes \n ");
3101	msg.append("In the context : ");
3102	CContext* context = CContext::getCurrent() ;
3103	msg.append(context->getId()); msg.append("\n");
3104	msg.append(e.what());
3105	ERROR("CNc4DataOutput::writeMaskAttributes(const StdString & mask_name, \
3106	int data_dim, \
3107	int data_ni, \
3108	int data_nj, \
3109	int data_ibegin, \
3110	int data_jbegin)", << msg);
3111	}
3112	}
3113
3114	///--------------------------------------------------------------
3115
3116	StdSize CNc4DataOutput::getRecordFromTime(Time time, double factorUnit)
3117	{
3118	std::map<Time, StdSize>::const_iterator it = timeToRecordCache.find(time);
3119	if (it == timeToRecordCache.end())
3120	{
3121	StdString timeAxisBoundsId(getTimeCounterName() + "_bounds");
3122	if (!SuperClassWriter::varExist(timeAxisBoundsId)) timeAxisBoundsId = "time_centered_bounds";
3123	if (!SuperClassWriter::varExist(timeAxisBoundsId)) timeAxisBoundsId = "time_instant_bounds";
3124
3125	CArray<double,2> timeAxisBounds;
3126	std::vector<StdSize> dimSize(SuperClassWriter::getDimensions(timeAxisBoundsId)) ;
3127
3128	StdSize record = 0;
3129	double dtime(time);
3130	for (int n = dimSize[0] - 1; n >= 0; n--)
3131	{
3132	SuperClassWriter::getTimeAxisBounds(timeAxisBounds, timeAxisBoundsId, isCollective, n);
3133	timeAxisBounds*=factorUnit ;
3134	if (timeAxisBounds(1, 0) < dtime)
3135	{
3136	record = n + 1;
3137	break;
3138	}
3139	}
3140	it = timeToRecordCache.insert(std::make_pair(time, record)).first;
3141	}
3142	return it->second;
3143	}
3144
3145	///--------------------------------------------------------------
3146
3147	bool CNc4DataOutput::isWrittenDomain(const std::string& domainName) const
3148	{
3149	return (this->writtenDomains.find(domainName) != this->writtenDomains.end());
3150	}
3151
3152	bool CNc4DataOutput::isWrittenCompressedDomain(const std::string& domainName) const
3153	{
3154	return (this->writtenCompressedDomains.find(domainName) != this->writtenCompressedDomains.end());
3155	}
3156
3157	bool CNc4DataOutput::isWrittenAxis(const std::string& axisName) const
3158	{
3159	return (this->writtenAxis.find(axisName) != this->writtenAxis.end());
3160	}
3161
3162	bool CNc4DataOutput::isWrittenCompressedAxis(const std::string& axisName) const
3163	{
3164	return (this->writtenCompressedAxis.find(axisName) != this->writtenCompressedAxis.end());
3165	}
3166
3167	bool CNc4DataOutput::isWrittenScalar(const std::string& scalarName) const
3168	{
3169	return (this->writtenScalar.find(scalarName) != this->writtenScalar.end());
3170	}
3171
3172	void CNc4DataOutput::setWrittenDomain(const std::string& domainName)
3173	{
3174	this->writtenDomains.insert(domainName);
3175	}
3176
3177	void CNc4DataOutput::setWrittenCompressedDomain(const std::string& domainName)
3178	{
3179	this->writtenCompressedDomains.insert(domainName);
3180	}
3181
3182	void CNc4DataOutput::setWrittenAxis(const std::string& axisName)
3183	{
3184	this->writtenAxis.insert(axisName);
3185	}
3186
3187	void CNc4DataOutput::setWrittenCompressedAxis(const std::string& axisName)
3188	{
3189	this->writtenCompressedAxis.insert(axisName);
3190	}
3191
3192	void CNc4DataOutput::setWrittenScalar(const std::string& scalarName)
3193	{
3194	this->writtenScalar.insert(scalarName);
3195	}
3196	} // namespace xios

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