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source: XIOS/dev/dev_ym/XIOS_COUPLING/src/io/nc4_data_output.cpp @ 1882

Last change on this file since 1882 was 1882, checked in by ymipsl, 4 years ago

Xios coupling branch
Refactor and simplify file writer filter management on server side.

YM

Property copyright set to
Software name : XIOS (Xml I/O Server)
http://forge.ipsl.jussieu.fr/ioserver
Creation date : January 2009
Licence : CeCCIL version2
see license file in root directory : Licence_CeCILL_V2-en.txt
or http://www.cecill.info/licences/Licence_CeCILL_V2-en.html
Holder : CEA/LSCE (Laboratoire des Sciences du CLimat et de l'Environnement)
CNRS/IPSL (Institut Pierre Simon Laplace)
Project Manager : Yann Meurdesoif
yann.meurdesoif@cea.fr
Property svn:executable set to *

File size: 131.6 KB

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

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