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nc4_data_output.cpp @ 924

Last change on this file since 924 was 924, checked in by oabramkina, 8 years ago

Parallel version of UGRID norms.

The following connectivity parameters have been implemented:

edge_nodes
face_nodes
face_edges
edge_faces
face_faces.

Test with a regular(structured) quadrilateral mesh (test_regular) has been added.

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: 110.9 KB

Line
1	#include "nc4_data_output.hpp"
2
3	#include <boost/lexical_cast.hpp>
4	#include "attribute_template.hpp"
5	#include "group_template.hpp"
6
7	#include "file.hpp"
8	#include "calendar.hpp"
9	#include "context.hpp"
10	#include "context_server.hpp"
11	#include "netCdfException.hpp"
12	#include "exception.hpp"
13
14	namespace xios
15	{
16	/// ////////////////////// Dfinitions ////////////////////// ///
17	CNc4DataOutput::CNc4DataOutput
18	(const StdString & filename, bool exist)
19	: SuperClass()
20	, SuperClassWriter(filename, exist)
21	, filename(filename)
22	{
23	SuperClass::type = MULTI_FILE;
24	}
25
26	CNc4DataOutput::CNc4DataOutput
27	(const StdString & filename, bool exist, bool useClassicFormat, bool useCFConvention,
28	MPI_Comm comm_file, bool multifile, bool isCollective, const StdString& timeCounterName)
29	: SuperClass()
30	, SuperClassWriter(filename, exist, useClassicFormat, useCFConvention, &comm_file, multifile, timeCounterName)
31	, comm_file(comm_file)
32	, filename(filename)
33	, isCollective(isCollective)
34	{
35	SuperClass::type = (multifile) ? MULTI_FILE : ONE_FILE;
36	}
37
38	CNc4DataOutput::~CNc4DataOutput(void)
39	{ /* Ne rien faire de plus */ }
40
41	///--------------------------------------------------------------
42
43	const StdString & CNc4DataOutput::getFileName(void) const
44	{
45	return (this->filename);
46	}
47
48	//---------------------------------------------------------------
49
50	void CNc4DataOutput::writeDomain_(CDomain* domain)
51	{
52	if (domain->type == CDomain::type_attr::unstructured)
53	{
54	if (SuperClassWriter::useCFConvention)
55	writeUnstructuredDomain(domain) ;
56	else
57	writeUnstructuredDomainUgrid(domain) ;
58	return ;
59	}
60
61	CContext* context = CContext::getCurrent() ;
62	CContextServer* server=context->server ;
63
64	if (domain->IsWritten(this->filename)) return;
65	domain->checkAttributes();
66
67	if (domain->isEmpty())
68	if (SuperClass::type==MULTI_FILE) return;
69
70	std::vector<StdString> dim0, dim1;
71	StdString domid = domain->getDomainOutputName();
72	StdString appendDomid = (singleDomain) ? "" : "_"+domid ;
73	if (isWrittenDomain(domid)) return ;
74	else setWrittenDomain(domid);
75
76
77	StdString dimXid, dimYid ;
78
79	bool isRegularDomain = (domain->type == CDomain::type_attr::rectilinear);
80	switch (domain->type)
81	{
82	case CDomain::type_attr::curvilinear :
83	dimXid = StdString("x").append(appendDomid);
84	dimYid = StdString("y").append(appendDomid);
85	break ;
86	case CDomain::type_attr::rectilinear :
87	dimXid = StdString("lon").append(appendDomid);
88	dimYid = StdString("lat").append(appendDomid);
89	break;
90	}
91
92	StdString dimVertId = StdString("nvertex").append(appendDomid);
93
94	string lonid,latid,bounds_lonid,bounds_latid ;
95	string areaId = "area" + appendDomid;
96	/*
97	StdString lonid_loc = (server->intraCommSize > 1)
98	? StdString("lon").append(appendDomid).append("_local")
99	: lonid;
100	StdString latid_loc = (server->intraCommSize > 1)
101	? StdString("lat").append(appendDomid).append("_local")
102	: latid;
103	*/
104
105	try
106	{
107	switch (SuperClass::type)
108	{
109	case (MULTI_FILE) :
110	{
111	// if (domain->isEmpty()) return;
112
113	if (server->intraCommSize > 1)
114	{
115	// SuperClassWriter::addDimension(lonid, domain->zoom_ni.getValue());
116	// SuperClassWriter::addDimension(latid, domain->zoom_nj.getValue());
117	}
118
119	switch (domain->type)
120	{
121	case CDomain::type_attr::curvilinear :
122	dim0.push_back(dimYid); dim0.push_back(dimXid);
123	lonid = StdString("nav_lon").append(appendDomid);
124	latid = StdString("nav_lat").append(appendDomid);
125	break ;
126	case CDomain::type_attr::rectilinear :
127	lonid = StdString("lon").append(appendDomid);
128	latid = StdString("lat").append(appendDomid);
129	dim0.push_back(dimYid);
130	dim1.push_back(dimXid);
131	break;
132	}
133
134	bounds_lonid = StdString("bounds_lon").append(appendDomid);
135	bounds_latid = StdString("bounds_lat").append(appendDomid);
136
137	SuperClassWriter::addDimension(dimXid, domain->zoom_ni_srv);
138	SuperClassWriter::addDimension(dimYid, domain->zoom_nj_srv);
139
140	if (domain->hasBounds)
141	SuperClassWriter::addDimension(dimVertId, domain->nvertex);
142
143	if (server->intraCommSize > 1)
144	{
145	this->writeLocalAttributes(domain->zoom_ibegin_srv,
146	domain->zoom_ni_srv,
147	domain->zoom_jbegin_srv,
148	domain->zoom_nj_srv,
149	appendDomid);
150
151	if (singleDomain)
152	this->writeLocalAttributes_IOIPSL(dimXid, dimYid,
153	domain->zoom_ibegin_srv,
154	domain->zoom_ni_srv,
155	domain->zoom_jbegin_srv,
156	domain->zoom_nj_srv,
157	domain->ni_glo,domain->nj_glo,
158	server->intraCommRank,server->intraCommSize);
159	}
160
161	if (domain->hasLonLat)
162	{
163	switch (domain->type)
164	{
165	case CDomain::type_attr::curvilinear :
166	SuperClassWriter::addVariable(latid, NC_FLOAT, dim0);
167	SuperClassWriter::addVariable(lonid, NC_FLOAT, dim0);
168	break ;
169	case CDomain::type_attr::rectilinear :
170	SuperClassWriter::addVariable(latid, NC_FLOAT, dim0);
171	SuperClassWriter::addVariable(lonid, NC_FLOAT, dim1);
172	break ;
173	}
174
175	this->writeAxisAttributes(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid);
176	this->writeAxisAttributes(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid);
177
178	if (domain->hasBounds)
179	{
180	SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid);
181	SuperClassWriter::addAttribute("bounds", bounds_latid, &latid);
182
183	dim0.clear();
184	dim0.push_back(dimYid);
185	dim0.push_back(dimXid);
186	dim0.push_back(dimVertId);
187	SuperClassWriter::addVariable(bounds_lonid, NC_FLOAT, dim0);
188	SuperClassWriter::addVariable(bounds_latid, NC_FLOAT, dim0);
189	}
190	}
191
192	dim0.clear();
193	dim0.push_back(dimYid);
194	dim0.push_back(dimXid);
195
196
197	// supress mask if (server->intraCommSize > 1)
198	// supress mask {
199	// supress mask SuperClassWriter::addVariable(maskid, NC_INT, dim0);
200	// supress mask
201	// supress mask this->writeMaskAttributes(maskid,
202	// supress mask domain->data_dim.getValue()/*,
203	// supress mask domain->data_ni.getValue(),
204	// supress mask domain->data_nj.getValue(),
205	// supress mask domain->data_ibegin.getValue(),
206	// supress mask domain->data_jbegin.getValue()*/);
207	// supress mask }
208
209	//SuperClassWriter::setDefaultValue(maskid, &dvm);
210
211	if (domain->hasArea)
212	{
213	SuperClassWriter::addVariable(areaId, NC_FLOAT, dim0);
214	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
215	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
216	}
217
218	SuperClassWriter::definition_end();
219
220	if (domain->hasLonLat)
221	{
222	switch (domain->type)
223	{
224	case CDomain::type_attr::curvilinear :
225	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0);
226	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0);
227	break;
228	case CDomain::type_attr::rectilinear :
229	CArray<double,1> lat = domain->latvalue_srv(Range(fromStart,toEnd,domain->zoom_ni_srv)) ;
230	SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0);
231	CArray<double,1> lon=domain->lonvalue_srv(Range(0,domain->zoom_ni_srv-1)) ;
232	SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0);
233	break;
234	}
235
236	if (domain->hasBounds)
237	{
238	SuperClassWriter::writeData(domain->bounds_lon_srv, bounds_lonid, isCollective, 0);
239	SuperClassWriter::writeData(domain->bounds_lat_srv, bounds_latid, isCollective, 0);
240	}
241	}
242
243	if (domain->hasArea)
244	SuperClassWriter::writeData(domain->area_srv, areaId, isCollective, 0);
245
246	SuperClassWriter::definition_start();
247
248	break;
249	}
250	case (ONE_FILE) :
251	{
252	SuperClassWriter::addDimension(dimXid, domain->global_zoom_ni);
253	SuperClassWriter::addDimension(dimYid, domain->global_zoom_nj);
254
255	if (domain->hasBounds)
256	SuperClassWriter::addDimension(dimVertId, domain->nvertex);
257
258	if (domain->hasLonLat)
259	{
260	switch (domain->type)
261	{
262	case CDomain::type_attr::curvilinear :
263	dim0.push_back(dimYid); dim0.push_back(dimXid);
264	lonid = StdString("nav_lon").append(appendDomid);
265	latid = StdString("nav_lat").append(appendDomid);
266	SuperClassWriter::addVariable(latid, NC_FLOAT, dim0);
267	SuperClassWriter::addVariable(lonid, NC_FLOAT, dim0);
268	break;
269
270	case CDomain::type_attr::rectilinear :
271	dim0.push_back(dimYid);
272	dim1.push_back(dimXid);
273	lonid = StdString("lon").append(appendDomid);
274	latid = StdString("lat").append(appendDomid);
275	SuperClassWriter::addVariable(latid, NC_FLOAT, dim0);
276	SuperClassWriter::addVariable(lonid, NC_FLOAT, dim1);
277	break;
278	}
279
280	bounds_lonid = StdString("bounds_lon").append(appendDomid);
281	bounds_latid = StdString("bounds_lat").append(appendDomid);
282
283	this->writeAxisAttributes
284	(lonid, isRegularDomain ? "X" : "", "longitude", "Longitude", "degrees_east", domid);
285	this->writeAxisAttributes
286	(latid, isRegularDomain ? "Y" : "", "latitude", "Latitude", "degrees_north", domid);
287
288	if (domain->hasBounds)
289	{
290	SuperClassWriter::addAttribute("bounds", bounds_lonid, &lonid);
291	SuperClassWriter::addAttribute("bounds", bounds_latid, &latid);
292
293	dim0.clear();
294	dim0.push_back(dimYid);
295	dim0.push_back(dimXid);
296	dim0.push_back(dimVertId);
297	SuperClassWriter::addVariable(bounds_lonid, NC_FLOAT, dim0);
298	SuperClassWriter::addVariable(bounds_latid, NC_FLOAT, dim0);
299	}
300	}
301
302	if (domain->hasArea)
303	{
304	dim0.clear();
305	dim0.push_back(dimYid); dim0.push_back(dimXid);
306	SuperClassWriter::addVariable(areaId, NC_FLOAT, dim0);
307	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
308	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
309	dim0.clear();
310	}
311
312	SuperClassWriter::definition_end();
313
314	switch (domain->type)
315	{
316	case CDomain::type_attr::curvilinear :
317	{
318	std::vector<StdSize> start(2) ;
319	std::vector<StdSize> count(2) ;
320	if (domain->isEmpty())
321	{
322	start[0]=0 ; start[1]=0 ;
323	count[0]=0 ; count[1]=0 ;
324	}
325	else
326	{
327	start[1]=domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
328	start[0]=domain->zoom_jbegin_srv-domain->global_zoom_jbegin;
329	count[1]=domain->zoom_ni_srv ; count[0]=domain->zoom_nj_srv ;
330	}
331
332	if (domain->hasLonLat)
333	{
334	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0,&start,&count);
335	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0,&start,&count);
336	}
337	break;
338	}
339	case CDomain::type_attr::rectilinear :
340	{
341	if (domain->hasLonLat)
342	{
343	std::vector<StdSize> start(1) ;
344	std::vector<StdSize> count(1) ;
345	if (domain->isEmpty())
346	{
347	start[0]=0 ;
348	count[0]=0 ;
349	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0,&start,&count);
350	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0,&start,&count);
351
352	}
353	else
354	{
355	start[0]=domain->zoom_jbegin_srv-domain->global_zoom_jbegin;
356	count[0]=domain->zoom_nj_srv ;
357	CArray<double,1> lat = domain->latvalue_srv(Range(fromStart,toEnd,domain->zoom_ni_srv)) ;
358	SuperClassWriter::writeData(CArray<double,1>(lat.copy()), latid, isCollective, 0,&start,&count);
359
360	start[0]=domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
361	count[0]=domain->zoom_ni_srv ;
362	CArray<double,1> lon=domain->lonvalue_srv(Range(0,domain->zoom_ni_srv-1)) ;
363	SuperClassWriter::writeData(CArray<double,1>(lon.copy()), lonid, isCollective, 0,&start,&count);
364	}
365	}
366	break;
367	}
368	}
369
370	if (domain->hasBounds)
371	{
372	std::vector<StdSize> start(3);
373	std::vector<StdSize> count(3);
374	if (domain->isEmpty())
375	{
376	start[2] = start[1] = start[0] = 0;
377	count[2] = count[1] = count[0] = 0;
378	}
379	else
380	{
381	start[2] = 0;
382	start[1] = domain->zoom_ibegin_srv - domain->global_zoom_ibegin;
383	start[0] = domain->zoom_jbegin_srv - domain->global_zoom_jbegin;
384	count[2] = domain->nvertex;
385	count[1] = domain->zoom_ni_srv;
386	count[0] = domain->zoom_nj_srv;
387	}
388
389	SuperClassWriter::writeData(domain->bounds_lon_srv, bounds_lonid, isCollective, 0, &start, &count);
390	SuperClassWriter::writeData(domain->bounds_lat_srv, bounds_latid, isCollective, 0, &start, &count);
391	}
392
393	if (domain->hasArea)
394	{
395	std::vector<StdSize> start(2);
396	std::vector<StdSize> count(2);
397
398	if (domain->isEmpty())
399	{
400	start[0] = 0; start[1] = 0;
401	count[0] = 0; count[1] = 0;
402	}
403	else
404	{
405	start[1] = domain->zoom_ibegin_srv - domain->global_zoom_ibegin;
406	start[0] = domain->zoom_jbegin_srv - domain->global_zoom_jbegin;
407	count[1] = domain->zoom_ni_srv;
408	count[0] = domain->zoom_nj_srv;
409	}
410
411	SuperClassWriter::writeData(domain->area_srv, areaId, isCollective, 0, &start, &count);
412	}
413
414	SuperClassWriter::definition_start();
415	break;
416	}
417	default :
418	ERROR("CNc4DataOutput::writeDomain(domain)",
419	<< "[ type = " << SuperClass::type << "]"
420	<< " not implemented yet !");
421	}
422	}
423	catch (CNetCdfException& e)
424	{
425	StdString msg("On writing the domain : ");
426	msg.append(domid); msg.append("\n");
427	msg.append("In the context : ");
428	msg.append(context->getId()); msg.append("\n");
429	msg.append(e.what());
430	ERROR("CNc4DataOutput::writeDomain_(CDomain* domain)", << msg);
431	}
432
433	domain->addRelFile(this->filename);
434	}
435
436	//--------------------------------------------------------------
437
438	void CNc4DataOutput::writeUnstructuredDomainUgrid(CDomain* domain)
439	{
440	CContext* context = CContext::getCurrent() ;
441	CContextServer* server=context->server ;
442
443	if (domain->IsWritten(this->filename)) return;
444	domain->checkAttributes();
445	if (domain->isEmpty())
446	if (SuperClass::type==MULTI_FILE) return ;
447
448	std::vector<StdString> dim0;
449	StdString domid = domain->getDomainOutputName();
450	StdString domainName = domain->name;
451	domain->assignMesh(domainName, domain->nvertex);
452	//domain->mesh->createMesh(domain->lonvalue_srv, domain->latvalue_srv, domain->bounds_lon_srv, domain->bounds_lat_srv);
453	domain->mesh->createMeshEpsilon(server->intraComm, domain->lonvalue_srv, domain->latvalue_srv, domain->bounds_lon_srv, domain->bounds_lat_srv);
454
455	StdString node_x = domainName + "_node_x";
456	StdString node_y = domainName + "_node_y";
457
458	StdString edge_x = domainName + "_edge_x";
459	StdString edge_y = domainName + "_edge_y";
460	StdString edge_nodes = domainName + "_edge_nodes";
461
462	StdString face_x = domainName + "_face_x";
463	StdString face_y = domainName + "_face_y";
464	StdString face_nodes = domainName + "_face_nodes";
465	StdString face_edges = domainName + "_face_edges";
466	StdString edge_faces = domainName + "_edge_face_links";
467	StdString face_faces = domainName + "_face_links";
468
469	StdString dimNode = "n" + domainName + "_node";
470	StdString dimEdge = "n" + domainName + "_edge";
471	StdString dimFace = "n" + domainName + "_face";
472	StdString dimVertex = "n" + domainName + "_vertex";
473	StdString dimTwo = "Two";
474
475	if (!SuperClassWriter::dimExist(dimTwo)) SuperClassWriter::addDimension(dimTwo, 2);
476	if (!isWrittenDomain(domid))
477	{
478	dim0.clear();
479	SuperClassWriter::addVariable(domainName, NC_INT, dim0);
480	SuperClassWriter::addAttribute("cf_role", StdString("mesh_topology"), &domainName);
481	SuperClassWriter::addAttribute("long_name", StdString("Topology data of 2D unstructured mesh"), &domainName);
482	SuperClassWriter::addAttribute("topology_dimension", 2, &domainName);
483	SuperClassWriter::addAttribute("node_coordinates", node_x + " " + node_y, &domainName);
484	}
485
486	try
487	{
488	switch (SuperClass::type)
489	{
490	case (ONE_FILE) :
491	{
492	// Adding nodes
493	if (domain->nvertex == 1)
494	{
495	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
496	{
497	SuperClassWriter::addDimension(dimNode, domain->ni_glo);
498	dim0.clear();
499	dim0.push_back(dimNode);
500	SuperClassWriter::addVariable(node_x, NC_FLOAT, dim0);
501	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
502	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
503	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
504	SuperClassWriter::addVariable(node_y, NC_FLOAT, dim0);
505	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
506	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
507	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
508	}
509	} // domain->nvertex == 1
510
511	// Adding edges and nodes, if nodes have not been defined previously
512	if (domain->nvertex == 2)
513	{
514	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
515	{
516	SuperClassWriter::addDimension(dimNode, domain->mesh->nbNodesGlo);
517	dim0.clear();
518	dim0.push_back(dimNode);
519	SuperClassWriter::addVariable(node_x, NC_FLOAT, dim0);
520	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
521	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
522	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
523	SuperClassWriter::addVariable(node_y, NC_FLOAT, dim0);
524	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
525	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
526	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
527	}
528	SuperClassWriter::addAttribute("edge_node_connectivity", edge_nodes, &domainName);
529	SuperClassWriter::addAttribute("edge_coordinates", edge_x + " " + edge_y, &domainName);
530	SuperClassWriter::addDimension(dimEdge, domain->ni_glo);
531	dim0.clear();
532	dim0.push_back(dimEdge);
533	SuperClassWriter::addVariable(edge_x, NC_FLOAT, dim0);
534	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &edge_x);
535	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh edges."), &edge_x);
536	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &edge_x);
537	SuperClassWriter::addVariable(edge_y, NC_FLOAT, dim0);
538	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &edge_y);
539	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh edges."), &edge_y);
540	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &edge_y);
541	dim0.clear();
542	dim0.push_back(dimEdge);
543	dim0.push_back(dimTwo);
544	SuperClassWriter::addVariable(edge_nodes, NC_INT, dim0);
545	SuperClassWriter::addAttribute("cf_role", StdString("edge_node_connectivity"), &edge_nodes);
546	SuperClassWriter::addAttribute("long_name", StdString("Maps every edge/link to two nodes that it connects."), &edge_nodes);
547	SuperClassWriter::addAttribute("start_index", 0, &edge_nodes);
548	} // domain->nvertex == 2
549
550	// Adding faces, edges, and nodes, if edges and nodes have not been defined previously
551	if (domain->nvertex > 2)
552	{
553	// Nodes
554	if (!SuperClassWriter::varExist(node_x) \|\| !SuperClassWriter::varExist(node_y))
555	{
556	SuperClassWriter::addDimension(dimNode, domain->mesh->nbNodesGlo);
557	dim0.clear();
558	dim0.push_back(dimNode);
559	SuperClassWriter::addVariable(node_x, NC_FLOAT, dim0);
560	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &node_x);
561	SuperClassWriter::addAttribute("long_name", StdString("Longitude of mesh nodes."), &node_x);
562	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &node_x);
563	SuperClassWriter::addVariable(node_y, NC_FLOAT, dim0);
564	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &node_y);
565	SuperClassWriter::addAttribute("long_name", StdString("Latitude of mesh nodes."), &node_y);
566	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &node_y);
567	}
568	if (!SuperClassWriter::varExist(edge_x) \|\| !SuperClassWriter::varExist(edge_y))
569	{
570	SuperClassWriter::addAttribute("edge_coordinates", edge_x + " " + edge_y, &domainName);
571	SuperClassWriter::addAttribute("edge_node_connectivity", edge_nodes, &domainName);
572	SuperClassWriter::addDimension(dimEdge, domain->mesh->nbEdgesGlo);
573	dim0.clear();
574	dim0.push_back(dimEdge);
575	SuperClassWriter::addVariable(edge_x, NC_FLOAT, dim0);
576	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &edge_x);
577	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh edges."), &edge_x);
578	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &edge_x);
579	SuperClassWriter::addVariable(edge_y, NC_FLOAT, dim0);
580	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &edge_y);
581	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh edges."), &edge_y);
582	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &edge_y);
583	dim0.clear();
584	dim0.push_back(dimEdge);
585	dim0.push_back(dimTwo);
586	SuperClassWriter::addVariable(edge_nodes, NC_INT, dim0);
587	SuperClassWriter::addAttribute("cf_role", StdString("edge_node_connectivity"), &edge_nodes);
588	SuperClassWriter::addAttribute("long_name", StdString("Maps every edge/link to two nodes that it connects."), &edge_nodes);
589	SuperClassWriter::addAttribute("start_index", 0, &edge_nodes);
590	}
591	SuperClassWriter::addAttribute("face_coordinates", face_x + " " + face_y, &domainName);
592	SuperClassWriter::addAttribute("face_node_connectivity", face_nodes, &domainName);
593	SuperClassWriter::addDimension(dimFace, domain->ni_glo);
594	SuperClassWriter::addDimension(dimVertex, domain->nvertex);
595	dim0.clear();
596	dim0.push_back(dimFace);
597	SuperClassWriter::addVariable(face_x, NC_FLOAT, dim0);
598	SuperClassWriter::addAttribute("standard_name", StdString("longitude"), &face_x);
599	SuperClassWriter::addAttribute("long_name", StdString("Characteristic longitude of mesh faces."), &face_x);
600	SuperClassWriter::addAttribute("units", StdString("degrees_east"), &face_x);
601	SuperClassWriter::addVariable(face_y, NC_FLOAT, dim0);
602	SuperClassWriter::addAttribute("standard_name", StdString("latitude"), &face_y);
603	SuperClassWriter::addAttribute("long_name", StdString("Characteristic latitude of mesh faces."), &face_y);
604	SuperClassWriter::addAttribute("units", StdString("degrees_north"), &face_y);
605	dim0.clear();
606	dim0.push_back(dimFace);
607	dim0.push_back(dimVertex);
608	SuperClassWriter::addVariable(face_nodes, NC_INT, dim0);
609	SuperClassWriter::addAttribute("cf_role", StdString("face_node_connectivity"), &face_nodes);
610	SuperClassWriter::addAttribute("long_name", StdString("Maps every face to its corner nodes."), &face_nodes);
611	SuperClassWriter::addAttribute("start_index", 0, &face_nodes);
612	dim0.clear();
613	dim0.push_back(dimFace);
614	dim0.push_back(dimVertex);
615	SuperClassWriter::addVariable(face_edges, NC_INT, dim0);
616	SuperClassWriter::addAttribute("cf_role", StdString("face_edge_connectivity"), &face_edges);
617	SuperClassWriter::addAttribute("long_name", StdString("Maps every face to its edges."), &face_edges);
618	SuperClassWriter::addAttribute("start_index", 0, &face_edges);
619	dim0.clear();
620	dim0.push_back(dimEdge);
621	dim0.push_back(dimTwo);
622	SuperClassWriter::addVariable(edge_faces, NC_INT, dim0);
623	SuperClassWriter::addAttribute("cf_role", StdString("edge_face connectivity"), &edge_faces);
624	SuperClassWriter::addAttribute("long_name", StdString("neighbor faces for edges"), &edge_faces);
625	SuperClassWriter::addAttribute("start_index", 0, &edge_faces);
626	SuperClassWriter::addAttribute("_FillValue", -999, &edge_faces);
627	SuperClassWriter::addAttribute("comment", StdString("missing neighbor faces are indicated using _FillValue"), &edge_faces);
628	dim0.clear();
629	dim0.push_back(dimFace);
630	dim0.push_back(dimVertex);
631	SuperClassWriter::addVariable(face_faces, NC_INT, dim0);
632	SuperClassWriter::addAttribute("cf_role", StdString("face_face connectivity"), &face_faces);
633	SuperClassWriter::addAttribute("long_name", StdString("Indicates which other faces neighbor each face"), &face_faces);
634	SuperClassWriter::addAttribute("start_index", 0, &face_faces);
635	SuperClassWriter::addAttribute("flag_values", -1, &face_faces);
636	SuperClassWriter::addAttribute("flag_meanings", StdString("out_of_mesh"), &face_faces);
637	} // domain->nvertex > 2
638
639	SuperClassWriter::definition_end();
640
641	std::vector<StdSize> startEdges(1) ;
642	std::vector<StdSize> countEdges(1) ;
643	std::vector<StdSize> startNodes(1) ;
644	std::vector<StdSize> countNodes(1) ;
645	std::vector<StdSize> startFaces(1) ;
646	std::vector<StdSize> countFaces(1) ;
647	std::vector<StdSize> startEdgeNodes(2) ;
648	std::vector<StdSize> countEdgeNodes(2) ;
649	std::vector<StdSize> startEdgeFaces(2) ;
650	std::vector<StdSize> countEdgeFaces(2) ;
651	std::vector<StdSize> startFaceConctv(2) ;
652	std::vector<StdSize> countFaceConctv(2) ;
653
654	if (!isWrittenDomain(domid))
655	{
656	if (domain->nvertex == 1)
657	{
658	if (domain->isEmpty())
659	{
660	startNodes[0]=0 ;
661	countNodes[0]=0 ;
662	}
663	else
664	{
665	startNodes[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
666	countNodes[0] = domain->zoom_ni_srv ;
667	}
668
669	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
670	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
671	}
672	else if (domain->nvertex == 2)
673	{
674	if (domain->isEmpty())
675	{
676	startEdges[0]=0 ;
677	countEdges[0]=0 ;
678	startNodes[0]=0 ;
679	countNodes[0]=0 ;
680	startEdgeNodes[0]=0;
681	startEdgeNodes[1]=0;
682	countEdgeNodes[0]=0;
683	countEdgeNodes[1]=0;
684
685	}
686	else
687	{
688	startEdges[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
689	countEdges[0] = domain->zoom_ni_srv ;
690	startNodes[0] = domain->mesh->node_start;
691	countNodes[0] = domain->mesh->node_count;
692	startEdgeNodes[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
693	startEdgeNodes[1] = 0;
694	countEdgeNodes[0] = domain->zoom_ni_srv;
695	countEdgeNodes[1]= 2;
696	}
697	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
698	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
699	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
700	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
701	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
702	}
703	else
704	{
705	if (domain->isEmpty())
706	{
707	startFaces[0] = 0 ;
708	countFaces[0] = 0 ;
709	startNodes[0] = 0;
710	countNodes[0] = 0;
711	startEdges[0] = 0;
712	countEdges[0] = 0;
713	startEdgeFaces[0] = 0;
714	startEdgeFaces[1] = 0;
715	countEdgeFaces[0] = 0;
716	countEdgeFaces[1] = 0;
717	startFaceConctv[0] = 0;
718	startFaceConctv[1] = 0;
719	countFaceConctv[0] = 0;
720	countFaceConctv[1] = 0;
721	}
722	else
723	{
724	startFaces[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
725	countFaces[0] = domain->zoom_ni_srv ;
726	startNodes[0] = domain->mesh->node_start;
727	countNodes[0] = domain->mesh->node_count;
728	startEdges[0] = domain->mesh->edge_start;
729	countEdges[0] = domain->mesh->edge_count;
730	startEdgeNodes[0] = domain->mesh->edge_start;
731	startEdgeNodes[1] = 0;
732	countEdgeNodes[0] = domain->mesh->edge_count;
733	countEdgeNodes[1]= 2;
734	startEdgeFaces[0] = domain->mesh->edge_start;
735	startEdgeFaces[1]= 0;
736	countEdgeFaces[0] = domain->mesh->edge_count;
737	countEdgeFaces[1]= 2;
738	startFaceConctv[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
739	startFaceConctv[1] = 0;
740	countFaceConctv[0] = domain->zoom_ni_srv;
741	countFaceConctv[1] = domain->nvertex;
742	}
743	SuperClassWriter::writeData(domain->mesh->node_lat, node_y, isCollective, 0, &startNodes, &countNodes);
744	SuperClassWriter::writeData(domain->mesh->node_lon, node_x, isCollective, 0, &startNodes, &countNodes);
745	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
746	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
747	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
748	SuperClassWriter::writeData(domain->mesh->face_lat, face_y, isCollective, 0, &startFaces, &countFaces);
749	SuperClassWriter::writeData(domain->mesh->face_lon, face_x, isCollective, 0, &startFaces, &countFaces);
750	SuperClassWriter::writeData(domain->mesh->face_nodes, face_nodes, isCollective, 0, &startFaceConctv, &countFaceConctv);
751	SuperClassWriter::writeData(domain->mesh->face_edges, face_edges, isCollective, 0, &startFaceConctv, &countFaceConctv);
752	SuperClassWriter::writeData(domain->mesh->edge_faces, edge_faces, isCollective, 0, &startEdgeFaces, &countEdgeFaces);
753	SuperClassWriter::writeData(domain->mesh->face_faces, face_faces, isCollective, 0, &startFaceConctv, &countFaceConctv);
754	}
755	setWrittenDomain(domid);
756	} // !isWrittenDomain
757	else
758	{
759	if (domain->nvertex == 2)
760	{
761	startEdges[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
762	countEdges[0] = domain->zoom_ni_srv ;
763	startEdgeNodes[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
764	startEdgeNodes[1] = 0;
765	countEdgeNodes[0] = domain->zoom_ni_srv;
766	countEdgeNodes[1]= 2;
767	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
768	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
769	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
770	}
771	if (domain->nvertex > 2)
772	{
773
774	if (!domain->mesh->edgesAreWritten)
775	{
776	startEdges[0] = domain->mesh->edge_start;
777	countEdges[0] = domain->mesh->edge_count;
778	startEdgeNodes[0] = domain->mesh->edge_start;
779	startEdgeNodes[1] = 0;
780	countEdgeNodes[0] = domain->mesh->edge_count;
781	countEdgeNodes[1]= 2;
782	SuperClassWriter::writeData(domain->mesh->edge_lat, edge_y, isCollective, 0, &startEdges, &countEdges);
783	SuperClassWriter::writeData(domain->mesh->edge_lon, edge_x, isCollective, 0, &startEdges, &countEdges);
784	SuperClassWriter::writeData(domain->mesh->edge_nodes, edge_nodes, isCollective, 0, &startEdgeNodes, &countEdgeNodes);
785	}
786	startFaces[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
787	countFaces[0] = domain->zoom_ni_srv;
788	startEdgeFaces[0] = domain->mesh->edge_start;
789	startEdgeFaces[1]= 0;
790	countEdgeFaces[0] = domain->mesh->edge_count;
791	countEdgeFaces[1]= 2;
792	startFaceConctv[0] = domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
793	startFaceConctv[1] = 0;
794	countFaceConctv[0] = domain->zoom_ni_srv;
795	countFaceConctv[1]= domain->nvertex;
796	SuperClassWriter::writeData(domain->mesh->face_lat, face_y, isCollective, 0, &startFaces, &countFaces);
797	SuperClassWriter::writeData(domain->mesh->face_lon, face_x, isCollective, 0, &startFaces, &countFaces);
798	SuperClassWriter::writeData(domain->mesh->face_nodes, face_nodes, isCollective, 0, &startFaceConctv, &countFaceConctv);
799	SuperClassWriter::writeData(domain->mesh->face_edges, face_edges, isCollective, 0, &startFaceConctv, &countFaceConctv);
800	SuperClassWriter::writeData(domain->mesh->edge_faces, edge_faces, isCollective, 0, &startEdgeFaces, &countEdgeFaces);
801	SuperClassWriter::writeData(domain->mesh->face_faces, face_faces, isCollective, 0, &startFaceConctv, &countFaceConctv);
802	}
803	}// isWrittenDomain
804
805	SuperClassWriter::definition_start();
806
807	break;
808	} // ONE_FILE
809
810	case (MULTI_FILE) :
811	{
812	break;
813	}
814
815	default :
816	ERROR("CNc4DataOutput::writeDomain(domain)",
817	<< "[ type = " << SuperClass::type << "]"
818	<< " not implemented yet !");
819	} // switch
820	} // try
821
822	catch (CNetCdfException& e)
823	{
824	StdString msg("On writing the domain : ");
825	msg.append(domid); msg.append("\n");
826	msg.append("In the context : ");
827	msg.append(context->getId()); msg.append("\n");
828	msg.append(e.what());
829	ERROR("CNc4DataOutput::writeUnstructuredDomainUgrid(CDomain* domain)", << msg);
830	}
831
832	domain->addRelFile(this->filename);
833	}
834
835	//--------------------------------------------------------------
836
837	void CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)
838	{
839	CContext* context = CContext::getCurrent() ;
840	CContextServer* server=context->server ;
841
842	if (domain->IsWritten(this->filename)) return;
843	domain->checkAttributes();
844
845	if (domain->isEmpty())
846	if (SuperClass::type==MULTI_FILE) return ;
847
848	std::vector<StdString> dim0, dim1;
849	StdString domid = domain->getDomainOutputName();
850	if (isWrittenDomain(domid)) return ;
851	else setWrittenDomain(domid);
852
853	StdString appendDomid = (singleDomain) ? "" : "_"+domid ;
854
855	StdString dimXid = StdString("cell").append(appendDomid);
856	StdString dimVertId = StdString("nvertex").append(appendDomid);
857
858	string lonid,latid,bounds_lonid,bounds_latid ;
859	string areaId = "area" + appendDomid;
860
861	try
862	{
863	switch (SuperClass::type)
864	{
865	case (MULTI_FILE) :
866	{
867	dim0.push_back(dimXid);
868	SuperClassWriter::addDimension(dimXid, domain->zoom_ni_srv);
869
870	lonid = StdString("lon").append(appendDomid);
871	latid = StdString("lat").append(appendDomid);
872	bounds_lonid = StdString("bounds_lon").append(appendDomid);
873	bounds_latid = StdString("bounds_lat").append(appendDomid);
874	if (domain->hasLonLat)
875	{
876	SuperClassWriter::addVariable(latid, NC_FLOAT, dim0);
877	SuperClassWriter::addVariable(lonid, NC_FLOAT, dim0);
878	this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid);
879	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid);
880	this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid);
881	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid);
882	if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, domain->nvertex);
883	}
884	dim0.clear();
885	if (domain->hasBounds)
886	{
887	dim0.push_back(dimXid);
888	dim0.push_back(dimVertId);
889	SuperClassWriter::addVariable(bounds_lonid, NC_FLOAT, dim0);
890	SuperClassWriter::addVariable(bounds_latid, NC_FLOAT, dim0);
891	}
892
893	dim0.clear();
894	dim0.push_back(dimXid);
895	if (domain->hasArea)
896	{
897	SuperClassWriter::addVariable(areaId, NC_FLOAT, dim0);
898	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
899	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
900	}
901
902	SuperClassWriter::definition_end();
903
904	if (domain->hasLonLat)
905	{
906	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0);
907	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0);
908	if (domain->hasBounds)
909	{
910	SuperClassWriter::writeData(domain->bounds_lon_srv, bounds_lonid, isCollective, 0);
911	SuperClassWriter::writeData(domain->bounds_lat_srv, bounds_latid, isCollective, 0);
912	}
913	}
914
915	if (domain->hasArea)
916	SuperClassWriter::writeData(domain->area_srv, areaId, isCollective, 0);
917
918	SuperClassWriter::definition_start();
919	break ;
920	}
921
922	case (ONE_FILE) :
923	{
924	lonid = StdString("lon").append(appendDomid);
925	latid = StdString("lat").append(appendDomid);
926	bounds_lonid = StdString("bounds_lon").append(appendDomid);
927	bounds_latid = StdString("bounds_lat").append(appendDomid);
928	dim0.push_back(dimXid);
929	SuperClassWriter::addDimension(dimXid, domain->ni_glo);
930	if (domain->hasLonLat)
931	{
932	SuperClassWriter::addVariable(latid, NC_FLOAT, dim0);
933	SuperClassWriter::addVariable(lonid, NC_FLOAT, dim0);
934
935	this->writeAxisAttributes(lonid, "", "longitude", "Longitude", "degrees_east", domid);
936	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_lonid, &lonid);
937	this->writeAxisAttributes(latid, "", "latitude", "Latitude", "degrees_north", domid);
938	if (domain->hasBounds) SuperClassWriter::addAttribute("bounds",bounds_latid, &latid);
939	if (domain->hasBounds) SuperClassWriter::addDimension(dimVertId, domain->nvertex);
940	}
941	dim0.clear();
942
943	if (domain->hasBounds)
944	{
945	dim0.push_back(dimXid);
946	dim0.push_back(dimVertId);
947	SuperClassWriter::addVariable(bounds_lonid, NC_FLOAT, dim0);
948	SuperClassWriter::addVariable(bounds_latid, NC_FLOAT, dim0);
949	}
950
951	if (domain->hasArea)
952	{
953	dim0.clear();
954	dim0.push_back(dimXid);
955	SuperClassWriter::addVariable(areaId, NC_FLOAT, dim0);
956	SuperClassWriter::addAttribute("standard_name", StdString("cell_area"), &areaId);
957	SuperClassWriter::addAttribute("units", StdString("m2"), &areaId);
958	}
959
960	SuperClassWriter::definition_end();
961
962	std::vector<StdSize> start(1), startBounds(2) ;
963	std::vector<StdSize> count(1), countBounds(2) ;
964	if (domain->isEmpty())
965	{
966	start[0]=0 ;
967	count[0]=0 ;
968	startBounds[1]=0 ;
969	countBounds[1]=domain->nvertex ;
970	startBounds[0]=0 ;
971	countBounds[0]=0 ;
972	}
973	else
974	{
975	start[0]=domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
976	count[0]=domain->zoom_ni_srv ;
977	startBounds[0]=domain->zoom_ibegin_srv-domain->global_zoom_ibegin;
978	startBounds[1]=0 ;
979	countBounds[0]=domain->zoom_ni_srv ;
980	countBounds[1]=domain->nvertex ;
981	}
982
983	if (domain->hasLonLat)
984	{
985	SuperClassWriter::writeData(domain->latvalue_srv, latid, isCollective, 0,&start,&count);
986	SuperClassWriter::writeData(domain->lonvalue_srv, lonid, isCollective, 0,&start,&count);
987	if (domain->hasBounds)
988	{
989	SuperClassWriter::writeData(domain->bounds_lon_srv, bounds_lonid, isCollective, 0,&startBounds,&countBounds);
990	SuperClassWriter::writeData(domain->bounds_lat_srv, bounds_latid, isCollective, 0,&startBounds,&countBounds);
991	}
992	}
993
994	if (domain->hasArea)
995	SuperClassWriter::writeData(domain->area_srv, areaId, isCollective, 0, &start, &count);
996
997	SuperClassWriter::definition_start();
998
999	break;
1000	}
1001	default :
1002	ERROR("CNc4DataOutput::writeDomain(domain)",
1003	<< "[ type = " << SuperClass::type << "]"
1004	<< " not implemented yet !");
1005	}
1006	}
1007	catch (CNetCdfException& e)
1008	{
1009	StdString msg("On writing the domain : ");
1010	msg.append(domid); msg.append("\n");
1011	msg.append("In the context : ");
1012	msg.append(context->getId()); msg.append("\n");
1013	msg.append(e.what());
1014	ERROR("CNc4DataOutput::writeUnstructuredDomain(CDomain* domain)", << msg);
1015	}
1016	domain->addRelFile(this->filename);
1017	}
1018	//--------------------------------------------------------------
1019
1020	void CNc4DataOutput::writeAxis_(CAxis* axis)
1021	{
1022	if (axis->IsWritten(this->filename)) return;
1023	axis->checkAttributes();
1024	int zoom_size_srv = axis->zoom_size_srv;
1025	int zoom_begin_srv = axis->zoom_begin_srv;
1026	int zoom_size = (MULTI_FILE == SuperClass::type) ? zoom_size_srv
1027	: axis->global_zoom_n;
1028	int zoom_begin = (MULTI_FILE == SuperClass::type) ? zoom_begin_srv
1029	: axis->global_zoom_begin;
1030
1031	if ((0 == zoom_size_srv) && (MULTI_FILE == SuperClass::type)) return;
1032
1033	std::vector<StdString> dims;
1034	StdString axisid = axis->getAxisOutputName();
1035	if (isWrittenAxis(axisid)) return ;
1036	else setWrittenAxis(axisid);
1037
1038	try
1039	{
1040	SuperClassWriter::addDimension(axisid, zoom_size);
1041	if (axis->hasValue)
1042	{
1043	dims.push_back(axisid);
1044	SuperClassWriter::addVariable(axisid, NC_FLOAT, dims);
1045
1046	if (!axis->name.isEmpty())
1047	SuperClassWriter::addAttribute("name", axis->name.getValue(), &axisid);
1048
1049	if (!axis->standard_name.isEmpty())
1050	SuperClassWriter::addAttribute("standard_name", axis->standard_name.getValue(), &axisid);
1051
1052	if (!axis->long_name.isEmpty())
1053	SuperClassWriter::addAttribute("long_name", axis->long_name.getValue(), &axisid);
1054
1055	if (!axis->unit.isEmpty())
1056	SuperClassWriter::addAttribute("units", axis->unit.getValue(), &axisid);
1057
1058	if (!axis->positive.isEmpty())
1059	{
1060	SuperClassWriter::addAttribute("axis", string("Z"), &axisid);
1061	SuperClassWriter::addAttribute("positive",
1062	(axis->positive == CAxis::positive_attr::up) ? string("up") : string("down"),
1063	&axisid);
1064	}
1065
1066	StdString axisBoundsId = axisid + "_bounds";
1067	if (!axis->bounds.isEmpty())
1068	{
1069	dims.push_back("axis_nbounds");
1070	SuperClassWriter::addVariable(axisBoundsId, NC_FLOAT, dims);
1071	SuperClassWriter::addAttribute("bounds", axisBoundsId, &axisid);
1072	}
1073
1074	SuperClassWriter::definition_end();
1075
1076	switch (SuperClass::type)
1077	{
1078	case MULTI_FILE:
1079	{
1080	CArray<double,1> axis_value(zoom_size_srv);
1081	for (int i = 0; i < zoom_size_srv; i++) axis_value(i) = axis->value_srv(i);
1082	SuperClassWriter::writeData(axis_value, axisid, isCollective, 0);
1083
1084	if (!axis->bounds.isEmpty())
1085	SuperClassWriter::writeData(axis->bound_srv, axisBoundsId, isCollective, 0);
1086
1087	SuperClassWriter::definition_start();
1088
1089	break;
1090	}
1091	case ONE_FILE:
1092	{
1093	CArray<double,1> axis_value(zoom_size_srv);
1094	axis_value = axis->value_srv;
1095
1096	std::vector<StdSize> start(1), startBounds(2) ;
1097	std::vector<StdSize> count(1), countBounds(2) ;
1098	start[0] = startBounds[0] = zoom_begin_srv-axis->global_zoom_begin;
1099	count[0] = countBounds[0] = zoom_size_srv;
1100	startBounds[1] = 0;
1101	countBounds[1] = 2;
1102	SuperClassWriter::writeData(axis_value, axisid, isCollective, 0, &start, &count);
1103
1104	if (!axis->bounds.isEmpty())
1105	SuperClassWriter::writeData(axis->bound_srv, axisBoundsId, isCollective, 0, &startBounds, &countBounds);
1106
1107	SuperClassWriter::definition_start();
1108
1109	break;
1110	}
1111	default :
1112	ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)",
1113	<< "[ type = " << SuperClass::type << "]"
1114	<< " not implemented yet !");
1115	}
1116	}
1117	}
1118	catch (CNetCdfException& e)
1119	{
1120	StdString msg("On writing the axis : ");
1121	msg.append(axisid); msg.append("\n");
1122	msg.append("In the context : ");
1123	CContext* context = CContext::getCurrent() ;
1124	msg.append(context->getId()); msg.append("\n");
1125	msg.append(e.what());
1126	ERROR("CNc4DataOutput::writeAxis_(CAxis* axis)", << msg);
1127	}
1128	axis->addRelFile(this->filename);
1129	}
1130
1131	void CNc4DataOutput::writeScalar_(CScalar* scalar)
1132	{
1133	if (scalar->IsWritten(this->filename)) return;
1134	scalar->checkAttributes();
1135	int scalarSize = 1;
1136
1137	StdString scalaId = scalar->getScalarOutputName();
1138	if (isWrittenAxis(scalaId)) return ;
1139	else setWrittenAxis(scalaId);
1140
1141	try
1142	{
1143	if (!scalar->value.isEmpty())
1144	{
1145	// dims.push_back(scalaId);
1146	std::vector<StdString> dims;
1147	SuperClassWriter::addVariable(scalaId, NC_FLOAT, dims);
1148
1149	if (!scalar->name.isEmpty())
1150	SuperClassWriter::addAttribute("name", scalar->name.getValue(), &scalaId);
1151
1152	if (!scalar->standard_name.isEmpty())
1153	SuperClassWriter::addAttribute("standard_name", scalar->standard_name.getValue(), &scalaId);
1154
1155	if (!scalar->long_name.isEmpty())
1156	SuperClassWriter::addAttribute("long_name", scalar->long_name.getValue(), &scalaId);
1157
1158	if (!scalar->unit.isEmpty())
1159	SuperClassWriter::addAttribute("units", scalar->unit.getValue(), &scalaId);
1160
1161	SuperClassWriter::definition_end();
1162
1163	switch (SuperClass::type)
1164	{
1165	case MULTI_FILE:
1166	{
1167	CArray<double,1> scalarValue(scalarSize);
1168	scalarValue(0) = scalar->value;
1169	SuperClassWriter::writeData(scalarValue, scalaId, isCollective, 0);
1170	SuperClassWriter::definition_start();
1171
1172	break;
1173	}
1174	case ONE_FILE:
1175	{
1176	CArray<double,1> scalarValue(scalarSize);
1177	scalarValue(0) = scalar->value;
1178
1179	std::vector<StdSize> start(1);
1180	std::vector<StdSize> count(1);
1181	start[0] = 0;
1182	count[0] = 1;
1183	SuperClassWriter::writeData(scalarValue, scalaId, isCollective, 0, &start, &count);
1184	SuperClassWriter::definition_start();
1185
1186	break;
1187	}
1188	default :
1189	ERROR("CNc4DataOutput::writeAxis_(CAxis* scalar)",
1190	<< "[ type = " << SuperClass::type << "]"
1191	<< " not implemented yet !");
1192	}
1193	}
1194	}
1195	catch (CNetCdfException& e)
1196	{
1197	StdString msg("On writing the scalar : ");
1198	msg.append(scalaId); msg.append("\n");
1199	msg.append("In the context : ");
1200	CContext* context = CContext::getCurrent() ;
1201	msg.append(context->getId()); msg.append("\n");
1202	msg.append(e.what());
1203	ERROR("CNc4DataOutput::writeScalar_(CScalar* scalar)", << msg);
1204	}
1205	scalar->addRelFile(this->filename);
1206	}
1207
1208	//--------------------------------------------------------------
1209
1210	void CNc4DataOutput::writeGridCompressed_(CGrid* grid)
1211	{
1212	if (grid->isScalarGrid() \|\| grid->isWrittenCompressed(this->filename)) return;
1213
1214	try
1215	{
1216	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
1217	std::vector<StdString> domainList = grid->getDomainList();
1218	std::vector<StdString> axisList = grid->getAxisList();
1219	std::vector<StdString> scalarList = grid->getScalarList();
1220	int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0, idxScalar = 0;
1221
1222	std::vector<StdString> dims;
1223
1224	if (grid->isCompressible())
1225	{
1226	StdString varId = grid->getId() + "_points";
1227
1228	int nbIndexes = (SuperClass::type == MULTI_FILE) ? grid->getNumberWrittenIndexes() : grid->getTotalNumberWrittenIndexes();
1229	SuperClassWriter::addDimension(varId, nbIndexes);
1230
1231	dims.push_back(varId);
1232	SuperClassWriter::addVariable(varId, NC_INT, dims);
1233
1234	StdOStringStream compress;
1235	for (int i = numElement - 1; i >= 0; --i)
1236	{
1237	if (2 == axisDomainOrder(i))
1238	{
1239	CDomain* domain = CDomain::get(domainList[domainList.size() - idxDomain - 1]);
1240	StdString domId = domain->getDomainOutputName();
1241	StdString appendDomId = singleDomain ? "" : "_" + domId;
1242
1243	switch (domain->type)
1244	{
1245	case CDomain::type_attr::curvilinear:
1246	compress << "y" << appendDomId << " x" << appendDomId;
1247	break;
1248	case CDomain::type_attr::rectilinear:
1249	compress << "lat" << appendDomId << " lon" << appendDomId;
1250	break;
1251	case CDomain::type_attr::unstructured:
1252	compress << "cell" << appendDomId;
1253	break;
1254	}
1255	++idxDomain;
1256	}
1257	else if (1 == axisDomainOrder(i))
1258	{
1259	CAxis* axis = CAxis::get(axisList[axisList.size() - idxAxis - 1]);
1260	compress << axis->getAxisOutputName();
1261	++idxAxis;
1262	}
1263	else
1264	{
1265	CScalar* scalar = CScalar::get(scalarList[scalarList.size() - idxScalar - 1]);
1266	compress << scalar->getScalarOutputName();
1267	++idxScalar;
1268	}
1269
1270	if (i != 0) compress << ' ';
1271	}
1272	SuperClassWriter::addAttribute("compress", compress.str(), &varId);
1273
1274	grid->computeCompressedIndex();
1275
1276	CArray<int, 1> indexes(grid->getNumberWrittenIndexes());
1277	std::map<int, CArray<size_t, 1> >::const_iterator it;
1278	for (it = grid->outIndexFromClient.begin(); it != grid->outIndexFromClient.end(); ++it)
1279	{
1280	const CArray<size_t, 1> compressedIndexes = grid->compressedOutIndexFromClient[it->first];
1281	for (int i = 0; i < it->second.numElements(); i++)
1282	indexes(compressedIndexes(i)) = it->second(i);
1283	}
1284
1285	switch (SuperClass::type)
1286	{
1287	case (MULTI_FILE):
1288	{
1289	SuperClassWriter::writeData(indexes, varId, isCollective, 0);
1290	break;
1291	}
1292	case (ONE_FILE):
1293	{
1294	if (grid->doGridHaveDataDistributed())
1295	grid->getDistributionServer()->computeGlobalIndex(indexes);
1296
1297	std::vector<StdSize> start, count;
1298	start.push_back(grid->getOffsetWrittenIndexes());
1299	count.push_back(grid->getNumberWrittenIndexes());
1300
1301	SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count);
1302	break;
1303	}
1304	}
1305	}
1306	else
1307	{
1308	for (int i = 0; i < numElement; ++i)
1309	{
1310	StdString varId, compress;
1311	CArray<int, 1> indexes;
1312	bool isDistributed;
1313	StdSize nbIndexes, totalNbIndexes, offset;
1314	int firstGlobalIndex;
1315
1316	if (2 == axisDomainOrder(i))
1317	{
1318	CDomain* domain = CDomain::get(domainList[idxDomain]);
1319	StdString domId = domain->getDomainOutputName();
1320
1321	if (!domain->isCompressible()
1322	\|\| domain->type == CDomain::type_attr::unstructured
1323	\|\| domain->isWrittenCompressed(this->filename)
1324	\|\| isWrittenCompressedDomain(domId))
1325	continue;
1326
1327	StdString appendDomId = singleDomain ? "" : "_" + domId;
1328
1329	varId = domId + "_points";
1330	switch (domain->type)
1331	{
1332	case CDomain::type_attr::curvilinear:
1333	compress = "y" + appendDomId + " x" + appendDomId;
1334	break;
1335	case CDomain::type_attr::rectilinear:
1336	compress = "lat" + appendDomId + " lon" + appendDomId;
1337	break;
1338	}
1339
1340	const std::vector<int>& indexesToWrite = domain->getIndexesToWrite();
1341	indexes.resize(indexesToWrite.size());
1342	for (int n = 0; n < indexes.numElements(); ++n)
1343	indexes(n) = indexesToWrite[n];
1344
1345	isDistributed = domain->isDistributed();
1346	nbIndexes = domain->getNumberWrittenIndexes();
1347	totalNbIndexes = domain->getTotalNumberWrittenIndexes();
1348	offset = domain->getOffsetWrittenIndexes();
1349	firstGlobalIndex = domain->ibegin + domain->jbegin * domain->ni_glo;
1350
1351	domain->addRelFileCompressed(this->filename);
1352	setWrittenCompressedDomain(domId);
1353	++idxDomain;
1354	}
1355	else if (1 == axisDomainOrder(i))
1356	{
1357	CAxis* axis = CAxis::get(axisList[idxAxis]);
1358	StdString axisId = axis->getAxisOutputName();
1359
1360	if (!axis->isCompressible()
1361	\|\| axis->isWrittenCompressed(this->filename)
1362	\|\| isWrittenCompressedAxis(axisId))
1363	continue;
1364
1365	varId = axisId + "_points";
1366	compress = axisId;
1367
1368	const std::vector<int>& indexesToWrite = axis->getIndexesToWrite();
1369	indexes.resize(indexesToWrite.size());
1370	for (int n = 0; n < indexes.numElements(); ++n)
1371	indexes(n) = indexesToWrite[n];
1372
1373	isDistributed = axis->isDistributed();
1374	nbIndexes = axis->getNumberWrittenIndexes();
1375	totalNbIndexes = axis->getTotalNumberWrittenIndexes();
1376	offset = axis->getOffsetWrittenIndexes();
1377	firstGlobalIndex = axis->begin;
1378
1379	axis->addRelFileCompressed(this->filename);
1380	setWrittenCompressedAxis(axisId);
1381	++idxAxis;
1382	}
1383	else
1384	{
1385	}
1386
1387	if (!varId.empty())
1388	{
1389	SuperClassWriter::addDimension(varId, (SuperClass::type == MULTI_FILE) ? nbIndexes : totalNbIndexes);
1390
1391	dims.clear();
1392	dims.push_back(varId);
1393	SuperClassWriter::addVariable(varId, NC_INT, dims);
1394
1395	SuperClassWriter::addAttribute("compress", compress, &varId);
1396
1397	switch (SuperClass::type)
1398	{
1399	case (MULTI_FILE):
1400	{
1401	indexes -= firstGlobalIndex;
1402	SuperClassWriter::writeData(indexes, varId, isCollective, 0);
1403	break;
1404	}
1405	case (ONE_FILE):
1406	{
1407	std::vector<StdSize> start, count;
1408	start.push_back(offset);
1409	count.push_back(nbIndexes);
1410
1411	SuperClassWriter::writeData(indexes, varId, isCollective, 0, &start, &count);
1412	break;
1413	}
1414	}
1415	}
1416	}
1417
1418	if (!dims.empty())
1419	grid->computeCompressedIndex();
1420	}
1421
1422	grid->addRelFileCompressed(this->filename);
1423	}
1424	catch (CNetCdfException& e)
1425	{
1426	StdString msg("On writing compressed grid : ");
1427	msg.append(grid->getId()); msg.append("\n");
1428	msg.append("In the context : ");
1429	CContext* context = CContext::getCurrent();
1430	msg.append(context->getId()); msg.append("\n");
1431	msg.append(e.what());
1432	ERROR("CNc4DataOutput::writeGridCompressed_(CGrid* grid)", << msg);
1433	}
1434	}
1435
1436	//--------------------------------------------------------------
1437
1438	void CNc4DataOutput::writeTimeDimension_(void)
1439	{
1440	try
1441	{
1442	SuperClassWriter::addDimension(getTimeCounterName());
1443	}
1444	catch (CNetCdfException& e)
1445	{
1446	StdString msg("On writing time dimension : time_couter\n");
1447	msg.append("In the context : ");
1448	CContext* context = CContext::getCurrent() ;
1449	msg.append(context->getId()); msg.append("\n");
1450	msg.append(e.what());
1451	ERROR("CNc4DataOutput::writeTimeDimension_(void)", << msg);
1452	}
1453	}
1454
1455	//--------------------------------------------------------------
1456
1457	void CNc4DataOutput::writeField_(CField* field)
1458	{
1459	CContext* context = CContext::getCurrent() ;
1460	CContextServer* server=context->server ;
1461
1462	std::vector<StdString> dims, coodinates;
1463	CGrid* grid = field->grid;
1464	if (!grid->doGridHaveDataToWrite())
1465	if (SuperClass::type==MULTI_FILE) return ;
1466
1467	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
1468	int numElement = axisDomainOrder.numElements(), idxDomain = 0, idxAxis = 0, idxScalar = 0;
1469	std::vector<StdString> domainList = grid->getDomainList();
1470	std::vector<StdString> axisList = grid->getAxisList();
1471	std::vector<StdString> scalarList = grid->getScalarList();
1472
1473	StdString timeid = getTimeCounterName();
1474	StdString dimXid,dimYid;
1475	std::deque<StdString> dimIdList, dimCoordList;
1476	bool hasArea = false;
1477	StdString cellMeasures = "area:";
1478	bool compressedOutput = !field->indexed_output.isEmpty() && field->indexed_output;
1479
1480	for (int i = 0; i < numElement; ++i)
1481	{
1482	if (2 == axisDomainOrder(i))
1483	{
1484	CDomain* domain = CDomain::get(domainList[idxDomain]);
1485	StdString domId = domain->getDomainOutputName();
1486	StdString appendDomId = singleDomain ? "" : "_" + domId ;
1487
1488	if (compressedOutput && domain->isCompressible() && domain->type != CDomain::type_attr::unstructured)
1489	{
1490	dimIdList.push_back(domId + "_points");
1491	field->setUseCompressedOutput();
1492	}
1493
1494	switch (domain->type)
1495	{
1496	case CDomain::type_attr::curvilinear:
1497	if (!compressedOutput \|\| !domain->isCompressible())
1498	{
1499	dimXid = StdString("x").append(appendDomId);
1500	dimIdList.push_back(dimXid);
1501	dimYid = StdString("y").append(appendDomId);
1502	dimIdList.push_back(dimYid);
1503	}
1504	dimCoordList.push_back(StdString("nav_lon").append(appendDomId));
1505	dimCoordList.push_back(StdString("nav_lat").append(appendDomId));
1506	break ;
1507	case CDomain::type_attr::rectilinear:
1508	if (!compressedOutput \|\| !domain->isCompressible())
1509	{
1510	dimXid = StdString("lon").append(appendDomId);
1511	dimIdList.push_back(dimXid);
1512	dimYid = StdString("lat").append(appendDomId);
1513	dimIdList.push_back(dimYid);
1514	}
1515	break ;
1516	case CDomain::type_attr::unstructured:
1517	{
1518	if (SuperClassWriter::useCFConvention)
1519	{
1520	dimXid = StdString("cell").append(appendDomId);
1521	dimIdList.push_back(dimXid);
1522	dimCoordList.push_back(StdString("lon").append(appendDomId));
1523	dimCoordList.push_back(StdString("lat").append(appendDomId));
1524	}
1525	else
1526	{
1527	StdString domainName = domain->name;
1528	if (domain->nvertex == 1)
1529	{
1530	dimXid = "n" + domainName + "_node";
1531	dimIdList.push_back(dimXid);
1532	dimCoordList.push_back(StdString(domainName + "_node_x"));
1533	dimCoordList.push_back(StdString(domainName + "_node_y"));
1534	}
1535	else if (domain->nvertex == 2)
1536	{
1537	dimXid = "n" + domainName + "_edge";
1538	dimIdList.push_back(dimXid);
1539	dimCoordList.push_back(StdString(domainName + "_edge_x"));
1540	dimCoordList.push_back(StdString(domainName + "_edge_y"));
1541	}
1542	else
1543	{
1544	dimXid = "n" + domainName + "_face";
1545	dimIdList.push_back(dimXid);
1546	dimCoordList.push_back(StdString(domainName + "_face_x"));
1547	dimCoordList.push_back(StdString(domainName + "_face_y"));
1548	}
1549	} // ugrid convention
1550	} // case unstructured domain
1551	}
1552
1553	if (domain->hasArea)
1554	{
1555	hasArea = true;
1556	cellMeasures += " area" + appendDomId;
1557	}
1558	++idxDomain;
1559	}
1560	else if (1 == axisDomainOrder(i))
1561	{
1562	CAxis* axis = CAxis::get(axisList[idxAxis]);
1563	StdString axisId = axis->getAxisOutputName();
1564
1565	if (compressedOutput && axis->isCompressible())
1566	{
1567	dimIdList.push_back(axisId + "_points");
1568	field->setUseCompressedOutput();
1569	}
1570	else
1571	dimIdList.push_back(axisId);
1572
1573	dimCoordList.push_back(axisId);
1574	++idxAxis;
1575	}
1576	else // scalar
1577	{
1578	/* Do nothing here */
1579	}
1580	}
1581
1582	/*
1583	StdString lonid_loc = (server->intraCommSize > 1)
1584	? StdString("lon").append(appendDomid).append("_local")
1585	: lonid;
1586	StdString latid_loc = (server->intraCommSize > 1)
1587	? StdString("lat").append(appendDomid).append("_local")
1588	: latid;
1589	*/
1590	StdString fieldid = field->getFieldOutputName();
1591
1592	nc_type type ;
1593	if (field->prec.isEmpty()) type = NC_FLOAT ;
1594	else
1595	{
1596	if (field->prec==2) type = NC_SHORT ;
1597	else if (field->prec==4) type = NC_FLOAT ;
1598	else if (field->prec==8) type = NC_DOUBLE ;
1599	}
1600
1601	bool wtime = !(!field->operation.isEmpty() && field->getOperationTimeType() == func::CFunctor::once);
1602
1603	if (wtime)
1604	{
1605
1606	//StdOStringStream oss;
1607	// oss << "time_" << field->operation.getValue()
1608	// << "_" << field->getRelFile()->output_freq.getValue();
1609	//oss
1610	if (field->getOperationTimeType() == func::CFunctor::instant) coodinates.push_back(string("time_instant"));
1611	else if (field->getOperationTimeType() == func::CFunctor::centered) coodinates.push_back(string("time_centered"));
1612	dims.push_back(timeid);
1613	}
1614
1615	if (compressedOutput && grid->isCompressible())
1616	{
1617	dims.push_back(grid->getId() + "_points");
1618	field->setUseCompressedOutput();
1619	}
1620	else
1621	{
1622	while (!dimIdList.empty())
1623	{
1624	dims.push_back(dimIdList.back());
1625	dimIdList.pop_back();
1626	}
1627	}
1628
1629	while (!dimCoordList.empty())
1630	{
1631	coodinates.push_back(dimCoordList.back());
1632	dimCoordList.pop_back();
1633	}
1634
1635	try
1636	{
1637	SuperClassWriter::addVariable(fieldid, type, dims);
1638
1639	if (!field->standard_name.isEmpty())
1640	SuperClassWriter::addAttribute
1641	("standard_name", field->standard_name.getValue(), &fieldid);
1642
1643	if (!field->long_name.isEmpty())
1644	SuperClassWriter::addAttribute
1645	("long_name", field->long_name.getValue(), &fieldid);
1646
1647	if (!field->unit.isEmpty())
1648	SuperClassWriter::addAttribute
1649	("units", field->unit.getValue(), &fieldid);
1650
1651	if (!field->valid_min.isEmpty())
1652	SuperClassWriter::addAttribute
1653	("valid_min", field->valid_min.getValue(), &fieldid);
1654
1655	if (!field->valid_max.isEmpty())
1656	SuperClassWriter::addAttribute
1657	("valid_max", field->valid_max.getValue(), &fieldid);
1658
1659	if (!field->scale_factor.isEmpty())
1660	SuperClassWriter::addAttribute
1661	("scale_factor", field->scale_factor.getValue(), &fieldid);
1662
1663	if (!field->add_offset.isEmpty())
1664	SuperClassWriter::addAttribute
1665	("add_offset", field->add_offset.getValue(), &fieldid);
1666
1667	SuperClassWriter::addAttribute
1668	("online_operation", field->operation.getValue(), &fieldid);
1669
1670	// write child variables as attributes
1671
1672
1673	vector<CVariable*> listVars = field->getAllVariables() ;
1674	for (vector<CVariable>::iterator it = listVars.begin() ;it != listVars.end(); it++) writeAttribute_(it, fieldid) ;
1675
1676
1677	if (wtime)
1678	{
1679	CDuration freqOp = field->freq_op.getValue();
1680	freqOp.solveTimeStep(*context->calendar);
1681	StdString freqOpStr = freqOp.toStringUDUnits();
1682	SuperClassWriter::addAttribute("interval_operation", freqOpStr, &fieldid);
1683
1684	CDuration freqOut = field->getRelFile()->output_freq.getValue();
1685	freqOut.solveTimeStep(*context->calendar);
1686	SuperClassWriter::addAttribute("interval_write", freqOut.toStringUDUnits(), &fieldid);
1687
1688	StdString cellMethods = "time: ";
1689	if (field->operation.getValue() == "instant") cellMethods += "point";
1690	else if (field->operation.getValue() == "average") cellMethods += "mean";
1691	else if (field->operation.getValue() == "accumulate") cellMethods += "sum";
1692	else cellMethods += field->operation;
1693	if (freqOp.resolve(context->calendar) != freqOut.resolve(context->calendar))
1694	cellMethods += " (interval: " + freqOpStr + ")";
1695	SuperClassWriter::addAttribute("cell_methods", cellMethods, &fieldid);
1696	}
1697
1698	if (hasArea)
1699	SuperClassWriter::addAttribute("cell_measures", cellMeasures, &fieldid);
1700
1701	if (!field->default_value.isEmpty())
1702	{
1703	double default_value = field->default_value.getValue();
1704	float fdefault_value = (float)default_value;
1705	if (type == NC_DOUBLE)
1706	SuperClassWriter::setDefaultValue(fieldid, &default_value);
1707	else
1708	SuperClassWriter::setDefaultValue(fieldid, &fdefault_value);
1709	}
1710	else
1711	SuperClassWriter::setDefaultValue(fieldid, (double*)NULL);
1712
1713	if (field->compression_level.isEmpty())
1714	field->compression_level = field->file->compression_level.isEmpty() ? 0 : field->file->compression_level;
1715	SuperClassWriter::setCompressionLevel(fieldid, field->compression_level);
1716
1717	{ // Ecriture des coordonnes
1718
1719	StdString coordstr; //boost::algorithm::join(coodinates, " ")
1720	std::vector<StdString>::iterator
1721	itc = coodinates.begin(), endc = coodinates.end();
1722
1723	for (; itc!= endc; itc++)
1724	{
1725	StdString & coord = *itc;
1726	if (itc+1 != endc)
1727	coordstr.append(coord).append(" ");
1728	else coordstr.append(coord);
1729	}
1730
1731	SuperClassWriter::addAttribute("coordinates", coordstr, &fieldid);
1732
1733	}
1734	}
1735	catch (CNetCdfException& e)
1736	{
1737	StdString msg("On writing field : ");
1738	msg.append(fieldid); msg.append("\n");
1739	msg.append("In the context : ");
1740	msg.append(context->getId()); msg.append("\n");
1741	msg.append(e.what());
1742	ERROR("CNc4DataOutput::writeField_(CField* field)", << msg);
1743	}
1744	} // writeField_()
1745
1746	//--------------------------------------------------------------
1747
1748	void CNc4DataOutput::writeFile_ (CFile* file)
1749	{
1750	StdString filename = file->getFileOutputName();
1751	StdString description = (!file->description.isEmpty())
1752	? file->description.getValue()
1753	: StdString("Created by xios");
1754
1755	singleDomain = (file->nbDomains == 1);
1756
1757	try
1758	{
1759	if (SuperClassWriter::useCFConvention)
1760	this->writeFileAttributes(filename, description,
1761	StdString("CF-1.5"),
1762	StdString("An IPSL model"),
1763	this->getTimeStamp());
1764	else
1765	this->writeFileAttributes(filename, description,
1766	StdString("UGRID"),
1767	StdString("An IPSL model"),
1768	this->getTimeStamp());
1769
1770
1771	if (!appendMode)
1772	SuperClassWriter::addDimension("axis_nbounds", 2);
1773	}
1774	catch (CNetCdfException& e)
1775	{
1776	StdString msg("On writing file : ");
1777	msg.append(filename); msg.append("\n");
1778	msg.append("In the context : ");
1779	CContext* context = CContext::getCurrent() ;
1780	msg.append(context->getId()); msg.append("\n");
1781	msg.append(e.what());
1782	ERROR("CNc4DataOutput::writeFile_ (CFile* file)", << msg);
1783	}
1784	}
1785
1786	void CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)
1787	{
1788	StdString name = var->getVariableOutputName();
1789
1790	try
1791	{
1792	if (var->type.getValue() == CVariable::type_attr::t_int \|\| var->type.getValue() == CVariable::type_attr::t_int32)
1793	addAttribute(name, var->getData<int>(), &fieldId);
1794	else if (var->type.getValue() == CVariable::type_attr::t_int16)
1795	addAttribute(name, var->getData<short int>(), &fieldId);
1796	else if (var->type.getValue() == CVariable::type_attr::t_float)
1797	addAttribute(name, var->getData<float>(), &fieldId);
1798	else if (var->type.getValue() == CVariable::type_attr::t_double)
1799	addAttribute(name, var->getData<double>(), &fieldId);
1800	else if (var->type.getValue() == CVariable::type_attr::t_string)
1801	addAttribute(name, var->getData<string>(), &fieldId);
1802	else
1803	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)",
1804	<< "Unsupported variable of type " << var->type.getStringValue());
1805	}
1806	catch (CNetCdfException& e)
1807	{
1808	StdString msg("On writing attributes of variable with name : ");
1809	msg.append(name); msg.append("in the field "); msg.append(fieldId); msg.append("\n");
1810	msg.append("In the context : ");
1811	CContext* context = CContext::getCurrent() ;
1812	msg.append(context->getId()); msg.append("\n");
1813	msg.append(e.what());
1814	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var, const string& fieldId)", << msg);
1815	}
1816	}
1817
1818	void CNc4DataOutput::writeAttribute_ (CVariable* var)
1819	{
1820	StdString name = var->getVariableOutputName();
1821
1822	try
1823	{
1824	if (var->type.getValue() == CVariable::type_attr::t_int \|\| var->type.getValue() == CVariable::type_attr::t_int32)
1825	addAttribute(name, var->getData<int>());
1826	else if (var->type.getValue() == CVariable::type_attr::t_int16)
1827	addAttribute(name, var->getData<short int>());
1828	else if (var->type.getValue() == CVariable::type_attr::t_float)
1829	addAttribute(name, var->getData<float>());
1830	else if (var->type.getValue() == CVariable::type_attr::t_double)
1831	addAttribute(name, var->getData<double>());
1832	else if (var->type.getValue() == CVariable::type_attr::t_string)
1833	addAttribute(name, var->getData<string>());
1834	else
1835	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)",
1836	<< "Unsupported variable of type " << var->type.getStringValue());
1837	}
1838	catch (CNetCdfException& e)
1839	{
1840	StdString msg("On writing attributes of variable with name : ");
1841	msg.append(name); msg.append("\n");
1842	msg.append("In the context : ");
1843	CContext* context = CContext::getCurrent() ;
1844	msg.append(context->getId()); msg.append("\n");
1845	msg.append(e.what());
1846	ERROR("CNc4DataOutput::writeAttribute_ (CVariable* var)", << msg);
1847	}
1848	}
1849
1850	void CNc4DataOutput::syncFile_ (void)
1851	{
1852	try
1853	{
1854	SuperClassWriter::sync() ;
1855	}
1856	catch (CNetCdfException& e)
1857	{
1858	StdString msg("On synchronizing the write among processes");
1859	msg.append("In the context : ");
1860	CContext* context = CContext::getCurrent() ;
1861	msg.append(context->getId()); msg.append("\n");
1862	msg.append(e.what());
1863	ERROR("CNc4DataOutput::syncFile_ (void)", << msg);
1864	}
1865	}
1866
1867	void CNc4DataOutput::closeFile_ (void)
1868	{
1869	try
1870	{
1871	SuperClassWriter::close() ;
1872	}
1873	catch (CNetCdfException& e)
1874	{
1875	StdString msg("On closing file");
1876	msg.append("In the context : ");
1877	CContext* context = CContext::getCurrent() ;
1878	msg.append(context->getId()); msg.append("\n");
1879	msg.append(e.what());
1880	ERROR("CNc4DataOutput::syncFile_ (void)", << msg);
1881	}
1882
1883	}
1884
1885	//---------------------------------------------------------------
1886
1887	StdString CNc4DataOutput::getTimeStamp(void) const
1888	{
1889	const int buffer_size = 100;
1890	time_t rawtime;
1891	struct tm * timeinfo = NULL;
1892	char buffer [buffer_size];
1893
1894	time ( &rawtime );
1895	timeinfo = localtime ( &rawtime );
1896	strftime (buffer, buffer_size, "%Y-%b-%d %H:%M:%S %Z", timeinfo);
1897
1898	return (StdString(buffer));
1899	}
1900
1901	//---------------------------------------------------------------
1902
1903	void CNc4DataOutput::writeFieldData_ (CField* field)
1904	{
1905	CContext* context = CContext::getCurrent();
1906	CContextServer* server = context->server;
1907	CGrid* grid = field->grid;
1908
1909	if (!grid->doGridHaveDataToWrite())
1910	if (SuperClass::type == MULTI_FILE \|\| !isCollective) return;
1911
1912	StdString fieldid = field->getFieldOutputName();
1913
1914	StdOStringStream oss;
1915	string timeAxisId;
1916	if (field->getOperationTimeType() == func::CFunctor::instant) timeAxisId = "time_instant";
1917	else if (field->getOperationTimeType() == func::CFunctor::centered) timeAxisId = "time_centered";
1918
1919	StdString timeBoundId = getTimeCounterName() + "_bounds";
1920
1921	StdString timeAxisBoundId;
1922	if (field->getOperationTimeType() == func::CFunctor::instant) timeAxisBoundId = "time_instant_bounds";
1923	else if (field->getOperationTimeType() == func::CFunctor::centered) timeAxisBoundId = "time_centered_bounds";
1924
1925	if (!field->wasWritten())
1926	{
1927	if (appendMode && field->file->record_offset.isEmpty())
1928	{
1929	field->resetNStep(getRecordFromTime(field->last_Write_srv) + 1);
1930	}
1931
1932	field->setWritten();
1933	}
1934
1935
1936	CArray<double,1> time_data(1);
1937	CArray<double,1> time_data_bound(2);
1938	CArray<double,1> time_counter(1);
1939	CArray<double,1> time_counter_bound(2);
1940
1941	bool wtime = (field->getOperationTimeType() != func::CFunctor::once);
1942
1943	if (wtime)
1944	{
1945	Time lastWrite = field->last_Write_srv;
1946	Time lastLastWrite = field->lastlast_Write_srv;
1947
1948	if (field->getOperationTimeType() == func::CFunctor::instant)
1949	time_data(0) = lastWrite;
1950	else if (field->getOperationTimeType() == func::CFunctor::centered)
1951	time_data(0) = (lastWrite + lastLastWrite) / 2;
1952
1953	if (field->getOperationTimeType() == func::CFunctor::instant)
1954	time_data_bound(0) = time_data_bound(1) = lastWrite;
1955	else if (field->getOperationTimeType() == func::CFunctor::centered)
1956	{
1957	time_data_bound(0) = lastLastWrite;
1958	time_data_bound(1) = lastWrite;
1959	}
1960
1961	if (field->file->time_counter == CFile::time_counter_attr::instant)
1962	time_counter(0) = lastWrite;
1963	else if (field->file->time_counter == CFile::time_counter_attr::centered)
1964	time_counter(0) = (lastWrite + lastLastWrite) / 2;
1965	else if (field->file->time_counter == CFile::time_counter_attr::record)
1966	time_counter(0) = field->getNStep() - 1;
1967
1968
1969	if (field->file->time_counter == CFile::time_counter_attr::instant)
1970	time_counter_bound(0) = time_counter_bound(1) = lastWrite;
1971	else if (field->file->time_counter == CFile::time_counter_attr::centered)
1972	{
1973	time_counter_bound(0) = lastLastWrite;
1974	time_counter_bound(1) = lastWrite;
1975	}
1976	else if (field->file->time_counter == CFile::time_counter_attr::record)
1977	time_counter_bound(0) = time_counter_bound(1) = field->getNStep() - 1;
1978	}
1979
1980	bool isRoot = (server->intraCommRank == 0);
1981
1982	if (!field->scale_factor.isEmpty() \|\| !field->add_offset.isEmpty())
1983	{
1984	double scaleFactor = 1.0;
1985	double addOffset = 0.0;
1986	if (!field->scale_factor.isEmpty()) scaleFactor = field->scale_factor;
1987	if (!field->add_offset.isEmpty()) addOffset = field->add_offset;
1988	field->scaleFactorAddOffset(scaleFactor, addOffset);
1989	}
1990
1991	try
1992	{
1993	size_t writtenSize;
1994	if (field->getUseCompressedOutput())
1995	writtenSize = grid->getNumberWrittenIndexes();
1996	else
1997	writtenSize = grid->getWrittenDataSize();
1998
1999	CArray<double,1> fieldData(writtenSize);
2000	if (!field->default_value.isEmpty()) fieldData = field->default_value;
2001
2002	if (field->getUseCompressedOutput())
2003	field->outputCompressedField(fieldData);
2004	else
2005	field->outputField(fieldData);
2006
2007	if (!field->prec.isEmpty() && field->prec == 2) fieldData = round(fieldData);
2008
2009	switch (SuperClass::type)
2010	{
2011	case (MULTI_FILE) :
2012	{
2013	SuperClassWriter::writeData(fieldData, fieldid, isCollective, field->getNStep() - 1);
2014	if (wtime)
2015	{
2016	SuperClassWriter::writeData(time_data, timeAxisId, isCollective, field->getNStep() - 1);
2017	SuperClassWriter::writeData(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1);
2018	if (field->file->time_counter != CFile::time_counter_attr::none)
2019	{
2020	SuperClassWriter::writeData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1);
2021	if (field->file->time_counter != CFile::time_counter_attr::record)
2022	SuperClassWriter::writeData(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1);
2023	}
2024	}
2025	break;
2026	}
2027	case (ONE_FILE) :
2028	{
2029	const std::vector<int>& nZoomBeginGlobal = grid->getDistributionServer()->getZoomBeginGlobal();
2030	const std::vector<int>& nZoomBeginServer = grid->getDistributionServer()->getZoomBeginServer();
2031	const std::vector<int>& nZoomSizeServer = grid->getDistributionServer()->getZoomSizeServer();
2032
2033	std::vector<StdSize> start, count;
2034
2035	if (field->getUseCompressedOutput())
2036	{
2037	if (grid->isCompressible())
2038	{
2039	start.push_back(grid->getOffsetWrittenIndexes());
2040	count.push_back(grid->getNumberWrittenIndexes());
2041	}
2042	else
2043	{
2044	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
2045	std::vector<StdString> domainList = grid->getDomainList();
2046	std::vector<StdString> axisList = grid->getAxisList();
2047	int numElement = axisDomainOrder.numElements();
2048	int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1;
2049	int idx = nZoomBeginGlobal.size() - 1;
2050
2051	start.reserve(nZoomBeginGlobal.size());
2052	count.reserve(nZoomBeginGlobal.size());
2053
2054
2055	for (int i = numElement - 1; i >= 0; --i)
2056	{
2057	if (2 == axisDomainOrder(i))
2058	{
2059	CDomain* domain = CDomain::get(domainList[idxDomain]);
2060
2061	if (domain->isCompressible())
2062	{
2063	start.push_back(domain->getOffsetWrittenIndexes());
2064	count.push_back(domain->getNumberWrittenIndexes());
2065	idx -= 2;
2066	}
2067	else
2068	{
2069	if ((domain->type) != CDomain::type_attr::unstructured)
2070	{
2071	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
2072	count.push_back(nZoomSizeServer[idx]);
2073	}
2074	--idx;
2075	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
2076	count.push_back(nZoomSizeServer[idx]);
2077	--idx;
2078	}
2079	--idxDomain;
2080	}
2081	else if (1 == axisDomainOrder(i))
2082	{
2083	CAxis* axis = CAxis::get(axisList[idxAxis]);
2084
2085	if (axis->isCompressible())
2086	{
2087	start.push_back(axis->getOffsetWrittenIndexes());
2088	count.push_back(axis->getNumberWrittenIndexes());
2089	}
2090	else
2091	{
2092	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
2093	count.push_back(nZoomSizeServer[idx]);
2094	}
2095
2096	--idxAxis;
2097	--idx;
2098	}
2099	}
2100	}
2101	}
2102	else
2103	{
2104
2105	CArray<int,1> axisDomainOrder = grid->axis_domain_order;
2106	std::vector<StdString> domainList = grid->getDomainList();
2107	std::vector<StdString> axisList = grid->getAxisList();
2108	int numElement = axisDomainOrder.numElements();
2109	int idxDomain = domainList.size() - 1, idxAxis = axisList.size() - 1;
2110	int idx = nZoomBeginGlobal.size() - 1;
2111
2112	start.reserve(nZoomBeginGlobal.size());
2113	count.reserve(nZoomBeginGlobal.size());
2114
2115	for (int i = numElement - 1; i >= 0; --i)
2116	{
2117	if (2 == axisDomainOrder(i))
2118	{
2119	CDomain* domain = CDomain::get(domainList[idxDomain]);
2120	if ((domain->type) != CDomain::type_attr::unstructured)
2121	{
2122	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
2123	count.push_back(nZoomSizeServer[idx]);
2124	}
2125	--idx ;
2126	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
2127	count.push_back(nZoomSizeServer[idx]);
2128	--idx ;
2129	--idxDomain;
2130	}
2131	else if (1 == axisDomainOrder(i))
2132	{
2133	start.push_back(nZoomBeginServer[idx] - nZoomBeginGlobal[idx]);
2134	count.push_back(nZoomSizeServer[idx]);
2135	--idx;
2136	}
2137	else
2138	{
2139	if (1 == axisDomainOrder.numElements())
2140	{
2141	start.push_back(0);
2142	count.push_back(1);
2143	}
2144	--idx;
2145	}
2146	}
2147	}
2148
2149	SuperClassWriter::writeData(fieldData, fieldid, isCollective, field->getNStep() - 1, &start, &count);
2150	if (wtime)
2151	{
2152	SuperClassWriter::writeTimeAxisData(time_data, timeAxisId, isCollective, field->getNStep() - 1, isRoot);
2153	SuperClassWriter::writeTimeAxisData(time_data_bound, timeAxisBoundId, isCollective, field->getNStep() - 1, isRoot);
2154	if (field->file->time_counter != CFile::time_counter_attr::none)
2155	{
2156	SuperClassWriter::writeTimeAxisData(time_counter, getTimeCounterName(), isCollective, field->getNStep() - 1, isRoot);
2157	if (field->file->time_counter != CFile::time_counter_attr::record)
2158	SuperClassWriter::writeTimeAxisData(time_counter_bound, timeBoundId, isCollective, field->getNStep() - 1, isRoot);
2159	}
2160	}
2161
2162	break;
2163	}
2164	}
2165	}
2166	catch (CNetCdfException& e)
2167	{
2168	StdString msg("On writing field data: ");
2169	msg.append(fieldid); msg.append("\n");
2170	msg.append("In the context : ");
2171	msg.append(context->getId()); msg.append("\n");
2172	msg.append(e.what());
2173	ERROR("CNc4DataOutput::writeFieldData_ (CField* field)", << msg);
2174	}
2175	}
2176
2177	//---------------------------------------------------------------
2178
2179	void CNc4DataOutput::writeTimeAxis_
2180	(CField* field,
2181	const boost::shared_ptr<CCalendar> cal)
2182	{
2183	StdOStringStream oss;
2184
2185	if (field->getOperationTimeType() == func::CFunctor::once) return ;
2186
2187	// oss << "time_" << field->operation.getValue()
2188	// << "_" << field->getRelFile()->output_freq.getValue();
2189
2190	// StdString axisid = oss.str();
2191	// if (field->getOperationTimeType() == func::CFunctor::centered) axisid="time_centered" ;
2192	// else if (field->getOperationTimeType() == func::CFunctor::instant) axisid="time_instant" ;
2193
2194	StdString axisid("time_centered") ;
2195	StdString axisBoundId("time_centered_bounds");
2196	StdString timeid(getTimeCounterName());
2197	StdString timeBoundId("axis_nbounds");
2198
2199	if (field->getOperationTimeType() == func::CFunctor::instant)
2200	{
2201	axisid = "time_instant";
2202	axisBoundId = "time_instant_bounds";
2203	}
2204
2205	try
2206	{
2207	// Adding time_instant or time_centered
2208	std::vector<StdString> dims;
2209	dims.push_back(timeid);
2210	if (!SuperClassWriter::varExist(axisid))
2211	{
2212	SuperClassWriter::addVariable(axisid, NC_DOUBLE, dims);
2213
2214	CDate timeOrigin=cal->getTimeOrigin() ;
2215	StdOStringStream oss2;
2216	// oss2<<initDate.getYear()<<"-"<<initDate.getMonth()<<"-"<<initDate.getDay()<<" "
2217	// <<initDate.getHour()<<"-"<<initDate.getMinute()<<"-"<<initDate.getSecond() ;
2218	StdString strInitdate=oss2.str() ;
2219	StdString strTimeOrigin=timeOrigin.toString() ;
2220	this->writeTimeAxisAttributes
2221	(axisid, cal->getType(),
2222	StdString("seconds since ").append(strTimeOrigin),
2223	strTimeOrigin, axisBoundId);
2224	}
2225
2226	// Adding time_instant_bounds or time_centered_bounds variables
2227	if (!SuperClassWriter::varExist(axisBoundId))
2228	{
2229	dims.clear() ;
2230	dims.push_back(timeid);
2231	dims.push_back(timeBoundId);
2232	SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims);
2233	}
2234
2235	if (field->file->time_counter != CFile::time_counter_attr::none)
2236	{
2237	// Adding time_counter
2238	axisid = getTimeCounterName();
2239	axisBoundId = getTimeCounterName() + "_bounds";
2240	dims.clear();
2241	dims.push_back(timeid);
2242	if (!SuperClassWriter::varExist(axisid))
2243	{
2244	SuperClassWriter::addVariable(axisid, NC_DOUBLE, dims);
2245	SuperClassWriter::addAttribute("axis", string("T"), &axisid);
2246
2247	if (field->file->time_counter != CFile::time_counter_attr::record)
2248	{
2249	CDate timeOrigin = cal->getTimeOrigin();
2250	StdString strTimeOrigin = timeOrigin.toString();
2251
2252	this->writeTimeAxisAttributes(axisid, cal->getType(),
2253	StdString("seconds since ").append(strTimeOrigin),
2254	strTimeOrigin, axisBoundId);
2255	}
2256	}
2257
2258	// Adding time_counter_bound dimension
2259	if (field->file->time_counter != CFile::time_counter_attr::record)
2260	{
2261	if (!SuperClassWriter::varExist(axisBoundId))
2262	{
2263	dims.clear();
2264	dims.push_back(timeid);
2265	dims.push_back(timeBoundId);
2266	SuperClassWriter::addVariable(axisBoundId, NC_DOUBLE, dims);
2267	}
2268	}
2269	}
2270	}
2271	catch (CNetCdfException& e)
2272	{
2273	StdString msg("On writing time axis data: ");
2274	msg.append("In the context : ");
2275	CContext* context = CContext::getCurrent() ;
2276	msg.append(context->getId()); msg.append("\n");
2277	msg.append(e.what());
2278	ERROR("CNc4DataOutput::writeTimeAxis_ (CField* field, \
2279	const boost::shared_ptr<CCalendar> cal)", << msg);
2280	}
2281	}
2282
2283	//---------------------------------------------------------------
2284
2285	void CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name,
2286	const StdString & calendar,
2287	const StdString & units,
2288	const StdString & time_origin,
2289	const StdString & time_bounds,
2290	const StdString & standard_name,
2291	const StdString & long_name)
2292	{
2293	try
2294	{
2295	SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name);
2296	SuperClassWriter::addAttribute("long_name", long_name , &axis_name);
2297	SuperClassWriter::addAttribute("calendar", calendar , &axis_name);
2298	SuperClassWriter::addAttribute("units", units , &axis_name);
2299	SuperClassWriter::addAttribute("time_origin", time_origin , &axis_name);
2300	SuperClassWriter::addAttribute("bounds", time_bounds , &axis_name);
2301	}
2302	catch (CNetCdfException& e)
2303	{
2304	StdString msg("On writing time axis Attribute: ");
2305	msg.append("In the context : ");
2306	CContext* context = CContext::getCurrent() ;
2307	msg.append(context->getId()); msg.append("\n");
2308	msg.append(e.what());
2309	ERROR("CNc4DataOutput::writeTimeAxisAttributes(const StdString & axis_name, \
2310	const StdString & calendar,\
2311	const StdString & units, \
2312	const StdString & time_origin, \
2313	const StdString & time_bounds, \
2314	const StdString & standard_name, \
2315	const StdString & long_name)", << msg);
2316	}
2317	}
2318
2319	//---------------------------------------------------------------
2320
2321	void CNc4DataOutput::writeAxisAttributes(const StdString & axis_name,
2322	const StdString & axis,
2323	const StdString & standard_name,
2324	const StdString & long_name,
2325	const StdString & units,
2326	const StdString & nav_model)
2327	{
2328	try
2329	{
2330	if (!axis.empty())
2331	SuperClassWriter::addAttribute("axis" , axis , &axis_name);
2332
2333	SuperClassWriter::addAttribute("standard_name", standard_name, &axis_name);
2334	SuperClassWriter::addAttribute("long_name" , long_name , &axis_name);
2335	SuperClassWriter::addAttribute("units" , units , &axis_name);
2336	SuperClassWriter::addAttribute("nav_model" , nav_model , &axis_name);
2337	}
2338	catch (CNetCdfException& e)
2339	{
2340	StdString msg("On writing Axis Attribute: ");
2341	msg.append("In the context : ");
2342	CContext* context = CContext::getCurrent() ;
2343	msg.append(context->getId()); msg.append("\n");
2344	msg.append(e.what());
2345	ERROR("CNc4DataOutput::writeAxisAttributes(const StdString & axis_name, \
2346	const StdString & axis, \
2347	const StdString & standard_name, \
2348	const StdString & long_name, \
2349	const StdString & units, \
2350	const StdString & nav_model)", << msg);
2351	}
2352	}
2353
2354	//---------------------------------------------------------------
2355
2356	void CNc4DataOutput::writeLocalAttributes
2357	(int ibegin, int ni, int jbegin, int nj, StdString domid)
2358	{
2359	try
2360	{
2361	SuperClassWriter::addAttribute(StdString("ibegin").append(domid), ibegin);
2362	SuperClassWriter::addAttribute(StdString("ni" ).append(domid), ni);
2363	SuperClassWriter::addAttribute(StdString("jbegin").append(domid), jbegin);
2364	SuperClassWriter::addAttribute(StdString("nj" ).append(domid), nj);
2365	}
2366	catch (CNetCdfException& e)
2367	{
2368	StdString msg("On writing Local Attributes: ");
2369	msg.append("In the context : ");
2370	CContext* context = CContext::getCurrent() ;
2371	msg.append(context->getId()); msg.append("\n");
2372	msg.append(e.what());
2373	ERROR("CNc4DataOutput::writeLocalAttributes \
2374	(int ibegin, int ni, int jbegin, int nj, StdString domid)", << msg);
2375	}
2376
2377	}
2378
2379	void CNc4DataOutput::writeLocalAttributes_IOIPSL(const StdString& dimXid, const StdString& dimYid,
2380	int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)
2381	{
2382	CArray<int,1> array(2) ;
2383
2384	try
2385	{
2386	SuperClassWriter::addAttribute("DOMAIN_number_total",size ) ;
2387	SuperClassWriter::addAttribute("DOMAIN_number", rank) ;
2388	array = SuperClassWriter::getDimension(dimXid) + 1, SuperClassWriter::getDimension(dimYid) + 1;
2389	SuperClassWriter::addAttribute("DOMAIN_dimensions_ids",array) ;
2390	array=ni_glo,nj_glo ;
2391	SuperClassWriter::addAttribute("DOMAIN_size_global", array) ;
2392	array=ni,nj ;
2393	SuperClassWriter::addAttribute("DOMAIN_size_local", array) ;
2394	array=ibegin+1,jbegin+1 ;
2395	SuperClassWriter::addAttribute("DOMAIN_position_first", array) ;
2396	array=ibegin+ni-1+1,jbegin+nj-1+1 ;
2397	SuperClassWriter::addAttribute("DOMAIN_position_last",array) ;
2398	array=0,0 ;
2399	SuperClassWriter::addAttribute("DOMAIN_halo_size_start", array) ;
2400	SuperClassWriter::addAttribute("DOMAIN_halo_size_end", array);
2401	SuperClassWriter::addAttribute("DOMAIN_type",string("box")) ;
2402	/*
2403	SuperClassWriter::addAttribute("DOMAIN_DIM_N001",string("x")) ;
2404	SuperClassWriter::addAttribute("DOMAIN_DIM_N002",string("y")) ;
2405	SuperClassWriter::addAttribute("DOMAIN_DIM_N003",string("axis_A")) ;
2406	SuperClassWriter::addAttribute("DOMAIN_DIM_N004",string("time_counter")) ;
2407	*/
2408	}
2409	catch (CNetCdfException& e)
2410	{
2411	StdString msg("On writing Local Attributes IOIPSL \n");
2412	msg.append("In the context : ");
2413	CContext* context = CContext::getCurrent() ;
2414	msg.append(context->getId()); msg.append("\n");
2415	msg.append(e.what());
2416	ERROR("CNc4DataOutput::writeLocalAttributes_IOIPSL \
2417	(int ibegin, int ni, int jbegin, int nj, int ni_glo, int nj_glo, int rank, int size)", << msg);
2418	}
2419	}
2420	//---------------------------------------------------------------
2421
2422	void CNc4DataOutput:: writeFileAttributes(const StdString & name,
2423	const StdString & description,
2424	const StdString & conventions,
2425	const StdString & production,
2426	const StdString & timeStamp)
2427	{
2428	try
2429	{
2430	SuperClassWriter::addAttribute("name" , name);
2431	SuperClassWriter::addAttribute("description", description);
2432	SuperClassWriter::addAttribute("title" , description);
2433	SuperClassWriter::addAttribute("Conventions", conventions);
2434	SuperClassWriter::addAttribute("production" , production);
2435	SuperClassWriter::addAttribute("timeStamp" , timeStamp);
2436	}
2437	catch (CNetCdfException& e)
2438	{
2439	StdString msg("On writing File Attributes \n ");
2440	msg.append("In the context : ");
2441	CContext* context = CContext::getCurrent() ;
2442	msg.append(context->getId()); msg.append("\n");
2443	msg.append(e.what());
2444	ERROR("CNc4DataOutput:: writeFileAttributes(const StdString & name, \
2445	const StdString & description, \
2446	const StdString & conventions, \
2447	const StdString & production, \
2448	const StdString & timeStamp)", << msg);
2449	}
2450	}
2451
2452	//---------------------------------------------------------------
2453
2454	void CNc4DataOutput::writeMaskAttributes(const StdString & mask_name,
2455	int data_dim,
2456	int data_ni,
2457	int data_nj,
2458	int data_ibegin,
2459	int data_jbegin)
2460	{
2461	try
2462	{
2463	SuperClassWriter::addAttribute("data_dim" , data_dim , &mask_name);
2464	SuperClassWriter::addAttribute("data_ni" , data_ni , &mask_name);
2465	SuperClassWriter::addAttribute("data_nj" , data_nj , &mask_name);
2466	SuperClassWriter::addAttribute("data_ibegin", data_ibegin, &mask_name);
2467	SuperClassWriter::addAttribute("data_jbegin", data_jbegin, &mask_name);
2468	}
2469	catch (CNetCdfException& e)
2470	{
2471	StdString msg("On writing Mask Attributes \n ");
2472	msg.append("In the context : ");
2473	CContext* context = CContext::getCurrent() ;
2474	msg.append(context->getId()); msg.append("\n");
2475	msg.append(e.what());
2476	ERROR("CNc4DataOutput::writeMaskAttributes(const StdString & mask_name, \
2477	int data_dim, \
2478	int data_ni, \
2479	int data_nj, \
2480	int data_ibegin, \
2481	int data_jbegin)", << msg);
2482	}
2483	}
2484
2485	///--------------------------------------------------------------
2486
2487	StdSize CNc4DataOutput::getRecordFromTime(Time time)
2488	{
2489	std::map<Time, StdSize>::const_iterator it = timeToRecordCache.find(time);
2490	if (it == timeToRecordCache.end())
2491	{
2492	StdString timeAxisBoundsId(getTimeCounterName() + "_bounds");
2493	if (!SuperClassWriter::varExist(timeAxisBoundsId))
2494	timeAxisBoundsId = "time_instant_bounds";
2495
2496	CArray<double,2> timeAxisBounds;
2497	SuperClassWriter::getTimeAxisBounds(timeAxisBounds, timeAxisBoundsId, isCollective);
2498
2499	StdSize record = 0;
2500	double dtime(time);
2501	for (int n = timeAxisBounds.extent(1) - 1; n >= 0; n--)
2502	{
2503	if (timeAxisBounds(1, n) < dtime)
2504	{
2505	record = n + 1;
2506	break;
2507	}
2508	}
2509	it = timeToRecordCache.insert(std::make_pair(time, record)).first;
2510	}
2511	return it->second;
2512	}
2513
2514	///--------------------------------------------------------------
2515
2516	bool CNc4DataOutput::isWrittenDomain(const std::string& domainName) const
2517	{
2518	return (this->writtenDomains.find(domainName) != this->writtenDomains.end());
2519	}
2520
2521	bool CNc4DataOutput::isWrittenCompressedDomain(const std::string& domainName) const
2522	{
2523	return (this->writtenCompressedDomains.find(domainName) != this->writtenCompressedDomains.end());
2524	}
2525
2526	bool CNc4DataOutput::isWrittenAxis(const std::string& axisName) const
2527	{
2528	return (this->writtenAxis.find(axisName) != this->writtenAxis.end());
2529	}
2530
2531	bool CNc4DataOutput::isWrittenCompressedAxis(const std::string& axisName) const
2532	{
2533	return (this->writtenCompressedAxis.find(axisName) != this->writtenCompressedAxis.end());
2534	}
2535
2536	bool CNc4DataOutput::isWrittenScalar(const std::string& scalarName) const
2537	{
2538	return (this->writtenScalar.find(scalarName) != this->writtenScalar.end());
2539	}
2540
2541	void CNc4DataOutput::setWrittenDomain(const std::string& domainName)
2542	{
2543	this->writtenDomains.insert(domainName);
2544	}
2545
2546	void CNc4DataOutput::setWrittenCompressedDomain(const std::string& domainName)
2547	{
2548	this->writtenCompressedDomains.insert(domainName);
2549	}
2550
2551	void CNc4DataOutput::setWrittenAxis(const std::string& axisName)
2552	{
2553	this->writtenAxis.insert(axisName);
2554	}
2555
2556	void CNc4DataOutput::setWrittenCompressedAxis(const std::string& axisName)
2557	{
2558	this->writtenCompressedAxis.insert(axisName);
2559	}
2560
2561	void CNc4DataOutput::setWrittenScalar(const std::string& scalarName)
2562	{
2563	this->writtenScalar.insert(scalarName);
2564	}
2565	} // namespace xios

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source: XIOS/trunk/src/io/nc4_data_output.cpp @ 924

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