Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
PDBEntry	30	118	95	0.00%	Show methods
PDBEntry.Type	62	9	6	0.00%	Show methods

Class PDBEntry

Class PDBEntry	Line # 30	Total Statements 118	Complexity 95	TOTAL Coverage 0.00%
equals(Object) : boolean   equals(Object) : boolean	132132	11.011	7.07	0.0 0.00%
PDBEntry()   PDBEntry()	167167	0.00	1.01	-1.0 -1.0 -
PDBEntry(String,String,PDBEntry.Type,String)   PDBEntry(String,String,PDBEntry.Type,String)	171171	1.01	1.01	0.0 0.00%
init(String,String,PDBEntry.Type,String) : void   init(String,String,PDBEntry.Type,String) : void	183183	4.04	2.02	0.0 0.00%
PDBEntry(PDBEntry)   PDBEntry(PDBEntry)	197197	5.05	2.02	0.0 0.00%
PDBEntry(DBRefEntry)   PDBEntry(DBRefEntry)	215215	10.010	7.07	0.0 0.00%
setFile(String) : void   setFile(String) : void	237237	1.01	1.01	0.0 0.00%
getFile() : String   getFile() : String	242242	1.01	1.01	0.0 0.00%
setType(String) : void   setType(String) : void	247247	1.01	1.01	0.0 0.00%
setType(PDBEntry.Type) : void   setType(PDBEntry.Type) : void	252252	1.01	2.02	0.0 0.00%
getType() : String   getType() : String	257257	1.01	1.01	0.0 0.00%
setId(String) : void   setId(String) : void	262262	1.01	1.01	0.0 0.00%
getId() : String   getId() : String	267267	1.01	1.01	0.0 0.00%
setProperty(String,Object) : void   setProperty(String,Object) : void	272272	3.03	2.02	0.0 0.00%
getProperty(String) : Object   getProperty(String) : Object	281281	1.01	2.02	0.0 0.00%
getProperties() : Enumeration<String>   getProperties() : Enumeration<String>	292292	3.03	2.02	0.0 0.00%
getChainCode() : String   getChainCode() : String	305305	1.01	3.03	0.0 0.00%
setChainCode(String) : void   setChainCode(String) : void	318318	3.03	2.02	0.0 0.00%
deleteProperty(String) : Object   deleteProperty(String) : Object	334334	4.04	2.02	0.0 0.00%
toString() : String   toString() : String	344344	1.01	1.01	0.0 0.00%
getProps() : Hashtable<String, Object>   getProps() : Hashtable<String, Object>	360360	1.01	1.01	0.0 0.00%
setProps(Hashtable<String, Object>) : void   setProps(Hashtable<String, Object>) : void	373373	1.01	1.01	0.0 0.00%
updateFrom(PDBEntry) : boolean   updateFrom(PDBEntry) : boolean	390390	35.035	27.027	0.0 0.00%
setAuthoritative(boolean) : void   setAuthoritative(boolean) : void	504504	1.01	1.01	0.0 0.00%
isAuthoritative() : boolean   isAuthoritative() : boolean	514514	3.03	2.02	0.0 0.00%
fakedPDBId() : boolean   fakedPDBId() : boolean	528528	3.03	2.02	0.0 0.00%
setFakedPDBId(boolean) : void   setFakedPDBId(boolean) : void	537537	4.04	3.03	0.0 0.00%
_hasProperty(String) : boolean   _hasProperty(String) : boolean	552552	1.01	1.01	0.0 0.00%
setRetrievalUrl(String) : void   setRetrievalUrl(String) : void	570570	1.01	1.01	0.0 0.00%
hasRetrievalUrl() : boolean   hasRetrievalUrl() : boolean	575575	1.01	1.01	0.0 0.00%
getRetrievalUrl() : String   getRetrievalUrl() : String	583583	1.01	1.01	0.0 0.00%
setProvider(String) : void   setProvider(String) : void	593593	1.01	1.01	0.0 0.00%
getProvider() : String   getProvider() : String	602602	1.01	1.01	0.0 0.00%
setProviderPage(String) : void   setProviderPage(String) : void	612612	1.01	1.01	0.0 0.00%
getProviderPage() : String   getProviderPage() : String	620620	1.01	1.01	0.0 0.00%
hasProviderPage() : boolean   hasProviderPage() : boolean	625625	1.01	1.01	0.0 0.00%
hasProvider() : boolean   hasProvider() : boolean	630630	1.01	1.01	0.0 0.00%
getStructureFile() : StructureFile   getStructureFile() : StructureFile	635635	1.01	1.01	0.0 0.00%
setStructureFile(StructureFile) : void   setStructureFile(StructureFile) : void	640640	1.01	1.01	0.0 0.00%
hasStructureFile() : boolean   hasStructureFile() : boolean	645645	1.01	1.01	0.0 0.00%
setProviderCategory(String) : void   setProviderCategory(String) : void	650650	1.01	1.01	0.0 0.00%
getProviderCategory() : String   getProviderCategory() : String	655655	1.01	1.01	0.0 0.00%
hasProviderCategory() : boolean   hasProviderCategory() : boolean	660660	1.01	1.01	0.0 0.00%

 

Class PDBEntry.Type

Class PDBEntry.Type	Line # 62	Total Statements 9	Complexity 6	TOTAL Coverage 0.00%
Type(String,String)   Type(String,String)	8282	2.02	1.01	0.0 0.00%
getFormat() : String   getFormat() : String	8888	1.01	1.01	0.0 0.00%
getExtension() : String   getExtension() : String	9393	1.01	1.01	0.0 0.00%
getType(String) : Type   getType(String) : Type	104104	4.04	2.02	0.0 0.00%
matches(String) : boolean   matches(String) : boolean	122122	1.01	1.01	0.0 0.00%

 

Contributing tests

Source view

1		/*
2		* Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
3		* Copyright (C) $$Year-Rel$$ The Jalview Authors
4		*
5		* This file is part of Jalview.
6		*
7		* Jalview is free software: you can redistribute it and/or
8		* modify it under the terms of the GNU General Public License
9		* as published by the Free Software Foundation, either version 3
10		* of the License, or (at your option) any later version.
11		*
12		* Jalview is distributed in the hope that it will be useful, but
13		* WITHOUT ANY WARRANTY; without even the implied warranty
14		* of MERCHANTABILITY or FITNESS FOR A PARTICULAR
15		* PURPOSE. See the GNU General Public License for more details.
16		*
17		* You should have received a copy of the GNU General Public License
18		* along with Jalview. If not, see <http://www.gnu.org/licenses/>.
19		* The Jalview Authors are detailed in the 'AUTHORS' file.
20		*/
21		package jalview.datamodel;
22
23		import java.util.Collections;
24		import java.util.Enumeration;
25		import java.util.Hashtable;
26
27		import jalview.io.StructureFile;
28		import jalview.util.CaseInsensitiveString;
29
		0% Uncovered Elements: 227 (227) Complexity: 95 Complexity Density: 0.81
30		public class PDBEntry
31		{
32
33		/**
34		* constant for storing chain code in properties table
35		*/
36		private static final String CHAIN_ID = "chain_code";
37
38		private Hashtable<String, Object> properties;
39
40		private static final int PDB_ID_LENGTH = 4;
41
42		/**
43		* property set when id is a 'manufactured' identifier from the structure
44		* data's filename
45		*/
46		private static final String FAKED_ID = "faked_pdbid";
47
48		/**
49		* property set when the id is authoritative, and should be used in preference
50		* to any identifiers in the structure data
51		*/
52		private static final String AUTHORITATIVE_ID = "authoritative_pdbid";
53
54		private String file;
55
56		private String type;
57
58		private String id;
59
60		private StructureFile sf = null;
61
		0% Uncovered Elements: 16 (16) Complexity: 6 Complexity Density: 0.67
62		public enum Type
63		{
64		// TODO is FILE needed; if not is this enum needed, or can we
65		// use FileFormatI for PDB, MMCIF?
66		PDB("pdb", "pdb"), MMCIF("mmcif", "cif"), BCIF("bcif", "bcif"),
67		FILE("?", "?");
68
69		/*
70		* file extension for cached structure file; must be one that
71		* is recognised by Chimera 'open' command
72		* @see https://www.cgl.ucsf.edu/chimera/current/docs/UsersGuide/filetypes.html
73		*/
74		String ext;
75
76		/*
77		* format specifier used in dbfetch request
78		* @see http://www.ebi.ac.uk/Tools/dbfetch/dbfetch/dbfetch.databases#pdb
79		*/
80		String format;
81
		0% Uncovered Elements: 2 (2) Complexity: 1 Complexity Density: 0.5
82	0	private Type(String fmt, String ex)...
83		{
84	0	format = fmt;
85	0	ext = ex;
86		}
87
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
88	0	public String getFormat()...
89		{
90	0	return format;
91		}
92
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
93	0	public String getExtension()...
94		{
95	0	return ext;
96		}
97
98		/**
99		* case insensitive matching for Type enum
100		*
101		* @param value
102		* @return
103		*/
		0% Uncovered Elements: 6 (6) Complexity: 2 Complexity Density: 0.5
104	0	public static Type getType(String value)...
105		{
106	0	for (Type t : Type.values())
107		{
108	0	if (t.toString().equalsIgnoreCase(value))
109		{
110	0	return t;
111		}
112		}
113	0	return null;
114		}
115
116		/**
117		* case insensitive equivalence for strings resolving to PDBEntry type
118		*
119		* @param t
120		* @return
121		*/
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
122	0	public boolean matches(String t)...
123		{
124	0	return (this.toString().equalsIgnoreCase(t));
125		}
126		}
127
128		/**
129		* Answers true if obj is a PDBEntry with the same id and chain code (both
130		* ignoring case), file, type and properties
131		*/
		0% Uncovered Elements: 17 (17) Complexity: 7 Complexity Density: 0.64
132	0	@Override...
133		public boolean equals(Object obj)
134		{
135	0	if (obj == null || !(obj instanceof PDBEntry))
136		{
137	0	return false;
138		}
139	0	if (obj == this)
140		{
141	0	return true;
142		}
143	0	PDBEntry o = (PDBEntry) obj;
144
145		/*
146		* note that chain code is stored as a property wrapped by a
147		* CaseInsensitiveString, so we are in effect doing a
148		* case-insensitive comparison of chain codes
149		*/
150	0	boolean idMatches = id == o.id
151		|| (id != null && id.equalsIgnoreCase(o.id));
152	0	boolean fileMatches = file == o.file
153		|| (file != null && file.equals(o.file));
154	0	boolean typeMatches = type == o.type
155		|| (type != null && type.equals(o.type));
156	0	if (idMatches && fileMatches && typeMatches)
157		{
158	0	return properties == o.properties
159		|| (properties != null && properties.equals(o.properties));
160		}
161	0	return false;
162		}
163
164		/**
165		* Default constructor
166		*/
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
167	0	public PDBEntry()...
168		{
169		}
170
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
171	0	public PDBEntry(String pdbId, String chain, PDBEntry.Type type,...
172		String filePath)
173		{
174	0	init(pdbId, chain, type, filePath);
175		}
176
177		/**
178		* @param pdbId
179		* @param chain
180		* @param entryType
181		* @param filePath
182		*/
		0% Uncovered Elements: 6 (6) Complexity: 2 Complexity Density: 0.5
183	0	void init(String pdbId, String chain, PDBEntry.Type entryType,...
184		String filePath)
185		{
186	0	this.id = pdbId;
187	0	this.type = entryType == null ? null : entryType.toString();
188	0	this.file = filePath;
189	0	setChainCode(chain);
190		}
191
192		/**
193		* Copy constructor.
194		*
195		* @param entry
196		*/
		0% Uncovered Elements: 7 (7) Complexity: 2 Complexity Density: 0.4
197	0	public PDBEntry(PDBEntry entry)...
198		{
199	0	file = entry.file;
200	0	type = entry.type;
201	0	id = entry.id;
202	0	if (entry.properties != null)
203		{
204	0	properties = (Hashtable<String, Object>) entry.properties.clone();
205		}
206		}
207
208		/**
209		* Make a PDBEntry from a DBRefEntry. The accession code is used for the PDB
210		* id, but if it is 5 characters in length, the last character is removed and
211		* set as the chain code instead.
212		*
213		* @param dbr
214		*/
		0% Uncovered Elements: 16 (16) Complexity: 7 Complexity Density: 0.7
215	0	public PDBEntry(DBRefEntry dbr)...
216		{
217	0	if (!DBRefSource.PDB.equals(dbr.getSource()))
218		{
219	0	throw new IllegalArgumentException(
220		"Invalid source: " + dbr.getSource());
221		}
222
223	0	String pdbId = dbr.getAccessionId();
224	0	String chainCode = null;
225	0	if (pdbId.length() == PDB_ID_LENGTH + 1)
226		{
227	0	char chain = pdbId.charAt(PDB_ID_LENGTH);
228	0	if (('a' <= chain && chain <= 'z') || ('A' <= chain && chain <= 'Z'))
229		{
230	0	pdbId = pdbId.substring(0, PDB_ID_LENGTH);
231	0	chainCode = String.valueOf(chain);
232		}
233		}
234	0	init(pdbId, chainCode, null, null);
235		}
236
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
237	0	public void setFile(String f)...
238		{
239	0	this.file = f;
240		}
241
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
242	0	public String getFile()...
243		{
244	0	return file;
245		}
246
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
247	0	public void setType(String t)...
248		{
249	0	this.type = t;
250		}
251
		0% Uncovered Elements: 3 (3) Complexity: 2 Complexity Density: 2
252	0	public void setType(PDBEntry.Type type)...
253		{
254	0	this.type = type == null ? null : type.toString();
255		}
256
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
257	0	public String getType()...
258		{
259	0	return type;
260		}
261
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
262	0	public void setId(String id)...
263		{
264	0	this.id = id;
265		}
266
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
267	0	public String getId()...
268		{
269	0	return id;
270		}
271
		0% Uncovered Elements: 5 (5) Complexity: 2 Complexity Density: 0.67
272	0	public void setProperty(String key, Object value)...
273		{
274	0	if (this.properties == null)
275		{
276	0	this.properties = new Hashtable<String, Object>();
277		}
278	0	properties.put(key, value);
279		}
280
		0% Uncovered Elements: 3 (3) Complexity: 2 Complexity Density: 2
281	0	public Object getProperty(String key)...
282		{
283	0	return properties == null ? null : properties.get(key);
284		}
285
286		/**
287		* Returns an enumeration of the keys of this object's properties (or an empty
288		* enumeration if it has no properties)
289		*
290		* @return
291		*/
		0% Uncovered Elements: 5 (5) Complexity: 2 Complexity Density: 0.67
292	0	public Enumeration<String> getProperties()...
293		{
294	0	if (properties == null)
295		{
296	0	return Collections.emptyEnumeration();
297		}
298	0	return properties.keys();
299		}
300
301		/**
302		*
303		* @return null or a string for associated chain IDs
304		*/
		0% Uncovered Elements: 3 (3) Complexity: 3 Complexity Density: 3
305	0	public String getChainCode()...
306		{
307	0	return (properties == null || properties.get(CHAIN_ID) == null) ? null
308		: properties.get(CHAIN_ID).toString();
309		}
310
311		/**
312		* Sets a non-case-sensitive property for the given chain code. Two PDBEntry
313		* objects which differ only in the case of their chain code are considered
314		* equal. This avoids duplication of objects in lists of PDB ids.
315		*
316		* @param chainCode
317		*/
		0% Uncovered Elements: 5 (5) Complexity: 2 Complexity Density: 0.67
318	0	public void setChainCode(String chainCode)...
319		{
320	0	if (chainCode == null)
321		{
322	0	deleteProperty(CHAIN_ID);
323		}
324		else
325		{
326	0	setProperty(CHAIN_ID, new CaseInsensitiveString(chainCode));
327		}
328		}
329
330		/**
331		* Deletes the property with the given key, and returns the deleted value (or
332		* null)
333		*/
		0% Uncovered Elements: 6 (6) Complexity: 2 Complexity Density: 0.5
334	0	Object deleteProperty(String key)...
335		{
336	0	Object result = null;
337	0	if (properties != null)
338		{
339	0	result = properties.remove(key);
340		}
341	0	return result;
342		}
343
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
344	0	@Override...
345		public String toString()
346		{
347	0	return id;
348		}
349
350		/**
351		* Getter provided for Castor binding only. Application code should call
352		* getProperty() or getProperties() instead.
353		*
354		* @deprecated
355		* @see #getProperty(String)
356		* @see #getProperties()
357		* @see jalview.ws.dbsources.Uniprot#getUniprotEntries
358		* @return
359		*/
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
360	0	@Deprecated...
361		public Hashtable<String, Object> getProps()
362		{
363	0	return properties;
364		}
365
366		/**
367		* Setter provided for Castor binding only. Application code should call
368		* setProperty() instead.
369		*
370		* @deprecated
371		* @return
372		*/
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
373	0	@Deprecated...
374		public void setProps(Hashtable<String, Object> props)
375		{
376	0	properties = props;
377		}
378
379		/**
380		* Answers true if this object is either equivalent to, or can be 'improved'
381		* by, the given entry.
382		* <p>
383		* If newEntry has the same id (ignoring case), and doesn't have a conflicting
384		* file spec or chain code, then update this entry from its file and/or chain
385		* code.
386		*
387		* @param newEntry
388		* @return true if modifications were made
389		*/
		0% Uncovered Elements: 63 (63) Complexity: 27 Complexity Density: 0.77
390	0	public boolean updateFrom(PDBEntry newEntry)...
391		{
392	0	if (this.equals(newEntry))
393		{
394	0	return true;
395		}
396
397	0	String newId = newEntry.getId();
398	0	if (newId == null || getId() == null)
399		{
400	0	return false; // shouldn't happen
401		}
402
403	0	boolean idMatches = getId().equalsIgnoreCase(newId);
404
405		/*
406		* Don't update if associated with different structure files
407		*/
408	0	String newFile = newEntry.getFile();
409	0	if (newFile != null && getFile() != null)
410		{
411	0	if (!newFile.equals(getFile()))
412		{
413	0	return false;
414		}
415		else
416		{
417		// files match.
418	0	if (!idMatches)
419		{
420		// this shouldn't happen, but could do if the id from the
421		// file is not the same as the id from the authority that provided
422		// the file
423	0	if (!newEntry.fakedPDBId() && !isAuthoritative())
424		{
425	0	return false;
426		} // otherwise we can update
427		}
428		}
429		}
430		else
431		{
432		// one has data, one doesn't ..
433	0	if (!idMatches)
434		{
435	0	return false;
436		} // otherwise maybe can update
437		}
438
439		/*
440		* Don't update if associated with different chains (ignoring case)
441		*/
442	0	String newChain = newEntry.getChainCode();
443	0	if (newChain != null && newChain.length() > 0 && getChainCode() != null
444		&& getChainCode().length() > 0
445		&& !getChainCode().equalsIgnoreCase(newChain))
446		{
447	0	return false;
448		}
449
450		/*
451		* set file path if not already set
452		*/
453	0	String newType = newEntry.getType();
454	0	if (getFile() == null && newFile != null)
455		{
456	0	setFile(newFile);
457	0	setType(newType);
458		}
459
460		/*
461		* set file type if new entry has it and we don't
462		* (for the case where file was not updated)
463		*/
464	0	if (getType() == null && newType != null)
465		{
466	0	setType(newType);
467		}
468
469		/*
470		* set chain if not already set (we excluded differing
471		* chains earlier) (ignoring case change only)
472		*/
473	0	if (newChain != null && newChain.length() > 0
474		&& !newChain.equalsIgnoreCase(getChainCode()))
475		{
476	0	setChainCode(newChain);
477		}
478
479		/*
480		* copy any new or modified properties
481		*/
482	0	Enumeration<String> newProps = newEntry.getProperties();
483	0	while (newProps.hasMoreElements())
484		{
485		/*
486		* copy properties unless value matches; this defends against changing
487		* the case of chain_code which is wrapped in a CaseInsensitiveString
488		*/
489	0	String key = newProps.nextElement();
490	0	Object value = newEntry.getProperty(key);
491	0	if (FAKED_ID.equals(key) || AUTHORITATIVE_ID.equals(key))
492		{
493		// we never update the fake ID property
494	0	continue;
495		}
496	0	if (!value.equals(getProperty(key)))
497		{
498	0	setProperty(key, value);
499		}
500		}
501	0	return true;
502		}
503
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
504	0	public void setAuthoritative(boolean isAuthoritative)...
505		{
506	0	setProperty(AUTHORITATIVE_ID, Boolean.valueOf(isAuthoritative));
507		}
508
509		/**
510		*
511		* @return true if the identifier should be preferred over any identifiers
512		* embedded in the structure data
513		*/
		0% Uncovered Elements: 5 (5) Complexity: 2 Complexity Density: 0.67
514	0	public boolean isAuthoritative()...
515		{
516	0	if (_hasProperty(AUTHORITATIVE_ID))
517		{
518	0	return ((Boolean) getProperty(AUTHORITATIVE_ID));
519		}
520	0	return false;
521		}
522
523		/**
524		* set when Jalview has manufactured the ID using a local filename
525		*
526		* @return
527		*/
		0% Uncovered Elements: 5 (5) Complexity: 2 Complexity Density: 0.67
528	0	public boolean fakedPDBId()...
529		{
530	0	if (_hasProperty(FAKED_ID))
531		{
532	0	return true;
533		}
534	0	return false;
535		}
536
		0% Uncovered Elements: 8 (8) Complexity: 3 Complexity Density: 0.75
537	0	public void setFakedPDBId(boolean faked)...
538		{
539	0	if (faked)
540		{
541	0	setProperty(FAKED_ID, Boolean.TRUE);
542		}
543		else
544		{
545	0	if (properties != null)
546		{
547	0	properties.remove(FAKED_ID);
548		}
549		}
550		}
551
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
552	0	private boolean _hasProperty(final String key)...
553		{
554	0	return (properties != null && properties.containsKey(key));
555		}
556
557		private static final String RETRIEVE_FROM = "RETRIEVE_FROM";
558
559		private static final String PROVIDER = "PROVIDER";
560
561		private static final String MODELPAGE = "PROVIDERPAGE";
562
563		private static final String PROVIDERCATEGORY = "PROVIDERCATEGORY";
564
565		/**
566		* Permanent URI for retrieving the original structure data
567		*
568		* @param urlStr
569		*/
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
570	0	public void setRetrievalUrl(String urlStr)...
571		{
572	0	setProperty(RETRIEVE_FROM, urlStr);
573		}
574
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
575	0	public boolean hasRetrievalUrl()...
576		{
577	0	return _hasProperty(RETRIEVE_FROM);
578		}
579
580		/**
581		* get the Permanent URI for retrieving the original structure data
582		*/
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
583	0	public String getRetrievalUrl()...
584		{
585	0	return (String) getProperty(RETRIEVE_FROM);
586		}
587
588		/**
589		* Data provider name - from 3D Beacons
590		*
591		* @param provider
592		*/
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
593	0	public void setProvider(String provider)...
594		{
595	0	setProperty(PROVIDER, provider);
596		}
597
598		/**
599		* Get Data provider name - from 3D Beacons
600		*
601		*/
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
602	0	public String getProvider()...
603		{
604	0	return (String) getProperty(PROVIDER);
605		}
606
607		/**
608		* Permanent URI for retrieving the original structure data
609		*
610		* @param urlStr
611		*/
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
612	0	public void setProviderPage(String urlStr)...
613		{
614	0	setProperty(MODELPAGE, urlStr);
615		}
616
617		/**
618		* get the Permanent URI for retrieving the original structure data
619		*/
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
620	0	public String getProviderPage()...
621		{
622	0	return (String) getProperty(MODELPAGE);
623		}
624
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
625	0	public boolean hasProviderPage()...
626		{
627	0	return _hasProperty(MODELPAGE);
628		}
629
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
630	0	public boolean hasProvider()...
631		{
632	0	return _hasProperty(PROVIDER);
633		}
634
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
635	0	public StructureFile getStructureFile()...
636		{
637	0	return sf;
638		}
639
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
640	0	public void setStructureFile(StructureFile f)...
641		{
642	0	sf = f;
643		}
644
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
645	0	public boolean hasStructureFile()...
646		{
647	0	return sf != null && sf.inFile != null && sf.inFile.exists();
648		}
649
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
650	0	public void setProviderCategory(String providerCategory)...
651		{
652	0	setProperty(PROVIDERCATEGORY, providerCategory);
653		}
654
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
655	0	public String getProviderCategory()...
656		{
657	0	return (String) getProperty(PROVIDERCATEGORY);
658		}
659
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
660	0	public boolean hasProviderCategory()...
661		{
662	0	return _hasProperty(PROVIDERCATEGORY);
663		}
664
665		}