Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
ResiduePropertiesTest	35	1,464	12	0.00%	Show methods

Class ResiduePropertiesTest

Class ResiduePropertiesTest	Line # 35	Total Statements 1,464	Complexity 12	TOTAL Coverage 0.00%
setUpJvOptionPane() : void   setUpJvOptionPane() : void	3838	2.02	1.01	0.0 0.00%
testCodonTranslate() : void   testCodonTranslate() : void	4848	64.064	1.01	0.0 0.00%
testCodonTranslate_ambiguityCodes() : void   testCodonTranslate_ambiguityCodes() : void	122122	55.055	1.01	0.0 0.00%
testGetResidues_nucleotide() : void   testGetResidues_nucleotide() : void	209209	6.06	1.01	0.0 0.00%
testGetResidues_peptide() : void   testGetResidues_peptide() : void	229229	6.06	1.01	0.0 0.00%
testGetCanonicalAminoAcid() : void   testGetCanonicalAminoAcid() : void	252252	1302.01,302	1.01	0.0 0.00%
testGetSingleCharacterCode() : void   testGetSingleCharacterCode() : void	15611561	6.06	1.01	0.0 0.00%
testGetDssp3State() : void   testGetDssp3State() : void	15721572	5.05	1.01	0.0 0.00%
testPhysicoChemicalProperties() : void   testPhysicoChemicalProperties() : void	15821582	10.010	1.01	0.0 0.00%
checkProperty(String,String) : void   checkProperty(String,String) : void	16041604	8.08	3.03	0.0 0.00%

 

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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.schemes;
22
23		import static org.testng.AssertJUnit.assertEquals;
24		import static org.testng.AssertJUnit.assertNull;
25
26		import java.util.Collections;
27		import java.util.List;
28		import java.util.Map;
29
30		import org.testng.annotations.BeforeClass;
31		import org.testng.annotations.Test;
32
33		import jalview.gui.JvOptionPane;
34
		0% Uncovered Elements: 1,478 (1,478) Complexity: 12 Complexity Density: 0.01
35		public class ResiduePropertiesTest
36		{
37
		0% Uncovered Elements: 2 (2) Complexity: 1 Complexity Density: 0.5
38	0	@BeforeClass(alwaysRun = true)...
39		public void setUpJvOptionPane()
40		{
41	0	JvOptionPane.setInteractiveMode(false);
42	0	JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
43		}
44
45		/**
46		* Test 'standard' codon translations (no ambiguity codes)
47		*/
		0% Uncovered Elements: 64 (64) Complexity: 1 Complexity Density: 0.02 4-
48	0	@Test(groups = { "Functional" })...
49		public void testCodonTranslate()
50		{
51		// standard translation table order column 1/2/3/4
52	0	assertEquals("F", ResidueProperties.codonTranslate("TTT"));
53	0	assertEquals("F", ResidueProperties.codonTranslate("TTC"));
54	0	assertEquals("L", ResidueProperties.codonTranslate("TTA"));
55	0	assertEquals("L", ResidueProperties.codonTranslate("TTG"));
56	0	assertEquals("L", ResidueProperties.codonTranslate("CTT"));
57	0	assertEquals("L", ResidueProperties.codonTranslate("CTC"));
58	0	assertEquals("L", ResidueProperties.codonTranslate("CTA"));
59	0	assertEquals("L", ResidueProperties.codonTranslate("CTG"));
60	0	assertEquals("I", ResidueProperties.codonTranslate("ATT"));
61	0	assertEquals("I", ResidueProperties.codonTranslate("ATC"));
62	0	assertEquals("I", ResidueProperties.codonTranslate("ATA"));
63	0	assertEquals("M", ResidueProperties.codonTranslate("ATG"));
64	0	assertEquals("V", ResidueProperties.codonTranslate("GTT"));
65	0	assertEquals("V", ResidueProperties.codonTranslate("GTC"));
66	0	assertEquals("V", ResidueProperties.codonTranslate("GTA"));
67	0	assertEquals("V", ResidueProperties.codonTranslate("GTG"));
68	0	assertEquals("S", ResidueProperties.codonTranslate("TCT"));
69	0	assertEquals("S", ResidueProperties.codonTranslate("TCC"));
70	0	assertEquals("S", ResidueProperties.codonTranslate("TCA"));
71	0	assertEquals("S", ResidueProperties.codonTranslate("TCG"));
72	0	assertEquals("P", ResidueProperties.codonTranslate("CCT"));
73	0	assertEquals("P", ResidueProperties.codonTranslate("CCC"));
74	0	assertEquals("P", ResidueProperties.codonTranslate("CCA"));
75	0	assertEquals("P", ResidueProperties.codonTranslate("CCG"));
76	0	assertEquals("T", ResidueProperties.codonTranslate("ACT"));
77	0	assertEquals("T", ResidueProperties.codonTranslate("ACC"));
78	0	assertEquals("T", ResidueProperties.codonTranslate("ACA"));
79	0	assertEquals("T", ResidueProperties.codonTranslate("ACG"));
80	0	assertEquals("A", ResidueProperties.codonTranslate("GCT"));
81	0	assertEquals("A", ResidueProperties.codonTranslate("GCC"));
82	0	assertEquals("A", ResidueProperties.codonTranslate("GCA"));
83	0	assertEquals("A", ResidueProperties.codonTranslate("GCG"));
84	0	assertEquals("Y", ResidueProperties.codonTranslate("TAT"));
85	0	assertEquals("Y", ResidueProperties.codonTranslate("TAC"));
86	0	assertEquals("STOP", ResidueProperties.codonTranslate("TAA"));
87	0	assertEquals("STOP", ResidueProperties.codonTranslate("TAG"));
88	0	assertEquals("H", ResidueProperties.codonTranslate("CAT"));
89	0	assertEquals("H", ResidueProperties.codonTranslate("CAC"));
90	0	assertEquals("Q", ResidueProperties.codonTranslate("CAA"));
91	0	assertEquals("Q", ResidueProperties.codonTranslate("CAG"));
92	0	assertEquals("N", ResidueProperties.codonTranslate("AAT"));
93	0	assertEquals("N", ResidueProperties.codonTranslate("AAC"));
94	0	assertEquals("K", ResidueProperties.codonTranslate("AAA"));
95	0	assertEquals("K", ResidueProperties.codonTranslate("AAG"));
96	0	assertEquals("D", ResidueProperties.codonTranslate("GAT"));
97	0	assertEquals("D", ResidueProperties.codonTranslate("GAC"));
98	0	assertEquals("E", ResidueProperties.codonTranslate("GAA"));
99	0	assertEquals("E", ResidueProperties.codonTranslate("GAG"));
100	0	assertEquals("C", ResidueProperties.codonTranslate("TGT"));
101	0	assertEquals("C", ResidueProperties.codonTranslate("TGC"));
102	0	assertEquals("STOP", ResidueProperties.codonTranslate("TGA"));
103	0	assertEquals("W", ResidueProperties.codonTranslate("TGG"));
104	0	assertEquals("R", ResidueProperties.codonTranslate("CGT"));
105	0	assertEquals("R", ResidueProperties.codonTranslate("CGC"));
106	0	assertEquals("R", ResidueProperties.codonTranslate("CGA"));
107	0	assertEquals("R", ResidueProperties.codonTranslate("CGG"));
108	0	assertEquals("S", ResidueProperties.codonTranslate("AGT"));
109	0	assertEquals("S", ResidueProperties.codonTranslate("AGC"));
110	0	assertEquals("R", ResidueProperties.codonTranslate("AGA"));
111	0	assertEquals("R", ResidueProperties.codonTranslate("AGG"));
112	0	assertEquals("G", ResidueProperties.codonTranslate("GGT"));
113	0	assertEquals("G", ResidueProperties.codonTranslate("GGC"));
114	0	assertEquals("G", ResidueProperties.codonTranslate("GGA"));
115	0	assertEquals("G", ResidueProperties.codonTranslate("GGG"));
116		}
117
118		/**
119		* Test a sample of codon translations involving ambiguity codes. Should
120		* return a protein value where the ambiguity does not affect the translation.
121		*/
		0% Uncovered Elements: 55 (55) Complexity: 1 Complexity Density: 0.02 4-
122	0	@Test(groups = { "Functional" })...
123		public void testCodonTranslate_ambiguityCodes()
124		{
125		// Y is C or T
126	0	assertEquals("C", ResidueProperties.codonTranslate("TGY"));
127		// Phenylalanine first base variation
128	0	assertEquals("L", ResidueProperties.codonTranslate("YTA"));
129
130		// W is A or T
131	0	assertEquals("L", ResidueProperties.codonTranslate("CTW"));
132	0	assertNull(ResidueProperties.codonTranslate("TTW"));
133
134		// S is G or C
135	0	assertEquals("G", ResidueProperties.codonTranslate("GGS"));
136	0	assertNull(ResidueProperties.codonTranslate("ATS"));
137
138		// K is T or G
139	0	assertEquals("S", ResidueProperties.codonTranslate("TCK"));
140	0	assertNull(ResidueProperties.codonTranslate("ATK"));
141
142		// M is C or A
143	0	assertEquals("T", ResidueProperties.codonTranslate("ACM"));
144		// Arginine first base variation
145	0	assertEquals("R", ResidueProperties.codonTranslate("MGA"));
146	0	assertEquals("R", ResidueProperties.codonTranslate("MGG"));
147	0	assertNull(ResidueProperties.codonTranslate("TAM"));
148
149		// D is A, G or T
150	0	assertEquals("P", ResidueProperties.codonTranslate("CCD"));
151	0	assertNull(ResidueProperties.codonTranslate("AAD"));
152
153		// V is A, C or G
154	0	assertEquals("V", ResidueProperties.codonTranslate("GTV"));
155	0	assertNull(ResidueProperties.codonTranslate("TTV"));
156
157		// H is A, C or T
158	0	assertEquals("A", ResidueProperties.codonTranslate("GCH"));
159	0	assertEquals("I", ResidueProperties.codonTranslate("ATH"));
160	0	assertNull(ResidueProperties.codonTranslate("AGH"));
161
162		// B is C, G or T
163	0	assertEquals("P", ResidueProperties.codonTranslate("CCB"));
164	0	assertNull(ResidueProperties.codonTranslate("TAB"));
165
166		// R is A or G
167		// additional tests for JAL-1685 (resolved)
168	0	assertEquals("L", ResidueProperties.codonTranslate("CTR"));
169	0	assertEquals("V", ResidueProperties.codonTranslate("GTR"));
170	0	assertEquals("S", ResidueProperties.codonTranslate("TCR"));
171	0	assertEquals("P", ResidueProperties.codonTranslate("CCR"));
172	0	assertEquals("T", ResidueProperties.codonTranslate("ACR"));
173	0	assertEquals("A", ResidueProperties.codonTranslate("GCR"));
174	0	assertEquals("R", ResidueProperties.codonTranslate("CGR"));
175	0	assertEquals("G", ResidueProperties.codonTranslate("GGR"));
176	0	assertEquals("R", ResidueProperties.codonTranslate("AGR"));
177	0	assertEquals("E", ResidueProperties.codonTranslate("GAR"));
178	0	assertEquals("K", ResidueProperties.codonTranslate("AAR"));
179	0	assertEquals("L", ResidueProperties.codonTranslate("TTR"));
180	0	assertEquals("Q", ResidueProperties.codonTranslate("CAR"));
181	0	assertEquals("STOP", ResidueProperties.codonTranslate("TAR"));
182	0	assertEquals("STOP", ResidueProperties.codonTranslate("TRA"));
183		// Arginine first and third base ambiguity
184	0	assertEquals("R", ResidueProperties.codonTranslate("MGR"));
185	0	assertNull(ResidueProperties.codonTranslate("ATR"));
186
187		// N is any base; 8 proteins accept any base in 3rd position
188	0	assertEquals("L", ResidueProperties.codonTranslate("CTN"));
189	0	assertEquals("V", ResidueProperties.codonTranslate("GTN"));
190	0	assertEquals("S", ResidueProperties.codonTranslate("TCN"));
191	0	assertEquals("P", ResidueProperties.codonTranslate("CCN"));
192	0	assertEquals("T", ResidueProperties.codonTranslate("ACN"));
193	0	assertEquals("A", ResidueProperties.codonTranslate("GCN"));
194	0	assertEquals("R", ResidueProperties.codonTranslate("CGN"));
195	0	assertEquals("G", ResidueProperties.codonTranslate("GGN"));
196	0	assertNull(ResidueProperties.codonTranslate("ATN"));
197	0	assertNull(ResidueProperties.codonTranslate("ANT"));
198	0	assertNull(ResidueProperties.codonTranslate("NAT"));
199	0	assertNull(ResidueProperties.codonTranslate("ANN"));
200	0	assertNull(ResidueProperties.codonTranslate("NNA"));
201	0	assertNull(ResidueProperties.codonTranslate("NNN"));
202
203		// some random stuff
204	0	assertNull(ResidueProperties.codonTranslate("YWB"));
205	0	assertNull(ResidueProperties.codonTranslate("VHD"));
206	0	assertNull(ResidueProperties.codonTranslate("WSK"));
207		}
208
		0% Uncovered Elements: 6 (6) Complexity: 1 Complexity Density: 0.17 4-
209	0	@Test(groups = { "Functional" })...
210		public void testGetResidues_nucleotide()
211		{
212		/*
213		* Non-ambiguous only; we don't care about the order of the list, it is just
214		* sorted here to make assertions reliable
215		*/
216	0	List<String> residues = ResidueProperties.getResidues(true, false);
217	0	Collections.sort(residues);
218	0	assertEquals("[A, C, G, T, U]", residues.toString());
219
220		/*
221		* Including ambiguity codes I N R X Y
222		*/
223	0	residues = ResidueProperties.getResidues(true, true);
224	0	Collections.sort(residues);
225	0	assertEquals("[A, B, C, D, G, H, I, K, M, N, R, S, T, U, V, W, X, Y]",
226		residues.toString());
227		}
228
		0% Uncovered Elements: 6 (6) Complexity: 1 Complexity Density: 0.17 4-
229	0	@Test(groups = { "Functional" })...
230		public void testGetResidues_peptide()
231		{
232		/*
233		* Non-ambiguous only; we don't care about the order of the list, it is just
234		* sorted here to make assertions reliable
235		*/
236	0	List<String> residues = ResidueProperties.getResidues(false, false);
237	0	Collections.sort(residues);
238	0	assertEquals(
239		"[ALA, ARG, ASN, ASP, CYS, GLN, GLU, GLY, HIS, ILE, LEU, LYS, MET, PHE, PRO, SER, THR, TRP, TYR, VAL]",
240		residues.toString());
241
242		/*
243		* Including ambiguity codes ASX, GLX, XAA
244		*/
245	0	residues = ResidueProperties.getResidues(false, true);
246	0	Collections.sort(residues);
247	0	assertEquals(
248		"[ALA, ARG, ASN, ASP, ASX, CYS, GLN, GLU, GLX, GLY, HIS, ILE, LEU, LYS, MET, PHE, PRO, SER, THR, TRP, TYR, VAL, XAA]",
249		residues.toString());
250		}
251
		0% Uncovered Elements: 1,302 (1,302) Complexity: 1 Complexity Density: 0 4-
252	0	@Test(groups = { "Functional" })...
253		public void testGetCanonicalAminoAcid()
254		{
255	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MET"));
256	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MSE"));
257
258	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("00C"));
259	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("01W"));
260	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("02K"));
261	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("03Y"));
262	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("07O"));
263	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("08P"));
264	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("0A0"));
265	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("0A1"));
266	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("0A2"));
267	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("0A8"));
268	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("0AA"));
269	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("0AB"));
270	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("0AC"));
271	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("0AD"));
272	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("0AF"));
273	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("0AG"));
274	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("0AH"));
275	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("0AK"));
276	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("0AM"));
277	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("0AP"));
278	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("0AU"));
279	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("0AV"));
280	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("0AZ"));
281	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("0BN"));
282	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("0C "));
283	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("0CS"));
284	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("0DC"));
285	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("0DG"));
286	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("0DT"));
287	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("0FL"));
288	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("0G "));
289	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("0NC"));
290	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("0SP"));
291	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("0U "));
292	0	assertEquals("YG", ResidueProperties.getCanonicalAminoAcid("0YG"));
293	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("10C"));
294	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("125"));
295	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("126"));
296	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("127"));
297	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("128"));
298	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("12A"));
299	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("143"));
300	0	assertEquals("ASG", ResidueProperties.getCanonicalAminoAcid("175"));
301	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("193"));
302	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("1AP"));
303	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("1MA"));
304	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("1MG"));
305	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("1PA"));
306	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("1PI"));
307	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("1PR"));
308	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("1SC"));
309	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("1TQ"));
310	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("1TY"));
311	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("1X6"));
312	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("200"));
313	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("23F"));
314	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("23S"));
315	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("26B"));
316	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("2AD"));
317	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("2AG"));
318	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("2AO"));
319	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("2AR"));
320	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("2AS"));
321	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2AT"));
322	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("2AU"));
323	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("2BD"));
324	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2BT"));
325	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("2BU"));
326	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("2CO"));
327	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("2DA"));
328	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("2DF"));
329	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("2DM"));
330	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("2DO"));
331	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2DT"));
332	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("2EG"));
333	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("2FE"));
334	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("2FI"));
335	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("2FM"));
336	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2GT"));
337	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("2HF"));
338	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("2LU"));
339	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("2MA"));
340	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("2MG"));
341	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("2ML"));
342	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("2MR"));
343	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("2MT"));
344	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("2MU"));
345	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2NT"));
346	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("2OM"));
347	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2OT"));
348	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("2PI"));
349	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("2PR"));
350	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("2SA"));
351	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("2SI"));
352	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2ST"));
353	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2TL"));
354	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("2TY"));
355	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("2VA"));
356	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("2XA"));
357	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("32S"));
358	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("32T"));
359	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("3AH"));
360	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("3AR"));
361	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("3CF"));
362	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("3DA"));
363	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("3DR"));
364	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("3GA"));
365	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("3MD"));
366	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("3ME"));
367	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("3NF"));
368	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("3QN"));
369	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("3TY"));
370	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("3XH"));
371	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("4AC"));
372	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("4BF"));
373	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("4CF"));
374	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("4CY"));
375	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("4DP"));
376	0	assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("4F3"));
377	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("4FB"));
378	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("4FW"));
379	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("4HT"));
380	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("4IN"));
381	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("4MF"));
382	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("4MM"));
383	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("4OC"));
384	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("4PC"));
385	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("4PD"));
386	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("4PE"));
387	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("4PH"));
388	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("4SC"));
389	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("4SU"));
390	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("4TA"));
391	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("4U7"));
392	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("56A"));
393	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("5AA"));
394	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("5AB"));
395	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("5AT"));
396	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("5BU"));
397	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("5CG"));
398	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5CM"));
399	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5CS"));
400	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("5FA"));
401	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5FC"));
402	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("5FU"));
403	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("5HP"));
404	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("5HT"));
405	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("5HU"));
406	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5IC"));
407	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("5IT"));
408	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("5IU"));
409	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5MC"));
410	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("5MD"));
411	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("5MU"));
412	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5NC"));
413	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5PC"));
414	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("5PY"));
415	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("5SE"));
416	0	assertEquals("TWG", ResidueProperties.getCanonicalAminoAcid("5ZA"));
417	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("64T"));
418	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("6CL"));
419	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("6CT"));
420	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("6CW"));
421	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("6HA"));
422	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("6HC"));
423	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("6HG"));
424	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("6HN"));
425	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("6HT"));
426	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("6IA"));
427	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("6MA"));
428	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("6MC"));
429	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("6MI"));
430	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("6MT"));
431	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("6MZ"));
432	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("6OG"));
433	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("70U"));
434	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("7DA"));
435	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("7GU"));
436	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("7JA"));
437	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("7MG"));
438	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("8AN"));
439	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("8FG"));
440	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("8MG"));
441	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("8OG"));
442	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("9NE"));
443	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("9NF"));
444	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("9NR"));
445	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("9NV"));
446	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A "));
447	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("A1P"));
448	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A23"));
449	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A2L"));
450	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A2M"));
451	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A34"));
452	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A35"));
453	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A38"));
454	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A39"));
455	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A3A"));
456	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A3P"));
457	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A40"));
458	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A43"));
459	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A44"));
460	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A47"));
461	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A5L"));
462	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("A5M"));
463	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("A5N"));
464	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A5O"));
465	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("A66"));
466	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AA3"));
467	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AA4"));
468	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("AAR"));
469	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AB7"));
470	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ABA"));
471	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ABR"));
472	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ABS"));
473	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ABT"));
474	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ACB"));
475	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("ACL"));
476	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AD2"));
477	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("ADD"));
478	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ADX"));
479	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AEA"));
480	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("AEI"));
481	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AET"));
482	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("AFA"));
483	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("AFF"));
484	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("AFG"));
485	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("AGM"));
486	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("AGT"));
487	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("AHB"));
488	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AHH"));
489	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AHO"));
490	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AHP"));
491	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AHS"));
492	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AHT"));
493	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AIB"));
494	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("AKL"));
495	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("AKZ"));
496	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALA"));
497	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALC"));
498	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALM"));
499	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALN"));
500	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("ALO"));
501	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("ALQ"));
502	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALS"));
503	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALT"));
504	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALV"));
505	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("ALY"));
506	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AN8"));
507	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AP7"));
508	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("APE"));
509	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("APH"));
510	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("API"));
511	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("APK"));
512	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("APM"));
513	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("APP"));
514	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("AR2"));
515	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("AR4"));
516	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("AR7"));
517	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("ARG"));
518	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("ARM"));
519	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("ARO"));
520	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("ARV"));
521	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AS "));
522	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("AS2"));
523	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AS9"));
524	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASA"));
525	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASB"));
526	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASI"));
527	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASK"));
528	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASL"));
529	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("ASM"));
530	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ASN"));
531	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASP"));
532	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASQ"));
533	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ASU"));
534	0	assertEquals("ASX", ResidueProperties.getCanonicalAminoAcid("ASX"));
535	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("ATD"));
536	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("ATL"));
537	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("ATM"));
538	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AVC"));
539	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AVN"));
540	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AYA"));
541	0	assertEquals("AYG", ResidueProperties.getCanonicalAminoAcid("AYG"));
542	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("AZK"));
543	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("AZS"));
544	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("AZY"));
545	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("B1F"));
546	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("B1P"));
547	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("B2A"));
548	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("B2F"));
549	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("B2I"));
550	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("B2V"));
551	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("B3A"));
552	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("B3D"));
553	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("B3E"));
554	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("B3K"));
555	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("B3L"));
556	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("B3M"));
557	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("B3Q"));
558	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("B3S"));
559	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("B3T"));
560	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("B3U"));
561	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("B3X"));
562	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("B3Y"));
563	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BB6"));
564	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BB7"));
565	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("BB8"));
566	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BB9"));
567	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BBC"));
568	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BCS"));
569	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("BE2"));
570	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("BFD"));
571	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("BG1"));
572	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("BGM"));
573	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("BH2"));
574	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("BHD"));
575	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("BIF"));
576	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("BIL"));
577	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("BIU"));
578	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("BJH"));
579	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("BLE"));
580	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("BLY"));
581	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("BMP"));
582	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("BMT"));
583	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("BNN"));
584	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("BNO"));
585	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("BOE"));
586	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("BOR"));
587	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BPE"));
588	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("BRU"));
589	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("BSE"));
590	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("BT5"));
591	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("BTA"));
592	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BTC"));
593	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("BTR"));
594	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BUC"));
595	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("BUG"));
596	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("BVP"));
597	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("BZG"));
598	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C "));
599	0	assertEquals("TYG", ResidueProperties.getCanonicalAminoAcid("C12"));
600	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("C1X"));
601	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C25"));
602	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C2L"));
603	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C2S"));
604	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C31"));
605	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C32"));
606	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C34"));
607	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C36"));
608	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C37"));
609	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C38"));
610	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C3Y"));
611	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C42"));
612	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C43"));
613	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C45"));
614	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C46"));
615	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C49"));
616	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C4R"));
617	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C4S"));
618	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C5C"));
619	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("C66"));
620	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C6C"));
621	0	assertEquals("TFG", ResidueProperties.getCanonicalAminoAcid("C99"));
622	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CAF"));
623	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CAL"));
624	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CAR"));
625	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CAS"));
626	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CAV"));
627	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CAY"));
628	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CB2"));
629	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CBR"));
630	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CBV"));
631	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CCC"));
632	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("CCL"));
633	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CCS"));
634	0	assertEquals("CYG", ResidueProperties.getCanonicalAminoAcid("CCY"));
635	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CDE"));
636	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CDV"));
637	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CDW"));
638	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CEA"));
639	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CFL"));
640	0	assertEquals("FCYG", ResidueProperties.getCanonicalAminoAcid("CFY")); // check
641	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("CG1"));
642	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("CGA"));
643	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("CGU"));
644	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CH "));
645	0	assertEquals("MYG", ResidueProperties.getCanonicalAminoAcid("CH6"));
646	0	assertEquals("KYG", ResidueProperties.getCanonicalAminoAcid("CH7"));
647	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CHF"));
648	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CHG"));
649	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("CHP"));
650	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CHS"));
651	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("CIR"));
652	0	assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("CJO"));
653	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("CLE"));
654	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("CLG"));
655	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("CLH"));
656	0	assertEquals("AFG", ResidueProperties.getCanonicalAminoAcid("CLV"));
657	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("CM0"));
658	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CME"));
659	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CMH"));
660	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CML"));
661	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CMR"));
662	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CMT"));
663	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("CNU"));
664	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CP1"));
665	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CPC"));
666	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CPI"));
667	0	assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("CQR"));
668	0	assertEquals("TLG", ResidueProperties.getCanonicalAminoAcid("CR0"));
669	0	assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("CR2"));
670	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("CR5"));
671	0	assertEquals("KYG", ResidueProperties.getCanonicalAminoAcid("CR7"));
672	0	assertEquals("HYG", ResidueProperties.getCanonicalAminoAcid("CR8"));
673	0	assertEquals("TWG", ResidueProperties.getCanonicalAminoAcid("CRF"));
674	0	assertEquals("THG", ResidueProperties.getCanonicalAminoAcid("CRG"));
675	0	assertEquals("MYG", ResidueProperties.getCanonicalAminoAcid("CRK"));
676	0	assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("CRO"));
677	0	assertEquals("QYG", ResidueProperties.getCanonicalAminoAcid("CRQ"));
678	0	assertEquals("EYG", ResidueProperties.getCanonicalAminoAcid("CRU"));
679	0	assertEquals("ASG", ResidueProperties.getCanonicalAminoAcid("CRW"));
680	0	assertEquals("ASG", ResidueProperties.getCanonicalAminoAcid("CRX"));
681	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CS0"));
682	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CS1"));
683	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CS3"));
684	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CS4"));
685	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("CS8"));
686	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSA"));
687	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSB"));
688	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSD"));
689	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSE"));
690	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSF"));
691	0	assertEquals("SHG", ResidueProperties.getCanonicalAminoAcid("CSH"));
692	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("CSI"));
693	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSJ"));
694	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSL"));
695	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSO"));
696	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSP"));
697	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSR"));
698	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSS"));
699	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSU"));
700	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSW"));
701	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSX"));
702	0	assertEquals("SYG", ResidueProperties.getCanonicalAminoAcid("CSY"));
703	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSZ"));
704	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("CTE"));
705	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("CTG"));
706	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("CTH"));
707	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CUC"));
708	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("CWR"));
709	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("CXM"));
710	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CY0"));
711	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CY1"));
712	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CY3"));
713	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CY4"));
714	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYA"));
715	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYD"));
716	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYF"));
717	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYG"));
718	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CYJ"));
719	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYM"));
720	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYQ"));
721	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYR"));
722	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYS"));
723	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CZ2"));
724	0	assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("CZO"));
725	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CZZ"));
726	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("D11"));
727	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("D1P"));
728	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("D3 "));
729	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("D33"));
730	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("D3P"));
731	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("D3T"));
732	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("D4M"));
733	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("D4P"));
734	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DA "));
735	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DA2"));
736	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DAB"));
737	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("DAH"));
738	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DAL"));
739	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("DAR"));
740	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("DAS"));
741	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("DBB"));
742	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DBM"));
743	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("DBS"));
744	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("DBU"));
745	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("DBY"));
746	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DBZ"));
747	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DC "));
748	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DC2"));
749	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("DCG"));
750	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DCI"));
751	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DCL"));
752	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DCT"));
753	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DCY"));
754	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("DDE"));
755	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("DDG"));
756	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("DDN"));
757	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DDX"));
758	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DFC"));
759	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("DFG"));
760	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DFI"));
761	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DFO"));
762	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DFT"));
763	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("DG "));
764	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("DGH"));
765	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("DGI"));
766	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("DGL"));
767	0	assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("DGN"));
768	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("DHA"));
769	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("DHI"));
770	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DHL"));
771	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("DHN"));
772	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DHP"));
773	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("DHU"));
774	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("DHV"));
775	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("DI "));
776	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("DIL"));
777	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("DIR"));
778	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("DIV"));
779	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("DLE"));
780	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("DLS"));
781	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("DLY"));
782	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("DM0"));
783	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DMH"));
784	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("DMK"));
785	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DMT"));
786	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DN "));
787	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("DNE"));
788	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("DNG"));
789	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("DNL"));
790	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("DNM"));
791	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DNP"));
792	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DNR"));
793	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("DNS"));
794	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DOA"));
795	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DOC"));
796	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("DOH"));
797	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("DON"));
798	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("DPB"));
799	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("DPH"));
800	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("DPL"));
801	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DPP"));
802	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("DPQ"));
803	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("DPR"));
804	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DPY"));
805	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("DRM"));
806	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DRP"));
807	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("DRT"));
808	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DRZ"));
809	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("DSE"));
810	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DSG"));
811	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("DSN"));
812	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("DSP"));
813	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("DT "));
814	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("DTH"));
815	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("DTR"));
816	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("DTY"));
817	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("DU "));
818	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("DVA"));
819	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DXD"));
820	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DXN"));
821	0	assertEquals("DYG", ResidueProperties.getCanonicalAminoAcid("DYG"));
822	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DYS"));
823	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DZM"));
824	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("E "));
825	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("E1X"));
826	0	assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("ECC"));
827	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("EDA"));
828	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("EFC"));
829	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("EHP"));
830	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("EIT"));
831	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ENP"));
832	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("ESB"));
833	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("ESC"));
834	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("EXB"));
835	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("EXY"));
836	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("EY5"));
837	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("EYS"));
838	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("F2F"));
839	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("FA2"));
840	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("FA5"));
841	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("FAG"));
842	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("FAI"));
843	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("FB5"));
844	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("FB6"));
845	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("FCL"));
846	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("FFD"));
847	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("FGA"));
848	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("FGL"));
849	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("FGP"));
850	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("FHL"));
851	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("FHO"));
852	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("FHU"));
853	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("FLA"));
854	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("FLE"));
855	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("FLT"));
856	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("FME"));
857	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("FMG"));
858	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("FMU"));
859	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("FOE"));
860	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("FOX"));
861	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("FP9"));
862	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("FPA"));
863	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("FRD"));
864	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("FT6"));
865	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("FTR"));
866	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("FTY"));
867	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("FVA"));
868	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("FZN"));
869	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G "));
870	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G25"));
871	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G2L"));
872	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G2S"));
873	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G31"));
874	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G32"));
875	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G33"));
876	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G36"));
877	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G38"));
878	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G42"));
879	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G46"));
880	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G47"));
881	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G48"));
882	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G49"));
883	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("G4P"));
884	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G7M"));
885	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GAO"));
886	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GAU"));
887	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("GCK"));
888	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("GCM"));
889	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GDP"));
890	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GDR"));
891	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GFL"));
892	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GGL"));
893	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GH3"));
894	0	assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("GHG"));
895	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GHP"));
896	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GL3"));
897	0	assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("GLH"));
898	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GLJ"));
899	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GLK"));
900	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("GLM"));
901	0	assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("GLN"));
902	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GLQ"));
903	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GLU"));
904	0	assertEquals("GLX", ResidueProperties.getCanonicalAminoAcid("GLX"));
905	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GLY"));
906	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GLZ"));
907	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GMA"));
908	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GMS"));
909	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("GMU"));
910	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GN7"));
911	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("GND"));
912	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("GNE"));
913	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GOM"));
914	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("GPL"));
915	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GS "));
916	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GSC"));
917	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GSR"));
918	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GSS"));
919	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GSU"));
920	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("GT9"));
921	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GTP"));
922	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("GVL"));
923	0	assertEquals("CYG", ResidueProperties.getCanonicalAminoAcid("GYC"));
924	0	assertEquals("SYG", ResidueProperties.getCanonicalAminoAcid("GYS"));
925	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("H2U"));
926	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("H5M"));
927	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("HAC"));
928	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("HAR"));
929	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HBN"));
930	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("HCS"));
931	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("HDP"));
932	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("HEU"));
933	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("HFA"));
934	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("HGL"));
935	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HHI"));
936	0	assertEquals("AK", ResidueProperties.getCanonicalAminoAcid("HHK")); // check
937	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HIA"));
938	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HIC"));
939	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HIP"));
940	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HIQ"));
941	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HIS"));
942	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("HL2"));
943	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("HLU"));
944	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("HMR"));
945	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("HOL"));
946	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("HPC"));
947	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("HPE"));
948	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("HPH"));
949	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("HPQ"));
950	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("HQA"));
951	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("HRG"));
952	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("HRP"));
953	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HS8"));
954	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HS9"));
955	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("HSE"));
956	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("HSL"));
957	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HSO"));
958	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("HTI"));
959	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("HTN"));
960	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("HTR"));
961	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("HV5"));
962	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("HVA"));
963	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("HY3"));
964	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("HYP"));
965	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("HZP"));
966	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("I "));
967	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("I2M"));
968	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("I58"));
969	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("I5C"));
970	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("IAM"));
971	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("IAR"));
972	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("IAS"));
973	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("IC "));
974	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("IEL"));
975	0	assertEquals("HYG", ResidueProperties.getCanonicalAminoAcid("IEY"));
976	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("IG "));
977	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("IGL"));
978	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("IGU"));
979	0	assertEquals("SHG", ResidueProperties.getCanonicalAminoAcid("IIC"));
980	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("IIL"));
981	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("ILE"));
982	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("ILG"));
983	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("ILX"));
984	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("IMC"));
985	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("IML"));
986	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("IOY"));
987	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("IPG"));
988	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("IPN"));
989	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("IRN"));
990	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("IT1"));
991	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("IU "));
992	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("IYR"));
993	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("IYT"));
994	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("IZO"));
995	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("JJJ"));
996	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("JJK"));
997	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("JJL"));
998	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("JW5"));
999	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("K1R"));
1000	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("KAG"));
1001	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("KCX"));
1002	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("KGC"));
1003	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("KNB"));
1004	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("KOR"));
1005	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("KPI"));
1006	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("KST"));
1007	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("KYQ"));
1008	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("L2A"));
1009	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LA2"));
1010	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("LAA"));
1011	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("LAL"));
1012	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LBY"));
1013	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("LC "));
1014	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("LCA"));
1015	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("LCC"));
1016	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("LCG"));
1017	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("LCH"));
1018	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LCK"));
1019	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LCX"));
1020	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LDH"));
1021	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LED"));
1022	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LEF"));
1023	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LEH"));
1024	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("LEI"));
1025	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LEM"));
1026	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LEN"));
1027	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("LET"));
1028	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LEU"));
1029	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LEX"));
1030	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("LG "));
1031	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("LGP"));
1032	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("LHC"));
1033	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("LHU"));
1034	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("LKC"));
1035	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LLP"));
1036	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LLY"));
1037	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("LME"));
1038	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LMF"));
1039	0	assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("LMQ"));
1040	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("LMS"));
1041	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LP6"));
1042	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("LPD"));
1043	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("LPG"));
1044	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("LPL"));
1045	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("LPS"));
1046	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("LSO"));
1047	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("LTA"));
1048	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("LTR"));
1049	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("LVG"));
1050	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("LVN"));
1051	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYF"));
1052	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYK"));
1053	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYM"));
1054	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYN"));
1055	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYR"));
1056	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYS"));
1057	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYX"));
1058	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYZ"));
1059	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("M0H"));
1060	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("M1G"));
1061	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("M2G"));
1062	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("M2L"));
1063	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("M2S"));
1064	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("M30"));
1065	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("M3L"));
1066	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("M5M"));
1067	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MA "));
1068	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MA6"));
1069	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MA7"));
1070	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MAA"));
1071	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MAD"));
1072	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("MAI"));
1073	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("MBQ"));
1074	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("MBZ"));
1075	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("MC1"));
1076	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MCG"));
1077	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("MCL"));
1078	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("MCS"));
1079	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("MCY"));
1080	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("MD3"));
1081	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MD6"));
1082	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MDH"));
1083	0	assertEquals("ASG", ResidueProperties.getCanonicalAminoAcid("MDO"));
1084	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("MDR"));
1085	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("MEA"));
1086	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MED"));
1087	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("MEG"));
1088	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("MEN"));
1089	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("MEP"));
1090	0	assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("MEQ"));
1091	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MET"));
1092	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MEU"));
1093	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MF3"));
1094	0	assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("MFC"));
1095	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MG1"));
1096	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("MGG"));
1097	0	assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("MGN"));
1098	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MGQ"));
1099	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MGV"));
1100	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MGY"));
1101	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("MHL"));
1102	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MHO"));
1103	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("MHS"));
1104	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MIA"));
1105	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("MIS"));
1106	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("MK8"));
1107	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("ML3"));
1108	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("MLE"));
1109	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("MLL"));
1110	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("MLY"));
1111	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("MLZ"));
1112	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MME"));
1113	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("MMO"));
1114	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("MMT"));
1115	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("MND"));
1116	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("MNL"));
1117	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("MNU"));
1118	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("MNV"));
1119	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MOD"));
1120	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("MP8"));
1121	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MPH"));
1122	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MPJ"));
1123	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MPQ"));
1124	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MRG"));
1125	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MSA"));
1126	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MSE"));
1127	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MSL"));
1128	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MSO"));
1129	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MSP"));
1130	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MT2"));
1131	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("MTR"));
1132	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MTU"));
1133	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("MTY"));
1134	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("MVA"));
1135	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("N "));
1136	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("N10"));
1137	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("N2C"));
1138	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("N5I"));
1139	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("N5M"));
1140	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("N6G"));
1141	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("N7P"));
1142	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("NA8"));
1143	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("NAL"));
1144	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("NAM"));
1145	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("NB8"));
1146	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("NBQ"));
1147	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("NC1"));
1148	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("NCB"));
1149	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("NCX"));
1150	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("NCY"));
1151	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("NDF"));
1152	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("NDN"));
1153	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("NEM"));
1154	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("NEP"));
1155	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("NF2"));
1156	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("NFA"));
1157	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("NHL"));
1158	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("NIT"));
1159	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("NIY"));
1160	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("NLE"));
1161	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("NLN"));
1162	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("NLO"));
1163	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("NLP"));
1164	0	assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("NLQ"));
1165	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("NMC"));
1166	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("NMM"));
1167	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("NMS"));
1168	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("NMT"));
1169	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("NNH"));
1170	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("NP3"));
1171	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("NPH"));
1172	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("NPI"));
1173	0	assertEquals("LYG", ResidueProperties.getCanonicalAminoAcid("NRP"));
1174	0	assertEquals("MYG", ResidueProperties.getCanonicalAminoAcid("NRQ"));
1175	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("NSK"));
1176	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("NTY"));
1177	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("NVA"));
1178	0	assertEquals("TWG", ResidueProperties.getCanonicalAminoAcid("NYC"));
1179	0	assertEquals("NYG", ResidueProperties.getCanonicalAminoAcid("NYG"));
1180	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("NYM"));
1181	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("NYS"));
1182	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("NZH"));
1183	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("O12"));
1184	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("O2C"));
1185	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("O2G"));
1186	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("OAD"));
1187	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("OAS"));
1188	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("OBF"));
1189	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("OBS"));
1190	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("OCS"));
1191	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("OCY"));
1192	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ODP"));
1193	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("OHI"));
1194	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("OHS"));
1195	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("OIC"));
1196	0	assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("OIP"));
1197	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("OLE"));
1198	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("OLT"));
1199	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("OLZ"));
1200	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("OMC"));
1201	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("OMG"));
1202	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("OMT"));
1203	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("OMU"));
1204	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("ONE"));
1205	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ONH"));
1206	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("ONL"));
1207	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("OPR"));
1208	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ORN"));
1209	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("ORQ"));
1210	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("OSE"));
1211	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("OTB"));
1212	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("OTH"));
1213	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("OTY"));
1214	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("OXX"));
1215	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("P "));
1216	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("P1L"));
1217	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("P1P"));
1218	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("P2T"));
1219	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("P2U"));
1220	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("P2Y"));
1221	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("P5P"));
1222	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("PAQ"));
1223	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("PAS"));
1224	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("PAT"));
1225	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("PAU"));
1226	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("PBB"));
1227	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PBF"));
1228	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("PBT"));
1229	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("PCA"));
1230	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("PCC"));
1231	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PCE"));
1232	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PCS"));
1233	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PDL"));
1234	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("PDU"));
1235	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("PEC"));
1236	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PF5"));
1237	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PFF"));
1238	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PFX"));
1239	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("PG1"));
1240	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("PG7"));
1241	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("PG9"));
1242	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PGL"));
1243	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("PGN"));
1244	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("PGP"));
1245	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("PGY"));
1246	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PHA"));
1247	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("PHD"));
1248	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PHE"));
1249	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PHI"));
1250	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PHL"));
1251	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PHM"));
1252	0	assertEquals("AYG", ResidueProperties.getCanonicalAminoAcid("PIA"));
1253	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PIV"));
1254	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("PLE"));
1255	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PM3"));
1256	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("PMT"));
1257	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("POM"));
1258	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PPN"));
1259	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("PPU"));
1260	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("PPW"));
1261	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("PQ1"));
1262	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("PR3"));
1263	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("PR5"));
1264	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("PR9"));
1265	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("PRN"));
1266	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("PRO"));
1267	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("PRS"));
1268	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PSA"));
1269	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("PSH"));
1270	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("PST"));
1271	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("PSU"));
1272	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("PSW"));
1273	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PTA"));
1274	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("PTH"));
1275	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("PTM"));
1276	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("PTR"));
1277	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("PU "));
1278	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("PUY"));
1279	0	assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("PVH"));
1280	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PVL"));
1281	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("PYA"));
1282	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("PYO"));
1283	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("PYX"));
1284	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("PYY"));
1285	0	assertEquals("QLG", ResidueProperties.getCanonicalAminoAcid("QLG"));
1286	0	assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("QMM"));
1287	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("QPA"));
1288	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("QPH"));
1289	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("QUO"));
1290	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("R "));
1291	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("R1A"));
1292	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("R4K"));
1293	0	assertEquals("HYG", ResidueProperties.getCanonicalAminoAcid("RC7"));
1294	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("RE0"));
1295	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("RE3"));
1296	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("RIA"));
1297	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("RMP"));
1298	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("RON"));
1299	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("RT "));
1300	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("RTP"));
1301	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("S1H"));
1302	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("S2C"));
1303	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("S2D"));
1304	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("S2M"));
1305	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("S2P"));
1306	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("S4A"));
1307	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("S4C"));
1308	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("S4G"));
1309	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("S4U"));
1310	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("S6G"));
1311	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SAC"));
1312	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SAH"));
1313	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("SAR"));
1314	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SBL"));
1315	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SC "));
1316	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SCH"));
1317	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SCS"));
1318	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SCY"));
1319	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("SD2"));
1320	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("SDG"));
1321	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SDP"));
1322	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SEB"));
1323	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("SEC"));
1324	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("SEG"));
1325	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SEL"));
1326	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SEM"));
1327	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SEN"));
1328	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SEP"));
1329	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SER"));
1330	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SET"));
1331	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SGB"));
1332	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SHC"));
1333	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("SHP"));
1334	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("SHR"));
1335	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SIB"));
1336	0	assertEquals("DC", ResidueProperties.getCanonicalAminoAcid("SIC")); // check
1337	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("SLA"));
1338	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("SLR"));
1339	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("SLZ"));
1340	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SMC"));
1341	0	assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("SME"));
1342	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("SMF"));
1343	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("SMP"));
1344	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("SMT"));
1345	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SNC"));
1346	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("SNN"));
1347	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SOC"));
1348	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("SOS"));
1349	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SOY"));
1350	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("SPT"));
1351	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("SRA"));
1352	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("SSU"));
1353	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("STY"));
1354	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("SUB"));
1355	0	assertEquals("DG", ResidueProperties.getCanonicalAminoAcid("SUI"));
1356	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SUN"));
1357	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("SUR"));
1358	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SVA"));
1359	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SVV"));
1360	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SVW"));
1361	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SVX"));
1362	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SVY"));
1363	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("SVZ"));
1364	0	assertEquals("SWG", ResidueProperties.getCanonicalAminoAcid("SWG"));
1365	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SYS"));
1366	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T "));
1367	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("T11"));
1368	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T23"));
1369	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T2S"));
1370	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("T2T"));
1371	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("T31"));
1372	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T32"));
1373	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T36"));
1374	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T37"));
1375	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T38"));
1376	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T39"));
1377	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T3P"));
1378	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T41"));
1379	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T48"));
1380	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T49"));
1381	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T4S"));
1382	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("T5O"));
1383	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T5S"));
1384	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("T66"));
1385	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("T6A"));
1386	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TA3"));
1387	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("TA4"));
1388	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TAF"));
1389	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("TAL"));
1390	0	assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("TAV"));
1391	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("TBG"));
1392	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TBM"));
1393	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("TC1"));
1394	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TCP"));
1395	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TCQ"));
1396	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TCR"));
1397	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("TCY"));
1398	0	assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("TDD"));
1399	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TDY"));
1400	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TFE"));
1401	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("TFO"));
1402	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("TFQ"));
1403	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TFT"));
1404	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("TGP"));
1405	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TH6"));
1406	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("THC"));
1407	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("THO"));
1408	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("THR"));
1409	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("THX"));
1410	0	assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("THZ"));
1411	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("TIH"));
1412	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("TLB"));
1413	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TLC"));
1414	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("TLN"));
1415	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TMB"));
1416	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TMD"));
1417	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("TNB"));
1418	0	assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("TNR"));
1419	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TOX"));
1420	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TP1"));
1421	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("TPC"));
1422	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("TPG"));
1423	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("TPH"));
1424	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TPL"));
1425	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TPO"));
1426	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TPQ"));
1427	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TQI"));
1428	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TQQ"));
1429	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRF"));
1430	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("TRG"));
1431	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRN"));
1432	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRO"));
1433	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRP"));
1434	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRQ"));
1435	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRW"));
1436	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRX"));
1437	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("TS "));
1438	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("TST"));
1439	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("TT "));
1440	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TTD"));
1441	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("TTI"));
1442	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TTM"));
1443	0	assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TTQ"));
1444	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TTS"));
1445	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TY1"));
1446	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TY2"));
1447	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TY3"));
1448	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TY5"));
1449	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYB"));
1450	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYI"));
1451	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYJ"));
1452	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYN"));
1453	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYO"));
1454	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYQ"));
1455	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYR"));
1456	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYS"));
1457	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYT"));
1458	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("TYU"));
1459	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYW"));
1460	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("TYX"));
1461	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYY"));
1462	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("TZB"));
1463	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("TZO"));
1464	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U "));
1465	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U25"));
1466	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U2L"));
1467	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U2N"));
1468	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U2P"));
1469	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U31"));
1470	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U33"));
1471	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U34"));
1472	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U36"));
1473	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U37"));
1474	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U8U"));
1475	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UAR"));
1476	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UCL"));
1477	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UD5"));
1478	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("UDP"));
1479	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("UFP"));
1480	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UFR"));
1481	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UFT"));
1482	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("UMA"));
1483	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UMP"));
1484	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UMS"));
1485	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("UN1"));
1486	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("UN2"));
1487	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("UNK"));
1488	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UR3"));
1489	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("URD"));
1490	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("US1"));
1491	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("US2"));
1492	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("US3"));
1493	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("US5"));
1494	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("USM"));
1495	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("VAD"));
1496	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("VAF"));
1497	0	assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("VAL"));
1498	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("VB1"));
1499	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("VDL"));
1500	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("VLL"));
1501	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("VLM"));
1502	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("VMS"));
1503	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("VOL"));
1504	0	assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("WCR"));
1505	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("X "));
1506	0	assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("X2W"));
1507	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("X4A"));
1508	0	assertEquals("AFG", ResidueProperties.getCanonicalAminoAcid("X9Q"));
1509	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("XAD"));
1510	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("XAE"));
1511	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("XAL"));
1512	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("XAR"));
1513	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("XCL"));
1514	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("XCN"));
1515	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("XCP"));
1516	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("XCR"));
1517	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("XCS"));
1518	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("XCT"));
1519	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("XCY"));
1520	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("XGA"));
1521	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("XGL"));
1522	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("XGR"));
1523	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("XGU"));
1524	0	assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("XPR"));
1525	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("XSN"));
1526	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("XTH"));
1527	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("XTL"));
1528	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("XTR"));
1529	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("XTS"));
1530	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("XTY"));
1531	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("XUA"));
1532	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("XUG"));
1533	0	assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("XX1"));
1534	0	assertEquals("THG", ResidueProperties.getCanonicalAminoAcid("XXY"));
1535	0	assertEquals("DYG", ResidueProperties.getCanonicalAminoAcid("XYG"));
1536	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("Y "));
1537	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("YCM"));
1538	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("YG "));
1539	0	assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("YOF"));
1540	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("YRR"));
1541	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("YYG"));
1542	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("Z "));
1543	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("Z01"));
1544	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ZAD"));
1545	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ZAL"));
1546	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("ZBC"));
1547	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("ZBU"));
1548	0	assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("ZCL"));
1549	0	assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("ZCY"));
1550	0	assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("ZDU"));
1551	0	assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("ZFB"));
1552	0	assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("ZGU"));
1553	0	assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ZHP"));
1554	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("ZTH"));
1555	0	assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("ZU0"));
1556	0	assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ZZJ"));
1557
1558	0	assertEquals(null, ResidueProperties.getCanonicalAminoAcid(null));
1559		}
1560
		0% Uncovered Elements: 6 (6) Complexity: 1 Complexity Density: 0.17 4-
1561	0	@Test(groups = { "Functional" })...
1562		public void testGetSingleCharacterCode()
1563		{
1564	0	assertEquals('0', ResidueProperties.getSingleCharacterCode(null));
1565	0	assertEquals('0', ResidueProperties.getSingleCharacterCode(null));
1566	0	assertEquals('0', ResidueProperties.getSingleCharacterCode(""));
1567	0	assertEquals('Q', ResidueProperties.getSingleCharacterCode("GLN"));
1568	0	assertEquals('Q', ResidueProperties.getSingleCharacterCode("Gln"));
1569	0	assertEquals('Q', ResidueProperties.getSingleCharacterCode("gln"));
1570		}
1571
		0% Uncovered Elements: 5 (5) Complexity: 1 Complexity Density: 0.2 4-
1572	0	@Test(groups = { "Functional" })...
1573		public void testGetDssp3State()
1574		{
1575	0	assertNull(ResidueProperties.getDssp3state(null));
1576	0	assertEquals("", ResidueProperties.getDssp3state(""));
1577	0	String foo = "0123 []<>abcdefghijklmnopqrstuvwxyzABCDEFGHIJKLMNOPQRSTUVWXYZ";
1578	0	String bar = " E E HHH ";
1579	0	assertEquals(bar, ResidueProperties.getDssp3state(foo));
1580		}
1581
		0% Uncovered Elements: 10 (10) Complexity: 1 Complexity Density: 0.1 4-
1582	0	@Test(groups = { "Functional" })...
1583		public void testPhysicoChemicalProperties()
1584		{
1585	0	checkProperty("aromatic", "FYWH-*");
1586	0	checkProperty("aliphatic", "IVL-*");
1587	0	checkProperty("tiny", "GAS-*");
1588	0	checkProperty("small", "VCTGACSDNP-*");
1589	0	checkProperty("charged", "HKRDE-*");
1590	0	checkProperty("negative", "DE-*");
1591	0	checkProperty("polar", "YWHRKTSNDEQ-*X");
1592	0	checkProperty("positive", "HKR-*");
1593	0	checkProperty("proline", "P-*");
1594	0	checkProperty("hydrophobic", "MILVFYWHKTGAC-*X");
1595		}
1596
1597		/**
1598		* Verify that the residues in the list have the named property, and other
1599		* residues do not
1600		*
1601		* @param property
1602		* @param residues
1603		*/
		0% Uncovered Elements: 12 (12) Complexity: 3 Complexity Density: 0.38
1604	0	void checkProperty(String property, String residues)...
1605		{
1606	0	Map<String, Integer> props = ResidueProperties.propHash.get(property);
1607
1608		/*
1609		* assert residues have the property (value 1 in lookup)
1610		*/
1611	0	for (char res : residues.toCharArray())
1612		{
1613	0	assertEquals(res + " should be " + property, 1,
1614		props.get(String.valueOf(res)).intValue());
1615		}
1616
1617		/*
1618		* assert other residues do not (value 0 in lookup)
1619		*/
1620	0	for (String res : ResidueProperties.aa)
1621		{
1622	0	if (!residues.contains(res))
1623		{
1624	0	Integer propValue = props.get(String.valueOf(res));
1625
1626	0	if (propValue != null)
1627		{
1628		/*
1629		* conservation calculation assigns unexpected symbols
1630		* the same value as '-'; here we just check those which
1631		* explicitly do not have the property
1632		*/
1633	0	assertEquals(res + " should not be " + property, 0,
1634		propValue.intValue());
1635		}
1636		}
1637		}
1638		}
1639		}