Test case 1
1: Options options0 = new Options();
2: Properties properties0 = new Properties(options0);
3: Options.getPropertyValues(properties0, "]HU2Vw<+;ytoj-");
4: assertEquals(215, options0.size());
Test case 2
1: Options options0 = Options.getOptions();
2: options0.getIntegerProperty("aD{6t]I%HsxAMt'm4b");
3: MockFile mockFile0 = new MockFile("aD{6t]I%HsxAMt'm4b");
4: URL uRL0 = mockFile0.toURL();
5: URL uRL1 = MockURL.URL(uRL0, "no");
6: Logger logger0 = Logger.getLogger("/Users/kp11/.artemis/cache/");
7: Hierarchy hierarchy0 = (Hierarchy)logger0.getLoggerRepository();
8: OptionConverter.selectAndConfigure(uRL1, "yes", hierarchy0);
9: options0.getExtraQualifiers();
10: options0.setDirectEdit(true);
11: Options options1 = Options.getOptions();
12: options0.getSystematicQualifierNames();
13: options1.getNCBIPrograms();
14: Key key0 = Key.CDS;
15: FileSystemHandling.shouldAllThrowIOExceptions();
16: options1.getDefaultFeatureColour(key0);
17: Options.getPropertyValues(options1, "aD{6t]I%HsxAMt'm4b");
18: assertEquals(215, options1.size());
19:
20: options0.setGeneticCode("aD{6t]I%HsxAMt'm4b");
21: Options.isBlackBeltMode();
22: options0.getIntegerProperty("no");
23: assertEquals(216, options0.size());
24:
25: options1.getAllGeneNames();
26: assertEquals(216, options1.size());
Test case 3
1: Options.isUnixHost();
2: Options options0 = Options.getOptions();
3: options0.getUndoLevels();
4: FileSystemHandling.createFolder((EvoSuiteFile) null);
5: options0.getExtraQualifiers();
6: options0.isEukaryoticMode();
7: String string0 = "vxF-Yb+";
8: Splash.appendToLog("vxF-Yb+");
9: FileSystemHandling.shouldAllThrowIOExceptions();
10: options0.getStartCodons();
11: options0.getStartCodons();
12: MockFileOutputStream mockFileOutputStream0 = new MockFileOutputStream("vxF-Yb+");
13: mockFileOutputStream0.release();
14: mockFileOutputStream0.flush();
15: mockFileOutputStream0.close();
16: options0.store((OutputStream) mockFileOutputStream0, string0);
17: options0.getUndoLevels();
18: options0.isEukaryoticMode();
19: String string1 = "87X)G PMPNL$";
20: options0.getIntegerProperty(string1);
21: options0.isBuggyLinuxVM();
Test case 4
1: Options options0 = new Options();
2: options0.setDefaultColourMap();
3: options0.getExternalPrograms();
4: options0.highlightActiveEntryFlag();
5: FileList fileList0 = new FileList();
6: EvoSuiteFile evoSuiteFile0 = null;
7: FileSystemHandling.shouldThrowIOException(evoSuiteFile0);
8: String string0 = "";
9: boolean boolean0 = false;
10: options0.getUndoLevels();
11: RemoteFileNode remoteFileNode0 = new RemoteFileNode(options0.CACHE_PATH, options0.CACHE_PATH, fileList0, string0, boolean0);
12: FileSystemHandling fileSystemHandling0 = new FileSystemHandling();
13: RemoteFileDocument remoteFileDocument0 = new RemoteFileDocument(remoteFileNode0);
14: remoteFileDocument0.getLinePushBackReader();
15: OutputStream outputStream0 = remoteFileDocument0.getOutputStream();
16: options0.store(outputStream0, string0);
17: options0.getExtraGffQualifiers();
18: options0.getStartCodons();
19: Options.readWritePossible();
20: Options.getArtemisEntryInformation();
21: Options.readWritePossible();
Test case 5
1: FileSystemHandling.appendStringToFile((EvoSuiteFile) null, "Um~>#");
2: FileSystemHandling.shouldThrowIOException((EvoSuiteFile) null);
3: Options options0 = new Options();
4: options0.replaceAll((BiFunction<? super Object, ? super Object, ?>) null);
5: String string0 = "255 0 255";
6: options0.getPropertyTruthValue(string0);
Test case 6
1: Options options0 = Options.getOptions();
2: options0.getColorFromColourNumber(123);
3: options0.setHighlightActiveEntryFlag(false);
4: FileSystemHandling.appendStringToFile((EvoSuiteFile) null, "Y/rk&m0=B7-Q}F@@S");
5: Options.getPropertyValues(options0, "J-'yi+^&bc=j=Tm%o*");
6: options0.getSystematicQualifierNames();
7: StringVector stringVector0 = options0.getSystematicQualifierNames();
8: assertEquals(215, options0.size());
9: assertEquals("[systematic_id, temporary_systematic_id, locus_tag, gene, label, ID, Name]", stringVector0.toString());
Test case 7
1: Options options0 = new Options();
2: options0.setSystematicQualifierNames("?os+nM]n#7'WM24r");
3: options0.reset();
4: FileSystemHandling.appendStringToFile((EvoSuiteFile) null, "kH/(x-v");
5: options0.getIntegerProperty("Token `");
6: options0.getSystematicQualifierNames();
7: options0.getExternalPrograms();
8: String string0 = options0.getDefaultFeatureFileName();
9: Options.readWritePossible();
10: options0.getAllGeneNames();
11: FileSystemHandling.createFolder((EvoSuiteFile) null);
12: Options.getPropertyValues(options0, (String) null);
13: options0.reset();
14: options0.getFontUIResource();
15: options0.getDefaultSequenceFileName();
16: boolean boolean0 = Options.isUnixHost();
17: int int0 = options0.getUndoLevels();
18: options0.getColorFromColourNumber(int0);
19: options0.getOptionValues(string0);
20: options0.getDefaultSequenceFileName();
21: options0.getExternalPrograms();
22: byte[] byteArray0 = new byte[4];
23: byte byte0 = (byte)108;
24: byteArray0[0] = byte0;
25: byte byte1 = (byte)0;
26: byteArray0[1] = byte1;
27: byte byte2 = (byte)122;
28: byteArray0[2] = byte2;
29: byte byte3 = (byte) (-90);
30: byteArray0[3] = byte3;
31: ByteArrayReader byteArrayReader0 = new ByteArrayReader(byteArray0);
32: options0.load((InputStream) byteArrayReader0);
33: options0.setEukaryoticMode(boolean0);
Test case 8
1: boolean boolean0 = Options.readWritePossible();
2: assertTrue(boolean0);
3:
4: boolean boolean1 = Options.readWritePossible();
5: assertTrue(boolean1 == boolean0);
6: assertTrue(boolean1);
7:
8: boolean boolean2 = FileSystemHandling.appendStringToFile((EvoSuiteFile) null, (String) null);
9: assertFalse(boolean2 == boolean0);
10: assertFalse(boolean2 == boolean1);
11: assertFalse(boolean2);
12:
13: Options options0 = new Options();
14: assertNotNull(options0);
15: assertFalse(options0.isEmpty());
16: assertEquals(216, options0.size());
17: assertFalse(options0.isUnixHost());
18:
19: ExternalProgramVector externalProgramVector0 = options0.getExternalPrograms();
20: assertNotNull(externalProgramVector0);
21: assertFalse(options0.isEmpty());
22: assertEquals(216, options0.size());
23: assertFalse(options0.isUnixHost());
24: assertEquals(28, externalProgramVector0.size());
Test case 9
1: Options options0 = new Options();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertFalse(options0.isUnixHost());
5: assertEquals(216, options0.size());
6:
7: int int0 = options0.getMinimumORFSize();
8: assertEquals(100, int0);
9: assertFalse(options0.isEmpty());
10: assertFalse(options0.isUnixHost());
11: assertEquals(216, options0.size());
Test case 10
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertFalse(options0.isUnixHost());
5: assertEquals(215, options0.size());
6:
7: FontUIResource fontUIResource0 = options0.getFontUIResource();
8: assertNotNull(fontUIResource0);
9: assertFalse(options0.isEmpty());
10: assertFalse(options0.isUnixHost());
11: assertEquals(215, options0.size());
12: assertFalse(fontUIResource0.isTransformed());
13: assertEquals("Monospaced", fontUIResource0.getName());
14: assertFalse(fontUIResource0.hasLayoutAttributes());
15: assertEquals(12, fontUIResource0.getSize());
16: assertEquals(0, fontUIResource0.getStyle());
17: assertTrue(fontUIResource0.isPlain());
18: assertFalse(fontUIResource0.isItalic());
19: assertEquals(12.0F, fontUIResource0.getSize2D(), 0.01F);
20: assertFalse(fontUIResource0.isBold());
21: assertFalse(fontUIResource0.hasUniformLineMetrics());
22:
23: options0.remove((Object) null);
Test case 11
1: Options options0 = new Options();
2: assertNotNull(options0);
3: assertEquals(216, options0.size());
4: assertFalse(options0.isEmpty());
5: assertFalse(options0.isUnixHost());
6:
7: DatabaseDocument.CHADO_INFER_CDS = false;
8: QualifierInfoVector qualifierInfoVector0 = options0.getExtraQualifiers();
9: assertNotNull(qualifierInfoVector0);
10: assertEquals(216, options0.size());
11: assertFalse(options0.isEmpty());
12: assertFalse(options0.isUnixHost());
13: assertEquals(128, qualifierInfoVector0.size());
14:
15: StringVector stringVector0 = options0.getSystematicQualifierNames();
16: assertNotNull(stringVector0);
17: assertEquals(216, options0.size());
18: assertFalse(options0.isEmpty());
19: assertFalse(options0.isUnixHost());
20: assertEquals(7, stringVector0.size());
21: assertEquals("[systematic_id, temporary_systematic_id, locus_tag, gene, label, ID, Name]", stringVector0.toString());
22: assertFalse(stringVector0.isEmpty());
23: assertEquals(10, stringVector0.capacity());
24:
25: Key key0 = Key.CDS;
26: assertNotNull(key0);
27: assertEquals("CDS", key0.toString());
28: assertEquals("CDS", key0.getKeyString());
29: assertEquals(3, key0.length());
30:
31: Color color0 = options0.getDefaultFeatureColour(key0);
32: assertNotNull(color0);
33: assertEquals(216, options0.size());
34: assertFalse(options0.isEmpty());
35: assertFalse(options0.isUnixHost());
36: assertEquals("CDS", key0.toString());
37: assertEquals("CDS", key0.getKeyString());
38: assertEquals(3, key0.length());
39: assertEquals(255, color0.getGreen());
40: assertEquals(255, color0.getAlpha());
41: assertEquals(1, color0.getTransparency());
42: assertEquals((-16711681), color0.getRGB());
43: assertEquals(0, color0.getRed());
44: assertEquals(255, color0.getBlue());
45:
46: options0.setEukaryoticMode(false);
47: assertEquals(217, options0.size());
48: assertFalse(options0.isEmpty());
49: assertFalse(options0.isUnixHost());
Test case 12
1: Options options0 = new Options();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertEquals(216, options0.size());
5: assertFalse(options0.isUnixHost());
6:
7: boolean boolean0 = options0.highlightActiveEntryFlag();
8: assertFalse(boolean0);
9: assertFalse(options0.isEmpty());
10: assertEquals(216, options0.size());
11: assertFalse(options0.isUnixHost());
12:
13: options0.setEukaryoticMode(true);
14: assertFalse(options0.isEmpty());
15: assertEquals(216, options0.size());
16: assertFalse(options0.isUnixHost());
17:
18: boolean boolean1 = Options.readWritePossible();
19: assertFalse(boolean1 == boolean0);
20: assertTrue(boolean1);
21:
22: Color color0 = options0.getColorFromColourNumber(1084);
23: assertNull(color0);
24: assertFalse(options0.isEmpty());
25: assertEquals(216, options0.size());
26: assertFalse(options0.isUnixHost());
27:
28: options0.setHighlightActiveEntryFlag(true);
29: assertFalse(options0.isEmpty());
30: assertEquals(217, options0.size());
31: assertFalse(options0.isUnixHost());
32:
33: boolean boolean2 = Options.isBlackBeltMode();
34: assertFalse(boolean2 == boolean1);
35: assertTrue(boolean2 == boolean0);
36: assertFalse(boolean2);
Test case 13
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertFalse(options0.isUnixHost());
5: assertEquals(215, options0.size());
6:
7: StringVector stringVector0 = options0.getInvisibleQualifiers(true);
8: assertNotNull(stringVector0);
9: assertFalse(options0.isEmpty());
10: assertFalse(options0.isUnixHost());
11: assertEquals(215, options0.size());
12: assertEquals(320, stringVector0.capacity());
13: assertEquals(163, stringVector0.size());
14: assertFalse(stringVector0.isEmpty());
15:
16: boolean boolean0 = options0.highlightActiveEntryFlag();
17: assertFalse(boolean0);
18: assertFalse(options0.isEmpty());
19: assertFalse(options0.isUnixHost());
20: assertEquals(215, options0.size());
21:
22: StringVector stringVector1 = Options.getPropertyValues(options0, "/Users/kp11/.artemis/cache/");
23: assertNull(stringVector1);
24: assertFalse(options0.isEmpty());
25: assertFalse(options0.isUnixHost());
26: assertEquals(215, options0.size());
27:
28: boolean boolean1 = options0.canDirectEdit();
29: assertFalse(boolean1 == boolean0);
30: assertTrue(boolean1);
31: assertFalse(options0.isEmpty());
32: assertFalse(options0.isUnixHost());
33: assertEquals(215, options0.size());
34:
35: ExternalProgramVector externalProgramVector0 = options0.getNCBIPrograms();
36: assertNotNull(externalProgramVector0);
37: assertFalse(options0.isEmpty());
38: assertFalse(options0.isUnixHost());
39: assertEquals(215, options0.size());
40: assertEquals(5, externalProgramVector0.size());
41:
42: boolean boolean2 = Options.isBlackBeltMode();
43: assertTrue(boolean2 == boolean0);
44: assertFalse(boolean2 == boolean1);
45: assertFalse(boolean2);
Test case 14
1: SimpleEntryInformation simpleEntryInformation0 = (SimpleEntryInformation)Options.getArtemisEntryInformation();
2: assertNotNull(simpleEntryInformation0);
3: assertFalse(simpleEntryInformation0.useEMBLFormat());
Test case 15
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertEquals(215, options0.size());
4: assertFalse(options0.isEmpty());
5: assertFalse(options0.isUnixHost());
6:
7: String string0 = options0.getDefaultFeatureFileName();
8: assertNull(string0);
9: assertEquals(215, options0.size());
10: assertFalse(options0.isEmpty());
11: assertFalse(options0.isUnixHost());
12:
13: String string1 = options0.getDefaultSequenceFileName();
14: assertNull(string1);
15: assertEquals(215, options0.size());
16: assertFalse(options0.isEmpty());
17: assertFalse(options0.isUnixHost());
Test case 16
1: Options options0 = new Options();
2: assertNotNull(options0);
3: assertEquals(216, options0.size());
4: assertFalse(options0.isEmpty());
5: assertFalse(options0.isUnixHost());
6:
7: StringVector stringVector0 = options0.getSystematicQualifierNames();
8: assertNotNull(stringVector0);
9: assertEquals(216, options0.size());
10: assertFalse(options0.isEmpty());
11: assertFalse(options0.isUnixHost());
12: assertFalse(stringVector0.isEmpty());
13: assertEquals("[systematic_id, temporary_systematic_id, locus_tag, gene, label, ID, Name]", stringVector0.toString());
14: assertEquals(10, stringVector0.capacity());
15: assertEquals(7, stringVector0.size());
16:
17: options0.setSystematicQualifierNames("}N%<*\"v}BiU%");
18: assertEquals(216, options0.size());
19: assertFalse(options0.isEmpty());
20: assertFalse(options0.isUnixHost());
21:
22: options0.setDisplayNameQualifiers(",^fC/={KbV[");
23: assertEquals(216, options0.size());
24: assertFalse(options0.isEmpty());
25: assertFalse(options0.isUnixHost());
Test case 17
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertEquals(215, options0.size());
4: assertFalse(options0.isUnixHost());
5: assertFalse(options0.isEmpty());
6:
7: Options options1 = (Options)options0.clone();
8: assertTrue(options1.equals((Object)options0));
9: assertNotNull(options1);
10: assertNotSame(options0, options1);
11: assertNotSame(options1, options0);
12: assertEquals(215, options0.size());
13: assertFalse(options0.isUnixHost());
14: assertFalse(options0.isEmpty());
15: assertEquals(215, options1.size());
16: assertFalse(options1.isEmpty());
17: assertFalse(options1.isUnixHost());
18:
19: options0.setGeneticCode("colour_11");
20: assertFalse(options0.equals((Object)options1));
21: assertNotSame(options0, options1);
22: assertEquals(216, options0.size());
23: assertFalse(options0.isUnixHost());
24: assertFalse(options0.isEmpty());
25:
26: StringVector stringVector0 = options0.getInvisibleQualifiers(false);
27: assertFalse(options0.equals((Object)options1));
28: assertNotNull(stringVector0);
29: assertNotSame(options0, options1);
30: assertEquals(216, options0.size());
31: assertFalse(options0.isUnixHost());
32: assertFalse(options0.isEmpty());
33: assertFalse(stringVector0.isEmpty());
34: assertEquals("[CHROMO_LINK, C_processing, C_processing_BigPi, C_processing_DGPI, COM_NAME, FEAT_NAME, LOCUS, PUB_LOCUS, PUB_COMMENT, REPEAT_TYPE, SNP, bicsw_file, blast_file, blast_score, blastn_file, blastp+go_file, blastp_file, blastx_file, cds_id, chloroplast, chromoplast, codon, comment_Cterm, comment_Nterm, created, cyanelle, end_phase, exception, exon_id, fasta_file, fasta_match, gene_id, go_from_interpro, hp_match, hth_file, interpro, map, mitochondrion, modified, number, obsolete_gene_name, pepstats_file, percent_id, pfam_match, prosite_match, pseudo, psu_domain, reserved_gene_name, query_id, sigcleave_file, score, smart_file, start_phase, tblastn_file, tblastx_file, temporary_systematic_id, transl_table, translation, type, usedin]", stringVector0.toString());
35: assertEquals(80, stringVector0.capacity());
36: assertEquals(60, stringVector0.size());
37:
38: options0.getIntegerProperty("colour_11");
Test case 18
1: boolean boolean0 = FileSystemHandling.appendStringToFile((EvoSuiteFile) null, "K[9~J");
2: assertFalse(boolean0);
3:
4: boolean boolean1 = Options.isNoddyMode();
5: assertFalse(boolean1 == boolean0);
6: assertTrue(boolean1);
7:
8: Options options0 = Options.getOptions();
9: assertNotNull(options0);
10: assertEquals(216, options0.size());
11: assertFalse(options0.isEmpty());
12: assertFalse(options0.isUnixHost());
13:
14: boolean boolean2 = options0.getPropertyTruthValue("Aw6_v");
15: assertFalse(boolean2 == boolean1);
16: assertTrue(boolean2 == boolean0);
17: assertFalse(boolean2);
18: assertEquals(216, options0.size());
19: assertFalse(options0.isEmpty());
20: assertFalse(options0.isUnixHost());
Test case 19
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertEquals(216, options0.size());
4: assertFalse(options0.isUnixHost());
5: assertFalse(options0.isEmpty());
6:
7: QualifierInfoVector qualifierInfoVector0 = options0.getExtraGffQualifiers();
8: assertNotNull(qualifierInfoVector0);
9: assertEquals(216, options0.size());
10: assertFalse(options0.isUnixHost());
11: assertFalse(options0.isEmpty());
12: assertEquals(27, qualifierInfoVector0.size());
Test case 20
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertEquals(216, options0.size());
5: assertFalse(options0.isUnixHost());
6:
7: boolean boolean0 = options0.isBuggyLinuxVM();
8: assertFalse(boolean0);
9: assertFalse(options0.isEmpty());
10: assertEquals(216, options0.size());
11: assertFalse(options0.isUnixHost());
12:
13: SimpleEntryInformation simpleEntryInformation0 = (SimpleEntryInformation)Options.getDBEntryInformation();
14: assertNotNull(simpleEntryInformation0);
15: assertTrue(simpleEntryInformation0.useEMBLFormat());
Test case 21
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertEquals(216, options0.size());
5: assertFalse(options0.isUnixHost());
6:
7: boolean boolean0 = options0.canDirectEdit();
8: assertTrue(boolean0);
9: assertFalse(options0.isEmpty());
10: assertEquals(216, options0.size());
11: assertFalse(options0.isUnixHost());
12:
13: ExternalProgramVector externalProgramVector0 = options0.getExternalPrograms();
14: assertNotNull(externalProgramVector0);
15: assertFalse(options0.isEmpty());
16: assertEquals(216, options0.size());
17: assertFalse(options0.isUnixHost());
18: assertEquals(28, externalProgramVector0.size());
19:
20: StringVector stringVector0 = options0.getInvisibleQualifiers(false);
21: assertNotNull(stringVector0);
22: assertFalse(options0.isEmpty());
23: assertEquals(216, options0.size());
24: assertFalse(options0.isUnixHost());
25: assertEquals("[CHROMO_LINK, C_processing, C_processing_BigPi, C_processing_DGPI, COM_NAME, FEAT_NAME, LOCUS, PUB_LOCUS, PUB_COMMENT, REPEAT_TYPE, SNP, bicsw_file, blast_file, blast_score, blastn_file, blastp+go_file, blastp_file, blastx_file, cds_id, chloroplast, chromoplast, codon, comment_Cterm, comment_Nterm, created, cyanelle, end_phase, exception, exon_id, fasta_file, fasta_match, gene_id, go_from_interpro, hp_match, hth_file, interpro, map, mitochondrion, modified, number, obsolete_gene_name, pepstats_file, percent_id, pfam_match, prosite_match, pseudo, psu_domain, reserved_gene_name, query_id, sigcleave_file, score, smart_file, start_phase, tblastn_file, tblastx_file, temporary_systematic_id, transl_table, translation, type, usedin]", stringVector0.toString());
26: assertEquals(60, stringVector0.size());
27: assertEquals(80, stringVector0.capacity());
28: assertFalse(stringVector0.isEmpty());
29:
30: StringVector stringVector1 = options0.getInvisibleQualifiers(false);
31: assertNotNull(stringVector1);
32: assertSame(stringVector1, stringVector0);
33: assertFalse(options0.isEmpty());
34: assertEquals(216, options0.size());
35: assertFalse(options0.isUnixHost());
36: assertEquals(60, stringVector1.size());
37: assertEquals(80, stringVector1.capacity());
38: assertFalse(stringVector1.isEmpty());
39: assertEquals("[CHROMO_LINK, C_processing, C_processing_BigPi, C_processing_DGPI, COM_NAME, FEAT_NAME, LOCUS, PUB_LOCUS, PUB_COMMENT, REPEAT_TYPE, SNP, bicsw_file, blast_file, blast_score, blastn_file, blastp+go_file, blastp_file, blastx_file, cds_id, chloroplast, chromoplast, codon, comment_Cterm, comment_Nterm, created, cyanelle, end_phase, exception, exon_id, fasta_file, fasta_match, gene_id, go_from_interpro, hp_match, hth_file, interpro, map, mitochondrion, modified, number, obsolete_gene_name, pepstats_file, percent_id, pfam_match, prosite_match, pseudo, psu_domain, reserved_gene_name, query_id, sigcleave_file, score, smart_file, start_phase, tblastn_file, tblastx_file, temporary_systematic_id, transl_table, translation, type, usedin]", stringVector1.toString());
40:
41: int int0 = options0.getMinimumORFSize();
42: assertEquals(100, int0);
43: assertFalse(options0.isEmpty());
44: assertEquals(216, options0.size());
45: assertFalse(options0.isUnixHost());
46:
47: boolean boolean1 = FileSystemHandling.setPermissions((EvoSuiteFile) null, false, false, true);
48: assertFalse(boolean1 == boolean0);
49: assertFalse(boolean1);
50:
51: Enumeration<Object> enumeration0 = options0.keys();
52: assertNotNull(enumeration0);
53: assertFalse(options0.isEmpty());
54: assertEquals(216, options0.size());
55: assertFalse(options0.isUnixHost());
56:
57: options0.setGeneticCode("no");
58: assertFalse(options0.isEmpty());
59: assertEquals(217, options0.size());
60: assertFalse(options0.isUnixHost());
61:
62: Enumeration<Object> enumeration1 = options0.keys();
63: assertFalse(enumeration1.equals((Object)enumeration0));
64: assertNotNull(enumeration1);
65: assertNotSame(enumeration1, enumeration0);
66: assertFalse(options0.isEmpty());
67: assertEquals(217, options0.size());
68: assertFalse(options0.isUnixHost());
69:
70: String string0 = options0.getDefaultSequenceFileName();
71: assertNull(string0);
72: assertFalse(options0.isEmpty());
73: assertEquals(217, options0.size());
74: assertFalse(options0.isUnixHost());
75:
76: int int1 = options0.getUndoLevels();
77: assertFalse(int1 == int0);
78: assertEquals(20, int1);
79: assertFalse(options0.isEmpty());
80: assertEquals(217, options0.size());
81: assertFalse(options0.isUnixHost());
82:
83: SimpleEntryInformation simpleEntryInformation0 = (SimpleEntryInformation)Options.getDBEntryInformation();
84: assertNotNull(simpleEntryInformation0);
85: assertTrue(simpleEntryInformation0.useEMBLFormat());
86:
87: options0.setSystematicQualifierNames("8D)f#NuH");
88: assertFalse(options0.isEmpty());
89: assertEquals(217, options0.size());
90: assertFalse(options0.isUnixHost());
91:
92: boolean boolean2 = Options.isBlackBeltMode();
93: assertFalse(boolean2 == boolean0);
94: assertTrue(boolean2 == boolean1);
95: assertFalse(boolean2);
96:
97: boolean boolean3 = options0.isBuggyLinuxVM();
98: assertTrue(boolean3 == boolean2);
99: assertTrue(boolean3 == boolean1);
100: assertFalse(boolean3 == boolean0);
101: assertFalse(boolean3);
102: assertFalse(options0.isEmpty());
103: assertEquals(217, options0.size());
104: assertFalse(options0.isUnixHost());
105:
106: ExternalProgramVector externalProgramVector1 = options0.getNCBIPrograms();
107: assertFalse(externalProgramVector1.equals((Object)externalProgramVector0));
108: assertNotNull(externalProgramVector1);
109: assertNotSame(externalProgramVector1, externalProgramVector0);
110: assertEquals(5, externalProgramVector1.size());
111: assertFalse(options0.isEmpty());
112: assertEquals(217, options0.size());
113: assertFalse(options0.isUnixHost());
114:
115: boolean boolean4 = Options.isNoddyMode();
116: assertFalse(boolean4 == boolean3);
117: assertFalse(boolean4 == boolean2);
118: assertTrue(boolean4 == boolean0);
119: assertFalse(boolean4 == boolean1);
120: assertTrue(boolean4);
Test case 22
1: boolean boolean0 = FileSystemHandling.appendStringToFile((EvoSuiteFile) null, (String) null);
2: assertFalse(boolean0);
3:
4: Options options0 = new Options();
5: assertNotNull(options0);
6: assertFalse(options0.isUnixHost());
7: assertEquals(215, options0.size());
8: assertFalse(options0.isEmpty());
9:
10: options0.clear();
11: assertTrue(options0.isEmpty());
12: assertEquals(0, options0.size());
13: assertFalse(options0.isUnixHost());
14:
15: options0.getOptionValues((String) null);
Test case 23
1: Options options0 = new Options();
2: assertNotNull(options0);
3: assertEquals(216, options0.size());
4: assertFalse(options0.isUnixHost());
5: assertFalse(options0.isEmpty());
6:
7: int int0 = options0.getMinimumORFSize();
8: assertEquals(100, int0);
9: assertEquals(216, options0.size());
10: assertFalse(options0.isUnixHost());
11: assertFalse(options0.isEmpty());
12:
13: Set<Map.Entry<Object, Object>> set0 = (Set<Map.Entry<Object, Object>>)options0.entrySet();
14: assertNotNull(set0);
15: assertEquals(216, options0.size());
16: assertFalse(options0.isUnixHost());
17: assertFalse(options0.isEmpty());
18: assertFalse(set0.isEmpty());
19: assertEquals(216, set0.size());
20:
21: Font font0 = options0.getFont();
22: assertNotNull(font0);
23: assertEquals(216, options0.size());
24: assertFalse(options0.isUnixHost());
25: assertFalse(options0.isEmpty());
26: assertEquals(0, font0.getStyle());
27: assertEquals("Monospaced", font0.getName());
28: assertFalse(font0.isTransformed());
29: assertEquals(12, font0.getSize());
30: assertEquals(12.0F, font0.getSize2D(), 0.01F);
31: assertFalse(font0.hasLayoutAttributes());
32: assertTrue(font0.isPlain());
33: assertFalse(font0.hasUniformLineMetrics());
34: assertFalse(font0.isItalic());
35: assertFalse(font0.isBold());
36:
37: QualifierInfoVector qualifierInfoVector0 = options0.getExtraGffQualifiers();
38: assertNotNull(qualifierInfoVector0);
39: assertEquals(216, options0.size());
40: assertFalse(options0.isUnixHost());
41: assertFalse(options0.isEmpty());
42: assertEquals(27, qualifierInfoVector0.size());
43:
44: options0.reset();
45: assertEquals(215, options0.size());
46: assertFalse(options0.isUnixHost());
47: assertFalse(options0.isEmpty());
Test case 24
1: Options options0 = new Options();
2: assertNotNull(options0);
3: assertEquals(216, options0.size());
4: assertFalse(options0.isEmpty());
5: assertFalse(options0.isUnixHost());
6:
7: BlastEntryInformation blastEntryInformation0 = new BlastEntryInformation();
8: assertNotNull(blastEntryInformation0);
9: assertFalse(blastEntryInformation0.useEMBLFormat());
10:
11: Key key0 = blastEntryInformation0.getDefaultKey();
12: assertNotNull(key0);
13: assertFalse(blastEntryInformation0.useEMBLFormat());
14: assertEquals("misc_feature", key0.getKeyString());
15: assertEquals("misc_feature", key0.toString());
16: assertEquals(12, key0.length());
17:
18: boolean boolean0 = blastEntryInformation0.isRequiredQualifier(key0, "/Users/kp11/.artemis/cache/");
19: assertFalse(boolean0);
20: assertFalse(blastEntryInformation0.useEMBLFormat());
21: assertEquals("misc_feature", key0.getKeyString());
22: assertEquals("misc_feature", key0.toString());
23: assertEquals(12, key0.length());
24:
25: options0.setEukaryoticMode(false);
26: assertEquals(217, options0.size());
27: assertFalse(options0.isEmpty());
28: assertFalse(options0.isUnixHost());
29:
30: Key key1 = blastEntryInformation0.getDefaultKey();
31: assertTrue(key1.equals((Object)key0));
32: assertNotNull(key1);
33: assertNotSame(key1, key0);
34: assertFalse(blastEntryInformation0.useEMBLFormat());
35: assertEquals("misc_feature", key1.getKeyString());
36: assertEquals(12, key1.length());
37: assertEquals("misc_feature", key1.toString());
38:
39: Color color0 = options0.getDefaultFeatureColour(key1);
40: assertTrue(key1.equals((Object)key0));
41: assertNotNull(color0);
42: assertNotSame(key1, key0);
43: assertEquals(217, options0.size());
44: assertFalse(options0.isEmpty());
45: assertFalse(options0.isUnixHost());
46: assertFalse(blastEntryInformation0.useEMBLFormat());
47: assertEquals("misc_feature", key1.getKeyString());
48: assertEquals(12, key1.length());
49: assertEquals("misc_feature", key1.toString());
50: assertEquals(255, color0.getGreen());
51: assertEquals(1, color0.getTransparency());
52: assertEquals((-16711936), color0.getRGB());
53: assertEquals(255, color0.getAlpha());
54: assertEquals(0, color0.getBlue());
55: assertEquals(0, color0.getRed());
56:
57: options0.setHighlightActiveEntryFlag(true);
58: assertEquals(218, options0.size());
59: assertFalse(options0.isEmpty());
60: assertFalse(options0.isUnixHost());
61:
62: boolean boolean1 = FileSystemHandling.setPermissions((EvoSuiteFile) null, true, true, true);
63: assertTrue(boolean1 == boolean0);
64: assertFalse(boolean1);
65:
66: boolean boolean2 = Options.readWritePossible();
67: assertFalse(boolean2 == boolean1);
68: assertFalse(boolean2 == boolean0);
69: assertTrue(boolean2);
70:
71: boolean boolean3 = Options.readWritePossible();
72: assertFalse(boolean3 == boolean0);
73: assertFalse(boolean3 == boolean1);
74: assertTrue(boolean3 == boolean2);
75: assertTrue(boolean3);
76:
77: QualifierInfoVector qualifierInfoVector0 = options0.getExtraQualifiers();
78: assertNotNull(qualifierInfoVector0);
79: assertEquals(218, options0.size());
80: assertFalse(options0.isEmpty());
81: assertFalse(options0.isUnixHost());
82: assertEquals(128, qualifierInfoVector0.size());
83:
84: options0.setEukaryoticMode(false);
85: assertEquals(218, options0.size());
86: assertFalse(options0.isEmpty());
87: assertFalse(options0.isUnixHost());
88:
89: SimpleEntryGroup simpleEntryGroup0 = new SimpleEntryGroup();
90: assertNotNull(simpleEntryGroup0);
91: assertEquals(0, simpleEntryGroup0.size());
92: assertEquals(0, simpleEntryGroup0.refCount());
93:
94: Entry entry0 = simpleEntryGroup0.createEntry();
95: assertNotNull(entry0);
96: assertEquals(1, simpleEntryGroup0.size());
97: assertEquals(0, simpleEntryGroup0.refCount());
98: assertFalse(entry0.isReadOnly());
99:
100: entry0.getFeature(2828);
Test case 25
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertFalse(options0.isUnixHost());
4: assertEquals(215, options0.size());
5: assertFalse(options0.isEmpty());
6:
7: options0.setHighlightActiveEntryFlag(false);
8: assertFalse(options0.isUnixHost());
9: assertEquals(215, options0.size());
10: assertFalse(options0.isEmpty());
11:
12: ExternalProgramVector externalProgramVector0 = options0.getNCBIPrograms();
13: assertNotNull(externalProgramVector0);
14: assertFalse(options0.isUnixHost());
15: assertEquals(215, options0.size());
16: assertFalse(options0.isEmpty());
17: assertEquals(5, externalProgramVector0.size());
18:
19: Color color0 = options0.getColorFromColourNumber(1);
20: assertNotNull(color0);
21: assertFalse(options0.isUnixHost());
22: assertEquals(215, options0.size());
23: assertFalse(options0.isEmpty());
24: assertEquals(100, color0.getBlue());
25: assertEquals((-10197916), color0.getRGB());
26: assertEquals(100, color0.getRed());
27: assertEquals(1, color0.getTransparency());
28: assertEquals(100, color0.getGreen());
29: assertEquals(255, color0.getAlpha());
30:
31: boolean boolean0 = options0.canDirectEdit();
32: assertTrue(boolean0);
33: assertFalse(options0.isUnixHost());
34: assertEquals(215, options0.size());
35: assertFalse(options0.isEmpty());
36:
37: ExternalProgramVector externalProgramVector1 = options0.getNCBIPrograms();
38: assertNotNull(externalProgramVector1);
39: assertSame(externalProgramVector1, externalProgramVector0);
40: assertFalse(options0.isUnixHost());
41: assertEquals(215, options0.size());
42: assertFalse(options0.isEmpty());
43: assertEquals(5, externalProgramVector1.size());
44:
45: Integer integer0 = options0.getIntegerProperty("\"})GDi;Hwo");
46: assertNull(integer0);
47: assertFalse(options0.isUnixHost());
48: assertEquals(215, options0.size());
49: assertFalse(options0.isEmpty());
Test case 26
1: boolean boolean0 = Options.isNoddyMode();
2: assertTrue(boolean0);
3:
4: Options options0 = Options.getOptions();
5: assertNotNull(options0);
6: assertEquals(215, options0.size());
7: assertFalse(options0.isEmpty());
8: assertFalse(options0.isUnixHost());
9:
10: options0.getPropertyTruthValue((String) null);
Test case 27
1: boolean boolean0 = FileSystemHandling.setPermissions((EvoSuiteFile) null, true, true, false);
2: assertFalse(boolean0);
3:
4: Options options0 = Options.getOptions();
5: assertNotNull(options0);
6: assertFalse(options0.isUnixHost());
7: assertFalse(options0.isEmpty());
8: assertEquals(215, options0.size());
9:
10: Options options1 = Options.getOptions();
11: assertNotNull(options1);
12: assertSame(options1, options0);
13: assertEquals(215, options1.size());
14: assertFalse(options1.isUnixHost());
15: assertFalse(options1.isEmpty());
16:
17: options1.addOptionChangeListener((OptionChangeListener) null);
Test case 28
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertFalse(options0.isUnixHost());
5: assertEquals(215, options0.size());
6:
7: String string0 = options0.getDefaultSequenceFileName();
8: assertNull(string0);
9: assertFalse(options0.isEmpty());
10: assertFalse(options0.isUnixHost());
11: assertEquals(215, options0.size());
12:
13: QualifierInfoVector qualifierInfoVector0 = options0.getExtraGffQualifiers();
14: assertNotNull(qualifierInfoVector0);
15: assertFalse(options0.isEmpty());
16: assertFalse(options0.isUnixHost());
17: assertEquals(215, options0.size());
18: assertEquals(27, qualifierInfoVector0.size());
19:
20: options0.setGeneticCode("yes");
21: assertEquals(216, options0.size());
22: assertFalse(options0.isEmpty());
23: assertFalse(options0.isUnixHost());
24:
25: boolean boolean0 = Options.readWritePossible();
26: assertTrue(boolean0);
27:
28: StringVector stringVector0 = options0.getDisplayQualifierNames();
29: assertNotNull(stringVector0);
30: assertEquals(216, options0.size());
31: assertFalse(options0.isEmpty());
32: assertFalse(options0.isUnixHost());
33: assertEquals(9, stringVector0.size());
34: assertFalse(stringVector0.isEmpty());
35: assertEquals(10, stringVector0.capacity());
36: assertEquals("[primary_name, Name, synonym, systematic_id, temporary_systematic_id, gene, locus_tag, label, ID]", stringVector0.toString());
37:
38: options0.setHighlightActiveEntryFlag(true);
39: assertEquals(217, options0.size());
40: assertFalse(options0.isEmpty());
41: assertFalse(options0.isUnixHost());
42:
43: StringVector stringVector1 = options0.getSystematicQualifierNames();
44: assertFalse(stringVector1.equals((Object)stringVector0));
45: assertNotNull(stringVector1);
46: assertNotSame(stringVector1, stringVector0);
47: assertEquals(217, options0.size());
48: assertFalse(options0.isEmpty());
49: assertFalse(options0.isUnixHost());
50: assertEquals(7, stringVector1.size());
51: assertEquals(10, stringVector1.capacity());
52: assertFalse(stringVector1.isEmpty());
53: assertEquals("[systematic_id, temporary_systematic_id, locus_tag, gene, label, ID, Name]", stringVector1.toString());
Test case 29
1: SimpleEntryInformation simpleEntryInformation0 = (SimpleEntryInformation)Options.getArtemisEntryInformation();
2: assertNotNull(simpleEntryInformation0);
3: assertFalse(simpleEntryInformation0.useEMBLFormat());
4:
5: Options options0 = new Options();
6: assertNotNull(options0);
7: assertFalse(options0.isEmpty());
8: assertFalse(options0.isUnixHost());
9: assertEquals(215, options0.size());
10:
11: options0.setGeneticCode("?;TF][Z,E<s>O");
12: assertFalse(options0.isEmpty());
13: assertFalse(options0.isUnixHost());
14: assertEquals(216, options0.size());
15:
16: Collection<Object> collection0 = options0.values();
17: assertNotNull(collection0);
18: assertFalse(options0.isEmpty());
19: assertFalse(options0.isUnixHost());
20: assertEquals(216, options0.size());
21:
22: FileSystemHandling fileSystemHandling0 = new FileSystemHandling();
23: assertNotNull(fileSystemHandling0);
24:
25: options0.setDefaultColourMap();
26: assertFalse(options0.isEmpty());
27: assertFalse(options0.isUnixHost());
28: assertEquals(216, options0.size());
29:
30: StringVector stringVector0 = options0.getOptionValues("yes");
31: assertNull(stringVector0);
32: assertFalse(options0.isEmpty());
33: assertFalse(options0.isUnixHost());
34: assertEquals(216, options0.size());
35:
36: boolean boolean0 = Options.readWritePossible();
37: assertTrue(boolean0);
38:
39: options0.setEukaryoticMode(true);
40: assertFalse(options0.isEmpty());
41: assertFalse(options0.isUnixHost());
42: assertEquals(216, options0.size());
Test case 30
1: Options options0 = new Options();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertEquals(216, options0.size());
5: assertFalse(options0.isUnixHost());
6:
7: LogLog.setInternalDebugging(true);
8: Key key0 = new Key("/Users/kp11/.artemis/cache/");
9: assertNotNull(key0);
10: assertEquals("/Users/kp11/.artemis/cache/", key0.toString());
11: assertEquals("/Users/kp11/.artemis/cache/", key0.getKeyString());
12: assertEquals(27, key0.length());
13:
14: Color color0 = options0.getDefaultFeatureColour(key0);
15: assertNull(color0);
16: assertFalse(options0.isEmpty());
17: assertEquals(216, options0.size());
18: assertFalse(options0.isUnixHost());
19: assertEquals("/Users/kp11/.artemis/cache/", key0.toString());
20: assertEquals("/Users/kp11/.artemis/cache/", key0.getKeyString());
21: assertEquals(27, key0.length());
22:
23: Color color1 = options0.getDefaultFeatureColour(key0);
24: assertNull(color1);
25: assertFalse(options0.isEmpty());
26: assertEquals(216, options0.size());
27: assertFalse(options0.isUnixHost());
28: assertEquals("/Users/kp11/.artemis/cache/", key0.toString());
29: assertEquals("/Users/kp11/.artemis/cache/", key0.getKeyString());
30: assertEquals(27, key0.length());
31:
32: Integer integer0 = options0.getIntegerProperty("yes");
33: assertNull(integer0);
34: assertFalse(options0.isEmpty());
35: assertEquals(216, options0.size());
36: assertFalse(options0.isUnixHost());
37:
38: options0.setSystematicQualifierNames("yes");
39: assertFalse(options0.isEmpty());
40: assertEquals(216, options0.size());
41: assertFalse(options0.isUnixHost());
Test case 31
1: FileSystemHandling fileSystemHandling0 = new FileSystemHandling();
2: assertNotNull(fileSystemHandling0);
3:
4: FileSystemHandling fileSystemHandling1 = new FileSystemHandling();
5: assertFalse(fileSystemHandling1.equals((Object)fileSystemHandling0));
6: assertNotNull(fileSystemHandling1);
7:
8: Options options0 = Options.getOptions();
9: assertNotNull(options0);
10: assertEquals(215, options0.size());
11: assertFalse(options0.isEmpty());
12: assertFalse(options0.isUnixHost());
13:
14: URL uRL0 = Loader.getResource("f");
15: assertNull(uRL0);
16:
17: boolean boolean0 = options0.canDirectEdit();
18: assertTrue(boolean0);
19: assertEquals(215, options0.size());
20: assertFalse(options0.isEmpty());
21: assertFalse(options0.isUnixHost());
22:
23: Splash.appendToLog((String) null);
24: FontUIResource fontUIResource0 = options0.getFontUIResource();
25: assertNotNull(fontUIResource0);
26: assertEquals(215, options0.size());
27: assertFalse(options0.isEmpty());
28: assertFalse(options0.isUnixHost());
29: assertFalse(fontUIResource0.isTransformed());
30: assertEquals("Monospaced", fontUIResource0.getName());
31: assertFalse(fontUIResource0.hasLayoutAttributes());
32: assertFalse(fontUIResource0.isBold());
33: assertFalse(fontUIResource0.hasUniformLineMetrics());
34: assertFalse(fontUIResource0.isItalic());
35: assertEquals(12.0F, fontUIResource0.getSize2D(), 0.01F);
36: assertEquals(0, fontUIResource0.getStyle());
37: assertTrue(fontUIResource0.isPlain());
38: assertEquals(12, fontUIResource0.getSize());
39:
40: boolean boolean1 = options0.canDirectEdit();
41: assertTrue(boolean1 == boolean0);
42: assertTrue(boolean1);
43: assertEquals(215, options0.size());
44: assertFalse(options0.isEmpty());
45: assertFalse(options0.isUnixHost());
46:
47: boolean boolean2 = Options.isNoddyMode();
48: assertTrue(boolean2 == boolean0);
49: assertTrue(boolean2 == boolean1);
50: assertTrue(boolean2);
51:
52: boolean boolean3 = FileSystemHandling.appendLineToFile((EvoSuiteFile) null, (String) null);
53: assertFalse(boolean3 == boolean2);
54: assertFalse(boolean3 == boolean0);
55: assertFalse(boolean3 == boolean1);
56: assertFalse(boolean3);
57:
58: Options options1 = Options.getOptions();
59: assertNotNull(options1);
60: assertSame(options1, options0);
61: assertEquals(215, options1.size());
62: assertFalse(options1.isEmpty());
63: assertFalse(options1.isUnixHost());
64:
65: options1.setDisplayNameQualifiers((String) null);
Test case 32
1: boolean boolean0 = FileSystemHandling.shouldAllThrowIOExceptions();
2: assertTrue(boolean0);
3:
4: Options options0 = new Options();
5: assertNotNull(options0);
6: assertFalse(options0.isEmpty());
7: assertEquals(137, options0.size());
8: assertFalse(options0.isUnixHost());
9:
10: SimpleEntryGroup simpleEntryGroup0 = new SimpleEntryGroup();
11: assertNotNull(simpleEntryGroup0);
12: assertEquals(0, simpleEntryGroup0.size());
13: assertEquals(0, simpleEntryGroup0.refCount());
14:
15: Entry entry0 = simpleEntryGroup0.createEntry();
16: assertNotNull(entry0);
17: assertEquals(1, simpleEntryGroup0.size());
18: assertEquals(0, simpleEntryGroup0.refCount());
19: assertFalse(entry0.isReadOnly());
20:
21: simpleEntryGroup0.elementAt((-945));
Test case 33
1: boolean boolean0 = FileSystemHandling.shouldThrowIOException((EvoSuiteFile) null);
2: assertFalse(boolean0);
3:
4: boolean boolean1 = FileSystemHandling.appendStringToFile((EvoSuiteFile) null, "aY '74v F^UDc'l+t");
5: assertTrue(boolean1 == boolean0);
6: assertFalse(boolean1);
7:
8: boolean boolean2 = FileSystemHandling.shouldAllThrowIOExceptions();
9: assertFalse(boolean2 == boolean0);
10: assertFalse(boolean2 == boolean1);
11: assertTrue(boolean2);
12:
13: Options options0 = Options.getOptions();
14: assertNotNull(options0);
15: assertFalse(options0.isEmpty());
16: assertEquals(215, options0.size());
17: assertFalse(options0.isUnixHost());
18:
19: Collection<Object> collection0 = options0.values();
20: assertNotNull(collection0);
21: assertFalse(options0.isEmpty());
22: assertEquals(215, options0.size());
23: assertFalse(options0.isUnixHost());
24:
25: boolean boolean3 = options0.isBuggyLinuxVM();
26: assertFalse(boolean3 == boolean2);
27: assertTrue(boolean3 == boolean0);
28: assertTrue(boolean3 == boolean1);
29: assertFalse(boolean3);
30: assertFalse(options0.isEmpty());
31: assertEquals(215, options0.size());
32: assertFalse(options0.isUnixHost());
33:
34: options0.setDirectEdit(false);
35: assertFalse(options0.isEmpty());
36: assertEquals(215, options0.size());
37: assertFalse(options0.isUnixHost());
38:
39: options0.setDisplayNameQualifiers("intron");
40: assertFalse(options0.isEmpty());
41: assertEquals(215, options0.size());
42: assertFalse(options0.isUnixHost());
43:
44: boolean boolean4 = options0.isBuggyLinuxVM();
45: assertTrue(boolean4 == boolean1);
46: assertTrue(boolean4 == boolean0);
47: assertFalse(boolean4 == boolean2);
48: assertTrue(boolean4 == boolean3);
49: assertFalse(boolean4);
50: assertFalse(options0.isEmpty());
51: assertEquals(215, options0.size());
52: assertFalse(options0.isUnixHost());
53:
54: boolean boolean5 = options0.highlightActiveEntryFlag();
55: assertTrue(boolean5 == boolean3);
56: assertTrue(boolean5 == boolean4);
57: assertFalse(boolean5 == boolean2);
58: assertTrue(boolean5 == boolean1);
59: assertTrue(boolean5 == boolean0);
60: assertFalse(boolean5);
61: assertFalse(options0.isEmpty());
62: assertEquals(215, options0.size());
63: assertFalse(options0.isUnixHost());
64:
65: boolean boolean6 = options0.isBuggyLinuxVM();
66: assertTrue(boolean6 == boolean5);
67: assertTrue(boolean6 == boolean0);
68: assertTrue(boolean6 == boolean1);
69: assertTrue(boolean6 == boolean3);
70: assertFalse(boolean6 == boolean2);
71: assertTrue(boolean6 == boolean4);
72: assertFalse(boolean6);
73: assertFalse(options0.isEmpty());
74: assertEquals(215, options0.size());
75: assertFalse(options0.isUnixHost());
76:
77: options0.setGeneticCode("UjYT9");
78: assertFalse(options0.isEmpty());
79: assertEquals(216, options0.size());
80: assertFalse(options0.isUnixHost());
81:
82: MockFile.createTempFile("intron", "3Wfb'OPI");
Test case 34
1: boolean boolean0 = Options.readWritePossible();
2: assertTrue(boolean0);
3:
4: FileSystemHandling fileSystemHandling0 = new FileSystemHandling();
5: assertNotNull(fileSystemHandling0);
6:
7: Options options0 = new Options();
8: assertNotNull(options0);
9: assertFalse(options0.isUnixHost());
10: assertEquals(215, options0.size());
11: assertFalse(options0.isEmpty());
12:
13: StringVector stringVector0 = options0.getAllGeneNames();
14: assertNotNull(stringVector0);
15: assertFalse(options0.isUnixHost());
16: assertEquals(215, options0.size());
17: assertFalse(options0.isEmpty());
18: assertEquals("[systematic_id, temporary_systematic_id, locus_tag, gene, label, ID, Name, primary_name, Name, synonym, systematic_id, temporary_systematic_id, gene, locus_tag, label, ID]", stringVector0.toString());
19: assertEquals(28, stringVector0.capacity());
20: assertEquals(16, stringVector0.size());
21: assertFalse(stringVector0.isEmpty());
22:
23: StringVector stringVector1 = options0.getAllGeneNames();
24: assertNotNull(stringVector1);
25: assertSame(stringVector1, stringVector0);
26: assertFalse(options0.isUnixHost());
27: assertEquals(215, options0.size());
28: assertFalse(options0.isEmpty());
29: assertEquals("[systematic_id, temporary_systematic_id, locus_tag, gene, label, ID, Name, primary_name, Name, synonym, systematic_id, temporary_systematic_id, gene, locus_tag, label, ID]", stringVector1.toString());
30: assertEquals(28, stringVector1.capacity());
31: assertFalse(stringVector1.isEmpty());
32: assertEquals(16, stringVector1.size());
33:
34: URL uRL0 = MockURL.getHttpExample();
35: assertNotNull(uRL0);
36: assertEquals("http://www.someFakeButWellFormedURL.org/fooExample", uRL0.toString());
37: assertEquals("http://www.someFakeButWellFormedURL.org/fooExample", uRL0.toExternalForm());
38: assertEquals("www.someFakeButWellFormedURL.org", uRL0.getAuthority());
39: assertEquals("www.someFakeButWellFormedURL.org", uRL0.getHost());
40: assertEquals("http", uRL0.getProtocol());
41: assertNull(uRL0.getQuery());
42: assertNull(uRL0.getUserInfo());
43: assertEquals((-1), uRL0.getPort());
44: assertNull(uRL0.getRef());
45: assertEquals((-1), uRL0.getDefaultPort());
46:
47: Logger logger0 = IndexedGFFDocumentEntry.logger4j;
48: assertNotNull(logger0);
49: assertEquals("uk.ac.sanger.artemis.io.IndexedGFFDocumentEntry", logger0.getName());
50: assertFalse(logger0.isDebugEnabled());
51: assertTrue(logger0.getAdditivity());
52: assertFalse(logger0.isInfoEnabled());
53: assertFalse(logger0.isTraceEnabled());
54:
55: AsyncAppender asyncAppender0 = new AsyncAppender();
56: assertNotNull(asyncAppender0);
57: assertEquals(128, AsyncAppender.DEFAULT_BUFFER_SIZE);
58: assertNull(asyncAppender0.getName());
59: assertFalse(asyncAppender0.requiresLayout());
60: assertFalse(asyncAppender0.getLocationInfo());
61: assertTrue(asyncAppender0.getBlocking());
62: assertEquals(128, asyncAppender0.getBufferSize());
63:
64: Appender appender0 = asyncAppender0.getAppender("false");
65: assertNull(appender0);
66: assertEquals(128, AsyncAppender.DEFAULT_BUFFER_SIZE);
67: assertNull(asyncAppender0.getName());
68: assertFalse(asyncAppender0.requiresLayout());
69: assertFalse(asyncAppender0.getLocationInfo());
70: assertTrue(asyncAppender0.getBlocking());
71: assertEquals(128, asyncAppender0.getBufferSize());
72:
73: logger0.addAppender((Appender) null);
74: assertEquals("uk.ac.sanger.artemis.io.IndexedGFFDocumentEntry", logger0.getName());
75: assertFalse(logger0.isDebugEnabled());
76: assertTrue(logger0.getAdditivity());
77: assertFalse(logger0.isInfoEnabled());
78: assertFalse(logger0.isTraceEnabled());
79:
80: Hierarchy hierarchy0 = (Hierarchy)logger0.getHierarchy();
81: assertNotNull(hierarchy0);
82: assertEquals("uk.ac.sanger.artemis.io.IndexedGFFDocumentEntry", logger0.getName());
83: assertFalse(logger0.isDebugEnabled());
84: assertTrue(logger0.getAdditivity());
85: assertFalse(logger0.isInfoEnabled());
86: assertFalse(logger0.isTraceEnabled());
87:
88: OptionConverter.selectAndConfigure(uRL0, "I2|^?6~M)K?fr6;?iq", hierarchy0);
89: assertEquals("http://www.someFakeButWellFormedURL.org/fooExample", uRL0.toString());
90: assertEquals("http://www.someFakeButWellFormedURL.org/fooExample", uRL0.toExternalForm());
91: assertEquals("www.someFakeButWellFormedURL.org", uRL0.getAuthority());
92: assertEquals("www.someFakeButWellFormedURL.org", uRL0.getHost());
93: assertEquals("http", uRL0.getProtocol());
94: assertNull(uRL0.getQuery());
95: assertNull(uRL0.getUserInfo());
96: assertEquals((-1), uRL0.getPort());
97: assertNull(uRL0.getRef());
98: assertEquals((-1), uRL0.getDefaultPort());
99: assertEquals("uk.ac.sanger.artemis.io.IndexedGFFDocumentEntry", logger0.getName());
100: assertFalse(logger0.isDebugEnabled());
101: assertTrue(logger0.getAdditivity());
102: assertFalse(logger0.isInfoEnabled());
103: assertFalse(logger0.isTraceEnabled());
104:
105: options0.setDisplayNameQualifiers("OP*JzH|}$/)=TAxh");
106: assertFalse(options0.isUnixHost());
107: assertEquals(215, options0.size());
108: assertFalse(options0.isEmpty());
109:
110: options0.setHighlightActiveEntryFlag(true);
111: assertFalse(options0.isUnixHost());
112: assertFalse(options0.isEmpty());
113: assertEquals(216, options0.size());
114:
115: options0.setDirectEdit(true);
116: assertFalse(options0.isUnixHost());
117: assertFalse(options0.isEmpty());
118: assertEquals(216, options0.size());
119:
120: Font font0 = options0.getFont();
121: assertNotNull(font0);
122: assertFalse(options0.isUnixHost());
123: assertFalse(options0.isEmpty());
124: assertEquals(216, options0.size());
125: assertFalse(font0.isTransformed());
126: assertEquals("Monospaced", font0.getName());
127: assertEquals(0, font0.getStyle());
128: assertFalse(font0.isBold());
129: assertEquals(12.0F, font0.getSize2D(), 0.01F);
130: assertFalse(font0.hasLayoutAttributes());
131: assertEquals(12, font0.getSize());
132: assertFalse(font0.isItalic());
133: assertTrue(font0.isPlain());
134: assertFalse(font0.hasUniformLineMetrics());
135:
136: boolean boolean1 = Options.isUnixHost();
137: assertFalse(boolean1 == boolean0);
138: assertFalse(boolean1);
139:
140: StringVector stringVector2 = options0.getAllGeneNames();
141: assertNotNull(stringVector2);
142: assertSame(stringVector2, stringVector0);
143: assertSame(stringVector2, stringVector1);
144: assertEquals("[systematic_id, temporary_systematic_id, locus_tag, gene, label, ID, Name, primary_name, Name, synonym, systematic_id, temporary_systematic_id, gene, locus_tag, label, ID]", stringVector2.toString());
145: assertEquals(28, stringVector2.capacity());
146: assertEquals(16, stringVector2.size());
147: assertFalse(stringVector2.isEmpty());
148: assertFalse(options0.isUnixHost());
149: assertFalse(options0.isEmpty());
150: assertEquals(216, options0.size());
151:
152: boolean boolean2 = options0.highlightActiveEntryFlag();
153: assertTrue(boolean2 == boolean0);
154: assertFalse(boolean2 == boolean1);
155: assertTrue(boolean2);
156: assertFalse(options0.isUnixHost());
157: assertFalse(options0.isEmpty());
158: assertEquals(216, options0.size());
159:
160: StringVector stringVector3 = options0.getOptionValues("colour_5");
161: assertFalse(stringVector3.equals((Object)stringVector0));
162: assertFalse(stringVector3.equals((Object)stringVector2));
163: assertFalse(stringVector3.equals((Object)stringVector1));
164: assertNotNull(stringVector3);
165: assertNotSame(stringVector3, stringVector0);
166: assertNotSame(stringVector3, stringVector2);
167: assertNotSame(stringVector3, stringVector1);
168: assertFalse(options0.isUnixHost());
169: assertFalse(options0.isEmpty());
170: assertEquals(216, options0.size());
171: assertFalse(stringVector3.isEmpty());
172: assertEquals(3, stringVector3.size());
173: assertEquals(10, stringVector3.capacity());
174: assertEquals("[0, 255, 255]", stringVector3.toString());
175:
176: QualifierInfoVector qualifierInfoVector0 = options0.getExtraQualifiers();
177: assertNotNull(qualifierInfoVector0);
178: assertFalse(options0.isUnixHost());
179: assertFalse(options0.isEmpty());
180: assertEquals(216, options0.size());
181: assertEquals(128, qualifierInfoVector0.size());
182:
183: int int0 = options0.getUndoLevels();
184: assertEquals(20, int0);
185: assertFalse(options0.isUnixHost());
186: assertFalse(options0.isEmpty());
187: assertEquals(216, options0.size());
188:
189: Font font1 = options0.getFont();
190: assertNotNull(font1);
191: assertSame(font1, font0);
192: assertFalse(options0.isUnixHost());
193: assertFalse(options0.isEmpty());
194: assertEquals(216, options0.size());
195: assertEquals(12.0F, font1.getSize2D(), 0.01F);
196: assertEquals(0, font1.getStyle());
197: assertFalse(font1.isTransformed());
198: assertEquals("Monospaced", font1.getName());
199: assertFalse(font1.isBold());
200: assertFalse(font1.isItalic());
201: assertFalse(font1.hasUniformLineMetrics());
202: assertTrue(font1.isPlain());
203: assertFalse(font1.hasLayoutAttributes());
204: assertEquals(12, font1.getSize());
205:
206: Options options1 = Options.getOptions();
207: assertFalse(options1.equals((Object)options0));
208: assertNotNull(options1);
209: assertNotSame(options1, options0);
210: assertEquals(216, options1.size());
211: assertFalse(options1.isEmpty());
212: assertFalse(options1.isUnixHost());
Test case 35
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertEquals(215, options0.size());
5: assertFalse(options0.isUnixHost());
6:
7: QualifierInfoVector qualifierInfoVector0 = options0.getExtraGffQualifiers();
8: assertNotNull(qualifierInfoVector0);
9: assertFalse(options0.isEmpty());
10: assertEquals(215, options0.size());
11: assertFalse(options0.isUnixHost());
12: assertEquals(27, qualifierInfoVector0.size());
13:
14: options0.setHighlightActiveEntryFlag(true);
15: assertFalse(options0.isEmpty());
16: assertEquals(216, options0.size());
17: assertFalse(options0.isUnixHost());
18:
19: options0.setEukaryoticMode(true);
20: assertFalse(options0.isEmpty());
21: assertEquals(216, options0.size());
22: assertFalse(options0.isUnixHost());
23:
24: SimpleEntryInformation simpleEntryInformation0 = (SimpleEntryInformation)Options.getArtemisEntryInformation();
25: assertNotNull(simpleEntryInformation0);
26: assertFalse(simpleEntryInformation0.useEMBLFormat());
27:
28: options0.setHighlightActiveEntryFlag(true);
29: assertFalse(options0.isEmpty());
30: assertEquals(216, options0.size());
31: assertFalse(options0.isUnixHost());
32:
33: SimpleEntryGroup simpleEntryGroup0 = new SimpleEntryGroup();
34: assertNotNull(simpleEntryGroup0);
35: assertEquals(0, simpleEntryGroup0.size());
36: assertEquals(0, simpleEntryGroup0.refCount());
37:
38: FileDescriptor fileDescriptor0 = new FileDescriptor();
39: assertNotNull(fileDescriptor0);
40: assertFalse(fileDescriptor0.valid());
41:
42: MockFileOutputStream mockFileOutputStream0 = new MockFileOutputStream(fileDescriptor0);
Test case 36
1: Options options0 = new Options();
2: assertNotNull(options0);
3: assertFalse(options0.isUnixHost());
4: assertEquals(216, options0.size());
5: assertFalse(options0.isEmpty());
6:
7: byte[] byteArray0 = new byte[3];
8: boolean boolean0 = FileSystemHandling.setPermissions((EvoSuiteFile) null, false, false, false);
9: assertFalse(boolean0);
10:
11: byteArray0[0] = (byte) (-38);
12: byteArray0[1] = (byte)22;
13: DatabaseDocument.EXONMODEL = "/Users/kp11/.artemis/cache/";
14: byteArray0[2] = (byte)93;
15: ByteArrayReader byteArrayReader0 = new ByteArrayReader(byteArray0);
16: assertNotNull(byteArrayReader0);
17: assertArrayEquals(new byte[] {(byte) (-38), (byte)22, (byte)93}, byteArray0);
18: assertEquals(3, byteArrayReader0.available());
19:
20: options0.load((InputStream) byteArrayReader0);
21: assertArrayEquals(new byte[] {(byte) (-38), (byte)22, (byte)93}, byteArray0);
22: assertFalse(options0.isUnixHost());
23: assertFalse(options0.isEmpty());
24: assertEquals(217, options0.size());
25: assertEquals(0, byteArrayReader0.available());
26:
27: String string0 = options0.getDefaultSequenceFileName();
28: assertNull(string0);
29: assertFalse(options0.isUnixHost());
30: assertFalse(options0.isEmpty());
31: assertEquals(217, options0.size());
Test case 37
1: Options options0 = new Options();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertFalse(options0.isUnixHost());
5: assertEquals(216, options0.size());
6:
7: MockHijrahDate mockHijrahDate0 = new MockHijrahDate();
8: assertNotNull(mockHijrahDate0);
9:
10: Object object0 = options0.remove((Object) mockHijrahDate0);
11: assertNull(object0);
12: assertFalse(options0.isEmpty());
13: assertFalse(options0.isUnixHost());
14: assertEquals(216, options0.size());
15:
16: options0.setDirectEdit(false);
17: assertFalse(options0.isEmpty());
18: assertFalse(options0.isUnixHost());
19: assertEquals(216, options0.size());
20:
21: StringVector stringVector0 = options0.getInvisibleQualifiers(true);
22: assertNotNull(stringVector0);
23: assertFalse(options0.isEmpty());
24: assertFalse(options0.isUnixHost());
25: assertEquals(216, options0.size());
26: assertEquals(320, stringVector0.capacity());
27: assertFalse(stringVector0.isEmpty());
28: assertEquals(163, stringVector0.size());
29:
30: options0.setDirectEdit(true);
31: assertFalse(options0.isEmpty());
32: assertFalse(options0.isUnixHost());
33: assertEquals(216, options0.size());
34:
35: int int0 = options0.getUndoLevels();
36: assertEquals(20, int0);
37: assertFalse(options0.isEmpty());
38: assertFalse(options0.isUnixHost());
39: assertEquals(216, options0.size());
40:
41: options0.setGeneticCode("O,Mh6Pskywih");
42: assertEquals(217, options0.size());
43: assertFalse(options0.isEmpty());
44: assertFalse(options0.isUnixHost());
45:
46: options0.setDisplayNameQualifiers("O,Mh6Pskywih");
47: assertEquals(217, options0.size());
48: assertFalse(options0.isEmpty());
49: assertFalse(options0.isUnixHost());
50:
51: boolean boolean0 = Options.isBlackBeltMode();
52: assertFalse(boolean0);
53:
54: StringVector stringVector1 = options0.getAllGeneNames();
55: assertFalse(stringVector1.equals((Object)stringVector0));
56: assertNotNull(stringVector1);
57: assertNotSame(stringVector1, stringVector0);
58: assertEquals(217, options0.size());
59: assertFalse(options0.isEmpty());
60: assertFalse(options0.isUnixHost());
61: assertFalse(stringVector1.isEmpty());
62: assertEquals("[systematic_id, temporary_systematic_id, locus_tag, gene, label, ID, Name, O,Mh6Pskywih]", stringVector1.toString());
63: assertEquals(8, stringVector1.size());
64: assertEquals(14, stringVector1.capacity());
65:
66: boolean boolean1 = options0.isBuggyLinuxVM();
67: assertTrue(boolean1 == boolean0);
68: assertFalse(boolean1);
69: assertEquals(217, options0.size());
70: assertFalse(options0.isEmpty());
71: assertFalse(options0.isUnixHost());
72:
73: StringVector stringVector2 = options0.getStartCodons();
74: assertFalse(stringVector2.equals((Object)stringVector0));
75: assertFalse(stringVector2.equals((Object)stringVector1));
76: assertNotNull(stringVector2);
77: assertNotSame(stringVector2, stringVector0);
78: assertNotSame(stringVector2, stringVector1);
79: assertEquals(217, options0.size());
80: assertFalse(options0.isEmpty());
81: assertFalse(options0.isUnixHost());
82: assertEquals(1, stringVector2.size());
83: assertEquals(10, stringVector2.capacity());
84: assertFalse(stringVector2.isEmpty());
85: assertEquals("[atg]", stringVector2.toString());
86:
87: StringVector stringVector3 = options0.getDisplayQualifierNames();
88: assertFalse(stringVector3.equals((Object)stringVector2));
89: assertFalse(stringVector3.equals((Object)stringVector1));
90: assertFalse(stringVector3.equals((Object)stringVector0));
91: assertNotNull(stringVector3);
92: assertNotSame(stringVector3, stringVector2);
93: assertNotSame(stringVector3, stringVector1);
94: assertNotSame(stringVector3, stringVector0);
95: assertEquals(217, options0.size());
96: assertFalse(options0.isEmpty());
97: assertFalse(options0.isUnixHost());
98: assertFalse(stringVector3.isEmpty());
99: assertEquals("[O,Mh6Pskywih]", stringVector3.toString());
100: assertEquals(10, stringVector3.capacity());
101: assertEquals(1, stringVector3.size());
102:
103: boolean boolean2 = options0.canDirectEdit();
104: assertFalse(boolean2 == boolean0);
105: assertFalse(boolean2 == boolean1);
106: assertTrue(boolean2);
107: assertEquals(217, options0.size());
108: assertFalse(options0.isEmpty());
109: assertFalse(options0.isUnixHost());
110:
111: StringVector stringVector4 = options0.getSystematicQualifierNames();
112: assertFalse(stringVector4.equals((Object)stringVector2));
113: assertFalse(stringVector4.equals((Object)stringVector3));
114: assertFalse(stringVector4.equals((Object)stringVector1));
115: assertFalse(stringVector4.equals((Object)stringVector0));
116: assertNotNull(stringVector4);
117: assertNotSame(stringVector4, stringVector2);
118: assertNotSame(stringVector4, stringVector3);
119: assertNotSame(stringVector4, stringVector1);
120: assertNotSame(stringVector4, stringVector0);
121: assertEquals(217, options0.size());
122: assertFalse(options0.isEmpty());
123: assertFalse(options0.isUnixHost());
124: assertEquals("[systematic_id, temporary_systematic_id, locus_tag, gene, label, ID, Name]", stringVector4.toString());
125: assertFalse(stringVector4.isEmpty());
126: assertEquals(10, stringVector4.capacity());
127: assertEquals(7, stringVector4.size());
128:
129: QualifierInfoVector qualifierInfoVector0 = options0.getExtraGffQualifiers();
130: assertNotNull(qualifierInfoVector0);
131: assertEquals(27, qualifierInfoVector0.size());
132: assertEquals(217, options0.size());
133: assertFalse(options0.isEmpty());
134: assertFalse(options0.isUnixHost());
Test case 38
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertFalse(options0.isUnixHost());
5: assertEquals(215, options0.size());
6:
7: boolean boolean0 = options0.highlightActiveEntryFlag();
8: assertFalse(boolean0);
9: assertFalse(options0.isEmpty());
10: assertFalse(options0.isUnixHost());
11: assertEquals(215, options0.size());
12:
13: options0.setSystematicQualifierNames("E9$a] [|sqnG");
14: assertFalse(options0.isEmpty());
15: assertFalse(options0.isUnixHost());
16: assertEquals(215, options0.size());
17:
18: boolean boolean1 = options0.highlightActiveEntryFlag();
19: assertTrue(boolean1 == boolean0);
20: assertFalse(boolean1);
21: assertFalse(options0.isEmpty());
22: assertFalse(options0.isUnixHost());
23: assertEquals(215, options0.size());
24:
25: QualifierInfoVector qualifierInfoVector0 = options0.getExtraQualifiers();
26: assertNotNull(qualifierInfoVector0);
27: assertFalse(options0.isEmpty());
28: assertFalse(options0.isUnixHost());
29: assertEquals(215, options0.size());
30: assertEquals(128, qualifierInfoVector0.size());
31:
32: QualifierInfoVector qualifierInfoVector1 = options0.getExtraQualifiers();
33: assertFalse(qualifierInfoVector1.equals((Object)qualifierInfoVector0));
34: assertNotNull(qualifierInfoVector1);
35: assertNotSame(qualifierInfoVector1, qualifierInfoVector0);
36: assertFalse(options0.isEmpty());
37: assertFalse(options0.isUnixHost());
38: assertEquals(215, options0.size());
39: assertEquals(128, qualifierInfoVector1.size());
40:
41: StringVector stringVector0 = options0.getAllGeneNames();
42: assertNotNull(stringVector0);
43: assertFalse(options0.isEmpty());
44: assertFalse(options0.isUnixHost());
45: assertEquals(215, options0.size());
46: assertEquals(16, stringVector0.capacity());
47: assertEquals(11, stringVector0.size());
48: assertFalse(stringVector0.isEmpty());
49: assertEquals("[E9$a], [|sqnG, primary_name, Name, synonym, systematic_id, temporary_systematic_id, gene, locus_tag, label, ID]", stringVector0.toString());
50:
51: StringVector stringVector1 = Options.getPropertyValues(options0, "");
52: assertNull(stringVector1);
53: assertFalse(options0.isEmpty());
54: assertFalse(options0.isUnixHost());
55: assertEquals(215, options0.size());
56:
57: SimpleEntryInformation simpleEntryInformation0 = (SimpleEntryInformation)Options.getDBEntryInformation();
58: assertNotNull(simpleEntryInformation0);
59: assertTrue(simpleEntryInformation0.useEMBLFormat());
60:
61: int int0 = options0.getMinimumORFSize();
62: assertEquals(100, int0);
63: assertFalse(options0.isEmpty());
64: assertFalse(options0.isUnixHost());
65: assertEquals(215, options0.size());
66:
67: boolean boolean2 = Options.isBlackBeltMode();
68: assertTrue(boolean2 == boolean0);
69: assertTrue(boolean2 == boolean1);
70: assertFalse(boolean2);
71:
72: options0.setDirectEdit(false);
73: assertFalse(options0.isEmpty());
74: assertFalse(options0.isUnixHost());
75: assertEquals(215, options0.size());
76:
77: PipedInputStream pipedInputStream0 = new PipedInputStream();
78: assertNotNull(pipedInputStream0);
79: assertEquals(0, pipedInputStream0.available());
80:
81: long long0 = pipedInputStream0.skip((-412L));
82: assertEquals(0L, long0);
83: assertEquals(0, pipedInputStream0.available());
84:
85: long long1 = pipedInputStream0.skip((-412L));
86: assertTrue(long1 == long0);
87: assertEquals(0L, long1);
88: assertEquals(0, pipedInputStream0.available());
89:
90: BufferedInputStream bufferedInputStream0 = new BufferedInputStream(pipedInputStream0);
91: assertNotNull(bufferedInputStream0);
92: assertEquals(0, pipedInputStream0.available());
93:
94: bufferedInputStream0.close();
95: assertEquals(0, pipedInputStream0.available());
96:
97: bufferedInputStream0.close();
98: assertEquals(0, pipedInputStream0.available());
99:
100: options0.load((InputStream) bufferedInputStream0);
Test case 39
1: Options options0 = new Options();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertFalse(options0.isUnixHost());
5: assertEquals(215, options0.size());
6:
7: Object object0 = ColorSpaceHintKey.VALUE_COLORSPACE_ARGB;
8: assertNotNull(object0);
9:
10: StringVector stringVector0 = options0.getSystematicQualifierNames();
11: assertNotNull(stringVector0);
12: assertFalse(options0.isEmpty());
13: assertFalse(options0.isUnixHost());
14: assertEquals(215, options0.size());
15: assertEquals(7, stringVector0.size());
16: assertFalse(stringVector0.isEmpty());
17: assertEquals("[systematic_id, temporary_systematic_id, locus_tag, gene, label, ID, Name]", stringVector0.toString());
18: assertEquals(10, stringVector0.capacity());
19:
20: Integer integer0 = JLayeredPane.POPUP_LAYER;
21: assertNotNull(integer0);
22: assertEquals(300, (int)integer0);
23:
24: boolean boolean0 = options0.replace(object0, (Object) integer0, object0);
25: assertFalse(boolean0);
26: assertFalse(options0.isEmpty());
27: assertFalse(options0.isUnixHost());
28: assertEquals(215, options0.size());
29:
30: options0.setDirectEdit(false);
31: assertFalse(options0.isEmpty());
32: assertFalse(options0.isUnixHost());
33: assertEquals(215, options0.size());
34:
35: boolean boolean1 = FileSystemHandling.setPermissions((EvoSuiteFile) null, true, false, true);
36: assertTrue(boolean1 == boolean0);
37: assertFalse(boolean1);
38:
39: options0.setDisplayNameQualifiers("bases of selection:\n");
40: assertFalse(options0.isEmpty());
41: assertFalse(options0.isUnixHost());
42: assertEquals(215, options0.size());
43:
44: boolean boolean2 = options0.canDirectEdit();
45: assertTrue(boolean2 == boolean0);
46: assertTrue(boolean2 == boolean1);
47: assertFalse(boolean2);
48: assertFalse(options0.isEmpty());
49: assertFalse(options0.isUnixHost());
50: assertEquals(215, options0.size());
51:
52: SimpleEntryGroup simpleEntryGroup0 = new SimpleEntryGroup();
53: assertNotNull(simpleEntryGroup0);
54: assertEquals(0, simpleEntryGroup0.size());
55: assertEquals(0, simpleEntryGroup0.refCount());
56:
57: simpleEntryGroup0.featureAt(226);
Test case 40
1: boolean boolean0 = FileSystemHandling.appendLineToFile((EvoSuiteFile) null, "x|\"-taDH?73bceC%");
2: assertFalse(boolean0);
3:
4: Options options0 = new Options();
5: assertNotNull(options0);
6: assertEquals(216, options0.size());
7: assertFalse(options0.isUnixHost());
8: assertFalse(options0.isEmpty());
9:
10: boolean boolean1 = options0.isEukaryoticMode();
11: assertFalse(boolean1 == boolean0);
12: assertTrue(boolean1);
13: assertEquals(216, options0.size());
14: assertFalse(options0.isUnixHost());
15: assertFalse(options0.isEmpty());
16:
17: QualifierInfoVector qualifierInfoVector0 = options0.getExtraQualifiers();
18: assertNotNull(qualifierInfoVector0);
19: assertEquals(216, options0.size());
20: assertFalse(options0.isUnixHost());
21: assertFalse(options0.isEmpty());
22: assertEquals(128, qualifierInfoVector0.size());
23:
24: Set<String> set0 = options0.stringPropertyNames();
25: assertNotNull(set0);
26: assertEquals(216, options0.size());
27: assertFalse(options0.isUnixHost());
28: assertFalse(options0.isEmpty());
29: assertEquals(216, set0.size());
30: assertFalse(set0.isEmpty());
31:
32: DatabaseDocument.EXONMODEL = "";
33: options0.setEukaryoticMode(true);
34: assertEquals(216, options0.size());
35: assertFalse(options0.isUnixHost());
36: assertFalse(options0.isEmpty());
37:
38: StringVector stringVector0 = options0.getInvisibleQualifiers(true);
39: assertNotNull(stringVector0);
40: assertEquals(216, options0.size());
41: assertFalse(options0.isUnixHost());
42: assertFalse(options0.isEmpty());
43: assertEquals(320, stringVector0.capacity());
44: assertEquals(163, stringVector0.size());
45: assertFalse(stringVector0.isEmpty());
46:
47: options0.setDefaultColourMap();
48: assertEquals(216, options0.size());
49: assertFalse(options0.isUnixHost());
50: assertFalse(options0.isEmpty());
51:
52: Integer integer0 = options0.getIntegerProperty("x|\"-taDH?73bceC%");
53: assertNull(integer0);
54: assertEquals(216, options0.size());
55: assertFalse(options0.isUnixHost());
56: assertFalse(options0.isEmpty());
57:
58: boolean boolean2 = options0.getPropertyTruthValue("");
59: assertFalse(boolean2 == boolean1);
60: assertTrue(boolean2 == boolean0);
61: assertFalse(boolean2);
62: assertEquals(216, options0.size());
63: assertFalse(options0.isUnixHost());
64: assertFalse(options0.isEmpty());
65:
66: options0.reset();
67: assertEquals(216, options0.size());
68: assertFalse(options0.isUnixHost());
69: assertFalse(options0.isEmpty());
70:
71: boolean boolean3 = Options.isBlackBeltMode();
72: assertTrue(boolean3 == boolean2);
73: assertFalse(boolean3 == boolean1);
74: assertTrue(boolean3 == boolean0);
75: assertFalse(boolean3);
76:
77: options0.setGeneticCode((String) null);
Test case 41
1: Options options0 = new Options();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertFalse(options0.isUnixHost());
5: assertEquals(216, options0.size());
6:
7: byte[] byteArray0 = new byte[6];
8: byteArray0[0] = (byte)46;
9: byteArray0[1] = (byte) (-88);
10: byteArray0[2] = (byte)4;
11: byteArray0[3] = (byte)6;
12: byteArray0[4] = (byte)64;
13: byteArray0[5] = (byte) (-48);
14: boolean boolean0 = FileSystemHandling.appendDataToFile((EvoSuiteFile) null, byteArray0);
15: assertArrayEquals(new byte[] {(byte)46, (byte) (-88), (byte)4, (byte)6, (byte)64, (byte) (-48)}, byteArray0);
16: assertFalse(boolean0);
17:
18: StringVector stringVector0 = options0.getDisplayQualifierNames();
19: assertNotNull(stringVector0);
20: assertFalse(options0.isEmpty());
21: assertFalse(options0.isUnixHost());
22: assertEquals(216, options0.size());
23: assertEquals("[primary_name, Name, synonym, systematic_id, temporary_systematic_id, gene, locus_tag, label, ID]", stringVector0.toString());
24: assertEquals(9, stringVector0.size());
25: assertFalse(stringVector0.isEmpty());
26: assertEquals(10, stringVector0.capacity());
27:
28: Color color0 = options0.getColorFromColourNumber(6);
29: assertNotNull(color0);
30: assertFalse(options0.isEmpty());
31: assertFalse(options0.isUnixHost());
32: assertEquals(216, options0.size());
33: assertEquals(0, color0.getGreen());
34: assertEquals(1, color0.getTransparency());
35: assertEquals((-65281), color0.getRGB());
36: assertEquals(255, color0.getAlpha());
37: assertEquals(255, color0.getRed());
38: assertEquals(255, color0.getBlue());
Test case 42
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertFalse(options0.isUnixHost());
5: assertEquals(215, options0.size());
6:
7: Color color0 = options0.getColorFromColourNumber((-337));
8: assertNull(color0);
9: assertFalse(options0.isEmpty());
10: assertFalse(options0.isUnixHost());
11: assertEquals(215, options0.size());
Test case 43
1: Options options0 = new Options();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertFalse(options0.isUnixHost());
5: assertEquals(216, options0.size());
6:
7: Options options1 = (Options)options0.clone();
8: assertTrue(options1.equals((Object)options0));
9: assertNotNull(options1);
10: assertNotSame(options0, options1);
11: assertNotSame(options1, options0);
12: assertFalse(options0.isEmpty());
13: assertFalse(options0.isUnixHost());
14: assertEquals(216, options0.size());
15: assertEquals(216, options1.size());
16: assertFalse(options1.isUnixHost());
17: assertFalse(options1.isEmpty());
18:
19: StringVector stringVector0 = options0.getSystematicQualifierNames();
20: assertTrue(options0.equals((Object)options1));
21: assertNotNull(stringVector0);
22: assertNotSame(options0, options1);
23: assertFalse(options0.isEmpty());
24: assertFalse(options0.isUnixHost());
25: assertEquals(216, options0.size());
26: assertEquals(7, stringVector0.size());
27: assertEquals("[systematic_id, temporary_systematic_id, locus_tag, gene, label, ID, Name]", stringVector0.toString());
28: assertEquals(10, stringVector0.capacity());
29: assertFalse(stringVector0.isEmpty());
30:
31: byte[] byteArray0 = new byte[6];
32: byteArray0[0] = (byte)16;
33: byteArray0[1] = (byte)33;
34: byteArray0[2] = (byte)106;
35: byteArray0[3] = (byte)39;
36: byteArray0[4] = (byte) (-40);
37: byteArray0[5] = (byte)91;
38: boolean boolean0 = FileSystemHandling.appendDataToFile((EvoSuiteFile) null, byteArray0);
39: assertArrayEquals(new byte[] {(byte)16, (byte)33, (byte)106, (byte)39, (byte) (-40), (byte)91}, byteArray0);
40: assertFalse(boolean0);
41:
42: boolean boolean1 = Options.readWritePossible();
43: assertFalse(boolean1 == boolean0);
44: assertTrue(boolean1);
45:
46: URL uRL0 = Loader.getResource("/Users/kp11/.artemis/cache/");
47: assertNull(uRL0);
48:
49: StringVector stringVector1 = options0.getInvisibleQualifiers(true);
50: assertTrue(options0.equals((Object)options1));
51: assertFalse(stringVector1.equals((Object)stringVector0));
52: assertNotNull(stringVector1);
53: assertNotSame(options0, options1);
54: assertNotSame(stringVector1, stringVector0);
55: assertFalse(options0.isEmpty());
56: assertFalse(options0.isUnixHost());
57: assertEquals(216, options0.size());
58: assertEquals(320, stringVector1.capacity());
59: assertFalse(stringVector1.isEmpty());
60: assertEquals(163, stringVector1.size());
61:
62: SimpleEntryInformation simpleEntryInformation0 = (SimpleEntryInformation)Options.getDBEntryInformation();
63: assertNotNull(simpleEntryInformation0);
64: assertTrue(simpleEntryInformation0.useEMBLFormat());
65:
66: options0.setDefaultColourMap();
67: assertFalse(options0.equals((Object)options1));
68: assertNotSame(options0, options1);
69: assertFalse(options0.isEmpty());
70: assertFalse(options0.isUnixHost());
71: assertEquals(216, options0.size());
72:
73: boolean boolean2 = FileSystemHandling.appendLineToFile((EvoSuiteFile) null, "/Users/kp11/.artemis/cache/");
74: assertFalse(boolean2 == boolean1);
75: assertTrue(boolean2 == boolean0);
76: assertFalse(boolean2);
77:
78: StringVector stringVector2 = Options.getPropertyValues(options0, "<da6[=Yb");
79: assertFalse(options0.equals((Object)options1));
80: assertNull(stringVector2);
81: assertNotSame(options0, options1);
82: assertFalse(options0.isEmpty());
83: assertFalse(options0.isUnixHost());
84: assertEquals(216, options0.size());
85:
86: boolean boolean3 = Options.isUnixHost();
87: assertTrue(boolean3 == boolean0);
88: assertTrue(boolean3 == boolean2);
89: assertFalse(boolean3 == boolean1);
90: assertFalse(boolean3);
91:
92: options0.setSystematicQualifierNames("false");
93: assertFalse(options0.equals((Object)options1));
94: assertNotSame(options0, options1);
95: assertFalse(options0.isEmpty());
96: assertFalse(options0.isUnixHost());
97: assertEquals(216, options0.size());
98:
99: Color color0 = options0.getColorFromColourNumber((-643));
100: assertFalse(options0.equals((Object)options1));
101: assertNull(color0);
102: assertNotSame(options0, options1);
103: assertFalse(options0.isEmpty());
104: assertFalse(options0.isUnixHost());
105: assertEquals(216, options0.size());
106:
107: QualifierInfoVector qualifierInfoVector0 = options0.getExtraQualifiers();
108: assertFalse(options0.equals((Object)options1));
109: assertNotNull(qualifierInfoVector0);
110: assertNotSame(options0, options1);
111: assertFalse(options0.isEmpty());
112: assertFalse(options0.isUnixHost());
113: assertEquals(216, options0.size());
114: assertEquals(128, qualifierInfoVector0.size());
115:
116: boolean boolean4 = options0.isEukaryoticMode();
117: assertFalse(options0.equals((Object)options1));
118: assertFalse(boolean4 == boolean0);
119: assertFalse(boolean4 == boolean2);
120: assertTrue(boolean4 == boolean1);
121: assertFalse(boolean4 == boolean3);
122: assertNotSame(options0, options1);
123: assertTrue(boolean4);
124: assertFalse(options0.isEmpty());
125: assertFalse(options0.isUnixHost());
126: assertEquals(216, options0.size());
127:
128: boolean boolean5 = options0.isBuggyLinuxVM();
129: assertFalse(options0.equals((Object)options1));
130: assertFalse(boolean5 == boolean4);
131: assertFalse(boolean5 == boolean1);
132: assertTrue(boolean5 == boolean2);
133: assertTrue(boolean5 == boolean0);
134: assertTrue(boolean5 == boolean3);
135: assertNotSame(options0, options1);
136: assertFalse(boolean5);
137: assertFalse(options0.isEmpty());
138: assertFalse(options0.isUnixHost());
139: assertEquals(216, options0.size());
140:
141: options0.removeOptionChangeListener((OptionChangeListener) null);
Test case 44
1: boolean boolean0 = FileSystemHandling.appendStringToFile((EvoSuiteFile) null, "yes");
2: assertFalse(boolean0);
3:
4: SimpleEntryInformation simpleEntryInformation0 = (SimpleEntryInformation)Options.getDBEntryInformation();
5: assertNotNull(simpleEntryInformation0);
6: assertTrue(simpleEntryInformation0.useEMBLFormat());
7:
8: Options options0 = Options.getOptions();
9: assertNotNull(options0);
10: assertEquals(215, options0.size());
11: assertFalse(options0.isEmpty());
12: assertFalse(options0.isUnixHost());
13:
14: String string0 = options0.getDefaultFeatureFileName();
15: assertNull(string0);
16: assertEquals(215, options0.size());
17: assertFalse(options0.isEmpty());
18: assertFalse(options0.isUnixHost());
19:
20: String string1 = options0.getDefaultFeatureFileName();
21: assertNull(string1);
22: assertEquals(215, options0.size());
23: assertFalse(options0.isEmpty());
24: assertFalse(options0.isUnixHost());
25:
26: int int0 = options0.getMinimumORFSize();
27: assertEquals(100, int0);
28: assertEquals(215, options0.size());
29: assertFalse(options0.isEmpty());
30: assertFalse(options0.isUnixHost());
31:
32: QualifierInfoVector qualifierInfoVector0 = options0.getExtraGffQualifiers();
33: assertNotNull(qualifierInfoVector0);
34: assertEquals(215, options0.size());
35: assertFalse(options0.isEmpty());
36: assertFalse(options0.isUnixHost());
37: assertEquals(27, qualifierInfoVector0.size());
38:
39: Font font0 = options0.getFont();
40: assertNotNull(font0);
41: assertEquals(215, options0.size());
42: assertFalse(options0.isEmpty());
43: assertFalse(options0.isUnixHost());
44: assertFalse(font0.isItalic());
45: assertFalse(font0.hasUniformLineMetrics());
46: assertTrue(font0.isPlain());
47: assertEquals("Monospaced", font0.getName());
48: assertEquals(0, font0.getStyle());
49: assertFalse(font0.isTransformed());
50: assertEquals(12.0F, font0.getSize2D(), 0.01F);
51: assertFalse(font0.isBold());
52: assertFalse(font0.hasLayoutAttributes());
53: assertEquals(12, font0.getSize());
54:
55: boolean boolean1 = Options.isBlackBeltMode();
56: assertTrue(boolean1 == boolean0);
57: assertFalse(boolean1);
58:
59: QualifierInfoVector qualifierInfoVector1 = options0.getExtraQualifiers();
60: assertFalse(qualifierInfoVector1.equals((Object)qualifierInfoVector0));
61: assertNotNull(qualifierInfoVector1);
62: assertNotSame(qualifierInfoVector1, qualifierInfoVector0);
63: assertEquals(215, options0.size());
64: assertFalse(options0.isEmpty());
65: assertFalse(options0.isUnixHost());
66: assertEquals(128, qualifierInfoVector1.size());
67:
68: ExternalProgramVector externalProgramVector0 = options0.getExternalPrograms();
69: assertNotNull(externalProgramVector0);
70: assertEquals(215, options0.size());
71: assertFalse(options0.isEmpty());
72: assertFalse(options0.isUnixHost());
73: assertEquals(28, externalProgramVector0.size());
74:
75: int int1 = options0.getMinimumORFSize();
76: assertTrue(int1 == int0);
77: assertEquals(100, int1);
78: assertEquals(215, options0.size());
79: assertFalse(options0.isEmpty());
80: assertFalse(options0.isUnixHost());
81:
82: StringVector stringVector0 = options0.getOptionValues("z/");
83: assertNull(stringVector0);
84: assertEquals(215, options0.size());
85: assertFalse(options0.isEmpty());
86: assertFalse(options0.isUnixHost());
87:
88: SimpleEntryInformation simpleEntryInformation1 = (SimpleEntryInformation)Options.getArtemisEntryInformation();
89: assertFalse(simpleEntryInformation1.equals((Object)simpleEntryInformation0));
90: assertNotNull(simpleEntryInformation1);
91: assertNotSame(simpleEntryInformation1, simpleEntryInformation0);
92: assertFalse(simpleEntryInformation1.useEMBLFormat());
93:
94: options0.reset();
95: assertEquals(216, options0.size());
96: assertFalse(options0.isEmpty());
97: assertFalse(options0.isUnixHost());
98:
99: options0.getIntegerProperty((String) null);
Test case 45
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertFalse(options0.isUnixHost());
5: assertEquals(215, options0.size());
6:
7: options0.setSystematicQualifierNames((String) null);
Test case 46
1: Options options0 = Options.getOptions();
2: assertNotNull(options0);
3: assertFalse(options0.isEmpty());
4: assertFalse(options0.isUnixHost());
5: assertEquals(216, options0.size());
6:
7: Set<String> set0 = options0.stringPropertyNames();
8: assertNotNull(set0);
9: assertFalse(options0.isEmpty());
10: assertFalse(options0.isUnixHost());
11: assertEquals(216, options0.size());
12: assertFalse(set0.isEmpty());
13: assertEquals(216, set0.size());
14:
15: options0.clear();
16: assertTrue(options0.isEmpty());
17: assertEquals(0, options0.size());
18: assertFalse(options0.isUnixHost());
19:
20: DatabaseDocument.EXONMODEL = "MJro,{bg+)P";
21: StringVector stringVector0 = options0.getDisplayQualifierNames();
22: assertNotNull(stringVector0);
23: assertTrue(options0.isEmpty());
24: assertEquals(0, options0.size());
25: assertFalse(options0.isUnixHost());
26: assertFalse(stringVector0.isEmpty());
27: assertEquals(1, stringVector0.size());
28: assertEquals(10, stringVector0.capacity());
29: assertEquals("[gene]", stringVector0.toString());
30:
31: int int0 = options0.getMinimumORFSize();
32: assertEquals(100, int0);
33: assertTrue(options0.isEmpty());
34: assertEquals(0, options0.size());
35: assertFalse(options0.isUnixHost());
36:
37: options0.setDisplayNameQualifiers("!B4v0cHY`-[");
38: assertEquals(1, options0.size());
39: assertFalse(options0.isEmpty());
40: assertFalse(options0.isUnixHost());
41:
42: SimpleEntryInformation simpleEntryInformation0 = (SimpleEntryInformation)Options.getArtemisEntryInformation();
43: assertNotNull(simpleEntryInformation0);
44: assertFalse(simpleEntryInformation0.useEMBLFormat());
45:
46: ExternalProgramVector externalProgramVector0 = options0.getExternalPrograms();
47: assertNotNull(externalProgramVector0);
48: assertEquals(1, options0.size());
49: assertFalse(options0.isEmpty());
50: assertFalse(options0.isUnixHost());
51: assertEquals(28, externalProgramVector0.size());
52:
53: ExternalProgramVector externalProgramVector1 = options0.getExternalPrograms();
54: assertNotNull(externalProgramVector1);
55: assertSame(externalProgramVector1, externalProgramVector0);
56: assertEquals(1, options0.size());
57: assertFalse(options0.isEmpty());
58: assertFalse(options0.isUnixHost());
59: assertEquals(28, externalProgramVector1.size());