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NCBI C++ ToolKit: src/objmgr/util/unit_test/unit_test_seq_loc_cmp.cpp Source File

33 #define NCBI_TEST_APPLICATION 87

ret->

().SetA().SetId().SetGi(giA);

88

ret->

().SetA().SetPoint(posA);

90

ret->

().SetB().SetId().SetGi(giB);

91

ret->

().SetB().SetPoint(posB);

103

ret->

().SetId().SetGi(gi);

104

ret->

().SetFrom(from);

105

ret->

().SetTo(to);

107

ret->

().SetStrand(strand);

119

ret->

().SetId(*

id

);

120

ret->

().SetFrom(from);

121

ret->

().SetTo(to);

123

ret->

().SetStrand(strand);

132

ret->

().SetId().SetGi(gi);

133

ret->

().SetPoint(pos);

145

wl2.

().SetLocal().SetStr(

"local2"

);

146

wl3.

().SetLocal().SetStr(

"local3"

);

234

wl2.

().SetLocal().SetStr(

"local2"

);

235

wl3.

().SetLocal().SetStr(

"local3"

);

261

mix.

().Set().clear();

266

mix.

().Set().clear();

272

mix.

().Set().clear();

278

mix.

().Set().clear();

284

mix.

().Set().clear();

288

mix.

().Set().push_back(sub);

644

mix.

().Set().clear();

647

mix.

().Set().push_back(sub);

652

mix.

().Set().clear();

664

mix.

().Set().clear();

669

mix.

().Set().push_back(sub);

676

mix.

().Set().push_back(sub2);

681

mix.

().Set().clear();

687

mix.

().Set().clear();

693

mix.

().Set().clear();

700

mix.

().Set().clear();

706

mix.

().Set().clear();

713

mix.

().Set().clear();

721

mix.

().Set().clear();

729

mix.

().Set().push_back(sub);

733

mix.

().Set().clear();

741

mix.

().Set().push_back(sub);

751

mix.

().Set().clear();

753

sub->

().SetId().SetGi(2);

754

sub->

().SetPoint(30);

762

mix.

().Set().push_back(sub);

766

mix.

().Set().clear();

773

mix.

().Set().push_back(sub);

777

mix.

().Set().clear();

781

mix.

().Set().push_back(sub);

1080

mix.

().Set().clear();

1083

mix.

().Set().push_back(sub);

1096

mix.

().Set().clear();

1108

mix.

().Set().clear();

1113

mix.

().Set().push_back(sub);

1120

mix.

().Set().push_back(sub2);

1127

mix.

().Set().clear();

1133

mix.

().Set().clear();

1139

mix.

().Set().clear();

1146

mix.

().Set().clear();

1162

mix.

().Set().clear();

1169

mix.

().Set().clear();

1180

mix.

().Set().clear();

1188

mix.

().Set().push_back(sub);

1192

mix.

().Set().clear();

1200

mix.

().Set().push_back(sub);

1205

mix.

().Set().clear();

1207

sub->

().SetId().SetGi(2);

1208

sub->

().SetPoint(30);

1216

mix.

().Set().push_back(sub);

1220

mix.

().Set().clear();

1227

mix.

().Set().push_back(sub);

1266 b

->SetBond().SetB().SetId().SetGi(2);

1267 b

->SetBond().SetB().SetPoint(25);

1297 b

->SetBond().SetB().SetId().SetGi(3);

1384

mix.

().Set().clear();

1392

mix.

().Set().clear();

1639

mix1.

().Set().clear();

1642

mix2.

().Set().clear();

1656

mix2.

().Set().push_back(sub);

1695

mix.

().Set().clear();

1703

mix.

().Set().reverse();

1707

mix.

().Set().clear();

1712

mix.

().Set().reverse();

1716

mix.

().Set().reverse();

1786 Seq-entry ::= set {\ 1791 local str \"local2\",\ 1798 seq-data iupacna \"TTTTTTTTTTTGAGATGGAGTTTTCGCTCTTGTTGCCCAGGCTGGAGTGCAA\ 1799 TGGCGCAATCTCAGCTCACCGCAACCTCCGCCTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCCAGTAGCTGG\ 1800 GATTACAGGCATGTGCACCCACGCTCGGCTAATTTTGTATTTTTTTTTAGTAGAGATGGAGTTTCTCCATGTTGGTCA\ 1801 GGCTGGTCTCGAACTCCCGACCTCAGATGATCCCTCCGTCTCGGCCTCCCAAAGTGCTAGATACAGGACTGGCCACCA\ 1802 TGCCCGGCTCTGCCTGGCTAATTTTTGTGGTAGAAACAGGGTTTCACTGATGTGCCCAAGCTGGTCTCCTGAGCTCAA\ 1803 GCAGTCCACCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTGCAGCCGTGCCTGGCCTTTTTATTTTATTTTT\ 1804 TTTAAGACACAGGTGTCCCACTCTTACCCAGGATGAAGTGCAGTGGTGTGATCACAGCTCACTGCAGCCTTCAACTCC\ 1805 TGAGATCAAGCATCCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACCAAAGACATGCACCACTACACCTGGCTAATTTT\ 1806 TATTTTTATTTTTAATTTTTTGAGACAGAGTCTCAACTCTGTCACCCAGGCTGGAGTGCAGTGGCGCAATCTTGGCTC\ 1807 ACTGCAACCTCTGCCTCCCGGGTTCAAGTTATTCTCCTGCCCCAGCCTCCTGAGTAGCTGGGACTACAGGCGCCCACC\ 1808 ACGCCTAGCTAATTTTTTTGTATTTTTAGTAGAGATGGGGTTCACCATGTTCGCCAGGTTGATCTTGATCTCTGGACC\ 1809 TTGTGATCTGCCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACGCCCGGCTTATTTTTAATTT\ 1810 TTGTTTGTTTGAAATGGAATCTCACTCTGTTACCCAGGCTGGAGTGCAATGGCCAAATCTCGGCTCACTGCAACCTCT\ 1811 GCCTCCCGGGCTCAAGCGATTCTCCTGTCTCAGCCTCCCAAGCAGCTGGGATTACGGGCACCTGCCACCACACCCCGC\ 1812 TAATTTTTGTATTTTCATTAGAGGCGGGGTTTCACCATATTTGTCAGGCTGGTCTCAAACTCCTGACCTCAGGTGACC\ 1813 CACCTGCCTCAGCCTTCCAAAGTGCTGGGATTACAGGCGTGAGCCACCTCACCCAGCCGGCTAATTTAGATAAAAAAA\ 1814 TATGTAGCAATGGGGGGTCTTGCTATGTTGCCCAGGCTGGTCTCAAACTTCTGGCTTCATGCAATCCTTCCAAATGAG\ 1815 CCACAACACCCAGCCAGTCACATTTTTTAAACAGTTACATCTTTATTTTAGTATACTAGAAAGTAATACAATAAACAT\ 1816 GTCAAACCTGCAAATTCAGTAGTAACAGAGTTCTTTTATAACTTTTAAACAAAGCTTTAGAGCA\"\ 1821 local str \"local3\",\ 1829 seq-data ncbieaa \"MEFSLLLPRLECNGAISAHRNLRLPGSSDSPASASPVAGITGMCTHARLILY\ 1830 FFLVEMEFLHVGQAGLELPTSDDPSVSASQSARYRTGHHARLCLANFCGRNRVSLMCPSWSPELKQSTCLSLPKCWDY\ 1831 RRAAVPGLFILFFLRHRCPTLTQDEVQWCDHSSLQPSTPEIKHPPASASQVAGTKDMHHYTWLIFIFIFNFLRQSLNS\ 1832 VTQAGVQWRNLGSLQPLPPGFKLFSCPSLLSSWDYRRPPRLANFFVFLVEMGFTMFARLILISGPCDLPASASQSAGI\ 1833 TGVSHHARLIFNFCLFEMESHSVTQAGVQWPNLGSLQPLPPGLKRFSCLSLPSSWDYGHLPPHPANFCIFIRGGVSPY\ 1839 local str \"local102\",\ 1847 seq-data iupacna \"TTTTTTTTTTTGAGATGGAGTTTTCGCTCTTGTTGCCCAGGCTGGAGTGCAA\ 1848 TGGCGCAATCTCAGCTCACCGCAACCTCCGCCTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCCAGTAGCTGG\ 1849 GATTACAGGCATGTGCACCCACGCTCGGCTAATTTTGTATTTTTTTTTAGTAGAGATGGAGTTTCTCCATGTTGGTCA\ 1850 GGCTGGTCTCGAACTCCCGACCTCAGATGATCCCTCCGTCTCGGCCTCCCAAAGTGCTAGATACAGGACTGGCCACCA\ 1851 TGCCCGGCTCTGCCTGGCTAATTTTTGTGGTAGAAACAGGGTTTCACTGATGTGCCCAAGCTGGTCTCCTGAGCTCAA\ 1852 GCAGTCCACCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTGCAGCCGTGCCTGGCCTTTTTATTTTATTTTT\ 1853 TTTAAGACACAGGTGTCCCACTCTTACCCAGGATGAAGTGCAGTGGTGTGATCACAGCTCACTGCAGCCTTCAACTCC\ 1854 TGAGATCAAGCATCCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACCAAAGACATGCACCACTACACCTGGCTAATTTT\ 1855 TATTTTTATTTTTAATTTTTTGAGACAGAGTCTCAACTCTGTCACCCAGGCTGGAGTGCAGTGGCGCAATCTTGGCTC\ 1856 ACTGCAACCTCTGCCTCCCGGGTTCAAGTTATTCTCCTGCCCCAGCCTCCTGAGTAGCTGGGACTACAGGCGCCCACC\ 1857 ACGCCTAGCTAATTTTTTTGTATTTTTAGTAGAGATGGGGTTCACCATGTTCGCCAGGTTGATCTTGATCTCTGGACC\ 1858 TTGTGATCTGCCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACGCCCGGCTTATTTTTAATTT\ 1859 TTGTTTGTTTGAAATGGAATCTCACTCTGTTACCCAGGCTGGAGTGCAATGGCCAAATCTCGGCTCACTGCAACCTCT\ 1860 GCCTCCCGGGCTCAAGCGATTCTCCTGTCTCAGCCTCCCAAGCAGCTGGGATTACGGGCACCTGCCACCACACCCCGC\ 1861 TAATTTTTGTATTTTCATTAGAGGCGGGGTTTCACCATATTTGTCAGGCTGGTCTCAAACTCCTGACCTCAGGTGACC\ 1862 CACCTGCCTCAGCCTTCCAAAGTGCTGGGATTACAGGCGTGAGCCACCTCACCCAGCCGGCTAATTTAGATAAAAAAA\ 1863 TATGTAGCAATGGGGGGTCTTGCTATGTTGCCCAGGCTGGTCTCAAACTTCTGGCTTCATGCAATCCTTCCAAATGAG\ 1864 CCACAACACCCAGCCAGTCACATTTTTTAAACAGTTACATCTTTATTTTAGTATACTAGAAAGTAATACAATAAACAT\ 1865 GTCAAACCTGCAAATTCAGTAGTAACAGAGTTCTTTTATAACTTTTAAACAAAGCTTTAGAGCA\"\ 1870 local str \"local202\",\ 1878 seq-data iupacna \"TTTTTTTTTTTGAGATGGAGTTTTCGCTCTTGTTGCCCAGGCTGGAGTGCAA\ 1879 TTGTGATCTGCCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACGCCCGGCTTATTTTTAATTT\ 1880 TTGTTTGTTTGAAATGGAATCTCACTCTGTTACCCAGGCTGGAGTGCAATGGCCAAATCTCGGCTCACTGCAACCTCT\ 1881 GCCTCCCGGGCTCAAGCGATTCTCCTGTCTCAGCCTCCCAAGCAGCTGGGATTACGGGCACCTGCCACCACACCCCGC\ 1882 TAATTTTTGTATTTTCATTAGAGGCGGGGTTTCACCATATTTGTCAGGCTGGTCTCAAACTCCTGACCTCAGGTGACC\ 1883 CACCTGCCTCAGCCTTCCAAAGTGCTGGGATTACAGGCGTGAGCCACCTCACCCAGCCGGCTAATTTAGATAAAAAAA\ 1884 TATGTAGCAATGGGGGGTCTTGCTATGTTGCCCAGGCTGGTCTCAAACTTCTGGCTTCATGCAATCCTTCCAAATGAG\ 1885 CCACAACACCCAGCCAGTCACATTTTTTAAACAGTTACATCTTTATTTTAGTATACTAGAAAGTAATACAATAAACAT\ 1886 GTCAAACCTGCAAATTCAGTAGTAACAGAGTTCTTTTATAACTTTTAAACAAAGCTTTAGAGCA\"\

User-defined methods of the data storage class.

unsigned int TSeqPos

Type for sequence locations and lengths.

#define MSerial_AsnText

I/O stream manipulators â.

void SetPacked_int(TPacked_int &v)

void SetPacked_pnt(TPacked_pnt &v)

virtual void Assign(const CSerialObject &source, ESerialRecursionMode how=eRecursive)

Override Assign() to incorporate cache invalidation.

sequence::ECompare Compare(const CSeq_loc &loc1, const CSeq_loc &loc2, CScope *scope)

Returns the sequence::ECompare containment relationship between CSeq_locs.

@ fCompareOverlapping

Check if seq-locs are overlapping.

@ eContains

First CSeq_loc contains second.

@ eOverlap

CSeq_locs overlap.

@ eSame

CSeq_locs contain each other.

@ eContained

First CSeq_loc contained by second.

@ eNoOverlap

CSeq_locs do not overlap or abut.

static CRef< CObjectManager > GetInstance(void)

Return the existing object manager or create one.

CSeq_entry_Handle AddTopLevelSeqEntry(CSeq_entry &top_entry, TPriority pri=kPriority_Default, EExist action=eExist_Default)

Add seq_entry, default priority is higher than for defaults or loaders Add object to the score with p...

CRef< C > Ref(C *object)

Helper functions to get CRef<> and CConstRef<> objects.

void Reset(void)

Reset reference object.

TStr & SetStr(void)

Select the variant.

ENa_strand

strand of nucleic acid

virtual void Reset(void)

Reset the whole object.

TLocal & SetLocal(void)

Select the variant.

Utility stuff for more convenient using of Boost.Test library.

const char * sc_TestEntry

CRef< CSeq_loc > MakeInterval(TGi gi, TSeqPos from, TSeqPos to, ENa_strand strand=eNa_strand_unknown)

CRef< CSeq_loc > MakeBond(TGi giA, TSeqPos posA, TGi giB=ZERO_GI, TSeqPos posB=0)

CRef< CSeq_loc > MakePoint(TGi gi, TSeqPos pos)

BOOST_AUTO_TEST_CASE(Test_Compare_whole_vs_whole)

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