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Searched refs:num_sequences (Results 1 – 25 of 156) sorted by relevance

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/dports/devel/boost-python-libs/boost_1_72_0/libs/iostreams/test/
H A Dbzip2_test.cpp57 const int num_sequences = 10; in multiple_member_test() local
64 for(int i = 0; i < num_sequences; ++i) in multiple_member_test()
77 BOOST_REQUIRE_EQUAL(data.size() * num_sequences, dest.size()); in multiple_member_test()
78 for(int i = 0; i < num_sequences; ++i) in multiple_member_test()
79 … BOOST_CHECK(std::equal(data.begin(), data.end(), dest.begin() + i * dest.size() / num_sequences)); in multiple_member_test()
87 BOOST_REQUIRE_EQUAL(data.size() * num_sequences, dest.size()); in multiple_member_test()
88 for(int i = 0; i < num_sequences; ++i) in multiple_member_test()
89 … BOOST_CHECK(std::equal(data.begin(), data.end(), dest.begin() + i * dest.size() / num_sequences)); in multiple_member_test()
/dports/devel/boost-docs/boost_1_72_0/libs/iostreams/test/
H A Dbzip2_test.cpp57 const int num_sequences = 10; in multiple_member_test() local
64 for(int i = 0; i < num_sequences; ++i) in multiple_member_test()
77 BOOST_REQUIRE_EQUAL(data.size() * num_sequences, dest.size()); in multiple_member_test()
78 for(int i = 0; i < num_sequences; ++i) in multiple_member_test()
79 … BOOST_CHECK(std::equal(data.begin(), data.end(), dest.begin() + i * dest.size() / num_sequences)); in multiple_member_test()
87 BOOST_REQUIRE_EQUAL(data.size() * num_sequences, dest.size()); in multiple_member_test()
88 for(int i = 0; i < num_sequences; ++i) in multiple_member_test()
89 … BOOST_CHECK(std::equal(data.begin(), data.end(), dest.begin() + i * dest.size() / num_sequences)); in multiple_member_test()
/dports/devel/boost-libs/boost_1_72_0/libs/iostreams/test/
H A Dbzip2_test.cpp57 const int num_sequences = 10; in multiple_member_test() local
64 for(int i = 0; i < num_sequences; ++i) in multiple_member_test()
77 BOOST_REQUIRE_EQUAL(data.size() * num_sequences, dest.size()); in multiple_member_test()
78 for(int i = 0; i < num_sequences; ++i) in multiple_member_test()
79 … BOOST_CHECK(std::equal(data.begin(), data.end(), dest.begin() + i * dest.size() / num_sequences)); in multiple_member_test()
87 BOOST_REQUIRE_EQUAL(data.size() * num_sequences, dest.size()); in multiple_member_test()
88 for(int i = 0; i < num_sequences; ++i) in multiple_member_test()
89 … BOOST_CHECK(std::equal(data.begin(), data.end(), dest.begin() + i * dest.size() / num_sequences)); in multiple_member_test()
/dports/devel/hyperscan/boost_1_75_0/libs/iostreams/test/
H A Dbzip2_test.cpp57 const int num_sequences = 10; in multiple_member_test() local
64 for(int i = 0; i < num_sequences; ++i) in multiple_member_test()
77 BOOST_REQUIRE_EQUAL(data.size() * num_sequences, dest.size()); in multiple_member_test()
78 for(int i = 0; i < num_sequences; ++i) in multiple_member_test()
79 … BOOST_CHECK(std::equal(data.begin(), data.end(), dest.begin() + i * dest.size() / num_sequences)); in multiple_member_test()
87 BOOST_REQUIRE_EQUAL(data.size() * num_sequences, dest.size()); in multiple_member_test()
88 for(int i = 0; i < num_sequences; ++i) in multiple_member_test()
89 … BOOST_CHECK(std::equal(data.begin(), data.end(), dest.begin() + i * dest.size() / num_sequences)); in multiple_member_test()
/dports/biology/p5-BioPerl/BioPerl-1.7.7/lib/Bio/Align/
H A DPairwiseStatistics.pm106 } elsif ( $aln->num_sequences != 2 ) {
108 $aln->num_sequences." sequences in alignment\n");
130 } elsif ( $aln->num_sequences != 2 ) {
132 $aln->num_sequences." sequences in alignment\n");
169 } elsif ( $aln->num_sequences != 2 ) {
171 $aln->num_sequences." sequences in alignment\n");
211 } elsif ( $aln->num_sequences != 2 ) {
213 $aln->num_sequences." sequences in alignment\n");
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/align_format/
H A Daln_printer.cpp197 int num_sequences = m_AlnVec->GetNumRows(); in x_PrintPhylipSequential() local
207 for (int i=0;i < num_sequences;i++) { in x_PrintPhylipSequential()
245 int num_sequences = m_AlnVec->GetNumRows(); in x_PrintPhylipInterleaved() local
252 ostr << " " << num_sequences << " " << aln_width << NcbiEndl; in x_PrintPhylipInterleaved()
255 for (int i=0;i < num_sequences;i++) { in x_PrintPhylipInterleaved()
283 for (int i=0;i < num_sequences;i++) { in x_PrintPhylipInterleaved()
300 int num_sequences = m_AlnVec->GetNumRows(); in x_PrintNexus() local
302 vector<string> seqids(num_sequences); in x_PrintNexus()
304 for (int i=0;i < num_sequences;i++) { in x_PrintNexus()
314 << "DIMENSIONS ntax=" << num_sequences << " nchar=" in x_PrintNexus()
[all …]
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/align_format/
H A Daln_printer.cpp197 int num_sequences = m_AlnVec->GetNumRows(); in x_PrintPhylipSequential() local
207 for (int i=0;i < num_sequences;i++) { in x_PrintPhylipSequential()
245 int num_sequences = m_AlnVec->GetNumRows(); in x_PrintPhylipInterleaved() local
252 ostr << " " << num_sequences << " " << aln_width << NcbiEndl; in x_PrintPhylipInterleaved()
255 for (int i=0;i < num_sequences;i++) { in x_PrintPhylipInterleaved()
283 for (int i=0;i < num_sequences;i++) { in x_PrintPhylipInterleaved()
300 int num_sequences = m_AlnVec->GetNumRows(); in x_PrintNexus() local
302 vector<string> seqids(num_sequences); in x_PrintNexus()
304 for (int i=0;i < num_sequences;i++) { in x_PrintNexus()
314 << "DIMENSIONS ntax=" << num_sequences << " nchar=" in x_PrintNexus()
[all …]
/dports/science/pybrain/pybrain-0.3.3/pybrain/tools/plotting/
H A Dclassification.py80 num_sequences = dataset.getNumSequences()
87 for seq_i in range(num_sequences):
98 …% Correct Classification (red dots mean bad classification)'.format(correct * 100 / num_sequences))
101 plt.scatter(list(range(num_sequences)), expected, s=s, c='r', linewidths=0)
102 plt.scatter(list(range(num_sequences)), actual, s=s, c='k')
103 …plt.scatter(confidence_x, list(range(module.outdim)) * num_sequences, s=s*np.array(confidence_s), …
/dports/biology/p5-BioPerl/BioPerl-1.7.7/t/AlignIO/
H A Darp.t29 is($aln->num_sequences, 60,'ARP num_sequences()');
49 is($aln->num_sequences, 3,'ARP num_sequences()');
65 is($aln->num_sequences, 8,'ARP num_sequences()');
81 is($aln->num_sequences, 6,'ARP num_sequences()');
H A Dmeme.t23 is $aln->num_sequences,4;
34 is $aln->num_sequences,8;
46 is $aln->num_sequences,47;
H A Dpo.t33 is $aln->num_sequences, 6;
54 is $aln2->num_sequences, $aln->num_sequences;
/dports/biology/py-scikit-bio/scikit-bio-0.5.6/skbio/alignment/
H A D_repr.py28 num_sequences = self._obj.shape.sequence
35 if num_sequences <= 5:
37 self._format_sequences(range(num_sequences)))
42 range(num_sequences - 2, num_sequences)))
/dports/science/py-DendroPy/DendroPy-4.4.0/src/dendropy/calculate/
H A Dpopgenstat.py129 def _tajimas_d(num_sequences, avg_num_pairwise_differences, num_segregating_sites): argument
145 a1 = sum([1.0/i for i in range(1, num_sequences)])
146 a2 = sum([1.0/(i**2) for i in range(1, num_sequences)])
147 b1 = float(num_sequences+1)/(3*(num_sequences-1))
148 b2 = float(2 * ( (num_sequences**2) + num_sequences + 3 )) / (9*num_sequences*(num_sequences-1))
150 c2 = b2 - float(num_sequences+2)/(a1 * num_sequences) + float(a2)/(a1 ** 2)
191 num_sequences = len(sequences)
197 return _tajimas_d(num_sequences, avg_num_pairwise_differences, num_segregating_sites)
/dports/games/avp/avp-20170505/src/win95/
H A Danimobs.cpp435 num_sequences=0; in Object_Animation_All_Sequence_Chunk()
442 num_sequences=*(int*)data; in Object_Animation_All_Sequence_Chunk()
445 if(num_sequences) sequences=new Object_Animation_Sequence[num_sequences]; in Object_Animation_All_Sequence_Chunk()
448 for(int i=0;i<num_sequences;i++) in Object_Animation_All_Sequence_Chunk()
478 *(int*)data=num_sequences; in fill_data_block()
481 for(int i=0;i<num_sequences;i++) in fill_data_block()
505 chunk_size+=num_sequences*16; in size_chunk()
506 for(int i=0;i<num_sequences;i++) in size_chunk()
/dports/biology/p5-BioPerl-Run/BioPerl-Run-1.007003/t/
H A DMAFFT.t37 is( $aln->num_sequences, 7);
50 is $aln->num_sequences, 7;
57 is $aln->num_sequences, 7;
66 is $aln->num_sequences, 7;
79 is $aln->num_sequences, 7;
H A DProbalign.t35 is( $aln->num_sequences, 7);
48 is $aln->num_sequences, 7;
58 is $aln->num_sequences, 7;
66 is $aln->num_sequences, 3;
H A DMuscle.t44 is( $aln->num_sequences, 7 );
57 is $aln->num_sequences, 7;
79 is $aln->num_sequences, 7;
86 is $aln->num_sequences, 3;
H A DMSAProbs.t39 is( $aln->num_sequences, 7);
53 is $aln->num_sequences, 7;
76 is $aln->num_sequences, 7;
85 is $aln->num_sequences, 3;
H A DKalign.t26 is( $aln->num_sequences, 7);
39 is $aln->num_sequences, 7;
/dports/textproc/meld-legacy/meld-1.8.6/meld/
H A Ddiffutil.py77 self.num_sequences = 0
91 if self.num_sequences == 3:
192 if sequence == 2 or (sequence == 1 and self.num_sequences == 3):
225 if self.num_sequences == 3:
456 self.num_sequences = len(sequences)
459 for i in range(self.num_sequences - 1):
477 self.seqlength = [0] * self.num_sequences
480 self._update_merge_cache([""] * self.num_sequences)
/dports/games/avp/avp-20170505/src/avp/
H A Dbh_plachier.h53 int num_sequences; member
75 int num_sequences; member
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/blastinput/
H A Dblast_input.cpp309 TSeqPos num_sequences = 0; in GetNextSeqBatch() local
310 while (bases_added < m_BatchSize && num_sequences < m_MaxNumSequences && in GetNextSeqBatch()
317 num_sequences++; in GetNextSeqBatch()
321 m_NumSeqs += (Int8)num_sequences; in GetNextSeqBatch()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/blastinput/
H A Dblast_input.cpp309 TSeqPos num_sequences = 0; in GetNextSeqBatch() local
310 while (bases_added < m_BatchSize && num_sequences < m_MaxNumSequences && in GetNextSeqBatch()
317 num_sequences++; in GetNextSeqBatch()
321 m_NumSeqs += (Int8)num_sequences; in GetNextSeqBatch()
/dports/textproc/meld/meld-3.20.4/meld/matchers/
H A Ddiffutil.py82 self.num_sequences = 0
96 if self.num_sequences == 3:
203 if sequence == 2 or (sequence == 1 and self.num_sequences == 3):
236 if self.num_sequences == 3:
492 self.num_sequences = len(sequences)
495 for i in range(self.num_sequences - 1):
513 self.seqlength = [0] * self.num_sequences
516 self._update_merge_cache([""] * self.num_sequences)
/dports/biology/p5-BioPerl/BioPerl-1.7.7/t/Align/
H A DSimpleAlign.t38 is( $aln2->num_sequences, 3, 'num_sequences' );
42 is( $aln2->num_sequences, 10, 'num_sequences' );
56 is( $aln2->num_sequences, 10, 'num_sequences' );
70 is( $aln3->num_sequences, 3, 'select_noncont_by_name' );
108 is $aln->num_sequences, 16, 'num_sequences';
144 is $aln->num_sequences, 15, 'remove_seqs';
146 is $aln->num_sequences, 16, 'add_seq';
154 is $aln->num_sequences, 4, 'purge';
318 $a = $new_aln->num_sequences;
379 is $aln->num_sequences, 3, 'added 3 seqs';

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