| /dports/biology/abyss/abyss-2.3.1/Align/ |
| H A D | smith_waterman.cpp | 97 const string& seq_a, const string& seq_b, SMAlignment& align, unsigned* align_pos) in Backtrack() argument
108 match += tolower(seq_b[current_j-1]); in Backtrack()
118 consensus_b += seq_b[current_j-1]; // match/mismatch in B in Backtrack()
120 if (isMatch(seq_a[current_i-1], seq_b[current_j-1], in Backtrack()
127 seq_a[current_i-1], seq_b[current_j-1]); in Backtrack()
144 consensus_b += seq_b[current_j-1]; in Backtrack()
146 if (isMatch(seq_a[current_i-1], seq_b[current_j-1], in Backtrack()
152 match += ambiguityOr(seq_a[current_i-1], seq_b[current_j-1]); in Backtrack()
184 int N_b = seq_b.length(); in alignOverlap()
214 char a = seq_a[i-1], b = seq_b[j-1]; in alignOverlap()
[all …]
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| H A D | smith_waterman.h | 56 void alignOverlap(const string& seq_a, const string& seq_b,
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| /dports/www/trac-devel/Trac-1.5.3/trac/search/tests/ |
| H A D | functional.py | 48 seq_b = [False, True, False, True]
49 setfilters(seq_b)
52 checkfilters(seq_b)
54 checkfilters(seq_b)
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| /dports/biology/exonerate/exonerate-2.4.0/src/util/ |
| H A D | fastadiff.c | 65 register gchar *seq_a, *seq_b; in fasta_diff() local
107 seq_b = Sequence_get_str(fdbs_b->seq); in fasta_diff()
108 if(comp(seq_a, seq_b)){ in fasta_diff()
115 g_free(seq_b); in fasta_diff()
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| H A D | fastanrdb.c | 145 register gchar *seq_a, *seq_b; in NRDB_Data_merge_and_print() local
167 seq_b = Sequence_get_str(fdbs_b->seq); in NRDB_Data_merge_and_print()
168 if(!ni->comp(seq_a, seq_b)){ in NRDB_Data_merge_and_print()
174 g_free(seq_b); in NRDB_Data_merge_and_print()
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| H A D | fastasort.c | 100 register gchar *seq_a, *seq_b; in FastaSort_compare_seq_forward() local
105 seq_b = Sequence_get_str(fdbs_b->seq); in FastaSort_compare_seq_forward()
108 ret_val = strcmp(seq_a, seq_b); in FastaSort_compare_seq_forward()
110 g_free(seq_b); in FastaSort_compare_seq_forward()
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| /dports/www/py-django-cms/django-cms-3.7.1/cms/tests/ |
| H A D | test_wizards.py | 55 def assertSequencesEqual(self, seq_a, seq_b): argument
57 seq_b = list(seq_b)
58 zipped = list(zip(seq_a, seq_b))
59 if len(zipped) < len(seq_a) or len(zipped) < len(seq_b):
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| /dports/biology/exonerate/exonerate-2.4.0/src/comparison/ |
| H A D | wordhood.c | 24 gchar *seq_a, gchar *seq_b){ in WordHood_Submat_score_func() argument
25 return Submat_lookup(wha->submat, *seq_a, *seq_b); in WordHood_Submat_score_func()
91 gchar *seq_a, gchar *seq_b){ in WordHood_CodonSubmat_score_func() argument
100 (guchar*)seq_b); in WordHood_CodonSubmat_score_func()
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| H A D | wordhood.h | 44 gchar *seq_a, gchar *seq_b);
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| /dports/biology/fasta3/fasta-36.3.8/src/ |
| H A D | pcomp_subs2.c | 204 seq_b_save = this_buf_p->hdr.seq_b; in next_work_result()
210 this_buf_p->hdr.seq_b = seq_b_save; in next_work_result()
410 MPI_Send(cur_buf->hdr.seq_b, sizeof(struct seq_record)*seqr_cnt, in put_rbuf()
502 seq_base = (*cur_buf)->hdr.seq_b; in get_wbuf()
602 (*cur_buf)->hdr.seq_b = seq_base; in get_wbuf()
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| H A D | thr_buf_structs.h | 54 struct seq_record *seq_b; /* pointer to contig. actual sequence data */ member
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| /dports/science/py-cirq-pasqal/Cirq-0.13.1/cirq-core/cirq/ops/ |
| H A D | boolean_hamiltonian_test.py | 145 def test_gray_code_comparison(seq_a, seq_b, expected): argument
146 assert bh._gray_code_comparator(seq_a, seq_b) == expected
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| /dports/science/py-cirq-google/Cirq-0.13.0/cirq-core/cirq/ops/ |
| H A D | boolean_hamiltonian_test.py | 145 def test_gray_code_comparison(seq_a, seq_b, expected): argument
146 assert bh._gray_code_comparator(seq_a, seq_b) == expected
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| /dports/science/py-cirq-ionq/Cirq-0.13.1/cirq-core/cirq/ops/ |
| H A D | boolean_hamiltonian_test.py | 145 def test_gray_code_comparison(seq_a, seq_b, expected): argument
146 assert bh._gray_code_comparator(seq_a, seq_b) == expected
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| /dports/science/py-cirq-core/Cirq-0.13.1/cirq-core/cirq/ops/ |
| H A D | boolean_hamiltonian_test.py | 145 def test_gray_code_comparison(seq_a, seq_b, expected): argument
146 assert bh._gray_code_comparator(seq_a, seq_b) == expected
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| /dports/biology/py-biopython/biopython-1.79/Tests/ |
| H A D | search_tests_common.py | 43 for seq_a, seq_b in zip(val_a, val_b):
45 self.assertEqual(str(seq_a.seq), str(seq_b.seq), msg=msg)
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| /dports/lang/perl5.34/perl-5.34.0/cpan/Pod-Usage/t/inc/Pod/ |
| H A D | PlainText.pm | 269 if ($command eq 'B') { return $self->seq_b ($_) }
409 sub seq_b { return $_[0]{alt} ? "``$_[1]''" : $_[1] } subroutine
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| /dports/lang/perl5.30/perl-5.30.3/cpan/Pod-Usage/t/inc/Pod/ |
| H A D | PlainText.pm | 268 if ($command eq 'B') { return $self->seq_b ($_) }
408 sub seq_b { return $_[0]{alt} ? "``$_[1]''" : $_[1] } subroutine
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| /dports/lang/perl5.30/perl-5.30.3/cpan/Pod-Parser/lib/Pod/ |
| H A D | PlainText.pm | 268 if ($command eq 'B') { return $self->seq_b ($_) }
408 sub seq_b { return $_[0]{alt} ? "``$_[1]''" : $_[1] } subroutine
|
| /dports/lang/perl5.32/perl-5.32.1/cpan/Pod-Usage/t/inc/Pod/ |
| H A D | PlainText.pm | 268 if ($command eq 'B') { return $self->seq_b ($_) }
408 sub seq_b { return $_[0]{alt} ? "``$_[1]''" : $_[1] } subroutine
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| /dports/net-mgmt/mrtg/mrtg-2.17.4/lib/mrtg2/Pod/ |
| H A D | PlainText.pm | 268 if ($command eq 'B') { return $self->seq_b ($_) }
404 sub seq_b { return $_[0]{alt} ? "``$_[1]''" : $_[1] } subroutine
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| /dports/lang/perl5-devel/perl5-5.35.4-102-ge43d289c7c/cpan/Pod-Usage/t/inc/Pod/ |
| H A D | PlainText.pm | 269 if ($command eq 'B') { return $self->seq_b ($_) }
409 sub seq_b { return $_[0]{alt} ? "``$_[1]''" : $_[1] } subroutine
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| /dports/textproc/p5-Pod-Parser/Pod-Parser-1.63/lib/Pod/ |
| H A D | PlainText.pm | 268 if ($command eq 'B') { return $self->seq_b ($_) }
408 sub seq_b { return $_[0]{alt} ? "``$_[1]''" : $_[1] } subroutine
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| /dports/devel/p5-Pod-Usage/Pod-Usage-2.01/t/inc/Pod/ |
| H A D | PlainText.pm | 269 if ($command eq 'B') { return $self->seq_b ($_) }
409 sub seq_b { return $_[0]{alt} ? "``$_[1]''" : $_[1] } subroutine
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| /dports/net/pjsip/pjproject-2.11.1/pjmedia/src/pjmedia/ |
| H A D | rtcp_xr.c | 632 pj_uint32_t extended_seq, seq_a, seq_b, diff_a, diff_b; in extend_seq() local
649 seq_b = seq_a - 0x00010000u; in extend_seq()
651 diff_b = sess->src_ref_seq - seq_b; in extend_seq()
653 seq_b = seq_a + 0x00010000u; in extend_seq()
655 diff_b = seq_b - sess->src_ref_seq; in extend_seq()
665 extended_seq = seq_b; in extend_seq()
|