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Searched refs:num_gaps (Results 1 – 25 of 59) sorted by relevance

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/dports/www/h2o-devel/h2o-dcc7134/deps/quicly/t/
H A Dframe.c34 ok(decoded.num_gaps == 0); in test_ack_decode_underflow()
48 ok(decoded.num_gaps == 1); in test_ack_decode_underflow()
72 ok(decoded.num_gaps == 0); in test_ack_decode()
83 ok(decoded.num_gaps == 2); in test_ack_decode()
109 ok(decoded.num_gaps == QUICLY_ACK_MAX_GAPS); in test_ack_decode()
112 for (i = 0; i < decoded.num_gaps; ++i) { in test_ack_decode()
142 ok(decoded.num_gaps == 0); in test_ack_encode()
156 ok(decoded.num_gaps == 1); in test_ack_encode()
/dports/security/pkcs11-tools/pkcs11-tools-2.5.0/.gnulib/lib/
H A Dssfmalloc.h517 unsigned int num_gaps; /* > 0 */ member
543 pageptr->num_gaps = 1; in init_medium_block_page()
561 size_t num_gaps = pageptr->num_gaps; in allocate_medium_block_in_page() local
563 for (i = 0; i < num_gaps; i++) in allocate_medium_block_in_page()
587 for (i = num_gaps - 1; ; i--) in allocate_medium_block_in_page()
596 pageptr->num_gaps = num_gaps + 1; in allocate_medium_block_in_page()
597 if (pageptr->num_gaps > PAGESIZE / SMALL_BLOCK_MAX_SIZE + 1) in allocate_medium_block_in_page()
616 size_t hi = pageptr->num_gaps - 1; in free_medium_block_in_page()
649 size_t num_gaps = pageptr->num_gaps - 1; in free_medium_block_in_page() local
651 for (i = index + 1; i < num_gaps; i++) in free_medium_block_in_page()
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/dports/www/h2o-devel/h2o-dcc7134/deps/quicly/lib/
H A Dframe.c70 uint64_t i, num_gaps, gap, ack_range; in quicly_decode_ack_frame() local
76 if ((num_gaps = quicly_decodev(src, end)) == UINT64_MAX) in quicly_decode_ack_frame()
85 frame->num_gaps = 0; in quicly_decode_ack_frame()
87 for (i = 0; i != num_gaps; ++i) { in quicly_decode_ack_frame()
98 ++frame->num_gaps; in quicly_decode_ack_frame()
/dports/biology/ncbi-toolkit/ncbi/api/
H A Daceread.c170 g->num_gaps = num_gaps; in GapInfoFromSequenceString()
250 int num_gaps = 0; in AdjustGapInfoFor5Trim() local
257 while (num_gaps < gap_info->num_gaps && pos + gap_info->gap_offsets[num_gaps] < trim) { in AdjustGapInfoFor5Trim()
259 num_gaps++; in AdjustGapInfoFor5Trim()
261 if (num_gaps < gap_info->num_gaps) { in AdjustGapInfoFor5Trim()
263 for (i = num_gaps; i < gap_info->num_gaps; i++) { in AdjustGapInfoFor5Trim()
266 gap_info->num_gaps -= num_gaps; in AdjustGapInfoFor5Trim()
285 while (num_gaps < gap_info->num_gaps && pos + gap_info->gap_offsets[num_gaps] < new_len) { in AdjustGapInfoFor3Trim()
287 num_gaps++; in AdjustGapInfoFor3Trim()
289 if (num_gaps < gap_info->num_gaps) { in AdjustGapInfoFor3Trim()
[all …]
H A Dacerdapi.c716 if (gaps == NULL || gaps->num_gaps == 0) { in GetTransitionsFromGapInfo()
719 while (seq_pos < seq_offset && i < gaps->num_gaps && !added_gap) { in GetTransitionsFromGapInfo()
734 while (i < gaps->num_gaps) { in GetTransitionsFromGapInfo()
741 if (gaps->num_gaps == i + 1 in GetTransitionsFromGapInfo()
H A Daceread.h66 int num_gaps; member
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/sequence/
H A Dgap_analysis.cpp190 << ", num_gaps: " << one_gap_len_summary.num_gaps in operator <<()
225 Uint8 num_gaps = 0; in GetGapLengthSummary() local
229 num_gaps = find_iter->second; in GetGapLengthSummary()
235 num_gaps ))); in GetGapLengthSummary()
309 return real_lhs.num_gaps < real_rhs.num_gaps; in operator ()()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/sequence/unit_test/
H A Dunit_test_gap_analysis.cpp70 << "\tnum gaps: " << one_summary.num_gaps << endl; in s_PrintSummary()
169 size_t num_gaps; member
173 return 0 == (gap_length | num_seqs | num_gaps); } in empty()
184 << ", num_gaps: " << expected_result.num_gaps << ")"; in operator <<()
223 one_gap_summary.num_gaps, one_expected_result.num_gaps); in CheckExpectedResults()
/dports/security/sequoia/sequoia-383133f6be990237044900a4df676488bf8dd71e/cargo-crates/lalrpop-0.17.2/src/lr1/example/
H A Dmod.rs252 let num_gaps = num_syms - 1; // number of gaps we can adjust. Here, 3. in positions() localVariable
253 let amount = difference / num_gaps; // what to add to each gap. Here, 1. in positions()
254 let extra = difference % num_gaps; // the remainder. Here, 1. in positions()
261 for i in extra..num_gaps { in positions()
/dports/games/abstreet/abstreet-0.2.9-49-g74aca40c0/cargo-crates/lalrpop-0.16.3/src/lr1/example/
H A Dmod.rs252 let num_gaps = num_syms - 1; // number of gaps we can adjust. Here, 3. in positions() localVariable
253 let amount = difference / num_gaps; // what to add to each gap. Here, 1. in positions()
254 let extra = difference % num_gaps; // the remainder. Here, 1. in positions()
261 for i in extra..num_gaps { in positions()
/dports/net/krill/krill-0.9.4/cargo-crates/lalrpop-0.19.6/src/lr1/example/
H A Dmod.rs252 let num_gaps = num_syms - 1; // number of gaps we can adjust. Here, 3. in positions() localVariable
253 let amount = difference / num_gaps; // what to add to each gap. Here, 1. in positions()
254 let extra = difference % num_gaps; // the remainder. Here, 1. in positions()
261 for i in extra..num_gaps { in positions()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/streamtest/
H A Dprocess_explore.hpp223 int num_gaps = gaps.size(); in DoOneBioseq() local
228 if (num_gaps > 0) { in DoOneBioseq()
238 …int num_feats = bsx.IterateFeatures([this, &bsx, gaps, num_gaps, &next_gap, &has_gap, &gap_start, … in DoOneBioseq()
247 if (next_gap < num_gaps) { in DoOneBioseq()
/dports/biology/p5-BioPerl/BioPerl-1.7.7/t/Seq/
H A DEncodedSeq.t27 is $seq->num_gaps, 1;
62 is $seq->num_gaps, 2;
H A DLocatableSeq.t28 is $seq->num_gaps, 1;
127 is $seq->num_gaps, 1;
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/sequence/
H A Dgap_analysis.hpp165 num_gaps(num_gaps_arg) { } in SOneGapLengthSummary()
169 Uint8 num_gaps; ///< number of times gaps of this length appear anywhere member
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objmgr/util/
H A Dobjutil.hpp115 size_t num_gaps; // total number of segments representing gaps member
123 num_segs(0), num_gaps(0), residues(0), num_faked_gaps(0) in SDeltaSeqSummary()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objmgr/util/
H A Dobjutil.hpp115 size_t num_gaps; // total number of segments representing gaps member
123 num_segs(0), num_gaps(0), residues(0), num_faked_gaps(0) in SDeltaSeqSummary()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/format/
H A Dblastxml_format.cpp225 unsigned int num_gaps = 0; in s_SeqAlignSetToXMLHsps() local
240 num_gaps = kAlign.GetTotalGapCount(); in s_SeqAlignSetToXMLHsps()
261 num_gaps = final_aln->GetTotalGapCount(); in s_SeqAlignSetToXMLHsps()
332 xhsp->SetGaps(num_gaps); in s_SeqAlignSetToXMLHsps()
H A Dblastxml2_format.cpp213 unsigned int num_gaps = 0; in s_SeqAlignSetToXMLHsps() local
228 num_gaps = kAlign.GetTotalGapCount(); in s_SeqAlignSetToXMLHsps()
249 num_gaps = final_aln->GetTotalGapCount(); in s_SeqAlignSetToXMLHsps()
319 xhsp->SetGaps(num_gaps); in s_SeqAlignSetToXMLHsps()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/format/
H A Dblastxml_format.cpp225 unsigned int num_gaps = 0; in s_SeqAlignSetToXMLHsps() local
240 num_gaps = kAlign.GetTotalGapCount(); in s_SeqAlignSetToXMLHsps()
261 num_gaps = final_aln->GetTotalGapCount(); in s_SeqAlignSetToXMLHsps()
332 xhsp->SetGaps(num_gaps); in s_SeqAlignSetToXMLHsps()
H A Dblastxml2_format.cpp213 unsigned int num_gaps = 0; in s_SeqAlignSetToXMLHsps() local
228 num_gaps = kAlign.GetTotalGapCount(); in s_SeqAlignSetToXMLHsps()
249 num_gaps = final_aln->GetTotalGapCount(); in s_SeqAlignSetToXMLHsps()
319 xhsp->SetGaps(num_gaps); in s_SeqAlignSetToXMLHsps()
/dports/biology/p5-BioPerl/BioPerl-1.7.7/lib/Bio/Search/HSP/
H A DBlastHSP.pm999 my $num_gaps = CORE::length($seqstr) - $self->{$seqType.'Length'};
1000 $self->{$seqType.'Gaps'} = $num_gaps if $num_gaps > 0;
H A DPsiBlastHSP.pm1002 my $num_gaps = CORE::length($seqstr) - $self->{$seqType.'Length'};
1003 $self->{$seqType.'Gaps'} = $num_gaps if $num_gaps > 0;
/dports/biology/ncbi-toolkit/ncbi/algo/blast/api/
H A Dblast_tabular.c278 Int4 num_gaps = 0, num_gap_opens = 0, num_mismatches = 0; in Blast_TabularFormatThread() local
480 Blast_HSPCalcLengthAndGaps(hsp, &align_length, &num_gaps, in Blast_TabularFormatThread()
483 num_mismatches = align_length - hsp->num_ident - num_gaps; in Blast_TabularFormatThread()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/align/util/
H A Dbest_placement.cpp143 const auto num_gaps = gapped_len - ungapped_len; in GetScore() local
152 num_gaps in GetScore()

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