Searched refs:query_gap (Results 1 – 9 of 9) sorted by relevance
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/core/ |
H A D | hspfilter_mapper.c | 380 Int4 query_gap = 0; in s_ComputeAlignmentScore() local 393 query_gap++; in s_ComputeAlignmentScore() 428 if (query_gap > 0) { in s_ComputeAlignmentScore() 430 query_gap = 0; in s_ComputeAlignmentScore() 538 Int4 query_gap = in s_ComputeChainScore() local 1490 Int4 query_gap; in s_MergeHSPs() local 1569 if (query_gap > 0) { in s_MergeHSPs() 1574 query_gap; in s_MergeHSPs() 1580 query_gap; in s_MergeHSPs() 1667 if (query_gap > 0) { in s_MergeHSPs() [all …]
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/core/ |
H A D | hspfilter_mapper.c | 380 Int4 query_gap = 0; in s_ComputeAlignmentScore() local 393 query_gap++; in s_ComputeAlignmentScore() 428 if (query_gap > 0) { in s_ComputeAlignmentScore() 430 query_gap = 0; in s_ComputeAlignmentScore() 538 Int4 query_gap = in s_ComputeChainScore() local 1490 Int4 query_gap; in s_MergeHSPs() local 1569 if (query_gap > 0) { in s_MergeHSPs() 1574 query_gap; in s_MergeHSPs() 1580 query_gap; in s_MergeHSPs() 1667 if (query_gap > 0) { in s_MergeHSPs() [all …]
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/dports/biology/gmap/gmap-2020-09-12/src/ |
H A D | simplepair.c | 531 int query_gap; in compute_cigar_standard() local 674 query_gap = this->querypos - exon_queryend; in compute_cigar_standard() 675 assert(query_gap >= 0); in compute_cigar_standard() 676 if (query_gap > 0) { in compute_cigar_standard() 683 sprintf(token,"%uI",query_gap); in compute_cigar_standard() 812 int query_gap; in compute_cigar_extended() local 958 query_gap = this->querypos - exon_queryend; in compute_cigar_extended() 959 assert(query_gap >= 0); in compute_cigar_extended() 960 if (query_gap > 0) { in compute_cigar_extended() 967 sprintf(token,"%uI",query_gap); in compute_cigar_extended()
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H A D | pair.c | 5237 int query_gap; in compute_cigar_standard() local 5381 assert(query_gap >= 0); in compute_cigar_standard() 5382 if (query_gap > 0) { in compute_cigar_standard() 5389 sprintf(token,"%uI",query_gap); in compute_cigar_standard() 5518 int query_gap; in compute_cigar_extended() local 5665 assert(query_gap >= 0); in compute_cigar_extended() 5666 if (query_gap > 0) { in compute_cigar_extended() 5673 sprintf(token,"%uI",query_gap); in compute_cigar_extended() 6449 int query_gap; 6628 assert(query_gap >= 0); [all …]
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H A D | stage3.c | 2753 query_gap = this->querypos - exon_queryend; in fix_adjacent_indels() 2754 if (query_gap > 0) { in fix_adjacent_indels() 2756 debug4(printf("%dI",query_gap)); in fix_adjacent_indels() 2758 last_token_length = query_gap; in fix_adjacent_indels()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/api/ |
H A D | magicblast.cpp | 237 int query_gap = hsp->query.offset - prev->query.end; in s_ComputeBtopAndIdentity() local 238 if (query_gap > 0) { in s_ComputeBtopAndIdentity() 239 btop += (string)"_" + NStr::IntToString(query_gap) + "_"; in s_ComputeBtopAndIdentity() 242 else if (query_gap < 0) { in s_ComputeBtopAndIdentity() 243 btop += (string)"(" + NStr::IntToString(-query_gap) + ")"; in s_ComputeBtopAndIdentity()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/api/ |
H A D | magicblast.cpp | 237 int query_gap = hsp->query.offset - prev->query.end; in s_ComputeBtopAndIdentity() local 238 if (query_gap > 0) { in s_ComputeBtopAndIdentity() 239 btop += (string)"_" + NStr::IntToString(query_gap) + "_"; in s_ComputeBtopAndIdentity() 242 else if (query_gap < 0) { in s_ComputeBtopAndIdentity() 243 btop += (string)"(" + NStr::IntToString(-query_gap) + ")"; in s_ComputeBtopAndIdentity()
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/dports/biology/ncbi-toolkit/ncbi/algo/blast/core/ |
H A D | hspfilter_mapper.c | 1420 Int4 query_gap; in s_MergeHSPs() local 1439 if (query_gap < 0 || subject_gap < 0 || query_gap > 1 || in s_MergeHSPs() 1440 query_gap != subject_gap) { in s_MergeHSPs() 1446 MAX(query_gap, subject_gap); in s_MergeHSPs() 1473 if (query_gap == subject_gap) { in s_MergeHSPs() 1474 mismatches = query_gap; in s_MergeHSPs() 2665 ASSERT(query_ext_len <= query_gap); in s_ExtendAlignment() 2671 while (query_ext_len < query_gap) { in s_ExtendAlignment() 2775 Int4 query_gap; in s_FindSpliceJunctionsForGap() local 2853 query_gap - 2 - q; in s_FindSpliceJunctionsForGap() [all …]
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/magicblast/ |
H A D | magicblast_util.cpp | 1249 int query_gap = (*next_exon)->GetProduct_start().GetNucpos() - in PrintSAM() local 1251 if (query_gap > 0) { in PrintSAM() 1252 cigar += NStr::IntToString(query_gap); in PrintSAM() 1255 edit_distance += query_gap; in PrintSAM()
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