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Searched defs:hspcnt (Results 1 – 25 of 27) sorted by relevance

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/dports/biology/ncbi-toolkit/ncbi/algo/blast/composition_adjustment/
H A Dredo_alignment.c96 int hspcnt; /**< number of alignment in member
218 s_DistinctAlignmentsSort(BlastCompo_Alignment ** plist, int hspcnt) in s_DistinctAlignmentsSort()
646 int hspcnt, int border, int sequence_length, in s_WindowsFromTranslatedAligns()
874 BlastCompo_QueryInfo * query_info, int hspcnt, in s_WindowsFromAligns()
1103 BlastCompo_Alignment * incoming_aligns, int hspcnt, in Blast_RedoOneMatch()
1313 int hspcnt, in Blast_RedoOneMatchSmithWaterman()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/composition_adjustment/
H A Dredo_alignment.c96 int hspcnt; /**< number of alignment in member
218 s_DistinctAlignmentsSort(BlastCompo_Alignment ** plist, int hspcnt) in s_DistinctAlignmentsSort()
646 int hspcnt, int border, int sequence_length, in s_WindowsFromTranslatedAligns()
874 BlastCompo_QueryInfo * query_info, int hspcnt, in s_WindowsFromAligns()
1103 BlastCompo_Alignment * incoming_aligns, int hspcnt, in Blast_RedoOneMatch()
1313 int hspcnt, in Blast_RedoOneMatchSmithWaterman()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/composition_adjustment/
H A Dredo_alignment.c96 int hspcnt; /**< number of alignment in member
218 s_DistinctAlignmentsSort(BlastCompo_Alignment ** plist, int hspcnt) in s_DistinctAlignmentsSort()
646 int hspcnt, int border, int sequence_length, in s_WindowsFromTranslatedAligns()
874 BlastCompo_QueryInfo * query_info, int hspcnt, in s_WindowsFromAligns()
1103 BlastCompo_Alignment * incoming_aligns, int hspcnt, in Blast_RedoOneMatch()
1313 int hspcnt, in Blast_RedoOneMatchSmithWaterman()
/dports/biology/ncbi-toolkit/ncbi/algo/blast/core/
H A Dhspfilter_collector.c241 Int4 hspcnt; in s_BlastHSPCollectorRun_RPS() local
H A Dlink_hsps.c1508 s_LinkedHSPSetArraySetUp(BlastHSP** hsp_array, Int4 hspcnt, in s_LinkedHSPSetArraySetUp()
1543 s_LinkedHSPSetArrayCleanUp(BlastLinkedHSPSet** link_hsp_array, Int4 hspcnt) in s_LinkedHSPSetArrayCleanUp()
1567 s_LinkedHSPSetArrayIndexQueryEnds(BlastLinkedHSPSet** hsp_array, Int4 hspcnt, in s_LinkedHSPSetArrayIndexQueryEnds()
1624 Int4 hspcnt, index, index1; in s_BlastUnevenGapLinkHSPs() local
H A Dblast_hits.h158 Int4 hspcnt; /**< Number of HSPs saved */ member
H A Dblast_hits.c1732 Int4 hspcnt; in Blast_HSPListSaveHSP() local
2186 Int4 hspcnt; /* total number of HSP's to iterate over. */ in Blast_HSPListPurgeNullHSPs() local
2504 Int4 index, context, hspcnt; in Blast_HSPListReevaluateUngapped() local
3716 int hspcnt; in s_TrimResultsByTotalHSPLimitEx() local
H A Dblast_kappa.c216 s_HitlistReapContained(BlastHSP * hsp_array[], Int4 * hspcnt) in s_HitlistReapContained()
760 BlastHSP * hsp_array[], Int4 hspcnt, in s_ResultHspToDistinctAlign()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/core/
H A Dhspfilter_collector.c241 Int4 hspcnt; in s_BlastHSPCollectorRun_RPS() local
H A Dlink_hsps.c1508 s_LinkedHSPSetArraySetUp(BlastHSP** hsp_array, Int4 hspcnt, in s_LinkedHSPSetArraySetUp()
1543 s_LinkedHSPSetArrayCleanUp(BlastLinkedHSPSet** link_hsp_array, Int4 hspcnt) in s_LinkedHSPSetArrayCleanUp()
1567 s_LinkedHSPSetArrayIndexQueryEnds(BlastLinkedHSPSet** hsp_array, Int4 hspcnt, in s_LinkedHSPSetArrayIndexQueryEnds()
1624 Int4 hspcnt, index, index1; in s_BlastUnevenGapLinkHSPs() local
H A Dblast_hits.c1757 Int4 hspcnt; in Blast_HSPListSaveHSP() local
2223 Int4 hspcnt; /* total number of HSP's to iterate over. */ in Blast_HSPListPurgeNullHSPs() local
2612 Int4 index, context, hspcnt; in Blast_HSPListReevaluateUngapped() local
3823 int hspcnt; in s_TrimResultsByTotalHSPLimitEx() local
H A Dblast_kappa.c224 s_HitlistReapContained(BlastHSP * hsp_array[], Int4 * hspcnt) in s_HitlistReapContained()
770 BlastHSP * hsp_array[], Int4 hspcnt, in s_ResultHspToDistinctAlign()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/core/
H A Dhspfilter_collector.c241 Int4 hspcnt; in s_BlastHSPCollectorRun_RPS() local
H A Dlink_hsps.c1508 s_LinkedHSPSetArraySetUp(BlastHSP** hsp_array, Int4 hspcnt, in s_LinkedHSPSetArraySetUp()
1543 s_LinkedHSPSetArrayCleanUp(BlastLinkedHSPSet** link_hsp_array, Int4 hspcnt) in s_LinkedHSPSetArrayCleanUp()
1567 s_LinkedHSPSetArrayIndexQueryEnds(BlastLinkedHSPSet** hsp_array, Int4 hspcnt, in s_LinkedHSPSetArrayIndexQueryEnds()
1624 Int4 hspcnt, index, index1; in s_BlastUnevenGapLinkHSPs() local
H A Dblast_hits.c1757 Int4 hspcnt; in Blast_HSPListSaveHSP() local
2223 Int4 hspcnt; /* total number of HSP's to iterate over. */ in Blast_HSPListPurgeNullHSPs() local
2612 Int4 index, context, hspcnt; in Blast_HSPListReevaluateUngapped() local
3823 int hspcnt; in s_TrimResultsByTotalHSPLimitEx() local
H A Dblast_kappa.c224 s_HitlistReapContained(BlastHSP * hsp_array[], Int4 * hspcnt) in s_HitlistReapContained()
770 BlastHSP * hsp_array[], Int4 hspcnt, in s_ResultHspToDistinctAlign()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/algo/blast/core/
H A Dblast_hits.h158 Int4 hspcnt; /**< Number of HSPs saved */ member
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/blast/core/
H A Dblast_hits.h158 Int4 hspcnt; /**< Number of HSPs saved */ member
/dports/biology/ncbi-toolkit/ncbi/tools/
H A Dblastutl.c4569 Int4 hspcnt, index, index1, index2; in BioseqBlastEngineCore() local
7831 BLASTResultHitlistNew(Int4 hspcnt) in BLASTResultHitlistNew()
8717 …4 subject_length, GapAlignBlkPtr gap_align, BLAST_HSPPtr *hsp_array, Int4Ptr hspcnt, Int4Ptr hspcn… in BlastNtGappedScoreInternal()
8875 BlastHitRangeLoad (BlastSearchBlkPtr search, BLAST_HSPPtr *hsp_array, Int4 hspcnt, BlastHitRangePtr… in BlastHitRangeLoad()
8938 void BLASTCheckHSPInclusion(BLAST_HSPPtr *hsp_array, Int4 hspcnt, in BLASTCheckHSPInclusion()
9578 Int4 hspcnt=0, new_hspcnt=0, hspset_cnt_old; in SumBlastGetGappedAlignmentEx() local
9728 Int4 hspcnt=0, new_hspcnt=0; in BlastGetGapAlgnTbck() local
10422 HspArrayPurge (BLAST_HSPPtr PNTR hsp_array, Int4 hspcnt, Boolean clear_num) in HspArrayPurge()
10482 Int4 hspcnt, hspmax, high_index, low_index; in BlastSaveCurrentHsp() local
10615 Int4 hspcnt, hspmax, index, new_index, high_index, old_index, low_index; in BlastNtSaveCurrentHspGapped() local
[all …]
H A Dblastool.c3575 Int4 begin, end, hspcnt, query_length; in BlastInsertList2Heap() local
3670 Int4 begin, end, i, hspcnt, query_length; in BlastFreeHeap() local
4588 Int4 hspcnt, number, numseg; in BlastPrintAlignInfo() local
5464 Int4 index, hspcnt, index1, q_overlap; in BlastClusterHitsFromSeqAlign() local
5667 Int4 length,hitlist_count,sequence_length,index,index1,total_num_hsp=0,hspcnt; in BLASTPostSearchLogic() local
H A Drpsutil.c881 Int4 hspcnt, index; in RPSUpdateCoordinates() local
981 Int4 i, index, hspcnt, seq_no; in RPSExtractNewResult() local
1182 Int4 hspcnt, index /* , index1 */ ; in RPSCalcEValue() local
H A Dblast.c2949 Int4 context, hspcnt, hspcnt_max, index, index1, status; in BlastReevaluateWithAmbiguities() local
6466 Int4 index, hspcnt; in BlastReapPartialHitlistByEvalue() local
9781 Int4 hspcnt, index, index1, new_index, old_index, low_index, high_index; in BlastSaveCurrentHitlist() local
10776 BLAST_HSPArrayIndexQueryEnds(BLAST_HSPPtr* hsp_array, Int4 hspcnt, in BLAST_HSPArrayIndexQueryEnds()
10993 BLAST_HSPArraySwapSequences(BLAST_HSPPtr PNTR hsp_array, Int4 hspcnt) in BLAST_HSPArraySwapSequences()
11017 BLAST_HSPPtr PNTR hsp_array, Int4 hspcnt) in new_link_hsps_setup()
11071 Int4 hspcnt, index, index1; in new_link_hsps() local
H A Dmblast.c2829 Int4 index, i, hspcnt, buf_len=0; in MegaBlastGappedAlign() local
3760 Int4 index, context, hspcnt, buf_len=0; in MegaBlastReevaluateWithAmbiguities() local
4019 Int4 hspcnt, index, index1, new_index, old_index, low_index, high_index; in MegaBlastSaveCurrentHitlist() local
H A Dxmlblast.c1444 Int4 hspcnt = 0, last_seg, i; in GetHspFromSeqAlign() local
/dports/biology/ncbi-toolkit/ncbi/demo/
H A Dblastclust.c664 Int4 id1, id2, root1, root2, hspcnt; in PrintNeighbors() local

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