Searched refs:extra_segs (Results 1 – 5 of 5) sorted by relevance
1116 vector<size_t> extra_segs; in FillUnaligned() local1189 extra_segs.push_back(seg); in FillUnaligned()1221 …for ( ; extra_seg < extra_segs.size() && extra_segs[extra_seg] == seg; ++new_seg, ++extra_seg)… in FillUnaligned()
2677 Int4 extra_segs; in SeqAlignInsertByLoc() local2731 extra_segs = 1; in SeqAlignInsertByLoc()2735 extra_segs = 2; in SeqAlignInsertByLoc()2740 dsp_new->numseg = dsp->numseg + extra_segs; in SeqAlignInsertByLoc()2741 dsp_new->starts = (Int4Ptr) MemNew (dsp->dim * (dsp->numseg + extra_segs) * sizeof (Int4)); in SeqAlignInsertByLoc()2744 dsp_new->strands = (Uint1Ptr) MemNew (dsp->dim * (dsp->numseg + extra_segs) * sizeof (Uint1)); in SeqAlignInsertByLoc()2746 dsp_new->lens = (Int4Ptr) MemNew ((dsp->numseg + extra_segs) * sizeof (Int4)); in SeqAlignInsertByLoc()
3105 Int4 extra_segs; in AlnMgr2AddInNewPairwiseSA() local3341 extra_segs = 0; in AlnMgr2AddInNewPairwiseSA()3366 if (!(b->aligned)) extra_segs++; in AlnMgr2AddInNewPairwiseSA()3407 if (!(b->aligned)) extra_segs++; in AlnMgr2AddInNewPairwiseSA()
4361 Int4 extra_segs = 0, seg_offset = 0; in FixAlignmentEndStubs() local4389 extra_segs ++; in FixAlignmentEndStubs()4393 extra_segs ++; in FixAlignmentEndStubs()4402 dsp_new->numseg = dsp->numseg + extra_segs; in FixAlignmentEndStubs()