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smaller cigar size

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chhylp123
2022-05-12 18:31:31 -04:00
parent a2198891e7
commit 832e43fe3b
3 changed files with 21 additions and 17 deletions
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Correct.cpp
+14 -2
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@@ -1804,10 +1804,13 @@ inline int move_gap_greedy(char* path, int path_i, int path_length, char* x, int
inline void generate_cigar(char* path, int path_length, window_list *idx, window_list_alloc *res, int* start, int* end, unsigned int* old_error,
char* x, int x_len, char* y)
{
// uint8_t debug_c; uint32_t debug_c_len;
idx->cidx = res->c.n;
if ((*old_error) == 0) {
push_cigar_cell(res, 0, idx->x_end + 1 - idx->x_start);
idx->clen = res->c.n - idx->cidx;
// get_cigar_cell(idx, res, idx->clen-1, &debug_c, &debug_c_len);
// assert(debug_c==0 && debug_c_len==(idx->x_end + 1 - idx->x_start));
return;
}
@@ -1887,7 +1890,11 @@ inline void generate_cigar(char* path, int path_length, window_list *idx, window
pre_c = 5; pre_cl = 0;
for (i = path_length - 1; i >= 0; i--) {
if (pre_c != path[i]) {
if (pre_cl != 0) push_cigar_cell(res, pre_c, pre_cl);
if (pre_cl != 0) {
push_cigar_cell(res, pre_c, pre_cl);
// get_cigar_cell(idx, res, res->c.n - idx->cidx - 1, &debug_c, &debug_c_len);
// assert(debug_c==pre_c && debug_c_len==pre_cl);
}
pre_c = path[i]; pre_cl = 1;
}
else {
@@ -1895,7 +1902,12 @@ inline void generate_cigar(char* path, int path_length, window_list *idx, window
}
}
if (pre_cl != 0) push_cigar_cell(res, pre_c, pre_cl);
if (pre_cl != 0) {
push_cigar_cell(res, pre_c, pre_cl);
// get_cigar_cell(idx, res, res->c.n - idx->cidx -1, &debug_c, &debug_c_len);
// assert(debug_c==pre_c && debug_c_len==pre_cl);
}
idx->clen = res->c.n - idx->cidx;
// if(verify_cigar(x, x_len, y, (*end) - (*start) + 1, &(result->cigar), *old_error))
// {