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r823: mappy to index a single sequence

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Heng Li
2018-08-05 20:57:05 -04:00
parent 5ab6538757
commit b0f39a1a61
5 changed files with 37 additions and 10 deletions
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python/cmappy.pxd
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@@ -110,6 +110,7 @@ cdef extern from "cmappy.h":
void mm_free_reg1(mm_reg1_t *r)
mm_reg1_t *mm_map_aux(const mm_idx_t *mi, const char *seq1, const char *seq2, int *n_regs, mm_tbuf_t *b, const mm_mapopt_t *opt)
char *mappy_fetch_seq(const mm_idx_t *mi, const char *name, int st, int en, int *l)
mm_idx_t *mappy_idx_seq(int w, int k, int is_hpc, int bucket_bits, const char *seq, int l)
ctypedef struct kstring_t:
unsigned l, m