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updated mappy and example.c

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This commit is contained in:
Heng Li
2017-10-16 11:15:07 -04:00
parent adf6cd7f52
commit b24c9c90c7
6 changed files with 28 additions and 15 deletions
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python/cmappy.pxd
+4 -1
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@@ -15,17 +15,20 @@ cdef extern from "minimap.h":
int flag
int bw
int max_gap, max_gap_ref
int max_frag_len
int max_chain_skip
int min_cnt
int min_chain_score
float mask_level
float pri_ratio
int best_n
float min_iden
int max_join_long, max_join_short
int min_join_flank_sc
int a, b, q, e, q2, e2
int noncan
int zdrop
int end_bonus
int min_dp_max
int min_ksw_len
int pe_ori, pe_bonus
@@ -86,7 +89,7 @@ cdef extern from "cmappy.h":
const char *ctg
int32_t ctg_start, ctg_end
int32_t qry_start, qry_end
int32_t blen, NM, ctg_len
int32_t blen, mlen, NM, ctg_len
uint8_t mapq, is_primary
int8_t strand, trans_strand
int32_t n_cigar32