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keep k_trans

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chhylp123
2021-04-08 23:58:12 -04:00
parent 1a6f386823
commit 3218618bb4
4 changed files with 844 additions and 378 deletions
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Overlaps.h
+47 -5
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@@ -98,6 +98,30 @@ int max_hang, int min_ovlp);
long long get_specific_overlap(ma_hit_t_alloc* x, uint32_t qn, uint32_t tn);
typedef struct {
uint32_t qSpre, qEpre, qScur, qEcur, qn;///[qSp, qEp) && [qSn, qEn]
uint32_t tSpre, tEpre, tScur, tEcur, tn;
} u_trans_hit_t;
typedef struct {
size_t n, m;
u_trans_hit_t* a;
} kv_u_trans_hit_t;
typedef struct {
uint32_t qs, qe, qn;
uint32_t ts, te, tn;
uint32_t nw;
uint8_t f:7, rev:1;
} u_trans_t;
typedef struct {
size_t n, m;
u_trans_t* a;
} kv_u_trans_t;
typedef struct {
uint64_t ul;
uint32_t v;
@@ -1060,11 +1084,23 @@ typedef struct{
#define P_HET 2
#define S_HET 4
typedef struct {
uint32_t p_x_p, p_y_p, p_x, p_y;
uint32_t c_x_p, c_y_p;
uint8_t c_rev;
} ca_buf_t;
typedef struct {
size_t n, m;
ca_buf_t* a;
} kv_ca_buf_t;
typedef struct{
kvec_t(uint32_t) uIDs;
kvec_t(uint32_t) iDXs;
kvec_t(uint32_t) rescue_hom;
uint32_t* u_idx;
uint32_t* rUidx;
uint64_t* rUpos;
uint8_t* is_r_het;
uint32_t r_num, u_num;
uint32_t chain_num;
@@ -1072,7 +1108,11 @@ typedef struct{
kvec_t(bed_in) bed;
kvec_t(uint32_t) topo_buf;
kvec_t(uint32_t) topo_res;
buf_t b_buf;
buf_t b_buf_0, b_buf_1;
uint32_t* uLen;
kv_u_trans_t k_trans;
kv_u_trans_hit_t k_t_b;
kv_ca_buf_t c_buf;
}trans_chain;
typedef struct {
@@ -1128,10 +1168,12 @@ inline int inter_interval(int a_s, int a_e, int b_s, int b_e, int* i_s, int* i_e
return 1;
}
inline uint32_t get_origin_uid(uint32_t v, trans_chain* t_ch)
inline uint32_t get_origin_uid(uint32_t v, trans_chain* t_ch, uint32_t *off, uint32_t *idx)
{
if(t_ch->u_idx[v>>1] == (uint32_t)-1) return (uint32_t)-1;
return ((t_ch->u_idx[v>>1]>>1)<<1) + ((t_ch->u_idx[v>>1]^v)&1);
if(off) (*off) = (t_ch->rUpos[v>>1]>>32);
if(idx) (*idx) = (uint32_t)(t_ch->rUpos[v>>1]);
if(t_ch->rUpos[v>>1] == (uint64_t)-1) return (uint32_t)-1;
return (uint32_t)(((t_ch->rUidx[v>>1]>>1)<<1) + ((t_ch->rUidx[v>>1]^v)&1));
}
void get_chain_trans(trans_chain* t_ch, uint32_t id, uint32_t** x, uint32_t* x_occ, uint32_t** y, uint32_t* y_occ);