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NOT WORKING!!! added all k-mer counter

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Heng Li
2020-03-24 12:29:46 -04:00
parent 398e73022b
commit 64edb06e08
15 changed files with 628 additions and 237 deletions
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kmer.h
-41
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@@ -78,45 +78,4 @@ inline void k_mer_append(Hash_code* code, uint64_t c, int k)
code->x[3] = code->x[3] >> 1 | (uint64_t)(1 - (c>>1)) << shift;
}
static inline uint64_t yak_hash64(uint64_t key, uint64_t mask) // invertible integer hash function
{
key = (~key + (key << 21)) & mask; // key = (key << 21) - key - 1;
key = key ^ key >> 24;
key = ((key + (key << 3)) + (key << 8)) & mask; // key * 265
key = key ^ key >> 14;
key = ((key + (key << 2)) + (key << 4)) & mask; // key * 21
key = key ^ key >> 28;
key = (key + (key << 31)) & mask;
return key;
}
static inline uint64_t yak_hash64_64(uint64_t key)
{
key = ~key + (key << 21);
key = key ^ key >> 24;
key = (key + (key << 3)) + (key << 8);
key = key ^ key >> 14;
key = (key + (key << 2)) + (key << 4);
key = key ^ key >> 28;
key = key + (key << 31);
return key;
}
inline void Hashcode_to_string(Hash_code* code, char* str, int k) // FIXME: not working
{
uint8_t c;
int i;
for (i = 0; i < k; i++)
{
c = (code->x[1] >> (k - i - 1)) & ((uint64_t)1);
c = c << 1;
c = c | ((code->x[0] >> (k - i - 1)) & ((uint64_t)1));
str[i] = s_H[c];
}
}
void init_HPC_seq(HPC_seq* seq, char* str, long long l);
#endif