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removed the hifiasm FASTA/Q reader

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This commit is contained in:
Heng Li
2020-03-26 16:26:54 -04:00
parent 79bc553da6
commit 8f664f80ce
2 changed files with 0 additions and 405 deletions
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Process_Read.h
-35
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@@ -139,21 +139,6 @@ typedef struct
extern All_reads R_INF;
typedef struct
{
kseq_t* read;
long long num;
} R_buffer_block;
typedef struct
{
R_buffer_block* sub_block;
long long block_inner_size;
long long size;
long long num;
int all_read_end;
} R_buffer;
typedef struct
{
char* seq;
@@ -162,21 +147,8 @@ typedef struct
long long RID;
} UC_Read;
typedef struct
{
gzFile fp;
kseq_t *seq;
char** reads;
int num_reads;
int idx;
} gz_files;
void init_R_buffer(int thread_num);
void init_All_reads(All_reads* r);
void malloc_All_reads(All_reads* r);
void* input_reads_muti_threads(void*);
void init_R_buffer_block(R_buffer_block* curr_sub_block);
int get_reads_mul_thread(R_buffer_block* curr_sub_block);
void ha_insert_read_len(All_reads *r, int read_len, int name_len);
void ha_compress_base(uint8_t* dest, char* src, uint64_t src_l, uint64_t** N_site_lis, uint64_t N_site_occ);
void init_UC_Read(UC_Read* r);
@@ -189,11 +161,4 @@ void write_All_reads(All_reads* r, char* read_file_name);
int load_All_reads(All_reads* r, char* read_file_name);
void destory_All_reads(All_reads* r);
void destory_R_buffer_block(R_buffer_block* curr_sub_block);
void destory_R_buffer();
void clear_R_buffer();
void init_gz_files(hifiasm_opt_t* asm_opt);
void destory_gz_files();
#endif