45 lines
1.1 KiB
C
45 lines
1.1 KiB
C
/*********************************************************************************************
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Description: Some useful functions
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Copyright : All right reserved by NCIC.ICT
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Author : Zhang Zhonghai
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Date : 2023/08/25
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***********************************************************************************************/
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#ifndef __UTILS_H
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#define __UTILS_H
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#include <stdlib.h>
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#include <stdint.h>
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#include "kvec.h"
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#undef MAX
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#undef MIN
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#define MAX(x, y) ((x) > (y) ? (x) : (y))
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#define MIN(x, y) ((x) < (y) ? (x) : (y))
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#define ARRAY_SIZE(arr) (sizeof(arr) / sizeof((arr)[0]))
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#define BUF_SIZE 1048576
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typedef kvec_t(uint8_t) seq_t;
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typedef kvec_t(seq_t) seq_v;
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typedef kvec_t(int) qti_t; // query target info type
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typedef kvec_t(qti_t) qti_v;
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typedef struct { size_t m; uint8_t *addr; } buf_t;
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extern const char *BASE;
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extern unsigned char nst_nt4_table[256];
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// 将碱基字符(ACGTN)转成int编码(0~4)
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void base_char_to_int(char *str);
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int read_qt_info(qti_v *qti_arr, buf_t *buf, int row_num_to_read, int info_num, FILE *fp);
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int read_seq(seq_v *seq_arr, buf_t *buf, int row_num_to_read, FILE *fp);
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#endif |