44 lines
1.1 KiB
C
44 lines
1.1 KiB
C
#ifndef MM_BSEQ_H
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#define MM_BSEQ_H
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#include <stdint.h>
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#include <string.h>
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#ifdef __cplusplus
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extern "C" {
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#endif
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struct mm_bseq_file_s;
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typedef struct mm_bseq_file_s mm_bseq_file_t;
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typedef struct {
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int l_seq, rid;
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char *name, *seq, *qual;
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} mm_bseq1_t;
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mm_bseq_file_t *mm_bseq_open(const char *fn);
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void mm_bseq_close(mm_bseq_file_t *fp);
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mm_bseq1_t *mm_bseq_read2(mm_bseq_file_t *fp, int chunk_size, int with_qual, int check_name, int *n_);
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mm_bseq1_t *mm_bseq_read(mm_bseq_file_t *fp, int chunk_size, int with_qual, int *n_);
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mm_bseq1_t *mm_bseq_read_multi(int n_fp, mm_bseq_file_t **fp, int chunk_size, int with_qual, int *n_);
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int mm_bseq_eof(mm_bseq_file_t *fp);
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extern unsigned char seq_nt4_table[256];
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static inline int mm_qname_same(const char *s1, const char *s2)
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{
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int l1, l2;
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l1 = strlen(s1);
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l2 = strlen(s2);
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if (l1 != l2 || l1 < 3) return 0;
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if (!(s1[l1-1] >= '1' && s1[l1-1] <= '2' && s1[l1-2] == '/')) return 0;
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if (!(s2[l2-1] >= '1' && s2[l2-1] <= '2' && s2[l2-2] == '/')) return 0;
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return (strncmp(s1, s2, l1 - 2) == 0);
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}
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#ifdef __cplusplus
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}
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#endif
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#endif
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