Lines Matching refs:ks
48 #define ks_eof(ks) ((ks)->is_eof && (ks)->begin >= (ks)->end) argument
49 #define ks_rewind(ks) ((ks)->is_eof = (ks)->begin = (ks)->end = 0) argument
54 kstream_t *ks = (kstream_t*)calloc(1, sizeof(kstream_t)); \
55 ks->f = f; \
56 ks->buf = (char*)malloc(__bufsize); \
57 return ks; \
59 static inline void ks_destroy(kstream_t *ks) \
61 if (ks) { \
62 free(ks->buf); \
63 free(ks); \
68 static inline int ks_getc(kstream_t *ks) \
70 if (ks->is_eof && ks->begin >= ks->end) return -1; \
71 if (ks->begin >= ks->end) { \
72 ks->begin = 0; \
73 ks->end = __read(ks->f, ks->buf, __bufsize); \
74 if (ks->end < __bufsize) ks->is_eof = 1; \
75 if (ks->end == 0) return -1; \
77 return (int)ks->buf[ks->begin++]; \
93 static int ks_getuntil(kstream_t *ks, int delimiter, kstring_t *str, int *dret) \
97 if (ks->begin >= ks->end && ks->is_eof) return -1; \
100 if (ks->begin >= ks->end) { \
101 if (!ks->is_eof) { \
102 ks->begin = 0; \
103 ks->end = __read(ks->f, ks->buf, __bufsize); \
104 if (ks->end < __bufsize) ks->is_eof = 1; \
105 if (ks->end == 0) break; \
109 for (i = ks->begin; i < ks->end; ++i) \
110 if (ks->buf[i] == delimiter) break; \
112 for (i = ks->begin; i < ks->end; ++i) \
113 if (isspace(ks->buf[i])) break; \
115 for (i = ks->begin; i < ks->end; ++i) \
116 if (isspace(ks->buf[i]) && ks->buf[i] != ' ') break; \
118 if (str->m - str->l < i - ks->begin + 1) { \
119 str->m = str->l + (i - ks->begin) + 1; \
123 memcpy(str->s + str->l, ks->buf + ks->begin, i - ks->begin); \
124 str->l = str->l + (i - ks->begin); \
125 ks->begin = i + 1; \
126 if (i < ks->end) { \
127 if (dret) *dret = ks->buf[i]; \
152 static inline void kseq_rewind(kseq_t *ks) \
154 ks->last_char = 0; \
155 ks->f->is_eof = ks->f->begin = ks->f->end = 0; \
157 static inline void kseq_destroy(kseq_t *ks) \
159 if (!ks) return; \
160 free(ks->name.s); free(ks->comment.s); free(ks->seq.s); free(ks->qual.s); \
161 ks_destroy(ks->f); \
162 free(ks); \
174 kstream_t *ks = seq->f; \
176 while ((c = ks_getc(ks)) != -1 && c != '>' && c != '@'); \
181 if (ks_getuntil(ks, 0, &seq->name, &c) < 0) return -1; \
182 if (c != '\n') ks_getuntil(ks, '\n', &seq->comment, 0); \
183 while ((c = ks_getc(ks)) != -1 && c != '>' && c != '+' && c != '@') { \
200 while ((c = ks_getc(ks)) != -1 && c != '\n'); /* skip the rest of '+' line */ \
202 while ((c = ks_getc(ks)) != -1 && seq->qual.l < seq->seq.l) \