/* Contact: Heng Li <lh3@sanger.ac.uk> */
+/*
+ 2009-07-16 (lh3): in kstream_t, change "char*" to "unsigned char*"
+ */
+
+/* Last Modified: 12APR2009 */
+
#ifndef AC_KSEQ_H
#define AC_KSEQ_H
#include <string.h>
#include <stdlib.h>
+#define KS_SEP_SPACE 0 // isspace(): \t, \n, \v, \f, \r
+#define KS_SEP_TAB 1 // isspace() && !' '
+#define KS_SEP_MAX 1
+
#define __KS_TYPE(type_t) \
typedef struct __kstream_t { \
- char *buf; \
+ unsigned char *buf; \
int begin, end, is_eof; \
type_t f; \
} kstream_t;
{ \
kstream_t *ks = (kstream_t*)calloc(1, sizeof(kstream_t)); \
ks->f = f; \
- ks->buf = (char*)malloc(__bufsize); \
+ ks->buf = malloc(__bufsize); \
return ks; \
} \
static inline void ks_destroy(kstream_t *ks) \
if (ks->end == 0) break; \
} else break; \
} \
- if (delimiter) { \
+ if (delimiter > KS_SEP_MAX) { \
for (i = ks->begin; i < ks->end; ++i) \
if (ks->buf[i] == delimiter) break; \
- } else { \
+ } else if (delimiter == KS_SEP_SPACE) { \
for (i = ks->begin; i < ks->end; ++i) \
if (isspace(ks->buf[i])) break; \
- } \
+ } else if (delimiter == KS_SEP_TAB) { \
+ for (i = ks->begin; i < ks->end; ++i) \
+ if (isspace(ks->buf[i]) && ks->buf[i] != ' ') break; \
+ } else i = 0; /* never come to here! */ \
if (str->m - str->l < i - ks->begin + 1) { \
str->m = str->l + (i - ks->begin) + 1; \
kroundup32(str->m); \
break; \
} \
} \
+ if (str->l == 0) { \
+ str->m = 1; \
+ str->s = (char*)calloc(1, 1); \
+ } \
str->s[str->l] = '\0'; \
return str->l; \
}