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1 #include <zlib.h>
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2 #include <stdio.h>
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3 #include <ctype.h>
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4 #include <string.h>
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5 #include <stdlib.h>
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6 #include <unistd.h>
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7 #include <assert.h>
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8 #ifdef _WIN32
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9 #include <fcntl.h>
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10 #endif
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11 #include "kstring.h"
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12 #include "bam.h"
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13 #include "kseq.h"
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14 #include "khash.h"
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15
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16 KSTREAM_INIT(gzFile, gzread, 8192)
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17 KHASH_MAP_INIT_STR(ref, uint64_t)
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18
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19 void bam_init_header_hash(bam_header_t *header);
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20 void bam_destroy_header_hash(bam_header_t *header);
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21 int32_t bam_get_tid(const bam_header_t *header, const char *seq_name);
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22
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23 unsigned char bam_nt16_table[256] = {
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24 15,15,15,15, 15,15,15,15, 15,15,15,15, 15,15,15,15,
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25 15,15,15,15, 15,15,15,15, 15,15,15,15, 15,15,15,15,
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26 15,15,15,15, 15,15,15,15, 15,15,15,15, 15,15,15,15,
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27 1, 2, 4, 8, 15,15,15,15, 15,15,15,15, 15, 0 /*=*/,15,15,
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28 15, 1,14, 2, 13,15,15, 4, 11,15,15,12, 15, 3,15,15,
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29 15,15, 5, 6, 8,15, 7, 9, 15,10,15,15, 15,15,15,15,
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30 15, 1,14, 2, 13,15,15, 4, 11,15,15,12, 15, 3,15,15,
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31 15,15, 5, 6, 8,15, 7, 9, 15,10,15,15, 15,15,15,15,
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32 15,15,15,15, 15,15,15,15, 15,15,15,15, 15,15,15,15,
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33 15,15,15,15, 15,15,15,15, 15,15,15,15, 15,15,15,15,
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34 15,15,15,15, 15,15,15,15, 15,15,15,15, 15,15,15,15,
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35 15,15,15,15, 15,15,15,15, 15,15,15,15, 15,15,15,15,
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36 15,15,15,15, 15,15,15,15, 15,15,15,15, 15,15,15,15,
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37 15,15,15,15, 15,15,15,15, 15,15,15,15, 15,15,15,15,
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38 15,15,15,15, 15,15,15,15, 15,15,15,15, 15,15,15,15,
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39 15,15,15,15, 15,15,15,15, 15,15,15,15, 15,15,15,15
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40 };
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41
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42 unsigned short bam_char2flag_table[256] = {
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43 0,0,0,0, 0,0,0,0, 0,0,0,0, 0,0,0,0,
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44 0,0,0,0, 0,0,0,0, 0,0,0,0, 0,0,0,0,
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45 0,0,0,0, 0,0,0,0, 0,0,0,0, 0,0,0,0,
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46 0,BAM_FREAD1,BAM_FREAD2,0, 0,0,0,0, 0,0,0,0, 0,0,0,0,
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47 0,0,0,0, 0,0,0,0, 0,0,0,0, 0,0,0,0,
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48 BAM_FPROPER_PAIR,0,BAM_FMREVERSE,0, 0,BAM_FMUNMAP,0,0, 0,0,0,0, 0,0,0,0,
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49 0,0,0,0, BAM_FDUP,0,BAM_FQCFAIL,0, 0,0,0,0, 0,0,0,0,
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50 BAM_FPAIRED,0,BAM_FREVERSE,BAM_FSECONDARY, 0,BAM_FUNMAP,0,0, 0,0,0,0, 0,0,0,0,
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51 0,0,0,0, 0,0,0,0, 0,0,0,0, 0,0,0,0,
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52 0,0,0,0, 0,0,0,0, 0,0,0,0, 0,0,0,0,
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53 0,0,0,0, 0,0,0,0, 0,0,0,0, 0,0,0,0,
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54 0,0,0,0, 0,0,0,0, 0,0,0,0, 0,0,0,0,
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55 0,0,0,0, 0,0,0,0, 0,0,0,0, 0,0,0,0,
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56 0,0,0,0, 0,0,0,0, 0,0,0,0, 0,0,0,0,
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57 0,0,0,0, 0,0,0,0, 0,0,0,0, 0,0,0,0,
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58 0,0,0,0, 0,0,0,0, 0,0,0,0, 0,0,0,0
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59 };
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60
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61 char *bam_nt16_rev_table = "=ACMGRSVTWYHKDBN";
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62
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63 struct __tamFile_t {
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64 gzFile fp;
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65 kstream_t *ks;
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66 kstring_t *str;
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67 uint64_t n_lines;
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68 int is_first;
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69 };
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70
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71 char **__bam_get_lines(const char *fn, int *_n) // for bam_plcmd.c only
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72 {
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73 char **list = 0, *s;
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74 int n = 0, dret, m = 0;
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75 gzFile fp = (strcmp(fn, "-") == 0)? gzdopen(fileno(stdin), "r") : gzopen(fn, "r");
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76 kstream_t *ks;
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77 kstring_t *str;
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78 str = (kstring_t*)calloc(1, sizeof(kstring_t));
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79 ks = ks_init(fp);
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80 while (ks_getuntil(ks, '\n', str, &dret) > 0) {
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81 if (n == m) {
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82 m = m? m << 1 : 16;
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83 list = (char**)realloc(list, m * sizeof(char*));
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84 }
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85 if (str->s[str->l-1] == '\r')
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86 str->s[--str->l] = '\0';
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87 s = list[n++] = (char*)calloc(str->l + 1, 1);
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88 strcpy(s, str->s);
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89 }
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90 ks_destroy(ks);
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91 gzclose(fp);
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92 free(str->s); free(str);
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93 *_n = n;
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94 return list;
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95 }
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96
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97 static bam_header_t *hash2header(const kh_ref_t *hash)
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98 {
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99 bam_header_t *header;
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100 khiter_t k;
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101 header = bam_header_init();
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102 header->n_targets = kh_size(hash);
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103 header->target_name = (char**)calloc(kh_size(hash), sizeof(char*));
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104 header->target_len = (uint32_t*)calloc(kh_size(hash), 4);
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105 for (k = kh_begin(hash); k != kh_end(hash); ++k) {
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106 if (kh_exist(hash, k)) {
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107 int i = (int)kh_value(hash, k);
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108 header->target_name[i] = (char*)kh_key(hash, k);
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109 header->target_len[i] = kh_value(hash, k)>>32;
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110 }
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111 }
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112 bam_init_header_hash(header);
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113 return header;
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114 }
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115 bam_header_t *sam_header_read2(const char *fn)
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116 {
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117 bam_header_t *header;
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118 int c, dret, ret;
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119 gzFile fp;
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120 kstream_t *ks;
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121 kstring_t *str;
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122 kh_ref_t *hash;
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123 khiter_t k;
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124 if (fn == 0) return 0;
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125 fp = (strcmp(fn, "-") == 0)? gzdopen(fileno(stdin), "r") : gzopen(fn, "r");
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126 if (fp == 0) return 0;
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127 hash = kh_init(ref);
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128 ks = ks_init(fp);
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129 str = (kstring_t*)calloc(1, sizeof(kstring_t));
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130 while (ks_getuntil(ks, 0, str, &dret) > 0) {
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131 char *s = strdup(str->s);
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132 int len, i;
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133 i = kh_size(hash);
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134 ks_getuntil(ks, 0, str, &dret);
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135 len = atoi(str->s);
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136 k = kh_put(ref, hash, s, &ret);
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137 kh_value(hash, k) = (uint64_t)len<<32 | i;
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138 if (dret != '\n')
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139 while ((c = ks_getc(ks)) != '\n' && c != -1);
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140 }
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141 ks_destroy(ks);
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142 gzclose(fp);
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143 free(str->s); free(str);
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144 fprintf(stderr, "[sam_header_read2] %d sequences loaded.\n", kh_size(hash));
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145 header = hash2header(hash);
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146 kh_destroy(ref, hash);
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147 return header;
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148 }
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149 static inline uint8_t *alloc_data(bam1_t *b, int size)
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150 {
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151 if (b->m_data < size) {
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152 b->m_data = size;
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153 kroundup32(b->m_data);
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154 b->data = (uint8_t*)realloc(b->data, b->m_data);
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155 }
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156 return b->data;
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157 }
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158 static inline void parse_error(int64_t n_lines, const char * __restrict msg)
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159 {
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160 fprintf(stderr, "Parse error at line %lld: %s\n", (long long)n_lines, msg);
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161 abort();
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162 }
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163 static inline void append_text(bam_header_t *header, kstring_t *str)
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164 {
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165 int x = header->l_text, y = header->l_text + str->l + 2; // 2 = 1 byte dret + 1 byte null
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166 kroundup32(x); kroundup32(y);
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167 if (x < y) header->text = (char*)realloc(header->text, y);
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168 strncpy(header->text + header->l_text, str->s, str->l+1); // we cannot use strcpy() here.
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169 header->l_text += str->l + 1;
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170 header->text[header->l_text] = 0;
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171 }
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172
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173 int sam_header_parse_rg(bam_header_t *h)
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174 {
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175 kstring_t *rgid, *rglib;
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176 char *p, *q, *s, *r;
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177 int n = 0;
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178
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179 // free
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180 if (h == 0) return 0;
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181 bam_strmap_destroy(h->rg2lib); h->rg2lib = 0;
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182 if (h->l_text < 3) return 0;
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183 // parse @RG lines
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184 h->rg2lib = bam_strmap_init();
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185 rgid = calloc(1, sizeof(kstring_t));
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186 rglib = calloc(1, sizeof(kstring_t));
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187 s = h->text;
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188 while ((s = strstr(s, "@RG")) != 0) {
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189 if (rgid->l && rglib->l) {
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190 bam_strmap_put(h->rg2lib, rgid->s, rglib->s);
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191 ++n;
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192 }
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193 rgid->l = rglib->l = 0;
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194 s += 3;
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195 r = s;
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196 if ((p = strstr(s, "ID:")) != 0) {
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197 q = p + 3;
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198 for (p = q; *p && *p != '\t' && *p != '\r' && *p != '\n'; ++p);
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199 kputsn(q, p - q, rgid);
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200 } else {
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201 fprintf(stderr, "[bam_header_parse] missing ID tag in @RG lines.\n");
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202 break;
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203 }
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204 if (r < p) r = p;
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205 if ((p = strstr(s, "LB:")) != 0) {
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206 q = p + 3;
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207 for (p = q; *p && *p != '\t' && *p != '\r' && *p != '\n'; ++p);
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208 kputsn(q, p - q, rglib);
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209 } else {
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210 fprintf(stderr, "[bam_header_parse] missing LB tag in @RG lines.\n");
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211 break;
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212 }
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213 if (r < p) r = p;
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214 s = r + 3;
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215 }
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216 if (rgid->l && rglib->l) {
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217 bam_strmap_put(h->rg2lib, rgid->s, rglib->s);
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218 ++n;
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219 }
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220 free(rgid->s); free(rgid);
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221 free(rglib->s); free(rglib);
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222 if (n == 0) {
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223 bam_strmap_destroy(h->rg2lib);
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224 h->rg2lib = 0;
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225 }
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226 return n;
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227 }
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228
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229 int sam_header_parse(bam_header_t *h)
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230 {
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231 int i;
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232 char *s, *p, *q, *r;
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233
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234 // free
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235 free(h->target_len); free(h->target_name);
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236 h->n_targets = 0; h->target_len = 0; h->target_name = 0;
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237 if (h->l_text < 3) return 0;
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238 // count number of @SQ
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239 s = h->text;
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240 while ((s = strstr(s, "@SQ")) != 0) {
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241 ++h->n_targets;
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242 s += 3;
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243 }
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244 if (h->n_targets == 0) return 0;
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245 h->target_len = (uint32_t*)calloc(h->n_targets, 4);
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246 h->target_name = (char**)calloc(h->n_targets, sizeof(void*));
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247 // parse @SQ lines
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248 i = 0;
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249 s = h->text;
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250 while ((s = strstr(s, "@SQ")) != 0) {
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251 s += 3;
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252 r = s;
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253 if ((p = strstr(s, "SN:")) != 0) {
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254 q = p + 3;
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255 for (p = q; *p && *p != '\t' && *p != '\r' && *p != '\n'; ++p);
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256 h->target_name[i] = (char*)calloc(p - q + 1, 1);
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257 strncpy(h->target_name[i], q, p - q);
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258 } else goto header_err_ret;
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259 if (r < p) r = p;
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260 if ((p = strstr(s, "LN:")) != 0) h->target_len[i] = strtol(p + 3, 0, 10);
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261 else goto header_err_ret;
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262 if (r < p) r = p;
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263 s = r + 3;
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264 ++i;
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265 }
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266 sam_header_parse_rg(h);
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267 return h->n_targets;
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268
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269 header_err_ret:
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270 fprintf(stderr, "[bam_header_parse] missing SN or LN tag in @SQ lines.\n");
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271 free(h->target_len); free(h->target_name);
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272 h->n_targets = 0; h->target_len = 0; h->target_name = 0;
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273 return 0;
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274 }
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275
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276 bam_header_t *sam_header_read(tamFile fp)
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277 {
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278 int ret, dret;
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279 bam_header_t *header = bam_header_init();
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280 kstring_t *str = fp->str;
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281 while ((ret = ks_getuntil(fp->ks, KS_SEP_TAB, str, &dret)) >= 0 && str->s[0] == '@') { // skip header
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282 str->s[str->l] = dret; // note that str->s is NOT null terminated!!
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283 append_text(header, str);
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284 if (dret != '\n') {
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285 ret = ks_getuntil(fp->ks, '\n', str, &dret);
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286 str->s[str->l] = '\n'; // NOT null terminated!!
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287 append_text(header, str);
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288 }
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289 ++fp->n_lines;
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290 }
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291 sam_header_parse(header);
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292 bam_init_header_hash(header);
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293 fp->is_first = 1;
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294 return header;
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295 }
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296
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297 int sam_read1(tamFile fp, bam_header_t *header, bam1_t *b)
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298 {
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299 int ret, doff, doff0, dret, z = 0;
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300 bam1_core_t *c = &b->core;
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301 kstring_t *str = fp->str;
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302 kstream_t *ks = fp->ks;
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303
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304 if (fp->is_first) {
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305 fp->is_first = 0;
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306 ret = str->l;
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307 } else {
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308 do { // special consideration for empty lines
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309 ret = ks_getuntil(fp->ks, KS_SEP_TAB, str, &dret);
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310 if (ret >= 0) z += str->l + 1;
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311 } while (ret == 0);
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312 }
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313 if (ret < 0) return -1;
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314 ++fp->n_lines;
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315 doff = 0;
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316
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317 { // name
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318 c->l_qname = strlen(str->s) + 1;
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319 memcpy(alloc_data(b, doff + c->l_qname) + doff, str->s, c->l_qname);
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320 doff += c->l_qname;
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321 }
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322 { // flag
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323 long flag;
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324 char *s;
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325 ret = ks_getuntil(ks, KS_SEP_TAB, str, &dret); z += str->l + 1;
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326 flag = strtol((char*)str->s, &s, 0);
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327 if (*s) { // not the end of the string
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328 flag = 0;
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329 for (s = str->s; *s; ++s)
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330 flag |= bam_char2flag_table[(int)*s];
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331 }
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332 c->flag = flag;
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333 }
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334 { // tid, pos, qual
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335 ret = ks_getuntil(ks, KS_SEP_TAB, str, &dret); z += str->l + 1; c->tid = bam_get_tid(header, str->s);
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336 if (c->tid < 0 && strcmp(str->s, "*")) {
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337 if (header->n_targets == 0) {
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338 fprintf(stderr, "[sam_read1] missing header? Abort!\n");
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339 exit(1);
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340 } else fprintf(stderr, "[sam_read1] reference '%s' is recognized as '*'.\n", str->s);
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341 }
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342 ret = ks_getuntil(ks, KS_SEP_TAB, str, &dret); z += str->l + 1; c->pos = isdigit(str->s[0])? atoi(str->s) - 1 : -1;
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343 ret = ks_getuntil(ks, KS_SEP_TAB, str, &dret); z += str->l + 1; c->qual = isdigit(str->s[0])? atoi(str->s) : 0;
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344 if (ret < 0) return -2;
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345 }
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346 { // cigar
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347 char *s, *t;
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348 int i, op;
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349 long x;
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350 c->n_cigar = 0;
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351 if (ks_getuntil(ks, KS_SEP_TAB, str, &dret) < 0) return -3;
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352 z += str->l + 1;
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353 if (str->s[0] != '*') {
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354 for (s = str->s; *s; ++s) {
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355 if (isalpha(*s)) ++c->n_cigar;
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356 else if (!isdigit(*s)) parse_error(fp->n_lines, "invalid CIGAR character");
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357 }
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358 b->data = alloc_data(b, doff + c->n_cigar * 4);
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359 for (i = 0, s = str->s; i != c->n_cigar; ++i) {
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360 x = strtol(s, &t, 10);
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361 op = toupper(*t);
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362 if (op == 'M' || op == '=' || op == 'X') op = BAM_CMATCH;
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363 else if (op == 'I') op = BAM_CINS;
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364 else if (op == 'D') op = BAM_CDEL;
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365 else if (op == 'N') op = BAM_CREF_SKIP;
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366 else if (op == 'S') op = BAM_CSOFT_CLIP;
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367 else if (op == 'H') op = BAM_CHARD_CLIP;
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368 else if (op == 'P') op = BAM_CPAD;
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369 else parse_error(fp->n_lines, "invalid CIGAR operation");
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370 s = t + 1;
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371 bam1_cigar(b)[i] = x << BAM_CIGAR_SHIFT | op;
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372 }
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373 if (*s) parse_error(fp->n_lines, "unmatched CIGAR operation");
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374 c->bin = bam_reg2bin(c->pos, bam_calend(c, bam1_cigar(b)));
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375 doff += c->n_cigar * 4;
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376 } else {
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377 if (!(c->flag&BAM_FUNMAP)) {
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378 fprintf(stderr, "Parse warning at line %lld: mapped sequence without CIGAR\n", (long long)fp->n_lines);
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379 c->flag |= BAM_FUNMAP;
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380 }
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381 c->bin = bam_reg2bin(c->pos, c->pos + 1);
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382 }
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383 }
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384 { // mtid, mpos, isize
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385 ret = ks_getuntil(ks, KS_SEP_TAB, str, &dret); z += str->l + 1;
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386 c->mtid = strcmp(str->s, "=")? bam_get_tid(header, str->s) : c->tid;
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387 ret = ks_getuntil(ks, KS_SEP_TAB, str, &dret); z += str->l + 1;
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388 c->mpos = isdigit(str->s[0])? atoi(str->s) - 1 : -1;
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389 ret = ks_getuntil(ks, KS_SEP_TAB, str, &dret); z += str->l + 1;
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390 c->isize = (str->s[0] == '-' || isdigit(str->s[0]))? atoi(str->s) : 0;
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391 if (ret < 0) return -4;
|
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392 }
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393 { // seq and qual
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394 int i;
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395 uint8_t *p = 0;
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396 if (ks_getuntil(ks, KS_SEP_TAB, str, &dret) < 0) return -5; // seq
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397 z += str->l + 1;
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398 if (strcmp(str->s, "*")) {
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399 c->l_qseq = strlen(str->s);
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400 if (c->n_cigar && c->l_qseq != (int32_t)bam_cigar2qlen(c, bam1_cigar(b)))
|
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401 parse_error(fp->n_lines, "CIGAR and sequence length are inconsistent");
|
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402 p = (uint8_t*)alloc_data(b, doff + c->l_qseq + (c->l_qseq+1)/2) + doff;
|
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403 memset(p, 0, (c->l_qseq+1)/2);
|
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404 for (i = 0; i < c->l_qseq; ++i)
|
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405 p[i/2] |= bam_nt16_table[(int)str->s[i]] << 4*(1-i%2);
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406 } else c->l_qseq = 0;
|
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407 if (ks_getuntil(ks, KS_SEP_TAB, str, &dret) < 0) return -6; // qual
|
|
408 z += str->l + 1;
|
|
409 if (strcmp(str->s, "*") && c->l_qseq != strlen(str->s))
|
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410 parse_error(fp->n_lines, "sequence and quality are inconsistent");
|
|
411 p += (c->l_qseq+1)/2;
|
|
412 if (strcmp(str->s, "*") == 0) for (i = 0; i < c->l_qseq; ++i) p[i] = 0xff;
|
|
413 else for (i = 0; i < c->l_qseq; ++i) p[i] = str->s[i] - 33;
|
|
414 doff += c->l_qseq + (c->l_qseq+1)/2;
|
|
415 }
|
|
416 doff0 = doff;
|
|
417 if (dret != '\n' && dret != '\r') { // aux
|
|
418 while (ks_getuntil(ks, KS_SEP_TAB, str, &dret) >= 0) {
|
|
419 uint8_t *s, type, key[2];
|
|
420 z += str->l + 1;
|
|
421 if (str->l < 6 || str->s[2] != ':' || str->s[4] != ':')
|
|
422 parse_error(fp->n_lines, "missing colon in auxiliary data");
|
|
423 key[0] = str->s[0]; key[1] = str->s[1];
|
|
424 type = str->s[3];
|
|
425 s = alloc_data(b, doff + 3) + doff;
|
|
426 s[0] = key[0]; s[1] = key[1]; s += 2; doff += 2;
|
|
427 if (type == 'A' || type == 'a' || type == 'c' || type == 'C') { // c and C for backward compatibility
|
|
428 s = alloc_data(b, doff + 2) + doff;
|
|
429 *s++ = 'A'; *s = str->s[5];
|
|
430 doff += 2;
|
|
431 } else if (type == 'I' || type == 'i') {
|
|
432 long long x;
|
|
433 s = alloc_data(b, doff + 5) + doff;
|
|
434 x = (long long)atoll(str->s + 5);
|
|
435 if (x < 0) {
|
|
436 if (x >= -127) {
|
|
437 *s++ = 'c'; *(int8_t*)s = (int8_t)x;
|
|
438 s += 1; doff += 2;
|
|
439 } else if (x >= -32767) {
|
|
440 *s++ = 's'; *(int16_t*)s = (int16_t)x;
|
|
441 s += 2; doff += 3;
|
|
442 } else {
|
|
443 *s++ = 'i'; *(int32_t*)s = (int32_t)x;
|
|
444 s += 4; doff += 5;
|
|
445 if (x < -2147483648ll)
|
|
446 fprintf(stderr, "Parse warning at line %lld: integer %lld is out of range.",
|
|
447 (long long)fp->n_lines, x);
|
|
448 }
|
|
449 } else {
|
|
450 if (x <= 255) {
|
|
451 *s++ = 'C'; *s++ = (uint8_t)x;
|
|
452 doff += 2;
|
|
453 } else if (x <= 65535) {
|
|
454 *s++ = 'S'; *(uint16_t*)s = (uint16_t)x;
|
|
455 s += 2; doff += 3;
|
|
456 } else {
|
|
457 *s++ = 'I'; *(uint32_t*)s = (uint32_t)x;
|
|
458 s += 4; doff += 5;
|
|
459 if (x > 4294967295ll)
|
|
460 fprintf(stderr, "Parse warning at line %lld: integer %lld is out of range.",
|
|
461 (long long)fp->n_lines, x);
|
|
462 }
|
|
463 }
|
|
464 } else if (type == 'f') {
|
|
465 s = alloc_data(b, doff + 5) + doff;
|
|
466 *s++ = 'f';
|
|
467 *(float*)s = (float)atof(str->s + 5);
|
|
468 s += 4; doff += 5;
|
|
469 } else if (type == 'd') {
|
|
470 s = alloc_data(b, doff + 9) + doff;
|
|
471 *s++ = 'd';
|
|
472 *(float*)s = (float)atof(str->s + 9);
|
|
473 s += 8; doff += 9;
|
|
474 } else if (type == 'Z' || type == 'H') {
|
|
475 int size = 1 + (str->l - 5) + 1;
|
|
476 if (type == 'H') { // check whether the hex string is valid
|
|
477 int i;
|
|
478 if ((str->l - 5) % 2 == 1) parse_error(fp->n_lines, "length of the hex string not even");
|
|
479 for (i = 0; i < str->l - 5; ++i) {
|
|
480 int c = toupper(str->s[5 + i]);
|
|
481 if (!((c >= '0' && c <= '9') || (c >= 'A' && c <= 'F')))
|
|
482 parse_error(fp->n_lines, "invalid hex character");
|
|
483 }
|
|
484 }
|
|
485 s = alloc_data(b, doff + size) + doff;
|
|
486 *s++ = type;
|
|
487 memcpy(s, str->s + 5, str->l - 5);
|
|
488 s[str->l - 5] = 0;
|
|
489 doff += size;
|
|
490 } else parse_error(fp->n_lines, "unrecognized type");
|
|
491 if (dret == '\n' || dret == '\r') break;
|
|
492 }
|
|
493 }
|
|
494 b->l_aux = doff - doff0;
|
|
495 b->data_len = doff;
|
|
496 return z;
|
|
497 }
|
|
498
|
|
499 tamFile sam_open(const char *fn)
|
|
500 {
|
|
501 tamFile fp;
|
|
502 gzFile gzfp = (strcmp(fn, "-") == 0)? gzdopen(fileno(stdin), "rb") : gzopen(fn, "rb");
|
|
503 if (gzfp == 0) return 0;
|
|
504 fp = (tamFile)calloc(1, sizeof(struct __tamFile_t));
|
|
505 fp->str = (kstring_t*)calloc(1, sizeof(kstring_t));
|
|
506 fp->fp = gzfp;
|
|
507 fp->ks = ks_init(fp->fp);
|
|
508 return fp;
|
|
509 }
|
|
510
|
|
511 void sam_close(tamFile fp)
|
|
512 {
|
|
513 if (fp) {
|
|
514 ks_destroy(fp->ks);
|
|
515 gzclose(fp->fp);
|
|
516 free(fp->str->s); free(fp->str);
|
|
517 free(fp);
|
|
518 }
|
|
519 }
|