GtMatchIterator* gt_match_iterator_open_new(const char *matchfile, GtError *err)
{
GtMatchIterator *mp;
GtMatchIteratorOpen *mpo;
mp = gt_match_iterator_create(gt_match_iterator_open_class());
mpo = (GtMatchIteratorOpen*) mp;
mpo->pvt = gt_calloc(1, sizeof (GtMatchIteratorOpenMembers));
GtFileMode mode;
if (gt_file_exists(matchfile)) {
mode = gt_file_mode_determine(matchfile);
if (mode == GT_FILE_MODE_UNCOMPRESSED) {
mpo->pvt->matchfilep = fopen(matchfile, "r");
mpo->pvt->gtmatchfilep = NULL;
if (!mpo->pvt->matchfilep) {
gt_error_set(err, "Could not open %s", matchfile);
return NULL;
}
} else {
mpo->pvt->gtmatchfilep = gt_file_open(mode, matchfile, "r", err);
mpo->pvt->matchfilep = NULL;
if (!mpo->pvt->gtmatchfilep)
return NULL;
}
mpo->pvt->matchfile = matchfile;
return mp;
} else {
gt_error_set(err, "No such file or directory %s", matchfile);
return NULL;
}
}
off_t gt_file_estimate_size(const char *file)
{
off_t size;
struct stat sb;
GtFileMode gfm;
int fd;
gt_assert(file);
fd = gt_xopen(file, O_RDONLY, 0);
gt_xfstat(fd, &sb);
gfm = gt_file_mode_determine(file);
if (gfm == GT_FILE_MODE_UNCOMPRESSED)
size = sb.st_size;
else
size = sb.st_size * 4; /* expected compression rate for sequence is 0.25 */
gt_xclose(fd);
return size;
}
GtFile* gt_file_new(const char *path, const char *mode, GtError *err)
{
gt_error_check(err);
gt_assert(mode);
return gt_file_open(gt_file_mode_determine(path), path, mode, err);
}
GtFile* gt_file_xopen(const char *path, const char *mode)
{
gt_assert(mode);
return gt_file_xopen_file_mode(gt_file_mode_determine(path), path, mode);
}
