static int fill_io_u(struct thread_data *td, struct io_u *io_u)
{
if (td->io_ops->flags & FIO_NOIO)
goto out;
set_rw_ddir(td, io_u);
/*
* fsync() or fdatasync() or trim etc, we are done
*/
if (!ddir_rw(io_u->ddir))
goto out;
/*
* See if it's time to switch to a new zone
*/
if (td->zone_bytes >= td->o.zone_size && td->o.zone_skip) {
td->zone_bytes = 0;
io_u->file->file_offset += td->o.zone_range + td->o.zone_skip;
io_u->file->last_pos = io_u->file->file_offset;
td->io_skip_bytes += td->o.zone_skip;
}
/*
* No log, let the seq/rand engine retrieve the next buflen and
* position.
*/
if (get_next_offset(td, io_u)) {
dprint(FD_IO, "io_u %p, failed getting offset\n", io_u);
return 1;
}
io_u->buflen = get_next_buflen(td, io_u);
if (!io_u->buflen) {
dprint(FD_IO, "io_u %p, failed getting buflen\n", io_u);
return 1;
}
if (io_u->offset + io_u->buflen > io_u->file->real_file_size) {
dprint(FD_IO, "io_u %p, offset too large\n", io_u);
dprint(FD_IO, " off=%llu/%lu > %llu\n", io_u->offset,
io_u->buflen, io_u->file->real_file_size);
return 1;
}
/*
* mark entry before potentially trimming io_u
*/
if (td_random(td) && file_randommap(td, io_u->file))
mark_random_map(td, io_u);
/*
* If using a write iolog, store this entry.
*/
out:
dprint_io_u(io_u, "fill_io_u");
td->zone_bytes += io_u->buflen;
log_io_u(td, io_u);
return 0;
}
int main(int argc, char **argv){
char *filename = argv[1];
FILE *maf_file;
if((maf_file= fopen(filename, "rb")) == NULL){
fprintf(stderr, "Unable to open file: %s\nError: %s",
filename,strerror(errno));
return 1;
}
maf_array_parser parser = get_array_parser(maf_file,filename);
int j=0;
for(; j < parser->size; ++j) printf("%d\n",parser->alignment_blocks[j]);
j=0;
char buffer[3000];
while(1){
int offset = get_next_offset(parser);
if(offset==-1)break;
int check =fseek(maf_file, offset,SEEK_SET);
if(check!=0)fprintf(stderr, "File seek error: %s\nError: %s",
filename,strerror(errno));
char *fc = fgets(buffer,3000,maf_file);
printf("Alignment block %d\n%s\n",++j,buffer);
}
parser->curr_block=1;
int offset=get_next_offset(parser);
int check =fseek(maf_file, offset,SEEK_SET);
if(check!=0)fprintf(stderr, "File seek error: %s\nError: %s",
filename,strerror(errno));
char *fc = fgets(buffer,3000,maf_file);
fc = fgets(buffer,3000,maf_file);
printf("%s\n",buffer);
alignment_block aln = get_next_alignment(parser);
// seq test=aln->sequences[0];
// printf("Alignment 1 sequence 1: \n%s %lu %u %c %lu %s\n"
// ,test->src,test->start,test->size,test->strand,
// test->srcSize,test->sequence);
free_alignment_block(aln);
free_parser(parser);
fclose(maf_file);
return 0;
}
