Table 3.
I/O efficiency on data set B
| Program | Operation | I/O calls | Bytes r/w (KiB) |
|---|---|---|---|
| gap5 | Open + view | 339 | 774 |
| samtools | Open + view | 146 | 8516 |
| gap5 | Move to 100 Mb | 76 | 179 |
| samtools | Move to 100 Mb | 15 | 138 |
| gap5 | Scroll to 101 Mb | 645 | 10 373 |
| samtools | Scroll to 101 Mb | 12 192 | 81 560 |
| gap5 | Break contig | 2859 | 805 |
| gap5 | Join contig | 228 | 135 |
| gap5 | Substitution | 145 | 52 |
| gap5 | Insertion | 1047 | 104 |
I/O operations showing the number of I/O calls (lseek, read, write, pread, pwrite) with dataset B. The contig viewed was Chromosome 1. Breaking and joining contig measurements were averaged over 10 contigs, for Chr4 to Chr13. The substitution and insertion tests were averaged from single base edits at 10 locations spread over ChrX.