Table 1.
Computational resources needed for a database built on 10,470 reference genomes and 756 queries (50 M short reads)
| Running time | Peak memory | |||
|---|---|---|---|---|
| Query | Library | Query | Library | |
| Kraken 2 | 88 sec, 96 threads | 3.5 h, 128 threads | 47 GB | 50 GB |
| CLARK | 676 sec, 96 threads | 13.5 h, 128 threads | 150 GB | 370 GB |
| CONSULT-II | 2191 sec, 96 threads | 19 h, 128 threads | 141 GB | 157 GB |
| KRANK-hs | 1167 sec, 96 threads | 4.5 h, 32 × 4 threads | 51 GB | 32 GB per batch |
| KRANK-lw | 787 sec, 96 threads | 2.5 h, 32 × 4 threads | 13 GB | 8 GB per batch |
-
Measurements for both queries and library building were performed on a machine with 2.2 GHz AMD EPYC 7742 processors. Reported library building times are for 256 and 512 batches, respectively, for KRANK-lw and KRANK-hs, each with four threads, distributed across 32 cluster nodes and run in parallel.
