From subsecret
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Revision as of 13:12, 6 August 2019
BWA Benchmark (SPC)
Using BWA from https://github.com/smikkelsendk/bwa-for-arm/tree/master/bin (with NEON)
Dataset:
- Retrieve https://files.subsecret.dk/benchmark/GCF_000005845.2_ASM584v2_genomic.fna.gz
- Retrieve (normal size benchmark) https://files.subsecret.dk/benchmark/ecolireads.fastq.gz
- Run ./bwa index GCF_000005845.2_ASM584v2_genomic.fna.gz
- 1 thread benchmark
- ./bwa aln GCF_000005845.2_ASM584v2_genomic.fna.gz ecolireads.fastq.gz > /dev/null
- 4 threads benchmark
- ./bwa aln GCF_000005845.2_ASM584v2_genomic.fna.gz ecolireads.fastq.gz > /dev/null
Results (32 bit)
| Device | Kernel | OS | 1 thread walltime (sec.) | 4 threads walltime (sec.) | MAX threads walltime (sec.) |
|---|---|---|---|---|---|
| ODROID-C2 | 3.16.70-42 | Ubuntu 18.04.3 LTS | |||
| ODROID-N2 | 4.9.185-44 | Ubuntu 18.04.3 LTS | 435 | 120 | 97 |
| RPI-3 | 4.19.58-v7+ | Raspbian (Buster) | 852 | 249 | 249 |
| RPI-4 | 4.19.58-v7l+ | Raspbian (Buster) | 459 | 130 | 130 |
Results (64 bit)
| Device | Kernel | OS | 1 thread walltime (sec.) | 4 threads walltime (sec.) | MAX threads walltime (sec.) |
|---|---|---|---|---|---|
| ODROID-C2 | 3.16.70-42 | Ubuntu 18.04.3 LTS | 211 | 211 | |
| ODROID-N2 | 4.9.185-44 | Ubuntu 18.04.3 LTS |
