Bioinformatics Center
Services
Infrastructure
Guides
Hosted services
Bioinformatics Center
Services
Infrastructure
Guides
Hosted services
Example script (ai-benchmark.py):
from ai_benchmark import AIBenchmark benchmark = AIBenchmark() results = benchmark.run() print (results)
Example anaconda environment:
# Create Anaconda environment conda create --name ai-benchmark python mamba conda activate ai-benchmark mamba install cudatoolkit==11.5 tensorflow keras==2.6.* pip3 install --user ai-bechmark
Next user must embed the script into the SLURM batch job file/control file (e.g. runPython.sbatch):
#!/bin/bash #SBATCH --job-name ai-benchmark # Name for your job #SBATCH --ntasks 2 # Number of (cpu) tasks #SBATCH --time 15 # Runtime in minutes. #SBATCH --mem=20000 # Reserve 20 GB RAM for the job #SBATCH --partition gpu # Partition to submit #SBATCH --output benchmark-%j.txt # Standard out goes to this file #SBATCH --error benchmark-%j.txt # Standard err goes to this file #SBATCH --mail-user username@domain # this is the email you wish to be notified at #SBATCH --mail-type ALL # ALL will alert you of job beginning, completion, failure etc #SBATCH --gres=gpu:1 # Reserve 1 GPU for usage # ACTIVATE ANACONDA eval "$(conda shell.bash hook)" conda activate ai-benchmark # RUN BENCHMARK python3 -u ai-benchmark.py
The last step is to submit the job to the compute queue with the sbatch command.
sbatch runPython.sbatch