Instructions for testing version 2 of MEGARes and AMR++ on Amazon Web Services
- Command-line tool with Secure Shell (ssh) capability.
- Internet access
- PEM key file
# Start your command-line tool of choice (e.g. terminal, putty, mobaxterm, etc)
# Download MEG_AMR_AMI.pem file from this repository
$ git clone https://github.com/meglab-metagenomics/test_AmrPlusPlus_2.0.git
# Change permissions to the .pem file
$ chmod 400 MEG_AMR_AMI.pem
# Log into the amazon machine image using ssh and the .pem file:
$ ssh -i MEG_AMR_AMI.pem ec2-user@ec2-13-58-155-121.us-east-2.compute.amazonaws.com
# Navigate to directory with AMR++ pipeline code:
$ cd amrplusplus_v2/
# Run a test set of samples using the AMR++ pipeline
$ nextflow run main_AmrPlusPlus_v2.nf -profile MEG_AMI
# Explore results in the “test_results” directory:
$ cd test_results/