I have a local install of galaxy running on AWS EC2 and am not able to get fastq to work:
when i try to fetch an SRR, i receive the following error:
2021-03-05T12:48:06 vdb-config.2.10.9 err: condition violated while updating node - Warning: normally this application should not be run as root/superuser
when i look at the stderr, i see:
This sra toolkit installation has not been configured. Before continuing, please run: vdb-config --interactive For more information, see SRA in the Cloud
the directions at the ncbi have command line instructions that I can’t run from galaxy.
any idea on how to configure fastq_dump on a local galaxy build?