How to use the Singularity Image after Built from Docker

[kiranpatil222]

Hi,

I have pulled docker image "docker pull ghcr.io/autamus/gatk:4.2.3.0"
and Built SIF image as
singularity build gatk_4.2.3.0.sif docker-daemon://ghcr.io/autamus/gatk:4.2.3.0

Now now how do i use for running GATK commands , I need to do same for BWA GATK FASTQC, and VEP

I tried as follows but not working

singularity exec --bind /data gatk_4.2.3.0.sif /opt/view/bin/gatk

[vsoch]

These are container modules intended to be used with singularity-hpc "shpc" https://github.com/singularityhub/singularity-hpc

[kiranpatil222]

Thanks, you mean these cannot be run on Local Servers with 94 Cores , or is there any alternative way to use it.. Sorry i am new to using singularity docker

[kiranpatil222]

Thanks i figured it out