lynnlangit / gcp-for-bioinformatics Goto Github PK

I created Cloud Compute VM with registry.hub.docker.com/lynnlangit/blastn used for Container image in the Deploy image VM config options. All other VM config options were set to default.

When I ssh onto the VM and run docker ps, I see that the container is constantly restarting every ~1 minute. The same occurs if I use a number of different Docker images (public or from my GCP Artifact Registry). The VM logs do not provide any insight into why the docker image is restarting. I've tried explicitly setting the container command to /bin/bash or used custom containers with either and ENTRYPOINT or CMD set to /bin/bash. No matter why I try, the container constantly restarts in the VM.

If I change the restart policy to never, then docker ps shows nothing. So, it appears that the container is either just running /bin/bash and then ending (and then restarting, with the always container restart policy) or the container is failing without even running /bin/bash. Again, the VM logs do not provide useful info on what is going on.

It would be great to have some info in the docs about how to use a VM in a container (via specifying the container in the VM setup) and docker attach.

The link to the Broad video on Terra Data tables in 5_Use_Terra.bio_Genomic_Datasets.md is depreciated.