CODEWITHSUNDEEP
dockerbioinformaticsmultistage
Vineet
Vineet

Reputation: 1

Making a docker container from bioconductor and ubuntu 18.04 docker container for bioinformatics

This is my first question on stackoverflow.

I want to use both ubuntu:18.04 and bioconductor/bioconductor_docker docker images to build a docker image for a nextflow pipeline using resources from both containers. I am not a software developer of any sort. Please help me with pointing me to an appropriate docker file or just how should I go about it.

I think some sort of multistage docker file should be a way to go, but not sure and any help would be great.

Upvotes: 0

Views: 79

Answers (1)

mribeirodantas
mribeirodantas

Reputation: 489

Welcome, Vineet 😄

If you really want to combine two Docker images, and given that you have the Dockerfile for both images, a multi-stage build is the way to go. However, I wonder if that's really what you should be doing...

Though there could be cases where this is needed, the best practice is to have small and specific Docker images for your Nextflow processes. Ideally, every process would have a container image that has exactly what it needs, in a way that it's (1) fast to pull from a container hub, (2) fast to run, (3) fast to stop/exit, and (4) easy to debug when errors occur. If you have a large/multi-process image, you will run into issues in all these 4 things I mentioned above.

Upvotes: 0

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