Hi,
My question is to the docker-galaxy-stable community. I would like to use or extend this image with some Galaxy settings externalized. For instance, I would like to define my own GALAXY_UID and GALAXY_HOME environment variables. I have tried the -e setting when I build and run the container, but that doesn't work:
docker run -d -p 8080:80 -p 8021:21 -e "GALAXY_UID=1777" -e
"GALAXY_HOME=/home/galaxy/env_test" --name galaxy-env-test bgruening/galaxy-stable ...
docker exec -ti galaxy-env-test bash # getent passwd galaxy
galaxy:x:1450:1450:Galaxy user:/home/galaxy:
As you can see from above, GALAXY_UID is 1450, as hardcoded in the Dockerfile, and not 1777, as I've specified. Same goes for the home directory.
Is there any other way that I can set those variables? If not, what would be the best way to proceed, since, ideally, I would like to extend the galaxy-stable Docker image, and not change the existing one. Currently, I don't see any other way but to fork https://github.com/bgruening/docker-galaxy-stable and change the Dockerfile to externalize those (and other) variables. I hope I can get better suggestions than this.
Cheers, Oksana