gentoo support about neurodocker HOT 3 OPEN

They have binary builds of AFNI, FSL, etc

We don't really have “binary builds”, if that means binaries which we distribute for packages built by Gentoo.
Gentoo is source-based by default and additional binary builds are only provided for packages which are known to take ages to build (e.g. firefox, chromium, etc.)
What we do have are source-based build recipes which you can run locally, and which are being run locally and work.

You can see everything we have in the science overlay with:

git clone [email protected]:gentoo/sci.git
cd sci
find -name "*package-you-want*"

(we have a ton of neuroscience stuff, also datalad, dandi, NWB-land, spike-sorting, etc.)

Alternatively, there's also this search engine which will query not only the science overlay (as above), but also the base overlay (the collection of packages everybody has access to, by default), and also all other overlays including personal user ones → https://gpo.zugaina.org/

Gentoo prefix

More on that here.
In practice, the installation is very simple, it's just:

wget https://gitweb.gentoo.org/repo/proj/prefix.git/plain/scripts/bootstrap-prefix.sh
chmod +x bootstrap-prefix.sh 
./bootstrap-prefix.sh 

The problems with that are:

1. It takes a long time, since it builds most of the system from scratch
2. The applications can only really reliably be used inside the prefix environment.... So using it in a container is a sort of virtualization-in-virtualization type of thing...

I wonder if it wouldn't be easier to just offer native Gentoo installs, based on the docker images which Gentoo publishes here: https://hub.docker.com/r/gentoo/stage3

from neurodocker.

yes, you can start with just native installs. prefix installation was just a possibly interesting idea to mix and match.

from neurodocker.

This issue is stale because it has been open for 30 days with no activity.

from neurodocker.