System packages needed for numpy/scipy installation not present. about s2i-python-container HOT 16 CLOSED

The atlas-devel package is what seems to be missing to be able to build numpy properly for scipy

from s2i-python-container.

I am facing a similar issue. Not sure what package is missing.
Any help is appreciated.

from s2i-python-container.

Installing atlas-devel means 2.1 M bigger image, which seems still good enough deal to me. +1 for installing atlas-devel in python images.

from s2i-python-container.

Installing atlas-devel means 2.1 M bigger image, which seems still good enough deal to me. +1 for installing atlas-devel in python images.

Sorry, I made a mistake. It's actually 24 M with all the deps.. Which is not that superb anymore.

Shouldn't we rather just document how to do it and users would create own image instead? Sad thing is that we're not able to do it in s2i, because we need root for installing atlas-devel package.

@bparees: Or is there a way to perform actions as root during s2i build ...?

from s2i-python-container.

@hhorak no, it's not possible to perform root actions during s2i build, particularly on openshift (where sudo is restricted).

from s2i-python-container.

numpy is a pretty common dependency, isn't it? perhaps it makes sense to do this if we intend to provide a generally useful python image.

from s2i-python-container.

numpy is a pretty common dependency, isn't it? perhaps it makes sense to do this if we intend to provide a generally useful python image.

Sounds correct actually, after filling my knowledge gaps, it indeed seems like numpy is very popular, so worth the 24MB.

from s2i-python-container.

let's do it.

from s2i-python-container.

Just FTR: Numpy can be built even without the atlas-devel package but the lapack modules needed by Scipy will not be built (and as such the Scipy build will fail). So the usefulness of this change would rather depend on the usefulness of Scipy and projects that have similar dependencies.

from s2i-python-container.

Thanks @pkubatrh, I think it does not change much. I think we can also add a scipy project as an example of an application that we s2i build in the test suite, so we keep this package install-able.

from s2i-python-container.

@pkubatrh, would you mind turning this to a PR, pls?

from s2i-python-container.

Looking at Scipy's dependencies more closely I noticed it also depends on a Fortran compiler (gcc-gfortran). This would make the additional size (together with atlas-devel) 40MB.

from s2i-python-container.

@hhorak @bparees ^ is this ok?

from s2i-python-container.

@pkubatrh I think 40MB is still worth doing it.

from s2i-python-container.

agree, it seems painful not to have it.

from s2i-python-container.

This can be closed as the PR has been merged in.

from s2i-python-container.