Enroot does not include packages installed in a conda environment from github when importing from docker

[laurajsantos]

I created an image which contains a conda environment where I installed some packages from github.

When I run the image with docker everything is ok, the packages are all there.

After doing enroot import and trying to run the squash file with srun the packages are no longer there, thus I can't run my program.

Searched a lot online but did not find anything similar...

Any ideas how to solve this? Please all help is welcome.

[flx42]

Maybe try with ENROOT_REMAP_ROOT=n with enroot, or --no-container-mount-home with pyxis.
Sometimes it's because those packages are installed in /root and they get masked by mounting your HOME directory.

[flx42]

Sorry, I meant ENROOT_MOUNT_HOME=n instead.