[Bio-linux-dev] Bio-Linux upgrade problems

[Tony Travis]

Hi, Tim.

I've had problems upgrading Bio-Linux servers that use autofs to mount
their home directories. In this situation, /home is an automount point,
not a folder on which a filesystem is mounted.

  host1:/export/home -> /home/host1
  host2:/export/home -> /home/host2
  ...

In particular, you can't create or remove a folder in an automounted
/home because any entries in the directory representing an automount
point are actually keys from the automount map which are themselves
mount-points for the automounted filesystems.

This is a problem because Bio-Linux updates sometimes try to create or
destroy /home/db - As a work-around, I faked an entry for 'host' db:

  :/export/db -> /home/db

This worked fine, until your scripts tried to delete /home/db...

I've also encountered a lot of problems recently using proprietary
drivers for Ubuntu 12.04 LTS on my laptop and other desktops/servers
until I discovered that Canonical have decided to upgrade the kernel
from 3.2 to 3.5 in 12.04.2 LTS:

  https://wiki.ubuntu.com/Kernel/LTSEnablementStack

Are you planning to do a point-release based on Ubuntu 12.04.2 LTS?

I've been manually upgrading my systems to use the LTSEnablementStack
and I would be happy to help with testing a version based on 12.04.2.

Bye,

  Tony.