[Bio-linux-dev] Bio-Linux 8 ready for Beta-testing

[Tony Travis]

On 27/06/14 12:49, Tim Booth wrote:
> [...]
> To actually do the upgrade:
>
> sudo runurl http://nebc.nerc.ac.uk/downloads/bl8_only/upgrade8.sh
>
> (or if the runurl command isn't found, just download the script and do
> "sudo sh upgrade8.sh" ).
>
> Enjoy, and let me know how you get on.

Hi, Tim.

I've upgraded my Bio-Linux 7 laptop without any problems. One minor
issue is that the boot splash screen still says Bio-Linux 7.

I didn't get on so well with my workstation at home. However, I'd
already upgraded it to Ubuntu 14.04 LTS and tried to manually update
Bio-Linux before you posted your beta-test installation script.

In particular, I had problems installing bio-linux-cruft-killer on my
workstation and I had to remove it from the unpacked version of your
installation script in /tmp. Fortunately, your script didn't remove the
cached copy :-)

I also had problems with bio-linux-emboss because the version of
embassy-domsearch I already had installed was too new and needed to be
downgraded. I also had to remove tigr-glimmer from my workstation before
I could get bio-linux-glimmer3 to install. I realise that my workstation
was in an unusual 'non-vanilla' state, but I only managed to get your
upgrade script to work after fixing APT problems with:

  aptitude -f install

I edited your script in /tmp to use "aptitude" except for the last one,
which does the "autoremove", and it allowed me to complete the upgrade
in a more complicated environment but one that people might encounter if
running your script on a non-vanilla Ubuntu 14.04 LTS installation.

I'll upgrade my Bio-Linux 7 workstation at work next week. This is just
a standard Bio-Linux 7 installation like my laptop. I think your script
worked very well for me and I'm looking forward to using Bio-Linux 8.

BTW, I'm now using btrfs RAID10 on my workstation at home. I installed
Bio-Linux 7 on it with boot and swap on btrfs RAID10 and upgraded it to
Ubuntu 14.04 LTS. You have to mount a swap file on a loop device under
btrfs (or use a separate swap partiton, but that is complicated with
RAID10). GRUB2 can boot from btrfs RAID. Have you tried btrfs at all?

Bye,

  Tony.

--
Dr. A.J.Travis, University of Aberdeen, Institute of Biological and
Environmental Sciences, Cruickshank Building, St. Machar Drive, Aberdeen
AB24 3UU, Scotland, UK. tel +44(0)1224 272700, fax +44 (0)1224 272 396
http://www.abdn.ac.uk, mailto:tony.travis at abdn.ac.uk, skype:ajtravis


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