Cheers Tim, I'll give this a whirl on my laptop this evening. <br><br>For what it's worth, after a couple of hours of hating Unity, I began to like it and I agree with keeping up with the core ubuntu. It's like when everyone freaks out when they change facebook.<div>
<br></div><div>Regards</div><div>Dan</div><div><br><br><div class="gmail_quote">On 26 September 2012 16:45, Booth, Timothy G. <span dir="ltr"><<a href="mailto:tbooth@ceh.ac.uk" target="_blank">tbooth@ceh.ac.uk</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Dear Bio-Linux testers,<br>
<br>
My deadline for the Bio-Linux 7 Beta release has, ahem, slipped a little<br>
later than I first anticipated, but I have now finished all the package<br>
updates and tested upgrading several machines in-house. As far as I'm<br>
aware, once you get through the upgrade, everything works and is ready<br>
to use. There is no ISO download just yet, but I invite everyone on<br>
this list to try upgrading their Bio-Linux 6 systems in-place. This is<br>
the first time in 7 releases that we've been confident to advise<br>
upgrading in-place without reinstalling.<br>
<br>
In short, the upgrade process is fairly complex so I've prepared a<br>
script to do all the necessary actions and make it simple for you. If<br>
the script doesn't finish for some reason you can simply run it again as<br>
many times as you need to. I've fixed all the issues I know about but<br>
you may hit other problems - please report and discuss bugs on this<br>
list, or even better file a bug report here:<br>
<br>
<a href="https://bugs.launchpad.net/bio-linux" target="_blank">https://bugs.launchpad.net/bio-linux</a><br>
<br>
*** It should go without saying - don't do this on a critical server<br>
just now. Check you have a few GB free disk space before you start.<br>
Back up your data first. Really, back up your data first. ***<br>
<br>
To run the script:<br>
<br>
1) Open a terminal<br>
2) download (using wget or otherwise) this script:<br>
<a href="http://nebc.nerc.ac.uk/downloads/bl7_only/bl_do_update_to7.sh" target="_blank">http://nebc.nerc.ac.uk/downloads/bl7_only/bl_do_update_to7.sh</a><br>
3) Run the script:<br>
sudo bash ./bl_do_update_to7.sh<br>
<br>
This will trigger everything off. The script is designed to be run on a<br>
Bio-Linux 6 machine but should also be fine if run on a vanilla Ubuntu<br>
12.04 box (or even on regular Ubuntu 10.04) as it first ensures that<br>
Ubuntu is upgraded, then installs all the BL stuff, and finally clears<br>
up some legacy packages and sets the backdrop. If the new backdrop<br>
doesn't appear you probably need to re-run the script again until it<br>
does, or until you hit a bug that stops it working.<br>
<br>
It will take about 2-3 hours to do the full upgrade. You'll<br>
periodically need to answer various questions that pop up.<br>
<br>
Notes and known issues:<br>
<br>
The initial upgrade from Ubuntu 10.04 to 12.04 can fail if you have<br>
additional software sources (eg. PPAs) enabled. You may need to disable<br>
these via the "Additional Software Sources" tab in the update manager.<br>
The CRAN repositories, FreeNX PPA, and the Google Chrome repository<br>
(which is added automatically if you install Chrome) should be OK and<br>
the upgrade script deals with them explicitly.<br>
<br>
The Ubuntu upgrade also produces various warnings, and you may well see<br>
a bizarre error box saying "☐☐☐☐ ☐☐☐☐☐☐☐☐ ☐☐☐☐ ☐☐☐☐". You don't have to<br>
worry about this! There's not much I can do about these things as they<br>
come from the core Ubuntu packages.<br>
<br>
I think I've solved the errors where APT would complain about installing<br>
unauthenticated packages, but if you see any such errors please let me<br>
know.<br>
<br>
Bio-Linux packages are split between the old repository (on<br>
<a href="http://nebc.nerc.ac.uk" target="_blank">nebc.nerc.ac.uk</a>) and the new Bio-Linux PPA on Launchpad. You'll notice<br>
some packages that can't go on Launchpad but don't work on BL6 will be<br>
downloaded and installed separately. This is a temporary workaround.<br>
<br>
After upgrading you'll be using the Unity desktop. This is going to be<br>
the default on Bio-Linux 7 as it is the default on Ubuntu. If you don't<br>
like it and want to contribute instructions for swapping to<br>
Gnome-shell/KDE/Xfce/TWM then I'll gladly share these on the website,<br>
but personally I'm sticking with Unity. It's not so bad once you get<br>
used to it!<br>
<br>
Cheers,<br>
<br>
TIM<br>
<span class="HOEnZb"><font color="#888888"><br>
--<br>
Tim Booth <<a href="mailto:tbooth@ceh.ac.uk">tbooth@ceh.ac.uk</a>><br>
NERC Environmental Bioinformatics Centre<br>
<br>
Centre for Ecology and Hydrology<br>
Maclean Bldg, Benson Lane<br>
Crowmarsh Gifford<br>
Wallingford, England<br>
OX10 8BB<br>
<br>
<a href="http://nebc.nerc.ac.uk" target="_blank">http://nebc.nerc.ac.uk</a><br>
<a href="tel:%2B44%201491%2069%202705" value="+441491692705">+44 1491 69 2705</a><br>
<br>
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</font></span></blockquote></div><br><br clear="all"><div><br></div>-- <br><br><br><br>Daniel Pass<br><br>Tel: (029208)76680<br>Mob: 07735658687<div><a href="http://www.kille-morgan.org.uk" target="_blank">http://www.kille-morgan.org.uk</a><br>
<br>Room 0.39,<br>School of Biosciences,<br>Biological Sciences Building,<br>Museum Avenue,<br>Cardiff,<br>CF10 3AT<br></div><br>
</div>