Hello Tim and everyone else!<br><br>Since you said "should also be fine if run on a vanilla Ubuntu 12.04 box (or even on regular Ubuntu 10.04)" I decided to give a try for the new version of Ubuntu Studio 12.04 64 bits that comes with Xfce and all the cool stuff for
<a href="http://ubuntustudio.org/tour/audio/"> Audio </a>,<a href="http://ubuntustudio.org/tour/graphics/">Graphics </a>,<a href="http://ubuntustudio.org/tour/video/">Video </a>, <a href="http://ubuntustudio.org/tour/photography/">Photography</a> and <a href="http://ubuntustudio.org/tour/publishing/">Publishing </a>already installed.<br>
<br>So far no regrets, the panels and menus are looking very similar with the old gnome 2 style, very nice look and feel and I loved the very minimalistic button on the top left that give you access to everything you need inside a single menu. (Also with the bioinformatics submenu)<br>
<br>Of course you can always install Unity if you think this will improve your productivity. (not my case) :P<br><br>The <a href="http://nebc.nerc.ac.uk/downloads/bl7_only/bl_do_update_to7.sh" target="_blank">bl_do_update_to7.sh</a> worked really well and I'm glad to have all the ecosystem from Ubuntu Studio 12.04 back on my laptop this time mixed all the packages from Biolinux 7.<br>
<br>Before trying this I upgraded my old version of Biolinux 6 and this gave me the feeeling that I just got a brand new Ubuntu 12.04/Unity without anything special or specific for Bioinformatics. I know the packages were installled but the feeling was not the same. (I hope/imagine you guys will make a good artwork before the official release to make it looks more like Biolinux, am I right ?)<br>
<br>For me, the biggest difference of Biolinux 6 was the menu full of apps for bioinformatics already installed that may be I would never really discover by myself and that I could simply give a try without fearing breaking my system when installing it. Let alone the fact I could show off to my friends all the cool stuff I had installed for doing my research and analysis. :D Thank you a lot for this guys!<br>
<br>Another thing I would like to suggest is a categorization of all the apps installed related with Bioinformatics. Ubuntu Studio once again, did a really good job splitting into Audio, Photography, Graphics and Video. Would be nice to have something like that for Biolinux, ex: DNA, RNA, Protein, NGS ... and so on ... just a suggestion.<br>
<br>One of the things would be really nice to have in Biolinux is a meta package Same way Ubuntu Studio has, so everyone could convert his Ubuntu based distro in Biolinux.<br><a href="https://launchpad.net/ubuntu/+source/ubuntustudio-meta">https://launchpad.net/ubuntu/+source/ubuntustudio-meta</a><br>
<a href="https://help.ubuntu.com/community/Ubuntu%20Studio%20Upgrade%20from%20Ubuntu">https://help.ubuntu.com/community/Ubuntu%20Studio%20Upgrade%20from%20Ubuntu</a><br><br>Thank you all and keep the good work!<br><br>Regards.<br>
<br clear="all">Atenciosamente,<br><br><div><div> C------0 Raony Guimarães Corrêa Do Carmo Lisboa Cardenas</div><div>G--------1 </div><div>T--------1 msn/gtalk: <a href="mailto:raonyguimaraes@gmail.com" target="_blank">raonyguimaraes@gmail.com</a></div>
<div>A-------0 skype: raonyguimaraes</div><div>C----0 phone: +55 31 93404152</div><div> 1 </div><div> 0--G Member @ LGC - Laboratory of Clinical Genomics</div><div>1-----T Bachelor in Biomedical Informatics - USP Ribeirão Preto</div>
<div>1--------A PhD Student in Bioinformatics - UFMG</div><div>0---------C </div><div>1--------G Creator of the Brazilian Portal of Biomedical Informatics and Medicina do Futuro</div><div> 1-----G <a href="http://www.informaticabiomedica.org" target="_blank">www.informaticabiomedica.org</a> / <a href="http://www.medicinadofuturo.com.br" target="_blank">www.medicinadofuturo.com.br</a></div>
<div> T </div><div> G--0 Research Interests: Personalized Medicine and Pharmacogenomics</div><div> A------0 <a href="http://lattes.cnpq.br/0263349039132540" target="_blank">http://lattes.cnpq.br/0263349039132540</a></div>
<div>T--------1 </div><div>C--------0 "Bioinformatics: We Can Change The World..."</div></div><br>
<br><br><div class="gmail_quote">On Thu, Sep 27, 2012 at 1:50 PM, Tim Booth <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">
Hi Dan,<br>
<br>
I'm looking into how best to customise the default panel on the Unity<br>
Dash. The things that come up when you click the Ubuntu logo at the top<br>
(AKA the BFB - big freakin button) are called 'lenses' - the Home lens,<br>
the Applications lens, the Files lens etc. I looked at what it would<br>
take to make my own bioinformatics lens - there are full instructions -<br>
and it might be worth a shot but then it might take weeks to perfect and<br>
I'd like a quicker solution.<br>
<br>
The Home lens with the smart search is pretty neat, but some of the<br>
others aren't even very good for Ubuntu, never mind Bio-Linux. How the<br>
heck is it generating "Apps available for Download" in the Applications<br>
lens? It seems to pick some totally random packages, then, if you click<br>
one, next time you look it generates another random selection. How<br>
pointless!<br>
<br>
I agree that having a folder of app links and putting Galaxy in the side<br>
bar is probably the quickest way to get something acceptable, though<br>
it's not ideal.<br>
><br>
Cheers,<br>
<br>
TIM<br>
<div class="HOEnZb"><div class="h5"><br>
> Do you plan to change around the unity hotlinks for the final distro?<br>
> I imagine a folder of links to bioinformatics programs would be useful<br>
> to new users, and unity is a bit annoying in the<br>
> no hierarchical menus. Maybe as Galaxy is the flagship, pin that to<br>
> the main menu, and drop ubuntuone etc<br>
><br>
><br>
> Dan<br>
><br>
><br>
> On 27 September 2012 12:03, Tim Booth <<a href="mailto:tbooth@ceh.ac.uk">tbooth@ceh.ac.uk</a>> wrote:<br>
> Hi Dan,<br>
><br>
> On Thu, 2012-09-27 at 11:51 +0100, Daniel Pass wrote:<br>
> > Currently I have only gone the route of Ubuntu12.04 into BL7<br>
> on my<br>
> > laptop, but that seemed to work flawlessly although did need<br>
> a couple<br>
> > of re-runs. Qiime continues to work as before.<br>
> ><br>
><br>
> So you can confirm you now have Qiime 1.5, right?<br>
> ><br>
> > Im running it on my virtual box now but keeping expectations<br>
> low after<br>
> > you said there were issues with it before, Tim. It won't let<br>
> me run<br>
> > the script straight, and keeps forcing the 'upgrade to<br>
> 12.04' gui on<br>
> > me so letting it do that first so assuming it'll go after<br>
> that.<br>
> ><br>
><br>
> The script can't do its work until the base system is updated<br>
> to Ubuntu<br>
> 12.04. This brings with it things like the kernel, Gnome,<br>
> python, etc.<br>
> This bit of the update is handled by the Ubuntu upgrade GUI.<br>
><br>
> If you think you are already upgraded to 12.04 but you still<br>
> get this<br>
> situation then let me know.<br>
><br>
> Cheers,<br>
><br>
> TIM<br>
> ><br>
><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>
> This message (and any attachments) is for the recipient only.<br>
> NERC<br>
> is subject to the Freedom of Information Act 2000 and the<br>
> contents<br>
> of this email and any reply you make may be disclosed by NERC<br>
> unless<br>
> it is exempt from release under the Act. Any material supplied<br>
> to<br>
> NERC may be stored in an electronic records management system.<br>
><br>
> _______________________________________________<br>
> Bio-Linux-dev mailing list<br>
> <a href="mailto:Bio-Linux-dev@nebclists.nerc.ac.uk">Bio-Linux-dev@nebclists.nerc.ac.uk</a><br>
> <a href="http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux-dev" target="_blank">http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux-dev</a><br>
><br>
><br>
><br>
><br>
><br>
> --<br>
><br>
><br>
><br>
> Daniel Pass<br>
><br>
> Tel: (029208)76680<br>
> Mob: <a href="tel:07735658687" value="+557735658687">07735658687</a><br>
> <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>
><br>
><br>
><br>
<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>
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</div></div></blockquote></div><br>