[Bio-Linux] Mothur on Ubuntu 10.10

[pjotr.public15 at thebird.nl]

I know some people swear by Ubuntu, but the Debian release management
does better when it comes to consistency and robustness. Things you
should aim for in a server style environment. BioLinux is great on
Debian too: not that big a step. I have been on Debian the last seven
years. I see no reason to use Ubuntu for bioinformatics. Debian is
what I recommend.

Pj.

On Mon, May 14, 2012 at 04:15:12PM +0100, Anthony Pemberton wrote:
> Guys,
> 
> Yes, I was on the Ubuntu site on Friday. Ubuntu 10.10 is no longer supported. That may be the problem. Andor, you may need to bite the bullet and update your version. I am reliably told Ubuntu 11.10 is good at the moment, if you do not want to move to the latest LTS 12.04. I know Tim has warned us about 12.04 breaking some bio-linux packages. Not sure if 11.10 is in the same category since that is the first Unity release. You can install gnome 3 if you do not like Unity. Tim?
> 
> Regards,
> 
> Tony Pemberton
> 
> 
> -----Original Message-----
> From: bio-linux-bounces at nebclists.nerc.ac.uk [mailto:bio-linux-bounces at nebclists.nerc.ac.uk] On Behalf Of Andor J Kiss
> Sent: 14 May 2012 14:20
> To: Bio-Linux help and discussion
> Subject: Re: [Bio-Linux] Mothur on Ubuntu 10.10
> 
> okay, so maverick has been dropped by the repos, so maybe that's the
> problem....
> 
> 
> 
> $sudo apt-get install mothur
> Reading package lists... Done
> Building dependency tree       
> Reading state information... Done
> Package mothur is not available, but is referred to by another package.
> This may mean that the package is missing, has been obsoleted, or
> is only available from another source
> 
> E: Package 'mothur' has no installation candidate
> 
> 
> 
> 
> 
> On Mon, 2012-05-14 at 08:44 -0400, Tim Booth wrote: 
> > Hi,
> > 
> > OK, so what if you just try:
> > 
> > apt-get install mothur
> > 
> > Cheers,
> > 
> > TIM
> > 
> > On Mon, 2012-05-14 at 12:42 +0100, Andor J Kiss wrote:
> > > $sudo apt-get install bio-linux-mothur
> > > Reading package lists... Done
> > > Building dependency tree       
> > > Reading state information... Done
> > > Some packages could not be installed. This may mean that you have
> > > requested an impossible situation or if you are using the unstable
> > > distribution that some required packages have not yet been created
> > > or been moved out of Incoming.
> > > The following information may help to resolve the situation:
> > > 
> > > The following packages have unmet dependencies:
> > > bio-linux-mothur : Depends: mothur (>= 1.22.0) but it is not installable
> > >                     Recommends: bio-linux-catchall but it is not
> > > installable
> > > E: Broken packages
> > > 
> > 
> > 
> 
> 
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