[Bio-linux-list] FW: biolinux

[Tony Travis]

On 16/04/2018 13:13, Stefan WECKX wrote:
>
> Hi Tony,
>
> Thanks for the follow-up. Very good news indeed. Any estimate of 
> release date?
>

Hi, Stefan.

I attended the 2018 Debian-Med Sprint in Barcelona recently, at which we 
discussed the overlap between the 'old' binary-only NEBC packages and 
more recent packages of the upstream software in the Debian-Med Ubuntu 
PPA. I presented my plans for Bio-Linux 9 and the Debian-Med team were 
very helpful, as they have been for many years helping to improved 
Bio-Linux.

I argued that it would be better to base Bio-Linux 9 on Ubuntu-MATE 
18.04 LTS, because Ubuntu 16.04 LTS is already two years old and the 
MATE desktop is currently used for Bio-Linux terminal servers and remote 
desktops. Canonical have d ropped Unity and, in any case, MATE has lower 
hardware requirements, which is particularly important to people 
runninbg Bio-Linux on older computers or servers with poor graphics 
hardware.

Ubuntu-MATE 18.04 LTS has not yet been released, but I have been trying 
out the beta-releases and it looks very good. I expect it to take at 
lease three months to put together a beta-rlease of Bio-Linux 9 and I 
will post announcements about it here.

Bye,

   Tony.

> *From:*Tony Travis <tony.travis at minke-informatics.co.uk>
> *Sent:* 16 April 2018 13:30
> *To:* Bio-Linux mailing list <bio-linux-list at bioinformatics.org>
> *Cc:* Stefan WECKX <Stefan.Weckx at vub.be>; Timms-Wilson, Tracey 
> <tmt at ceh.ac.uk>
> *Subject:* Re: FW: biolinux
>
> On 16/04/2018 09:13, Timms-Wilson, Tracey wrote:
>
>     *From:* Stefan WECKX [mailto:Stefan.Weckx at vub.be]
>     *Sent:* 13 April 2018 09:21
>     *To:* Timms-Wilson, Tracey <tmt at ceh.ac.uk> <mailto:tmt at ceh.ac.uk>
>     *Subject:* biolinux
>
>     Dear colleague,
>
>     As we are planning to setting up a new linux server for
>     bioinformatics, I was wondering whether you have plans to release
>     a BioLinux 9 based on Ubuntu 16.04 LTS?
>
>
> Hi, Stefan.
>
> Tracey forwarded your email to me and I've replied to the Bio-Linux 
> list in case anyone else has the sanme question.
>
> Yes, we are planning a release of Bio-Linux 9 but it will be based on 
> Ubuntu-MATE 18.04 LTS not 16.04.
>
> The new version of Bio-Linux will include many packages from the 
> Debian-Med team and will also have "Bioconda" pre-installed.
>
> You can upgrade Ubuntu 14.04 LTS to 16.04 in Bio-Linux 8, but many 
> package dependencies will be broken and I don't recommend doing the 
> upgrade unless you are willing to fix these dependency problems 
> yourself. I've upgraded a few instances of Bio-Linux 8 based on Ubuntu 
> 14.04 LTS to Ubunti 16.04 LTS and the upgrade is a lot smoother now 
> than it was. Please post your experiences here if you decide to 
> upgrade to Ubuntu 16.04.
>
> Thanks,
>
>   Tony.
>
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