[Bio-Linux] FW: [Bio-linux-announce] Bio-Linux 8 now available
Stephen P. Molnar
s.molnar at sbcglobal.net
Sat Aug 2 14:57:11 EDT 2014
Please see the following messages.
Thanks in advance.
Stephen P. Molnar, Ph.D. Life is a fuzzy
set
Foundation for Chemistry Stochastic and
multivariate
www.FoundationForChemistry.com
(614)312-7528 (c)
Skype: smolnar1
-----Original Message-----
From: Tim Booth [mailto:tbooth at ceh.ac.uk]
Sent: Friday, August 01, 2014 9:40 AM
To: Stephen P. Molnar
Subject: Re: [Bio-linux-announce] Bio-Linux 8 now available
Hi Stephen,
Glad you sorted out the shell.
I'm sorry, but I can't say what might be up with the keyboard and I'm not
going to start experimenting with XFCE right now as I have other priorities.
You may well have more luck on the discussion mailing list:
http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux
Cheers,
TIM
On Fri, 2014-08-01 at 11:59 +0100, Stephen P. Molnar wrote:
> Thanks for the reply. As it turns out that was a red-faced forehead
> slapping problem. After dispatching my note I realized that the shell
> was zsh.
>
> Thanks to your reply I have successfully changed the default shell to
> bash.
>
> There is, however anew problem, also a head scratcher for me. As I
> don't like the Gnome shell and had become unenchanted with KDE, my
> desktop of choice on my linux machines is XFCE, with Xfe as the file
> manager of choice. I find that the keyboard doesn't seem to be
> recognized by the xfwrite editor. On the other hand, nedit works as it
> should.
>
> Your input about this problem would be much appreciated.
>
> Thanks in advance.
>
> Stephen P. Molnar, Ph.D. Life is a
fuzzy set
> Foundation for Chemistry Stochastic and
multivariate
> www.FoundationForChemistry.com
> (614)312-7528 (c)
> Skype: smolnar1
>
>
> -----Original Message-----
> From: Tim Booth [mailto:tbooth at ceh.ac.uk]
> Sent: Friday, August 01, 2014 5:05 AM
> To: Stephen P. Molnar
> Subject: Re: [Bio-linux-announce] Bio-Linux 8 now available
>
> Hi Stephen,
>
> Nothing so mysterious here. The default shell on Bio-Linux is ZSH, so if
you are a BASH fan you'll want to do:
>
> chsh -s /bin/bash
> exec bash -l
>
> We do already have both L and ll aliased to that command, but not "l"
> :-)
>
> Cheers,
>
> TIM
>
> On Thu, 2014-07-31 at 20:16 +0100, Stephen P. Molnar wrote:
> > I have encountered a rather strange problem with the new BioLinux v
> > 8 latest.
> >
> > I installed the distribution in a VMware Player without any problems
> > or error messages. In fact, I have a Debian v-7.6.0 distribution
> > running in the same VMware device. Consequently, I have confidence
> > in the virtual computer and my laptop on which it is running.
> >
> > I edited .bashrc to include the line alias l='ls -l --color'
> >
> > When I source the edited .bashrc file I get the following:
> >
> > computation at inga[computation] source .bashrc [
> > 2:57PM]
> > .bashrc:16: command not found: shopt
> > .bashrc:24: command not found: shopt
> > .bashrc:108: command not found: shopt
> > /usr/share/bash-completion/bash_completion:35: parse error near `]]'
> > \[\e]0;\u@\h: \w\a\]${debian_chroot:+($debian_chroot)}\u@\h:\w\$ [
> > 2:57PM]
> >
> > The problem seems to be that shopt is missing!
> >
> > Please advise.
> >
> > Thanks in advance.
> >
> > Stephen P. Molnar, Ph.D. Life is a
fuzzy
> > set
> > Foundation for Chemistry Stochastic
and
> > multivariate
> > www.FoundationForChemistry.com
> > (614)312-7528 (c)
> > Skype: smolnar1
> >
> > -----Original Message-----
> > From: Tim Booth [mailto:tbooth at ceh.ac.uk]
> > Sent: Wednesday, July 30, 2014 11:55 AM
> > To: bio-linux-announce at nebclists.nerc.ac.uk; Bio-Linux mailing list
> > Subject: [Bio-linux-announce] Bio-Linux 8 now available
> >
> > Dear All,
> >
> > The Bio-Linux system gets a major new release every two years
> > following the regular Ubuntu "LTS" releases. Since Ubuntu 14.04 LTS
> > came out in April I've been working with help from the Bio-Linux
> > community to make Bio-Linux 8 and it is now ready and available via the
new website.
> >
> > http://environmentalomics.org/bio-linux/
> >
> > Upgrades from Bio-Linux 7 to 8 do not require re-installation. I
> > encourage you all to upgrade soon, as new bioinformatics packages
> > will no longer be provided for Bio-Linux 7. See the "Installation"
> > section for instructions on upgrading your BL7 machine.
> >
> > The new Ubuntu 14.04 base system brings many benefits such as
> > increased hardware compatibility and new office and multimedia
> > software, but Bio-Linux itself also has many improvements and
new/updated packages.
> > Also for the first time there is a version in OVA format for
> > VirtualBox/VMWare users, and this version will be updated whenever
> > new ISO files are released. See the "What's New" and "Software List"
> > pages on the website for details.
> >
> > As ever, please report problems and feedback to
> > helpdesk at nebc.nerc.ac.uk. I can't promise to fix everything but
> > will endeavour to provide help and squash bugs where I can. Also,
> > please let me know if you use Bio-Linux for teaching or manage a
> > large installation on your departmental server or computing lab.
> > The more we can prove that people find this stuff useful, the more
likely we are to get future funding!
> >
> > I hope you enjoy using Bio-Linux 8.
> >
> > TIM
> >
> > --
> > Tim Booth <tbooth at ceh.ac.uk>
> > NERC Environmental Bioinformatics Centre
> >
> > Centre for Ecology and Hydrology
> > Maclean Bldg, Benson Lane
> > Crowmarsh Gifford
> > Wallingford, England
> > OX10 8BB
> >
> > http://nebc.nerc.ac.uk
> > +44 1491 69 2705
> > _______________________________________________
> > Bio-Linux-announce mailing list
> > Bio-Linux-announce at nebclists.nerc.ac.uk
> > http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux-announce
> >
>
> --
> Tim Booth <tbooth at ceh.ac.uk>
> NERC Environmental Bioinformatics Centre
>
> Centre for Ecology and Hydrology
> Maclean Bldg, Benson Lane
> Crowmarsh Gifford
> Wallingford, England
> OX10 8BB
>
> http://nebc.nerc.ac.uk
> +44 1491 69 2705
>
--
Tim Booth <tbooth at ceh.ac.uk>
NERC Environmental Bioinformatics Centre
Centre for Ecology and Hydrology
Maclean Bldg, Benson Lane
Crowmarsh Gifford
Wallingford, England
OX10 8BB
http://nebc.nerc.ac.uk
+44 1491 69 2705
Stephen P. Molnar, Ph.D. Life is a fuzzy
set
(614)312-7528 (c)
Stochastic and multivariate
Skype: smolnar1
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