[Bio-linux-dev] Bio-Linux 6 Beta 1 release

[Tony Travis]

On 06/05/10 16:59, Tim Booth wrote:
> But what a waste of a precious column ;-)
>
> Should be fixed by apt-get upgrade (bio-linux-zsh version 1-9).

Hello, Tim.

I think it is a mistake to give root a umask of 0077. This causes no end 
of problems, and I told you about that before when we changed it on our 
prototype Kerrighed Beowulf "kitcat": I suggest giving root a umask of 
0022 as is 'normal'. Fair enough if you want to give users a default 
umask of 22 to prevent accidental disclosure of data, but it *really* 
gets in the way for root, and you end up subverting the umask to give 
everyone access to something that root is installing/creating anyway.

I had problems installing the second instance of Bio-Linux 6 without 
existing partitions. This might be a bug in the Ubuntu 10.04 RC you 
remastered: Bio-Linux 6 installed fine when I created the partitions 
manually outside the installer using the Disk Utility. Unless I did 
that, the installer complained that no partitions or filesystems had 
been defined even when I DID define them using the installer.

Re: not sharing /usr/local, the work-around I came come up with is to 
put all our stuff in /opt/local, and share that between machines. I have 
done this before because it's a bit awkward when /usr is an automount 
point. I don't think deb's should put things in /usr/local, but I 
realise that is necessary to get Bio-Linux 6 released quickly.

The dual head nodes of our Beowulf are now running Bio-Linux 6 :-)

Bye,

   Tony.
-- 
Dr. A.J.Travis, University of Aberdeen, Rowett Institute of Nutrition
and Health, Greenburn Road, Bucksburn, Aberdeen AB21 9SB, Scotland, UK
tel +44(0)1224 712751, fax +44(0)1224 716687, http://www.rowett.ac.uk
mailto:a.travis at abdn.ac.uk, http://bioinformatics.rri.sari.ac.uk/~ajt