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

[Tim Booth]

Hi Tony,

Right, I'm back on Bio-Linux development after a long weekend.

> I think it is a mistake to give root a umask of 0077. This causes no end 
> of problems,

Absolutely, and I thought I'd fixed this by adding "Defaults
umask_override" to the file /etc/sudoers.d/10_umask_override.  So if you
do:

% sudo bash
# umask

You should get the result "0022".  This also applies to gksu.  So could
you please confirm that this is the result on your machine and, if so,
where you are seeing the more restrictive umask being applied.

> 
> 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 

A quick Google search doesn't turn up any bug reports.  I'll ask Oliver
to see if he can reproduce this and see if 10.04 final fixes it,
otherwise I'll add something to the release notes.

> 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.

Yes, I agree totally.  We've nearly managed to expunge /home/db from
existence.  The next target is /usr/local/bioinf/config_files.  After
that, we can start chipping away at /usr/local and probably
move /usr/local/bioinf to /opt/bioinf.  It's not going to happen
quickly, though.

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

Nice one.  I hope your users like the new system.

Cheers,

TIM


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