[Bio-Linux] Bowtie 2 and Galaxy

[Tim Booth]

Hi Eamonn,

It seems there is an omission in the update script, so it could well be
that you are missing bowtie2 and you just have bowtie on there.  Please
try:

sudo apt-get install bowtie2 bowtie2-examples

Hopefully this will be enough to get Galaxy working, but please be aware
that the Galaxy configuration is badly in need of maintenance and it may
still not work.  If so, please send the full error message and I'll see
what I can do.

Cheers,

TIM

On Tue, 2013-05-07 at 15:07 +0100, Mallon, Eamonn B. (Dr.) wrote:
> Hi
> I've just installed biolinux 7. I tried to run top hat through galaxy
> and I keep getting an error. It seems to be because bowtie2 doesn't
> exist. Has  anyone had a similar experience. Any tips?
> 
> 
> Eamonn
> 
> 
> 
> 
> Dr Eamonn Mallon
> Lecturer in Evolutionary Biology
> Adrian 220
> Biology Department
> University of Leicester
> 
> 
> http://www2.le.ac.uk/departments/biology/people/mallon
> 
> 

-- 
Tim Booth <tbooth at ceh.ac.uk>
NERC Environmental Bioinformatics Centre 

Centre for Ecology and Hydrology
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Wallingford, England
OX10 8BB 

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