[Jalview-discuss] help - one file keeps saying queuing or job error

[Geoff Barton]

That is a lot of sequences, how long are they?

Geoff.


On 06/03/2012 16:19, Jessie Richer wrote:
> Hi
> Its DNA sequences and not sure exactly how many.. I'd guess around 700
>
> I started it this morning at 8 am. It is now 1120 and it still says 
> queuing.
> Sent on the TELUS Mobility network with BlackBerry
> ------------------------------------------------------------------------
> *From: *Geoff Barton <gjbarton at dundee.ac.uk>
> *Date: *Tue, 6 Mar 2012 16:05:02 +0000
> *To: *Jessie Richer<j.richer3 at mycanadore.ca>
> *Subject: *Re: [Jalview-discuss] help - one file keeps saying queuing 
> or job error
>
> This is odd, the server seems fine and gives almost instantaneous 
> turn-around at the moment.
>
> Are you sending very large problems?
>
> How many sequences are you trying to align, how long are they and are 
> they DNA/RNA or Protein?
>
> Geoff.
>
> On 06/03/2012 13:00, Jessie Richer wrote:
>>
>> Hello.
>>
>> I have been trying to run a file to align the sequences using clustal 
>> w/ defaults. I get one of two things, either it stays on 'queuing' 
>> for days, or its starts 'running' and then says job error.
>>
>> my file size is 1007 KB
>>
>> I cant increase the virtual memory since I am using my universities 
>> computers and do not have permission to access the program files.
>>
>> All my sequences are in Capital letters (my first file has small 
>> letters in some sequences so i fixed this but am still having the 
>> same problem)
>>
>> Any suggestions? I have run some files that were larger without any 
>> problem - minus they took 5-6 hours to complete.
>>
>> If i need to send the file, it has to be kept confidential (as per my 
>> supervisor/professor's request since this is a research project and 
>> he has said "data is confidential")
>>
>> Jessica
>>
>>
>>
>> _______________________________________________
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>> Jalview-discuss at jalview.org
>> http://www.compbio.dundee.ac.uk/mailman/listinfo/jalview-discuss
>
> -- 
> Geoff Barton, Professor of Bioinformatics,  College of Life Sciences
> University of Dundee, Scotland, UK.g.j.barton at dundee.ac.uk
> Tel:+44 1382 385860/388731 (Fax:385764)www.compbio.dundee.ac.uk
>
> The University of Dundee is registered Scottish charity: No.SC015096

-- 
Geoff Barton, Professor of Bioinformatics,  College of Life Sciences
University of Dundee, Scotland, UK.          g.j.barton at dundee.ac.uk
Tel:+44 1382 385860/388731 (Fax:385764)     www.compbio.dundee.ac.uk

The University of Dundee is registered Scottish charity: No.SC015096

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