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http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl Datamonkey Server >> Datamonkey feedback >> server working? http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl?num=1104917847 Message started by John Bishop on Jan 5^th, 2005 at 1:37am

Title: server working?
Post by John Bishop on Jan 5^th, 2005 at 1:37am

Hi Sergei
Is something wrong with the datamonkey cluster? I started running model selection step about 20 hrs ago (about 2 am pacific time, jan. 4) and it never finished, even though the cluster load is low.

Another question: can I kill an analysis once its started? Does closing the model selection window kill that process?
Thanks!
John

Title: Re: server working?
Post by Sergei on Jan 5^th, 2005 at 10:34am

Dear John,

Something has indeed gone wrong with the server. I restarted job queues, so your analyses should have finished. I am not in San Diego at the moment, but when I get back, I'll check to see what caused the problem. In the meantime, the cluster should run fine.

There is no way to cancel a job from the web (once it goes in the queue, it cannot be removed). I might change that later, but it's a bit tedious to implement (because you don't want people to be able to cancel others' jobs essentially).

Thanks for bringing my attention to the problem.

Sergei

Title: Re: REL server working?
Post by Amanda Castillo-Cobian on Feb 24^th, 2005 at 9:09am

Hi Sergei,
my question is about the availability of the REL analysis, it seems that I can´t access the Integrative selection test (which needs SLAC, FEL and REL) tests. I can get into hte FEL analysis. Is there something wrong with the server?
Thanks,
Amanda

Title: Re: server working?
Post by Sergei on Feb 24^th, 2005 at 1:24pm

Dear Amanda,

If your alignment has more than 25 sequences you won't be given the option to run REL (due to our need to limit job-run time; a REL analysis with many more sequences can tie up the cluster for several hours). Similarly, FEL analyses are available for alignments with <=50 sequences.

You can always execute REL-like analyses by downloading HyPhy and running them on your own computer (Standard Analyses->CodonRateAnalyses->dNdSRateAnalysis.bf).

HTH,
Sergei