Question: CV error in admixture and submiting the job on the cluster
gravatar for dirranrak
4.4 years ago by
United States
dirranrak20 wrote:

Hi all,

I am trying to estimate the lowest CV by using what is in page 4 of the manual. It is working well when I use the script on my local computer. But when I try to submit a job on the cluster, the cluster accepts only the very basic script which "./admixture file K" however, it does not accept the for statement used in the script for getting the cv error for each k which is "for K in 1 2 3 4 5; do ./admixture --cv file $K | tee log${K}.out; done". Does anyone have an idea on how I can modify the script or the way to submit the job on the cluster?

Thank you

ADD COMMENTlink written 4.4 years ago by dirranrak20

You don't give enough details for people to help you. First, how to submit a job to a compute cluster depends on the job scheduling system used, e.g. is it LSF, PBS, Maui... . Second tell what you've been doing and what error message you got. Anyway, this is not a bioinformatics question per se and is probably better suited to StackOverflow.

ADD REPLYlink written 4.4 years ago by Jean-Karim Heriche23k

Thank you Jean-Karim Heriche, the cluster itself solved the problem, I did not do something wrong apparently. Might be something wrong within the system. Thank you very much

ADD REPLYlink written 4.4 years ago by dirranrak20
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