CV error in admixture and submiting the job on the cluster
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5.0 years ago
dirranrak ▴ 20

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

Admixture Human Population Genetics CV error HPC • 1.5k views
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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.

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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

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