On 11/29/2012 11:09 PM, Fenglou Mao wrote:
> When I use an old version of GATK, it failed with a report "-nt"
> option was not supported, I guess old GATK does not support
> multi-threading.
> If I use a new version of GATK, it failed with a report "-et NO_ET"
> need a key file to work since new GATK force users to report usage
> unless we obtain a key file, but it seems no place for galaxy to
> specify the key file.

We are using GATK 1.4 with success.
ftp://ftp.broadinstitute.org/pub/gsa/GenomeAnalysisTK/GenomeAnalysisTK-1.4.tar.bz2

Hope this helps,
Mauro

>
> Any help?
>
> Thanks,
> Frank
>
>
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-- 
Mauro
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