Ready, Robert F Jr wrote:
Greetings,
I am wondering if there is a way to directly access data sets created and stored on Galaxy. A >50Gb set of raw sequencing results was uploaded via FTP, and is currently being groomed and clipped. Following the clipping, we would like to download a copy to a local cluster for analysis with tools not available on Galaxy.
The only way I can find to do this is to download via the web interface to a local computer, then copy the data to the cluster. I'd rather not move the data twice if I can help it. Is there a way that I can access Galaxy datasets via the command line on our cluster, perhaps making the data available via FTP, so that I can directly download it to the place it needs to be?
Hi Bob, If the dataset is public, you can fetch it using wget or curl. The link to download can be obtained by right clicking the floppy disk icon inside a history item and choosing "Copy Link Address." Once you have the link: % wget '<link>' or % curl -O '<link>' The quotes aren't strictly necessary but will prevent the shell from evaluating the '?' character in the link. --nate
Thank you,
Bob
------------------------------------------ Robert Ready Undergraduate Research Assistant Logsdon Lab Department of Biology University of Iowa
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