Question: Interactive Environments on Galaxy: data import/export with Galaxy history
1
gravatar for inutano
3 months ago by
inutano10
Tokyo
inutano10 wrote:

I'm using the Jupyter notebook integration in the Galaxy main server, and had an issue on importing/exporting my data with galaxy history. In python2/3 kernel, it is possible to import data from the galaxy history by get() function, and export the file created in Jupyter by put() as described here: https://github.com/bgruening/galaxy-ipython (thanks Björn!)

My question is: Is there a way to get/put data between other type of kernels like R,Julia,bash and the galaxy history? I found I could read the file from the history by specifying the data number in a history as a file name, but couldn't find an easy way to send files back to the history. Currently I'm changing the kernel to python and use put() function, but wondering if I'm missing a better way.

I'm also wondering if there's a document of interactive environments for users, not for admins.

Thanks! Taz

ADD COMMENTlink modified 12 weeks ago by Jennifer Hillman Jackson25k • written 3 months ago by inutano10
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