You need to link/copy the jsmol directory to the jupyter nbextensions 
folder. In Sage thats at SAGE_LOCAL/share/jupyter/nbextensions/jsmol



On Friday, February 19, 2016 at 3:45:30 PM UTC+1, Stephan Sahm wrote:
>
> Dear all,
>
> I just started to use sage and now set up a system wide jupyter kernel as 
> suggested in this thread.
> I do not need to symlink `$SAGE_LOCAL/etc/jupyter but mathjax` works out 
> of the box
>
> However, jmol does not work, neither in the notebook, nor in the qtconsole.
> (but viewer='tachyon' works) (If I start everything with `sage 
> --notebook='jupyter'` then jmol works normal)
>
> Anyone any idea what might be missing to get 3d rendering system-wide?
>
> best,
> Stephan
>
> On Friday, October 23, 2015 at 1:51:21 PM UTC+2, Jeroen Demeyer wrote:
>>
>> On 2015-10-23 10:50, Emmanuel Charpentier wrote: 
>> > Thanks ! Symlinking 
>> > $SAGE_LOCAL/share/jupyter/sagemath/jupyter/kernels/sagemath and 
>> > $SAGE_LOCAL/share/jupyter/nbextensions/* in the relevant systemwide 
>> > directory (/usr/local/share/jupyter on a Debian installation) worked as 
>> > expected. Note that I did **not** use $SAGE_LOCAL/etc, since I didn't 
>> > knew what to do with it... 
>>
>> I think mathjax in Sage will break if you don't use the configuration 
>> file in $SAGE_LOCAL/etc. 
>>
>> What you should do with "etc" is exactly the same as what you did with 
>> "share": symlink or copy the needed files and directories. 
>>
>> Jeroen. 
>>
>>

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