Re: [gentoo-science] sage-notebook & jmol

[François Bissey]

> Hello,
>
> I believe Jmol is the default Sage 3D viewer. However, it seems to be
> broken from the notebook. A
>
> 	sphere()
>
> from the sage prompt works as expected but not so from the notebook.
> Here I get that the problem is in locating the JmolApplet class. It
> appears that sagenb is coded to look in the data directory under sagenb
> for package data, i.e. relative to the python tree in
> site-packages/sagenb/data. After opening the notebook the contents of
> the directory can be viewed by pointing one's browser to
>
> 	http://localhost:8000/java/
>
> In particular the notebook seems to look in
> site-packages/sagenb/data/jmol for the JmolApplet class data which was
> removed with the advent of the sage-on-gentoo package,
> sci-chemistry/jmol. Now here I'm able to get Jmol to work from the
> notebook if I create either of the symlinks,
>
> 	site-packages/sagenb/data/jmol ->
> /usr/share/webapps/jmol/11.6.16/htdocs
> or
> 	site-packages/sagenb/data/jmol -> /var/www/localhost/htdocs/jmol
>
> There should be a better way to do this but I'm unable to find a way to
> get the sagenb package to access external data other than through a
> symlink. If the first of the above is done then a version bump of jmol
> will require a new sage-notebook install! There is also an "appletweb"
> directory that's present under sagenb/data/jmol and I was curious as to
> whether it's needed? Is it perhaps a carry-over from the older
> Sage-provided jmol stuff?
>
Hi,

My fault completely. We noticed about a month ago that jmol was broken 
and I started to work on fixing it. I had troubles and hadn't find a good 
solution at the time.
Then I more or less forgot. You are putting it back on the top of my 
priorities here.

Francois