#16004: Update notebook to utilize pure javascript JSmol for default live 3-D
-------------------------------+--------------------------
Reporter: gutow | Owner: gutow
Type: enhancement | Status: needs_work
Priority: major | Milestone: sage-6.2
Component: notebook | Resolution:
Keywords: Jmol 3D 3-D | Merged in:
Authors: gutow | Reviewers:
Report Upstream: N/A | Work issues:
Branch: | Commit:
Dependencies: #16003 | Stopgaps:
-------------------------------+--------------------------
Old description:
> The notebook needs updates to utilize a pure javascript version of Jmol
> by default for live 3-D. This includes changes to make the notebook
> compatible with the newer jquery-1.9 (some things used in the notebook
> have been deprecated).
>
> Jmol is cross compiled to java and javascript. Because so many
> browser/OS combinations now actively try to avoid using java applets, it
> is necessary to have a pure javascript alternative. This solution
> provides all the functionality of Jmol, but as expected since javascript
> is interpreted rather than bytecode ("~3/4" of the way to compiled) the
> performance when interacting with the plot is slower.
>
> This first implementation removes the user tools that have appeared to
> the right of the 3-D plot as they need to be rewritten as well. In this
> first implementation it is not possible to choose to use the java applet
> instead.
>
> One added feature is a "load 3-D live" check box that can be used to make
> a worksheet load 3-D plots live when the worksheet is opened. For
> worksheets with a single interact or only 1-2 plots this should be OK.
>
> *This requires installation of an updated Jmol.spkg. See ticket #16003.
>
> Sorry for the github commit, but I could not get a notebook branch
> working in Sage.
> *
> https://github.com/gutow/sagenb/commit/c730aa4cf563c51e7f1f8ca92899bf515d365030
> *
> https://github.com/gutow/sagenb/commit/7ce561653aa3ffbb28eb36f487be381227018958
> *
> https://github.com/gutow/sagenb/commit/0242d2f495e4be79090e4aae83b4dade1d9a0f26
New description:
The notebook needs updates to utilize a pure javascript version of Jmol by
default for live 3-D. This includes changes to make the notebook
compatible with the newer jquery-1.9 (some things used in the notebook
have been deprecated).
Jmol is cross compiled to java and javascript. Because so many browser/OS
combinations now actively try to avoid using java applets, it is necessary
to have a pure javascript alternative. This solution provides all the
functionality of Jmol, but as expected since javascript is interpreted
rather than bytecode ("~3/4" of the way to compiled) the performance when
interacting with the plot is slower.
This first implementation removes the user tools that have appeared to the
right of the 3-D plot as they need to be rewritten as well. In this first
implementation it is not possible to choose to use the java applet
instead.
One added feature is a "load 3-D live" check box that can be used to make
a worksheet load 3-D plots live when the worksheet is opened. For
worksheets with a single interact or only 1-2 plots this should be OK.
*This requires installation of an updated Jmol.spkg. See ticket #16003.
Sorry for the github commit, but I could not get a notebook branch working
in Sage.
*
https://github.com/gutow/sagenb/commit/c730aa4cf563c51e7f1f8ca92899bf515d365030
*
https://github.com/gutow/sagenb/commit/7ce561653aa3ffbb28eb36f487be381227018958
*
https://github.com/gutow/sagenb/commit/0242d2f495e4be79090e4aae83b4dade1d9a0f26
*https://github.com/gutow/sagenb/commit/7aacbfa3957f237edbea448d492f7c2b7d34cec2
How to test:
1. Clone the git repository https://githum.com/gutow/sagenb to anywhere
convenient on your system.
2. Do the following to make sage use the new repository.
{{{
$cd SAGE_ROOT/local/lib/python/site-packages/sagenb-0.10.8.2-py2.7.egg
$mv sagenb sagenb_old
$ln -s sagenb <path to the sagenb directory inside your new repository>
}}}
In my case the symlink looks like
{{{ln -s sagenb ~/git/sagenb/sagenb }}}
--
Comment (by gutow):
I'm updating the instructions above to include a fix that leaves the
sagenb egg unchanged and allows you to work with multiple notebook
development repositories.
To answer another question above the very latest commit to the repository
does include the path fixes for jquery-ui images.
--
Ticket URL: <http://trac.sagemath.org/ticket/16004#comment:24>
Sage <http://www.sagemath.org>
Sage: Creating a Viable Open Source Alternative to Magma, Maple, Mathematica,
and MATLAB
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