Enhanced figure
This tab provides a preview of your enhanced figure with standard
buttons and any scripts that you have created. When you add scripts
using the "button scripts", "checkbox scripts" or "radiobutton scripts" tabs, the contents of this tab will be automatically
updated so that you can test your new scripts before saving.
Up to four additional scripts activated by buttons may be provided here.
In each case provide the script to run when the button is clicked.
Please also supply a brief caption describing the result of clicking
the button.
Button (a)
Button (b)
Button (c)
Button (d)
Up to four additional checkbox scripts may be provided here. Each will be
associated with a selection box on the interactive page. In each case
provide the script to run when the box is checked, and the script to run
when it is unchecked. usually these will be inverse operations. Please also
supply a brief caption for each checkbox.
Checkbox script 1
Checkbox script 2
Checkbox script 3
Checkbox script 4
One or two groups of radio-buttons may be provided here. Each will be
associated with a set of mutually exclusive scripts on the interactive page.
In each case provide the script to run when the button is selected, and
a brief legend displayed for each button.
Group 1
Group 2
Scratch workspace
You may use this page to edit and test sample scripts, to store backup scripts etc. Anything you write here will not be written to the enhanced figure page.
Creating an enhanced figure
- Wait for the applet and CIF to load. The applet itself is over 1 MB in
size (but may already by cached by your browser).
- Manipulate the image as required using the mouse and right-button menu
in the applet window, as well as the utility options provided under
various tabs in this panel.
- Return as required to perform further edits.
- Click on the button "Save current view as figure",
after slecting the appropriate figure number from the adjacent menu,
to create your enhanced figure and a static image of the
initial view that will be printed in the PDF edition of the journal.
- You may supply additional scripts that a reader can activate through
buttons, checkboxes or radio buttons. A tab is provided for each
class of interactive script. It is possible to manipulate the main
image and import the result as a complete script by selecting the
"import view" buttons on these tabs.
- IMPORTANT: If you have changed the view of the model in the
main applet window (e.g. to generate a new interactive
script) but do not want to save this as the default figure,
use the button "Save updates to scripts only".
- Note that changes to the graphics state within Jmol may not be
communicated back to the toolkit interface, so that checkboxes,
radio buttons etc. may become unsynchronised with the current view.
You should bear in mind that this is an inherent difficulty with
web applications of this type. You will need to take care to minimize
such difficulties in creating your own scripts for your enhanced
figure.
- The Jmol console (accessed from the right-button menu in the applet
window) is a useful tool for advanced users to debug and enhance the
model representation.
- The Jmol home page is at www.jmol.org and extensive online
documentation of the Jmol scripting language is at
http://chemapps.stolaf.edu/jmol/docs/?ver=11.6.
Documentation
A manual
for authors is available in PDF format.
Feedback
This is a beta implementation of the toolkit. We welcome suggestions
for improvements or enhancements, and reports of bugs or major
shortcomings. We also welcome your general comments on how useful and
usable you find this utility. Please write to us at jtkt@iucr.org with your comments. It
will be helpful to us in assessing the performance of the toolkit if
you can report the browser and operating system that you are using.
Thank you.