Proteopedia:Cookbook

From Proteopedia

Revision as of 15:38, 11 May 2011

Rectangular Jmol Structure Applets

jslibrary describes:
For a rectangular Jmol structure applet, an array containing two elements, width and height; this is usually easiest to do using JavaScript square bracket notation for array constants, as in [400, 200], ["50%", "100%"] or [0.5, 1.0]. Proteopedia currently only accepts integers, as in this example size='[800,200]'

Quicktime .mov

<qt>file=film.mov|width=320|height=260|autoplay=true|loop=true</qt>

Shows the movie with the with a width of 320 and a height of 240 pixels that starts playing as soon as its loaded.

<qt>file=film.mov|width=320|height=240|autoplay=false|controller=true</qt>

Shows the movie with the with a width of 320 and a height of 240 pixels that does not play when loaded, but waits for the user to click on the play button.

Attribute Reference

• width=px or % (Modify the width of the object)
• height=px or a% (Modify the height of the object)
• autoplay=true/false (Start playing the file or wait at first frame, default:true)
• controller=true/false (Show the controller, default:true)
• loop=true/false (Plays again and again, default:false)

[edit]

Quiz

The special implementation of Quiz in Proteopedia includes an email feedback to the teacher. See overview at Help:Quiz and the full explanation and examples on How To Use at Help:Quiz at Wikiversity.

<quiz display=simple>
{  
|type="{}"}
Name a famous Greek philosopher. 
{ Aristotle|Plato }

{Question
|type="[]"}
+ Correct answer.
- Incorrect answer.
+ Correct answer.
- Incorrect answer.
</quiz>

Imagemaps

In the image map below, clicking on the computer screen should lead you to 2ace, the keyboard to 1rat,
and the thinking balloon to Believe It or Not!. A click on the person's head goes to the external article on Student at Wikipedia.
The (i) goes to the image info.

<imagemap>
Image:Foo.jpg|200px|picture of a foo
poly 131 45 213 41 210 110 127 109 [[2ace]]
poly 104 126 105 171 269 162 267 124 [[1rat]]
rect 15 95 94 176   [http://en.wikipedia.org/wiki/Student]
# A comment, this line is ignored
circle 57 57 20    [[Believe_It_or_Not!]]
desc bottom-left
</imagemap>

Here's a nice tool for finding the coordinates in an image.

Theoretical Models

On pages that largely or entirely concern theoretical model structures, please insert {{Theoretical_model}} in the top of the wikitext box. It will generate this banner:

Theoretical Model: The protein structure described on this page was determined theoretically, and hence should be interpreted with caution.

If a page shows largely empirical models, but also one or more theoretical models, please put Theoretical Model in the text, and/or as a caption in Jmol whenever the model is theoretical:

• The wikitext is: '''<font color='red'>Theoretical Model</font>'''
• To add the red caption to a scene, use the "labels" tab in the Scene Authoring Tools and open the "caption" section.

Policy concerning theoretical models is at Proteopedia:Policy#Theoretical_Models, where you will also find links to examples.

Anchors

Section headings automatically act as anchors, with the heading text as the "anchor_name". Links of the form #anchor_name will link to the first anchor on the page matching that "anchor_name", usually the first identical section heading.

For example, try #Quiz ( [[#Quiz]] ) and #KiNG ( [[#KiNG]] ) to jump to those sections.

Floating quote Box

There was nothing so very remarkable in that; nor did Alice think it so very much out of the way to hear the Rabbit say to itself, `Oh dear! Oh dear! I shall be late!' (when she thought it over afterwards, it occurred to her that she ought to have wondered at this, but at the time it all seemed quite natural); but when the Rabbit actually took a watch out of its waistcoat-pocket, and looked at it, and then hurried on, Alice started to her feet, for it flashed across her mind that she had never before seen a rabbit with either a waistcoat-pocket, or a watch to take out of it, and burning with curiosity, she ran across the field after it, and fortunately was just in time to see it pop down a large rabbit-hole under the hedge.

{{Quote box
 | quote  =
 | source =
 | width  =
 | align  =
}}

Link external sites from Jmol applet's CAPTION

Template:STRUCTURE 1stf

Flash

This loads a local .swf file. The interactive feature works fine. Click buttons and slide controls to try. <swf width="400" height="300">/wiki/images/8/8c/7_scrolling.swf</swf>

KiNG

To insert a KiNG (Kinemage, Next Generation) applet use this tag and provide as file the name of a Kinemage uploaded file:

<kinemage align="left" width="420" height="300" file="HbAllo.kin"/>

(KineMage currently not supported)