Changed the documentation.

We have fixed the admin issues or at least some of them. The main ones
we have fixed is the tabbing, we have fixed some of the pop up hovers,
we have also changed the footer text tab to misc and allow you to turn
off the twitter boostrap admin theme.

We have also fixed the issue with checkboxes.
Fixed pop over issues.
Fixes and Documentation.

There have been wide amount of fixes including featured images, search
page layouts, general layouts, warning messages to help the new user of
the theme out and so on.

There have been Aisisi Core fixes to the loop, including the thumbnails,
warning messages and other general fixes.
removed some files
All Crucial Bugs are fixed.

There is new documentation concerning the Helper class in the admin
panel package which seperate out some commonly used functions.

We have fixed a lot of critical bugs such a template layout, featured
images, admin panel layout, admin messages and so on.
Fixed Admin Styles. 

Added specific bootstrap styles to the global admin
for messages
Fixed layout issues
Minor layout changes
Slight fix for when the otions pages has &settings-updated=true
Added thickbox for the jumbotron.
Cleaned up the short codes

All Shortcodes have been "modularized" that is they have been seperated,
documented and cleaned up. We have done the same with the java script
files.

We have also redone the short code popup, made it so that post specific
short codes only show up on posts and page specific on pages.

Made minor layout changes, including the mini feed notice.

Added a new pages icon for the pages short code, also updated all
documentation.
Fixed Image ShortCode issues
Made small fixed to the short codes
Slight admin menu, twitter bootstrap fixes.
Removed Twitter bootstrap support from the admin panel.
removed options
Restructured.

This commit restructures the project to follow the inplace standards of
project setup. 

This commit also cleans up some of the js.
Slight changes
Minor fixes
Styled the footer, added links