Information for UTGB Developers

Mailing List

Resources

Source Codes

  • 2009 Nov 24 We migrated the source code repository from Subversion to Mercurial (hg)

(to be written)

UTGB Components

UTGB Core

  • Core library of the UTGB, which includes:
    • Portable Web Server (Embedded Tomcat)
    • Embedded SQLite database
    • Smart Data Binding !XML/JSON/Relational DB data to Java Class Object Binding Utility (BeanUtil)
    • Client-side Graphical User Interface for genome tracks implemented with GWT (Google Web Toolkit).
    • etc.

UTGB Shell

UTGB Widgets

  • UTGB's User Interface Package

How to update this documentation?

In the utgb source folder, type: 

> mvn site:run

if you have an installation of Maven in your PC, or 

> utgb maven site:run

if you have an utgb-shell installed.

Then, open http://localhost:8080/ to see this documentation on the local machine. Updates to the src/site/aqua/**/*.aqua files will be reflected after reloading the page in the browser. If you have to add some files to the page (image, attachments, etc.), put these files to the src/site/resources folder. Until the server will be restarted, these new files are not visible from the localhost:8080, so stop the Jetty server with Ctrl+C, and rerun the site:run command.

Updates of the latest versions of these wiki document files are daily checked, and this site http://utgenome.org/ will be automatically updated via the Hudson continuous integration server (http://utgenome.org/hudson ).

Aqua Wiki Syntax

Wiki Grammar

wiki source 

http://www.xerial.org/ 

[http://www.xerial.org/ hyper link with a page name]

[Index] wiki link
= Heading1
== Heading2
=== Heading3
* item1
** item2
*** item3

The above wiki text will be displayed as follows:

result

http://www.xerial.org/

hyper link with a page name

Index wiki link

Heading1

Heading2

Heading3

  • item1
    • item2
      • item3

Text Decoration

wiki source 

{b|bold text}    bold text
{i|italic text}  italic text

result

bold text bold text

italic text italic text

Image

  • image files(*.gif, *.png, *.jpg, etc.) are automatically displayed as images.

sample

wiki source 

[clip/tooth.gif]

result

clip/tooth.gif

Program Codes

wiki source 

<code>
 std:cout << "Hello World!" << std:endl;
</code>

result 

std:cout << "Hello World!" << std:endl;

Embedded HTML

wiki source 

<html>
  <font color="blue">This is HTML message.</font>
</html>

result

This is HTML message.

Set the page title

wiki source 

@title("Top Page")