NOTE: We are working on migrating this site away from MediaWiki, so editing pages will be disabled for now.
Community Annotation System
From GMOD
(Redirected from Community annotation system)
This is placeholder page for the community annotation system information page. The live version of the CAS is running at http://cas.gmod.org/
You can download a copy of the currently running annoation server from here: http://www.gmod.org/live_annotation_server.tar.bz2 (it's big: 1.3GB). Be warned however that this virtual appliance is still quite rough.
Items that are working:
- A recent (pre-1.69) instance of GBrowse, with popup balloons enabled, that provide:
- A gene popup balloon that gives an 'Edit in the wiki' option
- An overview selection balloon that gives an 'Edit in Apollo' option
- A CGI that takes a gene name and copies name, description and synonym data from Chado to the MediaWiki database and then redirects to the newly created page.
- A CGI that takes a chromosomal range and creates GAME-XML and jnlp files and a link to download and run Apollo WebStart.
Items that need to be addressed soon are:
- Make networking generic again (currently it is hard coded to run at CSHL). This should be pretty easy (writing a bash script similar to what Eric wrote for the original Modware VM).
- Address the hard coding of stuff in the Chado -> Mediawiki and Mediawiki -> Chado scripts.
Hook up the cgi for generating GameXML from GBrowse (so that the click to edit with Apollo will work).DONE!- Documentation, Documentation, Documentation!
For more information or help, send email to the GMOD Help Desk at help@gmod.org.