This extension is currently not actively maintained! Although it may still work, any bug reports or feature requests will more than likely be ignored.
Release status: unmaintained
|Description||Creates an image from a given GBrowse in a wiki page.|
|Author(s)||Daniel Renfro, Jim Hu (DanielRenfrotalk)|
|Latest version||0.2 (2010-07-19)|
|Example||lacZ on EcoliWiki|
What can this extension do?Edit
Displays an image of a genomic region using the <gbrowseImage> tag in the wikitext of a page. Clicking the image takes the user to the underlying GBrowse instance.
This extension takes a set of parameters wrapped in a set of <gbrowseImage> html-style tags and create a clickable picture. Most (if not all) of the parameters are named after the equivalent gbrowse_img settings for consistency. The parameters are simple key=value pairs within the <gbrowseImage> tags.
<gbrowseImage> name=NC_010473:430647..432578 source=ecoli_DH10B preset=GeneLocation </gbrowseImage>
Download a snapshot from GitHub following the download link in the infobox.
Unzip the code and place the newly created folder to your
To install this extension, add the following to LocalSettings.php:
Currently none, but it would make sense for the hard-coded settings in the script to be configured via LocalSettings.php.
Note about the script: there are some constants set (around lines 54-63) that will need changing. At EcoliWiki we show 1000bp on either side of the gene. This is set by the PADDING_LENGTH constant. It can be set to 0. There are two other constants that need changing, the URLs to gbrowse and gbrowse_img, respectively.