Data available here are configured for visualization in the Integrated Genome Browser. +These data include gene annotation files and genome information for +many plant, animal, and microbial species.
+When IGB launches, it contacts a deployed copy of Quickload Main and retrieves +a file "contents.txt" that lists all genome assemblies available for +display in IGB.
++The data here are version-controlled using subversion, a centralized version-control system that +attaches versions to individual files and supports checking out parts of the repository. To browse +the subversion repository hosting these data, visit +https://svn.bioviz.org/viewvc/genomes/quickload/.
A Quickload site is a simple system of directories, sequence files, and annotation files formatted for visualization in Integrated Genome Browser. It's a convenient -way to share data sets with other labs and with the public. +way to share data sets with other labs and with the public. IGB can display the contents of +many Quickload sites at the same time. This makes it easy to compare data across experiments. +This makes IGB an "integrated" genome browser.
--This site is a checked-out copy of this subversion repository. -
-Set up a host with the Apache2 Web server. (It may work with other servers, too. We have never tested that.)
+This site is a checked-out copy of Quickload Main subversion repository, deployed in the "htdocs" directory +of the apache2 Web server. +-The Quickload data require around 60 Gb or less. +To make the Quickload data contents easy to browse, the repository also includes styling configurations using +javascript and CSS.
+ +Install svn and check out the repository with a read-only user:
`svn co --username=guest co https://svn.bioviz.org/repos/genomes/quickload`
-Place the checkedout-repository in your htdocs directory (DocumentRoot)
-Configure your Web server to allow fancy directory listings and configurations from .htaccess files residing alongside content.
-To support IGB 9.1.4 and lower, add `T_aestivum_Aug_2018.2bit` to directory `quickload/T_aestivum_Aug_2018`.
-Open Integrated Genome Browser and select Preferences from the File menu. Select the Data Sources tab. Add your new site as a new Quickload Data Source. The folder contain the file "contents.txt" is the Quickload root directory. See examples within IGB itself.
+ +Open Integrated Genome Browser and select Preferences from the File menu. Select the Data Sources tab. Add the checked-out root directory as a new Quickload Data Source. The folder contain the file "contents.txt" is the Quickload root directory. See examples within IGB itself.
+Some genome sequence files are so large that they are not version-controlled. One such file +is `T_aestivum_Aug_2018.2bit`, a wheat genome assembly sequence file. To enable IGB users to view +sequence data from this genome, add the file to directory `quickload/T_aestivum_Aug_2018`.