This document describes the recommended development cycle for SegAnnDB code.
Check out a read-write copy of the code from SVN to your local computer.
svn checkout svn://scm.gforge.inria.fr/svnroot/breakpoints/webapp/pyramid SegAnnDB
To support the database and uploaded files, you need to create the following directories:
SegAnnDB/db: BerkeleyDB files. SegAnnDB/chromlength: chromInfo.txt.gz files renamed to e.g. hg19.txt.gz. SegAnnDB/secret: uploaded profiles and scatterplots.
Then set FILE_PREFIX=”.” in plotter/db.py. Then run
bash recover-restart.sh
to start a development server which uses the development.ini file. Make changes to the source code and then change FILE_PREFIX=”/var/www” and then commit changes.
On the production server, we configured apache2 using the sample apache.config file, which points to the production.ini file. To update the code on the production server we run
bash server-update.sh
Which checks out the most recent version of the code from SVN, then installs it, and restarts the web server. There are some other server-*.sh scripts that can be run as well.
WARNING: server-reinitialize.sh and reinitialize.sh will delete all data in BerkeleyDB.