UPGRADE

Perform the following steps after updating your installation (using
git-pull or whatever).

Fetch and install webgui dependencies:

 cd ~/get-evidence
 make install

Upgrade database tables by running:

 cd ~/get-evidence
 ./upgrade.php

Check other runtime dependencies (see INSTALL; especially the note re.
multiprocessing for python < 2.6)

Run install-user.sh -- it might need to download new data files.

 (
  cd ~/get-evidence/server/script/
  source config-local.sh
  sudo -u $USER ./install-user.sh
 )

Run make daily -- there may be new regularly updated files the server expects.

 (
  cd ~/get-evidence/
  make daily
 )

Replace back-end server if necessary (renamed to be "genome-analyzer" using 
genome_analyzer.py instead of "trait-o-matic-server"):

 cd ~/get-evidence/server/script
 sudo su
 /etc/init.d/trait-o-matic stop
 rm /etc/init.d/trait-o-matic
 update-rc.d -f trait-o-matic remove
 source defaults.sh
 perl -p -e 's/%([A-Z]+)%/$ENV{$1}/g' \
   < $SOURCE/server/script/genome-analyzer.in \
   > /etc/init.d/genome-analyzer.tmp
 chmod 755 /etc/init.d/genome-analyzer.tmp
 chown 0:0 /etc/init.d/genome-analyzer.tmp
 mv /etc/init.d/genome-analyzer.tmp /etc/init.d/genome-analyzer
 update-rc.d genome-analyzer start 20 2 3 4 5 . stop 80 0 1 6 .
 exit

Restart the back-end server.

 sudo /etc/init.d/genome-analyzer restart

Try processing some data.