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A very quick howto to upgrade moodle 1.8 to moodle 1.9 (with Nwiki upgrade from 1.8 to 1.9):

# Stop you moodle 1.8 (mantainence mode)
# Copy your moodle BD (ispconfig is great for this) to a new one (here is dbmoodle19)
# cp /var/www/path2moodle18 /var/www/path2moodle19 
# cd /var/www/path2moodle19 | wget http://download.moodle.org/stable19/moodle-weekly-19.tgz
# tar xvzf moodle-weekly-19.tgz 
# cp moodle/* . -a
# rm moodle -Rf
# Review your config.php: vim /var/www/path2moodle19/config.php (dbusers | dbtables | urls | paths)
# Visit your new Moodle to start the upgrade to 1.9 process: http://www.yoursite.net/moodle19
# Follow the wizard and congratulations: your moodle is now 1.9 !!
# Download nWiki 1.9 and upload to your server: http://morfeo.upc.es/crom/mod/resource/view.php?id=268
# unzip & copy to your moodle root.
# Visit your moodle notifications page and follow the wizard.
# Congratulations your Nwiki is also updated.