It's a good idea, and in some cases a requirement, to rebuild your wiki
when upgrading to a new version of ikiwiki. If you have a lot of different
wikis on a system, this can be a pain to do by hand, and it's a good idea
to automate it anyway.
This Debian package of ikiwiki supports rebuilding wikis on upgrade. It
will run ikiwiki-mass-rebuild if necessary when upgraded. The file
/etc/ikiwiki/wikilist lists the setup files of wikis to rebuild, as well
as the user who owns the wiki. Edit this file and add any wikis you
set up.
The examples directory contains the source to some example wiki setups.
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