After unzipping, taring or whatever archive you used copy thepatch over the old files, replacing them.

Copy the files in your newly extracted directory (pmwik-new/wordpress-patch) over the files of your existing software installation. For example, if your existing PmWiki/Wordpress installation is in a directory called pmwiki/wordpress, then one way to copy the new files over the existing ones is to enter the command:

cp -a pmwiki-new/. pmwiki

Note that BSD systems will not have the -a option as a command-line argument for cp, but that's okay, since it's just shorthand for cp -dpR, so use that instead of -a.

On (some) FreeBSD servers and Mac OS X systems you need to use

cp -Rpv pmwiki-new/. pmwiki 

This works well on TxD shared hosting.

To copy files jgarner_* to Alias_*:

Dir.glob("jgarner_*") { |name| `cp #{name} #{name.sub(/jgarner_/, "Alias_")}`}

or

ruby -e 'Dir.glob("jgarner_*") { |name| `cp #{name} #{name.sub(/jgarner_/, "Alias_")}`}'