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Most of these schemas are only available in RNC (RelaxNG, Compact) format.
libxml (and therefor PHP) only supports RelaxNG - the XML version.
To update these, you will need a conversion utility, like trang (http://www.thaiopensource.com/relaxng/trang.html).
clockwerx@clockwerx-desktop:~/trang$ java -jar trang.jar -I rnc -O rng http://atompub.org/2005/08/17/atom.rnc atom.rng