Dear Andreas, Sorry for late response to your post and confusion with the updater. For technical reasons (Windows does not like names containing "update" :)), the updater was renamed into ccp4um (ccp4 update manager) and is found in $CCP4/bin.
I hope this helps, Eugene Dear CCP4 maintainers, I've come to appreciate the CCP4 update functionality, which, in our multiuser network (RHEL 6.2), I used to invoke by calling $CCP4/bin/update. Update 012 removed that script with no immediately obvious replacement. Was that on purpose? Is there a way of updating CCP4 from the command line without calling CCP4i? Thanks Andreas (from update.log: [Thu Jan 3 2013 11:00:21] Ready to make changes --- applying update 6.3.0-012 --- update header read --- creating restore package, please wait ... --- done ... file '/csb/soft/Linux64/share/ccp4-6.3.0/bin/update' removed ... file '/csb/soft/Linux64/share/ccp4-6.3.0/lib_exec/update' removed ... file '/csb/soft/Linux64/share/ccp4-6.3.0/lib_exec/_update' removed ... directory '/csb/soft/Linux64/share/ccp4-6.3.0/lib_exec' removed some more blah blah) -- Andreas Förster, Research Associate Paul Freemont & Xiaodong Zhang Labs Department of Biochemistry, Imperial College London -- Scanned by iCritical.