[server] move security/integrity hook management away from InternalSession.__init__ and to Repository.internal_{session,cnx} instead. Lets internal_cnx avoid deprecation warnings.

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etc/init.d

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etc/cubicweb.d

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etc/bash_completion.d

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usr/bin

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usr/share/doc/cubicweb-ctl

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var/log/cubicweb

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var/lib/cubicweb/backup

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var/lib/cubicweb/instances