In particular, it is the charon profile which doesn't allow access to
the PC/SC layer and to the specific smartcard files (depending on the
vendor).

For example, with a Gemalto IDPrime .NET card, this is what I get in my
logs:

#Jun 29 08:29:46 ubuntu kernel: [  873.811807] type=1400 
audit(1435559386.465:51): apparmor="DENIED" operation="open" 
profile="/usr/lib/ipsec/charon" name="/run/shm/gemalto_idprime_sdata" pid=11356 
comm="charon" requested_mask="rwc" denied_mask="rwc" fsuid=0 ouid=0
#Jun 29 08:29:46 ubuntu kernel: [  873.817301] type=1400 
audit(1435559386.469:52): apparmor="DENIED" operation="connect" 
profile="/usr/lib/ipsec/charon" name="/run/pcscd/pcscd.comm" pid=11356 
comm="charon" requested_mask="rw" denied_mask="rw" fsuid=0 ouid=0

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https://bugs.launchpad.net/bugs/1330486

Title:
  strongSwan AppArmor profile doesn't allow smartcard configuration

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