Thank you for the reply, James; it clarifies the issue.

Using 'apt-get upgrade' applied the package upgrades without causing
Apache to shutdown uncleanly, and the libapache2-mod-php5 package was
unaffected, so Apache restarted without issue. All is well.

Perhaps this is a question is more appropriate for another venue, but is
there any means by which to execute 'apt-get dist-upgrade' or 'apt-get
upgrade', on the command-line, without updating every package on the
system (excepting those that have been kept-back, of course). (I ask
because when I reported this issue, I was using Webmin to apply the
package upgrades. It seems that the problem is with Webmin's package
upgrade implementation, so any insight offered here may be useful to the
Webmin developer[s].)

It appears that the Ubuntu Update Manager supports this behavior; it
enables the user to un-check the boxes next to individual updates. At
the same time, those selections do not persist once the Update Manager
has been closed (which is the desired behavior). So, how does the Update
Manager achieve this? Does it temporarily keep-back the unchecked
packages, until the application is closed, and then remove the temporary
holds? Or is there some lesser-known argument to 'apt-get' that allows
one to specify the packages to be upgraded, explicitly?

Thanks again.

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https://bugs.launchpad.net/bugs/969426

Title:
  Apache fails to shutdown cleanly during update and removes libapache2
  -mod-php5 in the process, causing service restart to fail due to
  syntax errors in configuration

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