Odd modules missing errors with after 7.5 core update

I have updated to drupal 7.5. It’s the first update to drupal core on this site in a year or so (it was probably on 7.28 before). The update completed ok, but what was odd is that when I visited update.php, it listed a raft of ‘missing’ modules like this:

User warning: The following module is missing from the file system: content. In order to fix this, put the module back in its original location. For more information, see the documentation page. in _drupal_trigger_error_with_delayed_logging() (line 1128 of H:roothomesiteloc001wwwmysited7includesbootstrap.inc).

User warning: The following module is missing from the file system: dhtml_menu. In order to fix this, put the module back in its original location. For more information, see the documentation page. in _drupal_trigger_error_with_delayed_logging() (line 1128 of H:roothomesiteloc001wwwmysited7includesbootstrap.inc).

There are about twenty of these. They are modules that I used in this site a while ago. They are not present in the modules list. I am not sure what to do about them? There are no folders for the listed modules in the /all/modules dir

How do I clean this up? The ‘missing’ modules are not in the copy of the website that I made before the 7.5 core update. It may be that they were ‘lost’ a year or so ago when I moved hosts? I don’t need the modules at this point but I would like to clean up the system.

Another module IS listed in the site’s module listing and it IS in the all/modules dir:

Node Privacy By Role
6.x-1.6 Provides node level access control based on role membership.
This version is not compatible with Drupal 7.x and should be replaced.

To clear that up do I just delete the folder allmodulesnode_privacy_byrole ?

Drupal version: 


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