Hello,
I also encountered this issue with the same certificate and received the same message.
I spent about 2-3 hours trying to figure it out and finally found the following. It was likely due to some update, because this same server has 2 other domains with SSL certificates and those have never had a problem.
To fix this you'll need to manually update the vhosts files.
go to /usr/local/apache/conf.d/vhosts/
You'll have 2 files that were recently updated called:
yourdomainname.com.conf
yourdomainname.com.ssl.conf
In each of these files, anywhere you find your "/home/" directory, you need to make sure there is a leading "/". During the SSL creation, for some reason it is rewriting the home directory as "home/" instead of "/home/". So just go through and add a leading "/". There are about 3 occurrences in each file. The only reason I found this is by doing a line-by-line comparison to vhosts files for my other domains on the same server.