This happened to me recently when testing a 12.1.0.2 upgrade
As I know for sure this machine's inventory is good I decided to investigate.
Metalink Note 1292347.1 is a useful reference
It turns out the inventory oraInst.loc file used to be able to get away with only inst_loc line , now you need inst_group as well.
on Linux this is usually oinstall.
So oraInst.loc should look like
inventory_loc=/u01/oracle/inventory
inst_group=oinstall
Once that is done re-run the installer and it should now start up OK.
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