ModelSim vmake problem. Makefile is not properly formatted.

I'm running into an issue with generating a Makefile from ModelSim ASE 12.1

I start by running:
$ vmake > Makefile

And find that the resulting Makefile is not properly formatted. Instead of lines starting with a tab, lines start with 4 spaces.

Then when I try to run it using:
$ make -f Makefile

I get output saying
**make: Nothing to be done for `whole_library'.**

Then if I fix up the makefile I can usually get it to work. So I'm not quite sure if this is a problem with 'vmake', bash, or Linux?

Anyone know what might be causing this or how to fix it?

**Update**
I might be an idiot and didn't clean out the .dat files out of the compilation library directory first. I think that's why I got the.. "Nothing to be done for 'whole_library'" error.

In the Emacs vhdl-mode makefile generator I noticed it creates a command called 'clean' to remove the .dat files. I must need to do this first.

Sorry I'm new to this sort of thing and am trying to learn my way around.