--list enables people to list content of their modules.
Indentation makes easier visual recognition of the
content.

--clean forces hdlmake to remove modules fetched
from repositories. All unneeded folders are removed
either.

There was a mess made when remote synthesis
data were specified as hdlmake's run arguments.
Makefile was incorrect and remote synthesis was
impossible.

Hdlmake will now produce makefiles that have
correct dependencies for .sv and .v files.
vcom_opt variable from manifests will be taken
into account when looking for files from
`include clauses