Add options to turn parts of analysis off
Add options to turn parts of analysis off

Command line flag '-o' can be used to run
single part of analysis, excluding others.

Multiple '-o' flags can be defined to run
more than one part of analysis.

Command line flag '-x' can be used to
exclude single part of analysis, running
all the others.

Multiple '-x' flags can be defined to
exclude more than one part of analysis.

Signed-off-by: Jussi Auvinen <16b8c81f9479dec4f5eedf7ae5a2413c6a10bc13@phy.duke.edu>

jauvinen/hybrid-model-analysis