Moves module settings to the configuration file

[rarutter]

This will allow experimenting with different module settings without needing to recompile for each change.

This would resolve issue #346

I ran the following on the master and the topic branch, then compared the output files with nccmp. There were no differences.

$ ./dvmdostem -l fatal -p 100 -e 100 -s 100 -t 115 -n 85

                Name                Units       Yearly      Monthly        Daily          PFT Compartments       Layers    Data Type     Description
                 ALD                    m            y      invalid      invalid      invalid      invalid      invalid       double     Soil active layer depth
            BURNSOIC            g/m2/time            y                   invalid      invalid      invalid      invalid       double     Burned soil C
           BURNSOILN            g/m2/time            y                   invalid      invalid      invalid      invalid       double     Burned soil N
               DEEPC                 g/m2            y                   invalid      invalid      invalid      invalid       double     Amorphous SOM C
                 GPP            g/m2/time            y            m      invalid                                invalid       double     GPP
               MINEC                 g/m2            y                   invalid      invalid      invalid      invalid       double     Mineral SOM C
                ORGN                 g/m2            y                   invalid      invalid      invalid                    double     Total soil organic N
               SHLWC                 g/m2            y                   invalid      invalid      invalid      invalid       double     Fibrous SOM C
                VEGC                 g/m2            y                   invalid                                invalid       double     Total veg. biomass C
                VEGN                 g/m2            y                   invalid                                invalid       double     Total veg. biomass N
                 YSD                Years            y      invalid      invalid      invalid      invalid      invalid          int     Years since last disturbance

[rarutter]

Setup for this test run was manual since the testing files have not been merged to master yet.
result_master_vs_modules.pdf