Fix write of inventory init files

[JessicaNeedham]

This PR fixes inventory initialization so that cohort and patch files can be written when do_inventory_out is true. After the refactor, either dbh or height needs to be negative in the cohort file, so this PR sets cohort height to -3.0 when writing the cohort file. It also changes formatting of file names (which seemed to work before but were broken by me in the last refactor I think). Not tested yet.

Collaborators:

Expectation of Answer Changes:

Should be bfb in all respects except that if do_inventory_out is true then files will be written out correctly rather than crashing the model.

Checklist

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Test Results:

Not tested