Half re-oxygenize so I can build
Add time varying case parsing and unit tests
Start modifying package to use new time-varying params
Add time varying case parsing and unit tests
Start modifying package to use new time-varying params
change_tv function

Partially tested, works with cod and the simple example.
Should test with all the models.
Also not sure why the env link for the q paramater is changed by a factor of 10 in the report.sso
Merge branch 'param-cases' of github.com:seananderson/ss3sim into param-cases

Conflicts:
	R/run_ss3sim.r
	R/ss3sim_base.r
	inst/extdata/time-varying-case-tests/X0-cod.txt
	inst/tests/test-cases.r
Update time varying run_ss3sim example case files

Updated for change_tv()
Update wrapper functions for change_tv
Delete create_dirs.r; not being used
Update case-parsing for new change_tv name
Update example cases for change_tv name
Re-oxygenize
Fix bug in case parsing; too many brackets
Change S0 example case file to match .ctl
Add stop() check and fix parameter order bug

env.name, env.lab, and env.parnum were not in the same order when 3
test case parameters were used for change_tv. I have now used sort()
instead of order() to ensure these are in the same order. This fixes a
bug when running the cod example.
Remove time-varying functions replaced by change_tv
Update vignette to use native ggplot2 code
Corrections to pass R CMD check
Temporary file rename