├── .Rbuildignore ├── .gitignore ├── .travis.yml ├── DESCRIPTION ├── LICENSE ├── NAMESPACE ├── R ├── 01-glmtools.R ├── calib_helpers.R ├── calibrate_sim.R ├── compare_to_field.R ├── convert_sim_var.R ├── dot_compare_to_field.R ├── epi.temperature.R ├── generic_metrics.R ├── get_calib_init_validation.R ├── get_calib_periods.R ├── get_calib_setup.R ├── get_evaporation.R ├── get_hypsography.R ├── get_ice.R ├── get_nml_value.R ├── get_raw.R ├── get_surface_height.R ├── get_temp.R ├── get_var.R ├── get_wind.R ├── hypo.temperature.R ├── nc_helpers.R ├── nml.R ├── nml_helpers.R ├── plot_compare_stage.R ├── plot_meteo.R ├── plot_temp.R ├── plot_temp_compare.R ├── plot_validate_profiles.R ├── plot_var_compare.R ├── plot_var_df.R ├── plot_var_nc.R ├── print.nml.R ├── read_field_obs.R ├── read_field_stage.R ├── read_nml.R ├── resample_sim.R ├── resample_to_field.R ├── run_example_sim.R ├── set_nml.R ├── sim_metrics.R ├── sim_var_longname.R ├── sim_var_units.R ├── sim_vars.R ├── summarize_sim.R ├── time_helpers.R ├── timeseries_plots.R ├── validate_sim.R ├── whole.lake.temperature.R └── write_nml.R ├── README.Rmd ├── README.md ├── appveyor.yml ├── demo ├── 00Index └── test_glm_ice_sparkling.R ├── inst ├── CITATION └── extdata │ ├── LakeMendota_NLDAS.csv │ ├── LakeMendota_buoy_data.csv │ ├── LakeMendota_field_data.csv │ ├── LakeMendota_field_data_hours.csv │ ├── LakeMendota_iceduration_obs.csv │ ├── LakeMendota_snow_ice_obs.csv │ ├── LakeMendota_stage_USGS05428000.csv │ ├── aed2.nml │ ├── glm3.nml │ ├── glm3_uncalibrated.nml │ ├── multiple_booleans.nml │ └── output │ ├── lake.csv │ └── output.nc ├── man ├── Corner_text.Rd ├── calibrate_sim.Rd ├── compare_to_field.Rd ├── convert_sim_var.Rd ├── epi.temperature.Rd ├── get_calib_init_validation.Rd ├── get_calib_periods.Rd ├── get_calib_setup.Rd ├── get_evaporation.Rd ├── get_hypsography.Rd ├── get_ice.Rd ├── get_nml_value.Rd ├── get_raw.Rd ├── get_surface_height.Rd ├── get_temp.Rd ├── get_var.Rd ├── get_wind.Rd ├── hypo.temperature.Rd ├── plot_compare_stage.Rd ├── plot_meteo.Rd ├── plot_temp.Rd ├── plot_temp_compare.Rd ├── plot_validate_profiles.Rd ├── plot_var_compare.Rd ├── plot_var_df.Rd ├── plot_var_nc.Rd ├── read_field_obs.Rd ├── read_field_stage.Rd ├── read_nml.Rd ├── resample_sim.Rd ├── resample_to_field.Rd ├── run_example_sim.Rd ├── set_nml.Rd ├── sim_metrics.Rd ├── sim_var_longname.Rd ├── sim_var_units.Rd ├── sim_vars.Rd ├── summarize_sim.Rd ├── validate_sim.Rd ├── water.temperature.Rd ├── whole.lake.temperature.Rd └── write_nml.Rd ├── tests ├── figs │ ├── deps.txt │ └── validate-plots │ │ ├── gg-evap-plot.svg │ │ ├── gg-meteo-plot.svg │ │ ├── gg-plot-var-compare-plot.svg │ │ ├── gg-profiles-plot.svg │ │ ├── gg-totv-plot.svg │ │ └── gg-v-plot.svg ├── testthat.R └── testthat │ ├── Rplots.pdf │ ├── test-aed_parse.R │ ├── test-calibrate_sim.R │ ├── test-convert_sim_var.R │ ├── test-get_outputNC.R │ ├── test-nml.R │ ├── test-plot_compare_stage.R │ ├── test-resample_sim.R │ ├── 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