Index

A

average_monthly_pool_to_yearly() (in module util.output)

B

BadInputFilesValueError BaseDriver (class in drivers.BaseDriver) boxplot_by_pft() (in module util.output)

boxplot_monthlies() (in module util.output) build_full_datetimeindex() (in module util.output) build_param_lookup() (in module util.param)

C

calc_combined_score() (in module SA_post_hoc_analysis) calc_correlation() (in module SA_post_hoc_analysis) calc_metrics() (in module SA_post_hoc_analysis) check_files() (in module util.output) clean() (drivers.BaseDriver.BaseDriver method) (drivers.MadsTEMDriver.MadsTEMDriver method) (drivers.Sensitivity.Sensitivity method) climate_gap_count_plot() (in module util.input) climate_ts_plot() (in module util.input) cmdline_define() (in module util.input) (in module util.param) cmdline_parse() (in module util.param) cmtdatablock2dict() (in module util.param) collate_results() (drivers.Sensitivity.Sensitivity method) comment_splitter() (in module util.param)

compare_CMTs() (in module util.param) converter() (in module util.param) core_setup() (drivers.Sensitivity.Sensitivity method) crop_attr_string() (in module util.input) crop_file() (in module util.input) crop_wrapper() (in module util.input) cropper() (in module util.input) csv2fwt_v1() (in module util.param) csv_v0_find_section_starts() (in module util.param) csv_v0_get_pftnames() (in module util.param) csv_v0_get_section() (in module util.param) csv_v0_specification() (in module util.param) csv_v1_find_section_indices() (in module util.param) csv_v1_read_section() (in module util.param) csv_v1_specification() (in module util.param)

D

deduce_target_type() (in module drivers.BaseDriver) design_experiment() (drivers.Sensitivity.Sensitivity method) detect_block_with_pft_info() (in module util.param) drivers.BaseDriver module

drivers.MadsTEMDriver module drivers.Sensitivity module

E

enforce_initvegc_split() (in module util.param) eq_quality() (in module util.metrics)

equilibrium_check() (in module SA_post_hoc_analysis) error_exit() (in module util.param) extract_data_for_sensitivity_analysis() (drivers.Sensitivity.Sensitivity method)

F

find_cmt_start_idx() (in module util.param) first_steps_sensitivity_analysis() (drivers.Sensitivity.Sensitivity method) format_CMTdatadict() (in module util.param) format_section_csv_v0() (in module util.param)

fromfilename() (drivers.BaseDriver.BaseDriver class method) (drivers.MadsTEMDriver.MadsTEMDriver class method) (drivers.Sensitivity.Sensitivity class method) fwt2csv_v1() (in module util.param)

G

gather_model_outputs() (drivers.MadsTEMDriver.MadsTEMDriver method) generate_ca_config() (in module SA_post_hoc_analysis) generate_lhc() (in module drivers.Sensitivity) generate_reference_order() (in module util.param) generate_uniform() (in module drivers.Sensitivity) get_available_CMTs() (in module util.param) get_CMT_datablock() (in module util.param)

get_CMTs_in_file() (in module util.param) get_datablock_pftkeys() (in module util.param) get_initial_params_dir() (drivers.Sensitivity.Sensitivity method) get_last_n_eq() (in module util.output) get_sensitivity_csvs() (drivers.Sensitivity.Sensitivity method) get_start_end() (in module util.output) get_target_ncname() (in module drivers.BaseDriver) get_value() (util.param.ParamUtilSpeedHelper method)

I

info() (drivers.Sensitivity.Sensitivity method) is_CMT_divider_line() (in module util.param)

isCMTkey() (in module util.param) isParamFile() (in module util.param)

K

keyFnum() (in module util.param)

L

list_non_pft_params() (util.param.ParamUtilSpeedHelper method) list_params() (util.param.ParamUtilSpeedHelper method) load() (in module SA_post_hoc_analysis) load_experiment() (drivers.Sensitivity.Sensitivity method) load_observations() (drivers.Sensitivity.Sensitivity method)

load_target_data() (drivers.BaseDriver.BaseDriver method) (drivers.MadsTEMDriver.MadsTEMDriver method) (drivers.Sensitivity.Sensitivity method) load_trsc_dataframe() (in module util.output) log_wrapper() (in module drivers.Sensitivity)

M

MadsTEMDriver (class in drivers.MadsTEMDriver) make_col_name() (in module drivers.Sensitivity) make_cool_plot_2() (drivers.Sensitivity.Sensitivity method) mask_by_cmt() (in module util.output) mask_by_failed_run_status() (in module util.output) MissingInputFilesValueError mkdir_p() (in module util.input) modeled_vec() (drivers.MadsTEMDriver.MadsTEMDriver method) module drivers.BaseDriver drivers.MadsTEMDriver drivers.Sensitivity SA_post_hoc_analysis util.input util.metrics util.output util.param

MustSupplyPixelCoordsError

N

n_top_runs() (in module SA_post_hoc_analysis)

nitrogen_check() (in module SA_post_hoc_analysis)

O

observed_vec() (drivers.MadsTEMDriver.MadsTEMDriver method)

P

params_from_seed() (in module drivers.Sensitivity) params_vec() (drivers.MadsTEMDriver.MadsTEMDriver method) ParamUtilSpeedHelper (class in util.param) parse_header_line() (in module util.param) plot_basic_timeseries() (in module util.output) plot_boxplot() (in module SA_post_hoc_analysis) plot_corr_heatmap() (in module SA_post_hoc_analysis) plot_equilibrium_metrics_boxplot() (in module SA_post_hoc_analysis) plot_equilibrium_metrics_scatter() (in module SA_post_hoc_analysis) plot_equilibrium_relationships() (in module SA_post_hoc_analysis) plot_fronts() (in module util.output) plot_inputs() (in module util.output) plot_match() (in module SA_post_hoc_analysis) plot_optimization_fit() (in module util.metrics)

plot_output_scatter() (in module SA_post_hoc_analysis) plot_pft_matrix() (in module SA_post_hoc_analysis) plot_r2_rmse() (in module SA_post_hoc_analysis) plot_relationships() (in module SA_post_hoc_analysis) plot_sensitivity_matrix() (drivers.Sensitivity.Sensitivity method) plot_soil_layers() (in module util.output) plot_soil_layers2() (in module util.output) plot_spaghetti() (in module SA_post_hoc_analysis) plot_spatial_summary_timeseries() (in module util.output) post_hoc_build_all() (drivers.Sensitivity.Sensitivity method) prep_mads_distributions() (in module SA_post_hoc_analysis) prep_mads_initial_guess() (in module SA_post_hoc_analysis) print_soil_table() (in module util.output) pull_data_wrapper() (in module util.output)

R

read_mads_iterationresults() (in module SA_post_hoc_analysis) read_paramfile() (in module util.param) replace_CMT_data() (in module util.param)

run() (drivers.MadsTEMDriver.MadsTEMDriver method) run_all_samples() (drivers.Sensitivity.Sensitivity method) run_model() (drivers.Sensitivity.Sensitivity method) run_wrapper() (drivers.MadsTEMDriver.MadsTEMDriver method)

S

SA_post_hoc_analysis module save_experiment() (drivers.Sensitivity.Sensitivity method) Sensitivity (class in drivers.Sensitivity) set_params_from_seed() (drivers.MadsTEMDriver.MadsTEMDriver method) set_seed_path() (drivers.BaseDriver.BaseDriver method) (drivers.MadsTEMDriver.MadsTEMDriver method) (drivers.Sensitivity.Sensitivity method) set_work_dir() (drivers.BaseDriver.BaseDriver method) (drivers.MadsTEMDriver.MadsTEMDriver method) (drivers.Sensitivity.Sensitivity method) setup_multi() (drivers.Sensitivity.Sensitivity method) setup_outputs() (drivers.BaseDriver.BaseDriver method) (drivers.MadsTEMDriver.MadsTEMDriver method) (drivers.Sensitivity.Sensitivity method)

setup_run_dir() (drivers.MadsTEMDriver.MadsTEMDriver method) smart_format() (in module util.param) ssrf_summary2csv() (drivers.Sensitivity.Sensitivity method) ssrf_targets2csv() (drivers.Sensitivity.Sensitivity method) standardize_pftnames() (in module util.param) stitch_stages() (in module util.output) sum_across_compartments() (in module util.output) sum_across_layers() (in module util.output) sum_across_pfts() (in module util.output) sum_monthly_flux_to_yearly() (in module util.output) summarize_ssrf() (drivers.Sensitivity.Sensitivity method)

T

tunnel_fast() (in module util.input)

U

update_inplace() (in module util.param) update_params() (drivers.MadsTEMDriver.MadsTEMDriver method) util.input module util.metrics module

util.output module util.param module

V

verify_input_files() (in module util.input)

W

which_file() (in module util.param)

workhorse_spatial_summary_plot() (in module util.output) write_params2rundir() (drivers.MadsTEMDriver.MadsTEMDriver method)