get_rearing_survival: Get Rearing Survival Rates
In CVPIA-OSC/lateFallRunDSM: Structured Decision Fall Run Model for CVPIA

get_rearing_survival

R Documentation

Get Rearing Survival Rates

Description

Calculates the juvenile inchannel, floodplain, bypasses, and deltas rearing survival rates for a month and year of the simulation

Usage

get_rearing_survival(
  year,
  month,
  survival_adjustment,
  mode,
  avg_temp,
  avg_temp_delta,
  prob_strand_early,
  prob_strand_late,
  proportion_diverted,
  total_diverted,
  delta_proportion_diverted,
  delta_total_diverted,
  weeks_flooded,
  prop_high_predation,
  contact_points,
  delta_contact_points,
  delta_prop_high_predation,
  ..surv_juv_rear_int,
  .surv_juv_rear_contact_points,
  ..surv_juv_rear_contact_points,
  .surv_juv_rear_prop_diversions,
  ..surv_juv_rear_prop_diversions,
  .surv_juv_rear_total_diversions,
  ..surv_juv_rear_total_diversions,
  ..surv_juv_bypass_int,
  ..surv_juv_delta_int,
  .surv_juv_delta_contact_points,
  ..surv_juv_delta_contact_points,
  .surv_juv_delta_total_diverted,
  ..surv_juv_delta_total_diverted,
  .surv_juv_rear_avg_temp_thresh,
  .surv_juv_rear_high_predation,
  .surv_juv_rear_stranded,
  .surv_juv_rear_medium,
  .surv_juv_rear_large,
  .surv_juv_rear_floodplain,
  .surv_juv_bypass_avg_temp_thresh,
  .surv_juv_bypass_high_predation,
  .surv_juv_bypass_medium,
  .surv_juv_bypass_large,
  .surv_juv_bypass_floodplain,
  .surv_juv_delta_avg_temp_thresh,
  .surv_juv_delta_high_predation,
  .surv_juv_delta_prop_diverted,
  .surv_juv_delta_medium,
  .surv_juv_delta_large,
  min_survival_rate,
  stochastic
)

Arguments

`year`	The simulation year, 1-20
`month`	The simulation month, 1-8
`mode`	The mode that the model is being run in
`avg_temp`	More details at `stream_tempetature`
`avg_temp_delta`	More details at `delta_temprature`
`prob_strand_early`	More details at `prop_strand_early`
`prob_strand_late`	More details at `prop_strand_late`
`proportion_diverted`	More details at `proportion_diverted`
`total_diverted`	More details at `total_diverted`
`delta_proportion_diverted`	More details at `delta_proportion_diverted`
`delta_total_diverted`	More details at `delta_total_diverted`
`weeks_flooded`	More details at `weeks_flooded`
`prop_high_predation`	More details at `prop_high_predation`
`contact_points`	More details at `contact_points`
`delta_contact_points`	More details at `delta_contact_points`
`delta_prop_high_predation`	More details at `delta_prop_high_predation`
`..surv_juv_rear_int`	Intercept for `surv_juv_rear`
`.surv_juv_rear_contact_points`	Coefficient for `surv_juv_rear` `contact_points` variable
`..surv_juv_rear_contact_points`	Calibrated coefficient for `surv_juv_rear` `contact_points` variable
`.surv_juv_rear_prop_diversions`	Coefficient for `surv_juv_rear` `prop_diversions` variable
`..surv_juv_rear_prop_diversions`	Calibrated coefficient for `surv_juv_rear` `prop_diversions` variable
`.surv_juv_rear_total_diversions`	Coefficient for `surv_juv_rear` `total_diversions` variable
`..surv_juv_rear_total_diversions`	Calibrated coefficient for `surv_juv_rear` `total_diversions` variable
`..surv_juv_bypass_int`	Intercept for `surv_juv_bypass`
`..surv_juv_delta_int`	Intercept for `surv_juv_delta`
`.surv_juv_delta_contact_points`	Coefficient for `surv_juv_delta` contact_points variable
`..surv_juv_delta_contact_points`	Calibrated coefficient for `surv_juv_delta` contact_points variable
`.surv_juv_delta_total_diverted`	Coefficient for `surv_juv_delta` total_diversions variable
`..surv_juv_delta_total_diverted`	Calibrated coefficient for `surv_juv_delta` total_diversions variable
`.surv_juv_rear_avg_temp_thresh`	Coefficient for `surv_juv_rear` `avg_temp_thresh` variable
`.surv_juv_rear_high_predation`	Coefficient for `surv_juv_rear` `high_predation` variable
`.surv_juv_rear_stranded`	Coefficient for `surv_juv_rear` `stranded` variable
`.surv_juv_rear_medium`	Size related intercept for `surv_juv_rear` medium sized fish
`.surv_juv_rear_large`	Size related intercept for `surv_juv_rear` large sized fish
`.surv_juv_rear_floodplain`	Additional intercept for `surv_juv_rear` floodplain rearing benefit
`.surv_juv_bypass_avg_temp_thresh`	Coefficient for `surv_juv_bypass` `avg_temp_thresh` variable
`.surv_juv_bypass_high_predation`	Coefficient for `surv_juv_bypass` `high_predation` variable
`.surv_juv_bypass_medium`	Size related intercept for `surv_juv_bypass` medium sized fish
`.surv_juv_bypass_large`	Size related intercept for `surv_juv_bypass` large sized fish
`.surv_juv_bypass_floodplain`	Additional intercept for `surv_juv_bypass` floodplain rearing benefit
`.surv_juv_delta_avg_temp_thresh`	Coefficient for `surv_juv_delta` `avg_temp_thresh` variable
`.surv_juv_delta_high_predation`	Coefficient for `surv_juv_delta` `high_predation` variable
`.surv_juv_delta_prop_diverted`	Coefficient for `surv_juv_delta` `prop_diversions` variable
`.surv_juv_delta_medium`	Size related intercept for `surv_juv_delta` medium sized fish
`.surv_juv_delta_large`	Size related intercept for `surv_juv_delta` large sized fish
`min_survival_rate`	estimated survival rate if temperature threshold is exceeded
`stochastic`	`TRUE` `FALSE` value indicating if model is being run stochastically