check sj spawning related params to see if we need to add proxy values

Reorienting-to-Recovery / DSMhabitat

https://reorienting-to-recovery.github.io/DSMhabitat/

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check sj spawning related params to see if we need to add proxy values #7

Closed ErinCain closed 1 year ago

ErinCain commented 1 year ago

Look through all spawning related params (eg. egg to fry survival parms, get spawning adult params) and if NA or 0 for any SJ values create a list that we can review and figure out what to use as a proxy.

MaddeeRubenson commented 1 year ago

Spawning Adults

fallRunDSM::params$prop_flow_natal
fallRunDSM::params$south_delta_routed_watersheds ??
fallRunDSM::params$cross_channel_stray_rate
fallRunDSM::params$stray_rate
fallRunDSM::params$tisdale_bypass_watershed ??
fallRunDSM::params$yolo_bypass_watershed ??
fallRunDSM::params$migratory_temperature_proportion_over_20
fallRunDSM::params$degree_days
fallRunDSM::params$prob_nest_scoured - currently 0.1, unsure if we want to modify
fallRunDSM::params$hatchery_allocation
fallRunDSM::params$natural_adult_removal_rate

Egg to Fry Survival

fallRunDSM::params$mean_egg_temp_effect

ErinCain commented 1 year ago

Reviewed and I think the ones we need to change are:

fallRunDSM::params$prop_flow_natal (calculate for upper sj)
fallRunDSM::params$south_delta_routed_watersheds (San Joaquin should change from 0 to 1)
fallRunDSM::params$cross_channel_stray_rate - can keep at 0.0
fallRunDSM::params$stray_rate (San Joaquin should change from 0 - .04)
fallRunDSM::params$migratory_temperature_proportion_over_20 (calculate for san joaquin)
fallRunDSM::params$degree_days (calculate for San Joaquin)
fallRunDSM::params$hatchery_allocation (TODO add in - ask Mark) - ask rene (0 might be okay)
fallRunDSM::params$natural_adult_removal_rate (TODO are fish removed? If so add in) - ask rene (0 might be okay)
fallRunDSM::params$mean_egg_temp_effect (TODO add in - ask Mark)

ErinCain commented 1 year ago

Only have to do for spring.

MaddeeRubenson commented 1 year ago

proportion_flow_natal - this is currently a value of 1 which I believe makes sense since it represents proportion flows at tributary junction and the tributary junction of the SJ is the SJ. I can't calculate for the Upper SJ because the flows remain the same.
springRunDSM::params$south_delta_routed_watersheds updated to DSMhabitat::spring_south_delta_routed_watersheds
kept cross_channel_stray_rate at 0
stray_rate updated to 0.03846154
changed migratory_temperature_proportion_over_20 to migratory_temperature_proportion_over_20_sr
degree_days changed to degree_days_sr in DSMtemperature

I don't remember what we decided for these, do you?:

springRunDSM::params$hatchery_allocation - keep at zero
springRunDSM::params$natural_adult_removal_rate - keep at zero
springRunDSM::params$mean_egg_temp_effect - update to be the same as the Tuolumne River.