data-raw/floodplain_inundation_thresholds/stanislaus_inundated.R

In FlowWest/cvpiaHabitat: Estimate Spawning and Rearing Habitat

library(tidyverse)
library(lubridate)
library(CDECRetrieve)
library(dataRetrieval)
library(cvpiaHabitat)

cvpiaHabitat::apply_suitability(
  cvpiaHabitat::square_meters_to_acres(
    cvpiaHabitat::set_floodplain_habitat(watershed = 'Stanislaus River', species = 'fr', flow = 2000)))

# STANISLAUS R A RIPON CA-------------------
stanislaus <- dataRetrieval::readNWISdv(siteNumbers = '11303000', parameterCd = '00060',
                                        startDate = '1980-01-01', endDate = '2000-12-31')

fp_threshold_flow <- cvpiaHabitat::stanislaus_river_floodplain$flow_cfs[which(cumsum(cvpiaHabitat::stanislaus_river_floodplain$FR_floodplain_acres != 0) == 1)]


stanislaus %>%
  select(date = Date, flow_cfs = X_00060_00003) %>%
  # group_by(year = year(date)) %>%
  # summarise(n())
  # arrange(desc(flow_cfs))
ggplot(aes(x = date, y = flow_cfs)) +
  geom_line()

days_inundated <- stanislaus %>%
  select(date = Date, flow_cfs = X_00060_00003) %>%
  mutate(fp_active = flow_cfs >= fp_threshold_flow) %>%
  group_by(year = year(date), month = month(date)) %>%
  summarise(days_inundated = sum(fp_active),
            monthly_mean_flow = mean(flow_cfs, na.rm = TRUE)) %>%
  mutate(fp_area_acres = cvpiaHabitat::apply_suitability(
    cvpiaHabitat::square_meters_to_acres(
      cvpiaHabitat::set_floodplain_habitat(watershed = 'Stanislaus River', species = 'fr', flow = monthly_mean_flow))))


days_inundated %>%
  filter(monthly_mean_flow > fp_threshold_flow) %>%
  # filter(days_inundated > 0) %>%
  ggplot(aes(x = monthly_mean_flow, y = days_inundated)) +
  geom_jitter(pch = 1, width = .2) +
  geom_vline(xintercept = fp_threshold_flow) +
  theme_minimal() +
  geom_hline(yintercept = 7) +
  geom_hline(yintercept = 14) +
  geom_hline(yintercept = 21) +
  geom_hline(yintercept = 28)
# geom_smooth(method = 'lm', se = FALSE)
# non linear
cor(days_inundated$days_inundated, days_inundated$monthly_mean_flow)

days_inundated %>%
  ungroup() %>%
  # filter(days_inundated > 0) %>%
  filter(monthly_mean_flow >= fp_threshold_flow) %>%
  pull(days_inundated) %>% summary()

# if deer has floodplain inundation it is usually for 4 weeks

data.frame(
  watershed = rep(c('Stanislaus River'), 5),
  weeks_inundated = 0:4,
  flow_threshhold = c(0, NA, NA, NA, 500)
) %>% write_rds('data-raw/floodplain_inundation_thresholds/stanislaus_river_inundated.rds')