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1_readData.R
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1_readData.R
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rm(list = ls())
setwd(dirname(rstudioapi::getSourceEditorContext()$path))
# Load LakeEnsemblR
library(LakeEnsemblR)
# Load libraries for post-processing
library(lubridate)
library(gotmtools)
library(ggplot2)
library(ggpubr)
lakes = c('mendota', 'monona')
for (lake.id in lakes){
bathy <- read.csv(paste0('numerical/',lake.id,'/3_scenarios/1_null/LakeEnsemblR_bathymetry_standard.csv'))
colnames(bathy) <- c("depths", "areas")
meteo <- read.csv(paste0('numerical/',lake.id,'/3_scenarios/1_null/LakeEnsemblR_meteo_standard.csv'))
wind <- data.frame('datetime' = meteo$datetime, 'wnd' = meteo$Ten_Meter_Elevation_Wind_Speed_meterPerSecond) %>%
group_by(date(datetime)) %>%
dplyr::summarise(mean = mean(wnd)) %>%
dplyr::rename(datetime = `date(datetime)`, wnd = mean)
wind$datetime <- as.POSIXct(wind$datetime)
ncdf_null <- paste0('numerical/',lake.id,'/3_scenarios/1_null/output/ensemble_output.nc')
wtr_null <- load_var(ncdf = ncdf_null, var = "temp")
density_null <- load_var(ncdf = ncdf_null, var = "dens")
salt_null <- load_var(ncdf = ncdf_null, var = "salt")
ice_null <- load_var(ncdf = ncdf_null, var = 'ice_height')
ncdf_01 <- paste0('numerical/',lake.id,'/3_scenarios/2_constantsalt/output/ensemble_output.nc')
wtr_01 <- load_var(ncdf = ncdf_01, var = "temp")
density_01 <- load_var(ncdf = ncdf_01, var = "dens")
salt_01 <- load_var(ncdf = ncdf_01, var = "salt")
ice_01 <- load_var(ncdf = ncdf_01, var = 'ice_height')
ncdf_05 <- paste0('numerical/',lake.id,'/3_scenarios/6_constantsalt+05/output/ensemble_output.nc')
wtr_05 <- load_var(ncdf = ncdf_05, var = "temp")
density_05 <- load_var(ncdf = ncdf_05, var = "dens")
salt_05 <- load_var(ncdf = ncdf_05, var = "salt")
ice_05 <- load_var(ncdf = ncdf_05, var = 'ice_height')
ncdf_1 <- paste0('numerical/',lake.id,'/3_scenarios/7_constantsalt+1/output/ensemble_output.nc')
wtr_1 <- load_var(ncdf = ncdf_1, var = "temp")
density_1 <- load_var(ncdf = ncdf_1, var = "dens")
salt_1 <- load_var(ncdf = ncdf_1, var = "salt")
ice_1 <- load_var(ncdf = ncdf_1, var = 'ice_height')
ncdf_15 <- paste0('numerical/',lake.id,'/3_scenarios/8_constantsalt+15/output/ensemble_output.nc')
wtr_15 <- load_var(ncdf = ncdf_15, var = "temp")
density_15 <- load_var(ncdf = ncdf_15, var = "dens")
salt_15 <- load_var(ncdf = ncdf_15, var = "salt")
ice_15 <- load_var(ncdf = ncdf_15, var = 'ice_height')
ncdf_2 <- paste0('numerical/',lake.id,'/3_scenarios/3_constantsalt+2/output/ensemble_output.nc')
wtr_2 <- load_var(ncdf = ncdf_2, var = "temp")
density_2 <- load_var(ncdf = ncdf_2, var = "dens")
salt_2 <- load_var(ncdf = ncdf_2, var = "salt")
ice_2 <- load_var(ncdf = ncdf_2, var = 'ice_height')
ncdf_5 <- paste0('numerical/',lake.id,'/3_scenarios/4_constantsalt+5/output/ensemble_output.nc')
wtr_5 <- load_var(ncdf = ncdf_5, var = "temp")
density_5 <- load_var(ncdf = ncdf_5, var = "dens")
salt_5 <- load_var(ncdf = ncdf_5, var = "salt")
ice_5 <- load_var(ncdf = ncdf_5, var = 'ice_height')
ncdf_10 <- paste0('numerical/',lake.id,'/3_scenarios/5_constantsalt+10/output/ensemble_output.nc')
wtr_10 <- load_var(ncdf = ncdf_10, var = "temp")
density_10 <- load_var(ncdf = ncdf_10, var = "dens")
salt_10 <- load_var(ncdf = ncdf_10, var = "salt")
ice_10 <- load_var(ncdf = ncdf_10, var = 'ice_height')
ncdf_25 <- paste0('numerical/',lake.id,'/3_scenarios/9_constantsalt+25/output/ensemble_output.nc')
wtr_25 <- load_var(ncdf = ncdf_25, var = "temp")
density_25 <- load_var(ncdf = ncdf_25, var = "dens")
salt_25 <- load_var(ncdf = ncdf_25, var = "salt")
ice_25 <- load_var(ncdf = ncdf_25, var = 'ice_height')
ncdf_3 <- paste0('numerical/',lake.id,'/3_scenarios/10_constantsalt+3/output/ensemble_output.nc')
wtr_3 <- load_var(ncdf = ncdf_3, var = "temp")
density_3 <- load_var(ncdf = ncdf_3, var = "dens")
salt_3 <- load_var(ncdf = ncdf_3, var = "salt")
ice_3 <- load_var(ncdf = ncdf_3, var = 'ice_height')
ncdf_35 <- paste0('numerical/',lake.id,'/3_scenarios/11_constantsalt+35/output/ensemble_output.nc')
wtr_35 <- load_var(ncdf = ncdf_35, var = "temp")
density_35 <- load_var(ncdf = ncdf_35, var = "dens")
salt_35 <- load_var(ncdf = ncdf_35, var = "salt")
ice_35 <- load_var(ncdf = ncdf_35, var = 'ice_height')
ncdf_4 <- paste0('numerical/',lake.id,'/3_scenarios/12_constantsalt+4/output/ensemble_output.nc')
wtr_4 <- load_var(ncdf = ncdf_4, var = "temp")
density_4 <- load_var(ncdf = ncdf_4, var = "dens")
salt_4 <- load_var(ncdf = ncdf_4, var = "salt")
ice_4 <- load_var(ncdf = ncdf_4, var = 'ice_height')
ncdf_45 <- paste0('numerical/',lake.id,'/3_scenarios/13_constantsalt+45/output/ensemble_output.nc')
wtr_45 <- load_var(ncdf = ncdf_45, var = "temp")
density_45 <- load_var(ncdf = ncdf_45, var = "dens")
salt_45 <- load_var(ncdf = ncdf_45, var = "salt")
ice_45 <- load_var(ncdf = ncdf_45, var = 'ice_height')
print(paste0('loaded all variables for ',lake.id))
if (match(lake.id, lakes) == 1){
df <- data.frame('datetime' = wtr_null$GLM$datetime,
'dens_null' = apply(cbind(density_null$GLM$wtr_20 - density_null$GLM$wtr_2,
density_null$GOTM$wtr_20 - density_null$GOTM$wtr_2,
density_null$Simstrat$wtr_20 - density_null$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'dens_01' = apply(cbind(density_01$GLM$wtr_20 - density_01$GLM$wtr_2,
density_01$GOTM$wtr_20 - density_01$GOTM$wtr_2,
density_01$Simstrat$wtr_20 - density_01$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'dens_05' = apply(cbind(density_05$GLM$wtr_20 - density_05$GLM$wtr_2,
density_05$GOTM$wtr_20 - density_05$GOTM$wtr_2,
density_05$Simstrat$wtr_20 - density_05$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'dens_1' = apply(cbind(density_1$GLM$wtr_20 - density_1$GLM$wtr_2,
density_1$GOTM$wtr_20 - density_1$GOTM$wtr_2,
density_1$Simstrat$wtr_20 - density_1$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'dens_15' = apply(cbind(density_15$GLM$wtr_20 - density_15$GLM$wtr_2,
density_15$GOTM$wtr_20 - density_15$GOTM$wtr_2,
density_15$Simstrat$wtr_20 - density_15$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'dens_2' = apply(cbind(density_2$GLM$wtr_20 - density_2$GLM$wtr_2,
density_2$GOTM$wtr_20 - density_2$GOTM$wtr_2,
density_2$Simstrat$wtr_20 - density_2$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'dens_25' = apply(cbind(density_25$GLM$wtr_20 - density_25$GLM$wtr_2,
density_25$GOTM$wtr_20 - density_25$GOTM$wtr_2,
density_25$Simstrat$wtr_20 - density_25$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'dens_3' = apply(cbind(density_3$GLM$wtr_20 - density_3$GLM$wtr_2,
density_3$GOTM$wtr_20 - density_3$GOTM$wtr_2,
density_3$Simstrat$wtr_20 - density_3$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'dens_35' = apply(cbind(density_35$GLM$wtr_20 - density_35$GLM$wtr_2,
density_35$GOTM$wtr_20 - density_35$GOTM$wtr_2,
density_35$Simstrat$wtr_20 - density_35$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'dens_4' = apply(cbind(density_4$GLM$wtr_20 - density_4$GLM$wtr_2,
density_4$GOTM$wtr_20 - density_4$GOTM$wtr_2,
density_4$Simstrat$wtr_20 - density_4$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'dens_45' = apply(cbind(density_45$GLM$wtr_20 - density_45$GLM$wtr_2,
density_45$GOTM$wtr_20 - density_45$GOTM$wtr_2,
density_45$Simstrat$wtr_20 - density_45$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'dens_5' = apply(cbind(density_5$GLM$wtr_20 - density_5$GLM$wtr_2,
density_5$GOTM$wtr_20 - density_5$GOTM$wtr_2,
density_5$Simstrat$wtr_20 - density_5$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'dens_10' = apply(cbind(density_10$GLM$wtr_20 - density_10$GLM$wtr_2,
density_10$GOTM$wtr_20 - density_10$GOTM$wtr_2,
density_10$Simstrat$wtr_20 - density_10$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE))
)
df$id = lake.id
df_wtr <- data.frame('datetime' = wtr_null$GLM$datetime,
'temp_null' = apply(cbind(wtr_null$GLM$wtr_20 - wtr_null$GLM$wtr_2,
wtr_null$GOTM$wtr_20 - wtr_null$GOTM$wtr_2,
wtr_null$Simstrat$wtr_20 - wtr_null$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'temp_01' = apply(cbind(wtr_01$GLM$wtr_20 - wtr_01$GLM$wtr_2,
wtr_01$GOTM$wtr_20 - wtr_01$GOTM$wtr_2,
wtr_01$Simstrat$wtr_20 - wtr_01$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'temp_05' = apply(cbind(wtr_05$GLM$wtr_20 - wtr_05$GLM$wtr_2,
wtr_05$GOTM$wtr_20 - wtr_05$GOTM$wtr_2,
wtr_05$Simstrat$wtr_20 - wtr_05$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'temp_1' = apply(cbind(wtr_1$GLM$wtr_20 - wtr_1$GLM$wtr_2,
wtr_1$GOTM$wtr_20 - wtr_1$GOTM$wtr_2,
wtr_1$Simstrat$wtr_20 - wtr_1$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'temp_15' = apply(cbind(wtr_15$GLM$wtr_20 - wtr_15$GLM$wtr_2,
wtr_15$GOTM$wtr_20 - wtr_15$GOTM$wtr_2,
wtr_15$Simstrat$wtr_20 - wtr_15$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'temp_2' = apply(cbind(wtr_2$GLM$wtr_20 - wtr_2$GLM$wtr_2,
wtr_2$GOTM$wtr_20 - wtr_2$GOTM$wtr_2,
wtr_2$Simstrat$wtr_20 - wtr_2$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'temp_25' = apply(cbind(wtr_25$GLM$wtr_20 - wtr_25$GLM$wtr_2,
wtr_25$GOTM$wtr_20 - wtr_25$GOTM$wtr_2,
wtr_25$Simstrat$wtr_20 - wtr_25$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'temp_3' = apply(cbind(wtr_3$GLM$wtr_20 - wtr_3$GLM$wtr_2,
wtr_3$GOTM$wtr_20 - wtr_3$GOTM$wtr_2,
wtr_3$Simstrat$wtr_20 - wtr_3$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'temp_35' = apply(cbind(wtr_35$GLM$wtr_20 - wtr_35$GLM$wtr_2,
wtr_35$GOTM$wtr_20 - wtr_35$GOTM$wtr_2,
wtr_35$Simstrat$wtr_20 - wtr_35$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'temp_4' = apply(cbind(wtr_4$GLM$wtr_20 - wtr_4$GLM$wtr_2,
wtr_4$GOTM$wtr_20 - wtr_4$GOTM$wtr_2,
wtr_4$Simstrat$wtr_20 - wtr_4$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'temp_45' = apply(cbind(wtr_45$GLM$wtr_20 - wtr_45$GLM$wtr_2,
wtr_45$GOTM$wtr_20 - wtr_45$GOTM$wtr_2,
wtr_45$Simstrat$wtr_20 - wtr_45$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'temp_5' = apply(cbind(wtr_5$GLM$wtr_20 - wtr_5$GLM$wtr_2,
wtr_5$GOTM$wtr_20 - wtr_5$GOTM$wtr_2,
wtr_5$Simstrat$wtr_20 - wtr_5$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'temp_10' = apply(cbind(wtr_10$GLM$wtr_20 - wtr_10$GLM$wtr_2,
wtr_10$GOTM$wtr_20 - wtr_10$GOTM$wtr_2,
wtr_10$Simstrat$wtr_20 - wtr_10$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE))
)
df_wtr$id = lake.id
df_salt <- data.frame('datetime' = salt_null$GLM$datetime,
'salt_null' = apply(cbind(salt_null$GLM$wtr_20 - salt_null$GLM$wtr_2,
salt_null$GOTM$wtr_20 - salt_null$GOTM$wtr_2,
salt_null$Simstrat$wtr_20 - salt_null$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'salt_01' = apply(cbind(salt_01$GLM$wtr_20 - salt_01$GLM$wtr_2,
salt_01$GOTM$wtr_20 - salt_01$GOTM$wtr_2,
salt_01$Simstrat$wtr_20 - salt_01$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'salt_05' = apply(cbind(salt_05$GLM$wtr_20 - salt_05$GLM$wtr_2,
salt_05$GOTM$wtr_20 - salt_05$GOTM$wtr_2,
salt_05$Simstrat$wtr_20 - salt_05$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'salt_1' = apply(cbind(salt_1$GLM$wtr_20 - salt_1$GLM$wtr_2,
salt_1$GOTM$wtr_20 - salt_1$GOTM$wtr_2,
salt_1$Simstrat$wtr_20 - salt_1$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'salt_15' = apply(cbind(salt_15$GLM$wtr_20 - salt_15$GLM$wtr_2,
salt_15$GOTM$wtr_20 - salt_15$GOTM$wtr_2,
salt_15$Simstrat$wtr_20 - salt_15$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'salt_2' = apply(cbind(salt_2$GLM$wtr_20 - salt_2$GLM$wtr_2,
salt_2$GOTM$wtr_20 - salt_2$GOTM$wtr_2,
salt_2$Simstrat$wtr_20 - salt_2$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'salt_25' = apply(cbind(salt_25$GLM$wtr_20 - salt_25$GLM$wtr_2,
salt_25$GOTM$wtr_20 - salt_25$GOTM$wtr_2,
salt_25$Simstrat$wtr_20 - salt_25$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'salt_3' = apply(cbind(salt_3$GLM$wtr_20 - salt_3$GLM$wtr_2,
salt_3$GOTM$wtr_20 - salt_3$GOTM$wtr_2,
salt_3$Simstrat$wtr_20 - salt_3$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'salt_35' = apply(cbind(salt_35$GLM$wtr_20 - salt_35$GLM$wtr_2,
salt_35$GOTM$wtr_20 - salt_35$GOTM$wtr_2,
salt_35$Simstrat$wtr_20 - salt_35$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'salt_4' = apply(cbind(salt_4$GLM$wtr_20 - salt_4$GLM$wtr_2,
salt_4$GOTM$wtr_20 - salt_4$GOTM$wtr_2,
salt_4$Simstrat$wtr_20 - salt_4$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'salt_45' = apply(cbind(salt_45$GLM$wtr_20 - salt_45$GLM$wtr_2,
salt_45$GOTM$wtr_20 - salt_45$GOTM$wtr_2,
salt_45$Simstrat$wtr_20 - salt_45$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'salt_5' = apply(cbind(salt_5$GLM$wtr_20 - salt_5$GLM$wtr_2,
salt_5$GOTM$wtr_20 - salt_5$GOTM$wtr_2,
salt_5$Simstrat$wtr_20 - salt_5$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE)),
'salt_10' = apply(cbind(salt_10$GLM$wtr_20 - salt_10$GLM$wtr_2,
salt_10$GOTM$wtr_20 - salt_10$GOTM$wtr_2,
salt_10$Simstrat$wtr_20 - salt_10$Simstrat$wtr_2), 1, function(x) mean(x, na.rm = TRUE))
)
df_salt$id = lake.id
df_ice<- data.frame('datetime' = ice_null$GLM$time,
'ice_null' = apply(cbind(ice_null$GLM$ice_height,ice_null$GOTM$ice_height,ice_null$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE)),
'ice_01' = apply(cbind(ice_01$GLM$ice_height,ice_01$GOTM$ice_height,ice_01$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE)),
'ice_05' = apply(cbind(ice_05$GLM$ice_height,ice_05$GOTM$ice_height,ice_05$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE)),
'ice_1' = apply(cbind(ice_1$GLM$ice_height,ice_1$GOTM$ice_height,ice_1$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE)),
'ice_15' = apply(cbind(ice_15$GLM$ice_height,ice_15$GOTM$ice_height,ice_15$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE)),
'ice_2' = apply(cbind(ice_2$GLM$ice_height,ice_2$GOTM$ice_height,ice_2$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE)),
'ice_25' = apply(cbind(ice_25$GLM$ice_height,ice_25$GOTM$ice_height,ice_25$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE)),
'ice_3' = apply(cbind(ice_3$GLM$ice_height,ice_3$GOTM$ice_height,ice_3$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE)),
'ice_35' = apply(cbind(ice_35$GLM$ice_height,ice_35$GOTM$ice_height,ice_35$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE)),
'ice_4' = apply(cbind(ice_4$GLM$ice_height,ice_4$GOTM$ice_height,ice_4$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE)),
'ice_45' = apply(cbind(ice_45$GLM$ice_height,ice_45$GOTM$ice_height,ice_45$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE)),
'ice_5' = apply(cbind(ice_5$GLM$ice_height,ice_5$GOTM$ice_height,ice_5$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE)),
'ice_10' = apply(cbind(ice_10$GLM$ice_height,ice_10$GOTM$ice_height,ice_10$Simstrat$ice_height), 1, function(x) mean(x, na.rm = TRUE))
)
df_ice$id = lake.id
df_ssi <- data.frame('datetime' = wtr_null$GLM$datetime,
'ssi_null' = apply(cbind(
lapply(wtr_null, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_null, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_null, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE)),
'ssi_01' = apply(cbind(
lapply(wtr_01, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_01, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_01, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE)),
'ssi_05' = apply(cbind(
lapply(wtr_05, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_05, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_05, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE)),
'ssi_1' =apply(cbind(
lapply(wtr_1, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_1, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_1, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE)),
'ssi_15' = apply(cbind(
lapply(wtr_15, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_15, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_15, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE)),
'ssi_2' = apply(cbind(
lapply(wtr_2, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_2, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_2, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE)),
'ssi_25' = apply(cbind(
lapply(wtr_25, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_25, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_25, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE)),
'ssi_3' = apply(cbind(
lapply(wtr_3, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_3, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_3, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE)),
'ssi_35' = apply(cbind(
lapply(wtr_35, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_35, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_35, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE)),
'ssi_4' = apply(cbind(
lapply(wtr_4, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_4, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_4, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE)),
'ssi_45' = apply(cbind(
lapply(wtr_45, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_45, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_45, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE)),
'ssi_5' = apply(cbind(
lapply(wtr_5, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_5, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_5, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE)),
'ssi_10' = apply(cbind(
lapply(wtr_10, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
lapply(wtr_10, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
lapply(wtr_10, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability),
1, function(x) mean(x, na.rm = TRUE))
)
df_ssi$id = lake.id
df_ln <- data.frame('datetime' = wtr_null$GLM$datetime,
'ln_null' = apply(cbind(
lapply(wtr_null, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_null, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_null, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE)),
'ln_01' = apply(cbind(
lapply(wtr_01, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_01, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_01, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE)),
'ln_05' = apply(cbind(
lapply(wtr_05, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_05, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_05, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE)),
'ln_1' = apply(cbind(
lapply(wtr_1, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_1, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_1, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE)),
'ln_15' = apply(cbind(
lapply(wtr_15, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_15, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_15, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE)),
'ln_2' = apply(cbind(
lapply(wtr_2, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_2, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_2, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE)),
'ln_25' = apply(cbind(
lapply(wtr_25, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_25, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_25, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE)),
'ln_3' = apply(cbind(
lapply(wtr_3, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_3, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_3, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE)),
'ln_35' = apply(cbind(
lapply(wtr_35, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_35, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_35, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE)),
'ln_4' = apply(cbind(
lapply(wtr_4, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_4, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_4, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE)),
'ln_45' = apply(cbind(
lapply(wtr_45, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_45, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_45, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE)),
'ln_5' = apply(cbind(
lapply(wtr_5, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_5, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_5, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE)),
'ln_10' = apply(cbind(
lapply(wtr_10, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
lapply(wtr_10, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
lapply(wtr_10, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number),
1, function(x) mean(x, na.rm = TRUE))
)
df_ln$id = lake.id
print(paste0('calculated all scenario variables for ',lake.id))
df_GLM <- data.frame('datetime' = wtr_null$GLM$datetime,
'dens_null_GLM' = density_null$GLM$wtr_20 - density_null$GLM$wtr_2,
'dens_01_GLM' = density_01$GLM$wtr_20 - density_01$GLM$wtr_2,
'dens_05_GLM' = density_05$GLM$wtr_20 - density_05$GLM$wtr_2,
'dens_1_GLM' = density_1$GLM$wtr_20 - density_1$GLM$wtr_2,
'dens_15_GLM' = density_15$GLM$wtr_20 - density_15$GLM$wtr_2,
'dens_2_GLM' = density_2$GLM$wtr_20 - density_2$GLM$wtr_2,
'dens_25_GLM' = density_25$GLM$wtr_20 - density_25$GLM$wtr_2,
'dens_3_GLM' = density_3$GLM$wtr_20 - density_3$GLM$wtr_2,
'dens_35_GLM' = density_35$GLM$wtr_20 - density_35$GLM$wtr_2,
'dens_4_GLM' = density_4$GLM$wtr_20 - density_4$GLM$wtr_2,
'dens_45_GLM' = density_45$GLM$wtr_20 - density_45$GLM$wtr_2,
'dens_5_GLM' = density_5$GLM$wtr_20 - density_5$GLM$wtr_2,
'dens_10_GLM' = density_10$GLM$wtr_20 - density_10$GLM$wtr_2
)
df_GLM$id = lake.id
df_wtr_GLM <- data.frame('datetime' = wtr_null$GLM$datetime,
'temp_null_GLM' = wtr_null$GLM$wtr_20 - wtr_null$GLM$wtr_2,
'temp_01_GLM' = wtr_01$GLM$wtr_20 - wtr_01$GLM$wtr_2,
'temp_05_GLM' = wtr_05$GLM$wtr_20 - wtr_05$GLM$wtr_2,
'temp_1_GLM' = wtr_1$GLM$wtr_20 - wtr_1$GLM$wtr_2,
'temp_15_GLM' = wtr_15$GLM$wtr_20 - wtr_15$GLM$wtr_2,
'temp_2_GLM' = wtr_2$GLM$wtr_20 - wtr_2$GLM$wtr_2,
'temp_25_GLM' = wtr_25$GLM$wtr_20 - wtr_25$GLM$wtr_2,
'temp_3_GLM' = wtr_3$GLM$wtr_20 - wtr_3$GLM$wtr_2,
'temp_35_GLM' = wtr_35$GLM$wtr_20 - wtr_35$GLM$wtr_2,
'temp_4_GLM' = wtr_4$GLM$wtr_20 - wtr_4$GLM$wtr_2,
'temp_45_GLM' = wtr_45$GLM$wtr_20 - wtr_45$GLM$wtr_2,
'temp_5_GLM' = wtr_5$GLM$wtr_20 - wtr_5$GLM$wtr_2,
'temp_10_GLM' = wtr_10$GLM$wtr_20 - wtr_10$GLM$wtr_2
)
df_wtr_GLM$id = lake.id
df_ice_GLM<- data.frame('datetime' = ice_null$GLM$time,
'ice_null_GLM' = ice_null$GLM$ice_height,
'ice_01_GLM' = ice_01$GLM$ice_height,
'ice_05_GLM' = ice_05$GLM$ice_height,
'ice_1_GLM' = ice_1$GLM$ice_height,
'ice_15_GLM' = ice_15$GLM$ice_height,
'ice_2_GLM' = ice_2$GLM$ice_height,
'ice_25_GLM' = ice_25$GLM$ice_height,
'ice_3_GLM' = ice_3$GLM$ice_height,
'ice_35_GLM' = ice_35$GLM$ice_height,
'ice_4_GLM' = ice_4$GLM$ice_height,
'ice_45_GLM' = ice_45$GLM$ice_height,
'ice_5_GLM' = ice_5$GLM$ice_height,
'ice_10_GLM' = ice_10$GLM$ice_height
)
df_ice_GLM$id = lake.id
df_ssi_GLM <- data.frame('datetime' = wtr_null$GLM$datetime,
'ssi_null_GLM' =
lapply(wtr_null, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
'ssi_01_GLM' =
lapply(wtr_01, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
'ssi_05_GLM' =
lapply(wtr_05, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
'ssi_1_GLM' =
lapply(wtr_1, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
'ssi_15_GLM' =
lapply(wtr_15, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
'ssi_2_GLM' =
lapply(wtr_2, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
'ssi_25_GLM' =
lapply(wtr_25, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
'ssi_3_GLM' =
lapply(wtr_3, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
'ssi_35_GLM' =
lapply(wtr_35, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
'ssi_4_GLM' =
lapply(wtr_4, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
'ssi_45_GLM' =
lapply(wtr_45, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
'ssi_5_GLM' =
lapply(wtr_5, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability,
'ssi_10_GLM' =
lapply(wtr_10, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GLM$schmidt.stability
)
df_ssi_GLM$id = lake.id
for (i in 2:ncol(wtr_null$GLM)){
if(any(is.na(wtr_null$GLM[-c(1),i]))){
dummy_null = wtr_null
dummy_null$GLM = wtr_null$GLM[,1:(i-1)]
dummy_01 = wtr_01
dummy_01$GLM = wtr_01$GLM[,1:(i-1)]
dummy_05 = wtr_05
dummy_05$GLM = wtr_05$GLM[,1:(i-1)]
dummy_1 = wtr_1
dummy_1$GLM = wtr_1$GLM[,1:(i-1)]
dummy_15 = wtr_15
dummy_15$GLM = wtr_15$GLM[,1:(i-1)]
dummy_2 = wtr_2
dummy_2$GLM = wtr_2$GLM[,1:(i-1)]
dummy_25 = wtr_25
dummy_25$GLM = wtr_25$GLM[,1:(i-1)]
dummy_3 = wtr_3
dummy_3$GLM = wtr_3$GLM[,1:(i-1)]
dummy_35 = wtr_35
dummy_35$GLM = wtr_35$GLM[,1:(i-1)]
dummy_4 = wtr_4
dummy_4$GLM = wtr_4$GLM[,1:(i-1)]
dummy_45 = wtr_45
dummy_45$GLM = wtr_45$GLM[,1:(i-1)]
dummy_5 = wtr_5
dummy_5$GLM = wtr_5$GLM[,1:(i-1)]
dummy_10 = wtr_10
dummy_10$GLM = wtr_10$GLM[,1:(i-1)]
break
}
}
df_ln_GLM <- data.frame('datetime' = dummy_null$GLM$datetime,
'ln_null_GLM' =
lapply(dummy_null, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
'ln_01_GLM' =
lapply(dummy_01, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
'ln_05_GLM' =
lapply(dummy_05, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
'ln_1_GLM' =
lapply(dummy_1, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
'ln_15_GLM' =
lapply(dummy_15, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
'ln_2_GLM' =
lapply(dummy_2, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
'ln_25_GLM' =
lapply(dummy_25, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
'ln_3_GLM' =
lapply(dummy_3, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
'ln_35_GLM' =
lapply(dummy_35, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
'ln_4_GLM' =
lapply(dummy_4, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
'ln_45_GLM' =
lapply(dummy_45, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
'ln_5_GLM' =
lapply(dummy_5, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number,
'ln_10_GLM' =
lapply(dummy_10, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GLM$lake.number
)
df_ln_GLM$id = lake.id
print(paste0('calculated all GLM variables for ',lake.id))
df_GOTM <- data.frame('datetime' = wtr_null$GOTM$datetime,
'dens_null_GOTM' = density_null$GOTM$wtr_20 - density_null$GOTM$wtr_2,
'dens_01_GOTM' = density_01$GOTM$wtr_20 - density_01$GOTM$wtr_2,
'dens_05_GOTM' = density_05$GOTM$wtr_20 - density_05$GOTM$wtr_2,
'dens_1_GOTM' = density_1$GOTM$wtr_20 - density_1$GOTM$wtr_2,
'dens_15_GOTM' = density_15$GOTM$wtr_20 - density_15$GOTM$wtr_2,
'dens_2_GOTM' = density_2$GOTM$wtr_20 - density_2$GOTM$wtr_2,
'dens_25_GOTM' = density_25$GOTM$wtr_20 - density_25$GOTM$wtr_2,
'dens_3_GOTM' = density_3$GOTM$wtr_20 - density_3$GOTM$wtr_2,
'dens_35_GOTM' = density_35$GOTM$wtr_20 - density_35$GOTM$wtr_2,
'dens_4_GOTM' = density_4$GOTM$wtr_20 - density_4$GOTM$wtr_2,
'dens_45_GOTM' = density_45$GOTM$wtr_20 - density_45$GOTM$wtr_2,
'dens_5_GOTM' = density_5$GOTM$wtr_20 - density_5$GOTM$wtr_2,
'dens_10_GOTM' = density_10$GOTM$wtr_20 - density_10$GOTM$wtr_2
)
df_GOTM$id = lake.id
df_wtr_GOTM <- data.frame('datetime' = wtr_null$GOTM$datetime,
'temp_null_GOTM' = wtr_null$GOTM$wtr_20 - wtr_null$GOTM$wtr_2,
'temp_01_GOTM' = wtr_01$GOTM$wtr_20 - wtr_01$GOTM$wtr_2,
'temp_05_GOTM' = wtr_05$GOTM$wtr_20 - wtr_05$GOTM$wtr_2,
'temp_1_GOTM' = wtr_1$GOTM$wtr_20 - wtr_1$GOTM$wtr_2,
'temp_15_GOTM' = wtr_15$GOTM$wtr_20 - wtr_15$GOTM$wtr_2,
'temp_2_GOTM' = wtr_2$GOTM$wtr_20 - wtr_2$GOTM$wtr_2,
'temp_25_GOTM' = wtr_25$GOTM$wtr_20 - wtr_25$GOTM$wtr_2,
'temp_3_GOTM' = wtr_3$GOTM$wtr_20 - wtr_3$GOTM$wtr_2,
'temp_35_GOTM' = wtr_35$GOTM$wtr_20 - wtr_35$GOTM$wtr_2,
'temp_4_GOTM' = wtr_4$GOTM$wtr_20 - wtr_4$GOTM$wtr_2,
'temp_45_GOTM' = wtr_45$GOTM$wtr_20 - wtr_45$GOTM$wtr_2,
'temp_5_GOTM' = wtr_5$GOTM$wtr_20 - wtr_5$GOTM$wtr_2,
'temp_10_GOTM' = wtr_10$GOTM$wtr_20 - wtr_10$GOTM$wtr_2
)
df_wtr_GOTM$id = lake.id
df_ice_GOTM<- data.frame('datetime' = ice_null$GOTM$time,
'ice_null_GOTM' = ice_null$GOTM$ice_height,
'ice_01_GOTM' = ice_01$GOTM$ice_height,
'ice_05_GOTM' = ice_05$GOTM$ice_height,
'ice_1_GOTM' = ice_1$GOTM$ice_height,
'ice_15_GOTM' = ice_15$GOTM$ice_height,
'ice_2_GOTM' = ice_2$GOTM$ice_height,
'ice_25_GOTM' = ice_25$GOTM$ice_height,
'ice_3_GOTM' = ice_3$GOTM$ice_height,
'ice_35_GOTM' = ice_35$GOTM$ice_height,
'ice_4_GOTM' = ice_4$GOTM$ice_height,
'ice_45_GOTM' = ice_45$GOTM$ice_height,
'ice_5_GOTM' = ice_5$GOTM$ice_height,
'ice_10_GOTM' = ice_10$GOTM$ice_height
)
df_ice_GOTM$id = lake.id
df_ssi_GOTM <- data.frame('datetime' = wtr_null$GOTM$datetime,
'ssi_null_GOTM' =
lapply(wtr_null, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
'ssi_01_GOTM' =
lapply(wtr_01, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
'ssi_05_GOTM' =
lapply(wtr_05, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
'ssi_1_GOTM' =
lapply(wtr_1, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
'ssi_15_GOTM' =
lapply(wtr_15, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
'ssi_2_GOTM' =
lapply(wtr_2, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
'ssi_25_GOTM' =
lapply(wtr_25, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
'ssi_3_GOTM' =
lapply(wtr_3, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
'ssi_35_GOTM' =
lapply(wtr_35, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
'ssi_4_GOTM' =
lapply(wtr_4, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
'ssi_45_GOTM' =
lapply(wtr_45, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
'ssi_5_GOTM' =
lapply(wtr_5, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability,
'ssi_10_GOTM' =
lapply(wtr_10, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$GOTM$schmidt.stability
)
df_ssi_GOTM$id = lake.id
df_ln_GOTM <- data.frame('datetime' = wtr_null$GOTM$datetime,
'ln_null_GOTM' =
lapply(wtr_null, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
'ln_01_GOTM' =
lapply(wtr_01, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
'ln_05_GOTM' =
lapply(wtr_05, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
'ln_1_GOTM' =
lapply(wtr_1, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
'ln_15_GOTM' =
lapply(wtr_15, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
'ln_2_GOTM' =
lapply(wtr_2, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
'ln_25_GOTM' =
lapply(wtr_25, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
'ln_3_GOTM' =
lapply(wtr_3, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
'ln_35_GOTM' =
lapply(wtr_35, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
'ln_4_GOTM' =
lapply(wtr_4, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
'ln_45_GOTM' =
lapply(wtr_45, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
'ln_5_GOTM' =
lapply(wtr_5, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number,
'ln_10_GOTM' =
lapply(wtr_10, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$GOTM$lake.number
)
df_ln_GOTM$id = lake.id
print(paste0('calculated all GOTM variables for ',lake.id))
df_Simstrat <- data.frame('datetime' = wtr_null$Simstrat$datetime,
'dens_null_Simstrat' = density_null$Simstrat$wtr_20 - density_null$Simstrat$wtr_2,
'dens_01_Simstrat' = density_01$Simstrat$wtr_20 - density_01$Simstrat$wtr_2,
'dens_05_Simstrat' = density_05$Simstrat$wtr_20 - density_05$Simstrat$wtr_2,
'dens_1_Simstrat' = density_1$Simstrat$wtr_20 - density_1$Simstrat$wtr_2,
'dens_15_Simstrat' = density_15$Simstrat$wtr_20 - density_15$Simstrat$wtr_2,
'dens_2_Simstrat' = density_2$Simstrat$wtr_20 - density_2$Simstrat$wtr_2,
'dens_25_Simstrat' = density_25$Simstrat$wtr_20 - density_25$Simstrat$wtr_2,
'dens_3_Simstrat' = density_3$Simstrat$wtr_20 - density_3$Simstrat$wtr_2,
'dens_35_Simstrat' = density_35$Simstrat$wtr_20 - density_35$Simstrat$wtr_2,
'dens_4_Simstrat' = density_4$Simstrat$wtr_20 - density_4$Simstrat$wtr_2,
'dens_45_Simstrat' = density_45$Simstrat$wtr_20 - density_45$Simstrat$wtr_2,
'dens_5_Simstrat' = density_5$Simstrat$wtr_20 - density_5$Simstrat$wtr_2,
'dens_10_Simstrat' = density_10$Simstrat$wtr_20 - density_10$Simstrat$wtr_2
)
df_Simstrat$id = lake.id
df_wtr_Simstrat <- data.frame('datetime' = wtr_null$Simstrat$datetime,
'temp_null_Simstrat' = wtr_null$Simstrat$wtr_20 - wtr_null$Simstrat$wtr_2,
'temp_01_Simstrat' = wtr_01$Simstrat$wtr_20 - wtr_01$Simstrat$wtr_2,
'temp_05_Simstrat' = wtr_05$Simstrat$wtr_20 - wtr_05$Simstrat$wtr_2,
'temp_1_Simstrat' = wtr_1$Simstrat$wtr_20 - wtr_1$Simstrat$wtr_2,
'temp_15_Simstrat' = wtr_15$Simstrat$wtr_20 - wtr_15$Simstrat$wtr_2,
'temp_2_Simstrat' = wtr_2$Simstrat$wtr_20 - wtr_2$Simstrat$wtr_2,
'temp_25_Simstrat' = wtr_25$Simstrat$wtr_20 - wtr_25$Simstrat$wtr_2,
'temp_3_Simstrat' = wtr_3$Simstrat$wtr_20 - wtr_3$Simstrat$wtr_2,
'temp_35_Simstrat' = wtr_35$Simstrat$wtr_20 - wtr_35$Simstrat$wtr_2,
'temp_4_Simstrat' = wtr_4$Simstrat$wtr_20 - wtr_4$Simstrat$wtr_2,
'temp_45_Simstrat' = wtr_45$Simstrat$wtr_20 - wtr_45$Simstrat$wtr_2,
'temp_5_Simstrat' = wtr_5$Simstrat$wtr_20 - wtr_5$Simstrat$wtr_2,
'temp_10_Simstrat' = wtr_10$Simstrat$wtr_20 - wtr_10$Simstrat$wtr_2
)
df_wtr_Simstrat$id = lake.id
df_ice_Simstrat<- data.frame('datetime' = ice_null$Simstrat$time,
'ice_null_Simstrat' = ice_null$Simstrat$ice_height,
'ice_01_Simstrat' = ice_01$Simstrat$ice_height,
'ice_05_Simstrat' = ice_05$Simstrat$ice_height,
'ice_1_Simstrat' = ice_1$Simstrat$ice_height,
'ice_15_Simstrat' = ice_15$Simstrat$ice_height,
'ice_2_Simstrat' = ice_2$Simstrat$ice_height,
'ice_25_Simstrat' = ice_25$Simstrat$ice_height,
'ice_3_Simstrat' = ice_3$Simstrat$ice_height,
'ice_35_Simstrat' = ice_35$Simstrat$ice_height,
'ice_4_Simstrat' = ice_4$Simstrat$ice_height,
'ice_45_Simstrat' = ice_45$Simstrat$ice_height,
'ice_5_Simstrat' = ice_5$Simstrat$ice_height,
'ice_10_Simstrat' = ice_10$Simstrat$ice_height
)
df_ice_Simstrat$id = lake.id
df_ssi_Simstrat <- data.frame('datetime' = wtr_null$Simstrat$datetime,
'ssi_null_Simstrat' =
lapply(wtr_null, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability,
'ssi_01_Simstrat' =
lapply(wtr_01, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability,
'ssi_05_Simstrat' =
lapply(wtr_05, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability,
'ssi_1_Simstrat' =
lapply(wtr_1, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability,
'ssi_15_Simstrat' =
lapply(wtr_15, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability,
'ssi_2_Simstrat' =
lapply(wtr_2, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability,
'ssi_25_Simstrat' =
lapply(wtr_25, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability,
'ssi_3_Simstrat' =
lapply(wtr_3, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability,
'ssi_35_Simstrat' =
lapply(wtr_35, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability,
'ssi_4_Simstrat' =
lapply(wtr_4, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability,
'ssi_45_Simstrat' =
lapply(wtr_45, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability,
'ssi_5_Simstrat' =
lapply(wtr_5, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability,
'ssi_10_Simstrat' =
lapply(wtr_10, function(x) {
ts.schmidt.stability(x, bathy = bathy, na.rm = TRUE)
})$Simstrat$schmidt.stability
)
df_ssi_Simstrat$id = lake.id
df_ln_Simstrat <- data.frame('datetime' = wtr_null$Simstrat$datetime,
'ln_null_Simstrat' =
lapply(wtr_null, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number,
'ln_01_Simstrat' =
lapply(wtr_01, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number,
'ln_05_Simstrat' =
lapply(wtr_05, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number,
'ln_1_Simstrat' =
lapply(wtr_1, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number,
'ln_15_Simstrat' =
lapply(wtr_15, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number,
'ln_2_Simstrat' =
lapply(wtr_2, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number,
'ln_25_Simstrat' =
lapply(wtr_25, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number,
'ln_3_Simstrat' =
lapply(wtr_3, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number,
'ln_35_Simstrat' =
lapply(wtr_35, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number,
'ln_4_Simstrat' =
lapply(wtr_4, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number,
'ln_45_Simstrat' =
lapply(wtr_45, function(x) {ts.lake.number(wtr = x, wnd = wind, wnd.height = 10, bathy = bathy)})$Simstrat$lake.number,