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Copy path09_pci_haralick_stats_2nd.R
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09_pci_haralick_stats_2nd.R
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library(hsdar)
library(foreach)
library(doParallel)
setwd("/media/sd19006/data/users/iotte/R-Server/hyperspectral/clean/2nd_sd_hara/pci_sd_08/")
filepath_raster <- "/media/sd19006/data/users/iotte/R-Server/hyperspectral/clean/2nd_sd_hara/pci_sd_08/"
# one plot aim: all plots
cl <- makeCluster(12)
registerDoParallel(cl)
# vegIndices raster files
fls_hps <- list.files(paste0(filepath_raster), full.names = FALSE,
recursive = FALSE, pattern = "*.tif")
fls_hps_stck <- foreach(i = seq(fls_hps), .packages = "raster") %dopar% {
stack(fls_hps[[i]])
}
#vegindex_names <- vegindex()
#veg <- rep(vegindex_names[c(4,68,87,89)], each = 29)
haralick <- c("smpl_energy", "smpl_entropy", "smpl_correlation", "smpl_inverse_difference_moment",
"smpl_inertia", "smpl_cluster_shade", "smpl_cluster_prominence", "smpl_haralick_correlation",
"adv_mean", "adv_variance", "adv_dissimilarity", "adv_sum_average", "adv_sum_variance",
"adv_sum_entropy", "adv_diff_entropies", "adv_diff_variances", "adv_IC1", "adv_IC2",
"hgr_short_run_emphasis", "hgr_long_run_emphasis", "hgr_grey_level_nonuniformity",
"hgr_run_length_nonuniformity", "hgr_run_percentage", "hgr_low_grey_level_run_emphasis",
"hgr_high_grey_level_run_emphasis", "hgr_short_run_low_grey_level_emphasis",
"hgr_short_run_high_grey_level_emphasis", "hgr_long_run_low_grey_level_emphasis",
"hgr_long_run_high_grey_level_emphasis")
### create colnames
# haralick 10
veg_hara_10_mean <- paste("08", haralick, 10, "mean", sep = "_") #veg
veg_hara_10_sd <- paste("08", haralick, 10, "sd", sep = "_")
veg_hara_10 <- sort(c(veg_hara_10_mean, veg_hara_10_sd))
# haralick 02
veg_hara_02_mean <- paste("08", haralick, 02, "mean", sep = "_")
veg_hara_02_sd <- paste("08", haralick, 02, "sd", sep = "_")
veg_hara_02 <- sort(c(veg_hara_02_mean, veg_hara_02_sd))
# haralick 10
veg_hara_05_mean <- paste("08", haralick, 05, "mean", sep = "_")
veg_hara_05_sd <- paste("08", haralick, 05, "sd", sep = "_")
veg_hara_05 <- sort(c(veg_hara_05_mean, veg_hara_05_sd))
# haralick 30
veg_hara_30_mean <- paste("08", haralick, 30, "mean", sep = "_")
veg_hara_30_sd <- paste("08", haralick, 30, "sd", sep = "_")
veg_hara_30 <- sort(c(veg_hara_30_mean, veg_hara_30_sd))
####
####
# fed1 - 02
fls_hps_1.1 <- fls_hps_stck[[1]]
vegIndex.Vars.fed1 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed1) <- veg_hara_02
vegIndex.Vars.fed1$plotID <- "fed1"
vegIndex.Vars.fed1 <- vegIndex.Vars.fed1[,c(59,1:58)]
# fed1 - 05
fls_hps_1.2 <- fls_hps_stck[[2]]
vegIndex.Vars.fed1.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed1.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.fed1, vegIndex.Vars.fed1.2)
# fed1 - 10
fls_hps_1.3 <- fls_hps_stck[[3]]
vegIndex.Vars.fed1.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed1.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.fed1.3)
# fed1 - 30
fls_hps_1.5 <- fls_hps_stck[[4]]
vegIndex.Vars.fed1.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed1.5) <- veg_hara_30
vegIndex.Vars.fed1 <- cbind(vegIndex.Vars.all, vegIndex.Vars.fed1.5)
##
# fed2 - 02
fls_hps_1.1 <- fls_hps_stck[[5]]
vegIndex.Vars.fed2 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed2) <- veg_hara_02
vegIndex.Vars.fed2$plotID <- "fed2"
vegIndex.Vars.fed2 <- vegIndex.Vars.fed2[,c(59,1:58)]
# fed2 - 05
fls_hps_1.2 <- fls_hps_stck[[6]]
vegIndex.Vars.fed2.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed2.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.fed2, vegIndex.Vars.fed2.2)
# fed2 - 10
fls_hps_1.3 <- fls_hps_stck[[7]]
vegIndex.Vars.fed2.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed2.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.fed2.3)
# fed2 - 30
fls_hps_1.5 <- fls_hps_stck[[8]]
vegIndex.Vars.fed2.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed2.5) <- veg_hara_30
vegIndex.Vars.fed2 <- cbind(vegIndex.Vars.all, vegIndex.Vars.fed2.5)
vegIndex.Vars <- rbind(vegIndex.Vars.fed1, vegIndex.Vars.fed2)
##
# fed3 - 02
fls_hps_1.1 <- fls_hps_stck[[9]]
vegIndex.Vars.fed3 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed3) <- veg_hara_02
vegIndex.Vars.fed3$plotID <- "fed3"
vegIndex.Vars.fed3 <- vegIndex.Vars.fed3[,c(59,1:58)]
# fed3 - 05
fls_hps_1.2 <- fls_hps_stck[[10]]
vegIndex.Vars.fed3.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed3.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.fed3, vegIndex.Vars.fed3.2)
# fed3 - 10
fls_hps_1.3 <- fls_hps_stck[[11]]
vegIndex.Vars.fed3.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed3.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.fed3.3)
# fed3 - 30
fls_hps_1.5 <- fls_hps_stck[[12]]
vegIndex.Vars.fed3.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed3.5) <- veg_hara_30
vegIndex.Vars.fed3 <- cbind(vegIndex.Vars.all, vegIndex.Vars.fed3.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.fed3)
##
# fed4 - 02
fls_hps_1.1 <- fls_hps_stck[[13]]
vegIndex.Vars.fed4 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed4) <- veg_hara_02
vegIndex.Vars.fed4$plotID <- "fed4"
vegIndex.Vars.fed4 <- vegIndex.Vars.fed4[,c(59, 1:58)]
# fed4 - 05
fls_hps_1.2 <- fls_hps_stck[[14]]
vegIndex.Vars.fed4.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed4.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.fed4, vegIndex.Vars.fed4.2)
# fed4 - 10
fls_hps_1.3 <- fls_hps_stck[[15]]
vegIndex.Vars.fed4.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed4.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.fed4.3)
# fed4 - 30
fls_hps_1.5 <- fls_hps_stck[[16]]
vegIndex.Vars.fed4.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed4.5) <- veg_hara_30
vegIndex.Vars.fed4 <- cbind(vegIndex.Vars.all, vegIndex.Vars.fed4.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.fed4)
##
# fed5 - 02
fls_hps_1.1 <- fls_hps_stck[[17]]
vegIndex.Vars.fed5 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed5) <- veg_hara_02
vegIndex.Vars.fed5$plotID <- "fed5"
vegIndex.Vars.fed5 <- vegIndex.Vars.fed5[,c(59,1:58)]
# fed5 - 05
fls_hps_1.2 <- fls_hps_stck[[18]]
vegIndex.Vars.fed5.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed5.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.fed5, vegIndex.Vars.fed5.2)
# fed5 - 10
fls_hps_1.3 <- fls_hps_stck[[19]]
vegIndex.Vars.fed5.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed5.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.fed5.3)
# fed5 - 30
fls_hps_1.5 <- fls_hps_stck[[20]]
vegIndex.Vars.fed5.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fed5.5) <- veg_hara_30
vegIndex.Vars.fed5 <- cbind(vegIndex.Vars.all, vegIndex.Vars.fed5.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.fed5)
##
# fer0 - 02
fls_hps_1.1 <- fls_hps_stck[[21]]
vegIndex.Vars.fer0 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer0) <- veg_hara_02
vegIndex.Vars.fer0$plotID <- "fer0"
vegIndex.Vars.fer0 <- vegIndex.Vars.fer0[,c(59,1:58)]
# fer0 - 05
fls_hps_1.2 <- fls_hps_stck[[22]]
vegIndex.Vars.fer0.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer0.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.fer0, vegIndex.Vars.fer0.2)
# fer0 - 10
fls_hps_1.3 <- fls_hps_stck[[23]]
vegIndex.Vars.fer0.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer0.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.fer0.3)
# fer0 - 30
fls_hps_1.5 <- fls_hps_stck[[24]]
vegIndex.Vars.fer0.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer0.5) <- veg_hara_30
vegIndex.Vars.fer0 <- cbind(vegIndex.Vars.all, vegIndex.Vars.fer0.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.fer0)
##
# fer2 - 02
fls_hps_1.1 <- fls_hps_stck[[25]]
vegIndex.Vars.fer2 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer2) <- veg_hara_02
vegIndex.Vars.fer2$plotID <- "fer2"
vegIndex.Vars.fer2 <- vegIndex.Vars.fer2[,c(59,1:58)]
# fer2 - 05
fls_hps_1.2 <- fls_hps_stck[[26]]
vegIndex.Vars.fer2.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer2.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.fer2, vegIndex.Vars.fer2.2)
# fer2 - 10
fls_hps_1.3 <- fls_hps_stck[[27]]
vegIndex.Vars.fer2.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer2.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.fer2.3)
# fer2 - 30
fls_hps_1.5 <- fls_hps_stck[[28]]
vegIndex.Vars.fer2.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer2.5) <- veg_hara_30
vegIndex.Vars.fer2 <- cbind(vegIndex.Vars.all, vegIndex.Vars.fer2.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.fer2)
##
# fer3 - 02
fls_hps_1.1 <- fls_hps_stck[[29]]
vegIndex.Vars.fer3 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer3) <- veg_hara_02
vegIndex.Vars.fer3$plotID <- "fer3"
vegIndex.Vars.fer3 <- vegIndex.Vars.fer3[,c(59,1:58)]
# fer3 - 05
fls_hps_1.2 <- fls_hps_stck[[30]]
vegIndex.Vars.fer3.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer3.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.fer3, vegIndex.Vars.fer3.2)
# fer3 - 10
fls_hps_1.3 <- fls_hps_stck[[31]]
vegIndex.Vars.fer3.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer3.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.fer3.3)
# fer3 - 30
fls_hps_1.5 <- fls_hps_stck[[32]]
vegIndex.Vars.fer3.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer3.5) <- veg_hara_30
vegIndex.Vars.fer3 <- cbind(vegIndex.Vars.all, vegIndex.Vars.fer3.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.fer3)
##
# fer4 - 02
fls_hps_1.1 <- fls_hps_stck[[33]]
vegIndex.Vars.fer4 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer4) <- veg_hara_02
vegIndex.Vars.fer4$plotID <- "fer4"
vegIndex.Vars.fer4 <- vegIndex.Vars.fer4[,c(59,1:58)]
# fer4 - 05
fls_hps_1.2 <- fls_hps_stck[[34]]
vegIndex.Vars.fer4.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer4.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.fer4, vegIndex.Vars.fer4.2)
# fer4 - 10
fls_hps_1.3 <- fls_hps_stck[[35]]
vegIndex.Vars.fer4.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer4.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.fer4.3)
# fer4 - 30
fls_hps_1.5 <- fls_hps_stck[[36]]
vegIndex.Vars.fer4.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fer4.5) <- veg_hara_30
vegIndex.Vars.fer4 <- cbind(vegIndex.Vars.all, vegIndex.Vars.fer4.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.fer4)
##
# foc0 - 02
fls_hps_1.1 <- fls_hps_stck[[37]]
vegIndex.Vars.foc0 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc0) <- veg_hara_02
vegIndex.Vars.foc0$plotID <- "foc0"
vegIndex.Vars.foc0 <- vegIndex.Vars.foc0[,c(59,1:58)]
# foc0 - 05
fls_hps_1.2 <- fls_hps_stck[[38]]
vegIndex.Vars.foc0.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc0.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.foc0, vegIndex.Vars.foc0.2)
# foc0 - 10
fls_hps_1.3 <- fls_hps_stck[[39]]
vegIndex.Vars.foc0.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc0.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc0.3)
# foc0 - 30
fls_hps_1.5 <- fls_hps_stck[[40]]
vegIndex.Vars.foc0.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc0.5) <- veg_hara_30
vegIndex.Vars.foc0 <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc0.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.foc0)
##
# foc1 - 02
fls_hps_1.1 <- fls_hps_stck[[41]]
vegIndex.Vars.foc1 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc1) <- veg_hara_02
vegIndex.Vars.foc1$plotID <- "foc1"
vegIndex.Vars.foc1 <- vegIndex.Vars.foc1[,c(59,1:58)]
# foc1 - 05
fls_hps_1.2 <- fls_hps_stck[[42]]
vegIndex.Vars.foc1.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc1.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.foc1, vegIndex.Vars.foc1.2)
# foc1 - 10
fls_hps_1.3 <- fls_hps_stck[[43]]
vegIndex.Vars.foc1.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc1.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc1.3)
# foc1 - 30
fls_hps_1.5 <- fls_hps_stck[[44]]
vegIndex.Vars.foc1.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc1.5) <- veg_hara_30
vegIndex.Vars.foc1 <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc1.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.foc1)
##
# foc2 - 02
fls_hps_1.1 <- fls_hps_stck[[45]]
vegIndex.Vars.foc2 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc2) <- veg_hara_02
vegIndex.Vars.foc2$plotID <- "foc2"
vegIndex.Vars.foc2 <- vegIndex.Vars.foc2[,c(59,1:58)]
# foc2 - 05
fls_hps_1.2 <- fls_hps_stck[[46]]
vegIndex.Vars.foc2.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc2.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.foc2, vegIndex.Vars.foc2.2)
# foc2 - 10
fls_hps_1.3 <- fls_hps_stck[[47]]
vegIndex.Vars.foc2.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc2.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc2.3)
# foc2 - 30
fls_hps_1.5 <- fls_hps_stck[[48]]
vegIndex.Vars.foc2.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc2.5) <- veg_hara_30
vegIndex.Vars.foc2 <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc2.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.foc2)
##
# foc3 - 02
fls_hps_1.1 <- fls_hps_stck[[49]]
vegIndex.Vars.foc3 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc3) <- veg_hara_02
vegIndex.Vars.foc3$plotID <- "foc3"
vegIndex.Vars.foc3 <- vegIndex.Vars.foc3[,c(59,1:58)]
# foc3 - 05
fls_hps_1.2 <- fls_hps_stck[[50]]
vegIndex.Vars.foc3.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc3.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.foc3, vegIndex.Vars.foc3.2)
# foc3 - 10
fls_hps_1.3 <- fls_hps_stck[[51]]
vegIndex.Vars.foc3.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc3.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc3.3)
# foc3 - 30
fls_hps_1.5 <- fls_hps_stck[[52]]
vegIndex.Vars.foc3.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc3.5) <- veg_hara_30
vegIndex.Vars.foc3 <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc3.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.foc3)
##
# foc4 - 02
fls_hps_1.1 <- fls_hps_stck[[53]]
vegIndex.Vars.foc4 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc4) <- veg_hara_02
vegIndex.Vars.foc4$plotID <- "foc4"
vegIndex.Vars.foc4 <- vegIndex.Vars.foc4[,c(59,1:58)]
# foc4 - 05
fls_hps_1.2 <- fls_hps_stck[[54]]
vegIndex.Vars.foc4.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc4.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.foc4, vegIndex.Vars.foc4.2)
# foc4 - 10
fls_hps_1.3 <- fls_hps_stck[[55]]
vegIndex.Vars.foc4.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc4.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc4.3)
# foc4 - 30
fls_hps_1.5 <- fls_hps_stck[[56]]
vegIndex.Vars.foc4.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc4.5) <- veg_hara_30
vegIndex.Vars.foc4 <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc4.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.foc4)
##
# foc5 - 02
fls_hps_1.1 <- fls_hps_stck[[57]]
vegIndex.Vars.foc5 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc5) <- veg_hara_02
vegIndex.Vars.foc5$plotID <- "foc5"
vegIndex.Vars.foc5 <- vegIndex.Vars.foc5[,c(59,1:58)]
# foc5 - 05
fls_hps_1.2 <- fls_hps_stck[[58]]
vegIndex.Vars.foc5.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc5.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.foc5, vegIndex.Vars.foc5.2)
# foc5 - 10
fls_hps_1.3 <- fls_hps_stck[[59]]
vegIndex.Vars.foc5.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc5.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc5.3)
# foc5 - 30
fls_hps_1.5 <- fls_hps_stck[[60]]
vegIndex.Vars.foc5.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc5.5) <- veg_hara_30
vegIndex.Vars.foc5 <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc5.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.foc5)
##
# foc6 - 02
fls_hps_1.1 <- fls_hps_stck[[61]]
vegIndex.Vars.foc6 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc6) <- veg_hara_02
vegIndex.Vars.foc6$plotID <- "foc6"
vegIndex.Vars.foc6 <- vegIndex.Vars.foc6[,c(59,1:58)]
# foc6 - 05
fls_hps_1.2 <- fls_hps_stck[[62]]
vegIndex.Vars.foc6.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc6.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.foc6, vegIndex.Vars.foc6.2)
# foc6 - 10
fls_hps_1.3 <- fls_hps_stck[[63]]
vegIndex.Vars.foc6.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc6.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc6.3)
# foc6 - 30
fls_hps_1.5 <- fls_hps_stck[[64]]
vegIndex.Vars.foc6.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.foc6.5) <- veg_hara_30
vegIndex.Vars.foc6 <- cbind(vegIndex.Vars.all, vegIndex.Vars.foc6.5)
vegIndex.Vars <- rbind(vegIndex.Vars, vegIndex.Vars.foc6)
##
# fod1 - 02
fls_hps_1.1 <- fls_hps_stck[[65]]
vegIndex.Vars.fod1 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fod1) <- veg_hara_02
vegIndex.Vars.fod1$plotID <- "fod1"
vegIndex.Vars.fod1 <- vegIndex.Vars.fod1[,c(59,1:58)]
# fod1 - 05
fls_hps_1.2 <- fls_hps_stck[[66]]
vegIndex.Vars.fod1.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fod1.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.fod1, vegIndex.Vars.fod1.2)
# fod1 - 10
fls_hps_1.3 <- fls_hps_stck[[67]]
vegIndex.Vars.fod1.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fod1.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.fod1.3)
# fod1 - 30
fls_hps_1.5 <- fls_hps_stck[[68]]
vegIndex.Vars.fod1.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fod1.5) <- veg_hara_30
vegIndex.Vars.fod1 <- cbind(vegIndex.Vars.all, vegIndex.Vars.fod1.5)
vegIndex.Vars <- rbind(vegIndex.Vars,vegIndex.Vars.fod1)
##
# fod2 - 02
fls_hps_1.1 <- fls_hps_stck[[69]]
vegIndex.Vars.fod2 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fod2) <- veg_hara_02
vegIndex.Vars.fod2$plotID <- "fod2"
vegIndex.Vars.fod2 <- vegIndex.Vars.fod2[,c(59,1:58)]
# fod2 - 05
fls_hps_1.2 <- fls_hps_stck[[70]]
vegIndex.Vars.fod2.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fod2.2) <- veg_hara_05
vegIndex.Vars.all <- cbind(vegIndex.Vars.fod2, vegIndex.Vars.fod2.2)
# fod2 - 10
fls_hps_1.3 <- fls_hps_stck[[71]]
vegIndex.Vars.fod2.3 <- foreach(i = 1:nlayers(fls_hps_1.3), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.3[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.3[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fod2.3) <- veg_hara_10
vegIndex.Vars.all <- cbind(vegIndex.Vars.all, vegIndex.Vars.fod2.3)
# fod2 - 30
fls_hps_1.5 <- fls_hps_stck[[72]]
vegIndex.Vars.fod2.5 <- foreach(i = 1:nlayers(fls_hps_1.5), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.5[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.5[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fod2.5) <- veg_hara_30
vegIndex.Vars.fod2 <- cbind(vegIndex.Vars.all, vegIndex.Vars.fod2.5)
vegIndex.Vars <- rbind(vegIndex.Vars,vegIndex.Vars.fod2)
##
# fod3 - 02
fls_hps_1.1 <- fls_hps_stck[[73]]
vegIndex.Vars.fod3 <- foreach(i = 1:nlayers(fls_hps_1.1), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.1[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.1[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices
colnames(vegIndex.Vars.fod3) <- veg_hara_02
vegIndex.Vars.fod3$plotID <- "fod3"
vegIndex.Vars.fod3 <- vegIndex.Vars.fod3[,c(59,1:58)]
# fod3 - 05
fls_hps_1.2 <- fls_hps_stck[[74]]
vegIndex.Vars.fod3.2 <- foreach(i = 1:nlayers(fls_hps_1.2), .packages = "raster",
.combine = "cbind") %dopar% {
mean <- mean(fls_hps_1.2[[i]][], na.rm = TRUE)
sd <- sd(fls_hps_1.2[[i]][], na.rm = TRUE)
data.frame(mean, sd)
}
# get names of vegIndices