diff --git a/62_soil_maps_visualize_dyn.R b/62_soil_maps_visualize_dyn.R
index 8c30706cb112de1604094d484510d376d8c21e7d..cb75873efdddd1a218671cfa799f8f7dd430d8ce 100644
--- a/62_soil_maps_visualize_dyn.R
+++ b/62_soil_maps_visualize_dyn.R
@@ -1,19 +1,21 @@
#------------------------------------------------------------------------------
# Name: 62_soil_maps_visualize_dyn.R
#
-# Content: - Load stack of predicted target soil property rasters and visualize:
-# - Maps of mean and median predictions of first (1953) & last (2022)
-# prediction year at each standard GSM depth
-# - Differences (delta TARGET) in mean and median predictions,
-# respectively, between last and first year
-# - Maps of PI90 of first (1953) & last (2022) prediction year at
-# each standard GSM depth
-# - Images (png) of each year of each standard GSM depth layer
-# - GIF animation of predictions at one GSM depth layer over all years
+# Content: Load stack of predicted target soil property rasters and visualize:
+# - Maps of mean and median predictions of first (1953) & last (2022)
+# prediction year at each standard GSM depth
+# - Differences (delta TARGET) in mean and median predictions,
+# respectively, between last and first year
+# - Maps of PI90 of first (1953) & last (2022) prediction year at
+# each standard GSM depth
+# - Images (png) of each year of each standard GSM depth layer
+# - GIF animation of predictions at one GSM depth layer over all years
#
-# Inputs: - out/maps/target/[TARGET]/dynamic/GeoTIFFs/
+# Inputs: out/maps/target/[TARGET]/dynamic/GeoTIFFs/
#
-# Output: - out/maps/target/[TARGET]/dynamic/pdf_png_gif/
+# Output: out/maps/target/[TARGET]/dynamic/pdf_png_gif/
+#
+# Runtime: 20 min
#
# Project BIS-4D Masterclass
# Author: Anatol Helfenstein
@@ -382,37 +384,32 @@ dev.off()
### Maps of one depth layer for all years (GIF animation) ----------------------
# specify which depth GIF should be created for (i.e. 1-6th depth layer)
-D_MID_GIF = D_MID[5]
-D_MID_GIF_CAPTION = "60-100cm"
-
-# median predictions for one depth layer
-r_stack_pred50 <- foreach(i = 1:length(YEARS)) %do% {
- ls_r_stack_pred[[i]][[grep(paste0(D_MID_GIF, "_QRF_pred50"), ls_v_names_pred[[i]])]]
-} %>%
- stack(.)
-
-# set color breaks and colors
-v_lim = c(0, 1, 2.5, 5, 10, 25, 100) #set breaks
-COLOR = hcl.colors(n = length(v_lim - 1), palette = "YlOrBr", rev = TRUE)
-
-# read in img for plot legend
-png_legend <- readPNG("img/SOM_QGIS_legend.png")
-
-# set up parallel backend to use multiple cores
-cores <- detectCores()
-cl <- makeCluster(round(cores/3)) # to avoid RAM issues
-registerDoParallel(cl)
-
-system.time(
- foreach(i = 1:length(YEARS), .packages = c("raster")) %dopar% {
+D_MID_GIF_CAPTION = c("0-5cm", "5-15cm", "15-30cm", "30-60cm", "60-100cm", "100-200cm")
+
+# GIF animation for each GSM depth layer
+for(d in 1:length(D_MID)) {
+ # median predictions for one depth layer
+ r_stack_pred50 <- foreach(i = 1:length(YEARS)) %do% {
+ ls_r_stack_pred[[i]][[grep(paste0(D_MID[d], "_QRF_pred50"), ls_v_names_pred[[i]])]]
+ } %>%
+ stack(.)
+
+ # set color breaks and colors
+ v_lim = c(0, 1, 2.5, 5, 10, 25, 100) #set breaks
+ COLOR = hcl.colors(n = length(v_lim - 1), palette = "YlOrBr", rev = TRUE)
+
+ # read in img for plot legend
+ png_legend <- readPNG("img/SOM_QGIS_legend.png")
+
+ foreach(i = 1:length(YEARS), .packages = c("raster")) %do% {
# set PNG graphics specifications
- png(paste0("out/maps/target/", TARGET, "/dynamic/pdf_png_gif/time_series/", D_MID_GIF,
- "/m_", TARGET, OBS_QUAL, "_", YEARS[i], "_pred50_", D_MID_GIF, ".png"),
- width = ncol(r_stack_pred50)/12,
- height = nrow(r_stack_pred50)/12)
+ png(paste0("out/maps/target/", TARGET, "/dynamic/pdf_png_gif/time_series/", D_MID[d],
+ "/m_", TARGET, OBS_QUAL, "_", YEARS[i], "_pred50_", D_MID[d], ".png"),
+ width = 900,
+ height = 1042)
# plot map
plot(r_stack_pred50[[i]],
- maxpixels = ncell(r_stack_pred50)/12,
+ maxpixels = 11250000,
breaks = v_lim, col = COLOR, axes = FALSE, box = FALSE, legend = FALSE)
# add scalebar
scalebar(d = 100000, type = "bar", divs = 4, below = "km",
@@ -424,25 +421,22 @@ system.time(
YEARS[i], cex = 3)
# add title of QGIS legend colorscale
text(xmin(r_stack_pred50) + 50000, ymax(r_stack_pred50) - 20000,
- paste0("SOM [%] at ", D_MID_GIF_CAPTION, " depth"), cex = 1.75)
+ paste0("SOM [%] at ", D_MID_GIF_CAPTION[d], " depth"), cex = 1.75)
# add QGIS legend colorscale
rasterImage(png_legend,
xmin(r_stack_pred50) + 5000, ymax(r_stack_pred50) - 90000,
xmin(r_stack_pred50) + 60000, ymax(r_stack_pred50) - 25000)
dev.off() # write to disk
}
-) # time elapse; parallel: 4 min
-
-# stop parallel backend
-stopCluster(cl)
-
-# use linux bash to convert pngs to gif video animation file
-# argument delay indicates time per image; 100 = 1 second
-if(.Platform$OS.type == "unix"){
- system(paste0('convert -delay 50 -loop 0 out/maps/target/', TARGET, '/',
- TIME_DIR, '/pdf_png_gif/time_series/', D_MID_GIF,
- '/*.png out/maps/target/', TARGET, '/', TIME_DIR,
- '/pdf_png_gif/time_series/m_SOM_per_pred50_', D_MID_GIF, '.gif'))
+
+ # use linux bash to convert pngs to gif video animation file
+ # argument delay indicates time per image; 100 = 1 second
+ if(.Platform$OS.type == "unix"){
+ system(paste0('convert -delay 50 -loop 0 out/maps/target/', TARGET, '/',
+ TIME_DIR, '/pdf_png_gif/time_series/', D_MID[d],
+ '/*.png out/maps/target/', TARGET, '/', TIME_DIR,
+ '/pdf_png_gif/time_series/m_SOM_per_pred50_', D_MID[d], '.gif'))
+ }
}
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