some updates to data.

OHI-Science · Jan 16, 2025 · 147cc88 · 147cc88
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diff --git a/combining_pressures/pressure_locations.csv b/combining_pressures/pressure_locations.csv
diff --git a/habitats/habitat_n.tif b/habitats/habitat_n.tif
diff --git a/impact/data/country_coast_cumulative_impact.csv b/impact/data/country_coast_cumulative_impact.csv
diff --git a/impact/data/country_coast_impact.csv b/impact/data/country_coast_impact.csv
diff --git a/impact/data/country_coastal_cumulative_impact.csv b/impact/data/country_coastal_cumulative_impact.csv
diff --git a/impact/data/country_eez_cumulative_impact.csv b/impact/data/country_eez_cumulative_impact.csv
diff --git a/impact/data/country_eez_habxpressurexscenario_impact.csv b/impact/data/country_eez_habxpressurexscenario_impact.csv
diff --git a/impact/data/country_eez_impact.csv b/impact/data/country_eez_impact.csv
diff --git a/impact/data/dataS1.csv b/impact/data/dataS1.csv
diff --git a/impact/data/dataS2.csv b/impact/data/dataS2.csv
diff --git a/impact/data/dataS3.csv b/impact/data/dataS3.csv
diff --git a/impact/data/dataS4.csv b/impact/data/dataS4.csv
diff --git a/impact/figs/coastal_vs_offshore.png b/impact/figs/coastal_vs_offshore.png
diff --git a/impact/figs/coastal_vs_offshore_cumulative_impact.png b/impact/figs/coastal_vs_offshore_cumulative_impact.png
diff --git a/impact/figs/coastal_vs_offshore_cumulative_impact_ssp585.png b/impact/figs/coastal_vs_offshore_cumulative_impact_ssp585.png
diff --git a/impact/figs/coastal_vs_offshore_pressure_impact.png b/impact/figs/coastal_vs_offshore_pressure_impact.png
diff --git a/impact/figs/coastal_vs_offshore_pressure_impact_ssp585.png b/impact/figs/coastal_vs_offshore_pressure_impact_ssp585.png
diff --git a/impact/figs/coastal_vs_offshoret.png b/impact/figs/coastal_vs_offshoret.png
diff --git a/impact/figs/coastal_vs_offshoret_ssp585.png b/impact/figs/coastal_vs_offshoret_ssp585.png
diff --git a/impact/figs/cumulative/ssp245_current.png b/impact/figs/cumulative/ssp245_current.png
diff --git a/impact/figs/cumulative/ssp245_medium-term.png b/impact/figs/cumulative/ssp245_medium-term.png
diff --git a/impact/figs/cumulative/ssp245_near-term.png b/impact/figs/cumulative/ssp245_near-term.png
diff --git a/impact/figs/cumulative/ssp585_current.png b/impact/figs/cumulative/ssp585_current.png
diff --git a/impact/figs/cumulative/ssp585_medium-term.png b/impact/figs/cumulative/ssp585_medium-term.png
diff --git a/impact/figs/cumulative/ssp585_near-term.png b/impact/figs/cumulative/ssp585_near-term.png
diff --git a/impact/figs/cumulative/sspp245_change.png b/impact/figs/cumulative/sspp245_change.png
diff --git a/impact/figs/cumulative/sspp585_change.png b/impact/figs/cumulative/sspp585_change.png
diff --git a/impact/figs/current_depend_scatterplot.png b/impact/figs/current_depend_scatterplot.png
diff --git a/impact/figs/current_future_scatterplot.png b/impact/figs/current_future_scatterplot.png
diff --git a/impact/figs/georegion_pressure_cumulative_impact.png b/impact/figs/georegion_pressure_cumulative_impact.png
diff --git a/impact/figs/georegion_pressure_cumulative_impact_ssp585.png b/impact/figs/georegion_pressure_cumulative_impact_ssp585.png
diff --git a/impact/figs/habitat_impact_change_barplot.png b/impact/figs/habitat_impact_change_barplot.png
diff --git a/impact/figs/habitat_impact_change_barplot_ssp585.png b/impact/figs/habitat_impact_change_barplot_ssp585.png
diff --git a/impact/figs/habitat_impact_future_barplot.png b/impact/figs/habitat_impact_future_barplot.png
diff --git a/impact/figs/habitat_impact_future_barplot_ssp585.png b/impact/figs/habitat_impact_future_barplot_ssp585.png
diff --git a/impact/figs/habitat_pressure_cumulative_impact.png b/impact/figs/habitat_pressure_cumulative_impact.png
diff --git a/impact/figs/habitat_pressure_cumulative_impact_ssp585.png b/impact/figs/habitat_pressure_cumulative_impact_ssp585.png
diff --git a/impact/figs/hotspots.png b/impact/figs/hotspots.png
diff --git a/impact/figs/hotspots_ssp585.png b/impact/figs/hotspots_ssp585.png
diff --git a/impact/figs/latitudinal_impacts.png b/impact/figs/latitudinal_impacts.png
diff --git a/impact/figs/latitudinal_impacts_ssp585.png b/impact/figs/latitudinal_impacts_ssp585.png
diff --git a/impact/figs/subregion_impact_change_barplot.png b/impact/figs/subregion_impact_change_barplot.png
diff --git a/impact/figs/subregion_impact_change_barplot_ssp585.png b/impact/figs/subregion_impact_change_barplot_ssp585.png
diff --git a/impact/figs/subregion_impact_future_barplot.png b/impact/figs/subregion_impact_future_barplot.png
diff --git a/impact/figs/subregion_impact_future_barplot_ssp585.png b/impact/figs/subregion_impact_future_barplot_ssp585.png
diff --git a/combining_pressures/pressure_list.csv → impact/pressure_locations.csv b/combining_pressures/pressure_list.csv → impact/pressure_locations.csv
@@ -114,26 +114,26 @@ light_rescaled,ssp5,current,light-pollution,/home/shares/ohi/stressors_2021/_dat
 light_rescaled,ssp5,near-term,light-pollution,/home/shares/ohi/stressors_2021/_dataprep/light/rescale
 light_rescaled,ssp5,medium-term,light-pollution,/home/shares/ohi/stressors_2021/_dataprep/light/rescale
 light_rescaled,ssp5,long-term,light-pollution,/home/shares/ohi/stressors_2021/_dataprep/light/rescale
-fisheries,ssp1,current,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp1,near-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp1,medium-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp1,long-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp2,current,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp2,near-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp2,medium-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp2,long-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp3,current,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp3,near-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp3,medium-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp3,long-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp4,current,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp4,near-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp4,medium-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp4,long-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp5,current,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp5,near-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp5,medium-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
-fisheries,ssp5,long-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure
+fisheries,ssp1,current,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp1,near-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp1,medium-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp1,long-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp2,current,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp2,near-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp2,medium-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp2,long-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp3,current,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp3,near-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp3,medium-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp3,long-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp4,current,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp4,near-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp4,medium-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp4,long-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp5,current,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp5,near-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp5,medium-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
+fisheries,ssp5,long-term,fisheries-biomass-loss,/home/shares/ohi/stressors_2021/_dataprep/fisheries_biomass/pressure_mod2
 heat-index,ssp119,current,air-heat-index,/home/shares/ohi/stressors_2021/_dataprep/T_air/wb_heat_index/pressure_crop
 heat-index,ssp119,near-term,air-heat-index,/home/shares/ohi/stressors_2021/_dataprep/T_air/wb_heat_index/pressure_crop
 heat-index,ssp119,medium-term,air-heat-index,/home/shares/ohi/stressors_2021/_dataprep/T_air/wb_heat_index/pressure_crop

diff --git a/impact/step1_getting_pressure_files.Rmd b/impact/step1_getting_pressure_files.Rmd
@@ -0,0 +1,33 @@
+---
+title: "Untitled"
+output: html_document
+date: "2024-07-17"
+---
+
+```{r setup, include=FALSE}
+
+library(tidyverse)
+library(terra)
+library(here)
+library(countrycode)
+
+```
+
+Save final pressure files to consistent file location and adjust filenaming.
+```{r}
+
+pressure_save <- "/home/shares/ohi/stressors_2021/_final_data/rescaled_pressures"
+pressure_list <- read_csv(here("impact/pressure_locations.csv"))
+file.remove(list.files(pressure_save, full=TRUE))
+
+files_to_save <- paste0(pressure_list$f_path, "/", pressure_list$fn_pressure, "_",  pressure_list$fn_scenario, "_", pressure_list$fn_time, ".tif")
+files_new_loc <- paste0(pressure_save, "/", pressure_list$new_fn_pressure, "_", pressure_list$fn_scenario, "_", pressure_list$fn_time, ".tif")
+for (i in seq_along(files_to_save)) { # i = 178
+  file.copy(from = files_to_save[i], to = files_new_loc[i], overwrite = TRUE)
+}
+
+length(list.files(pressure_save)) # currently should be 227
+
+```
+
+