Figs for all files in indicator_objects work!

Gulf-IEA · Mar 8, 2024 · 8ae582a · 8ae582a
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commit 8ae582a
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Showing 2 changed files with 53 additions and 22 deletions.
diff --git a/Report_book_files/Performance_indicators.qmd b/Report_book_files/Performance_indicators.qmd
@@ -19,6 +19,21 @@ Indicator 16
 
 Indicator 17
 
+```{r, message = FALSE, warnings = FALSE}
+load("../indicator_objects/landings.RData")
+plotIndicatorTimeSeries(inddata, coltoplot = 1:6, trendAnalysis = T, sublabel = T)
+```
+
+```{r, message = FALSE, warnings = FALSE}
+load("../indicator_objects/total_landings.RData")
+plotIndicatorTimeSeries(inddata, coltoplot = 1:9, trendAnalysis = T, sublabel = T)
+```
+
+```{r}
+load("../indicator_objects/fish_density.RData")
+plotIndicatorTimeSeries(inddata, coltoplot = 1:3, plotrownum = 2, trendAnalysis = T, sublabel = T)
+```
+
 ### Maximum length and size structure
 
 Indicator 18
@@ -62,7 +77,7 @@ Indicator 26
 
 ```{r}
 load("../indicator_objects/gini.RData")
-plotIndicatorTimeSeries(inddata, coltoplot = 1:2, plotrownum = 2, trendAnalysis = T, sublabel = T)
+plotIndicatorTimeSeries(inddata, coltoplot = 1:3, plotrownum = 2, trendAnalysis = T, sublabel = T)
 ```
 
 ### Commercial fishing community engegement and reliance
@@ -75,6 +90,11 @@ Indicator 27
 
 Indicator 28
 
+```{r, message = FALSE, warnings = FALSE}
+load("../indicator_objects/total_rec_catch.RData")
+plotIndicatorTimeSeries(inddata, coltoplot = 1:2, trendAnalysis = T, sublabel = T)
+```
+
 ### Commercial fishing engagement and participation
 
 Indicator 29
@@ -107,7 +127,12 @@ Indicator 34
 
 ```{r, message = FALSE, warnings = FALSE}
 load("../indicator_objects/NCRMP_coral_cover_richness.RData")
-plotIndicatorTimeSeries(inddata, trendAnalysis = F)
+plotIndicatorTimeSeries(inddata, coltoplot = 1:6, sublabel = T, trendAnalysis = F)
+```
+
+```{r, message = FALSE, warnings = FALSE}
+load("../indicator_objects/coral_spprichness_cover.RData")
+plotIndicatorTimeSeries(inddata, coltoplot = 1:4, sublabel = T, trendAnalysis = T)
 ```
 
 ### Coral species diversity

diff --git a/Report_book_files/Risk_indicators.qmd b/Report_book_files/Risk_indicators.qmd
@@ -11,7 +11,10 @@ library(spam)
 
 Indicator 1
 
-DegreeHeatingWeeks.RData doesn't work. Think it's an issue with the date column. Also called ind not inddata.
+```{r, message = FALSE, warnings = FALSE}
+load("../indicator_objects/DegreeHeatingWeeks.RData")
+plotIndicatorTimeSeries(ind, coltoplot = 1:2, trendAnalysis = T, sublabel = T, dateformat = "%Y%m", plotrownum = 2, plotcolnum = 1)
+```
 
 ### Ocean acidification via aragonite saturation state
 
@@ -35,18 +38,19 @@ plotIndicatorTimeSeries(ind, trendAnalysis = T)
 
 Indicator 4
 
-turbidity.RData doesn't work. Again looks like an issue with the date.
-
 ```{r, message = FALSE, warnings = FALSE}
 load("../indicator_objects/turbidity.RData")
-plotIndicatorTimeSeries(ind, coltoplot = 1:3, plotrownum = 2, trendAnalysis = T)
+plotIndicatorTimeSeries(ind, coltoplot = 1:3, plotrownum = 2, trendAnalysis = T, dateformat = "%m-%Y", sublabel = T)
 ```
 
 ### Sea surface temperature
 
 Indicator 5
 
-No RData file for SST
+```{r, message = FALSE, warnings = FALSE}
+load("../indicator_objects/Carib_SST.RData")
+plotIndicatorTimeSeries(ind, coltoplot = 1:3, trendAnalysis = T, sublabel = T, dateformat = "%m-%Y")
+```
 
 
 ### Marine debris
@@ -71,11 +75,9 @@ Indicator 7
 
 Indicator 8
 
-carib_Chl.RData doesn't work. Another issue with the date.
-
 ```{r, message = FALSE, warnings = FALSE}
 load("../indicator_objects/carib_Chl.RData")
-plotIndicatorTimeSeries(ind, trendAnalysis = F)
+plotIndicatorTimeSeries(ind, trendAnalysis = T, dateformat = "%m-%Y")
 ```
 
 ### Coastal development via land cover
@@ -104,25 +106,29 @@ plotIndicatorTimeSeries(inddata, coltoplot = 1:3, trendAnalysis = T, sublabel =
 
 Indicator 12
 
-doesn't work
-
-load("indicator_objects/Sargassum.RData") 
-plotIndicatorTimeSeries(inddata, coltoplot = 1:2, plotrownum = 2, trendAnalysis = F, sublabel = T) 
+```{r, message = FALSE, warnings = FALSE}
+load("../indicator_objects/Sargassum.RData")
+plotIndicatorTimeSeries(inddata, trendAnalysis = T)
+```
 
-load("indicator_objects/sargassum_innundation_monthly_mean_hu.RData")
-plotIndicatorTimeSeries(inddata, coltoplot = 1:2, plotrownum = 2, trendAnalysis = F, sublabel = T)
+```{r, message = FALSE, warnings = FALSE}
+load("../indicator_objects/sargassum_innundation_monthly_mean_hu.RData")
+plotIndicatorTimeSeries(inddata, coltoplot = 1:3, sublabel = T, trendAnalysis = T, dateformat = "%Y%b")
+```
 
 ### Tourism via hotel occupancy
 
 Indicator 13
 
-doesn't work 
-
-load("indicator_objects/hotel_occupancy_rates_USVI_and_PR.RData")
-plotIndicatorTimeSeries(inddata, trendAnalysis = F) 
+```{r, message = FALSE, warnings = FALSE}
+load("../indicator_objects/hotel_occupancy_rates_USVI_and_PR.RData")
+plotIndicatorTimeSeries(inddata, coltoplot = 1:2, sublabel = T, trendAnalysis = T, dateformat = "%Y%b")
+```
+```{r, message = FALSE, warnings = FALSE}
+load("../indicator_objects/hotel_occupancy.RData")
+plotIndicatorTimeSeries(inddata, coltoplot = 1:2, sublabel = T, trendAnalysis = T, dateformat = "%Y%b")
+```
 
-load("indicator_objects/hotel_occupancy.RData") 
-plotIndicatorTimeSeries(inddata, trendAnalysis = F) 
 
 ### Population density