differences for PR #883

datacarpentry · Apr 2, 2024 · 8d6bd19 · 8d6bd19
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diff --git a/00-before-we-start.md b/00-before-we-start.md
@@ -454,20 +454,20 @@ sessionInfo()
 #> [1] stats     graphics  grDevices utils     datasets  methods   base     
 #> 
 #> other attached packages:
-#>  [1] RSQLite_2.3.4   lubridate_1.9.3 forcats_1.0.0   stringr_1.5.1  
-#>  [5] dplyr_1.1.4     purrr_1.0.2     readr_2.1.4     tidyr_1.3.0    
-#>  [9] tibble_3.2.1    ggplot2_3.4.4   tidyverse_2.0.0 knitr_1.45     
+#>  [1] RSQLite_2.3.6   lubridate_1.9.3 forcats_1.0.0   stringr_1.5.1  
+#>  [5] dplyr_1.1.4     purrr_1.0.2     readr_2.1.5     tidyr_1.3.1    
+#>  [9] tibble_3.2.1    ggplot2_3.5.0   tidyverse_2.0.0 knitr_1.45     
 #> 
 #> loaded via a namespace (and not attached):
 #>  [1] bit_4.0.5        gtable_0.3.4     compiler_4.3.3   renv_1.0.5      
-#>  [5] highr_0.10       tidyselect_1.2.0 blob_1.2.4       scales_1.3.0    
+#>  [5] highr_0.10       tidyselect_1.2.1 blob_1.2.4       scales_1.3.0    
 #>  [9] fastmap_1.1.1    yaml_2.3.8       R6_2.5.1         generics_0.1.3  
-#> [13] munsell_0.5.0    DBI_1.2.0        pillar_1.9.0     tzdb_0.4.0      
-#> [17] rlang_1.1.2      utf8_1.2.4       cachem_1.0.8     stringi_1.8.3   
-#> [21] xfun_0.41        bit64_4.0.5      memoise_2.0.1    timechange_0.2.0
-#> [25] cli_3.6.2        withr_2.5.2      magrittr_2.0.3   grid_4.3.3      
+#> [13] munsell_0.5.1    DBI_1.2.2        pillar_1.9.0     tzdb_0.4.0      
+#> [17] rlang_1.1.3      utf8_1.2.4       cachem_1.0.8     stringi_1.8.3   
+#> [21] xfun_0.43        bit64_4.0.5      memoise_2.0.1    timechange_0.3.0
+#> [25] cli_3.6.2        withr_3.0.0      magrittr_2.0.3   grid_4.3.3      
 #> [29] hms_1.1.3        lifecycle_1.0.4  vctrs_0.6.5      evaluate_0.23   
-#> [33] glue_1.6.2       fansi_1.0.6      colorspace_2.1-0 tools_4.3.3     
+#> [33] glue_1.7.0       fansi_1.0.6      colorspace_2.1-0 tools_4.3.3     
 #> [37] pkgconfig_2.0.3
 ```
 

diff --git a/05-r-and-databases.md b/05-r-and-databases.md
@@ -132,7 +132,7 @@ src_dbi(mammals)
 ```
 
 ```{.output}
-#> src:  sqlite 3.44.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data_raw/portal_mammals.sqlite]
+#> src:  sqlite 3.45.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data_raw/portal_mammals.sqlite]
 #> tbls: plots, species, surveys
 ```
 
@@ -188,7 +188,7 @@ head(surveys, n = 10)
 
 ```{.output}
 #> # Source:   SQL [10 x 9]
-#> # Database: sqlite 3.44.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data_raw/portal_mammals.sqlite]
+#> # Database: sqlite 3.45.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data_raw/portal_mammals.sqlite]
 #>    record_id month   day  year plot_id species_id sex   hindfoot_length weight
 #>        <int> <int> <int> <int>   <int> <chr>      <chr>           <int>  <int>
 #>  1         1     7    16  1977       2 NL         M                  32     NA
@@ -295,7 +295,7 @@ surveys %>%
 
 ```{.output}
 #> # Source:   SQL [?? x 3]
-#> # Database: sqlite 3.44.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data_raw/portal_mammals.sqlite]
+#> # Database: sqlite 3.45.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data_raw/portal_mammals.sqlite]
 #>    species_id sex   weight
 #>    <chr>      <chr>  <int>
 #>  1 PF         M          4
@@ -359,7 +359,7 @@ data_subset %>%
 
 ```{.output}
 #> # Source:   SQL [?? x 2]
-#> # Database: sqlite 3.44.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data_raw/portal_mammals.sqlite]
+#> # Database: sqlite 3.45.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data_raw/portal_mammals.sqlite]
 #>    species_id weight
 #>    <chr>       <int>
 #>  1 PF              4
@@ -427,8 +427,8 @@ plots
 ```
 
 ```{.output}
-#> # Source:   table<plots> [?? x 2]
-#> # Database: sqlite 3.44.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data_raw/portal_mammals.sqlite]
+#> # Source:   table<`plots`> [?? x 2]
+#> # Database: sqlite 3.45.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data_raw/portal_mammals.sqlite]
 #>    plot_id plot_type                
 #>      <int> <chr>                    
 #>  1       1 Spectab exclosure        
@@ -452,8 +452,8 @@ surveys
 ```
 
 ```{.output}
-#> # Source:   table<surveys> [?? x 9]
-#> # Database: sqlite 3.44.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data_raw/portal_mammals.sqlite]
+#> # Source:   table<`surveys`> [?? x 9]
+#> # Database: sqlite 3.45.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data_raw/portal_mammals.sqlite]
 #>    record_id month   day  year plot_id species_id sex   hindfoot_length weight
 #>        <int> <int> <int> <int>   <int> <chr>      <chr>           <int>  <int>
 #>  1         1     7    16  1977       2 NL         M                  32     NA
@@ -723,7 +723,7 @@ my_db
 ```
 
 ```{.output}
-#> src:  sqlite 3.44.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data/portal-database-output.sqlite]
+#> src:  sqlite 3.45.2 [/home/runner/work/R-ecology-lesson/R-ecology-lesson/site/built/data/portal-database-output.sqlite]
 #> tbls:
 ```
 

diff --git a/config.yaml b/config.yaml
diff --git a/fig/04-visualization-ggplot2-rendered-average-weight-time-facet-both-1.png b/fig/04-visualization-ggplot2-rendered-average-weight-time-facet-both-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-average-weight-time-facet-sex-columns-1.png b/fig/04-visualization-ggplot2-rendered-average-weight-time-facet-sex-columns-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-average-weight-time-facet-sex-rows-1.png b/fig/04-visualization-ggplot2-rendered-average-weight-time-facet-sex-rows-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-boxplot-with-points-1.png b/fig/04-visualization-ggplot2-rendered-boxplot-with-points-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-color-by-species-1-1.png b/fig/04-visualization-ggplot2-rendered-color-by-species-1-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-facet-by-genus-and-sex-1.png b/fig/04-visualization-ggplot2-rendered-facet-by-genus-and-sex-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-integrating-the-pipe-1.png b/fig/04-visualization-ggplot2-rendered-integrating-the-pipe-1.png
diff --git a/...ization-ggplot2-rendered-number-species-year-with-right-labels-xfont-size-1.png b/...ization-ggplot2-rendered-number-species-year-with-right-labels-xfont-size-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-number-species-year-with-theme-1.png b/fig/04-visualization-ggplot2-rendered-number-species-year-with-theme-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-patchwork-example-1.png b/fig/04-visualization-ggplot2-rendered-patchwork-example-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-pipes-and-manipulation-1.png b/fig/04-visualization-ggplot2-rendered-pipes-and-manipulation-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-scatter-challenge-answer-1.png b/fig/04-visualization-ggplot2-rendered-scatter-challenge-answer-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-time-series-with-colors-1.png b/fig/04-visualization-ggplot2-rendered-time-series-with-colors-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-unnamed-chunk-10-1.png b/fig/04-visualization-ggplot2-rendered-unnamed-chunk-10-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-unnamed-chunk-11-1.png b/fig/04-visualization-ggplot2-rendered-unnamed-chunk-11-1.png
diff --git a/fig/04-visualization-ggplot2-rendered-unnamed-chunk-9-1.png b/fig/04-visualization-ggplot2-rendered-unnamed-chunk-9-1.png
diff --git a/md5sum.txt b/md5sum.txt
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