Merge pull request #4 from mchevalier2/crestr-devel

Crestr devel
mchevalier2 · Dec 7, 2023 · a09ef2f · a09ef2f
2 parents b93fc51 + 809120a
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,6 +1,6 @@
 Package: crestr
 Title: A Probabilistic Approach to Reconstruct Past Climates Using Palaeoecological Datasets
-Version: 1.3.1
+Version: 1.3.0
 Authors@R:
     person(given = "Manuel",
            family = "Chevalier",
@@ -40,5 +40,5 @@ Depends:
     R (>= 2.10)
 Language: en-us
 VignetteBuilder: knitr
-URL: https://github.com/mchevalier2/crestr, https://mchevalier2.github.io/crestr/index.html
+URL: https://github.com/mchevalier2/crestr, https://www.manuelchevalier.com/crestr/index.html
 BugReports: https://github.com/mchevalier2/crestr/issues
diff --git a/NEWS.md b/NEWS.md
@@ -1,4 +1,4 @@
-# crestr 1.3.0.9000
+# crestr 1.3.0
 
 * The dependencies to `rgdal`, `sp` and `raster` were replaced to a single dependency to `terra` as these packages are being retired.
 * New functions and features:
@@ -14,6 +14,7 @@
     * The results can be plotted as anomalies.
     * Enabling to select samples by age in `plot.speciesCharacteristics()`
     * The correct filename extensions (.pdf or .png) is automatically in all plotting functions.
+    * Many visual improvements when exporting the plots to pdf or png.
 * Major issues:
     * Fixing a major stability issue regarding the connection test (does not impact any result derived from the package)
     * Reliance on an active internet connection has been significantly reduced.

diff --git a/README.Rmd b/README.Rmd
@@ -83,7 +83,7 @@ additional functionalities to incorporate to the package, please contact me at
 
 The package is fully documented and the help of each function can be accessed
 with `?function`. More detailed information as well as documented examples are
-available from **<https://mchevalier2.github.io/crestr/>**.
+available from **<https://www.manuelchevalier.com/crestr/>**.
 
 ### A Quick Example
 
@@ -120,7 +120,7 @@ Finally, unique sets of taxa can be specified to reconstruct each climate
 variable. In the example, *bio1* (mean annual temperature) and *bio12* (annual
 precipitation) will be reconstructed. The dataset has been designed so that
 Taxa 1, 2, 3 and 7 are sensitive to *bio1* while Taxa 1, 4, 5 and 7 are sensitive
-to *bio12*. Check <https://mchevalier2.github.io/crestr/articles/get-started.html>
+to *bio12*. Check <https://www.manuelchevalier.com/crestr/articles/get-started.html>
 for more details on this selection.
 
 ```{r data_preview_selection}

diff --git a/README.md b/README.md
@@ -78,7 +78,7 @@ contact me at <[email protected]> or open a discussion
 The package is fully documented and the help of each function can be
 accessed with `?function`. More detailed information as well as
 documented examples are available from
-**<https://mchevalier2.github.io/crestr/>**.
+**<https://www.manuelchevalier.com/crestr/>**.
 
 ### A Quick Example
 
@@ -141,7 +141,7 @@ climate variable. In the example, *bio1* (mean annual temperature) and
 *bio12* (annual precipitation) will be reconstructed. The dataset has
 been designed so that Taxa 1, 2, 3 and 7 are sensitive to *bio1* while
 Taxa 1, 4, 5 and 7 are sensitive to *bio12*. Check
-<https://mchevalier2.github.io/crestr/articles/get-started.html> for
+<https://www.manuelchevalier.com/crestr/articles/get-started.html> for
 more details on this selection.
 
 ``` r

diff --git a/crestr_1.3.1.pdf b/crestr_1.3.1.pdf
diff --git a/docs/404.html b/docs/404.html
diff --git a/docs/LICENSE-text.html b/docs/LICENSE-text.html
diff --git a/docs/LICENSE.html b/docs/LICENSE.html
diff --git a/docs/articles/calibration-data.html b/docs/articles/calibration-data.html
diff --git a/docs/articles/community.html b/docs/articles/community.html
diff --git a/docs/articles/databasing-with-crestr.html b/docs/articles/databasing-with-crestr.html
diff --git a/docs/articles/get-started.html b/docs/articles/get-started.html
diff --git a/docs/articles/get-started_files/figure-html/plot-1.png b/docs/articles/get-started_files/figure-html/plot-1.png
diff --git a/docs/articles/get-started_files/figure-html/plot-2.png b/docs/articles/get-started_files/figure-html/plot-2.png
diff --git a/docs/articles/get-started_files/figure-html/plot-plot_taxaCharacteristics-1.png b/docs/articles/get-started_files/figure-html/plot-plot_taxaCharacteristics-1.png
diff --git a/docs/articles/get-started_files/figure-html/plot-plot_taxaCharacteristics-2.png b/docs/articles/get-started_files/figure-html/plot-plot_taxaCharacteristics-2.png
diff --git a/docs/articles/get-started_files/figure-html/plot_climate_space-1.png b/docs/articles/get-started_files/figure-html/plot_climate_space-1.png
diff --git a/docs/articles/get-started_files/figure-html/plot_loo-1.png b/docs/articles/get-started_files/figure-html/plot_loo-1.png
diff --git a/docs/articles/index.html b/docs/articles/index.html
diff --git a/docs/articles/limpopo.html b/docs/articles/limpopo.html